Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 54 of 143
Found at i:17475761 original size:14 final size:15
Alignment explanation
Indices: 17475736--17475766 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
17475726 GAAGAGAAAT
17475736 GAAAAAGAAAAAAGA
1 GAAAAAGAAAAAAGA
17475751 GAAAAAG-AAAAAGA
1 GAAAAAGAAAAAAGA
17475765 GA
1 GA
17475767 GCATATGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAAAAGA
Found at i:17483310 original size:31 final size:31
Alignment explanation
Indices: 17483272--17483337 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
17483262 AGGACAAAAT
*
17483272 ATTTCAATCTGATTTTATTCCAATCAAATTG
1 ATTTCAATCTGATTTGATTCCAATCAAATTG
* *
17483303 ATTTCAATTTGATTTGATTCTAATCAAATTG
1 ATTTCAATCTGATTTGATTCCAATCAAATTG
17483334 ATTT
1 ATTT
17483338 AAAGGTCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (31 bp):
ATTTCAATCTGATTTGATTCCAATCAAATTG
Found at i:17485186 original size:27 final size:27
Alignment explanation
Indices: 17485132--17485187 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
17485122 CTAGAATGCT
* *
17485132 TATGCTAGAATATTTGCTAGACTGTAA
1 TATGCTAGAATATTTACTAGACTATAA
* *
17485159 TATGCTAGGATATTTACTAGATTATAA
1 TATGCTAGAATATTTACTAGACTATAA
17485186 TA
1 TA
17485188 GGGGGATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (27 bp):
TATGCTAGAATATTTACTAGACTATAA
Found at i:17486538 original size:43 final size:43
Alignment explanation
Indices: 17486490--17486572 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
17486480 AAACCAAACC
*
17486490 AAATTTGAGATGCTGA-TTCGAAGATAGAGTTCAACTTGTAACG
1 AAATTTGAGATGCT-ACTTCAAAGATAGAGTTCAACTTGTAACG
* **
17486533 AAATTTGAGATGCTACTTCAAAGATGGAGTTTGACTTGTA
1 AAATTTGAGATGCTACTTCAAAGATAGAGTTCAACTTGTA
17486573 TCGGTTAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (43 bp):
AAATTTGAGATGCTACTTCAAAGATAGAGTTCAACTTGTAACG
Found at i:17492228 original size:9 final size:9
Alignment explanation
Indices: 17492214--17492301 Score: 59
Period size: 9 Copynumber: 10.6 Consensus size: 9
17492204 GTAAATTATT
17492214 TTAAAATTA
1 TTAAAATTA
17492223 TTAAAATTA
1 TTAAAATTA
17492232 TT----TT-
1 TTAAAATTA
*
17492236 TTTAAA-TA
1 TTAAAATTA
17492244 -TAAAATTA
1 TTAAAATTA
*
17492252 TTAATATTA
1 TTAAAATTA
* *
17492261 TTATATATTTT
1 TTA-A-AATTA
17492272 TTAAAA-TA
1 TTAAAATTA
17492280 -TAAAATTA
1 TTAAAATTA
17492288 TTAAAATTA
1 TTAAAATTA
17492297 TTAAA
1 TTAAA
17492302 TAATTTTAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 22
0.68 0.08 0.24
Matches are distributed among these distances:
4 2 0.03
5 2 0.03
7 10 0.16
8 5 0.08
9 35 0.57
10 2 0.03
11 5 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TTAAAATTA
Found at i:17492229 original size:20 final size:20
Alignment explanation
Indices: 17492206--17492310 Score: 77
Period size: 20 Copynumber: 5.6 Consensus size: 20
17492196 CCATATCAGT
17492206 AAATTATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
*
17492226 AAATTATTTTTTTAAA-TA-TA
1 AAATTA--TTTTAAAATTATTA
*
17492246 AAATTA--TTAATATTATTA
1 AAATTATTTTAAAATTATTA
*
17492264 TATATT-TTTTAAAA-TA-TA
1 -AAATTATTTTAAAATTATTA
17492282 AAATTA--TTAAAATTATT-
1 AAATTATTTTAAAATTATTA
*
17492299 AAATAATTTTAA
1 AAATTATTTTAA
17492311 TTTTCAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 25
0.67 0.07 0.26
Matches are distributed among these distances:
16 10 0.15
17 13 0.20
18 5 0.08
19 10 0.15
20 19 0.29
21 2 0.03
22 7 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:17492279 original size:36 final size:36
Alignment explanation
Indices: 17492214--17492308 Score: 136
Period size: 36 Copynumber: 2.6 Consensus size: 36
17492204 GTAAATTATT
*
17492214 TTAAAATTATTAAAATTATTTTTTTAAATATAAAATTA
1 TTAAAATTATT-AAA-TATTTTTTAAAATATAAAATTA
* *
17492252 TTAATATTATTATATATTTTTTAAAATATAAAATTA
1 TTAAAATTATTAAATATTTTTTAAAATATAAAATTA
*
17492288 TTAAAATTATTAAATAATTTT
1 TTAAAATTATTAAATATTTTT
17492309 AATTTTCAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
36 39 0.76
37 2 0.04
38 10 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (36 bp):
TTAAAATTATTAAATATTTTTTAAAATATAAAATTA
Found at i:17492460 original size:46 final size:47
Alignment explanation
Indices: 17492371--17492476 Score: 196
Period size: 46 Copynumber: 2.3 Consensus size: 47
17492361 AAATGAAATC
17492371 TGGGTTTTTGAAATCTGAATTTTTTTTAAAAATCAAACATAGAAACT
1 TGGGTTTTTGAAATCTGAATTTTTTTTAAAAATCAAACATAGAAACT
*
17492418 TGGGTTTTTGAAATCTGAA-TTTTTTTAAAAATCAAACTTAGAAACT
1 TGGGTTTTTGAAATCTGAATTTTTTTTAAAAATCAAACATAGAAACT
17492464 TGGGTTTTTGAAA
1 TGGGTTTTTGAAA
17492477 CCTGTTCTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
46 39 0.67
47 19 0.33
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.42
Consensus pattern (47 bp):
TGGGTTTTTGAAATCTGAATTTTTTTTAAAAATCAAACATAGAAACT
Found at i:17498417 original size:20 final size:20
Alignment explanation
Indices: 17498389--17498426 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17498379 ACACCATTAC
*
17498389 TTAGATTTTAGTTTTCAATT
1 TTAGATTTTACTTTTCAATT
*
17498409 TTAGCTTTTACTTTTCAA
1 TTAGATTTTACTTTTCAA
17498427 GTTGTGAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.11, G:0.08, T:0.58
Consensus pattern (20 bp):
TTAGATTTTACTTTTCAATT
Found at i:17506801 original size:19 final size:18
Alignment explanation
Indices: 17506755--17506807 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
17506745 GTCCTCAAGT
* *
17506755 AAACAAATAAAAAAAACAA
1 AAACAAA-AGAAAAGACAA
17506774 AAACAAAAGCAAAAGACAA
1 AAACAAAAG-AAAAGACAA
17506793 GAAAC-AAAGAAAAGA
1 -AAACAAAAGAAAAGA
17506808 ATAGTGAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 7 0.23
19 19 0.63
20 4 0.13
ACGTcount: A:0.77, C:0.11, G:0.09, T:0.02
Consensus pattern (18 bp):
AAACAAAAGAAAAGACAA
Found at i:17518515 original size:83 final size:82
Alignment explanation
Indices: 17518376--17518540 Score: 285
Period size: 83 Copynumber: 2.0 Consensus size: 82
17518366 ATAAGGCGGT
* *
17518376 TACCAAGTGTTGGGAAAATGAGACCACTCTTTTGGATCTAGGTGCACCACTTCATTTCCTCGTAG
1 TACCAAGTGTAGGGAAAAAGAGACCACTCTTTTGGATCTAGGTGCACCACTTCATTTCCTCGTAG
17518441 ATCCAAGAACCTAAACAA
66 ATCCAAG-ACCTAAACAA
* *
17518459 TACCAAGTGTAGGGAAAAAGAGACCACTCTTTTGGCTCTAGGTGCACCGCTTCATTTCCTCGTAG
1 TACCAAGTGTAGGGAAAAAGAGACCACTCTTTTGGATCTAGGTGCACCACTTCATTTCCTCGTAG
17518524 ATCCAAGACCTAAACAA
66 ATCCAAGACCTAAACAA
17518541 ACTTGCTTAC
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 10 0.13
83 68 0.87
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (82 bp):
TACCAAGTGTAGGGAAAAAGAGACCACTCTTTTGGATCTAGGTGCACCACTTCATTTCCTCGTAG
ATCCAAGACCTAAACAA
Found at i:17528794 original size:83 final size:83
Alignment explanation
Indices: 17528655--17528818 Score: 283
Period size: 83 Copynumber: 2.0 Consensus size: 83
17528645 CATAAGGTGG
* * *
17528655 TTACCAAGTTTTGGGAAAAAGAGACCACTCTTTTGGATCTAGGTGCACCGCTTCATTTTCTCGTA
1 TTACCAAGTATGGGGAAAAAGAGACCACTCTTTTGGATCTAGGTGCACCGCTTCATTTCCTCGTA
17528720 GATCCAAGAAACTAAAAA
66 GATCCAAGAAACTAAAAA
*
17528738 TTACCAAGTATGGGGAAAAAGAGACCACTCTTTTGGCTCTAGGTGCACCGCTTCATTTCCTCGTA
1 TTACCAAGTATGGGGAAAAAGAGACCACTCTTTTGGATCTAGGTGCACCGCTTCATTTCCTCGTA
*
17528803 GATCCAAGAACCTAAA
66 GATCCAAGAAACTAAA
17528819 CAAACTTGCT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (83 bp):
TTACCAAGTATGGGGAAAAAGAGACCACTCTTTTGGATCTAGGTGCACCGCTTCATTTCCTCGTA
GATCCAAGAAACTAAAAA
Found at i:17535211 original size:17 final size:17
Alignment explanation
Indices: 17535189--17535254 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
17535179 ATATATATGG
*
17535189 AAATGCAATGACAA-AGT
1 AAATGCAATGACAATA-A
**
17535206 AAATGCAGCGACAATAA
1 AAATGCAATGACAATAA
*
17535223 AAATGCAATGACATTAA
1 AAATGCAATGACAATAA
* *
17535240 TAATGCAAGGACAAT
1 AAATGCAATGACAAT
17535255 TATACTACAG
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 38 0.97
18 1 0.03
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.18
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:17535245 original size:34 final size:34
Alignment explanation
Indices: 17535189--17535254 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
17535179 ATATATATGG
17535189 AAATGCAATGACAAAGTAAATGC-AGCGACAATAA
1 AAATGCAATGACAAAGTAAATGCAAG-GACAATAA
17535223 AAATGCAATGACATTAA-T-AATGCAAGGACAAT
1 AAATGCAATGACA--AAGTAAATGCAAGGACAAT
17535255 TATACTACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
34 24 0.83
35 3 0.10
36 2 0.07
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.18
Consensus pattern (34 bp):
AAATGCAATGACAAAGTAAATGCAAGGACAATAA
Found at i:17541097 original size:216 final size:216
Alignment explanation
Indices: 17540307--17543666 Score: 3439
Period size: 215 Copynumber: 15.5 Consensus size: 216
17540297 TAATAATTCT
** * * *
17540307 TTTTTAATTCAAATTCCAAAAGTTGTTTACACAATGACAAAATATTTAGACTAAATGATGTGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * *
17540372 TTTCGAGCATGGAATGTTC-AGAATATTGCTCGAAGGAATGAATCGTCTTGAATACTTTAAGGAA
66 TCTCGAGCATGGAATGTTCGA-AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
** * * *
17540436 CTGAAGTTATAAAAGAACTCGTAAAAGTTTG-CCTTGTTCGAAAGTTCTTCTAAGAACCAAGAAA
130 CTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAT-TTCGAAAGTTCGTCCAAGAACCAAGAGA
17540500 GAAA-AATTCAT-ACGTAAATAAG
194 GAAACAATTC-TCACGTAAATAAG
** * * * *
17540522 TTTTTAATTCAAAGAAAAAAAGCTATTTACAAAGTGACAAACTATTTAGACCAAATGATGCGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * * * * *
17540587 TCTCGAGAATGGAATGTTTGAAACATTGCTCGAAGGAATGGATCATCTTAAATAGTTTAATGAAC
66 TCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
* * * * * *
17540652 CGAAGTTATAAAAGAATTCATAAAAGTTTGACAAGTTT-GGAAGTCCGGCCAAGAACCAAGAGAG
131 TGAAGTTATAAAAGAACTCGTAAAAGTTTGACAA-TTTCGAAAGTTCGTCCAAGAACCAAGAGAG
* *
17540716 AAACAATTCTTACATAAATAAG
195 AAACAATTCTCACGTAAATAAG
* **
17540738 TTTTTAATTTAAAGACCAAAAGTTG-TTACAAAATGACAAACTATTTAGACCAAAAAATGTGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * ** *
17540802 TCTCGAGCATGGAATGTTCGATATATTGCTTGAAGGAATGGATCGTCAAGAATACTTTAAGGGAC
66 TCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
** * *
17540867 AAAAGTTATAAAAGAACTCATAAAAGTTTAACAATTTCGAAAGTTCGTCCAAGAACCAAGAGAGA
131 TGAAGTTATAAAAGAACTCGTAAAAGTTTGACAATTTCGAAAGTTCGTCCAAGAACCAAGAGAGA
17540932 AACAATTCTCACGTAAATAAG
196 AACAATTCTCACGTAAATAAG
*
17540953 TTCTTT-ATTCAAAGACCAAAAGTTGTTTGCAAAATGACAAACTATTTAGACCAAATGATGTGAT
1 TT-TTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGAT
* * ** * * *
17541017 TTCTCGAGCATGAAATTTTTAAAAAATTGCTCGAACGAATGGAACGTCTTGAATACTTTATGGAA
65 TTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
* * *
17541082 CTGAAGTTATAAAAGAACTCGTAAAAGTTTGAC-ATGTTC-AGAATTTCTTCTAAGAACCAAGAG
130 CTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAT-TTCGA-AAGTTCGTCCAAGAACCAAGAG
*
17541145 TGAAA-AATTCTCACGTAAATAAG
193 AGAAACAATTCTCACGTAAATAAG
* * *
17541168 TTTGTAATTCAAACG-CCAAAAGTTGTTTACAAAATGACAAACTATTCAGACCAAAGGATGTGAT
1 TTTTTAATTCAAA-GACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGAT
* * * * * * *
17541232 TCCCCGAGCATGGAATATTCGAAAAATTGCTCCAAAGAATGGATCGTCATGAATACTGTAAGGAA
65 TTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
** * * * ** *
17541297 CAAAAGTTATTAAAGAACTCGTAAAAGTATGACAATTTCAAAAGTTCGTTTAAGAACCAAGTGAG
130 CTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAATTTCGAAAGTTCGTCCAAGAACCAAGAGAG
* *
17541362 AAA-ATTTTCTCATGTAAATAAG
195 AAACA-ATTCTCACGTAAATAAG
* * * * * * *
17541384 TTTTTAATTCAAACACCAAAAGTTCTTTACAAAGTGGCAAACTATTTAGCCCCAATTATGTGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* ** *
17541449 TCCCGAGCATGGAATGTTCGGCAAATTGCTCGAAGGAATGGATC-TCCTTGAATACTTTATGGAA
66 TCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGT-CTTGAATACTTTAAGGAA
* * * * *
17541513 TTGAAGTTATAAAAGAACTCGTAAAAGTTTAAAAAGTTT-GAAAGTTCGTCTAAGAACCAAGAGG
130 CTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAA-TTTCGAAAGTTCGTCCAAGAACCAAGAGA
*
17541577 GAAACAATTCTCACATAAATAAG
194 GAAACAATTCTCACGTAAATAAG
* * * * * *
17541600 TATTTTAATTCAATGACCAAAAGTTATTTACAAAATAACAAACTATTTAAACCAAAAGATGTTAT
1 T-TTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGAT
* * * * * * *
17541665 TTCTTGAGCATGGAATGTTTGAAAAATTTCTCAAAAGAAGGGATCGTCCTGAA-ACCTTTAAGGA
65 TTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATA-CTTTAAGGA
* * ** * * * * * *
17541729 ATTGAAGTTACAAAAGAAAACGTAAAAGTTTAACAAGTTCGGAAGTTCTTCCCAGAACTAAGAGA
129 ACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAATTTCGAAAGTTCGTCCAAGAACCAAGAGA
*
17541794 GAAACAATTCTCATGTAAATAA-
194 GAAACAATTCTCACGTAAATAAG
** * * ** * *
17541816 AATTTAATTTCAAATACCAAAAGCTGTTTACAAAATGACAATTTATTTAGACCGAATGATGCGAT
1 TTTTTAA-TTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGAT
** ** * *
17541881 TTC-CTGAGCAT-GAATGTTCGGTAAATCACTTGACGGAATGGATCGTCTTGAATACTTTAAGGA
65 TTCTC-GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
* * * *
17541944 ATTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAATTTCGAAAGTTTGTCCTAGAACCAAGAAA
129 ACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAATTTCGAAAGTTCGTCCAAGAACCAAGAGA
* * *
17542009 GACACAACTCTCACATAAA-AGAG
194 GAAACAATTCTCACGTAAATA-AG
* * ***
17542032 TTTTAAATTCAAAGACCAAAATTTGTTTACAAAATGTA-AAACTATTTAGACCAAATGATACAAT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATG-ACAAACTATTTAGACCAAATGATGTGAT
* * * * *
17542096 TTCCCGAGCATGGAATATTCGAAAAACTT-CTTGAAGGAATGGATCGCCTTGAATACTTTAAGAA
65 TTCTCGAGCATGGAATGTTCGAAAAA-TTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
*
17542160 ACTGAAGTTA-ATAAAGAACTCGTAAAAGTTTGACAAGTTT-GGAAGTTCGTCCTAA-AACCAAG
129 ACTGAAGTTATA-AAAGAACTCGTAAAAGTTTGACAA-TTTCGAAAGTTCGTCC-AAGAACCAAG
* *
17542222 AGAGAAACAATTCTCAAGTAAATATG
191 AGAGAAACAATTCTCACGTAAATAAG
* *
17542248 TTTTTAATTCAAAGA-CAAAATCTTTTTTACAAAATGACAAACTATTTAG-CCAAATGATGTGAT
1 TTTTTAATTCAAAGACCAAAA-GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGAT
* * * *
17542311 TTC-CTGGGCATTGAATGTTCGAAAAATTGCTCGAAGGAATGAATC-ACATTGAATACTTTAAGG
65 TTCTC-GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTC-TTGAATACTTTAAGG
* ** * * *
17542374 AAGC-AAAGTTATAAAAGAGTTCGTAAAAGTTTGACAAGTTTGACAAGTTTGAAACTTCATCCTA
128 AA-CTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAA-TTT--C------GAAAGTTCGTCCAA
* * * *
17542438 GAACAAAGAGAGAAACAACTCTCACTTAACTAAG
183 GAACCAAGAGAGAAACAATTCTCACGTAAATAAG
* *
17542472 TTTTAAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * *
17542537 T-TCCGAGCATGGAATGTTCGAAAAACTGCTCGAAGGAATGGATCGCCTTGAATACTTTAAGAAA
66 TCT-CGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
* * * *
17542601 CTGAGGTTA-ATAAAGAACTCGTGAAAGTTTGACAAGTTT-GAAAGTTCATCCTAGAACCAAGAG
130 CTGAAGTTATA-AAAGAACTCGTAAAAGTTTGACAA-TTTCGAAAGTTCGTCCAAGAACCAAGAG
* * *
17542664 AGTAACAATTCTCATGTAAATATG
193 AGAAACAATTCTCACGTAAATAAG
* *
17542688 TTTTTAATTCAAAGA-CAAAA-TCATTTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA
1 TTTTTAATTCAAAGACCAAAAGT--TGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
* * * * * * *
17542751 TTTC-CTGAGCATGGAAAGTTCAAAAAACTGCTTGAAGGAATGGATCGCCTTGAATACTCTAATG
64 TTTCTC-GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGG
*** * *
17542815 AAGAAAAGTTATAAAAGAATTCGTAAAAGTTTGACAAGTTT-GACAAGTTCGGAACTTCATCCTA
128 AACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAA-TTTCGA-AAGTTC-G-------TCCAA
* * * *
17542879 GAACAAAGAGAGAAACAACTCTCACTTAACTAAG
183 GAACCAAGAGAGAAACAATTCTCACGTAAATAAG
* * ** *
17542913 TTTTAAATTCAAAGACAAAAAGTTGTTTACAAAATGATGAACTATTTAGACCAAATGATTTGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * * * * *
17542978 TC-CAGAGCATGGAATGTTTGGAAAATTGCTCAAAGGATTCGATCGACTTGAATATTTTAAGGAA
66 TCTC-GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
* * ** * * * * * *
17543042 -TCGAAGTTATAAAATATCTCACAAAATTTTGACAAGTTCGGATGTTCGGCCAAGAAACAAGAGA
130 CT-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAATTTCGAAAGTTCGTCCAAGAACCAAGAGA
17543106 GAAACAATTCTCACGTAAATAAG
194 GAAACAATTCTCACGTAAATAAG
* * * * *
17543129 TTTTTAATTCAAAGACCAAAAGTTGTTCAC-AAATGAAAAACTATTTAGACCCAATGATGTTACT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * *
17543193 TCCCGAGCATGGAATGTTCGAAAAATTGCTCGAACGAATGGATCGCCTTGAATACTTTAAGAAAC
66 TCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
* * * *
17543258 TGAAGTTA-ATAAAGAACTCGTAAAATTTTGACAAGTTCGAAAGATCGGCCAAGAACCAAGAGAG
131 TGAAGTTATA-AAAGAACTCGTAAAAGTTTGACAATTTCGAAAGTTCGTCCAAGAACCAAGAGAG
*
17543322 AAACAATTCTCATGTAAATAAG
195 AAACAATTCTCACGTAAATAAG
* * * * *
17543344 TTTTTAATTTAAAGACCAAAAGTTGTTTATAAAATAAAAAACTATTTAGACCAAATGATGCGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * ** * *
17543409 TC-CTGATCATGGAATGTTC-AGAAAACTGCTCG-AGGAATGGATCAACTTGAAAACTTTAAGAA
66 TCTC-GAGCATGGAATGTTCGA-AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
* * * * * * * *
17543471 ACTAAAG-TAAACAAAGAGCTCATTAAAGTTTGACAAGTTCAAAAGATCGAT-CAAGAACCAAGA
129 ACTGAAGTTATA-AAAGAACTCGTAAAAGTTTGACAATTTCGAAAGTTCG-TCCAAGAACCAAGA
* *
17543534 GGGAAACAATCCTCACGTAAATACA-
192 GAGAAACAATTCTCACGTAAATA-AG
* * * ** * * *** *
17543559 TTTTTAATTCACAGAACACATCTTGTTTACAAAAAGATAAACTATTTAGACCAAATGATACAATA
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
*
17543624 TC-CTGAGCATGGAATGTTCGAAAAATTGCTCAAAGGAATGGAT
66 TCTC-GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGAT
17543667 TGGTTGAATA
Statistics
Matches: 2626, Mismatches: 430, Indels: 177
0.81 0.13 0.05
Matches are distributed among these distances:
214 14 0.01
215 1162 0.44
216 904 0.34
217 189 0.07
218 1 0.00
223 2 0.00
224 85 0.03
225 262 0.10
226 6 0.00
227 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (216 bp):
TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
TCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
TGAAGTTATAAAAGAACTCGTAAAAGTTTGACAATTTCGAAAGTTCGTCCAAGAACCAAGAGAGA
AACAATTCTCACGTAAATAAG
Found at i:17541112 original size:431 final size:431
Alignment explanation
Indices: 17540307--17543666 Score: 3474
Period size: 431 Copynumber: 7.7 Consensus size: 431
17540297 TAATAATTCT
** * * *
17540307 TTTTTAATTCAAATTCCAAAAGTTGTTTACACAATGACAAAATATTTAGACTAAATGATGTGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * *
17540372 TTTCGAGCATGGAATGTTC-AGAATATTGCTCGAAGGAATGAATCGTCTTGAATACTTTAAGGAA
66 TCTCGAGCATGGAATGTTCGA-AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
** * * *
17540436 CTGAAGTTATAAAAGAACTCGTAAAAGTTTG-CCTTGTTCGAAAGTTCTTCTAAGAACCAAGAAA
130 CTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAT-TTCGAAAGTTCGTCCAAGAACCAAGAGA
** * * *
17540500 GAAA-AATTCAT-ACGTAAATAAGTTTTTAATTCAAAGAAAAAAAGCTATTTACAAAGTGACAAA
194 GAAACAATTC-TCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAA
* * * *
17540563 CTATTTAGACCAAATGATGCGATTTCTCGAGAATGGAATGTTTGAAACATTGCTCGAAGGAATGG
258 CTATTTAGACCAAATGATGTGATTTC-CGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGG
* * * * * * *
17540628 ATCATCTTAAATAGTTTAAT-GAACCGAAGTTATAAAAGAATTCATAAAAGTTTGACAAGTTTGG
322 ATCGTCTTGAATACTTT-ATGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGA
* * *
17540692 AAGTCCGGCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAG
386 AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAG
* **
17540738 TTTTTAATTTAAAGACCAAAAGTTG-TTACAAAATGACAAACTATTTAGACCAAAAAATGTGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * ** *
17540802 TCTCGAGCATGGAATGTTCGATATATTGCTTGAAGGAATGGATCGTCAAGAATACTTTAAGGGAC
66 TCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
** * *
17540867 AAAAGTTATAAAAGAACTCATAAAAGTTTAACAATTTCGAAAGTTCGTCCAAGAACCAAGAGAGA
131 TGAAGTTATAAAAGAACTCGTAAAAGTTTGACAATTTCGAAAGTTCGTCCAAGAACCAAGAGAGA
*
17540932 AACAATTCTCACGTAAATAAGTTCTTT-ATTCAAAGACCAAAAGTTGTTTGCAAAATGACAAACT
196 AACAATTCTCACGTAAATAAGTT-TTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACT
* * ** * *
17540996 ATTTAGACCAAATGATGTGATTTCTCGAGCATGAAATTTTTAAAAAATTGCTCGAACGAATGGAA
260 ATTTAGACCAAATGATGTGATTTC-CGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGAT
* *
17541061 CGTCTTGAATACTTTATGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACATG-TTCAGAA
324 CGTCTTGAATACTTTATGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGA-AA
* * * * *
17541125 TTTCTTCTAAGAACCAAGAGTGAAA-AATTCTCACGTAAATAAG
388 GTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAG
* * *
17541168 TTTGTAATTCAAACG-CCAAAAGTTGTTTACAAAATGACAAACTATTCAGACCAAAGGATGTGAT
1 TTTTTAATTCAAA-GACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGAT
* * * * * * *
17541232 TCCCCGAGCATGGAATATTCGAAAAATTGCTCCAAAGAATGGATCGTCATGAATACTGTAAGGAA
65 TTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
** * * * ** *
17541297 CAAAAGTTATTAAAGAACTCGTAAAAGTATGACAATTTCAAAAGTTCGTTTAAGAACCAAGTGAG
130 CTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAATTTCGAAAGTTCGTCCAAGAACCAAGAGAG
* * * * * *
17541362 AAA-ATTTTCTCATGTAAATAAGTTTTTAATTCAAACACCAAAAGTTCTTTACAAAGTGGCAAAC
195 AAACA-ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAAC
* * * **
17541426 TATTTAGCCCCAATTATGTGATTTCCCGAGCATGGAATGTTCGGCAAATTGCTCGAAGGAATGGA
259 TATTTAGACCAAATGATGTGATTT-CCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGA
* * *
17541491 TC-TCCTTGAATACTTTATGGAATTGAAGTTATAAAAGAACTCGTAAAAGTTTAAAAAGTTTGAA
323 TCGT-CTTGAATACTTTATGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGAA
* *
17541555 AGTTCGTCTAAGAACCAAGAGGGAAACAATTCTCACATAAATAAG
387 AGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAG
* * * * * *
17541600 TATTTTAATTCAATGACCAAAAGTTATTTACAAAATAACAAACTATTTAAACCAAAAGATGTTAT
1 T-TTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGAT
* * * * * * *
17541665 TTCTTGAGCATGGAATGTTTGAAAAATTTCTCAAAAGAAGGGATCGTCCTGAA-ACCTTTAAGGA
65 TTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATA-CTTTAAGGA
* * ** * * * * * *
17541729 ATTGAAGTTACAAAAGAAAACGTAAAAGTTTAACAAGTTCGGAAGTTCTTCCCAGAACTAAGAGA
129 ACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAATTTCGAAAGTTCGTCCAAGAACCAAGAGA
* ** * * *
17541794 GAAACAATTCTCATGTAAATAA-AATTTAATTTCAAATACCAAAAGCTGTTTACAAAATGACAAT
194 GAAACAATTCTCACGTAAATAAGTTTTTAA-TTCAAAGACCAAAAGTTGTTTACAAAATGACAAA
* * * ** ** * *
17541858 TTATTTAGACCGAATGATGCGATTTCCTGAGCAT-GAATGTTCGGTAAATCACTTGACGGAATGG
258 CTATTTAGACCAAATGATGTGATTTCC-GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGG
* *
17541922 ATCGTCTTGAATACTTTAAGGAATTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAA-TTTCGA
322 ATCGTCTTGAATACTTTATGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTT-GA
* * * * *
17541986 AAGTTTGTCCTAGAACCAAGAAAGACACAACTCTCACATAAA-AGAG
386 AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATA-AG
* * ***
17542032 TTTTAAATTCAAAGACCAAAATTTGTTTACAAAATGTA-AAACTATTTAGACCAAATGATACAAT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATG-ACAAACTATTTAGACCAAATGATGTGAT
* * * * *
17542096 TTCCCGAGCATGGAATATTCGAAAAACTT-CTTGAAGGAATGGATCGCCTTGAATACTTTAAGAA
65 TTCTCGAGCATGGAATGTTCGAAAAA-TTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
*
17542160 ACTGAAGTTA-ATAAAGAACTCGTAAAAGTTTGACAAGTTT-GGAAGTTCGTCCTAA-AACCAAG
129 ACTGAAGTTATA-AAAGAACTCGTAAAAGTTTGACAA-TTTCGAAAGTTCGTCC-AAGAACCAAG
* * * *
17542222 AGAGAAACAATTCTCAAGTAAATATGTTTTTAATTCAAAGA-CAAAATCTTTTTTACAAAATGAC
191 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA-GTTGTTTACAAAATGAC
* *
17542286 AAACTATTTAG-CCAAATGATGTGATTTCCTGGGCATTGAATGTTCGAAAAATTGCTCGAAGGAA
255 AAACTATTTAGACCAAATGATGTGATTTCC-GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAA
* * * * **
17542350 TGAATC-ACATTGAATACTTTAAGGAAGC-AAAGTTATAAAAGAGTTCGTAAAAGTTTGACAAGT
319 TGGATCGTC-TTGAATACTTTATGGAA-CTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * * * * *
17542413 TTGACAAGTTTGAAACTTCATCCTAGAACAAAGAGAGAAACAACTCTCACTTAACTAAG
382 TTGA-AA----G----TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAG
* *
17542472 TTTTAAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * *
17542537 T-TCCGAGCATGGAATGTTCGAAAAACTGCTCGAAGGAATGGATCGCCTTGAATACTTTAAGAAA
66 TCT-CGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
* * * *
17542601 CTGAGGTTA-ATAAAGAACTCGTGAAAGTTTGACAAGTTT-GAAAGTTCATCCTAGAACCAAGAG
130 CTGAAGTTATA-AAAGAACTCGTAAAAGTTTGACAA-TTTCGAAAGTTCGTCCAAGAACCAAGAG
* * * *
17542664 AGTAACAATTCTCATGTAAATATGTTTTTAATTCAAAGA-CAAAA-TCATTTTTACAAAATGACA
193 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGT--TGTTTACAAAATGACA
* * * * *
17542727 AACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAAAGTTCAAAAAACTGCTTGAAGGAAT
256 AACTATTTAGACCAAATGATGTGATTTCC-GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAAT
* * *** *
17542792 GGATCGCCTTGAATACTCTAAT-GAAGAAAAGTTATAAAAGAATTCGTAAAAGTTTGACAAGTTT
320 GGATCGTCTTGAATACT-TTATGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTT
* * * * *
17542856 GACAAGTTCGGAACTTCATCCTAGAACAAAGAGAGAAACAACTCTCACTTAACTAAG
384 GA-AAGTTC-G-------TCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAG
* * ** *
17542913 TTTTAAATTCAAAGACAAAAAGTTGTTTACAAAATGATGAACTATTTAGACCAAATGATTTGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * * * * *
17542978 TC-CAGAGCATGGAATGTTTGGAAAATTGCTCAAAGGATTCGATCGACTTGAATATTTTAAGGAA
66 TCTC-GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
* * ** * * * * * *
17543042 -TCGAAGTTATAAAATATCTCACAAAATTTTGACAAGTTCGGATGTTCGGCCAAGAAACAAGAGA
130 CT-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAATTTCGAAAGTTCGTCCAAGAACCAAGAGA
* *
17543106 GAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTCAC-AAATGAAAAAC
194 GAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAAC
* * * *
17543170 TATTTAGACCCAATGATGTTACTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAACGAATGGA
259 TATTTAGACCAAATGATGTGA-TTTCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGA
* * * * *
17543235 TCGCCTTGAATACTTTAAGAAACTGAAGTTA-ATAAAGAACTCGTAAAATTTTGACAAGTTCGAA
323 TCGTCTTGAATACTTTATGGAACTGAAGTTATA-AAAGAACTCGTAAAAGTTTGACAAGTTTGAA
* * **
17543299 AGATCGGCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAG
387 AGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAG
* * * * *
17543344 TTTTTAATTTAAAGACCAAAAGTTGTTTATAAAATAAAAAACTATTTAGACCAAATGATGCGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * ** * *
17543409 TC-CTGATCATGGAATGTTC-AGAAAACTGCTCG-AGGAATGGATCAACTTGAAAACTTTAAGAA
66 TCTC-GAGCATGGAATGTTCGA-AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
* * * * * * * *
17543471 ACTAAAG-TAAACAAAGAGCTCATTAAAGTTTGACAAGTTCAAAAGATCGAT-CAAGAACCAAGA
129 ACTGAAGTTATA-AAAGAACTCGTAAAAGTTTGACAATTTCGAAAGTTCG-TCCAAGAACCAAGA
* * * * * ** * *
17543534 GGGAAACAATCCTCACGTAAATACA-TTTTTAATTCACAGAACACATCTTGTTTACAAAAAGATA
192 GAGAAACAATTCTCACGTAAATA-AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
*** * *
17543598 AACTATTTAGACCAAATGATACAATATCCTGAGCATGGAATGTTCGAAAAATTGCTCAAAGGAAT
256 AACTATTTAGACCAAATGATGTGATTTCC-GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAAT
17543663 GGAT
320 GGAT
17543667 TGGTTGAATA
Statistics
Matches: 2476, Mismatches: 372, Indels: 162
0.82 0.12 0.05
Matches are distributed among these distances:
429 3 0.00
430 336 0.14
431 981 0.40
432 169 0.07
433 229 0.09
434 1 0.00
436 1 0.00
437 1 0.00
438 2 0.00
439 11 0.00
440 389 0.16
441 343 0.14
442 9 0.00
443 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (431 bp):
TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
TCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
TGAAGTTATAAAAGAACTCGTAAAAGTTTGACAATTTCGAAAGTTCGTCCAAGAACCAAGAGAGA
AACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA
TTTAGACCAAATGATGTGATTTCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCG
TCTTGAATACTTTATGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGAAAGTT
CGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAG
Found at i:17542414 original size:9 final size:9
Alignment explanation
Indices: 17542400--17542425 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
17542390 GAGTTCGTAA
17542400 AAGTTTGAC
1 AAGTTTGAC
17542409 AAGTTTGAC
1 AAGTTTGAC
17542418 AAGTTTGA
1 AAGTTTGA
17542426 AACTTCATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.35
Consensus pattern (9 bp):
AAGTTTGAC
Found at i:17544010 original size:334 final size:334
Alignment explanation
Indices: 17543342--17544014 Score: 763
Period size: 334 Copynumber: 2.0 Consensus size: 334
17543332 CATGTAAATA
* *
17543342 AGTTTTTAATTTAAAGACCAAAAGTTGTTTATAAAATAAAAAACTATTTAGACCAAATGATGCGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATAAAAAACTATTTAGACCAAATGATGCGA
** * *
17543407 TTTCCTGATCATGGAATGTTCAGAAAACTGCTCGAGGAATGGATCAACTTGAAAACTTTAAGAAA
66 TTTCCCAAGCATGGAATGTTCAGAAAACTACTCGAGGAATGGATCAACTTGAAAACTTTAAGAAA
* * *
17543472 CTAAAGTAAACAAAGAGCTCATTAAAGTTTGACAAGTTCAAAAGATCGATCAAGAACCAAGAGGG
131 CTAAAGTAAACAAAGAACTCATAAAAGTTTGACAAGTTCAAAAGATCGATCAAGAACCAAGAGAG
* * * * * *
17543537 AAACAATCCTCACGTAAATACATTTTTAATTCACAGAACACATCTTGTTTACAAAAAGATAAACT
196 AAACAATCCTCACATAAATACATTTTTAATTCAAAGAACAAAGCTTATTTACAAAAAGACAAACT
* *
17543602 ATTTAGACCAAATGATACAATATCCTGAGCATGGAATGTTCGAAAAATTGCTCAAAGGAATGGAT
261 ATTTAGACCAAATGATACAATATCCTGAGAATGGAATCTTCGAAAAATTGCTCAAAGGAATGGAT
*
17543667 TGGTTGAAT
326 TGCTTGAAT
* * * *
17543676 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGCTGTGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATAAAAAACTATTTAGACCAAATGATGCGA
* * ** * * *
17543741 TTTCCCAAGCATGGAATGTTTAGAAAATTACT-GAAGGAATGGATCGTCTTGGATACTTTAAGGA
66 TTTCCCAAGCATGGAATGTTCAGAAAACTACTCG-AGGAATGGATCAACTTGAAAACTTTAAGAA
* * ** ** *
17543805 ACTGAAGTTATA-AAAGAACT-AGTAAAAGTTTGACTTGTTCGGAAGTTC-ATCTAAGAACC-AG
130 ACTAAAG-TAAACAAAGAACTCA-TAAAAGTTTGACAAGTTCAAAAGATCGATC-AAGAACCAAG
* * * *
17543866 A-AGAGAATAATTCTCACATAAATA-ATTTTTTAATTCAAAGACAGAAAGC-TATTTACAAAATG
192 AGAGA-AACAATCCTCACATAAATACA-TTTTTAATTCAAAGA-ACAAAGCTTATTTACAAAAAG
* * * * * * *
17543928 ACAAACTATTTAGGCCAAATTATGCGAT-TTCTCGAGAATGGAATCTTTGAAAAATTGCTCGAAG
254 ACAAACTATTTAGACCAAATGATACAATATCCT-GAGAATGGAATCTTCGAAAAATTGCTCAAAG
17543992 GAATGGATCAT-CTTGAAT
318 GAATGGAT--TGCTTGAAT
17544010 AGTTT
1 AGTTT
17544015 AAGGAACCAA
Statistics
Matches: 282, Mismatches: 47, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
332 6 0.02
333 107 0.38
334 165 0.59
335 4 0.01
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (334 bp):
AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATAAAAAACTATTTAGACCAAATGATGCGA
TTTCCCAAGCATGGAATGTTCAGAAAACTACTCGAGGAATGGATCAACTTGAAAACTTTAAGAAA
CTAAAGTAAACAAAGAACTCATAAAAGTTTGACAAGTTCAAAAGATCGATCAAGAACCAAGAGAG
AAACAATCCTCACATAAATACATTTTTAATTCAAAGAACAAAGCTTATTTACAAAAAGACAAACT
ATTTAGACCAAATGATACAATATCCTGAGAATGGAATCTTCGAAAAATTGCTCAAAGGAATGGAT
TGCTTGAAT
Found at i:17544184 original size:549 final size:549
Alignment explanation
Indices: 17543127--17544215 Score: 1302
Period size: 549 Copynumber: 2.0 Consensus size: 549
17543117 CACGTAAATA
* *
17543127 AGTTTTTAATTCAAAGACCAAAAGTTGTTCACAAATGAAAAACTATTTAGACCCAATGATGTTAC
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTCACAAATGAAAAACTATTTAGACCAAATGATGTGAC
* * *
17543192 TTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAACGAATGGATCGCCTTGAATACTTTAAGAAA
66 TTCCCAAGCATGGAATGTTAGAAAAATTACTCGAACGAATGGATCGCCTTGAATACTTTAAGAAA
* * *
17543257 CTGAAGTTAATAAAGAACTCGTAAAATTTTGACAAGTTCGAAAGATCGGCCAAGAACCAAGAGAG
131 CTGAAGTTAATAAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGATCAGCCAAGAACCAAGAGAG
** * * * *
17543322 AAACAATTCTCATGTAAATAAGTTTTTAATTTAAAGACCAAAAGTTGTTTATAAAATAAAAAACT
196 AAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGCTATTTACAAAATAAAAAACT
**
17543387 ATTTAGACCAAATGATGCGATTTCCTGATCATGGAATGTTCAGAAAACTGCTCGAGGAATGGATC
261 ATTTAGACCAAATGATGCGATTTCCTGAGAATGGAATGTTCAGAAAACTGCTCGAGGAATGGATC
* * *
17543452 AACTTGAAAACTTTAAGAAACTAAAGTAAACAAAGAGCTCATTAAAGTTTGACAAGTTCAAAAGA
326 AACTTGAAAACTTTAAGAAACCAAAGTAAACAAAGAACTCATAAAAGTTTGACAAGTTCAAAAGA
* ** * * * *
17543517 TCGATCAAGAACCAAGAGGGAAACAATCCTCACGTAAATACATTTTTAATTCACAGAACACATCT
391 TCGACCAAGAACCAAGAAAGAAACAATCCTCACGTAAATAAATTTTTAATTCAAAGAACAAAACT
* * **
17543582 TGTTTACAAAAAGATAAACTATTTAGACCAAATGATACAATATCCTGAGCATGGAATGTTCGAAA
456 TGTTTACAAAAAGACAAACTATTTAGACCAAAAGATACAATATCCCAAGCATGGAATGTT-GAAA
*
17543647 AA-TTGCTCAAAGGAATGGATTGGTTGAAT
520 AATTTGCTCAAAGCAATGGATTGGTTGAAT
* * *
17543676 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGCTGTGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTCAC-AAATGAAAAACTATTTAGACCAAATGATGTGA
* * * * *
17543741 TTTCCCAAGCATGGAATGTTTAG-AAAATTACT-GAAGGAATGGATCGTCTTGGATACTTTAAGG
65 CTTCCCAAGCATGGAATG-TTAGAAAAATTACTCGAACGAATGGATCGCCTTGAATACTTTAAGA
** * * * *
17543804 AACTGAAGTT-ATAAAAGAACTAGTAAAAGTTTGACTTGTTCGGAAGTTCATCTAAGAACC-AGA
129 AACTGAAGTTAAT-AAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGATCAGCCAAGAACCAAGA
* * * *
17543867 -AGAGAATAATTCTCACATAAATAATTTTTTAATTCAAAGA-CAGAAAGCTATTTACAAAATGAC
193 GAGA-AACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCA-AAAGCTATTTACAAAATAAA
* * * * *
17543930 AAACTATTTAGGCCAAATTATGCGATTT-CTCGAGAATGGAATCTT-TGAAAAATTGCTCGAAGG
256 AAACTATTTAGACCAAATGATGCGATTTCCT-GAGAATGGAATGTTCAG-AAAACTGCTCG-AGG
* * * * * *
17543993 AATGGATCATCTTGAATAGTTTAAGGAACCAAAGTTATA-AAATAACTCATAAAAGTTTGACAAG
318 AATGGATCAACTTGAAAACTTTAAGAAACCAAAG-TAAACAAAGAACTCATAAAAGTTTGACAAG
** * * * * *
17544057 TTTGAAAG-TCAGGCCAAGAACTAAGAAAGAAACAATTCTTACATTAAA-AAATTTTTAATTCAA
382 TTCAAAAGATC-GACCAAGAACCAAGAAAGAAACAATCCTCAC-GTAAATAAATTTTTAATTCAA
* * * * ** *
17544120 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTTGACCAAAAGATATGATTTCCCAAGCATGG
445 AGAACAAAACTTGTTTACAAAAAGACAAACTATTTAGACCAAAAGATACAATATCCCAAGCATGG
* *
17544185 AATGTTTAAAAATTTGCTCGAAGCAATGGAT
510 AATGTTGAAAAATTTGCTCAAAGCAATGGAT
17544216 CGTCTTGAAT
Statistics
Matches: 452, Mismatches: 76, Indels: 24
0.82 0.14 0.04
Matches are distributed among these distances:
547 8 0.02
548 105 0.23
549 277 0.61
550 59 0.13
551 3 0.01
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (549 bp):
AGTTTTTAATTCAAAGACCAAAAGTTGTTCACAAATGAAAAACTATTTAGACCAAATGATGTGAC
TTCCCAAGCATGGAATGTTAGAAAAATTACTCGAACGAATGGATCGCCTTGAATACTTTAAGAAA
CTGAAGTTAATAAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGATCAGCCAAGAACCAAGAGAG
AAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGCTATTTACAAAATAAAAAACT
ATTTAGACCAAATGATGCGATTTCCTGAGAATGGAATGTTCAGAAAACTGCTCGAGGAATGGATC
AACTTGAAAACTTTAAGAAACCAAAGTAAACAAAGAACTCATAAAAGTTTGACAAGTTCAAAAGA
TCGACCAAGAACCAAGAAAGAAACAATCCTCACGTAAATAAATTTTTAATTCAAAGAACAAAACT
TGTTTACAAAAAGACAAACTATTTAGACCAAAAGATACAATATCCCAAGCATGGAATGTTGAAAA
ATTTGCTCAAAGCAATGGATTGGTTGAAT
Found at i:17544205 original size:216 final size:216
Alignment explanation
Indices: 17543676--17545296 Score: 1833
Period size: 216 Copynumber: 7.5 Consensus size: 216
17543666 TTGGTTGAAT
*
17543676 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGCTGTGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
* * *
17543741 TTTCCCAAGCATGGAATGTTTAGAAAATTACT-GAAGGAATGGATCGTCTTGGATACTTTAAGGA
66 TTTCCCGAGCATGGAATGTTTA-AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
* ** * * *
17543805 ACTGAAGTTATAAAAGAACT-AGTAAAAGTTTGACTTGTTCGGAAGTTCATCTAAGAACC-AGA-
130 ACCGAAGTTATAAAAGAACTCA-TAAAAGTTTGACAAGTTTGAAAGTTCATCCAAGAACCAAGAG
*
17543867 AGAGAATAATTCTCACA-TAAATA
194 AGA-AACAATTCTCACATTAAATA
* * * * * *
17543890 ATTTTTTAATTCAAAGA-CAGAAAGCTATTTACAAAATGACAAACTATTTAGGCCAAATTATGCG
1 AGTTTTTAATTCAAAGACCA-AAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTG
* * * * *
17543954 ATTTCTCGAGAATGGAATCTTTGAAAAATTGCTCGAAGGAATGGATCATCTTGAATAGTTTAAGG
65 ATTTCCCGAGCATGGAATGTTT-AAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGG
* * * *
17544019 AACCAAAGTTATAAAATAACTCATAAAAGTTTGACAAGTTTGAAAG-TCAGGCCAAGAACTAAGA
129 AACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTTGAAAGTTCA-TCCAAGAACCAAGA
* *
17544083 AAGAAACAATTCTTACATTAAA-A
193 GAGAAACAATTCTCACATTAAATA
* * * *
17544106 AATTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTTGACCAAAAGATATGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
* *
17544171 TTTCCCAAGCATGGAATGTTTAAAAATTTGCTCGAAGCAATGGATCGTCTTGAATACTTTAAGGA
66 TTTCCCGAGCATGGAATGTTTAAAAA-TTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
* * * * ** *
17544236 ATCGAAGTTATTAAAGAACTCGTAAAAGTTTGACAAG-TTCAAATGTTCGGCCAAGATCCAAGAG
130 ACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTTGAAA-GTTCATCCAAGAACCAAGAG
17544300 AGAAACAATTCTCACA-TAAATA
194 AGAAACAATTCTCACATTAAATA
* * * ** *
17544322 AGTTTTTAATTCAAAGACAAAAATTTGTTTACAAAATGACAAACTATTTTGACCAAAAAATGCGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
* * * * *
17544387 TTTCTCGAGCATGGAATGTTCGATATATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGA
66 TTTCCCGAGCATGGAATGTT-TAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
* * *
17544452 ACCAAAGTTATAAAAGAACTAATAAAAGTTTGACAATTTTGAAAGTTCATCCAAGAACCAAGAGA
130 ACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTTGAAAGTTCATCCAAGAACCAAGAGA
* *
17544517 GGAACAATTCTCAC-GTAAATA
195 GAAACAATTCTCACATTAAATA
* * * * *
17544538 AGTTCTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTGTTTAGATCAATTGATGCGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
* * * * * * *
17544603 TTTCTCGTGCATGGAATGTTCAGAAAACTGCTTGAAGGAATTGATCGTCTTGAATACTTTAA-CA
66 TTTCCCGAGCATGGAATGTTTA-AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
* * * * ** *
17544667 ATCTGAATTTATAAAAGAAATCATAAAAGTTTGATC-AGTTCGAAAGTTCGGCCAAGATCCAAGA
130 A-CCGAAGTTATAAAAGAACTCATAAAAGTTTGA-CAAGTTTGAAAGTTCATCCAAGAACCAAGA
*
17544731 GAGAAACAATTCTAAC-TTAAATA
193 GAGAAACAATTCTCACATTAAATA
17544754 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
** * * * * * *
17544819 TTTCTTGAGCATGAAATGTTCAGAAAATTGGTCGAACGAATGGATTGTCTTGAATACTTTAAAGA
66 TTTCCCGAGCATGGAATGTTTA-AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
* * * * * * * * *
17544884 ACTGAAGTTATCAAAGAACTCGTAAAAGTTTGACATGTTCGGAAGTTCTTCTAAGAACCAAGAGT
130 ACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTTGAAAGTTCATCCAAGAACCAAGAGA
*
17544949 GACACAATTCT--CATGTAAATA
195 GAAACAATTCTCACAT-TAAATA
* * * * * ** * *
17544970 AGTTTTTAATTCAAAAATCTAATGTTGTTTACAAAATGACAAACTATTCAGAATAAAGGATATGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
* * * *
17545035 TTTCCCGAGCATGGAATATTCGAAAAATTGCTCCAAGGAATGGATCGTCATGAATACTTTAAGGA
66 TTTCCCGAGCATGGAATGTT-TAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
* * * *
17545100 ACCAAAGTTATAAAAGAACTCGTAAAAGTATGACAA-TTTCGAAAGTTCATCTAAGAACCAAGAG
130 ACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTT-GAAAGTTCATCCAAGAACCAAGAG
* * *
17545164 -GGAA-AATTTTCTCATGTAAATA
194 AGAAACAATTCTCACAT-TAAATA
* * * *
17545186 AGTTTTTAATTCAAACACCAAAAGGTCTTTACAAAATGACAAACTATTTAG-CCTCAATGATGTG
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACC-AAATGATGTG
* * *
17545250 ATTTCCCGAGCATGGAATGTTCGAAAAATTGTTAGAAGGAATGGATC
65 ATTTCCCGAGCATGGAATGTT-TAAAAATTGCTCGAAGGAATGGATC
17545297 TCCTTGTATT
Statistics
Matches: 1196, Mismatches: 183, Indels: 54
0.83 0.13 0.04
Matches are distributed among these distances:
213 2 0.00
214 89 0.07
215 96 0.08
216 986 0.82
217 23 0.02
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (216 bp):
AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
TTTCCCGAGCATGGAATGTTTAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
CCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTTGAAAGTTCATCCAAGAACCAAGAGAG
AAACAATTCTCACATTAAATA
Found at i:17545109 original size:648 final size:645
Alignment explanation
Indices: 17543676--17545296 Score: 2038
Period size: 648 Copynumber: 2.5 Consensus size: 645
17543666 TTGGTTGAAT
* * * *
17543676 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGCTGTGA
1 AGTTTTTAATTCAAA-AACAAATGTTGTTTACAAAATGACAAACTATTTAGACCAAAAGATGTGA
* * * * *
17543741 TTTCCCAAGCATGGAATGTT-TAGAAAATTACT-GAAGGAATGGATCGTCTTGGATACTTTAAGG
65 TTTCCCGAGCATGGAATGTTCGA-AAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGG
** *
17543804 AACTGAAGTTATAAAAGAACTAGTAAAAGTTTGAC--TTGTTCGGAAGTTCATCTAAGAACC-AG
129 AACCAAAGTTATAAAAGAACTAGTAAAAGTTTGACAATT-TT-GAAAGTTCATCTAAGAACCAAG
* *
17543866 A-AGAGAATAATTCTCACATAAATAATTTTTTAATTCAAAGA-CAGAAAGCTATTTACAAAATGA
192 AGAG-GAA-AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCA-AAAGCTATTTACAAAATGA
** * * * *
17543929 CAAACTATTTAGGCCAAATT-ATGCGATTTCTCGAGAATGGAATCTTTGAAAAATTGCTCGAAGG
254 CAAACTATTTAGATC-AATTGATGCGATTTCTCGAGCATGGAATGTTCG-AAAACTGCTCGAAGG
* * * *
17543993 AATGGATCATCTTGAATAGTTTAAGGAACCAAAGTTATAAAATAACTCATAAAAGTTTGACAAGT
317 AATGGATCATCTTGAATACTTTAAGCAACCAAAGTTATAAAAGAAATCATAAAAGTTTGACAAGT
* * *
17544058 TTGAAAGTCAGGCCAAGAACTAAGAAAGAAACAATTCTTACATTAAAAAATTTTTAATTCAAAGA
382 TCGAAAGTCAGGCCAAGAACCAAGAAAGAAACAATTCTAACATTAAAAAATTTTTAATTCAAAGA
* *
17544123 CCAAAAGTTGTTTACAAAATGACAAACTATTTTGACCAAAAGATATGATTTCCCAAGCATGGAAT
447 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAAAGATATGATTTCCCAAGCATGAAAT
* * *
17544188 GTTTAAAAATTTGCTCGAAGCAATGGATCGTCTTGAATACTTTAAGGAATCGAAGTTATTAAAGA
512 GTTCAAAAATTTGCTCGAAGCAATGGATCGTCTTGAATACTTTAAAGAATCGAAGTTATCAAAGA
*
17544253 ACTCGTAAAAGTTTGACAAGTTCAAATGTTCGGCCAAGATCCAAGAGAGAAACAATTCTCACATA
577 ACTCGTAAAAGTTTGACAAGTTCAAATGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACATA
17544318 AATA
642 AATA
* * * *
17544322 AGTTTTTAATTCAAAGACAAAAAT-TTGTTTACAAAATGACAAACTATTTTGACCAAAAAATGCG
1 AGTTTTTAATTCAAA-A-ACAAATGTTGTTTACAAAATGACAAACTATTTAGACCAAAAGATGTG
* * *
17544386 ATTTCTCGAGCATGGAATGTTCGATATATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGG
64 ATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGG
* *
17544451 AACCAAAGTTATAAAAGAACTAATAAAAGTTTGACAATTTTGAAAGTTCATCCAAGAACCAAGAG
129 AACCAAAGTTATAAAAGAACTAGTAAAAGTTTGACAATTTTGAAAGTTCATCTAAGAACCAAGAG
* * *
17544516 AGGAACAATTCTCACGTAAATAAGTTCTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAA
194 AGGAA-AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGCTATTTACAAAATGACAAA
* * * *
17544581 CTGTTTAGATCAATTGATGCGATTTCTCGTGCATGGAATGTTCAGAAAACTGCTTGAAGGAATTG
258 CTATTTAGATCAATTGATGCGATTTCTCGAGCATGGAATGTTC-GAAAACTGCTCGAAGGAATGG
* ** *
17544646 ATCGTCTTGAATACTTTAA-CAATCTGAATTTATAAAAGAAATCATAAAAGTTTGATC-AGTTCG
322 ATCATCTTGAATACTTTAAGCAA-CCAAAGTTATAAAAGAAATCATAAAAGTTTGA-CAAGTTCG
* * *
17544709 AAAGTTC-GGCCAAGATCCAAGAGAGAAACAATTCTAAC-TTAAATAAGTTTTTAATTCAAAGAC
385 AAAG-TCAGGCCAAGAACCAAGAAAGAAACAATTCTAACATTAAA-AAATTTTTAATTCAAAGAC
* * ***
17544772 CAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCTTGAGCATGAAATG
448 CAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAAAGATATGATTTCCCAAGCATGAAATG
* *
17544837 TTCAGAAAA-TTGGTCGAA-CGAATGGATTGTCTTGAATACTTTAAAGAA-CTGAAGTTATCAAA
513 TTCA-AAAATTTGCTCGAAGC-AATGGATCGTCTTGAATACTTTAAAGAATC-GAAGTTATCAAA
* * ** * * * *
17544899 GAACTCGTAAAAGTTTGACATGTTCGGAA-GTTCTTCTAAGAACCAAGAGTGACACAATTCTCAT
575 GAACTCGTAAAAGTTTGACAAGTTC-AAATGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCAC
*
17544963 GTAAATA
639 ATAAATA
* * ** * *
17544970 AGTTTTTAATTCAAAAATCTAATGTTGTTTACAAAATGACAAACTATTCAGAATAAAGGATATGA
1 AGTTTTTAATTCAAAAA-CAAATGTTGTTTACAAAATGACAAACTATTTAGACCAAAAGATGTGA
* *
17545035 TTTCCCGAGCATGGAATATTCGAAAAATTGCTCCAAGGAATGGATCGTCATGAATACTTTAAGGA
65 TTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGA
* * *
17545100 ACCAAAGTTATAAAAGAACTCGTAAAAGTATGACAATTTCGAAAGTTCATCTAAGAACCAAGAG-
130 ACCAAAGTTATAAAAGAACTAGTAAAAGTTTGACAATTTTGAAAGTTCATCTAAGAACCAAGAGA
* * * *
17545164 GGAAAATTTTCTCATGTAAATAAGTTTTTAATTCAAACACCAAAAGGTCTTTACAAAATGACAAA
195 GGAAAA--TTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGCTATTTACAAAATGACAAA
* * * * * *
17545229 CTATTTAGCCTCAA-TGATGTGATTTCCCGAGCATGGAATGTTCGAAAAATTGTTAGAAGGAATG
258 CTATTTAG-ATCAATTGATGCGATTTCTCGAGCATGGAATGTTCG-AAAACTGCTCGAAGGAATG
17545293 GATC
321 GATC
17545297 TCCTTGTATT
Statistics
Matches: 844, Mismatches: 107, Indels: 46
0.85 0.11 0.05
Matches are distributed among these distances:
646 80 0.09
647 104 0.12
648 640 0.76
649 20 0.02
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (645 bp):
AGTTTTTAATTCAAAAACAAATGTTGTTTACAAAATGACAAACTATTTAGACCAAAAGATGTGAT
TTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAA
CCAAAGTTATAAAAGAACTAGTAAAAGTTTGACAATTTTGAAAGTTCATCTAAGAACCAAGAGAG
GAAAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGCTATTTACAAAATGACAAACTA
TTTAGATCAATTGATGCGATTTCTCGAGCATGGAATGTTCGAAAACTGCTCGAAGGAATGGATCA
TCTTGAATACTTTAAGCAACCAAAGTTATAAAAGAAATCATAAAAGTTTGACAAGTTCGAAAGTC
AGGCCAAGAACCAAGAAAGAAACAATTCTAACATTAAAAAATTTTTAATTCAAAGACCAAAAGTT
GTTTACAAAATGACAAACTATTTAGACCAAAAGATATGATTTCCCAAGCATGAAATGTTCAAAAA
TTTGCTCGAAGCAATGGATCGTCTTGAATACTTTAAAGAATCGAAGTTATCAAAGAACTCGTAAA
AGTTTGACAAGTTCAAATGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACATAAATA
Found at i:17547595 original size:30 final size:30
Alignment explanation
Indices: 17547559--17547622 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
17547549 TAAGGCCAAA
17547559 TGAGACTTAAAGCTTAGCTAATATATTTAG
1 TGAGACTTAAAGCTTAGCTAATATATTTAG
17547589 TGAGACTTAAAGCTTAGCTAATATATTTAG
1 TGAGACTTAAAGCTTAGCTAATATATTTAG
17547619 TGAG
1 TGAG
17547623 TGTCCAGGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (30 bp):
TGAGACTTAAAGCTTAGCTAATATATTTAG
Found at i:17550497 original size:16 final size:15
Alignment explanation
Indices: 17550471--17550506 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
17550461 TTTCAGTTCT
17550471 TTATTGTTTATTTTA
1 TTATTGTTTATTTTA
17550486 TTATTCGTTTATTTTA
1 TTATT-GTTTATTTTA
17550502 TTATT
1 TTATT
17550507 TTTGATGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (15 bp):
TTATTGTTTATTTTA
Found at i:17551224 original size:296 final size:296
Alignment explanation
Indices: 17550690--17551538 Score: 1619
Period size: 296 Copynumber: 2.9 Consensus size: 296
17550680 CTTTCGGAAC
17550690 TGAGGAGGATGTCACGACGATGCCTCAAGTATGTCGCAACAAAGAGGAACTGAGATGTTTGTCGC
1 TGAGGAGGATGTCACGACGATGCCTCAAGTATGTCGCAACAAAGAGGAACTGAGATGTTTGTCGC
17550755 GACGAAGACTCTCTGTGTCGCGACATCGACTGTAATTTTTTGCAGGATCGATCTGACTTGATTGC
66 GACGAAGACTCTCTGTGTCGCGACATCGACTGTAATTTTTTGCAGGATCGATCTGACTTGATTGC
17550820 GCAACCCGATGGTTAAGGATTTATTTTTCTAAGTTTTTTACACCTTAAAACCTTAAATCCTAACC
131 GCAACCCGATGGTTAAGGATTTATTTTTCTAAGTTTTTTACACCTTAAAACCTTAAATCCTAACC
17550885 CTTATAAATATTAAAACACTATTCTAACTCACTCTATCTTTTTTTAACTCATAAAAATCCTTTGA
196 CTTATAAATATTAAAACACTATTCTAACTCACTCTATCTTTTTTTAACTCATAAAAATCCTTTGA
17550950 AAACCTAAAAATCCTTTCTTTTCCTATTTTCTCTTT
261 AAACCTAAAAATCCTTTCTTTTCCTATTTTCTCTTT
* *
17550986 TGAGGAGGATGTCACGACGATGCCTCAAGTATGTTGCAACAAAGAGGAACTGAGATTTTTGTCGC
1 TGAGGAGGATGTCACGACGATGCCTCAAGTATGTCGCAACAAAGAGGAACTGAGATGTTTGTCGC
* *
17551051 AACGAAGATTCTCTGTGTCGCGACATCGACTGTAATTTTTTGCAGGATCGATCTGACTTGATTGC
66 GACGAAGACTCTCTGTGTCGCGACATCGACTGTAATTTTTTGCAGGATCGATCTGACTTGATTGC
17551116 GCAACCCGATGGTTAAGGATTTATTTTTCTAAGTTTTTTACACCTTAAAACCTTAAATCCTAACC
131 GCAACCCGATGGTTAAGGATTTATTTTTCTAAGTTTTTTACACCTTAAAACCTTAAATCCTAACC
17551181 CTTATAAATATTAAAACACTATTCTAACTCACTCTATCTTTTTTTAACTCATAAAAATCCTTTGA
196 CTTATAAATATTAAAACACTATTCTAACTCACTCTATCTTTTTTTAACTCATAAAAATCCTTTGA
17551246 AAACCTAAAAATCCTTTCTTTTCCTATTTTCTCTTT
261 AAACCTAAAAATCCTTTCTTTTCCTATTTTCTCTTT
* * *
17551282 TGAGGAGGATGTCATGACGATGCCTCAAGTATGTCGCAACAAAGAGGAATTGAGATGTTTGTCGT
1 TGAGGAGGATGTCACGACGATGCCTCAAGTATGTCGCAACAAAGAGGAACTGAGATGTTTGTCGC
*
17551347 GATGAAGACTCTCTGTGTCGCGACATCGACTGTAATTTTTTGCAGGATCGATCTGACTTGATTGC
66 GACGAAGACTCTCTGTGTCGCGACATCGACTGTAATTTTTTGCAGGATCGATCTGACTTGATTGC
17551412 GCAACCCGATGGTTAAGGATTTATTTTTCTAAGTTTTTTACACCTTAAAACCTTAAATCCTAACC
131 GCAACCCGATGGTTAAGGATTTATTTTTCTAAGTTTTTTACACCTTAAAACCTTAAATCCTAACC
17551477 CTTATAAATATTAAAACACTATTCTAACTCACTCTATC-TTTTTTAACTCATAAAAATCCTTT
196 CTTATAAATATTAAAACACTATTCTAACTCACTCTATCTTTTTTTAACTCATAAAAATCCTTT
17551539 CTTTTCCTAT
Statistics
Matches: 541, Mismatches: 12, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
295 24 0.04
296 517 0.96
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (296 bp):
TGAGGAGGATGTCACGACGATGCCTCAAGTATGTCGCAACAAAGAGGAACTGAGATGTTTGTCGC
GACGAAGACTCTCTGTGTCGCGACATCGACTGTAATTTTTTGCAGGATCGATCTGACTTGATTGC
GCAACCCGATGGTTAAGGATTTATTTTTCTAAGTTTTTTACACCTTAAAACCTTAAATCCTAACC
CTTATAAATATTAAAACACTATTCTAACTCACTCTATCTTTTTTTAACTCATAAAAATCCTTTGA
AAACCTAAAAATCCTTTCTTTTCCTATTTTCTCTTT
Found at i:17552901 original size:13 final size:13
Alignment explanation
Indices: 17552883--17552907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17552873 TGCAATCAGA
17552883 GTTAAATGTCAAG
1 GTTAAATGTCAAG
17552896 GTTAAATGTCAA
1 GTTAAATGTCAA
17552908 TATACTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (13 bp):
GTTAAATGTCAAG
Found at i:17567496 original size:31 final size:31
Alignment explanation
Indices: 17567458--17567523 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
17567448 AGGACAAAAT
*
17567458 ATTTCAATCTGATTTTATTCCAATCAAATTG
1 ATTTCAATCTGATTTGATTCCAATCAAATTG
* *
17567489 ATTTCAATTTGATTTGATTCTAATCAAATTG
1 ATTTCAATCTGATTTGATTCCAATCAAATTG
17567520 ATTT
1 ATTT
17567524 AAAGGTCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (31 bp):
ATTTCAATCTGATTTGATTCCAATCAAATTG
Found at i:17569328 original size:27 final size:27
Alignment explanation
Indices: 17569298--17569353 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
17569288 CTAGAATGCT
* *
17569298 TATGCTAGAATATTTGCTAGACTGTAA
1 TATGCTAGAATATTTACTAGACTATAA
*
17569325 TATGCTAGGATATTTACTAGACTATAA
1 TATGCTAGAATATTTACTAGACTATAA
17569352 TA
1 TA
17569354 AGGGGATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (27 bp):
TATGCTAGAATATTTACTAGACTATAA
Found at i:17570711 original size:43 final size:43
Alignment explanation
Indices: 17570638--17570720 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
17570628 AAACCAAACC
* * *
17570638 AAATTTGAGATGTTGATTCGAAGATAGAGTTCGACTTGTAACG
1 AAATTTGAGATGCTGATTCAAAGAGAGAGTTCGACTTGTAACG
* *
17570681 AAATTTGAGATGCT-ACTTCAAAGAGGGAGTTTGACTTGTA
1 AAATTTGAGATGCTGA-TTCAAAGAGAGAGTTCGACTTGTA
17570721 TCGGTTAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 33 0.97
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.33
Consensus pattern (43 bp):
AAATTTGAGATGCTGATTCAAAGAGAGAGTTCGACTTGTAACG
Found at i:17571344 original size:13 final size:13
Alignment explanation
Indices: 17571326--17571352 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17571316 ATTTAATAAA
17571326 TCTTTGCTATTTT
1 TCTTTGCTATTTT
17571339 TCTTTGCTATTTT
1 TCTTTGCTATTTT
17571352 T
1 T
17571353 ACAAATGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.15, G:0.07, T:0.70
Consensus pattern (13 bp):
TCTTTGCTATTTT
Found at i:17575734 original size:30 final size:27
Alignment explanation
Indices: 17575690--17575752 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 27
17575680 TTCGTGAATA
*
17575690 TTAAACAAACGAACATGAACACACATAATT
1 TTAAATAAACGAACATGAACA-A-A-AATT
*
17575720 TTAAATAAATGAACATGAACAAAAATT
1 TTAAATAAACGAACATGAACAAAAATT
17575747 TTAAAT
1 TTAAAT
17575753 TCTTAACGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 10 0.32
28 1 0.03
29 1 0.03
30 19 0.61
ACGTcount: A:0.56, C:0.13, G:0.06, T:0.25
Consensus pattern (27 bp):
TTAAATAAACGAACATGAACAAAAATT
Found at i:17576478 original size:21 final size:21
Alignment explanation
Indices: 17576454--17576522 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
17576444 TTAAAATTAT
17576454 TAAAATTATTTTTTTTAAATA
1 TAAAATTATTTTTTTTAAATA
** *
17576475 TAAAATTATTAATATT--AT-
1 TAAAATTATTTTTTTTAAATA
* *
17576493 T-ATATTATTTTTTTGAAATA
1 TAAAATTATTTTTTTTAAATA
17576513 TAAAATTATT
1 TAAAATTATT
17576523 AAATAATTTT
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
17 9 0.26
18 1 0.03
19 4 0.11
20 1 0.03
21 20 0.57
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (21 bp):
TAAAATTATTTTTTTTAAATA
Found at i:17576503 original size:38 final size:39
Alignment explanation
Indices: 17576444--17576525 Score: 130
Period size: 38 Copynumber: 2.1 Consensus size: 39
17576434 GTAAATTATT
*
17576444 TTAAAATTATTAAAATTATTTTTTTTAAATATAAAATTA
1 TTAAAATTATTAAAATTATTTTTTTGAAATATAAAATTA
* *
17576483 TTAATATTATT-ATATTATTTTTTTGAAATATAAAATTA
1 TTAAAATTATTAAAATTATTTTTTTGAAATATAAAATTA
17576521 TTAAA
1 TTAAA
17576526 TAATTTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 29 0.74
39 10 0.26
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (39 bp):
TTAAAATTATTAAAATTATTTTTTTGAAATATAAAATTA
Found at i:17577307 original size:9 final size:9
Alignment explanation
Indices: 17577293--17577324 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
17577283 TCAAAGAAAA
17577293 TTTAATAAT
1 TTTAATAAT
17577302 TTTAATAAT
1 TTTAATAAT
17577311 TTTAATAAT
1 TTTAATAAT
17577320 TTTAA
1 TTTAA
17577325 AATAATTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTAATAAT
Found at i:17583616 original size:24 final size:24
Alignment explanation
Indices: 17583589--17583634 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
17583579 TATAGATACA
*
17583589 ATTTTATTTTCTTTTA-TTTTTAGT
1 ATTTCATTTTC-TTTACTTTTTAGT
17583613 ATTTCATTTTCTTTACTTTTTA
1 ATTTCATTTTCTTTACTTTTTA
17583635 TTTGATTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (24 bp):
ATTTCATTTTCTTTACTTTTTAGT
Found at i:17591081 original size:18 final size:19
Alignment explanation
Indices: 17591053--17591107 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
17591043 TACGTGTCCT
17591053 CAAGCAAACAAATAAAAAA-A
1 CAAG-AAACAAA-AAAAAAGA
17591073 CAA-AAACAAAAGAAAAAGA
1 CAAGAAACAAAA-AAAAAGA
17591092 CAAGAAACAAAGAAAA
1 CAAGAAACAAA-AAAA
17591108 GAATAGTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.03
18 12 0.39
19 4 0.13
20 13 0.42
21 1 0.03
ACGTcount: A:0.76, C:0.13, G:0.09, T:0.02
Consensus pattern (19 bp):
CAAGAAACAAAAAAAAAGA
Found at i:17591094 original size:19 final size:19
Alignment explanation
Indices: 17591053--17591107 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
17591043 TACGTGTCCT
17591053 CAAGCAAACAAATA-AAAAAA
1 CAAG-AAACAAA-AGAAAAAA
17591073 CAA-AAACAAAAGAAAAAGA
1 CAAGAAACAAAAGAAAAA-A
17591092 CAAGAAAC-AAAGAAAA
1 CAAGAAACAAAAGAAAA
17591108 GAATAGTGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.03
18 12 0.38
19 12 0.38
20 7 0.22
ACGTcount: A:0.76, C:0.13, G:0.09, T:0.02
Consensus pattern (19 bp):
CAAGAAACAAAAGAAAAAA
Found at i:17599608 original size:83 final size:83
Alignment explanation
Indices: 17599469--17599632 Score: 283
Period size: 83 Copynumber: 2.0 Consensus size: 83
17599459 CATAAGGTGG
* * *
17599469 TTACCAAGTTTTGGGAAAAAGAGACCACTCTTTTGGATCTAGGTGCACCGCTTCATTTTCTCGTA
1 TTACCAAGTATGGGGAAAAAGAGACCACTCTTTTGGATCTAGGTGCACCGCTTCATTTCCTCGTA
17599534 GATCCAAGAAACTAAAAA
66 GATCCAAGAAACTAAAAA
*
17599552 TTACCAAGTATGGGGAAAAAGAGACCACTCTTTTGGCTCTAGGTGCACCGCTTCATTTCCTCGTA
1 TTACCAAGTATGGGGAAAAAGAGACCACTCTTTTGGATCTAGGTGCACCGCTTCATTTCCTCGTA
*
17599617 GATCCAAGAACCTAAA
66 GATCCAAGAAACTAAA
17599633 CAAACTTGCT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (83 bp):
TTACCAAGTATGGGGAAAAAGAGACCACTCTTTTGGATCTAGGTGCACCGCTTCATTTCCTCGTA
GATCCAAGAAACTAAAAA
Found at i:17606028 original size:17 final size:17
Alignment explanation
Indices: 17606006--17606052 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
17605996 ATATATATGG
**
17606006 AAATGCAATGACAATGT
1 AAATGCAATGACAATAA
*
17606023 AAATGCAACGACAATAA
1 AAATGCAATGACAATAA
17606040 AAATGCAATGACA
1 AAATGCAATGACA
17606053 TTAATAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.17
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:17606061 original size:17 final size:16
Alignment explanation
Indices: 17606006--17606061 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
17605996 ATATATATGG
17606006 AAATGCAATGACAATGT-
1 AAATGCAATGAC-AT-TA
* *
17606023 AAATGCAACGACAATAA
1 AAATGCAATGAC-ATTA
17606040 AAATGCAATGACATTA
1 AAATGCAATGACATTA
17606056 ATAATG
1 A-AATG
17606062 TAGGGACAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 4 0.12
17 29 0.88
ACGTcount: A:0.52, C:0.12, G:0.14, T:0.21
Consensus pattern (16 bp):
AAATGCAATGACATTA
Found at i:17611688 original size:216 final size:214
Alignment explanation
Indices: 17611175--17614743 Score: 3513
Period size: 216 Copynumber: 16.6 Consensus size: 214
17611165 TAATAATTCT
** * *
17611175 TTTTTAATTCAAATTCCAAAAGTTGTTTACACAATGACAAAATATTTAGACCAAATGATGTGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
*
17611240 T-TCCGAGCATGGAATGTTCAGAATATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
66 TCT-CGAGCATGGAATGTTC-GAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
** * * ** * * *
17611304 CTGAAGTTATAAAAGAACTCATAAAAGTTTGCCTTGTTCGGAAGTTCTTCTAAGAACCAAGAGAG
129 CCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC-GCCAAGAACCAAGAGAG
17611369 AAA-AATTCAT-ACGTAAATAAG
193 AAACAATTC-TCACGTAAATAAG
* * * * * *
17611390 TTTTTAATTTAAAGA-AAAAGAGCTATTTACAAAGTGACAAACTATTTAGACCAAATGATGCGAT
1 TTTTTAATTCAAAGACCAAA-AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGAT
* * * * * *
17611454 TTCCCTAGAATGGAATGTTCGAAACATTGCTCGAAGGAATGGATCATCTTGAATAGTTTAATGAA
65 TTCTCGAGCATGGAATGTTCGAAA-ATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
* * * * *
17611519 CCAAAGTTATAAAAGAATTCATAAAAGTTTGACAAGTTTGGAAGTCCAGCCAAGAACCAAGAGAG
129 CCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC-GCCAAGAACCAAGAGAG
* *
17611584 AAACAATTCTTACATAAATAAG
193 AAACAATTCTCACGTAAATAAG
* **
17611606 TTTTTAATTTAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * * * * *
17611671 TCTCAAGTATGGAATGTTCAAAAAATTGCTCGAAGTAATGGATTGTCTTGAATACATTAAGGAAT
66 TCTCGAGCATGGAATGTTC-GAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
* * *
17611736 CAAAGTTATAAAAGAACCCATAAAAGTTTGACAAGTTC-AAATGTTTGTCCAAGAACCAAGAGAG
130 CAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAA-GTTCG-CCAAGAACCAAGAGAG
* *
17611800 AAA-AATCCTCAAGTAAATAAG
193 AAACAATTCTCACGTAAATAAG
* * * * * **
17611821 TTCTAAATTCAAAGACAAAAATTTGTTTACAAAATGACAAACTATTTTGACCAAAAAAATGTGAT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACC-AAATGATGTGAT
* * ** **
17611886 TTCTCGAGCATGGAATGTTCGATATATTGCTTGAAGGAATGGATAATCAAGAATACTTTAAGGAT
65 TTCTCGAGCATGGAATGTTCGA-AAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA-
* * *
17611951 A--AAAGTTATAAAAGAACTCATAAAAGTTTAACAATTTCGAAAGTTCGTCCAAGAACCAAGAGA
128 ACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCG-CCAAGAACCAAGAGA
*
17612014 TAAACAATTCTCACGTAAATAAG
192 GAAACAATTCTCACGTAAATAAG
* *
17612037 TTCTTAATTCAAAGACCAAAAGTTGTTTACAAAATGGCAAACTATTTAGACCAAATGATGTGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * * *
17612102 TCTCGAGCATGAAATTTTTAGAAAATTGCTCGAACGAATGGATCGTCTTGAATACTTTATGGAA-
66 TCTCGAGCATGGAA-TGTTCGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
* * * * * * *
17612166 CAGAAGTTATAAAAGAACTCGTAAAAGTTTGACATGTTCAAAATTTCTTCTAAGAACTAAGAGTG
130 CA-AAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC-GCCAAGAACCAAGAGAG
17612231 AAACAATTCTCACGTAAATAAG
193 AAACAATTCTCACGTAAATAAG
* * * *
17612253 TTTTTAATTCAAACACCGAAAGTTGTTTACAAAATGACAAACTATTCAGACCAAAGGATGTGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * * * * *
17612318 CCCCGAGCATGGAATATTCGAAAAATTGCTCCAAAGAATGGATCGTCATGAATACTGTAAGGAAC
66 TCTCGAGCATGGAATGTTCG-AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
* * * * * * * * *
17612383 AAAAGTTATTAAAGAGCTCGTAAAAGTATGACAATTTCAAAAGTTCGTCTAAGAAACAAGTGAGA
130 CAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCG-CCAAGAACCAAGAGAGA
* *
17612448 AA-ATTTTCTCATGTAAATAAG
194 AACA-ATTCTCACGTAAATAAG
* * * * ** *
17612469 TTTTTAATTC-AAGCACCAAAAGTTCTTTACAAAGTGGCAAACTATTTAGCCCCTATTATGTGAT
1 TTTTTAATTCAAAG-ACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGAT
* * *
17612533 TTC-CTGAGCATGGAATGTTCAGCAAATTGCTCGAAGGAACGGATC-TCCTTGAATACTTTATGG
65 TTCTC-GAGCATGGAATGTTC-GAAAATTGCTCGAAGGAATGGATCGT-CTTGAATACTTTAAGG
*** * * * *
17612596 AATTGAAGTTATAAAAGAACTCGTAAAAGTTTAAAAAGTT-TAAAGTTCGTCTAAGAACCAAGAG
127 AACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCG-CCAAGAACCAAGAG
* * *
17612660 GGAAACAATTCTCACATGAATAAG
191 AGAAACAATTCTCACGTAAATAAG
* * * * * *
17612684 TATTTAATTCAATGACCAAAAGTTATTTACAAAATAACAAACTATTTAAACCAAACGATGCT-AT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATG-TGAT
* * * * *
17612748 TTCTTGAGCATGGAATGTTCGAAAAATTTCTCAAAGGAAGGGATCGTCCTGAA-AGCTTTAAGGA
65 TTCTCGAGCATGGAATGTTCG-AAAATTGCTCGAAGGAATGGATCGTCTTGAATA-CTTTAAGGA
* * * ** * *
17612812 ATCGAAGTTACAAAAGAAAACGTAAAAGTTTAACAAGTTC-AGAAGTTCGTCCCAGAACCAAGAG
128 ACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGA-AAGTTCG-CCAAGAACCAAGAG
*
17612876 AGAAACAATTCTCATGTAAATAA-
191 AGAAACAATTCTCACGTAAATAAG
** * ** * *
17612899 AATTTAATTTCAAAGACCAAAAGCTGTTTACAAAATGACAATTTATTTAGACCGAATGATGCGAT
1 TTTTTAA-TTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGAT
* * ** *
17612964 TTCTCGAGCATGAAATGTTCGGTAAATCACTCGACGGAATGGATCGTCTTGAATACTTTAAGGAA
65 TTCTCGAGCATGGAATGTTC-GAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
* * * * *
17613029 TCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAATTTCGGAAGTTCGTCCCAGAACCAAGA-A-
129 CCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCG-CCAAGAACCAAGAGAG
*
17613092 AGAC-A----CA--TAAA-AGAG
193 AAACAATTCTCACGTAAATA-AG
* * * **
17613107 TTTTAAATTCAAAGACCAAAATTTGTTTACAGAATGACAAACTATTTAGACCAAATGATGCAATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * * * *
17613172 TC-CTGAGCATGGAATATTCAGAAAACTGCTTGAAGGAATGGATCGCCTTTAATACTTTAAGAAA
66 TCTC-GAGCATGGAATGTTC-GAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
** * *
17613236 CTGAAGTTA-ATAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCTAGAACCAAGAGA
129 CCAAAGTTATA-AAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC-GCCAAGAACCAAGAGA
*
17613300 GAAACAATTCTCACGTAAATATG
192 GAAACAATTCTCACGTAAATAAG
* * * *
17613323 TTTTTAATTCAAAGA-CAAAATCTTTTTTACAAAATGAAAAACTATTTAG-CCAAATGATGCGAT
1 TTTTTAATTCAAAGACCAAAA-GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGAT
* * * ** *
17613386 TTTTCGGGCATGGAATGTTCAAAAAATTGCTAAAAGGAATGGATC-ACATTGAATACTTTAAGGA
65 TTCTCGAGCATGGAATGTTC-GAAAATTGCTCGAAGGAATGGATCGTC-TTGAATACTTTAAGGA
* ** *
17613450 AGCAAAGTTATAAAAGAGTTCGTAAAAGTTTGACAAGTTTGACAAGTTCGAAACTTCATTCTAGA
128 ACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGA-AAGTTCG---C--CA----AGA
* * * *
17613515 ACAAAGAGAGAAACAACTCTCACTTAACTAAG
183 ACCAAGAGAGAAACAATTCTCACGTAAATAAG
* * *
17613547 TTTTAAATTCAAAGACCAAAAGTTGTTTACAGAATGACAAACTATTTGGACCAAATGATGTGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * *
17613612 TCCCGAGCATGGAATGTTCGAAAAATTGCTTGAAGGAATGGATCGCCTTGAATACTTTAAGAAAC
66 TCTCGAGCATGGAATGTTCG-AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
** * *
17613677 TGAGGTTA-ATAAAGAACTCGTGAAAGTTTGACAAGTTCGAAAGTTCGTCCTAA-AACCAAGAGA
130 CAAAGTTATA-AAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCG-CC-AAGAACCAAGAGA
* * *
17613740 GTAACAATTCTCATGTAAATATG
192 GAAACAATTCTCACGTAAATAAG
*
17613763 TTTTTAATTCAAAGA-CAAAA-TCAGTTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
1 TTTTTAATTCAAAGACCAAAAGT-TG-TTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
* * * * * * *
17613826 TTTCCCGAGCATGGAAAGTTCAGAAAACTGCTTGAAGGAATGGATCGCCTTGAATACTCTAATGA
64 TTTCTCGAGCATGGAATGTTC-GAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
* * * * * * * *
17613891 AGCAAAGTTATAAAAGAATTCGTAAAAGTTTGACAAGTTAGGAACTTCATCCTAGAACAAAGAGA
128 ACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC-GCCAAGAACCAAGAGA
* * *
17613956 GAAACAACTCTCACTTAACTAAG
192 GAAACAATTCTCACGTAAATAAG
* ** *
17613979 TTTTAAATTCAAAGACCAAAAGTTGTTTACAAAATGATGAACTATTTAGACCAAATGATTTGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * * * * *
17614044 TC-CAGAGGATGGAATGTTTGGAAAATTGCTCAAAGGATTTGATCGACTTGAATATTTTAAGGAA
66 TCTC-GAGCATGGAATG-TTCGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
* * ** * * *
17614108 CCGAAGTTATAAAATAACTCACAAAAGTTTGACAAGTTC-AGATGTCCGGCCAAGAAACAAGAGA
129 CCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGA-AAGTTC-GCCAAGAACCAAGAGA
17614172 GAAACAATTCTCACGTAAATAAG
192 GAAACAATTCTCACGTAAATAAG
* * * *
17614195 TTTTTAATTCAAAGACCAAAATTTGTTCAC-AAATGAAAAACTATTTAGACCAAATGATGTGACT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * * *
17614259 TCCCGAGCATGGAATGTTCAAAAAATTGCTCGAACGAATGGATCGCCTTGAATACTTTAAGAAAC
66 TCTCGAGCATGGAATGTTC-GAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
** * * *
17614324 TGAAGTTA-ATAAAGAACTCGTAAAATTTTAACAAGTTCGAAAGATCGGCCAAGAACCAAGAGAG
130 CAAAGTTATA-AAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC-GCCAAGAACCAAGAGAG
*
17614388 AAACAATTCTCATGTAAATAAG
193 AAACAATTCTCACGTAAATAAG
* * * * **
17614410 TTTTTAATTTAAAGACCAAAAGTTGTTTATAAAATAAAAAACTATTTAGACCAAATGATGCAATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * ** * *
17614475 TC-CTGATCATGGAATGTTCAGAAAACTGCTCG-AGGAATGGATCAACTTGAAAACTTTAAGAAA
66 TCTC-GAGCATGGAATGTTC-GAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
* * * * * * * * *
17614538 CTAAAG-TAAATAAAGAGCTCATTAAAGTTTGACAAGTTCAAAAGATCGATCAAGAACCAAGATA
129 CCAAAGTTATA-AAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCG-CCAAGAACCAAGAGA
*
17614602 GAAACAATCCTCACGTAAATACA-
192 GAAACAATTCTCACGTAAATA-AG
* * * ** * * * ** *
17614625 TTTTTAATTCACAGAACACATCTTGTTTACAAAAAGATAAACTATTTAGACCAAATAATGCAATA
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * *
17614690 TCCCGAGCATGGAATGTTTGGAAAATTGCTCAAAGGAATGGATCG-CGTTGAATA
66 TCTCGAGCATGGAATG-TTCGAAAATTGCTCGAAGGAATGGATCGTC-TTGAATA
17614744 GTTTTTAATT
Statistics
Matches: 2794, Mismatches: 461, Indels: 197
0.81 0.13 0.06
Matches are distributed among these distances:
206 3 0.00
207 159 0.06
208 5 0.00
209 5 0.00
210 1 0.00
213 1 0.00
214 22 0.01
215 987 0.35
216 1403 0.50
217 23 0.01
218 2 0.00
220 2 0.00
221 1 0.00
222 1 0.00
224 75 0.03
225 103 0.04
226 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (214 bp):
TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
TCTCGAGCATGGAATGTTCGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACC
AAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGCCAAGAACCAAGAGAGAAA
CAATTCTCACGTAAATAAG
Found at i:17611978 original size:431 final size:429
Alignment explanation
Indices: 17611175--17614743 Score: 3545
Period size: 431 Copynumber: 8.3 Consensus size: 429
17611165 TAATAATTCT
** * *
17611175 TTTTTAATTCAAATTCCAAAAGTTGTTTACACAATGACAAAATATTTAGACCAAATGATGTGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
*
17611240 T-TCCGAGCATGGAATGTTCAGAATATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
66 TCT-CGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
* * * ** * * *
17611304 -CTGAAGTTATAAAAGAACTCATAAAAGTTTGCCTTGTTCGGAAGTTCTTCTAAGAACCAAGAGA
130 TC-AAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGA
* * * * * *
17611368 GAAA-AAT--TCATACGTAAATAAGTTTTTAATTTAAAGA-AAAAGAGCTATTTACAAAGTGACA
194 GAAACAATCCTCA-A-GTAAATAAGTTTTAAATTCAAAGACCAAA-AGTTGTTTACAAAATGACA
* * * *
17611429 AACTATTTAGACCAAATGATGCGATTTCCCTAGAATGGAATGTTCGAAACATTGCTCGAAGGAAT
256 AACTATTTAGACCAAATGATGTGATTT-CCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAAT
* * * **
17611494 GGATCATCTTGAATAGTTTAATGAACCAAAGTTATAAAAGAATTCATAAAAGTTTGACAAGTTTG
320 GGATCATCTTGAATACTTTAAGGAA--AAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCA
* * * *
17611559 GAAGTCCAG-CCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAG
383 AAAGTTC-GTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG
* **
17611606 TTTTTAATTTAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * * * *
17611671 TCTCAAGTATGGAATGTTCAAAAAATTGCTCGAAGTAATGGATTGTCTTGAATACATTAAGGAAT
66 TCTCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAT
* * *
17611736 CAAAGTTATAAAAGAACCCATAAAAGTTTGACAAGTTC-AAATGTTTGTCCAAGAACCAAGAGAG
131 CAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAA-GTTCGTCCAAGAACCAAGAGAG
* * *
17611800 AAA-AATCCTCAAGTAAATAAGTTCTAAATTCAAAGACAAAAATTTGTTTACAAAATGACAAACT
195 AAACAATCCTCAAGTAAATAAGTTTTAAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACT
* ** * * *
17611864 ATTTTGACCAAAAAAATGTGATTTCTCGAGCATGGAATGTTCGATATATTGCTTGAAGGAATGGA
260 ATTTAGACC-AAATGATGTGATTTC-CGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGA
* ** * * *
17611929 TAATCAAGAATACTTTAAGGATAAAAGTTATAAAAGAACTCATAAAAGTTTAACAATTTCGAAAG
323 TCATCTTGAATACTTTAAGGA-AAAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCAAAAG
*
17611994 TTCGTCCAAGAACCAAGAGATAAACAATTCTCACGTAAATAAG
387 TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG
* *
17612037 TTCTTAATTCAAAGACCAAAAGTTGTTTACAAAATGGCAAACTATTTAGACCAAATGATGTGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * * *
17612102 TCTCGAGCATGAAATTTTTAGAAAATTGCTCGAACGAATGGATCGTCTTGAATACTTTATGGAA-
66 TCTCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAT
* * * * * * *
17612166 CAGAAGTTATAAAAGAACTCGTAAAAGTTTGACATGTTCAAAATTTCTTCTAAGAACTAAGAGTG
131 CA-AAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAG
* * * * *
17612231 AAACAATTCTCACGTAAATAAGTTTTTAATTCAAACACCGAAAGTTGTTTACAAAATGACAAACT
195 AAACAATCCTCAAGTAAATAAGTTTTAAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACT
* * * * * *
17612296 ATTCAGACCAAAGGATGTGATTCCCCGAGCATGGAATATTCGAAAAATTGCTCCAAAGAATGGAT
260 ATTTAGACCAAATGATGTGATT-TCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGAT
* * * * * * * *
17612361 CGTCATGAATACTGTAAGGAACAAAAGTTATTAAAGAGCTCGTAAAAGTATGACAATTTCAAAAG
324 CATCTTGAATACTTTAAGG-A-AAAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCAAAAG
* * * * *
17612426 TTCGTCTAAGAAACAAGTGAGAAA-ATTTTCTCATGTAAATAAG
387 TTCGTCCAAGAACCAAGAGAGAAACA-ATTCTCACGTAAATAAG
* * * * ** *
17612469 TTTTTAATTC-AAGCACCAAAAGTTCTTTACAAAGTGGCAAACTATTTAGCCCCTATTATGTGAT
1 TTTTTAATTCAAAG-ACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGAT
* * *
17612533 TTC-CTGAGCATGGAATGTTCAGCAAATTGCTCGAAGGAACGGATC-TCCTTGAATACTTTATGG
65 TTCTC-GAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCGT-CTTGAATACTTTAAGG
** * * * *
17612596 AATTGAAGTTATAAAAGAACTCGTAAAAGTTTAAAAAGTT-TAAAGTTCGTCTAAGAACCAAGAG
128 AATCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAG
* * * * * *
17612660 GGAAACAATTCTCACA-TGAATAAGTATTT-AATTCAATGACCAAAAGTTATTTACAAAATAACA
193 AGAAACAATCCTCA-AGTAAATAAGT-TTTAAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
* * * * *
17612723 AACTATTTAAACCAAACGATGCT-ATTTCTTGAGCATGGAATGTTCGAAAAATTTCTCAAAGGAA
256 AACTATTTAGACCAAATGATG-TGATTTC-CGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAA
* * * * * ** * *
17612787 GGGATCGTCCTGAA-AGCTTTAAGGAATCGAAGTTACAAAAGAAAACGTAAAAGTTTAACAAGTT
319 TGGATCATCTTGAATA-CTTTAAGGAA--AAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTT
* * *
17612851 CAGAAGTTCGTCCCAGAACCAAGAGAGAAACAATTCTCATGTAAATAA-
381 CAAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG
** * ** * *
17612899 AATTTAATTTCAAAGACCAAAAGCTGTTTACAAAATGACAATTTATTTAGACCGAATGATGCGAT
1 TTTTTAA-TTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGAT
* * * ** *
17612964 TTCTCGAGCATGAAATGTTCGGTAAATCACTCGACGGAATGGATCGTCTTGAATACTTTAAGGAA
65 TTCTCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
* * * *
17613029 TCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAATTTCGGAAGTTCGTCCCAGAACCAAGA-A-
130 TCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAG
* * *
17613092 AGAC-A----C-A-TAAA-AGAGTTTTAAATTCAAAGACCAAAATTTGTTTACAGAATGACAAAC
195 AAACAATCCTCAAGTAAATA-AGTTTTAAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAAC
** * * *
17613149 TATTTAGACCAAATGATGCAATTTCCTGAGCATGGAATATTC-AGAAAACTGCTTGAAGGAATGG
259 TATTTAGACCAAATGATGTGATTTCC-GAGCATGGAATGTTCGA-AAAATTGCTCGAAGGAATGG
** * * *
17613213 ATCGCCTTTAATACTTTAA-GAAACTGAAGTTA-ATAAAGAACTCGTAAAAGTTTGACAAGTTCG
322 ATCATCTTGAATACTTTAAGGAAA---AAGTTATA-AAAGAACTCATAAAAGTTTGACAAGTTCA
* * *
17613276 AAAGTTCATCCTAGAACCAAGAGAGAAACAATTCTCACGTAAATATG
383 AAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG
* * * *
17613323 TTTTTAATTCAAAGA-CAAAATCTTTTTTACAAAATGAAAAACTATTTAG-CCAAATGATGCGAT
1 TTTTTAATTCAAAGACCAAAA-GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGAT
* * * ** *
17613386 TTTTCGGGCATGGAATGTTCAAAAAATTGCTAAAAGGAATGGATC-ACATTGAATACTTTAAGGA
65 TTCTCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCGTC-TTGAATACTTTAAGGA
* ** * *
17613450 AGCAAAGTTATAAAAGAGTTCGTAAAAGTTTGACAAGTTTGACAAGTTCGAAACTTCATTCTAGA
129 ATCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGA-AAGTTCG-----TC---CAAGA
* ** * *
17613515 ACAAAGAGAGAAACAA-CTCTCACTTAACTAAGTTTTAAATTCAAAGACCAAAAGTTGTTTACAG
185 ACCAAGAGAGAAACAATC-CTCAAGTAAATAAGTTTTAAATTCAAAGACCAAAAGTTGTTTACAA
* *
17613579 AATGACAAACTATTTGGACCAAATGATGTGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTTG
249 AATGACAAACTATTTAGACCAAATGATGTGATTT-CCGAGCATGGAATGTTCGAAAAATTGCTCG
** * * *
17613644 AAGGAATGGATCGCCTTGAATACTTTAA-GAAACTGAGGTTA-ATAAAGAACTCGTGAAAGTTTG
313 AAGGAATGGATCATCTTGAATACTTTAAGGAAA---AAGTTATA-AAAGAACTCATAAAAGTTTG
* * * *
17613707 ACAAGTTCGAAAGTTCGTCCTAA-AACCAAGAGAGTAACAATTCTCATGTAAATATG
374 ACAAGTTCAAAAGTTCGTCC-AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG
*
17613763 TTTTTAATTCAAAGA-CAAAA-TCAGTTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
1 TTTTTAATTCAAAGACCAAAAGT-TG-TTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
* * * * * * *
17613826 TTTCCCGAGCATGGAAAGTTCAGAAAACTGCTTGAAGGAATGGATCGCCTTGAATACTCTAATGA
64 TTTCTCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
* * * * * * * *
17613891 AGCAAAGTTATAAAAGAATTCGTAAAAGTTTGACAAGTTAGGAACTTCATCCTAGAACAAAGAGA
129 ATCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGA
** * **
17613956 GAAACAA-CTCTCACTTAACTAAGTTTTAAATTCAAAGACCAAAAGTTGTTTACAAAATGATGAA
194 GAAACAATC-CTCAAGTAAATAAGTTTTAAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAA
* * * * * * *
17614020 CTATTTAGACCAAATGATTTGATTTCCAGAGGATGGAATGTTTGGAAAATTGCTCAAAGGATTTG
258 CTATTTAGACCAAATGATGTGATTTCC-GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGG
* * * * *
17614085 ATCGA-CTTGAATATTTTAAGGAACCGAAGTTATAAAATAACTCACAAAAGTTTGACAAGTTCAG
322 ATC-ATCTTGAATACTTTAAGGAA--AAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCAA
* * * *
17614149 ATGTCCGGCCAAGAAACAAGAGAGAAACAATTCTCACGTAAATAAG
384 AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG
* * * *
17614195 TTTTTAATTCAAAGACCAAAATTTGTTCAC-AAATGAAAAACTATTTAGACCAAATGATGTGACT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * * *
17614259 TCCCGAGCATGGAATGTTCAAAAAATTGCTCGAACGAATGGATCGCCTTGAATACTTTAA-GAAA
66 TCTCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAT
* * * * *
17614323 CTGAAGTTA-ATAAAGAACTCGTAAAATTTTAACAAGTTCGAAAGATCGGCCAAGAACCAAGAGA
131 C-AAAGTTATA-AAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGA
* * * * * * *
17614387 GAAACAATTCTCATGTAAATAAGTTTTTAATTTAAAGACCAAAAGTTGTTTATAAAATAAAAAAC
194 GAAACAATCCTCAAGTAAATAAGTTTTAAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAAC
** * *
17614452 TATTTAGACCAAATGATGCAATTTCCTGATCATGGAATGTTC-AGAAAACTGCTCG-AGGAATGG
259 TATTTAGACCAAATGATGTGATTTCC-GAGCATGGAATGTTCGA-AAAATTGCTCGAAGGAATGG
* * * * * *
17614515 ATCAACTTGAAAACTTTAAGAAACTAAAG-TAAATAAAGAGCTCATTAAAGTTTGACAAGTTCAA
322 ATCATCTTGAATACTTTAAGGAA--AAAGTTATA-AAAGAACTCATAAAAGTTTGACAAGTTCAA
* * *
17614579 AAGATCGAT-CAAGAACCAAGATAGAAACAATCCTCACGTAAATACA-
384 AAGTTCG-TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATA-AG
* * * ** * * * ** *
17614625 TTTTTAATTCACAGAACACATCTTGTTTACAAAAAGATAAACTATTTAGACCAAATAATGCAATA
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* ** *
17614690 TCCCGAGCATGGAATGTTTGGAAAATTGCTCAAAGGAATGGATCG-CGTTGAATA
66 TCTCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCGTC-TTGAATA
17614744 GTTTTTAATT
Statistics
Matches: 2640, Mismatches: 407, Indels: 182
0.82 0.13 0.06
Matches are distributed among these distances:
421 1 0.00
422 112 0.04
423 212 0.08
424 6 0.00
425 1 0.00
428 2 0.00
429 6 0.00
430 135 0.05
431 1181 0.45
432 603 0.23
433 17 0.01
434 2 0.00
435 2 0.00
438 2 0.00
440 249 0.09
441 108 0.04
442 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (429 bp):
TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
TCTCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAT
CAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGA
AACAATCCTCAAGTAAATAAGTTTTAAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA
TTTAGACCAAATGATGTGATTTCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCA
TCTTGAATACTTTAAGGAAAAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCAAAAGTTCG
TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG
Found at i:17612532 original size:647 final size:645
Alignment explanation
Indices: 17611175--17614743 Score: 3779
Period size: 647 Copynumber: 5.5 Consensus size: 645
17611165 TAATAATTCT
** * *
17611175 TTTTTAATTCAAATTCCAAAAGTTGTTTACACAATGACAAAATATTTAGACCAAATGATGTGATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA-T
* *
17611240 TTCC-GAGCATGGAATGTTCAGAATATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
65 TTCCTGAGCATGGAATGTTCAGAAAACTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA
* * ** * * *
17611304 CTGAAGTTATAAAAGAACTCATAAAAGTTTGCCTTGTTCGGAAGTTCTTCTAAGAACCAAGAGAG
130 C-AAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAG
* * * * *
17611369 AAA-AATTCAT-ACGTAAATAAGTTTTTAATTTAAAGA-AAAAGAGCTATTTACAAAGTGACAAA
194 AAACAATTC-TCACGTAAATAAGTTTTTAATTCAAAGACCAAA-AGTTGTTTACAAAATGACAAA
* * * * *
17611431 CTATTTAGACCAAATGATGCGATTTCCCTAGAATGGAATG-TTCGAAACATTGCTCGAAGGAATG
257 CTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAGAAA-ATTGCTCAAAGGAATG
* * * * * **
17611495 GATCATCTTGAATAGTTTAATGAACCA-AAGTTATAAAAGAATTCATAAAAGTTTGACAAGTTTG
321 GATCGTCTTGAATACTTTAAGGAACCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCA
* * * * *
17611559 GAAGTCCAG-CCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTTTTTAATTTAAAGACC
386 AAAGTTC-GTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACC
** * * *
17611623 AAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTCAAGTATGGAATGT
450 AAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCATGGAATGT
* * * * *
17611688 TCAAAAAATTGCTCG-AAGTAATGGATTGTCTTGAATACATTAAGGAATCAAAGTTATAAAAGAA
515 TCGAAAAATTGCTCGAAAG-AATGGATCGTCTTGAATACTTTAAGGAA-CGAAGTTATTAAAGAA
* * * * *
17611752 CCCATAAAAGTTTGACAAGTTC-AAATGTTTGTCCAAGAACCAAGAGAGAAAAATCCTCAAGTAA
578 CTCGTAAAAGTTTGACAAGTTCGAAA-GTTCGTCCAAGAACCAAGAGAG-AAAATTCTCATGTAA
17611816 ATAAG
641 ATAAG
* * * * * **
17611821 TTCTAAATTCAAAGACAAAAATTTGTTTACAAAATGACAAACTATTTTGACCAAAAAAATGTGAT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACC-AAATGATGTGAT
* * * ** **
17611886 TT-CTCGAGCATGGAATGTTC-GATATATTGCTTGAAGGAATGGATAATCAAGAATACTTTAAGG
65 TTCCT-GAGCATGGAATGTTCAGA-AAACTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGG
* *
17611949 ATA-AAAGTTATAAAAGAACTCATAAAAGTTTAACAATTTCGAAAGTTCGTCCAAGAACCAAGAG
128 A-ACAAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAG
* * *
17612013 ATAAACAATTCTCACGTAAATAAGTTCTTAATTCAAAGACCAAAAGTTGTTTACAAAATGGCAAA
192 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAA
* * * * *
17612078 CTATTTAGACCAAATGATGTGATTTCTCGAGCATGAAATTTTTAGAAAATTGCTCGAACGAATGG
257 CTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAGAAAATTGCTCAAAGGAATGG
* *
17612143 ATCGTCTTGAATACTTTATGGAA-CAGAAGTTATAAAAGAACTCGTAAAAGTTTGACATGTTCAA
322 ATCGTCTTGAATACTTTAAGGAACCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAA
* * * * * * *
17612207 AATTTCTTCTAAGAACTAAGAGTGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAACACCGA
387 AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAA
* * * *
17612272 AAGTTGTTTACAAAATGACAAACTATTCAGACCAAAGGATGTGATTCCCCGAGCATGGAATATTC
452 AAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCATGGAATGTTC
* * * * *
17612337 GAAAAATTGCTCCAAAGAATGGATCGTCATGAATACTGTAAGGAACAAAAGTTATTAAAGAGCTC
517 GAAAAATTGCTCGAAAGAATGGATCGTCTTGAATACTTTAAGGAAC-GAAGTTATTAAAGAACTC
* * * * * *
17612402 GTAAAAGTATGACAATTTCAAAAGTTCGTCTAAGAAACAAGTGAGAAAATTTTCTCATGTAAATA
581 GTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAAA--TTCTCATGTAAATA
17612467 AG
644 AG
* * * * ** *
17612469 TTTTTAATTC-AAGCACCAAAAGTTCTTTACAAAGTGGCAAACTATTTAGCCCCTATTATGTGAT
1 TTTTTAATTCAAAG-ACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGAT
* * * *
17612533 TTCCTGAGCATGGAATGTTCAGCAAATTGCTCGAAGGAACGGATC-TCCTTGAATACTTTATGGA
65 TTCCTGAGCATGGAATGTTCAGAAAACTGCTCGAAGGAATGGATCGT-CTTGAATACTTTAAGGA
** * * * * * *
17612597 ATTGAAGTTATAAAAGAACTCGTAAAAGTTTAAAAAGTT-TAAAGTTCGTCTAAGAACCAAGAGG
129 A-CAAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGA
* * * * * *
17612661 GAAACAATTCTCACATGAATAAGTATTTAATTCAATGACCAAAAGTTATTTACAAAATAACAAAC
193 GAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAAC
* * * * * * *
17612726 TATTTAAACCAAACGATGCTATTTCTTGAGCATGGAATG-TTCGAAAAATTTCTCAAAGGAAGGG
258 TATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAG-AAAATTGCTCAAAGGAATGG
* * * ** *
17612790 ATCGTCCTGAA-AGCTTTAAGGAATC-GAAGTTACAAAAGAAAACGTAAAAGTTTAACAAGTTCA
322 ATCGTCTTGAATA-CTTTAAGGAACCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCA
* * * **
17612853 GAAGTTCGTCCCAGAACCAAGAGAGAAACAATTCTCATGTAAATAA-AATTTAATTTCAAAGACC
386 AAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA-TTCAAAGACC
* ** * * * *
17612917 AAAAGCTGTTTACAAAATGACAATTTATTTAGACCGAATGATGCGATTTCTCGAGCATGAAATGT
450 AAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCATGGAATGT
** ** ** *
17612982 TCGGTAAATCACTCGACGGAATGGATCGTCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAAC
515 TCGAAAAATTGCTCGAAAGAATGGATCGTCTTGAATACTTTAAGGAA-CGAAGTTATTAAAGAAC
* * * * *
17613047 TCGTAAAAGTTTGACAATTTCGGAAGTTCGTCCCAGAACC-A-AGA-AAGA--CACA--TAAA-A
579 TCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAAATTCTCATGTAAATA
17613104 GAG
644 -AG
* * * **
17613107 TTTTAAATTCAAAGACCAAAATTTGTTTACAGAATGACAAACTATTTAGACCAAATGATGCAATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* * * * *
17613172 TCCTGAGCATGGAATATTCAGAAAACTGCTTGAAGGAATGGATCGCCTTTAATACTTTAAGAAAC
66 TCCTGAGCATGGAATGTTCAGAAAACTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
* * * *
17613237 TGAAGTTA-ATAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCTAGAACCAAGAGAG
131 -AAAGTTATA-AAAGAACTCATAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAG
* * * *
17613301 AAACAATTCTCACGTAAATATGTTTTTAATTCAAAGA-CAAAATCTTTTTTACAAAATGAAAAAC
194 AAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA-GTTGTTTACAAAATGACAAAC
* * * * *
17613365 TATTTAG-CCAAATGATGCGATTTTTCGGGCATGGAATGTTCAAAAAATTGCTAAAAGGAATGGA
258 TATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAGAAAATTGCTCAAAGGAATGGA
* * ** *
17613429 TC-ACATTGAATACTTTAAGGAAGCA-AAGTTATAAAAGAGTTCGTAAAAGTTTGACAAGTTTGA
323 TCGTC-TTGAATACTTTAAGGAACCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAG-TTCA
* * * * * * *
17613492 CAAGTTCGAAACTTCATTCTAGAACAAAGAGAGAAACAACTCTCACTTAACTAAGTTTTAAATTC
386 AAAGTTCG-----TC---CAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* *
17613557 AAAGACCAAAAGTTGTTTACAGAATGACAAACTATTTGGACCAAATGATGTGATTTCCCGAGCAT
443 AAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCAT
* * * * * *
17613622 GGAATGTTCGAAAAATTGCTTGAAGGAATGGATCGCCTTGAATACTTTAAGAAACTGAGGTTAAT
508 GGAATGTTCGAAAAATTGCTCGAAAGAATGGATCGTCTTGAATACTTTAAGGAAC-GAAGTTATT
*
17613687 AAAGAACTCGTGAAAGTTTGACAAGTTCGAAAGTTCGTCCTAA-AACCAAGAGAGTAACAATTCT
572 AAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCC-AAGAACCAAGAGAG-AA-AATTCT
*
17613751 CATGTAAATATG
634 CATGTAAATAAG
*
17613763 TTTTTAATTCAAAGA-CAAAA-TCAGTTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
1 TTTTTAATTCAAAGACCAAAAGT-TG-TTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
* * * * * *
17613826 TTTCCCGAGCATGGAAAGTTCAGAAAACTGCTTGAAGGAATGGATCGCCTTGAATACTCTAATGA
64 TTTCCTGAGCATGGAATGTTCAGAAAACTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
* * * * * * * *
17613891 AGCAAAGTTATAAAAGAATTCGTAAAAGTTTGACAAGTTAGGAACTTCATCCTAGAACAAAGAGA
129 A-CAAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGA
* * * * **
17613956 GAAACAACTCTCACTTAACTAAGTTTTAAATTCAAAGACCAAAAGTTGTTTACAAAATGATGAAC
193 GAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAAC
** * * * *
17614021 TATTTAGACCAAATGATTTGATTTC-CAGAGGATGGAATGTTTGGAAAATTGCTCAAAGGATTTG
258 TATTTAGACCAAATGATGCGATTTCTC-GAGCATGGAATGTTTAGAAAATTGCTCAAAGGAATGG
* * * ** *
17614085 ATCGACTTGAATATTTTAAGGAACC-GAAGTTATAAAATAACTCACAAAAGTTTGACAAGTTCAG
322 ATCGTCTTGAATACTTTAAGGAACCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAA
* * * *
17614149 ATGTCCGGCCAAGAAACAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAA
387 AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAA
* * * *
17614214 AATTTGTTCAC-AAATGAAAAACTATTTAGACCAAATGATGTGACTTCCCGAGCATGGAATGTTC
452 AAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCATGGAATGTTC
* * * * *
17614278 AAAAAATTGCTCGAACGAATGGATCGCCTTGAATACTTTAAGAAACTGAAGTTAATAAAGAACTC
517 GAAAAATTGCTCGAAAGAATGGATCGTCTTGAATACTTTAAGGAAC-GAAGTTATTAAAGAACTC
* * * *
17614343 GTAAAATTTTAACAAGTTCGAAAGATCGGCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATA
581 GTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAG-AA-AATTCTCATGTAAATA
17614408 AG
644 AG
* * * * **
17614410 TTTTTAATTTAAAGACCAAAAGTTGTTTATAAAATAAAAAACTATTTAGACCAAATGATGCAATT
1 TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
* ** * *
17614475 TCCTGATCATGGAATGTTCAGAAAACTGCTCG-AGGAATGGATCAACTTGAAAACTTTAAGAAAC
66 TCCTGAGCATGGAATGTTCAGAAAACTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
* * * * * *
17614539 TAAAG-TAAATAAAGAGCTCATTAAAGTTTGACAAGTTCAAAAGATCGAT-CAAGAACCAAGATA
131 -AAAGTTATA-AAAGAACTCATAAAAGTTTGACAAGTTCGAAAGTTCG-TCCAAGAACCAAGAGA
* * * * ** * *
17614602 GAAACAATCCTCACGTAAATACA-TTTTTAATTCACAGAACACATCTTGTTTACAAAAAGATAAA
193 GAAACAATTCTCACGTAAATA-AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAA
* * * * *
17614666 CTATTTAGACCAAATAATGCAATATCCCGAGCATGGAATGTTTGGAAAATTGCTCAAAGGAATGG
257 CTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAGAAAATTGCTCAAAGGAATGG
17614731 ATCG-CGTTGAATA
322 ATCGTC-TTGAATA
17614744 GTTTTTAATT
Statistics
Matches: 2435, Mismatches: 410, Indels: 156
0.81 0.14 0.05
Matches are distributed among these distances:
637 3 0.00
638 235 0.10
639 91 0.04
640 3 0.00
644 5 0.00
645 8 0.00
646 310 0.13
647 1252 0.51
648 176 0.07
649 4 0.00
651 3 0.00
652 1 0.00
654 4 0.00
655 6 0.00
656 233 0.10
657 99 0.04
658 2 0.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (645 bp):
TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATT
TCCTGAGCATGGAATGTTCAGAAAACTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
AAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAA
ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTAT
TTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAGAAAATTGCTCAAAGGAATGGATCG
TCTTGAATACTTTAAGGAACCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAAAAGT
TCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGT
TGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCATGGAATGTTCGAAA
AATTGCTCGAAAGAATGGATCGTCTTGAATACTTTAAGGAACGAAGTTATTAAAGAACTCGTAAA
AGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAAATTCTCATGTAAATAAG
Found at i:17615061 original size:333 final size:335
Alignment explanation
Indices: 17614408--17615080 Score: 786
Period size: 333 Copynumber: 2.0 Consensus size: 335
17614398 CATGTAAATA
* *
17614408 AGTTTTTAATTTAAAGACCAAAAGTTGTTTATAAAATAAAAAACTATTTAGACCAAATGATGCAA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATAAAAAACTATTTAGACCAAATGATGCAA
** * * * * *
17614473 TTTCCTGATCATGGAATGTTCAGAAAACTGCTCGAGGAATGGATCAACTTGAAAACTTTAAGAAA
66 TTTCCCAAGCATGGAATATTCAGAAAACTACTCAAGGAATGCATCAACTTGAAAACTTTAAGAAA
* *
17614538 CTAAAGTAAATAAAGAGCTCATTAAAGTTTGACAAGTTCAAAAGATCGATCAAGAACCAAGATAG
131 CTAAAGTAAATAAAGAACTCATAAAAGTTTGACAAGTTCAAAAGATCGATCAAGAACCAAGATAG
* * * * * * *
17614603 AAACAATCCTCACGTAAATACATTTTTAATTCACAGAACACATCTTGTTTACAAAAAGATAAACT
196 AAACAATCCTCACATAAATACATTTTTAATTCAAAGAAAAAAGCTTATTTACAAAAAGACAAACT
* * *
17614668 ATTTAGACCAAATAATGCAATATCCCGAGCATGGAATGTTTGGAAAATTGCTCAAAGGAATGGAT
261 ATTTAGACCAAATAATGCAATATCCCGAGAATGGAATCTTTGAAAAATTGCTCAAAGGAATGGAT
17614733 C-GCGTTGAAT
326 CAGC-TTGAAT
* * * **
17614743 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAGAATGACAAACTATTTAGACCAAATGATGTGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATAAAAAACTATTTAGACCAAATGATGCAA
* * ** * * *
17614808 TTTCCCAAGCATGGAATATTTAGAAAATTACT-AAGGAATGCATCGTCTTGGATACTTTAAGGAA
66 TTTCCCAAGCATGGAATATTCAGAAAACTACTCAAGGAATGCATCAACTTGAAAACTTTAAGAAA
* * * ** ** *
17614872 CTGAAGT-TATAAAAGAACTCGTAAAAGTTTGACTTGTTCGGAAGTTC-ATCTAAGAACC-AGA-
131 CTAAAGTAAAT-AAAGAACTCATAAAAGTTTGACAAGTTCAAAAGATCGATC-AAGAACCAAGAT
* * *
17614933 AGAGAATAATTCTCACATAAATA-AGTTTTTAATTCAAAGACAAAAAGC-TATTTACAAAATGAC
194 AGA-AACAATCCTCACATAAATACA-TTTTTAATTCAAAGA-AAAAAGCTTATTTACAAAAAGAC
* * * * *
17614996 AAACTATTTAGGCCAAATTATGCGATTTCCCGAGAATGGAATCTTTGAAAAATTGCTCGAAGGAA
256 AAACTATTTAGACCAAATAATGCAATATCCCGAGAATGGAATCTTTGAAAAATTGCTCAAAGGAA
*
17615061 TGGATCATCTTGAAT
321 TGGATCAGCTTGAAT
17615076 AGTTT
1 AGTTT
17615081 AAGGAACCGA
Statistics
Matches: 282, Mismatches: 50, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
332 4 0.01
333 124 0.44
334 71 0.25
335 83 0.29
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (335 bp):
AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATAAAAAACTATTTAGACCAAATGATGCAA
TTTCCCAAGCATGGAATATTCAGAAAACTACTCAAGGAATGCATCAACTTGAAAACTTTAAGAAA
CTAAAGTAAATAAAGAACTCATAAAAGTTTGACAAGTTCAAAAGATCGATCAAGAACCAAGATAG
AAACAATCCTCACATAAATACATTTTTAATTCAAAGAAAAAAGCTTATTTACAAAAAGACAAACT
ATTTAGACCAAATAATGCAATATCCCGAGAATGGAATCTTTGAAAAATTGCTCAAAGGAATGGAT
CAGCTTGAAT
Found at i:17615241 original size:216 final size:216
Alignment explanation
Indices: 17614743--17616393 Score: 1730
Period size: 216 Copynumber: 7.7 Consensus size: 216
17614733 CGCGTTGAAT
*
17614743 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAGAATGACAAACTATTTAGACCAAATGATGTGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
* * * * *
17614808 TTTCCCAAGCATGGAATATTT-AGAAAATTACT--AAGGAATGCATCGTCTTGGATACTTTAAGG
66 TTTCCCGAGCATGGAATGTTTCA-AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGG
* ** * * *
17614870 AACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACTTGTTCGGAAGTTCATCTAAGAACC-AGA-
130 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT-TGAAATTCGTCTAAGAACCAAGAG
*
17614933 AGAGAATAATTCTCACA-TAAATA
194 AGA-AACAATTCTCACATTAAATA
* * * * * *
17614956 AGTTTTTAATTCAAAGACAAAAAGCTATTTACAAAATGACAAACTATTTAGGCCAAATTATGCGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
* * * * *
17615021 TTTCCCGAGAATGGAATCTTTGAAAAATTGCTCGAAGGAATGGATCATCTTGAATAGTTTAAGGA
66 TTTCCCGAGCATGGAATGTTTCAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
* * * *
17615086 ACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTTGAAATTCAGGCCAAGAACTAAGAGA
131 ACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGAAATTC-GTCTAAGAACCAAGAGA
*
17615151 GAAACAATTCTTACATTAAA-A
195 GAAACAATTCTCACATTAAATA
* *
17615172 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTTA-ACCAAAAGATATG
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA-TTTAGACCAAATGATGTG
* *
17615236 ATTTCCCAAGCATGGAATG-TTCAAAAATTTGCTCGAAGCAATGGATCGTCTTGAATACTTTAAG
65 ATTTCCCGAGCATGGAATGTTTCAAAAA-TTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAG
* * * *
17615300 GAATCGAAGTTATTAAAGAACTCATAAAAGTTTGATC-A----G-----C--C-AAGATCCAAGA
129 GAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA-CAAGTTTGAAATTCGTCTAAGAACCAAGA
*
17615352 GAGAAACAATTCTAAC-TTAAATA
193 GAGAAACAATTCTCACATTAAATA
17615375 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
* * * *
17615440 TTTCCCGAGCAT-GAAAGGTTCAGAAAATTGCTCGAACGAATGGATTGTCTTGAATACTTTAAGG
66 TTTCCCGAGCATGGAATGTTTCA-AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGG
* * * * * *
17615504 AACTGAAGTTATCAAAGAACTCGTAAAAGTTTGACATGTTCGGAAGTTCTTCTAAGAACCAAGAG
130 AACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT-TGAAATTCGTCTAAGAACCAAGAG
* *
17615569 TGACACAATTCT--CATGTAAATA
194 AGAAACAATTCTCACAT-TAAATA
* * * * * *
17615591 AGTTTTTAATTCAAAAACCTAATGTTGTTTACAAAATGACAAACTATTCAG-CCTAAAGGATATG
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACC-AAATGATGTG
* *
17615655 ATTTCCCGAGCATGGAAT-ATTCGAAAAATTGCTTC-AAGGAATGGATCGTCATGAATACTTTAA
65 ATTTCCCGAGCATGGAATGTTTC-AAAAATTGC-TCGAAGGAATGGATCGTCTTGAATACTTTAA
* * * *
17615718 GGAACCAAAGTTATAAAACAACTCGTAAGAGTATGACAA-TTTCGAAAGTTCGTCTAAGAACCAA
128 GGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTT-GAAA-TTCGTCTAAGAACCAA
* * *
17615782 GAGGGAAA-ATTTTCTCAC-GTAAATA
191 GAGAGAAACA-ATTCTCACATTAAATA
* * * * *
17615807 AGTTTTTAATTCAAACACCAAAAGGTCTTTACAAAATGACAAACTATTTAGCCCCAATGATGTGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
* * **
17615872 TTTCCTGAGCATGGAATG-TTCGAAAAATTGTTCGAAGGAATGGATC-TCCTTGAATACTTTATT
66 TTTCCCGAGCATGGAATGTTTC-AAAAATTGCTCGAAGGAATGGATCGT-CTTGAATACTTTAAG
** * * * *
17615935 GAATTGAATTTATAAAAGAACTCATAAAAGTTTAAAAAGTTTGAAAGTTCGTCTAAGAACCAAGA
129 GAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGAAA-TTCGTCTAAGAACCAAGA
* ** *
17616000 GGGAAATGATTGTCACA-TAAATA
193 GAGAAACAATTCTCACATTAAATA
* * * * * **
17616023 AGTATTTAATTCAATGACCAAAAGTTATTTACAAAATGATAAACTATTTAAACCAAA-GATGCAA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
** * * * * * *
17616087 TTTCTTGACCGTGGAATG-TTCAAAACATTTCTCAAAGGAA-GGTATCATCTTGAAAACTTTAAG
66 TTTCCCGAGCATGGAATGTTTCAAAA-ATTGCTCGAAGGAATGG-ATCGTCTTGAATACTTTAAG
* * * *
17616150 GAATCGAAGTTATAAAAGAACTCGTAAAATTTTGACAAGTTCTGAAGTTCGTCCCAA-AACCAAG
129 GAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT-TGAAATTCGT-CTAAGAACCAAG
17616214 AGAGAAACAATTCT--CATGTAAATA
192 AGAGAAACAATTCTCACAT-TAAATA
** * ** * *
17616238 A-AATTTAATTTCAAAGACCAAAAGCTGTTTACAAAATGACAATTTATTTAGACCGAATGATGCG
1 AGTTTTTAA-TTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTG
* * * * *
17616302 ATTTCTCGAGCATGGAATGTTTTATAAATTGCTAGACGGAATGGATCGTCTTGAATACTTTAAGG
65 ATTTCCCGAGCATGGAATGTTTCAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGG
* *
17616367 AATCGAAGTTATAAAAGAACTTGTAAA
130 AACCGAAGTTATAAAAGAACTCGTAAA
17616394 TGTAACATCC
Statistics
Matches: 1213, Mismatches: 168, Indels: 111
0.81 0.11 0.07
Matches are distributed among these distances:
202 14 0.01
203 162 0.13
204 5 0.00
207 1 0.00
208 1 0.00
212 1 0.00
213 87 0.07
214 20 0.02
215 242 0.20
216 649 0.54
217 30 0.02
218 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (216 bp):
AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
TTTCCCGAGCATGGAATGTTTCAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA
ACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGAAATTCGTCTAAGAACCAAGAGAG
AAACAATTCTCACATTAAATA
Found at i:17615533 original size:419 final size:423
Alignment explanation
Indices: 17614743--17616387 Score: 1688
Period size: 419 Copynumber: 3.8 Consensus size: 423
17614733 CGCGTTGAAT
* * *
17614743 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAGAATGACAAACTATTTAGACCAAATGATGTGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTA-ACCAAAAGATATGA
* * * *
17614808 TTTCCCAAGCATGGAATATTTAGAAAATTACT-AAGGAATGCATCGTCTTGGATACTTTAAGGAA
65 TTTCCCAAGCATGGAATATTCA-AAAATTGCTCAAGGAATGGATCGTCTTGAATACTTTAAGGAA
*
17614872 -CTGAAGTTATAAAAGAACTCGTAAAAGTTTGACTTGTTCGGAAGTTCATCTAAGAACC-AGA-A
129 TC-GAAGTTATAAAAGAACTCGTAAAAGTTTGA---ATTC--AAG-TC-TCTAAGAACCAAGAGA
* * * *
17614934 GAGAATAATTCTCACATAAATAAGTTTTTAATTCAAAGACAAAAAGCTATTTACAAAATGACAAA
186 GA-AACAATTCTCACTTAAATAAGTTTTTAATTCAAAGACCAAAAGCTGTTTACAAAATGACAAA
* * * * ** * *
17614999 CTATTTAGGCCAAATTATGCGATTTCCCGAGAATGGAATCTT-TGAAAAATTGCTCGAAGGAATG
250 CTATTTAGACCAAATGATGCGATTTCCCGAGCATGAAAGGTTCAGAAAAATTGCTCGAACGAATG
* * *
17615063 GATCATCTTGAATAGTTTAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTTGA
315 GATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTTGA
* * *
17615128 AATTCAGGCCAAGAACTAAGAGAGAAACAATTCTTACATTAAA-A
380 AATTC-GTCTAAGAACCAAGAGAGAAACAATTCTTACATTAAATA
17615172 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTTAACCAAAAGATATGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA-TTTAACCAAAAGATATGA
* *
17615237 TTTCCCAAGCATGGAATGTTCAAAAATTTGCTCGAAGCAATGGATCGTCTTGAATACTTTAAGGA
65 TTTCCCAAGCATGGAATATTCAAAAA-TTGCTC-AAGGAATGGATCGTCTTGAATACTTTAAGGA
* * *
17615302 ATCGAAGTTATTAAAGAACTCATAAAAGTTTG-A-TC-AG-C-C-AAGATCCAAGAGAGAAACAA
128 ATCGAAGTTATAAAAGAACTCGTAAAAGTTTGAATTCAAGTCTCTAAGAACCAAGAGAGAAACAA
* *
17615361 TTCTAACTTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAG
193 TTCTCACTTAAATAAGTTTTTAATTCAAAGACCAAAAGCTGTTTACAAAATGACAAACTATTTAG
* *
17615426 ACCAAATGATGTGATTTCCCGAGCATGAAAGGTTCAG-AAAATTGCTCGAACGAATGGATTGTCT
258 ACCAAATGATGCGATTTCCCGAGCATGAAAGGTTCAGAAAAATTGCTCGAACGAATGGATCGTCT
* * * * * *
17615490 TGAATACTTTAAGGAACTGAAGTTATCAAAGAACTCGTAAAAGTTTGACATGTTCGGAAGTTCTT
323 TGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTT-TGAAATTCGT
* *
17615555 CTAAGAACCAAGAGTGACACAATTC-T-CATGTAAATA
387 CTAAGAACCAAGAGAGAAACAATTCTTACAT-TAAATA
* * * * * *
17615591 AGTTTTTAATTCAAAAACCTAATGTTGTTTACAAAATGACAAACTATTCAGCCTAAAGGATATGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAACC-AAAAGATATGA
* *
17615656 TTTCCCGAGCATGGAATATTCGAAAAATTGCTTCAAGGAATGGATCGTCATGAATACTTTAAGGA
65 TTTCCCAAGCATGGAATATTC-AAAAATTGC-TCAAGGAATGGATCGTCTTGAATACTTTAAGGA
* * * * * *
17615721 ACCAAAGTTATAAAACAACTCGTAAGAGTATGACAATTTCGAAAGTTCGTCTAAGAACCAAGAGG
128 ATCGAAGTTATAAAAGAACTCGTAAAAGTTTG--AA-TTC--AAG-TC-TCTAAGAACCAAGAGA
* * * * *
17615786 GAAA-ATTTTCTCACGTAAATAAGTTTTTAATTCAAACACCAAAAGGTCTTTACAAAATGACAAA
186 GAAACA-ATTCTCACTTAAATAAGTTTTTAATTCAAAGACCAAAAGCTGTTTACAAAATGACAAA
* * * * * * * *
17615850 CTATTTAGCCCCAATGATGTGATTTCCTGAGCATGGAATGTTC-GAAAAATTGTTCGAAGGAATG
250 CTATTTAGACCAAATGATGCGATTTCCCGAGCATGAAAGGTTCAGAAAAATTGCTCGAACGAATG
** * * * *
17615914 GATC-TCCTTGAATACTTTATTGAATTGAATTTATAAAAGAACTCATAAAAGTTTAAAAAGTTTG
315 GATCGT-CTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTTG
* ** * *
17615978 AAAGTTCGTCTAAGAACCAAGAGGGAAATGATTGTCACA-TAAATA
379 AAA-TTCGTCTAAGAACCAAGAGAGAAACAATTCTTACATTAAATA
* * * * ***
17616023 AGTATTTAATTCAATGACCAAAAGTTATTTACAAAATGATAAACTATTTAAACC-AAAGATGCAA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT-AACCAAAAGATATGA
*** * * * * * *
17616087 TTTCTTGACCGTGGAATGTTCAAAACATTTCTCAAAGGAA-GGTATCATCTTGAAAACTTTAAGG
65 TTTCCCAAGCATGGAATATTCAAAA-ATTGCTC-AAGGAATGG-ATCGTCTTGAATACTTTAAGG
* *
17616151 AATCGAAGTTATAAAAGAACTCGTAAAATTTTGACAAGTTCTGAAGTTCGTCCCAA-AACCAAGA
127 AATCGAAGTTATAAAAGAACTCGTAAAAGTTTG--AA-TTC--AAG-TC-T-CTAAGAACCAAGA
**
17616215 GAGAAACAATTCTCA-TGTAAATAA-AATTTAATTTCAAAGACCAAAAGCTGTTTACAAAATGAC
184 GAGAAACAATTCTCACT-TAAATAAGTTTTTAA-TTCAAAGACCAAAAGCTGTTTACAAAATGAC
** * * * * ** * *
17616278 AATTTATTTAGACCGAATGATGCGATTTCTCGAGCATGGAATGTT-TTATAAATTGCTAG-ACGG
247 AAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGAAAGGTTCAGAAAAATTGCTCGAAC-G
17616341 AATGGATCGTCTTGAATACTTTAAGGAA-TCGAAGTTATAAAAGAACT
311 AATGGATCGTCTTGAATACTTTAAGGAACT-GAAGTTATAAAAGAACT
17616388 TGTAAATGTA
Statistics
Matches: 1022, Mismatches: 149, Indels: 88
0.81 0.12 0.07
Matches are distributed among these distances:
417 3 0.00
418 16 0.02
419 320 0.31
420 17 0.02
421 1 0.00
422 1 0.00
423 2 0.00
424 2 0.00
426 2 0.00
427 2 0.00
428 4 0.00
429 82 0.08
430 19 0.02
431 297 0.29
432 249 0.24
433 3 0.00
434 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (423 bp):
AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAACCAAAAGATATGAT
TTCCCAAGCATGGAATATTCAAAAATTGCTCAAGGAATGGATCGTCTTGAATACTTTAAGGAATC
GAAGTTATAAAAGAACTCGTAAAAGTTTGAATTCAAGTCTCTAAGAACCAAGAGAGAAACAATTC
TCACTTAAATAAGTTTTTAATTCAAAGACCAAAAGCTGTTTACAAAATGACAAACTATTTAGACC
AAATGATGCGATTTCCCGAGCATGAAAGGTTCAGAAAAATTGCTCGAACGAATGGATCGTCTTGA
ATACTTTAAGGAACTGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTTGAAATTCGTCTAA
GAACCAAGAGAGAAACAATTCTTACATTAAATA
Found at i:17615955 original size:635 final size:638
Alignment explanation
Indices: 17614743--17616393 Score: 1951
Period size: 635 Copynumber: 2.6 Consensus size: 638
17614733 CGCGTTGAAT
*
17614743 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAGAATGACAAACTATTTAGACCAAATGATGTGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
* * * * *
17614808 TTTCCCAAGCATGGAATATTTAGAAAATTACT-AAGGAATGCATCGTCTTGGATACTTTAAGGAA
66 TTTCCCGAGCATGGAATGTTCAGAAAATTACTCAAGGAATGGATCGTCTTGAATACTTTAAGGAA
* *
17614872 CTGAAGTTATAAAAGAACTCGTAAAAGTTTGACTTGTTCGGAAGTTCATCTAAGAACC-AGAAGA
131 CTGAAGTTATAAAAGAACTCGTAAAAGTTTGACATGTTCGGAAGTTCTTCTAAGAACCAAG-AGA
* ** * *
17614936 GAATAATTCTCACATAAATAAGTTTTTAATTCAAAGACAAAAAGCTATTTACAAAATGACAAACT
195 GAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGCTGTTTACAAAATGACAAACT
* * *
17615001 ATTTAGGCCAAATTATGCGATTTCCCGAGAATGGAATCTTTGAAAAATTGC-TCGAAGGAATGGA
260 ATTTA-GCCAAATGATGCGATTTCCCGAGCATGGAATATTTGAAAAATTGCTTC-AAGGAATGGA
* * * *
17615065 TCATCTTGAATAGTTTAAGGAACCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTTGAAA
323 TCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTATGACAAGTTTGAAA
* * * *
17615130 TTCAGGCCAAGAACTAAGAGAGAAACAATTCTTACATTAAAAAGTTTTTAATTCAAAGACCAAAA
388 TTCAGGCCAAGAACCAAGAGAGAAACAATTCTCACAGTAAAAAGTTTTTAATTCAAACACCAAAA
* *
17615195 GTTGTTTACAAAATGACAAACTATTTTAACCAAAAGATATGATTTCCCAAGCATGGAATGTTCAA
453 GGTCTTTACAAAATGACAAACTATTTTAACCAAAAGATATGATTTCCCAAGCATGGAATGTTCAA
*
17615260 AAATTTGCTCGAAGCAATGGATCGTCTTGAATACTTTAAGGAATCGAAGTTATTAAAGAACTCAT
518 AAATTTGCTCGAAGCAATGGATCGTCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCAT
* * *
17615325 AAAAGTTT-G-AT-CAG-C-C-AAGATCCAAGAGAGAAACAATTCTAACTTAAATA
583 AAAAGTTTAGTATAAAGTCGCTAAGAACCAAGAGAGAAACAATTCTAACATAAATA
17615375 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
* * * * *
17615440 TTTCCCGAGCATGAAAGGTTCAGAAAATTGCTCGAACGAATGGATTGTCTTGAATACTTTAAGGA
66 TTTCCCGAGCATGGAATGTTCAGAAAATTACTC-AAGGAATGGATCGTCTTGAATACTTTAAGGA
* *
17615505 ACTGAAGTTATCAAAGAACTCGTAAAAGTTTGACATGTTCGGAAGTTCTTCTAAGAACCAAGAGT
130 ACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACATGTTCGGAAGTTCTTCTAAGAACCAAGAGA
* * * *
17615570 GACACAATTCTCATGTAAATAAGTTTTTAATTCAAAAACCTAATGTTGTTTACAAAATGACAAAC
195 GA-ACAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGCTGTTTACAAAATGACAAAC
* * ** *
17615635 TATTCAGCCTAAAGGATATGATTTCCCGAGCATGGAATATTCGAAAAATTGCTTCAAGGAATGGA
259 TATTTAGCC-AAATGATGCGATTTCCCGAGCATGGAATATTTGAAAAATTGCTTCAAGGAATGGA
* * * *
17615700 TCGTCATGAATACTTTAAGGAACCAAAGTTATAAAACAACTCGTAAGAGTATGACAA-TTTCGAA
323 TCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTATGACAAGTTT-GAA
* * * *
17615764 AGTTC-GTCTAAGAACCAAGAGGGAAA-ATTTTCTCAC-GTAAATAAGTTTTTAATTCAAACACC
387 A-TTCAGGCCAAGAACCAAGAGAGAAACA-ATTCTCACAGTAAA-AAGTTTTTAATTCAAACACC
* * * * **
17615826 AAAAGGTCTTTACAAAATGACAAACTA-TTTAGCCCCAATGATGTGATTTCCTGAGCATGGAATG
449 AAAAGGTCTTTACAAAATGACAAACTATTTTA-ACCAAAAGATATGATTTCCCAAGCATGGAATG
* * ** * *
17615890 TTCGAAAAA-TTGTTCGAAGGAATGGATC-TCCTTGAATACTTTATTGAATTGAATTTATAAAAG
513 TTC-AAAAATTTGCTCGAAGCAATGGATCGT-CTTGAATACTTTAAGGAATCGAAGTTATAAAAG
* * ** * *
17615953 AACTCATAAAAGTTTAAAAAGTTTGAAAGTTCGTCTAAGAACCAAGAGGGAAATGATTGTCACAT
576 AACTCATAAAAGTTT----AGTAT-AAAG-TCG-CTAAGAACCAAGAGAGAAACAATTCTAACAT
17616018 AAATA
634 AAATA
* * * * * **
17616023 AGTATTTAATTCAATGACCAAAAGTTATTTACAAAATGATAAACTATTTAAACCAAA-GATGCAA
1 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
** * * * * *
17616087 TTTCTTGACCGTGGAATGTTCA-AAACATTTCTCAAAGGAA-GGTATCATCTTGAAAACTTTAAG
66 TTTCCCGAGCATGGAATGTTCAGAAA-ATTACTC-AAGGAATGG-ATCGTCTTGAATACTTTAAG
* * * * *
17616150 GAA-TCGAAGTTATAAAAGAACTCGTAAAATTTTGACAAGTTCTGAAGTTCGTCCCAA-AACCAA
128 GAACT-GAAGTTATAAAAGAACTCGTAAAAGTTTGACATGTTCGGAAGTTC-TTCTAAGAACCAA
**
17616213 GAGAGAAACAATTCTCATGTAAATAA-AATTTAATTTCAAAGACCAAAAGCTGTTTACAAAATGA
191 GAGAG-AACAATTCTCATGTAAATAAGTTTTTAA-TTCAAAGACCAAAAGCTGTTTACAAAATGA
** * * * * * ** *
17616277 CAATTTATTTAGACCGAATGATGCGATTTCTCGAGCATGGAATGTTTTATAAATTGCTAGACGGA
254 CAAACTATTTAG-CCAAATGATGCGATTTCCCGAGCATGGAATATTTGAAAAATTGCTTCAAGGA
* *
17616342 ATGGATCGTCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTTGTAAA
318 ATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAA
17616394 TGTAACATCC
Statistics
Matches: 861, Mismatches: 125, Indels: 51
0.83 0.12 0.05
Matches are distributed among these distances:
632 90 0.10
634 103 0.12
635 314 0.36
636 10 0.01
640 1 0.00
641 1 0.00
643 2 0.00
645 1 0.00
646 11 0.01
647 242 0.28
648 86 0.10
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (638 bp):
AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGA
TTTCCCGAGCATGGAATGTTCAGAAAATTACTCAAGGAATGGATCGTCTTGAATACTTTAAGGAA
CTGAAGTTATAAAAGAACTCGTAAAAGTTTGACATGTTCGGAAGTTCTTCTAAGAACCAAGAGAG
AACAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGCTGTTTACAAAATGACAAACTA
TTTAGCCAAATGATGCGATTTCCCGAGCATGGAATATTTGAAAAATTGCTTCAAGGAATGGATCG
TCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTATGACAAGTTTGAAATTC
AGGCCAAGAACCAAGAGAGAAACAATTCTCACAGTAAAAAGTTTTTAATTCAAACACCAAAAGGT
CTTTACAAAATGACAAACTATTTTAACCAAAAGATATGATTTCCCAAGCATGGAATGTTCAAAAA
TTTGCTCGAAGCAATGGATCGTCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCATAAA
AGTTTAGTATAAAGTCGCTAAGAACCAAGAGAGAAACAATTCTAACATAAATA
Found at i:17617593 original size:10 final size:11
Alignment explanation
Indices: 17617569--17617601 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
17617559 TATTCTGACT
17617569 TAGAAAAATCA
1 TAGAAAAATCA
*
17617580 TAGAAAAAT-G
1 TAGAAAAATCA
17617590 TAGAAAAATCA
1 TAGAAAAATCA
17617601 T
1 T
17617602 TAGAGACTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.61, C:0.06, G:0.12, T:0.21
Consensus pattern (11 bp):
TAGAAAAATCA
Found at i:17618194 original size:22 final size:22
Alignment explanation
Indices: 17618153--17618252 Score: 128
Period size: 22 Copynumber: 4.5 Consensus size: 22
17618143 TCGCACCTCA
*
17618153 TGTGCCTATTGATTTGCACTATG
1 TGTGCCTACTGA-TTGCACTATG
* *
17618176 TGCGCCTACTGATTGCACTGTG
1 TGTGCCTACTGATTGCACTATG
*
17618198 TGTGCCTACTGATTGTACTATG
1 TGTGCCTACTGATTGCACTATG
17618220 TGTGCCTACTGGATTGCACTATG
1 TGTGCCTACT-GATTGCACTATG
* *
17618243 CGTGCTTACT
1 TGTGCCTACT
17618253 TTTTCCCCAG
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
22 38 0.57
23 29 0.43
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (22 bp):
TGTGCCTACTGATTGCACTATG
Found at i:17618204 original size:45 final size:45
Alignment explanation
Indices: 17618153--17618239 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
17618143 TCGCACCTCA
*
17618153 TGTGCCTATTGATTTGCACTATGTGCGCCTACT-GATTGCACTGTG
1 TGTGCCTACTGA-TTGCACTATGTGCGCCTACTGGATTGCACTGTG
* *
17618198 TGTGCCTACTGATTGTACTATGTGTGCCTACTGGATTGCACT
1 TGTGCCTACTGATTGCACTATGTGCGCCTACTGGATTGCACT
17618240 ATGCGTGCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 18 0.47
45 20 0.53
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (45 bp):
TGTGCCTACTGATTGCACTATGTGCGCCTACTGGATTGCACTGTG
Found at i:17619726 original size:216 final size:216
Alignment explanation
Indices: 17618922--17620317 Score: 1426
Period size: 216 Copynumber: 6.4 Consensus size: 216
17618912 GGGTGTTACA
* * * * * *
17618922 GTAAAAGTTTGACAA-TTTCGGAAGTTTGTCCCAGAACCAAGAGAGACACAACTT-TCACGTAAA
1 GTAAAAGTTTGACAAGTTT-GAAAGTTCGGCCAAGAAACAAGAGAGAAACAA-TTCTCACGTAAA
* * * *
17618985 AAAGTTTTAAATTCAAAGACCAAAAGCTGTTTACAGAATGACAAACTATTTATAGACCAAATGAT
64 TAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA-TT-TAGACCAAATGAT
* * * *
17619050 GAGATTTCCAGAACATGGAATGTTC-AGAAAACTGCTCGAAGGAATGGATC-ACCTTGAA-ACTT
127 GCGATTTCCCGAGCATGGAATGTTCGA-AAAATTGCTCGAAGGAATGGATCGA-CTTGAATACTT
* * *
17619112 TAAGCAACTGAGGTTCAT-AAAG-ACTC
190 TAAGGAACCGAAGTT-ATAAAAGAACTC
* * * ** *
17619138 GTAAAATTTTGATAAGTTCGAAAGTTCATCCTAG-AACTAAGAGAGAAACAATTCTCACGTAAAT
1 GTAAAAGTTTGACAAGTTTGAAAGTTCGGCCAAGAAAC-AAGAGAGAAACAATTCTCACGTAAAT
* * * * *
17619202 ATGTTTTTAATGCAAAGA-CAAAA-TCATTTTTACAAAATGACAAACTATTTAGAGCAAATAATA
65 AAGTTTTTAATTCAAAGACCAAAAGT--TGTTTACAAAATGACAAACTATTTAGACCAAATGAT-
* * *
17619265 G-GATTTCCCAAGCATGGAATGTTCGAAAAATTGCTCAAAGGAATGGATCGCCTTGAATACTTTA
127 GCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGACTTGAATACTTTA
* *
17619329 AGGAAGC-ATAGTTATAAAAGAATTC
192 AGGAACCGA-AGTTATAAAAGAACTC
* * * *
17619354 ATAAAAGTTTTACAAGTTTGAAAAGTTCGGAAGTTCATCCTAG-AACAAAGAGAGAAACAACTCT
1 GTAAAAGTTTGACAAGTTTG-AAAGTTC-G--G-----CCAAGAAAC-AAGAGAGAAACAATTCT
* * * *
17619418 CACTTAACTAAGTTTTAAATTCAAAGACCAAAAGTTGTTTACAAAATGACGAACTATTTAGACCA
56 CACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCA
** * * * * *
17619483 AATGATTTGATTTCCTGACCATGGAATGTTTGAAAAATTGCTCAAAGGATTGGATCGACTTGAAT
121 AATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGACTTGAAT
*
17619548 A-TATTAAGGAACCGAAGTTATAAAATAACTC
186 ACT-TTAAGGAACCGAAGTTATAAAAGAACTC
* * *
17619579 GCAAAAGTTTGACAAGTTTGGATGTTCGGCCAAGAAACAAGAGAGAAACAATTCTCACGTAAATA
1 GTAAAAGTTTGACAAGTTTGAAAGTTCGGCCAAGAAACAAGAGAGAAACAATTCTCACGTAAATA
* * * *
17619644 TGTTTTTAATTCAAAGACCAAAAGTTATTCACAAAATGACAAACTATTTAGACCAAATGATGTGA
66 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA
* * * *
17619709 CTTCCCGAGCATGGAATGTTCGAAAAACTACTCGAAGGAATGGATC-ACCTTGAATACTTTAAGA
131 TTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGA-CTTGAATACTTTAAGG
*
17619773 AACTGAAGTTAATAAAA-AACTC
195 AACCGAAGTT-ATAAAAGAACTC
* * * * *
17619795 GTAAAATTTTGACAAGTTCGAAAGATCGGCCAAGAACCAAGAGAGAAACAATTCTCACATAAATA
1 GTAAAAGTTTGACAAGTTTGAAAGTTCGGCCAAGAAACAAGAGAGAAACAATTCTCACGTAAATA
* * * **
17619860 AGTTTTTAATTCAAAGACAAAAATTTGTTTACAAAATGACAAACTATTTGGACCAAAAAATGCGA
66 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA
* * * * * * *
17619925 TTTCTCGAGCATGGAATGCTCGATATATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGG
131 TTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGACTTGAATACTTTAAGGA
*
17619990 ACCAAAGTTATAAAAGAACTC
196 ACCGAAGTTATAAAAGAACTC
* * * * * * * *
17620011 ATAAAAGCTTGATAA-TTTCGAAAGTCCGTCTAAGAAGCAAGGGAGAAACAATTCTCACGTAAAT
1 GTAAAAGTTTGACAAGTTT-GAAAGTTCGGCCAAGAAACAAGAGAGAAACAATTCTCACGTAAAT
* *
17620075 AAGTTCTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAATTATTTAGACCAAATGATGCG
65 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCG
** * * * * * *
17620140 ATTTCTTGAGCATGGAATGTTCGGAAAATTGCTTGAAGCAATTGATCGTCTTGAATACTTTAA-C
130 ATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGACTTGAATACTTTAAGG
** * * *
17620204 AATCTAAATTTATAAAAGAAATT
195 AA-CCGAAGTTATAAAAGAACTC
* * * * *
17620227 GTAAAAGTTTGACAAGATCGAAAGTTCGGCCAAG-ATCGAAGAGAGAAACAATTCTAACTTAAAT
1 GTAAAAGTTTGACAAGTTTGAAAGTTCGGCCAAGAAAC-AAGAGAGAAACAATTCTCACGTAAAT
* *
17620291 AAGTTCTTAATTCAAACACCAAAAGTT
65 AAGTTTTTAATTCAAAGACCAAAAGTT
17620318 ATGATTTCTT
Statistics
Matches: 985, Mismatches: 159, Indels: 72
0.81 0.13 0.06
Matches are distributed among these distances:
214 61 0.06
215 42 0.04
216 677 0.69
217 20 0.02
221 1 0.00
223 1 0.00
224 6 0.01
225 170 0.17
226 6 0.01
227 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (216 bp):
GTAAAAGTTTGACAAGTTTGAAAGTTCGGCCAAGAAACAAGAGAGAAACAATTCTCACGTAAATA
AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA
TTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGACTTGAATACTTTAAGGA
ACCGAAGTTATAAAAGAACTC
Found at i:17620495 original size:180 final size:181
Alignment explanation
Indices: 17620139--17620499 Score: 430
Period size: 180 Copynumber: 2.0 Consensus size: 181
17620129 CAAATGATGC
* * * * *
17620139 GATTTCTTGAGCATGGAATGTTCGGAAAATTGCTTGAAGCAATTGATCGTCTTGAATACTTTAAC
1 GATTTCTTGAACATGAAATGTTCAGAAAACTGCTCGAAGCAATTGATCGTCTTGAATACTTTAAC
* * *
17620204 AATCTAAATTTATAAAAGAAATTGTAAAAGTTTGACAAGATCGAAAGTTCGGCCAAGATCGAAGA
66 AATCTAAAGTTATAAAAGAAATTGTAAAAGTTTGACAAGATCGAAAGTTCGGCCAAGAACCAAGA
*
17620269 GAGAAACAATTCTAACTTAAATAAGTTCTTAATTCAAACACCAAAAGTTAT
131 GAGAAACAATTCTAACGTAAATAAGTTCTTAATTCAAACACCAAAAGTTAT
17620320 GATTTCTTGAACATGAAATGTTCAGAAAACTGCTCGAA-CGAA-TGAATCGTCTTGAATACTTTA
1 GATTTCTTGAACATGAAATGTTCAGAAAACTGCTCGAAGC-AATTG-ATCGTCTTGAATACTTTA
* * * * ** *
17620383 AGGAA-CTGAAGTTATAAAA-AACTTGTAAATGTTTGA-AATG-TAC-AGAAGTTCTTCTAAGAA
64 A-CAATCTAAAGTTATAAAAGAAATTGTAAAAGTTTGACAA-GAT-CGA-AAGTTCGGCCAAGAA
* * * * *
17620443 CCAAGAGTGAAACAATTTTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTAT
125 CCAAGAGAGAAACAATTCTAACGTAAATAAGTTCTTAATTCAAACACCAAAAGTTAT
17620500 TTACAAAATG
Statistics
Matches: 153, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
179 4 0.03
180 81 0.53
181 66 0.43
182 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (181 bp):
GATTTCTTGAACATGAAATGTTCAGAAAACTGCTCGAAGCAATTGATCGTCTTGAATACTTTAAC
AATCTAAAGTTATAAAAGAAATTGTAAAAGTTTGACAAGATCGAAAGTTCGGCCAAGAACCAAGA
GAGAAACAATTCTAACGTAAATAAGTTCTTAATTCAAACACCAAAAGTTAT
Found at i:17620633 original size:383 final size:390
Alignment explanation
Indices: 17619953--17620697 Score: 843
Period size: 383 Copynumber: 1.9 Consensus size: 390
17619943 CTCGATATAT
* * *
17619953 TGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGGACCAAAGTTATAAAAGAACTCATAAAAG
1 TGCTCGAACGAATGAATCGTCATGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCATAAAAG
* * *
17620018 CTTGATAATTTCGAAAGTCCGTCTAAGAAGCAAGGGAGAAACAATTCTCACGTAAATAAGTTCTT
66 CTTGATAATTACGAAAGTCCGTCTAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTCTT
* * **
17620083 AATTCAAAGACCAAAAGTTGTTTACAAAATGACAAATTATTTAGACCAAATGATGCGATTTCTTG
131 AATTCAAAGACCAAAAGTTGATT-----ATGACAAA-TA-TTAGACCAAAGGATGCGATTTCCCG
* * ** * * * *
17620148 AGCATGGAATGTTCGGAAAATTGCTTGAAGCAATTGATCGTCTTGAATACTTTAACAATCTAAAT
189 AGCATGGAATATTCGAAAAATTGCTCAAAGCAATGGATCGTCATGAATACTTTAACAATCAAAAG
* * *
17620213 TTATAAAAGAAATTGTAAAAGTTTGACAAGATCGAAAGTTCGGCCAAGATCGAAGAGAGAAACA-
254 TTATAAAAGAAATTGTAAAAGTATGACAAGATCGAAAGTTCGGCCAAGAACCAAGAGAGAAA-AT
17620277 ATTCTAACT-TAAATAAGTTCTTAATTCAAACACCAAAAGTTATGATTTCTTGAACATGAAATGT
318 ATTCTAA-TGTAAATAAGTTCTTAATTCAAACACCAAAAGTTATGATTTCTTGAACATGAAATGT
17620341 TCAGAAAAC
382 TCAGAAAAC
* ** ** *
17620350 TGCTCGAACGAATGAATCGTCTTGAATACTTTAAGGAACTGAAGTTATAAAA-AACTTGTAAATG
1 TGCTCGAACGAATGAATCGTCATGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCATAAAAG
* * * * * *
17620414 TTTGA-AATGTAC-AGAAGTTCTTCTAAGAACCAAGAGTGAAACAATTTTCACGTAAATAAGTTT
66 CTTGATAAT-TACGA-AAGTCCGTCTAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTC
*
17620477 TTAATTCAAAGACCAAAAGTT-ATT-T-ACAAA-A-T-GACCAAAGGATGTGATTTCCCGAGCAT
129 TTAATTCAAAGACCAAAAGTTGATTATGACAAATATTAGACCAAAGGATGCGATTTCCCGAGCAT
* * *
17620536 GGAATATAT-GAAAAATTGCTCCAAAG-AATGGGTTGTCATGAATACTTTAAGGAA-CAAAAGTT
194 GGAATAT-TCGAAAAATTGCT-CAAAGCAATGGATCGTCATGAATACTTTAA-CAATCAAAAGTT
* ** * * *
17620598 ATAAAAGAACTTGTAAAAGTATGACAATTTCGAAAGTTCGTCTAAGAACCAAGAGAGAAAATTTT
256 ATAAAAGAAATTGTAAAAGTATGACAAGATCGAAAGTTCGGCCAAGAACCAAGAGAGAAAATATT
* * * *
17620663 CTCATGTAAATAAGTTTTTAATTCAAGCACGAAAA
321 CTAATGTAAATAAGTTCTTAATTCAAACACCAAAA
17620698 TTTCTTTACA
Statistics
Matches: 294, Mismatches: 47, Indels: 28
0.80 0.13 0.08
Matches are distributed among these distances:
382 2 0.01
383 148 0.50
384 7 0.02
386 1 0.00
388 5 0.02
389 1 0.00
395 6 0.02
396 78 0.27
397 46 0.16
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (390 bp):
TGCTCGAACGAATGAATCGTCATGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCATAAAAG
CTTGATAATTACGAAAGTCCGTCTAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTCTT
AATTCAAAGACCAAAAGTTGATTATGACAAATATTAGACCAAAGGATGCGATTTCCCGAGCATGG
AATATTCGAAAAATTGCTCAAAGCAATGGATCGTCATGAATACTTTAACAATCAAAAGTTATAAA
AGAAATTGTAAAAGTATGACAAGATCGAAAGTTCGGCCAAGAACCAAGAGAGAAAATATTCTAAT
GTAAATAAGTTCTTAATTCAAACACCAAAAGTTATGATTTCTTGAACATGAAATGTTCAGAAAAC
Found at i:17620708 original size:599 final size:602
Alignment explanation
Indices: 17619718--17620835 Score: 1418
Period size: 599 Copynumber: 1.8 Consensus size: 602
17619708 ACTTCCCGAG
* * *
17619718 CATGGAATGTTCGAAAAACTACTCGAAGGAATGGATCACCTTGAATACTTTAAGAAACTGAAGTT
1 CATGAAATGTTCGAAAAACTACTCGAACGAATGAATCACCTTGAATACTTTAAGAAACTGAAGTT
*
17619783 AATAAAAAACTCGTAAAATTTTGACAAGTTCGAAAGATCGGCCAAGAACCAAGAGAGAAACAATT
66 AATAAAAAACTCGTAAAATTTTGACAAGTACGAAAGATCGGCCAAGAACCAAGAGAGAAACAATT
* *
17619848 CTCACATAAATAAGTTTTTAATTCAAAGACAAAAATTTGTTTACAAAATGACAAACTATTTGGAC
131 CTCACATAAATAAGTTTTTAATTCAAAGACAAAAAGTTATTTACAAAATGACAAAC-A--TGG--
* * * * * *
17619913 CAAAAAATGCGATTTCTCGAGCATGGAATGCTCGATATATTGCTCGAAGGAATGGATCGTCATGA
191 -----AATGCGATTTCCCGAGCATGGAATGATCGAAAAATTGCTCCAAAGAATGGATCGTCATGA
* * *
17619978 ATACTTTAAGGGACCAAAGTTATAAAAGAACTCATAAAAGCTTGATAATTTCGAAAGTCCGTCTA
251 ATACTTTAAGGAACAAAAGTTATAAAAGAACTCATAAAAGCTTGACAATTTCGAAAGTCCGTCTA
* * *
17620043 AGAAGCAAGGGAGAAACAATTCTCACGTAAATAAGTTCTTAATTCAAAGACCAAAAGTTGTTTAC
316 AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTCTTAATTCAAAGACCAAAAGTTCTTTAC
* * **
17620108 AAAATGACAAATTATTTAGACCAAATGATGCGATTTCTTGAGCATGGAATGTTCGGAAAATTGCT
381 AAAATGACAAACTATTTACACCAAATGATGCGATTTCCAGAGCATGGAATGTTCGGAAAATTGCT
* * *
17620173 TGAAGCAATTGATCGT-CTTGAATACTTTA-ACAATCTAAATTTATAAAAGAAATTGTAAAAGTT
446 TGAAGCAATGGATC-TCCTTGAATACTTTAGA-AAT-TAAAGTTATAAAAGAAATCGTAAAAGTT
17620236 TGACAAGATCGAAAGTTCGGCCAAGATCGAAGAGAGAAACAATTCTAACTTAAATAAGTTCTTAA
508 TGACAAGATCGAAAGTTCGGCCAAGATCGAAGAGAGAAACAATTCTAACTTAAATAAGTTCTTAA
17620301 TTCAAACACCAAAAGTTATGATTTCTTGAA
573 TTCAAACACCAAAAGTTATGATTTCTTGAA
* ** *
17620331 CATGAAATGTTC-AGAAAACTGCTCGAACGAATGAATCGTCTTGAATACTTTAAGGAACTGAAGT
1 CATGAAATGTTCGA-AAAACTACTCGAACGAATGAATCACCTTGAATACTTTAAGAAACTGAAGT
* * ** * *
17620395 T-ATAAAAAACTTGT-AAATGTTTGA-AATGTAC-AGAAGTTCTTCTAAGAACCAAGAGTGAAAC
65 TAATAAAAAACTCGTAAAAT-TTTGACAA-GTACGA-AAGATCGGCCAAGAACCAAGAGAGAAAC
* * * *
17620456 AATTTTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTATTTACAAAATGACCAA-A-GG-
127 AATTCTCACATAAATAAGTTTTTAATTCAAAGACAAAAAGTTATTTACAAAATGACAAACATGGA
* * * *
17620518 ATGTGATTTCCCGAGCATGGAAT-ATATGAAAAATTGCTCCAAAGAATGGGTTGTCATGAATACT
192 ATGCGATTTCCCGAGCATGGAATGAT-CGAAAAATTGCTCCAAAGAATGGATCGTCATGAATACT
** *
17620582 TTAAGGAACAAAAGTTATAAAAGAACTTGTAAAAG-TATGACAATTTCGAAAGTTCGTCTAAGAA
256 TTAAGGAACAAAAGTTATAAAAGAACTCATAAAAGCT-TGACAATTTCGAAAGTCCGTCTAAGAA
* * * * *
17620646 CCAAGAGAGAAA-ATTTTCTCATGTAAATAAGTTTTTAATTC-AAGCACGAAAATTTCTTTACAA
320 CCAAGAGAGAAACA-ATTCTCACGTAAATAAGTTCTTAATTCAAAG-ACCAAAAGTTCTTTACAA
* * * *
17620709 AATGACAAACTATTTACCCCCAATGATGTGATTTCCAGAGCATGGAATGTTTGGAAAATTGCTTG
383 AATGACAAACTATTTACACCAAATGATGCGATTTCCAGAGCATGGAATGTTCGGAAAATTGCTTG
* * *
17620774 AAGGAATGGATCTCCTTGAATACTTTATGAAATTGAAGTTATAAAAGAACTCGTAAAAGTTT
448 AAGCAATGGATCTCCTTGAATACTTTA-GAAATTAAAGTTATAAAAGAAATCGTAAAAGTTT
17620836 AAAAGGTTTG
Statistics
Matches: 436, Mismatches: 58, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
598 7 0.02
599 262 0.60
600 3 0.01
601 1 0.00
607 2 0.00
610 1 0.00
611 7 0.02
612 97 0.22
613 56 0.13
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (602 bp):
CATGAAATGTTCGAAAAACTACTCGAACGAATGAATCACCTTGAATACTTTAAGAAACTGAAGTT
AATAAAAAACTCGTAAAATTTTGACAAGTACGAAAGATCGGCCAAGAACCAAGAGAGAAACAATT
CTCACATAAATAAGTTTTTAATTCAAAGACAAAAAGTTATTTACAAAATGACAAACATGGAATGC
GATTTCCCGAGCATGGAATGATCGAAAAATTGCTCCAAAGAATGGATCGTCATGAATACTTTAAG
GAACAAAAGTTATAAAAGAACTCATAAAAGCTTGACAATTTCGAAAGTCCGTCTAAGAACCAAGA
GAGAAACAATTCTCACGTAAATAAGTTCTTAATTCAAAGACCAAAAGTTCTTTACAAAATGACAA
ACTATTTACACCAAATGATGCGATTTCCAGAGCATGGAATGTTCGGAAAATTGCTTGAAGCAATG
GATCTCCTTGAATACTTTAGAAATTAAAGTTATAAAAGAAATCGTAAAAGTTTGACAAGATCGAA
AGTTCGGCCAAGATCGAAGAGAGAAACAATTCTAACTTAAATAAGTTCTTAATTCAAACACCAAA
AGTTATGATTTCTTGAA
Found at i:17620891 original size:216 final size:216
Alignment explanation
Indices: 17620509--17624869 Score: 2936
Period size: 216 Copynumber: 19.9 Consensus size: 216
17620499 TTTACAAAAT
* * * * * * * * * *
17620509 GACCAAAGGATGTGATTTCCCGAGCATGGAATATATGAAAAATTGCTCCAAAGAATGGGT-TGTC
1 GACCAAATGATGCGATTTCCAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCT-CC
* ** * * *
17620573 ATGAATACTTTAAGGAACAAAAGTTATAAAAGAACTTGTAAAAGTATGACAATTTCGAAAGTTCG
65 TTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCG
* * * * *
17620638 TCTAAGAACCAAGAGAGAAA-ATTTTCTCATGTAAATAAGTTTTTAATTC-AAGCACGAAAATTT
130 TCCAAGAACCAAGAGAGAAACA-ATTCTCACGTAAATAAGTTTTTAATTCAAAG-ACCAAAAGTT
*
17620701 CTTTACAAAATGACAAACTATTTA
193 GTTTACAAAATGACAAACTATTTA
** * * *
17620725 CCCCCAATGATGTGATTTCCAGAGCATGGAATGTTTGGAAAATTGCTTGAAGGAATGGATCTCCT
1 GACCAAATGATGCGATTTCCAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCTCCT
* * * * * *
17620790 TGAATACTTTATGAAATTGAAGTTATAAAAGAACTCGTAAAAGTTT-AAAAGGTTTGAAAGTTCA
66 TGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAA-GTTCGAAAGTTCG
* * ** * * * *
17620854 TCTAAGAACCAAGAGGGAAACAATTCTCAAATAAATAAGTTTTTAGTTCAATGACCAAACGTTAT
130 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
17620919 TTACAAAATGACAAACTATTTA
195 TTACAAAATGACAAACTATTTA
* * * * * *
17620941 AACCAAACGATGCGATTTCTTA-AGCATGGAATGTTT-GAAAATTTTCTCAAAGGAAGGGAT-TG
1 GACCAAATGATGCGATTTC-CAGAGCATGGAATGTTTGGAAAA-TTGCTCGAAGGAATGGATCT-
* * * * * * *
17621003 TCTTGAATGCATTTTAGGAA-TCGAAGTTATAAAAGAAATCATAAAATTTTGACAAGTTCGGAAG
63 CCTTGAATAC-TTTAAGGAACT-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAG
* * ** *
17621067 TTCGTCCCAGAACCAAGAGAGAAACAATTCTCATGTAAATAA-AATTTAATTTCAAAGAGCAAAA
126 TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA-TTCAAAGACCAAAA
**
17621131 GTTGTTTACAAAATGACAATTTATTTA
190 GTTGTTTACAAAATGACAAACTATTTA
* * * * *
17621158 GACCGAATGATGCGATTTCTC-GAGCATGGAATGTTTGGTAATTTGCTAGACGGAATGGATCAT-
1 GACCAAATGATGCGATTTC-CAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATC-TC
* * ** *
17621221 CTTGAATACTTTAAGGAA-TCAAAGTTATAAAAGAATTTATAAAAGTTTGACAATTTCGAAAGTT
64 CTTGAATACTTTAAGGAACT-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTT
* * * * * * * * *
17621285 CGTCCCAGAACCAAGAGAGACAGAACTCTCACGTAAAAAAATTTTAAATTGAAAGACCAAAAGCT
128 CGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* *
17621350 GTTTACAGAATAACAAACTATTTA
193 GTTTACAAAATGACAAACTATTTA
* * *
17621374 GACCAAATGATGCGATTTCTC-GAGCATGGAATGTTCGGAAAACTGCTCGAAGGAATGGATCGCC
1 GACCAAATGATGCGATTTC-CAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCTCC
* * *
17621438 TTGAATACTTTAAGAAACTGAGGTTA-ATAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTC
65 TTGAATACTTTAAGGAACTGAAGTTATA-AAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC
* * * *
17621502 GTCCTAGAACCAAGAGAGAAACAATTCTCACGTAAATATGTTTTCAATTCAAAGA-CAAAATCTT
129 GTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA-GTT
*
17621566 TTTTACAAAATGACAAACTATTTA
193 GTTTACAAAATGACAAACTATTTA
* * * *
17621590 GACCAAATTATGCGATTTTCCA-AGCATGGAATGTTCGGAAAATTCCTCGAAGGAATGGATCGCC
1 GACCAAATGATGCGA-TTTCCAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCTCC
* * * * *
17621654 TTGAATACTCTAAGGAAGC-AAAGTTATAAAAGAATTCGTAAAAGTTTGGCAAGTTTGACAAGTT
65 TTGAATACTTTAAGGAA-CTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGA-AAGTT
* ** **** * * * * *
17621718 C-T-GAAG-TTCATCCTAG-AGCAA--CTCACTTAACTAAGTTTTAAATTCAAAGACAAAAAGTT
128 CGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
*
17621777 GTTTACAAAATGACGAACTATTTA
193 GTTTACAAAATGACAAACTATTTA
** * * * * * **
17621801 GACCAAATGATTTGATTTCCCGACCATGGAATGTTTGAAAAATTGCTCAAAGGATTGGATCGACT
1 GACCAAATGATGCGATTTCCAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCTCCT
* * ** * * *
17621866 TGAATATTTTAAGGAACTGAAGTTATAAAATAACTCACAAAAGTTTGACAAGTTCGGATGTTCGG
66 TGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGT
* *
17621931 CCTAGAAAC-A-AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTT
131 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTT
*
17621994 CACAAAATGACAAACTATTTA
196 TACAAAATGACAAACTATTTA
* * * *** *
17622015 GACCAAATGATGTGACTTCCCGAGCATGGAATGTTCAAAAAATTGCTCGAACGAATGGAT-TGCC
1 GACCAAATGATGCGATTTCCAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCT-CC
* * * *
17622079 TTGAATACTTTAAGAAACTAAAGTTA-ATAAAGAACTCGTAAAATTTTGACAAGTTCGAAAGATC
65 TTGAATACTTTAAGGAACTGAAGTTATA-AAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC
* *
17622143 AG-CCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTTAAAGACCAAAAGTT
129 -GTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* *
17622207 GTTTACAAAATAAAAAACTATTTA
193 GTTTACAAAATGACAAACTATTTA
* * *** *
17622231 AACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCG--GGAAACGGAT-TGC
1 GACCAAATGATGCGATTTCCAGAGCATGGAATGTTTGGAAAATTGCTCGAAGG-AATGGATCT-C
* * * ** * * * *
17622293 CTTGAAAACTTTATGAAACTTTAG-TAAATAAAGAGCTCGTAAAAGTTTGACAAGTTCAAAAGAT
64 CTTGAATACTTTAAGGAACTGAAGTTATA-AAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTT
* * * * * **
17622357 CGACCAAGAACCAAGAGAGAAATAATTCTAATGTAAATACA-TTTTTAATTCAAAGACCGAATCT
128 CGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATA-AGTTTTTAATTCAAAGACCAAAAGT
17622421 TGTTTACAAAATGACAAACTATTTA
192 TGTTTACAAAATGACAAACTATTTA
** * * * *
17622446 GACCAAATGATGAAATTTCCCA-AGCATGGAATGTTT-GAAAATTGCTCGAGGGAATGAATCACA
1 GACCAAATGATGCGATTT-CCAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCTCC
* * * * * *
17622509 TTGAATAGTTTAAGGAAC-GAAAATTTATAAAAGAACTCATAAAAGTTCAGAAAATAGCTCGAAG
65 TTGAATACTTTAAGGAACTG--AAGTTATAAAAGAACTCGTAAAAGTT-TG-ACA-AGTTC----
* * * * * *
17622573 GAATTGATCGTTTTGAATACTTTAAGGACCAAAAGTTATAAAGGAA--CT--CGT-AA-AAG-TT
121 GAA---A--G-TTCG--T-C--CAAGAACCAAGAG--AGAAA-CAATTCTCACGTAAATAAGTTT
* * ** ** * * * * *
17622631 TGACTT----GTTCGGAAGTTCTTCTAAGAACCAAGAGAGAAACAATTCTCA
172 TTAATTCAAAGACCAAAAGTTGTT-T-ACAA--AA-TGACAAACTATT-T-A
**** * * * ** * * * ** * *
17622679 TG--CAAAT-ATATTTTTAAATCAAAGACCA--AAACTTGTTTACAAAA-AG-ACAAACTATTTA
1 -GACCAAATGATGCGATT---TC-CAGAGCATGGAA--TGTTTGGAAAATTGCTCGAAGGA-ATG
** * *** * *** * *
17622737 GA-C-CAAATG-ATGCGATTTTCCGAGCATGGAATGTTCGA-AAAATTGCTCG--AAGGATTGGA
58 GATCTC-CTTGAATAC--TTTAAGGAAC-T-GAA-GTT--ATAAAAGAACTCGTAAAAG-TTTGA
* * * * * * * *
17622796 TC--GTCTTGAATACTT--T--AAGTAACCGAAGTTATA-AAAGAACTCGCAAATGTTTAATAAG
114 -CAAGT-TCGAA-AGTTCGTCCAAG-AACC-AAG--AGAGAAACAATTCTC--ACG-TAAATAAG
* * * * *** * ***** *
17622854 TTCAGATGTTTA-GCCAAGAAACAAGATAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAA
169 TT----T-TTAATTCAAAG-ACCAA-A-AG---TTGTT-T-ACA-AAATGACAAACT-ATT--TA
* * * ** * * ** * *
17622918 GACCAAAAG-T-TG-TTT--ATAAAATGACAAACTATTTATACCAAATGATGTGATTTCCCAA-G
1 GACCAAATGATGCGATTTCCAGAGCATG--GAA-T-GTT-T-GGAAA--AT-TG--CT-CGAAGG
* * * * * * *
17622977 CATGGAATGT--TCGAAAAATTGGTCGATGGAATGGATCGCCTTGAATACTTTAATAAACTGAAG
54 AATGG-ATCTCCTTG-AATACT--T---T--AA-GGA---AC-TG-A-A-GTT-AT-AA---AAG
* *
17623040 TAAATAAATTAACTCGTAAAAGTTTGACTAGTTCGAAAGATCGGT-CAAGAACCAAGAGAGAAAC
97 ---A-------ACTCGTAAAAGTTTGACAAGTTCGAAAGTTC-GTCCAAGAACCAAGAGAGAAAC
* * *
17623104 AATTCTCACGTAAATAAGTTTTTAATTCGAAGACCAAAAGTTGGTCACAAAATGACAAACTATTT
151 AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
17623169 A
216 A
* ** * *
17623170 AACCAAATGATGCGATTTTCC-GAGCATGGAATG-TTCAAAAATTTGCTTGAAGGAATGGATCGC
1 GACCAAATGATGCGA-TTTCCAGAGCATGGAATGTTTGGAAAA-TTGCTCGAAGGAATGGATCTC
* * * * *
17623233 CTTGAATACTTTAAGAAAATGAAGTTA-ATAAAGAACTTGTAAAAGTTTGACAAGTTCGGAAGAT
64 CTTGAATACTTTAAGGAACTGAAGTTATA-AAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTT
* * * * *
17623297 CGGCCAAGAACCAAGAGAAAAAAAATTCTCACGTAAATAAGTTTTTAAATCAAAAACCAAAAGTT
128 CGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* *
17623362 GTTCACAAAATGAAAAACTATTTA
193 GTTTACAAAATGACAAACTATTTA
* * **
17623386 GATCAAATGATGCGATTTCCCA-AGCATGGAATGTTCGGAAAATTTTTCGAAGGAATGGAT-TAC
1 GACCAAATGATGCGATTT-CCAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCT-C
* * * *
17623449 CTTGAATAATTTAAGAAACTGAAGTTA-ATAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGAT
64 CTTGAATACTTTAAGGAACTGAAGTTATA-AAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTT
* * *
17623513 CGACCAAGCACCAAGAGAGAAACAATTCTCACGCAAATAAGTTTTTAATTCAAAGACCAAAAGTT
128 CGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
*
17623578 GTTTACAAAATGTCAAACTATTTA
193 GTTTACAAAATGACAAACTATTTA
** * * *
17623602 GACCAAATGATGCGATTTCTTGAGCATGGAATGTTTGGAAAACTGCTCAAAGGAATGGATCGCCT
1 GACCAAATGATGCGATTTCCAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCTCCT
* * * * * *
17623667 TAAAAACTTTATGAAACTGAAG-TAAATAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGATCG
66 TGAATACTTTAAGGAACTGAAGTTATA-AAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCG
* * * ** * * **
17623731 GCCAAGAACCAAGAGAGAAATAATTCTCATGTAAATACTTTTTTAATTCAAAGATCGAATCTTGT
130 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
*
17623796 TTCCAAAATGACAAACTATTTA
195 TTACAAAATGACAAACTATTTA
** * * * * *** * *
17623818 GACCAAATGATGAAATTTCCCGAGCATGGAATG-TTAGTAAATTGCTTGAAGGAACAAATCACGT
1 GACCAAATGATGCGATTTCCAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCTCCT
* * * * *
17623882 TGAATAGTTTAAGGAACGGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAA-CTCA
66 TGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAG-TTCGAAAGTTCG
* * * * * *
17623946 ACCAAGAACGAAGAGAGAAGCAATTCTTACGTAAATATGTTTTTAATTCAAATACCAAAAGTTGT
130 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
17624011 TTACAAAATGACAAACTATTTA
195 TTACAAAATGACAAACTATTTA
* * **
17624033 GACCAAATGATGTGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCGT-C
1 GACCAAATGATGCGATTTCCAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATC-TCC
* ** * *
17624097 TTGAATACTTTAAGGAAATAGAAGTTATAAAAGAACTCGTAAAA-TTTGACTTGTTCGGAAGTTT
65 TTGAATACTTTAAGGAACT-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC
* * *
17624161 TTCTAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAATCAAAGACCAAAAGTTG
129 GTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTG
17624226 TTTACAAAATGACAAACTATTTA
194 TTTACAAAATGACAAACTATTTA
* * * * *
17624249 GACCAAATGATGTGATTTCCCGAGCAT-GATATGTTCGGAAAATTGATCGATGGAATGGATCGT-
1 GACCAAATGATGCGATTTCCAGAGCATGGA-ATGTTTGGAAAATTGCTCGAAGGAATGGATC-TC
* * ** * * *
17624312 CATGAGTACTTTAAGGAACCAAAGTTATAAAAGAACTCATAAAAGTTTTACAATTTCGAAAGTTC
64 CTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC
* * * *
17624377 GTCTAAGAACCATGAGAGAAA-ATTTTCTCACGTAAATAAGTTTTTAATTCAAACACCAAAAGTT
129 GTCCAAGAACCAAGAGAGAAACA-ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* * * *
17624441 CTTTTAAAAAATAACAATCTATTTA
193 -GTTTACAAAATGACAAACTATTTA
* * * * * * * *
17624466 GGCCAAATGATGTGATTTCTCA-AGCATAGAATGTTCGAAAAATTGCTCAAAGTAATGTATCTCC
1 GACCAAATGATGCGATTTC-CAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCTCC
* * *
17624530 TTGAATACTTTAAGGAATTGAAGTTATAAAAGACCTCGTAAAAGTTTGACAAGTTCAAAAGTGT-
65 TTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGT-TC
* * * *
17624594 GTTCAAGAACCAAGAGTGAAACAATTCTCACATAAATAAGTTTTTAATTCAATGACCAAAAGTTG
129 GTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTG
17624659 TTTACAAAATGACAAACTATTTA
194 TTTACAAAATGACAAACTATTTA
* ** * * * *
17624682 GACCGAATGATGCGATTTCTTGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGACCACCT
1 GACCAAATGATGCGATTTCCAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCTCCT
* * *
17624747 TGAATACTTTAA-GAAGCTCAGGTTA-ATAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTC
66 TGAATACTTTAAGGAA-CTGAAGTTATA-AAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC
* * *
17624810 GTCCTAGAACCAATAGAGAAACAATTCTCACGTAAATACGTTTTTAATTCAAAGACCAAA
129 GTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
17624870 TCTTCTTGTT
Statistics
Matches: 3271, Mismatches: 642, Indels: 464
0.75 0.15 0.11
Matches are distributed among these distances:
210 11 0.00
211 144 0.04
212 10 0.00
213 6 0.00
214 186 0.06
215 415 0.13
216 1716 0.52
217 397 0.12
218 17 0.01
219 5 0.00
220 1 0.00
221 1 0.00
222 1 0.00
223 4 0.00
224 2 0.00
225 5 0.00
226 13 0.00
227 1 0.00
228 6 0.00
229 3 0.00
230 14 0.00
231 17 0.01
232 13 0.00
233 11 0.00
234 24 0.01
235 23 0.01
236 20 0.01
237 9 0.00
238 19 0.01
239 10 0.00
240 12 0.00
241 2 0.00
242 1 0.00
244 5 0.00
245 5 0.00
246 15 0.00
247 2 0.00
248 3 0.00
249 2 0.00
250 4 0.00
251 1 0.00
252 11 0.00
253 1 0.00
254 6 0.00
255 12 0.00
256 9 0.00
257 6 0.00
258 1 0.00
260 2 0.00
261 2 0.00
262 1 0.00
263 7 0.00
264 5 0.00
268 9 0.00
269 2 0.00
270 9 0.00
271 16 0.00
272 8 0.00
273 5 0.00
274 3 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.28
Consensus pattern (216 bp):
GACCAAATGATGCGATTTCCAGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCTCCT
TGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGT
CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTT
TACAAAATGACAAACTATTTA
Found at i:17624755 original size:649 final size:646
Alignment explanation
Indices: 17622585--17624869 Score: 2752
Period size: 649 Copynumber: 3.5 Consensus size: 646
17622575 ATTGATCGTT
* ** * ** * *
17622585 TTGAATACTTTAAGGACCAAAAGTTATAAAGGAACTCGTAAAAGTTTGACTTGTTCGGAAGTTCT
1 TTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTT-G
* * * *
17622650 TCTAAGAACCAAGAGAGAAACAATTCTCATGCAAATATA-TTTTTAAATCAAAGACCAAAACTTG
65 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATA-AGTTTTTAAATCAAAGACCAAAAGTTG
* *
17622714 TTTACAAAAAGACAAACTATTTAGACCAAATGATGCGATTTTCCGAGCATGGAATGTTCGAAAAA
129 TTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAA
* ** * ** *
17622779 TTGCTCGAAGGATTGGATCGTCTTGAATACTTTAAGTAACCGAAGTT-ATAAAAGAACTCGCAAA
194 TTGCTCGAAGGAATGGATCACCTTGAATACTTTAAGAAATAGAAGTTAAT-AAAGAACTCGTAAA
* * * * * * * *
17622843 TGTTTAATAAGTTCAGATG-TTTAGCCAAGAAACAAGATAGAAACAATTCTCACATAAATAAGTT
258 AGTTTGACAAGTTCGGAAGTTTTA-CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* *
17622907 TTTAATTCAAAGACCAAAAGTTGTTTATAAAATGACAAACTATTTATACCAAATGATGTGATTTC
322 TTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTC
* * * *
17622972 CCAAGCATGGAATGTTCGAAAAATTGGTCGATGGAATGGATCGCCTTGAATACTTTAATAAACTG
387 CCGAGCATGGAATGTTCGGAAAATTGATCGATGGAATGGATCGCCTTGAATACTTTAAGAAACTG
* ** *
17623037 AAGTAAATAAATTAACTCGTAAAAGTTTGACTAGTTCGAAAGATCGGTCAAGAACCAAGAGAGAA
452 AAGT-TATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGATC-GTCAAGAACCAAGAGAGAA
* * *
17623102 ACA-ATTCTCACGTAAATAAGTTTTTAATTCGAAGACCAAAAGTTGGTCACAAAATGACAAACTA
515 A-ATATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA
* * *
17623166 TTTAAACCAAATGATGCGATTT-TCCGAGCATGGAATGTTC-AAAAATTTGCTTGAAGGAATGGA
579 TTTAGACCAAATGATGAGATTTCT-CGAGCATGGAATGTTCGAAAAA-TTGCTTGAAGGAATGAA
*
17623229 TCGCC
642 TCACC
* * * * *
17623234 TTGAATACTTTAAGAAAATGAAGTTA-ATAAAGAACTTGTAAAAGTTTGACAAGTTCGGAAGATC
1 TTGAATACTTTAAGGAACTGAAGTTATA-AAAGAACTCGTAAAAGTTTGACAAGTTCGAAAG-TT
* * * *
17623298 GGCCAAGAACCAAGAGAAAAAAAATTCTCACGTAAATAAGTTTTTAAATCAAAAACCAAAAGTTG
64 GTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAATCAAAGACCAAAAGTTG
* * * * *
17623363 TTCACAAAATGAAAAACTATTTAGATCAAATGATGCGATTTCCCAAGCATGGAATGTTCGGAAAA
129 TTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAA
** * *
17623428 TTTTTCGAAGGAATGGATTACCTTGAATAATTTAAGAAACT-GAAGTTAATAAAGAACTCGTAAA
194 TTGCTCGAAGGAATGGATCACCTTGAATACTTTAAGAAA-TAGAAGTTAATAAAGAACTCGTAAA
* ** * *
17623492 AGTTTGACAAGTTCGGAAGATCGACCAAGCACCAAGAGAGAAACAATTCTCACGCAAATAAGTTT
258 AGTTTGACAAGTTCGGAAGTTTTACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
* * *
17623557 TTAATTCAAAGACCAAAAGTTGTTTACAAAATGTCAAACTATTTAGACCAAATGATGCGATTTCT
323 TTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCC
* * * * * * * * *
17623622 TGAGCATGGAATGTTTGGAAAACTGCTCAAAGGAATGGATCGCCTTAAAAACTTTATGAAACTGA
388 CGAGCATGGAATGTTCGGAAAATTGATCGATGGAATGGATCGCCTTGAATACTTTAAGAAACTGA
* *
17623687 AG-TAAATAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGATCGGCCAAGAACCAAGAGAG-AA
453 AGTTATA-AAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGATC-GTCAAGAACCAAGAGAGAAA
* ** * * ** *
17623750 ATAATTCTCATGTAAATACTTTTTTAATTCAAAGATCGAATCTTGTTTCCAAAATGACAAACTAT
516 AT-ATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTAT
* * * * **
17623815 TTAGACCAAATGATGAAATTTCCCGAGCATGGAATGTTAG-TAAATTGCTTGAAGGAACAAATCA
580 TTAGACCAAATGATGAGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTTGAAGGAATGAATCA
*
17623879 CG
645 CC
* * * * **
17623881 TTGAATAGTTTAAGGAACGGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAACTCA
1 TTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAG-TTCGAAAGTTG
* * * * * * *
17623946 ACCAAGAACGAAGAGAGAAGCAATTCTTACGTAAATATGTTTTTAATTCAAATACCAAAAGTTGT
65 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAATCAAAGACCAAAAGTTGT
*
17624011 TTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCATGGAATGTTC-AGAAAA
130 TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-AAAA
**
17624075 TTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAATAGAAGTT-ATAAAAGAACTCGTAA
194 TTGCTCGAAGGAATGGATCACCTTGAATACTTTAA-GAAATAGAAGTTAAT-AAAGAACTCGTAA
** * *
17624139 AA-TTTGACTTGTTCGGAAGTTTTTCTAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
257 AAGTTTGACAAGTTCGGAAGTTTTACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
*
17624203 TTTAAATCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTC
322 TTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTC
* * * * *
17624268 CCGAGCAT-GATATGTTCGGAAAATTGATCGATGGAATGGATCGTCATGAGTACTTTAAGGAACC
387 CCGAGCATGGA-ATGTTCGGAAAATTGATCGATGGAATGGATCGCCTTGAATACTTTAAGAAACT
* * * * * *
17624332 AAAGTTATAAAAGAACTCATAAAAGTTTTACAATTTCGAAAGTTCGTCTAAGAACCATGAGAGAA
451 GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGATCGTC-AAGAACCAAGAGAGAA
* * * * * *
17624397 AATTTTCTCACGTAAATAAGTTTTTAATTCAAACACCAAAAGTTCTTTTAAAAAATAACAATCTA
515 AATATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT-GTTTACAAAATGACAAACTA
* * * * ** * *
17624462 TTTAGGCCAAATGATGTGATTTCTCAAGCATAGAATGTTCGAAAAATTGCTCAAAGTAATGTATC
579 TTTAGACCAAATGATGAGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTTGAAGGAATGAATC
*
17624527 TCC
644 ACC
* * *
17624530 TTGAATACTTTAAGGAATTGAAGTTATAAAAGACCTCGTAAAAGTTTGACAAGTTCAAAAGTGTG
1 TTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGT-TG
* * * * *
17624595 TTCAAGAACCAAGAGTGAAACAATTCTCACATAAATAAGTTTTTAATTCAATGACCAAAAGTTGT
65 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAATCAAAGACCAAAAGTTGT
* **
17624660 TTACAAAATGACAAACTATTTAGACCGAATGATGCGATTTCTTGAGCATGGAATGTTCGAAAAAT
130 TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT
* *
17624725 TGCTCGAAGGAATGGACCACCTTGAATACTTTAAGAAGCTCAG--GTTAATAAAGAACTCGTAAA
195 TGCTCGAAGGAATGGATCACCTTGAATACTTTAAGAA-AT-AGAAGTTAATAAAGAACTCGTAAA
* * * *
17624788 AGTTTGACAAGTTCGGAAGTTCGT-CCTAGAACCAATAGAGAAACAATTCTCACGTAAATACGTT
258 AGTTTGACAAGTTCGGAAGTT-TTACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
17624852 TTTAATTCAAAGACCAAA
322 TTTAATTCAAAGACCAAA
17624870 TCTTCTTGTT
Statistics
Matches: 1383, Mismatches: 223, Indels: 60
0.83 0.13 0.04
Matches are distributed among these distances:
646 5 0.00
647 455 0.33
648 253 0.18
649 661 0.48
650 9 0.01
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (646 bp):
TTGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTGT
CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAATCAAAGACCAAAAGTTGTT
TACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATT
GCTCGAAGGAATGGATCACCTTGAATACTTTAAGAAATAGAAGTTAATAAAGAACTCGTAAAAGT
TTGACAAGTTCGGAAGTTTTACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
ATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGA
GCATGGAATGTTCGGAAAATTGATCGATGGAATGGATCGCCTTGAATACTTTAAGAAACTGAAGT
TATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGATCGTCAAGAACCAAGAGAGAAAATATT
CTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGAC
CAAATGATGAGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTTGAAGGAATGAATCACC
Found at i:17626858 original size:176 final size:176
Alignment explanation
Indices: 17626558--17626877 Score: 462
Period size: 176 Copynumber: 1.8 Consensus size: 176
17626548 ACTCGTATCA
* *
17626558 TGTTTACAAAATGACCAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGAAATGTTTGAAA
1 TGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGAAATGTTCGAAA
* * * *
17626623 AATTGCTCTAAGGAATGGATCACGTTGAATACTTTAAGGAAGCAAAGTTATGAAAGAACTTGTAA
66 AATTGCTCAAAGGAATGGATCACGTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAA
*
17626688 AATTTTGACAAGTTTGAAAGTTCATCCTAGAACAAAGACCATAAGT
131 AAGTTTGACAAGTTTGAAAGTTCATCCTAGAACAAAGACCATAAGT
* * * * *
17626734 TGTTTGCAAAATGATAAACTATTTAGACCAAATGATGTGATTTCTCGAGCAT-AGAATGTTCGAA
1 TGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGA-AATGTTCGAA
* * ** *
17626798 AAATTGCTCAAATGATTGGATCGTGTTTAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTA
65 AAATTGCTCAAAGGAATGGATCACGTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTA
*
17626863 AACGTTTGACAAGTT
130 AAAGTTTGACAAGTT
17626878 CGACTGTTCG
Statistics
Matches: 125, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
175 1 0.01
176 124 0.99
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (176 bp):
TGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGAAATGTTCGAAA
AATTGCTCAAAGGAATGGATCACGTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAA
AAGTTTGACAAGTTTGAAAGTTCATCCTAGAACAAAGACCATAAGT
Found at i:17627094 original size:216 final size:216
Alignment explanation
Indices: 17626720--17627271 Score: 700
Period size: 216 Copynumber: 2.6 Consensus size: 216
17626710 CATCCTAGAA
* * *
17626720 CAAAGACCATAAGTTGTTTGCAAAATGATAAACTATTTAGACCAAATGATGTGATTTCTCGAGCA
1 CAAAGACCAAAAGTTGTTTACAAAATGATAAACTATTTAGACCAAATGATGTGATTTCCCGAGCA
* * * *** *
17626785 TAGAATGTTCGAAAAATTGCTCAAATGATTGGATCGTGTTTAATACTTTAAGGAACCAAAGTTAT
66 TGGAATGTTCGAAAAAATGCTCAAATGAATGGATCACCTTGAATACTTTAAGGAACCAAAGTTAT
* * ** *
17626850 AAAAGAACTCGTAAACGTTTGACAAGTTCGACTGTTCGACCAAGAAAC-TAGAGAG-AAACAATT
131 AAAAGAACCCATAAACGTTTGACAAGTTCGAAAGTTCGACCAAG-AACGAAGAGAGAAAAC-ATT
*
17626913 CCCACGTAAATAAGTTTTTAATT
194 CCCACGTAAATAAGTTTTGAATT
*
17626936 CAAAGACCAAAAGTTGTTTACAAAATGATAAACTATTTAGACCAAATGATGCGATTTCCCGAGCA
1 CAAAGACCAAAAGTTGTTTACAAAATGATAAACTATTTAGACCAAATGATGTGATTTCCCGAGCA
*
17627001 TGGAATGTTCGAAAAAATGCTC-AATGGAATGGATCACCTTGAATACTTTAAGGAACCAATGTTA
66 TGGAATGTTCGAAAAAATGCTCAAAT-GAATGGATCACCTTGAATACTTTAAGGAACCAAAGTTA
** * *
17627065 TAAAAGAACCCATAAGTGTTTGACAAGTTCGAAAGTTCGTCTAAGAACGAAGAGAGAAAACATTC
130 TAAAAGAACCCATAAACGTTTGACAAGTTCGAAAGTTCGACCAAGAACGAAGAGAGAAAACATTC
* * *
17627130 TCACGTGAATAGGTTTTGAATT
195 CCACGTAAATAAGTTTTGAATT
* * * * *
17627152 CAAAGACCAAAAGTTGTTTACAAAATAACAAACTATTTATACCAAATGATATTATTTCCCGAGCA
1 CAAAGACCAAAAGTTGTTTACAAAATGATAAACTATTTAGACCAAATGATGTGATTTCCCGAGCA
* * * * * *
17627217 TGGAATGTTTTG-GAAATTACTCGAAA-GAACGGATCACCTTGAATAATTTAAGGAA
66 TGGAATG-TTCGAAAAAATGCTC-AAATGAATGGATCACCTTGAATACTTTAAGGAA
17627272 TCGAAGTCAA
Statistics
Matches: 293, Mismatches: 37, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
215 6 0.02
216 278 0.95
217 7 0.02
218 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (216 bp):
CAAAGACCAAAAGTTGTTTACAAAATGATAAACTATTTAGACCAAATGATGTGATTTCCCGAGCA
TGGAATGTTCGAAAAAATGCTCAAATGAATGGATCACCTTGAATACTTTAAGGAACCAAAGTTAT
AAAAGAACCCATAAACGTTTGACAAGTTCGAAAGTTCGACCAAGAACGAAGAGAGAAAACATTCC
CACGTAAATAAGTTTTGAATT
Found at i:17628388 original size:19 final size:19
Alignment explanation
Indices: 17628364--17628403 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
17628354 CATTGTCCTG
17628364 TTGACTTTGATAGTTGACT
1 TTGACTTTGATAGTTGACT
*
17628383 TTGACTTTGATCGTTGACT
1 TTGACTTTGATAGTTGACT
17628402 TT
1 TT
17628404 TCTTTGACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.12, G:0.20, T:0.50
Consensus pattern (19 bp):
TTGACTTTGATAGTTGACT
Found at i:17630302 original size:220 final size:216
Alignment explanation
Indices: 17629719--17630631 Score: 1082
Period size: 216 Copynumber: 4.2 Consensus size: 216
17629709 TGGTATTAGA
* * * * * *
17629719 GCCAAGAACAAAGAGAGAAATAATTCACACGTAAATAAGTTTTTATTTCAAAGACCAAAAGTTGT
1 GCCAAGAACCAAGAGAGAAATAATTCTCACATAAATAAATTTTTAATTCAAAGACCAAAAGTTAT
* * ** * * *
17629784 TCACAGAATGGCAAACTATTTAGACCAAATGATGTGATATCCCGAGCAT-GAATGTTCGAAAAAT
66 TTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAC
* * ** *
17629848 TGCTCGAAGGAATGGATCGCTTTGAATACTTTAAGAAACTAAAGTTGATAAAGAACTCATAAAAG
131 TGCTCGAAGGAATGGATCGCCTTGAAAACTTTAAGAAACTAAAGTAAATAAAGAACTCGTAAAAG
* *
17629913 TTTGACAAGCTCGAAAGATAG
196 TTTGACAAGTTCGAAAGATCG
* * *
17629934 GCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAATTTTTAATTCAAAGACCCAAAGTTGT
1 GCCAAGAACCAAGAGAGAAATAATTCTCACATAAATAAATTTTTAATTCAAAGACCAAAAGTTAT
* * * *
17629999 TTACAAAATGACACACTATTTAGACCAAATGATGCGATTTCCCAAGCATGGAATGTT-AAGAAAA
66 TTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-AAAA
* * * * * * * *
17630063 CAGCTCGATGGATTGGATCGCCTTAAAAACTTTATGAAACTGAAGTAAATAAAGAAATCGGAAAA
130 CTGCTCGAAGGAATGGATCGCCTTGAAAACTTTAAGAAACTAAAGTAAATAAAGAACTCGTAAAA
17630128 GTTTGACAAGTTCGAAAGATCG
195 GTTTGACAAGTTCGAAAGATCG
*
17630150 GCCAAGAACCAAGAGAGAAATAATTCTCACATAAATAAATAAGTTTTTAATTCAGAGACCAAAAG
1 GCCAAGAACCAAGAGAGAAATAATTCTCACATAAAT--A-AA-TTTTTAATTCAAAGACCAAAAG
17630215 TTATTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAA
62 TTATTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAA
* *
17630280 AAACTGCTTGAAGGAATGGATCGCCTTGAAAACTTTATGAAACTAAAGTAAATAAAGAACTCGTA
127 AAACTGCTCGAAGGAATGGATCGCCTTGAAAACTTTAAGAAACTAAAGTAAATAAAGAACTCGTA
*
17630345 AAAGTTTGACAAGTTCAGAAA-ATTG
192 AAAGTTTGACAAGTTC-GAAAGATCG
* * * *
17630370 GCCAAAAACCAAGAGAGAAATAATTCTCACGTAAATACATTTTTAATGCAAAGACC-AAA-TCTA
1 GCCAAGAACCAAGAGAGAAATAATTCTCACATAAATAAATTTTTAATTCAAAGACCAAAAGT-TA
* * * * * *
17630433 TTTTACAAAATCAAAAAGTAATTAGACCAAATGATGCAATTTCTCGAGCATGGAATGTTCGAGAA
65 -TTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAA
* * * * * * ** * *
17630498 ATTGCTCGAAGGAATGGATTGCGTTGAATAGTTTAAGGAACCGACGT-TATAAAAGAACTCGTAA
129 ACTGCTCGAAGGAATGGATCGCCTTGAAAACTTTAAGAAACTAAAGTAAAT-AAAGAACTCGTAA
* *
17630562 AAGTTTGACAAGTTCAAAAGTTCG
193 AAGTTTGACAAGTTCGAAAGATCG
* * * * * *
17630586 TCCAAGAGAATCAAGAGAGAAATCATTCTCACGTGAATAAGTTTTT
1 GCC-A-AGAACCAAGAGAGAAATAATTCTCACATAAATAAATTTTT
17630632 CTGGCATCAT
Statistics
Matches: 603, Mismatches: 81, Indels: 25
0.85 0.11 0.04
Matches are distributed among these distances:
214 1 0.00
215 111 0.18
216 258 0.43
217 2 0.00
218 36 0.06
219 2 0.00
220 188 0.31
221 5 0.01
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (216 bp):
GCCAAGAACCAAGAGAGAAATAATTCTCACATAAATAAATTTTTAATTCAAAGACCAAAAGTTAT
TTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAC
TGCTCGAAGGAATGGATCGCCTTGAAAACTTTAAGAAACTAAAGTAAATAAAGAACTCGTAAAAG
TTTGACAAGTTCGAAAGATCG
Found at i:17630355 original size:436 final size:433
Alignment explanation
Indices: 17629719--17630617 Score: 1137
Period size: 436 Copynumber: 2.1 Consensus size: 433
17629709 TGGTATTAGA
* ** *
17629719 GCCAAGAACAAAGAGAGAAATAA-T-TCACACGTAAATAAGTTTTTATTTCAAAGACCAAAAGTT
1 GCCAAGAACCAAGAGAGAAATAATTCTCACAAATAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* * ** *
17629782 GTTCACAGAATGGCAAACTATTTAGACCAAATGATGTGATATCCCGAGCATGAATGTTCGAAAAA
66 ATTCACAAAATGAAAAACTATTTAGACCAAATGATGCGATATCCCGAGCATGAATGTTCGAAAAA
* * * **
17629847 TTGCTCGAAGGAATGGATCGCTTTGAATACTTTAAGAAACTAAAGTTGATAAAGAACTCATAAAA
131 CTGCTCGAAGGAATGGATCGCCTTGAAAACTTTAAGAAACTAAAGTAAATAAAGAACTCATAAAA
*
17629912 GTTTGACAAGCTC-GAAAGATAGGCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAATTT
196 GTTTGACAAGCTCAGAAA-ATAGGCCAAAAACCAAGAGAGAAACAATTCTCACATAAATAAATTT
* * * * * *
17629976 TTAATTCAAAGACCCAAAGT-T-GTTTACAAAATGACACACTATTTAGACCAAATGATGCGATTT
260 TTAATGCAAAGA-CCAAA-TCTAGTTTACAAAATCAAAAACTAATTAGACCAAATGATGCAATTT
* * *
17630039 CCCAAGCATGGAATGTTA-AGAAAACAGCTCGATGGATTGGATCGCCTTAAAAACTTTATGAAAC
323 CCCAAGCATGGAATGTTAGAG-AAACAGCTCGAAGGAATGGATCGCCTTAAAAACTTTAAGAAAC
* *
17630103 TGAAGTAA-ATAAAGAAATCGGAAAAGTTTGACAAGTTCGAAAGATCG
387 CGAAGTAATA-AAAGAAATCGGAAAAGTTTGACAAGTTCAAAAGATCG
*
17630150 GCCAAGAACCAAGAGAGAAATAATTCTCACATAAATAAATAAGTTTTTAATTCAGAGACCAAAAG
1 GCCAAGAACCAAGAGAGAAATAATTCTCAC--AAATAAATAAGTTTTTAATTCAAAGACCAAAAG
* *
17630215 TTATTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAA
64 TTATTCACAAAATGAAAAACTATTTAGACCAAATGATGCGATATCCCGAGCAT-GAATGTTCGAA
* * *
17630280 AAACTGCTTGAAGGAATGGATCGCCTTGAAAACTTTATGAAACTAAAGTAAATAAAGAACTCGTA
128 AAACTGCTCGAAGGAATGGATCGCCTTGAAAACTTTAAGAAACTAAAGTAAATAAAGAACTCATA
* * * * *
17630345 AAAGTTTGACAAGTTCAGAAAATTGGCCAAAAACCAAGAGAGAAATAATTCTCACGTAAATACAT
193 AAAGTTTGACAAGCTCAGAAAATAGGCCAAAAACCAAGAGAGAAACAATTCTCACATAAATAAAT
* *
17630410 TTTTAATGCAAAGACCAAATCTATTTTACAAAATCAAAAAGTAATTAGACCAAATGATGCAATTT
258 TTTTAATGCAAAGACCAAATCTAGTTTACAAAATCAAAAACTAATTAGACCAAATGATGCAATTT
* * * ** * * * * * *
17630475 CTCGAGCATGGAATGTTCGAGAAATTGCTCGAAGGAATGGATTGCGTTGAATAGTTTAAGGAACC
323 CCCAAGCATGGAATGTTAGAGAAACAGCTCGAAGGAATGGATCGCCTTAAAAACTTTAAGAAACC
* * * * *
17630540 GACGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCAAAAGTTCG
388 GAAGTAATAAAAGAAATCGGAAAAGTTTGACAAGTTCAAAAGATCG
* * *
17630586 TCCAAGAGAATCAAGAGAGAAATCATTCTCAC
1 GCC-A-AGAACCAAGAGAGAAATAATTCTCAC
17630618 GTGAATAAGT
Statistics
Matches: 398, Mismatches: 58, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
431 22 0.06
432 1 0.00
433 4 0.01
434 1 0.00
435 81 0.20
436 257 0.65
437 8 0.02
438 24 0.06
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (433 bp):
GCCAAGAACCAAGAGAGAAATAATTCTCACAAATAAATAAGTTTTTAATTCAAAGACCAAAAGTT
ATTCACAAAATGAAAAACTATTTAGACCAAATGATGCGATATCCCGAGCATGAATGTTCGAAAAA
CTGCTCGAAGGAATGGATCGCCTTGAAAACTTTAAGAAACTAAAGTAAATAAAGAACTCATAAAA
GTTTGACAAGCTCAGAAAATAGGCCAAAAACCAAGAGAGAAACAATTCTCACATAAATAAATTTT
TAATGCAAAGACCAAATCTAGTTTACAAAATCAAAAACTAATTAGACCAAATGATGCAATTTCCC
AAGCATGGAATGTTAGAGAAACAGCTCGAAGGAATGGATCGCCTTAAAAACTTTAAGAAACCGAA
GTAATAAAAGAAATCGGAAAAGTTTGACAAGTTCAAAAGATCG
Found at i:17640447 original size:22 final size:19
Alignment explanation
Indices: 17640422--17640474 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 19
17640412 ACAAGAAAGT
17640422 TTCTTGTTTAGATTAGTTAGAG
1 TTCTTGTTTAGATTA---AGAG
*
17640444 TTCTAGTTTA-ATTAAGAG
1 TTCTTGTTTAGATTAAGAG
17640462 TT-TTGTTTAGATT
1 TTCTTGTTTAGATT
17640475 TATTTAGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 6 0.21
18 9 0.32
21 4 0.14
22 9 0.32
ACGTcount: A:0.25, C:0.04, G:0.19, T:0.53
Consensus pattern (19 bp):
TTCTTGTTTAGATTAAGAG
Found at i:17643078 original size:7 final size:7
Alignment explanation
Indices: 17643066--17643091 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17643056 GATGGAACCC
17643066 AATTTTA
1 AATTTTA
17643073 AATTTTA
1 AATTTTA
17643080 AATTTTA
1 AATTTTA
17643087 AATTT
1 AATTT
17643092 AATTTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:17643106 original size:6 final size:6
Alignment explanation
Indices: 17643069--17643161 Score: 52
Period size: 6 Copynumber: 16.0 Consensus size: 6
17643059 GGAACCCAAT
* *
17643069 TTTAAA TTTTAAA TTTTAAA TTT-AA TTT--A TTTAAA TTTAAA CTT-AT
1 TTTAAA -TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * * * *
17643115 TTTGAG TTTGAA TTT-AT TTTAAA ATTAAA TTTAAA ATTAAG TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
17643162 ATGTCCAAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
4 4 0.06
5 12 0.17
6 40 0.58
7 13 0.19
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:17643114 original size:16 final size:15
Alignment explanation
Indices: 17643083--17643116 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
17643073 AATTTTAAAT
*
17643083 TTTAAATTTAATTTA
1 TTTAAATTTAACTTA
17643098 TTTAAATTTAAACTTA
1 TTTAAATTT-AACTTA
17643114 TTT
1 TTT
17643117 TGAGTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTAAATTTAACTTA
Found at i:17643145 original size:17 final size:17
Alignment explanation
Indices: 17643081--17643147 Score: 57
Period size: 17 Copynumber: 4.1 Consensus size: 17
17643071 TAAATTTTAA
*
17643081 ATTTT-AAATTTAATTT
1 ATTTTAAAATTAAATTT
* *
17643097 A-TTTAAATTTAAACTT
1 ATTTTAAAATTAAATTT
* ** *
17643113 ATTTTGAGTTTGAATTT
1 ATTTTAAAATTAAATTT
17643130 ATTTTAAAATTAAATTT
1 ATTTTAAAATTAAATTT
17643147 A
1 A
17643148 AAATTAAGTT
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
15 3 0.08
16 10 0.26
17 25 0.66
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (17 bp):
ATTTTAAAATTAAATTT
Found at i:17644992 original size:30 final size:29
Alignment explanation
Indices: 17644958--17645213 Score: 157
Period size: 30 Copynumber: 8.7 Consensus size: 29
17644948 TGTTTTGTCT
* *
17644958 AAAAATCATATTTTGACCTCCGAACTTCTC
1 AAAAATCATATTTTAACC-CCAAACTTCTC
* *
17644988 AAAAATCATA-TTTAACCCCTAAACTTTTA
1 AAAAATCATATTTTAACCCC-AAACTTCTC
*
17645017 AAAAATCATATTTTAACCCCTAAATTTC-C
1 AAAAATCATATTTTAACCCC-AAACTTCTC
* *
17645046 AAAAATTATATTTTAACCCTCGAACTT-TCC
1 AAAAATCATATTTTAACCC-CAAACTTCT-C
* * * *
17645076 AAAAATAACATTTTGACCCTCGAACTTCTC
1 AAAAATCATATTTTAACCC-CAAACTTCTC
* * **
17645106 AAAAATTACATTTTTTCCCTCAAACTTC-C
1 AAAAATCATATTTTAACCC-CAAACTTCTC
* *
17645135 AAAAATCACATTTTTACCCCCCAAACTT-TC
1 AAAAATCATA-TTTTA-ACCCCAAACTTCTC
** *
17645165 TAAAAATTACAT-TTTTGTCCTCAAACTTCT-
1 -AAAAA-T-CATATTTTAACCCCAAACTTCTC
* *
17645195 AAAAATCACATTTTTACCC
1 AAAAATCATATTTTAACCC
17645214 TCGAACATCC
Statistics
Matches: 184, Mismatches: 28, Indels: 30
0.76 0.12 0.12
Matches are distributed among these distances:
27 2 0.01
28 9 0.05
29 59 0.32
30 97 0.53
31 14 0.08
32 1 0.01
33 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAAATCATATTTTAACCCCAAACTTCTC
Found at i:17645072 original size:59 final size:60
Alignment explanation
Indices: 17644958--17645315 Score: 235
Period size: 59 Copynumber: 6.1 Consensus size: 60
17644948 TGTTTTGTCT
* * * **
17644958 AAAAATCATATTTTGACCTCC-GAACTTCTCAAAAA-T-CATATTTAACCC-CTAAACTTTTA
1 AAAAATCACATTTTAACC-CCTAAACTTCTCAAAAATTACAT-TTTAACCCTC-AAACTTTCC
* * * *
17645017 AAAAATCATATTTTAACCCCTAAATTTC-CAAAAATTATATTTTAACCCTCGAACTTTCC
1 AAAAATCACATTTTAACCCCTAAACTTCTCAAAAATTACATTTTAACCCTCAAACTTTCC
* * * **
17645076 AAAAATAACATTTTGA-CCCTCGAACTTCTCAAAAATTACATTTTTTCCCTCAAAC-TTCC
1 AAAAATCACATTTTAACCCCT-AAACTTCTCAAAAATTACATTTTAACCCTCAAACTTTCC
* * *** *
17645135 AAAAATCACATTTTTACCCCCCAAACTT-TCTAAAAATTACATTTTTGTCCTCAAAC-TTCT
1 AAAAATCACA-TTTTAACCCCTAAACTTCTC-AAAAATTACATTTTAACCCTCAAACTTTCC
* * * ** *
17645195 AAAAATCACATTTTTA-CCCTCGAACATC-CAAAAATTACCATTTTGCCCCT-AAA-TATCC
1 AAAAATCACATTTTAACCCCT-AAACTTCTCAAAAATTA-CATTTTAACCCTCAAACTTTCC
* * * **
17645253 AAAAATTACCATTTT-ACCCTTAAATTTC-CAAAAATTACATTTTCAA-CCTCAATTTTTCC
1 AAAAATCA-CATTTTAACCCCTAAACTTCTCAAAAATTACATTTT-AACCCTCAAACTTTCC
17645312 AAAA
1 AAAA
17645316 GTTCAATTTT
Statistics
Matches: 238, Mismatches: 43, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
57 9 0.04
58 51 0.21
59 105 0.44
60 70 0.29
61 3 0.01
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.34
Consensus pattern (60 bp):
AAAAATCACATTTTAACCCCTAAACTTCTCAAAAATTACATTTTAACCCTCAAACTTTCC
Found at i:17645215 original size:29 final size:29
Alignment explanation
Indices: 17645034--17645304 Score: 244
Period size: 29 Copynumber: 9.2 Consensus size: 29
17645024 ATATTTTAAC
* * *
17645034 CCCT-AAATTTCCAAAAATTATATTTTAA
1 CCCTCAAACTTCCAAAAATTACATTTTTA
* * *
17645062 CCCTCGAACTTTCCAAAAATAACATTTTGA
1 CCCTCAAAC-TTCCAAAAATTACATTTTTA
* *
17645092 CCCTCGAACTTCTCAAAAATTACATTTTTT
1 CCCTCAAACTTC-CAAAAATTACATTTTTA
*
17645122 CCCTCAAACTTCCAAAAATCACATTTTTA
1 CCCTCAAACTTCCAAAAATTACATTTTTA
* * *
17645151 CCCCCCAAACTTTCTAAAAATTACATTTTTG
1 -CCCTCAAAC-TTCCAAAAATTACATTTTTA
* * *
17645182 TCCTCAAACTTCTAAAAATCACATTTTTA
1 CCCTCAAACTTCCAAAAATTACATTTTTA
* * **
17645211 CCCTCGAACATCCAAAAATTACCATTTTGC
1 CCCTCAAACTTCCAAAAATTA-CATTTTTA
17645241 CCCT-AAA-TATCCAAAAATTACCA-TTTTA
1 CCCTCAAACT-TCCAAAAATTA-CATTTTTA
* * *
17645269 CCCTTAAATTTCCAAAAATTACATTTTCA
1 CCCTCAAACTTCCAAAAATTACATTTTTA
*
17645298 ACCTCAA
1 CCCTCAA
17645305 TTTTTCCAAA
Statistics
Matches: 200, Mismatches: 33, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
28 13 0.06
29 93 0.47
30 77 0.38
31 17 0.09
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (29 bp):
CCCTCAAACTTCCAAAAATTACATTTTTA
Found at i:17645313 original size:30 final size:28
Alignment explanation
Indices: 17645017--17645347 Score: 123
Period size: 29 Copynumber: 11.2 Consensus size: 28
17645007 TAAACTTTTA
* * * *
17645017 AAAAATCATATTTTAACCCCTAAATTTCC
1 AAAAATTACATTTTAACCTC-AATTTTCC
* *
17645046 AAAAATTATATTTTAACCCTCGAACTTTCC
1 AAAAATTACATTTTAA-CCTC-AATTTTCC
* * *
17645076 AAAAATAACATTTTGACCCTCGAA-CTTCTC
1 AAAAATTACATTTT-AACCTC-AATTTTC-C
** **
17645106 AAAAATTACATTTTTTCCCTCAAACTTCC
1 AAAAATTACA-TTTTAACCTCAATTTTCC
* * * * *
17645135 AAAAATCACATTTTTACCCCCCAAACTTTCT
1 AAAAATTACA-TTTTA-ACCTC-AATTTTCC
** ** *
17645166 AAAAATTACATTTTTGTCCTCAAACTTCT
1 AAAAATTACA-TTTTAACCTCAATTTTCC
* * **
17645195 AAAAATCACATTTTTACCCTCGAA-CATCC
1 AAAAATTACA-TTTTAACCTC-AATTTTCC
* * * *
17645224 AAAAATTACCATTTT-GCCCCTAAATATCC
1 AAAAATTA-CATTTTAACCTC-AATTTTCC
* * *
17645253 AAAAATTACCATTTTACCCTTAAATTTCC
1 AAAAATTA-CATTTTAACCTCAATTTTCC
17645282 AAAAATTACATTTTCAACCTCAATTTTTCC
1 AAAAATTACATTTT-AACCTCAA-TTTTCC
*
17645312 AAAAGTT-CAATTTTAATCC-CAAATTTTCC
1 AAAAATTAC-ATTTTAA-CCTC-AATTTTCC
17645341 AAAAATT
1 AAAAATT
17645348 TCAATTTTGA
Statistics
Matches: 245, Mismatches: 41, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
28 11 0.04
29 129 0.53
30 81 0.33
31 24 0.10
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAAATTACATTTTAACCTCAATTTTCC
Found at i:17645351 original size:30 final size:30
Alignment explanation
Indices: 17645277--17645361 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
17645267 TACCCTTAAA
* *
17645277 TTTCCAAAAATTAC-ATTTTCAA-CCTCAATT
1 TTTCCAAAAATTTCAATTTT-AATCC-CAAAT
*
17645307 TTTCC-AAAAGTTCAATTTTAATCCCAAAT
1 TTTCCAAAAATTTCAATTTTAATCCCAAAT
*
17645336 TTTCCAAAAATTTCAATTTTGATCCC
1 TTTCCAAAAATTTCAATTTTAATCCC
17645362 CAAAATTCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
29 17 0.36
30 30 0.64
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.40
Consensus pattern (30 bp):
TTTCCAAAAATTTCAATTTTAATCCCAAAT
Found at i:17650361 original size:39 final size:39
Alignment explanation
Indices: 17650312--17650725 Score: 257
Period size: 39 Copynumber: 10.6 Consensus size: 39
17650302 TGAAGATTCG
17650312 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * * * ** *
17650351 ATCTGTTACCCCGAGCCTAGGGCAGATTA-TAGCCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCA-TCAGCCA
* * *
17650390 ATCTCTTAACCCGAGCCTGGGGTAGATCACCATCAGCTA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * * * ** *
17650429 ATCTCTTACCCCGAGCTTGAGGCAAATTA-CAGCCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCA-TCAGCCA
* * * *
17650468 ATCTCTTACCCGGAGCCTAGGGTAGATCACCATTAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * **
17650507 ATCTCTTACCCCGAGCTTGGGGCAGATTGTAGCCATTTG---
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCATCAGCCA
* * * * * * *
17650546 ATCTTTTACTCTGAGCTTAGGGCAGATCACCATCATCCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* *
17650585 ATCTTTTACCTCGAGCCTGGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * * * ** *
17650624 ATCTCTTACCCCGAGCTTGAGGCAAATTGTAGC-T-ATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CACCATCAGCCA
* * * * *
17650663 ATCTTTTACCCTGAGCCTAGGGCAGATCATCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* *
17650702 ATCTCTTACCCCGATCATGGGGCA
1 ATCTCTTACCCCGAGCCTGGGGCA
17650726 AATTACAGTC
Statistics
Matches: 272, Mismatches: 89, Indels: 28
0.70 0.23 0.07
Matches are distributed among these distances:
36 4 0.01
37 3 0.01
38 6 0.02
39 244 0.90
40 6 0.02
41 3 0.01
42 6 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
Found at i:17650396 original size:78 final size:78
Alignment explanation
Indices: 17650307--17650611 Score: 385
Period size: 78 Copynumber: 3.9 Consensus size: 78
17650297 CGGATTGAAG
* * *
17650307 ATTCGATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTGTTACCCCGAGCCTAGG
1 ATTCGATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGG
17650372 GCAGATTATAGCC
66 GCAGATTATAGCC
* * * * * *
17650385 ATTCGATCTCTTAACCCGAGCCTGGGGTAGATCACCATCAGCTAATCTCTTACCCCGAGCTTGAG
1 ATTCGATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGG
* *
17650450 GCAAATTACAGCC
66 GCAGATTATAGCC
* * * *
17650463 ATTCGATCTCTTACCCGGAGCCTAGGGTAGATCACCATTAGCCAATCTCTTACCCCGAGCTTGGG
1 ATTCGATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGG
*
17650528 GCAGATTGTAGCC
66 GCAGATTATAGCC
* * * * * * * * *
17650541 ATTTGATCTTTTACTCTGAGCTTAGGGCAGATCACCATCATCCGATCTTTTACCTCGAGCCTGGG
1 ATTCGATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGG
17650606 GCAGAT
66 GCAGAT
17650612 CACCATCAGC
Statistics
Matches: 197, Mismatches: 30, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 197 1.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (78 bp):
ATTCGATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGG
GCAGATTATAGCC
Found at i:17650562 original size:117 final size:117
Alignment explanation
Indices: 17650429--17650711 Score: 329
Period size: 117 Copynumber: 2.4 Consensus size: 117
17650419 CCATCAGCTA
* * * * *
17650429 ATCTCTTACCCCGAGCTT-GAGGCAAATTA-CAGCCATTCGATCTCTTACC-CGGAGCCTAGGGT
1 ATCTTTTACCCTGAGCTTAG-GGCAAATCACCA-CCATCCGATCTCTTACCTC-GAGCCTAGGGC
* * * *
17650491 AGATCACCATTAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTGTAGCCATTTG
63 AGATCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAAATTGTAGCCATTCG
* * * * *
17650546 ATCTTTTACTCTGAGCTTAGGGCAGATCACCATCATCCGATCTTTTACCTCGAGCCTGGGGCAGA
1 ATCTTTTACCCTGAGCTTAGGGCAAATCACCACCATCCGATCTCTTACCTCGAGCCTAGGGCAGA
*
17650611 TCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAAATTGTAGCTATTCG
66 TCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAAATTGTAGCCATTCG
* * * * * *
17650663 ATCTTTTACCCTGAGCCTAGGGCAGATCATCATCAACCAATCTCTTACC
1 ATCTTTTACCCTGAGCTTAGGGCAAATCACCACCATCCGATCTCTTACC
17650712 CCGATCATGG
Statistics
Matches: 142, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
117 138 0.97
118 4 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (117 bp):
ATCTTTTACCCTGAGCTTAGGGCAAATCACCACCATCCGATCTCTTACCTCGAGCCTAGGGCAGA
TCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAAATTGTAGCCATTCG
Found at i:17650723 original size:117 final size:117
Alignment explanation
Indices: 17650468--17650725 Score: 363
Period size: 117 Copynumber: 2.2 Consensus size: 117
17650458 CAGCCATTCG
* * * * * *
17650468 ATCTCTTACCCGGAGCCTAGGGTAGATCACCATTAGCCAATCTCTTACCCCGAGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAAA
* * * * *
17650533 TTGTAGCCATTTGATCTTTTACTCTGAGCTTAGGGCAGATCACCATCATCCG
66 TTGTAGCCATTCGATCTTTTACCCTGAGCCTAGGGCAGATCACCATCAACCA
* *
17650585 ATCTTTTACCTCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAAA
* *
17650650 TTGTAGCTATTCGATCTTTTACCCTGAGCCTAGGGCAGATCATCATCAACCA
66 TTGTAGCCATTCGATCTTTTACCCTGAGCCTAGGGCAGATCACCATCAACCA
* *
17650702 ATCTCTTACCCCGATCATGGGGCA
1 ATCTCTTACCCCGAGCCTGGGGCA
17650726 AATTACAGTC
Statistics
Matches: 122, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
117 122 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (117 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAAA
TTGTAGCCATTCGATCTTTTACCCTGAGCCTAGGGCAGATCACCATCAACCA
Found at i:17651154 original size:7 final size:7
Alignment explanation
Indices: 17651142--17651176 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
17651132 GATGGAACCC
17651142 AATTTTA
1 AATTTTA
17651149 AATTTTA
1 AATTTTA
17651156 AATTTTA
1 AATTTTA
17651163 AATTATTTA
1 AA-T-TTTA
17651172 AATTT
1 AATTT
17651177 AAACTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 18 0.69
8 2 0.08
9 6 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATTTTA
Found at i:17651173 original size:16 final size:16
Alignment explanation
Indices: 17651142--17651186 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
17651132 GATGGAACCC
17651142 AATTTTAAA-T-TTTA
1 AATTTTAAATTATTTA
17651156 AATTTTAAATTATTTA
1 AATTTTAAATTATTTA
17651172 AA-TTTAAACTTATTT
1 AATTTTAAA-TTATTT
17651187 TGAGTTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.32
15 7 0.25
16 12 0.43
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTTTAAATTATTTA
Found at i:17651178 original size:6 final size:6
Alignment explanation
Indices: 17651145--17651248 Score: 58
Period size: 6 Copynumber: 18.0 Consensus size: 6
17651135 GGAACCCAAT
* * * *
17651145 TTTAAA TTTTAAA TTTTAAA -TT--A TTTAAA TTTAAA CTT-AT TTTGAG
1 TTTAAA -TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * *
17651191 TTTGAA TTT-AT TTTAAA TTTAAA TTT-AT TTTAAA ATTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
17651237 ATTAAG TTTAAA
1 TTTAAA TTTAAA
17651249 ATGTCCAAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 13
0.73 0.14 0.12
Matches are distributed among these distances:
3 1 0.01
4 2 0.03
5 13 0.17
6 47 0.62
7 13 0.17
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:17651203 original size:17 final size:17
Alignment explanation
Indices: 17651150--17651234 Score: 102
Period size: 17 Copynumber: 5.1 Consensus size: 17
17651140 CCAATTTTAA
17651150 ATTTTAAATTTTAAA-TT
1 ATTTTAAA-TTTAAATTT
*
17651167 A-TTTAAATTTAAACTT
1 ATTTTAAATTTAAATTT
* * *
17651183 ATTTTGAGTTTGAATTT
1 ATTTTAAATTTAAATTT
17651200 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
*
17651217 ATTTTAAAATTAAATTT
1 ATTTTAAATTTAAATTT
17651234 A
1 A
17651235 AAATTAAGTT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
15 6 0.10
16 9 0.16
17 43 0.74
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:17651229 original size:23 final size:24
Alignment explanation
Indices: 17651203--17651250 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
17651193 TGAATTTATT
* *
17651203 TTAAATTT-AAATTTATTTTAAAA
1 TTAAATTTAAAATTAAGTTTAAAA
17651226 TTAAATTTAAAATTAAGTTTAAAA
1 TTAAATTTAAAATTAAGTTTAAAA
17651250 T
1 T
17651251 GTCCAAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TTAAATTTAAAATTAAGTTTAAAA
Found at i:17651915 original size:24 final size:24
Alignment explanation
Indices: 17651877--17651924 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
17651867 AATGTTTTGT
* * *
17651877 AATAAATATTTAATATATTAAATA
1 AATAAATAATAAATACATTAAATA
17651901 AATAAATAATAAATACATTAAATA
1 AATAAATAATAAATACATTAAATA
17651925 GCCGAAGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AATAAATAATAAATACATTAAATA
Found at i:17653101 original size:30 final size:30
Alignment explanation
Indices: 17653058--17653392 Score: 274
Period size: 30 Copynumber: 11.2 Consensus size: 30
17653048 TGTTTTGTCT
* * * *
17653058 AAAAATCATATTTTGACCCTCGAACTTTTC
1 AAAAATTACATTTTGACCCTCAAACTTTCC
* *
17653088 AAAAATTACATTTTAACCCTCAAACTTTCA
1 AAAAATTACATTTTGACCCTCAAACTTTCC
* * *
17653118 AAAAATCATATTTTGACCCCTCAAAGTTTCC
1 AAAAATTACATTTTGA-CCCTCAAACTTTCC
*
17653149 AAAAATTATATTTTGACCCTCAAACTTTCC
1 AAAAATTACATTTTGACCCTCAAACTTTCC
* *
17653179 AAAAATAACATTTTAACCCTCAAAC-TTCTC
1 AAAAATTACATTTTGACCCTCAAACTTTC-C
17653209 AAAAATTACATTTTTGACCCCTCAAAC-TTCC
1 AAAAATTACA-TTTTGA-CCCTCAAACTTTCC
* * * *
17653240 AAAAATCACATTTTTACCCTCGAAC-ATCC
1 AAAAATTACATTTTGACCCTCAAACTTTCC
* * *
17653269 AAAAATTACCATTTTG-CCCCCGAAC-ATCC
1 AAAAATTA-CATTTTGACCCTCAAACTTTCC
* *
17653298 AAGAATTACCATTTT-ACCCTTAAA-TTTCC
1 AAAAATTA-CATTTTGACCCTCAAACTTTCC
* * * * *
17653327 AAAAATCACATTTTCAACCTAAAATTTTCC
1 AAAAATTACATTTTGACCCTCAAACTTTCC
* * * *
17653357 AAAAGTT-CAATTTTAATCC-CAAATTTTCC
1 AAAAATTAC-ATTTTGACCCTCAAACTTTCC
17653386 AAAAATT
1 AAAAATT
17653393 TTAATTTTGA
Statistics
Matches: 255, Mismatches: 40, Indels: 21
0.81 0.13 0.07
Matches are distributed among these distances:
28 6 0.02
29 84 0.33
30 111 0.44
31 42 0.16
32 12 0.05
ACGTcount: A:0.39, C:0.25, G:0.03, T:0.33
Consensus pattern (30 bp):
AAAAATTACATTTTGACCCTCAAACTTTCC
Found at i:17653162 original size:61 final size:60
Alignment explanation
Indices: 17653058--17653360 Score: 246
Period size: 61 Copynumber: 5.1 Consensus size: 60
17653048 TGTTTTGTCT
* * * *
17653058 AAAAATCATATTTTGA-CCCTCGAACTTTTCAAAAATTACATTTTAACCCTCAAACTTTCA
1 AAAAATCACATTTTGACCCCTC-AAATTTCCAAAAATTACATTTTAACCCTCAAACTTTCC
* * *
17653118 AAAAATCATATTTTGACCCCTCAAAGTTTCCAAAAATTATATTTTGACCCTCAAACTTTCC
1 AAAAATCACATTTTGACCCCTCAAA-TTTCCAAAAATTACATTTTAACCCTCAAACTTTCC
* * * *
17653179 AAAAATAACATTTT-AACCCTCAAACTTCTCAAAAATTACATTTTTGACCCCTCAAAC-TTCC
1 AAAAATCACATTTTGACCCCTCAAATTTC-CAAAAATTACA-TTTT-AACCCTCAAACTTTCC
* * ** * * * *
17653240 AAAAATCACATTTTTA-CCCTCGAACATCCAAAAATTACCATTTT-GCCCCCGAAC-ATCC
1 AAAAATCACATTTTGACCCCTCAAATTTCCAAAAATTA-CATTTTAACCCTCAAACTTTCC
* * * * * *
17653298 AAGAATTACCATTTT-A-CCCTTAAATTTCCAAAAATCACATTTTCAA-CCTAAAATTTTCC
1 AAAAATCA-CATTTTGACCCCTCAAATTTCCAAAAATTACATTTT-AACCCTCAAACTTTCC
17653357 AAAA
1 AAAA
17653361 GTTCAATTTT
Statistics
Matches: 199, Mismatches: 33, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
57 6 0.03
58 37 0.19
59 15 0.08
60 50 0.25
61 81 0.41
62 10 0.05
ACGTcount: A:0.39, C:0.26, G:0.03, T:0.32
Consensus pattern (60 bp):
AAAAATCACATTTTGACCCCTCAAATTTCCAAAAATTACATTTTAACCCTCAAACTTTCC
Found at i:17653175 original size:91 final size:91
Alignment explanation
Indices: 17653058--17653283 Score: 323
Period size: 91 Copynumber: 2.5 Consensus size: 91
17653048 TGTTTTGTCT
*
17653058 AAAAATCATATTTTGACCCTCGAACTTTTCAAAAATTACATTTTAACCCTCAAACTT-TCAAAAA
1 AAAAATCATATTTTGACCCTCGAACTTTCCAAAAATTACATTTTAACCCTCAAACTTCTCAAAAA
*
17653122 AT-CATATTTTGACCCCTCAAAGTTTCC
66 ATACAT-TTTTGACCCCTCAAA-CTTCC
* * *
17653149 AAAAATTATATTTTGACCCTCAAACTTTCCAAAAATAACATTTTAACCCTCAAACTTCTCAAAAA
1 AAAAATCATATTTTGACCCTCGAACTTTCCAAAAATTACATTTTAACCCTCAAACTTCTCAAAAA
*
17653214 TTACATTTTTGACCCCTCAAACTTCC
66 ATACATTTTTGACCCCTCAAACTTCC
* * *
17653240 AAAAATCACATTTTTACCCTCGAAC-ATCCAAAAATTACCATTTT
1 AAAAATCATATTTTGACCCTCGAACTTTCCAAAAATTA-CATTTT
17653284 GCCCCCGAAC
Statistics
Matches: 120, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
90 10 0.08
91 84 0.70
92 23 0.19
93 3 0.03
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.33
Consensus pattern (91 bp):
AAAAATCATATTTTGACCCTCGAACTTTCCAAAAATTACATTTTAACCCTCAAACTTCTCAAAAA
ATACATTTTTGACCCCTCAAACTTCC
Found at i:17653351 original size:29 final size:28
Alignment explanation
Indices: 17653087--17653392 Score: 157
Period size: 29 Copynumber: 10.3 Consensus size: 28
17653077 TCGAACTTTT
*
17653087 CAAAAATTACATTTTAACCCTCAAACTTTC
1 CAAAAATTACATTTT-ACCCT-AAAATTTC
* * * *
17653117 AAAAAATCATATTTTGACCCCTCAAAGTTTC
1 CAAAAATTACATTTT-A-CCCT-AAAATTTC
* *
17653148 CAAAAATTATATTTTGACCCTCAAACTTTC
1 CAAAAATTACATTTT-ACCCT-AAAATTTC
* * *
17653178 CAAAAATAACATTTTAACCCTCAAACTTC
1 CAAAAATTACATTTT-ACCCTAAAATTTC
* *
17653207 TCAAAAATTACATTTTTGACCCCTCAAACTTC
1 -CAAAAATTACA-TTTT-A-CCCTAAAATTTC
* ** **
17653239 CAAAAATCACATTTTTACCCTCGAACATC
1 CAAAAATTACA-TTTTACCCTAAAATTTC
* *** **
17653268 CAAAAATTACCATTTTGCCCCCGAACATC
1 CAAAAATTA-CATTTTACCCTAAAATTTC
* *
17653297 CAAGAATTACCATTTTACCCTTAAATTTC
1 CAAAAATTA-CATTTTACCCTAAAATTTC
* *
17653326 CAAAAATCACATTTTCAACCTAAAATTTTC
1 CAAAAATTACATTTT-ACCCTAAAA-TTTC
* *
17653356 CAAAAGTT-CAATTTTAATCCC-AAATTTTC
1 CAAAAATTAC-ATTTT-A-CCCTAAAATTTC
17653385 CAAAAATT
1 CAAAAATT
17653393 TTAATTTTGA
Statistics
Matches: 228, Mismatches: 39, Indels: 19
0.80 0.14 0.07
Matches are distributed among these distances:
28 6 0.03
29 86 0.38
30 75 0.33
31 49 0.21
32 12 0.05
ACGTcount: A:0.39, C:0.26, G:0.03, T:0.32
Consensus pattern (28 bp):
CAAAAATTACATTTTACCCTAAAATTTC
Found at i:17653399 original size:30 final size:30
Alignment explanation
Indices: 17653348--17653412 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
17653338 TTTCAACCTA
17653348 AAATTTTCCAAAAGTTCAATTTTAAT-CCC
1 AAATTTTCCAAAAGTTCAATTTTAATCCCC
* * *
17653377 AAATTTTCCAAAAATTTTAATTTTGATCCCC
1 AAATTTTCC-AAAAGTTCAATTTTAATCCCC
17653408 AAATT
1 AAATT
17653413 CCTCGAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 9 0.29
30 14 0.45
31 8 0.26
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.40
Consensus pattern (30 bp):
AAATTTTCCAAAAGTTCAATTTTAATCCCC
Found at i:17656128 original size:24 final size:24
Alignment explanation
Indices: 17656042--17656116 Score: 123
Period size: 24 Copynumber: 3.1 Consensus size: 24
17656032 AGAAATAATC
* *
17656042 TTTCAGTTAAACTCTGTTTAATTG
1 TTTCAATTAAACTCTGTTTATTTG
17656066 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
*
17656090 TTTCAATTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
17656114 TTT
1 TTT
17656117 GAGTCAAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:17658019 original size:24 final size:24
Alignment explanation
Indices: 17657990--17658064 Score: 123
Period size: 24 Copynumber: 3.1 Consensus size: 24
17657980 AGAAATAATC
*
17657990 TTTCAATTAAACTCTGTTTAATTG
1 TTTCAATTAAACTCTGTTTATTTG
17658014 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
* *
17658038 TTTCAATTAAACTTTATTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
17658062 TTT
1 TTT
17658065 GAGTCAAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.27, C:0.11, G:0.07, T:0.56
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:17658073 original size:24 final size:25
Alignment explanation
Indices: 17657990--17658080 Score: 89
Period size: 24 Copynumber: 3.8 Consensus size: 25
17657980 AGAAATAATC
* * *
17657990 TTTCAATTAAACTC-TGTTTAATTG
1 TTTCAATCAAACTCTTATTTATTTG
* *
17658014 TTTCAATTAAACTC-TGTTTATTTG
1 TTTCAATCAAACTCTTATTTATTTG
*
17658038 TTTCAATTAAACT-TTATTTATTTG
1 TTTCAATCAAACTCTTATTTATTTG
* *
17658062 TTTGAGTCAAACTCTTATT
1 TTTCAATCAAACTCTTATT
17658081 AGTCTAGATT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
24 55 0.92
25 5 0.08
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (25 bp):
TTTCAATCAAACTCTTATTTATTTG
Found at i:17666778 original size:22 final size:22
Alignment explanation
Indices: 17666748--17666792 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
17666738 TTTAAAGTTT
*
17666748 TTTTAAATATTTATATTATTTTA
1 TTTTAAATATTTA-ATAATTTTA
17666771 TTTT-AATATTTAATAATTTTA
1 TTTTAAATATTTAATAATTTTA
17666792 T
1 T
17666793 ACTTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 8 0.38
23 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTAAATATTTAATAATTTTA
Found at i:17669438 original size:21 final size:21
Alignment explanation
Indices: 17669391--17669442 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
17669381 GCATCTAACT
17669391 TGTTCACACTAGACTTAAACA
1 TGTTCACACTAGACTTAAACA
** *
17669412 CATTCACACTAGACATT-AGCA
1 TGTTCACACTAGAC-TTAAACA
17669433 TGTTCACACT
1 TGTTCACACT
17669443 TAAGCATCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.29
Consensus pattern (21 bp):
TGTTCACACTAGACTTAAACA
Found at i:17676831 original size:18 final size:19
Alignment explanation
Indices: 17676810--17676847 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
17676800 GAAGAAAGTG
*
17676810 AGAGAGA-AAACAAAAGAA
1 AGAGAGATAAAAAAAAGAA
*
17676828 AGAGTGATAAAAAAAAGAA
1 AGAGAGATAAAAAAAAGAA
17676847 A
1 A
17676848 ATAAAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.71, C:0.03, G:0.21, T:0.05
Consensus pattern (19 bp):
AGAGAGATAAAAAAAAGAA
Found at i:17681190 original size:17 final size:17
Alignment explanation
Indices: 17681170--17681228 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
17681160 TTTTACTTAT
17681170 TATATTTCTATTCTTTA
1 TATATTTCTATTCTTTA
* *
17681187 TATATTTCTAATATTTA
1 TATATTTCTATTCTTTA
*
17681204 TTATATTTTTATTTCTTATA
1 -TATATTTCTA-TTCTT-TA
17681224 TATAT
1 TATAT
17681229 GAAGAATAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 15 0.44
18 9 0.26
19 8 0.24
20 2 0.06
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (17 bp):
TATATTTCTATTCTTTA
Found at i:17681280 original size:2 final size:2
Alignment explanation
Indices: 17681273--17681305 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17681263 TGCGTATTAA
17681273 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17681306 GAATAAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17681507 original size:15 final size:15
Alignment explanation
Indices: 17681486--17681528 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
17681476 AAATTTAAAA
*
17681486 GCAAGAAAGTAATTT
1 GCAAGAAAGTAAATT
* *
17681501 GCGAGAAAATAAATT
1 GCAAGAAAGTAAATT
17681516 GCAAGAAAGTAAA
1 GCAAGAAAGTAAA
17681529 GTGGTAAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.53, C:0.07, G:0.21, T:0.19
Consensus pattern (15 bp):
GCAAGAAAGTAAATT
Found at i:17681513 original size:29 final size:29
Alignment explanation
Indices: 17681457--17681527 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
17681447 TTGTTTTGGC
*
17681457 GCAAGAAAAGTAATTGCGGAAATTTAAA-A
1 GCAAG-AAAGTAATTGCGGAAATATAAATA
*
17681486 GCAAGAAAGTAATTTGCGAGAAA-ATAAATT
1 GCAAGAAAGTAA-TTGCG-GAAATATAAATA
17681516 GCAAGAAAGTAA
1 GCAAGAAAGTAA
17681528 AGTGGTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 7 0.19
29 14 0.38
30 16 0.43
ACGTcount: A:0.52, C:0.07, G:0.21, T:0.20
Consensus pattern (29 bp):
GCAAGAAAGTAATTGCGGAAATATAAATA
Found at i:17682479 original size:21 final size:21
Alignment explanation
Indices: 17682454--17682522 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
17682444 TATTTCTACA
*
17682454 ATACAAGTGATAGTTCTATCG
1 ATACAAGTGATAGTTCTACCG
*
17682475 ATACAAGTG-TCACTTCTACCG
1 ATACAAGTGAT-AGTTCTACCG
* *
17682496 AAACAAGTCAT-GCTTCTACCG
1 ATACAAGTGATAG-TTCTACCG
17682517 ATACAA
1 ATACAA
17682523 AAAACTCCAG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.03
21 37 0.95
22 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (21 bp):
ATACAAGTGATAGTTCTACCG
Found at i:17702175 original size:10 final size:11
Alignment explanation
Indices: 17702162--17702200 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
17702152 AATATAATAT
17702162 AAAT-ATTTAA
1 AAATAATTTAA
*
17702172 AAATAATTCAA
1 AAATAATTTAA
17702183 AAATAATTTAA
1 AAATAATTTAA
17702194 AAATAAT
1 AAATAAT
17702201 ATAGACGAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 4 0.15
11 22 0.85
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATTTAA
Found at i:17708329 original size:41 final size:39
Alignment explanation
Indices: 17708284--17708417 Score: 115
Period size: 40 Copynumber: 3.3 Consensus size: 39
17708274 GCGATATTTT
*
17708284 TAGCGGCGTTTGGACAAAAAACGCCGCAAAAGGTAAAGCAA
1 TAGCGGCGTTT-TAC-AAAAACGCCGCAAAAGGTAAAGCAA
* * * *
17708325 TAGCGGTGCTTTTTCATAAACGCTGCAAAAGGTAAAGCAA
1 TAGCGGCG-TTTTACAAAAACGCCGCAAAAGGTAAAGCAA
* * * * * *
17708365 TAGTGGCGTTTATAGGAAAAACGCCGCTAAACGTCAGAGCAT
1 TAGCGGCGTTT-TA-CAAAAACGCCGCAAAAGGT-AAAGCAA
17708407 TAGCGGCGTTT
1 TAGCGGCGTTT
17708418 ATGGGAAAGC
Statistics
Matches: 73, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
39 3 0.04
40 30 0.41
41 22 0.30
42 18 0.25
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (39 bp):
TAGCGGCGTTTTACAAAAACGCCGCAAAAGGTAAAGCAA
Found at i:17708416 original size:42 final size:41
Alignment explanation
Indices: 17708360--17708473 Score: 147
Period size: 41 Copynumber: 2.7 Consensus size: 41
17708350 CAAAAGGTAA
* * *
17708360 AGCAATAGTGGCGTTTATAGGAAAAACGCCGCTAAACGTCAG
1 AGCATTAGCGGCGTTTAT-GGAAAAGCGCCGCTAAACGTCAG
* * * *
17708402 AGCATTAGCGGCGTTTATGGGAAAGCGTCACTAAAGGTCAG
1 AGCATTAGCGGCGTTTATGGAAAAGCGCCGCTAAACGTCAG
17708443 AGCATTAGCGGCGTTTATGGGAAAAGCGCCG
1 AGCATTAGCGGCGTTTAT-GGAAAAGCGCCG
17708474 TTAAGCAATA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
41 36 0.59
42 25 0.41
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.20
Consensus pattern (41 bp):
AGCATTAGCGGCGTTTATGGAAAAGCGCCGCTAAACGTCAG
Found at i:17710163 original size:41 final size:41
Alignment explanation
Indices: 17710105--17710435 Score: 374
Period size: 41 Copynumber: 8.1 Consensus size: 41
17710095 TAAACATCGA
* * * *
17710105 TAAAAGTCAAAGCATTAGCAGCATTTATGAGAAAGCGCCGC
1 TAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGCCGC
* * * *
17710146 TAAAGGTCAGAGCATTAGCAGCGTTTATAAGAAAGAGTCGC
1 TAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGCCGC
* * ** * * *
17710187 TAAAGGTTAGAGCACTAGCGGCACTTATGAGAAGGTGCCAC
1 TAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGCCGC
* * * * *
17710228 CAAAGGTCAGAGTATTAACGGTGTTTATGAGAAAGCGTCGC
1 TAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGCCGC
* *
17710269 TAAAGGTCAGAGTATTAGCGGCGTTTATGAGAAAGCGCCAC
1 TAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGCCGC
* * * *
17710310 TAAAGGTTAGAGCATTAGCGGTGTTTATGGGAAAGCGTCGC
1 TAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGCCGC
* *
17710351 TAAAGGTCAGAGAATTAGCGGCGTTTATGAGAAAGCGCCGT
1 TAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGCCGC
* * * *
17710392 TAAAGGTTAGAGCATTAGCGGTGTTTATGGGAAAGCGCTGC
1 TAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGCCGC
17710433 TAA
1 TAA
17710436 TGCTCTTTAA
Statistics
Matches: 239, Mismatches: 51, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 239 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.23
Consensus pattern (41 bp):
TAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGCCGC
Found at i:17710233 original size:82 final size:82
Alignment explanation
Indices: 17710105--17710428 Score: 414
Period size: 82 Copynumber: 4.0 Consensus size: 82
17710095 TAAACATCGA
* * * * * *
17710105 TAAAAGTCAAAGCATTAGCAGCATTTATGAGAAAGCGCCGCTAAAGGTCAGAGCATTAGCAGCGT
1 TAAAGGTCAGAGCATTAGCGGCATTTATGAGAAAGCGCCACTAAAGGTCAGAGCATTAGCGGTGT
* *
17710170 TTATAAGAAAGAGTCGC
66 TTATGAGAAAGCGTCGC
* * * * * * * *
17710187 TAAAGGTTAGAGCACTAGCGGCACTTATGAGAAGGTGCCACCAAAGGTCAGAGTATTAACGGTGT
1 TAAAGGTCAGAGCATTAGCGGCATTTATGAGAAAGCGCCACTAAAGGTCAGAGCATTAGCGGTGT
17710252 TTATGAGAAAGCGTCGC
66 TTATGAGAAAGCGTCGC
* * *
17710269 TAAAGGTCAGAGTATTAGCGGCGTTTATGAGAAAGCGCCACTAAAGGTTAGAGCATTAGCGGTGT
1 TAAAGGTCAGAGCATTAGCGGCATTTATGAGAAAGCGCCACTAAAGGTCAGAGCATTAGCGGTGT
*
17710334 TTATGGGAAAGCGTCGC
66 TTATGAGAAAGCGTCGC
* * ** *
17710351 TAAAGGTCAGAGAATTAGCGGCGTTTATGAGAAAGCGCCGTTAAAGGTTAGAGCATTAGCGGTGT
1 TAAAGGTCAGAGCATTAGCGGCATTTATGAGAAAGCGCCACTAAAGGTCAGAGCATTAGCGGTGT
*
17710416 TTATGGGAAAGCG
66 TTATGAGAAAGCG
17710429 CTGCTAATGC
Statistics
Matches: 211, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
82 211 1.00
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (82 bp):
TAAAGGTCAGAGCATTAGCGGCATTTATGAGAAAGCGCCACTAAAGGTCAGAGCATTAGCGGTGT
TTATGAGAAAGCGTCGC
Found at i:17713340 original size:36 final size:36
Alignment explanation
Indices: 17713293--17713491 Score: 272
Period size: 36 Copynumber: 5.8 Consensus size: 36
17713283 TGGTAATAGA
*
17713293 CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAATGAACAT
* *
17713329 CATGA-CTTTTGGTTAACAGGGAGTAAAATGAACAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAATGAACAT
*
17713364 CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAATGAACAT
* *
17713400 TATGACCTTTGGTTCAACAGGGAGTAAAATGAACAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAATGAACAT
*
17713436 CATGACCTTTAGGTCAACAGGGAGT--AA-G-----
1 CATGACCTTTGGGTCAACAGGGAGTAAAATGAACAT
17713464 CATGACCTTTGGGTCAACAGGGAGTAAA
1 CATGACCTTTGGGTCAACAGGGAGTAAA
17713492 TCAGATATCG
Statistics
Matches: 147, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
28 24 0.16
30 1 0.01
33 1 0.01
34 2 0.01
35 32 0.22
36 87 0.59
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (36 bp):
CATGACCTTTGGGTCAACAGGGAGTAAAATGAACAT
Found at i:17713411 original size:71 final size:72
Alignment explanation
Indices: 17713293--17713462 Score: 306
Period size: 71 Copynumber: 2.4 Consensus size: 72
17713283 TGGTAATAGA
*
17713293 CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATCATGACTTTTGGTT-AACAGGGAGTAAAA
1 CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATCATGACCTTTGGTTCAACAGGGAGTAAAA
17713357 TGAACAT
66 TGAACAT
*
17713364 CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATTATGACCTTTGGTTCAACAGGGAGTAAAA
1 CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATCATGACCTTTGGTTCAACAGGGAGTAAAA
17713429 TGAACAT
66 TGAACAT
*
17713436 CATGACCTTTAGGTCAACAGGGAGTAA
1 CATGACCTTTGGGTCAACAGGGAGTAA
17713463 GCATGACCTT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 48 0.51
72 47 0.49
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (72 bp):
CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATCATGACCTTTGGTTCAACAGGGAGTAAAA
TGAACAT
Found at i:17713478 original size:28 final size:28
Alignment explanation
Indices: 17713436--17713490 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
17713426 AAATGAACAT
17713436 CATGACCTTTAGGTCAACAGGGAGTAAG
1 CATGACCTTTAGGTCAACAGGGAGTAAG
*
17713464 CATGACCTTTGGGTCAACAGGGAGTAA
1 CATGACCTTTAGGTCAACAGGGAGTAA
17713491 ATCAGATATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (28 bp):
CATGACCTTTAGGTCAACAGGGAGTAAG
Found at i:17718971 original size:23 final size:23
Alignment explanation
Indices: 17718941--17718987 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
17718931 TATTCAAAAA
17718941 ACCCTTCAGTAACTTGCCAAGAG
1 ACCCTTCAGTAACTTGCCAAGAG
*
17718964 ACCCTTCAGTGACTTGCCAAGAG
1 ACCCTTCAGTAACTTGCCAAGAG
17718987 A
1 A
17718988 ATGCAGTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (23 bp):
ACCCTTCAGTAACTTGCCAAGAG
Found at i:17718996 original size:21 final size:22
Alignment explanation
Indices: 17718947--17718996 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
17718937 AAAAACCCTT
* * *
17718947 CAGTAACTTGCCAAGAGACCCTT
1 CAGTGACTTGCCAAGAGA-CATG
17718970 CAGTGACTTGCCAAGAGA-ATG
1 CAGTGACTTGCCAAGAGACATG
17718991 CAGTGA
1 CAGTGA
17718997 AAAAGCTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 7 0.29
23 17 0.71
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (22 bp):
CAGTGACTTGCCAAGAGACATG
Found at i:17727198 original size:18 final size:18
Alignment explanation
Indices: 17727175--17727219 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
17727165 TATGTTTTCA
*
17727175 AATAATA-TATTAATTAAT
1 AATAATATTA-TAATAAAT
*
17727193 AATAATATTATAGTAAAT
1 AATAATATTATAATAAAT
17727211 AATAATATT
1 AATAATATT
17727220 TTATTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
AATAATATTATAATAAAT
Found at i:17727204 original size:21 final size:21
Alignment explanation
Indices: 17727175--17727217 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
17727165 TATGTTTTCA
* *
17727175 AATAATATATTAATTAATAAT
1 AATAATATAGTAAATAATAAT
*
17727196 AATATTATAGTAAATAATAAT
1 AATAATATAGTAAATAATAAT
17727217 A
1 A
17727218 TTTTATTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
AATAATATAGTAAATAATAAT
Found at i:17728295 original size:17 final size:19
Alignment explanation
Indices: 17728268--17728306 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
17728258 GATATGGGAC
*
17728268 AAAAATGAGAA-TGATGTG
1 AAAAATGAGAATTGAAGTG
17728286 AAAAAT-AGAATTGAAGTG
1 AAAAATGAGAATTGAAGTG
17728304 AAA
1 AAA
17728307 TTTGATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (19 bp):
AAAAATGAGAATTGAAGTG
Found at i:17736911 original size:17 final size:18
Alignment explanation
Indices: 17736889--17736928 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
17736879 AGATTGCATA
17736889 CATTTT-TATTGTCATCG
1 CATTTTATATTGTCATCG
* *
17736906 CATTTTATTTTGTCATTG
1 CATTTTATATTGTCATCG
17736924 CATTT
1 CATTT
17736929 CTTTTGTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.17, C:0.15, G:0.10, T:0.57
Consensus pattern (18 bp):
CATTTTATATTGTCATCG
Found at i:17737468 original size:14 final size:14
Alignment explanation
Indices: 17737449--17737498 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
17737439 AATTGTGAAT
17737449 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
17737463 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
17737477 -AGAAAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
17737491 AAGAAAAA
1 GAGAAAAA
17737499 AAGAAATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
13 2 0.06
14 30 0.88
15 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:17737469 original size:8 final size:7
Alignment explanation
Indices: 17737452--17737504 Score: 72
Period size: 8 Copynumber: 7.3 Consensus size: 7
17737442 TGTGAATGAG
17737452 AAAAAG-
1 AAAAAGA
17737458 AAAAAGA
1 AAAAAGA
17737465 GAAAAAGA
1 -AAAAAGA
17737473 AAAAAGA
1 AAAAAGA
17737480 AAAAAGAA
1 AAAAAG-A
17737488 AAAAAGAA
1 AAAAAG-A
17737496 AAAAAGA
1 AAAAAGA
17737503 AA
1 AA
17737505 TATTGCTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.14
7 16 0.36
8 22 0.50
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:17739312 original size:26 final size:26
Alignment explanation
Indices: 17739255--17739312 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
17739245 ACAGTCGATC
*
17739255 AATTGTCACTGCATGAACATGTCCAG
1 AATTGTCACTGCATGAACATGTCCAA
* * *
17739281 AGTTGTCGCTGCATGAGCATGTCCAA
1 AATTGTCACTGCATGAACATGTCCAA
17739307 AATTGT
1 AATTGT
17739313 GCCCAGATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (26 bp):
AATTGTCACTGCATGAACATGTCCAA
Found at i:17748246 original size:17 final size:17
Alignment explanation
Indices: 17748191--17748266 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
17748181 TTAGTAAGCG
* *
17748191 TTGTCATCGCATTCCCA
1 TTGTCATTGCATTTCCA
* **
17748208 TTGTCATTACATTTTAA
1 TTGTCATTGCATTTCCA
* *
17748225 CTGTCATTGCATTTGCA
1 TTGTCATTGCATTTCCA
*
17748242 TTGTCATTGCATTTCTA
1 TTGTCATTGCATTTCCA
17748259 TTTGTCAT
1 -TTGTCAT
17748267 GGTATTTTAA
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
17 39 0.85
18 7 0.15
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.47
Consensus pattern (17 bp):
TTGTCATTGCATTTCCA
Found at i:17749349 original size:26 final size:26
Alignment explanation
Indices: 17749308--17749380 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
17749298 CTAATATTAA
17749308 TGCATGAGCATGTCCAGAATTGTCAC
1 TGCATGAGCATGTCCAGAATTGTCAC
* * *
17749334 TGCATGAACATCTCCAGAATTGTCGC
1 TGCATGAGCATGTCCAGAATTGTCAC
17749360 TGCATGAGCATGTCCAGAATT
1 TGCATGAGCATGTCCAGAATT
17749381 ACGCCCAGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
TGCATGAGCATGTCCAGAATTGTCAC
Found at i:17754364 original size:19 final size:17
Alignment explanation
Indices: 17754348--17754382 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17754338 GCAAGAAATG
*
17754348 AGAATACACAAAAGAAA
1 AGAACACACAAAAGAAA
*
17754365 AGAACAGACAAAAGAAA
1 AGAACACACAAAAGAAA
17754382 A
1 A
17754383 ACAGAGAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.11, G:0.14, T:0.03
Consensus pattern (17 bp):
AGAACACACAAAAGAAA
Found at i:17754616 original size:27 final size:26
Alignment explanation
Indices: 17754557--17754616 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
17754547 TTTAGGTCCC
17754557 AAAATTA-TTATTTTAGAAATTTTTT
1 AAAATTATTTATTTTAGAAATTTTTT
**
17754582 AATTTTATTTATTCTTTAG-AATTTTTT
1 AAAATTATTTA-T-TTTAGAAATTTTTT
17754609 AAAATTAT
1 AAAATTAT
17754617 AAATTATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 5 0.18
26 3 0.11
27 15 0.54
28 5 0.18
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (26 bp):
AAAATTATTTATTTTAGAAATTTTTT
Found at i:17754650 original size:19 final size:20
Alignment explanation
Indices: 17754638--17754686 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
17754628 TTTTTATAGA
17754638 TATTTTGAA-TTTTAAAAAT
1 TATTTTGAATTTTTAAAAAT
*
17754657 TATTTTGAATTTTT-GAAAT
1 TATTTTGAATTTTTAAAAAT
17754676 TATTTTGAATT
1 TATTTTGAATT
17754687 ATTTTGTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 24 0.86
20 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (20 bp):
TATTTTGAATTTTTAAAAAT
Found at i:17754686 original size:10 final size:11
Alignment explanation
Indices: 17754653--17754697 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 11
17754643 TGAATTTTAA
17754653 AAATTATTTTG
1 AAATTATTTTG
17754664 -AA-T-TTTTG
1 AAATTATTTTG
17754672 AAATTATTTTG
1 AAATTATTTTG
17754683 -AATTATTTTG
1 AAATTATTTTG
*
17754693 TAATT
1 AAATT
17754698 TTTGTCGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
8 5 0.17
9 3 0.10
10 13 0.43
11 9 0.30
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (11 bp):
AAATTATTTTG
Found at i:17754792 original size:18 final size:18
Alignment explanation
Indices: 17754769--17754806 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17754759 CTCCAATCTG
17754769 TTATTCGAATTATTTGAA
1 TTATTCGAATTATTTGAA
*
17754787 TTATTCGAGTTATTTGAA
1 TTATTCGAATTATTTGAA
17754805 TT
1 TT
17754807 GTAAAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (18 bp):
TTATTCGAATTATTTGAA
Done.