Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 89 of 130
Found at i:17388425 original size:18 final size:18
Alignment explanation
Indices: 17388394--17388429 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17388384 CTTTTTGTTC
*
17388394 TAGTAGAGTCTGAGCTTA
1 TAGTAGAGTATGAGCTTA
*
17388412 TAGTATAGTATGAGCTTA
1 TAGTAGAGTATGAGCTTA
17388430 AGAAATAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (18 bp):
TAGTAGAGTATGAGCTTA
Found at i:17390457 original size:11 final size:11
Alignment explanation
Indices: 17390441--17390508 Score: 55
Period size: 11 Copynumber: 5.7 Consensus size: 11
17390431 CAAATCAATT
17390441 TAGAATATTAC
1 TAGAATATTAC
*
17390452 TAGAATATTAG
1 TAGAATATTAC
* *
17390463 AATAATATCATCAATC
1 TAGAATAT--T--A-C
17390479 TAGAATATTAC
1 TAGAATATTAC
*
17390490 CAGAATATTAC
1 TAGAATATTAC
17390501 TAGAATAT
1 TAGAATAT
17390509 CATTGACACC
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
11 34 0.77
12 1 0.02
13 1 0.02
14 1 0.02
15 1 0.02
16 6 0.14
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (11 bp):
TAGAATATTAC
Found at i:17390508 original size:38 final size:38
Alignment explanation
Indices: 17390434--17390511 Score: 111
Period size: 38 Copynumber: 2.1 Consensus size: 38
17390424 TAAATATCAA
* * * *
17390434 ATCAATTTAGAATATTACTAGAATATTAGAATAATATC
1 ATCAATCTAGAATATTACCAGAATATTACAAGAATATC
*
17390472 ATCAATCTAGAATATTACCAGAATATTACTAGAATATC
1 ATCAATCTAGAATATTACCAGAATATTACAAGAATATC
17390510 AT
1 AT
17390512 TGACACCCCC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.35
Consensus pattern (38 bp):
ATCAATCTAGAATATTACCAGAATATTACAAGAATATC
Found at i:17394997 original size:13 final size:13
Alignment explanation
Indices: 17394979--17395021 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
17394969 TCAATATTGA
17394979 AATATTCTAGAAT
1 AATATTCTAGAAT
* *
17394992 AATATTATCG-A-
1 AATATTCTAGAAT
17395003 AATATTCTAGAAT
1 AATATTCTAGAAT
17395016 AATATT
1 AATATT
17395022 ATCAATCTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 8 0.33
12 2 0.08
13 14 0.58
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (13 bp):
AATATTCTAGAAT
Found at i:17395006 original size:24 final size:24
Alignment explanation
Indices: 17394977--17395024 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
17394967 AATCAATATT
17394977 GAAATATTCTAGAATAATATTATC
1 GAAATATTCTAGAATAATATTATC
17395001 GAAATATTCTAGAATAATATTATC
1 GAAATATTCTAGAATAATATTATC
17395025 AATCTAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (24 bp):
GAAATATTCTAGAATAATATTATC
Found at i:17396550 original size:25 final size:25
Alignment explanation
Indices: 17396522--17396570 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
17396512 TGTTTAAGGA
17396522 TTTT-TTTTTTTTTTGGTTACTTCTC
1 TTTTATTTTTTTTTTGGTT-CTTCTC
*
17396547 TTTTATTTTTTTTTTTGTTCTTCT
1 TTTTATTTTTTTTTTGGTTCTTCT
17396571 ATTGCTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.04, C:0.10, G:0.06, T:0.80
Consensus pattern (25 bp):
TTTTATTTTTTTTTTGGTTCTTCTC
Found at i:17396579 original size:26 final size:27
Alignment explanation
Indices: 17396525--17396579 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
17396515 TTAAGGATTT
* *
17396525 TTTTTTTTTTTGGTTACTTCTCTTTTA
1 TTTTTTTTTTTGGTTACTTCTATTCTA
17396552 TTTTTTTTTTT-GTT-CTTCTATTGCTA
1 TTTTTTTTTTTGGTTACTTCTATT-CTA
17396578 TT
1 TT
17396580 AAAATACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 7 0.28
27 11 0.44
ACGTcount: A:0.07, C:0.11, G:0.07, T:0.75
Consensus pattern (27 bp):
TTTTTTTTTTTGGTTACTTCTATTCTA
Found at i:17397393 original size:12 final size:13
Alignment explanation
Indices: 17397376--17397405 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17397366 TATTTTTTTT
17397376 ATTTTTATTTCAG
1 ATTTTTATTTCAG
*
17397389 ATTTTTATTTCAT
1 ATTTTTATTTCAG
17397402 ATTT
1 ATTT
17397406 ATCATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (13 bp):
ATTTTTATTTCAG
Found at i:17398790 original size:81 final size:81
Alignment explanation
Indices: 17398655--17398830 Score: 239
Period size: 81 Copynumber: 2.2 Consensus size: 81
17398645 CTGTCAATGG
* * * *
17398655 CCAGCCTTGGCACCAAATTCGTGTACGTCATCTCAGAAATAATGGAAACTTTGGGGTCTGCCCAA
1 CCAGCCTTGGCACCAAATTCGTGCACGTCATATCAGAAATAATAGAAACCTT-GGGTCTGCCCAA
17398720 TATTTTTGA-TTTTCTC
65 TATTTTTGATTTTTCTC
* *
17398736 CCAGCCTTGGCACCAAGTTCAG-GCACGTCATATCAGAAATAATAGAGACCTTGGGTCTGCCCAA
1 CCAGCCTTGGCACCAAATTC-GTGCACGTCATATCAGAAATAATAGAAACCTTGGGTCTGCCCAA
* *
17398800 TATTTTTGATTTTTTTT
65 TATTTTTGATTTTTCTC
*
17398817 CCAGCCATGGCACC
1 CCAGCCTTGGCACC
17398831 GCAACACCAC
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
80 21 0.25
81 62 0.74
82 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (81 bp):
CCAGCCTTGGCACCAAATTCGTGCACGTCATATCAGAAATAATAGAAACCTTGGGTCTGCCCAAT
ATTTTTGATTTTTCTC
Found at i:17399999 original size:58 final size:58
Alignment explanation
Indices: 17399891--17400162 Score: 352
Period size: 59 Copynumber: 4.7 Consensus size: 58
17399881 AATTCAAAAG
* *
17399891 AAAAATATTTTTAAGGAAAAATTGAAAGTATCAATTTT-CTTAAAAATAAATTTTCAA
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAA
* * *
17399948 AAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAGTTTTCCTTAAAAATAAATTTTTAA
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAA
** * * ** *
17400006 AAAAACGGTTTTTAAGGTAAAGTTGAAAGTATCAA-TTTCTCTCGAAATTAAAGTTTTCAA
1 AAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC-CTTAAAAATAAA-TTTTCAA
* * *
17400066 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAGTTTC-A
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTCAA
17400124 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
17400163 TATGCACAAG
Statistics
Matches: 187, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
57 34 0.18
58 66 0.35
59 70 0.37
60 17 0.09
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (58 bp):
AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAA
Found at i:17406399 original size:41 final size:41
Alignment explanation
Indices: 17406282--17407034 Score: 1139
Period size: 41 Copynumber: 18.1 Consensus size: 41
17406272 ATGATTGTCA
** *
17406282 AGGAGCAATTTACTTTTTAAAAGTCGTGATGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
17406324 AGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTC-CAAAGTCGTGGTGCCTCTGTTTAG
17406366 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * *
17406407 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGCTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
17406448 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * *
17406489 AGCAGTAATTTACTTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC--TTTCCAAAGTCGTGGTGCCTCTGTTTAG
17406532 A-GAGCAATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTCC-AAAGTCGTGGTGCCTCTGTTTAG
*
17406574 ATGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
17406615 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCAGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
17406656 AGGAGCAATTTACTTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC--TTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
17406699 AGGAGCAATTTACTTTTCAAAGTCGTGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
17406740 AGGAGCAACTTATTTTCCAAAAGTCATGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAG
17406782 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
17406823 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * *
17406864 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
17406905 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
17406946 AGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTC-CAAAGTCGTGGTGCCTCTGTTTAG
* * *
17406988 AGGAGCAATTTACTTTCTAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
17407029 AGGAGC
1 AGGAGC
17407035 TTTGAAAAAA
Statistics
Matches: 657, Mismatches: 45, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
41 415 0.63
42 166 0.25
43 76 0.12
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:17406400 original size:83 final size:83
Alignment explanation
Indices: 17406282--17407034 Score: 1178
Period size: 83 Copynumber: 9.1 Consensus size: 83
17406272 ATGATTGTCA
* *
17406282 AGGAGCAATTTACTTTTTAAAAGTCGTGATGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAG
1 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAG
*
17406347 TCGTGGTGCCTCTATTTAG
65 TCGTGGTGCCTCTGTTTAG
* *
17406366 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGT
*
17406430 CGTGGTGCCTCTGCTTAG
66 CGTGGTGCCTCTGTTTAG
* * * *
17406448 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGCAGTAATTTACTTTTTCAAAAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTC-AAAG
17406513 TCGTGGTGCCTCTGTTTAG
65 TCGTGGTGCCTCTGTTTAG
*
17406532 A-GAGCAATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAGATGAGCAATTTACTTTC-CAAA
1 AGGAGCAATTTACTTTT-C-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAA
17406595 GTCGTGGTGCCTCTGTTTAG
64 GTCGTGGTGCCTCTGTTTAG
* *
17406615 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCAGTTTAGAGGAGCAATTTACTTTTTCAAAAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTC-AAAG
17406680 TCGTGGTGCCTCTGTTTAG
65 TCGTGGTGCCTCTGTTTAG
* * *
17406699 AGGAGCAATTTACTTTTCAAAGTCGTGTTGCCTCTGTTTAGAGGAGCAACTTATTTTC-CAAAAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTC-AAAG
* *
17406763 TCATGGTGCCTCTATTTAG
65 TCGTGGTGCCTCTGTTTAG
*
17406782 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTC-CAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGT
17406846 CGTGGTGCCTCTGTTTAG
66 CGTGGTGCCTCTGTTTAG
* * *
17406864 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTA-TTTTTCAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGT
17406928 CGTGGTGCCTCTGTTTAG
66 CGTGGTGCCTCTGTTTAG
17406946 AGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCT-AAAG
1 AGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAG
* *
17407010 TCGTTGAGCCTCTGTTTAG
65 TCGTGGTGCCTCTGTTTAG
17407029 AGGAGC
1 AGGAGC
17407035 TTTGAAAAAA
Statistics
Matches: 618, Mismatches: 41, Indels: 21
0.91 0.06 0.03
Matches are distributed among these distances:
81 3 0.00
82 222 0.36
83 224 0.36
84 133 0.22
85 36 0.06
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (83 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGT
CGTGGTGCCTCTGTTTAG
Found at i:17406645 original size:208 final size:207
Alignment explanation
Indices: 17406282--17407034 Score: 1246
Period size: 208 Copynumber: 3.6 Consensus size: 207
17406272 ATGATTGTCA
* *
17406282 AGGAGCAATTTACTTTTTAAAAGTCGTGATGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAG
17406347 TCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAG
66 TCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAG
* *
17406412 CAATTTATTTTTCAAAGTCGTGGTGCCTCTGCTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGT
131 CAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGT
17406477 GCCTCTGTTTAG
196 GCCTCTGTTTAG
* *
17406489 AGCAGTAATTTACTTTTTCAAAAGTCGTGGTGCCTCTGTTTAGA-GAGCAATTTACTTT-TCCAA
1 AGGAGCAATTTACTTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCT-C-A
* *
17406552 AAGTCGTGGTGCCTCTGTTTAGATGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
63 AAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
*
17406617 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCAGTTTAGAGGAGCAATTTACTTTTTCAAAAGTC
128 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTC-AAAGTC
17406682 GTGGTGCCTCTGTTTAG
191 GTGGTGCCTCTGTTTAG
* * *
17406699 AGGAGCAATTTAC-TTTTCAAAGTCGTGTTGCCTCTGTTTAGAGGAGCAACTTATTTTC-CAAAA
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTC-AAA
*
17406762 GTCATGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGA
65 GTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGA
*
17406827 GCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGG
130 GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGG
*
17406892 TGCCTCTATTTAG
195 TGCCTCTGTTTAG
17406905 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAG
* * * *
17406969 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTAAAGTCGTTGAGCCTCTGTTTAGAGGAG
66 TCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAG
17407034 C
131 C
17407035 TTTGAAAAAA
Statistics
Matches: 509, Mismatches: 28, Indels: 19
0.92 0.05 0.03
Matches are distributed among these distances:
206 142 0.28
207 38 0.07
208 272 0.53
209 23 0.05
210 34 0.07
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (207 bp):
AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAG
TCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAG
CAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGT
GCCTCTGTTTAG
Found at i:17407244 original size:101 final size:101
Alignment explanation
Indices: 17407066--17407266 Score: 325
Period size: 101 Copynumber: 2.0 Consensus size: 101
17407056 AACAAGAAAC
* *
17407066 AAAAAAATAAAAAAAAAATTGCCTCTGTTTAGGGGAGCTTTGTTTATGTTTCTCAAAATCATTGA
1 AAAAAAATAAAAAAAAAATTGCCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCATTGA
**
17407131 GCCTCTGTTTAGAGGAGCTTTGATC-AATTTTTTTG
66 GCCTCTACTTAGAGGAGCTTTGATCAAATTTTTTTG
*
17407166 AAAAAAA-AACAAAAAAAAGTTGCCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAGTCATT
1 AAAAAAATAA-AAAAAAAA-TTGCCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCATT
17407230 GAGCCTCTACTTAGAGGAGCTTTGATCAAATTTTTTT
64 GAGCCTCTACTTAGAGGAGCTTTGATCAAATTTTTTT
17407267 TTTTAAAAAA
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
99 2 0.02
100 15 0.16
101 67 0.72
102 9 0.10
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (101 bp):
AAAAAAATAAAAAAAAAATTGCCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAATCATTGA
GCCTCTACTTAGAGGAGCTTTGATCAAATTTTTTTG
Found at i:17407306 original size:13 final size:14
Alignment explanation
Indices: 17407270--17407306 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
17407260 TTTTTTTTTT
17407270 TAAAAAAAAA-AGG
1 TAAAAAAAAATAGG
*
17407283 TAAAACAAAATAGG
1 TAAAAAAAAATAGG
17407297 -AAAAAAAAAT
1 TAAAAAAAAAT
17407307 TCAGTTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 18 0.86
14 3 0.14
ACGTcount: A:0.76, C:0.03, G:0.11, T:0.11
Consensus pattern (14 bp):
TAAAAAAAAATAGG
Found at i:17407479 original size:13 final size:13
Alignment explanation
Indices: 17407463--17407492 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17407453 TATTTTTCTT
17407463 ATTTTTATTTCAG
1 ATTTTTATTTCAG
*
17407476 ATTTTTATTTCAT
1 ATTTTTATTTCAG
17407489 ATTT
1 ATTT
17407493 ATCATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (13 bp):
ATTTTTATTTCAG
Found at i:17408911 original size:81 final size:81
Alignment explanation
Indices: 17408736--17408893 Score: 248
Period size: 81 Copynumber: 2.0 Consensus size: 81
17408726 CTGTCAATGG
* * * *
17408736 CCAGCCTTGGCACCAAGTTCGTGTACGTCATCTCAGAAATAATGGAGACTTTGGGGTCTGCCCAA
1 CCAGCCTTGGCACCAAGTTCGTGCACGTCATATCAGAAATAATAGAGACCTTGGGGTCTGCCCAA
17408801 TATTTCTGATTTTCTC
66 TATTTCTGATTTTCTC
17408817 CCAGCCTTGGCACCAAGTTCAG-GCACGTCATATCAGAAATAATAGAGACCTT-GGGTCTGCCCA
1 CCAGCCTTGGCACCAAGTTC-GTGCACGTCATATCAGAAATAATAGAGACCTTGGGGTCTGCCCA
*
17408880 ATATTTTTGATTTT
65 ATATTTCTGATTTT
17408894 TTTTTCAGCC
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
80 24 0.34
81 46 0.65
82 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (81 bp):
CCAGCCTTGGCACCAAGTTCGTGCACGTCATATCAGAAATAATAGAGACCTTGGGGTCTGCCCAA
TATTTCTGATTTTCTC
Found at i:17410070 original size:59 final size:59
Alignment explanation
Indices: 17410007--17410237 Score: 284
Period size: 59 Copynumber: 3.9 Consensus size: 59
17409997 TTTTTCCTTT
** * *
17410007 AAATAAAATTAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTTAA
1 AAATAAAATTTTAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGA
* ** * * *
17410066 AAATAAATTTTTAAAAAAGCGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTCTCTCGA
1 AAATAAAATTTTAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGA
* * * * *
17410125 AATTAAAGTTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGA
1 AAATAAAATTTTAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGA
* * * *
17410184 AAATAAAAGTTT-CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTC
1 AAATAAAATTTTAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
17410238 CTACACAAGA
Statistics
Matches: 146, Mismatches: 26, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
58 39 0.27
59 107 0.73
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (59 bp):
AAATAAAATTTTAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGA
Found at i:17410143 original size:118 final size:117
Alignment explanation
Indices: 17410020--17410234 Score: 324
Period size: 118 Copynumber: 1.8 Consensus size: 117
17410010 TAAAATTAAA
** * *
17410020 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTTAAAAAT-AAATTTTTAAAAAA
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAGTTTCAAAAAA
*
17410084 GCGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTCTCTCGAAATTAAAGTTTTC
66 --GATTTTTGAGGAAAAGTTGAAAGTATCAATTTCTCTCGAAATTAAAGTTTTC
* *
17410138 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTCAAAAAA
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAGTTTCAAAAAA
* *
17410203 TATTTTTGGGGAAAAGTTGAAAGTATCAATTT
66 GATTTTTGAGGAAAAGTTGAAAGTATCAATTT
17410235 TTCCTACACA
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
117 29 0.33
118 46 0.53
119 12 0.14
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (117 bp):
AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAGTTTCAAAAAA
GATTTTTGAGGAAAAGTTGAAAGTATCAATTTCTCTCGAAATTAAAGTTTTC
Found at i:17412506 original size:3 final size:3
Alignment explanation
Indices: 17412498--17412523 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17412488 AAGGATGATC
17412498 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
17412524 ACTGCATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:17429172 original size:26 final size:26
Alignment explanation
Indices: 17429076--17429174 Score: 68
Period size: 26 Copynumber: 4.0 Consensus size: 26
17429066 ACTTGTGATT
*
17429076 TTATTGTTATTTTA-TAATTTTATTTA
1 TTATTGTTATTTCATTAATTTT-TTTA
* *
17429102 TTATAT-TT-TTT--TTTATTTTTCT-
1 TTAT-TGTTATTTCATTAATTTTTTTA
* **
17429124 TTATTCTTA-TTCATTAAAATTTTTA
1 TTATTGTTATTTCATTAATTTTTTTA
*
17429149 TTATTGTTATTTCATTTATTTTTTTA
1 TTATTGTTATTTCATTAATTTTTTTA
17429175 AATTATTTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
21 1 0.02
22 8 0.15
23 2 0.04
24 13 0.24
25 11 0.20
26 19 0.35
27 1 0.02
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (26 bp):
TTATTGTTATTTCATTAATTTTTTTA
Found at i:17432319 original size:17 final size:20
Alignment explanation
Indices: 17432297--17432341 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
17432287 TATTATATTT
17432297 TAAAAATTA-AATTT-A-AA
1 TAAAAATTACAATTTAATAA
*
17432314 TAAAAATAACAATTTAATAA
1 TAAAAATTACAATTTAATAA
17432334 TAAAAATT
1 TAAAAATT
17432342 TAAGTAAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 8 0.35
18 5 0.22
19 1 0.04
20 9 0.39
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAAATTACAATTTAATAA
Found at i:17432875 original size:39 final size:39
Alignment explanation
Indices: 17432816--17432904 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 39
17432806 ATAAAAAAAA
17432816 TAAAAAATTCTAATAATTTTT-AAA-ATTAAAAAAAATCTT
1 TAAAAAA-TCTAATAATTTTTAAAACATT-AAAAAAATCTT
*
17432855 TAAAAAAT-TAATAATTTTTTTAAAAACATTAAAAAAATTTT
1 TAAAAAATCTAATAA--TTTTT-AAAACATTAAAAAAATCTT
17432896 TAAAAAATC
1 TAAAAAATC
17432905 AAAACTATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
37 6 0.14
38 1 0.02
39 12 0.28
41 21 0.49
42 3 0.07
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (39 bp):
TAAAAAATCTAATAATTTTTAAAACATTAAAAAAATCTT
Found at i:17432876 original size:20 final size:20
Alignment explanation
Indices: 17432816--17432908 Score: 82
Period size: 21 Copynumber: 4.7 Consensus size: 20
17432806 ATAAAAAAAA
** *
17432816 TAAAAAATTCTAATAATTTT
1 TAAAAAATTAAAAAAATTTT
*
17432836 T--AAAATTAAAAAAAATCTT
1 TAAAAAATT-AAAAAAATTTT
* **
17432855 TAAAAAATTAATAATTTTTT
1 TAAAAAATTAAAAAAATTTT
17432875 TAAAAACATTAAAAAAATTTT
1 TAAAAA-ATTAAAAAAATTTT
*
17432896 TAAAAAATCAAAA
1 TAAAAAATTAAAA
17432909 CTATTTGAGG
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
18 6 0.11
19 8 0.14
20 20 0.35
21 23 0.40
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAAAATTAAAAAAATTTT
Found at i:17433024 original size:19 final size:17
Alignment explanation
Indices: 17432999--17433045 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 17
17432989 AAATTTCTCT
17432999 TAAAACTAAAAAATAATC
1 TAAAACTAAAAAATAA-C
*
17433017 TCAAAACTTAAAAATAAC
1 T-AAAACTAAAAAATAAC
17433035 TAAAA-TAAAAA
1 TAAAACTAAAAA
17433046 TCTAAAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 5 0.19
17 4 0.15
18 3 0.12
19 14 0.54
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAAACTAAAAAATAAC
Found at i:17433083 original size:20 final size:20
Alignment explanation
Indices: 17433048--17433104 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
17433038 AATAAAAATC
* *
17433048 TAAAACTTTTTGAAAATGAA
1 TAAAAATTTTTAAAAATGAA
* *
17433068 TAAAAATTTTTAAAAAATTAT
1 TAAAAATTTTT-AAAAATGAA
*
17433089 TGAAAATTTTTAAAAA
1 TAAAAATTTTTAAAAA
17433105 ATTATAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (20 bp):
TAAAAATTTTTAAAAATGAA
Found at i:17433084 original size:21 final size:21
Alignment explanation
Indices: 17433060--17433106 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
17433050 AAACTTTTTG
17433060 AAAATGAATAAAAATTTTTAA
1 AAAATGAATAAAAATTTTTAA
* * *
17433081 AAAATTATTGAAAATTTTTAA
1 AAAATGAATAAAAATTTTTAA
17433102 AAAAT
1 AAAAT
17433107 TATAAAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (21 bp):
AAAATGAATAAAAATTTTTAA
Found at i:17433085 original size:11 final size:11
Alignment explanation
Indices: 17433069--17433107 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
17433059 GAAAATGAAT
17433069 AAAAATTTTTA
1 AAAAATTTTTA
*
17433080 AAAAATTATT-
1 AAAAATTTTTA
*
17433090 GAAAATTTTTA
1 AAAAATTTTTA
17433101 AAAAATT
1 AAAAATT
17433108 ATAAAATCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (11 bp):
AAAAATTTTTA
Found at i:17433107 original size:21 final size:21
Alignment explanation
Indices: 17433070--17433109 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
17433060 AAAATGAATA
17433070 AAAATTTTTAAAAAATTATTG
1 AAAATTTTTAAAAAATTATTG
17433091 AAAATTTTTAAAAAATTAT
1 AAAATTTTTAAAAAATTAT
17433110 AAAATCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
AAAATTTTTAAAAAATTATTG
Found at i:17433586 original size:11 final size:10
Alignment explanation
Indices: 17433536--17433786 Score: 76
Period size: 10 Copynumber: 25.1 Consensus size: 10
17433526 TTTTAAAAAA
17433536 TTTAAAA-TT
1 TTTAAAATTT
* *
17433545 TATAGAATTT
1 TTTAAAATTT
*
17433555 TTTAAAGTTGT
1 TTTAAAATT-T
*
17433566 TTT-GAATTT
1 TTTAAAATTT
*
17433575 TGTAAAATTT
1 TTTAAAATTT
*
17433585 TTTGAAATTTT
1 TTT-AAAATTT
** *
17433596 TTTAGTATATG
1 TTTAAAAT-TT
*
17433607 TTAAAAATTT
1 TTTAAAATTT
* *
17433617 TTTAGAATAT
1 TTTAAAATTT
*
17433627 TTAAAAATTAT
1 TTTAAAATT-T
* * *
17433638 TTAAAAAATA
1 TTTAAAATTT
17433648 TTT---ATTCT
1 TTTAAAATT-T
* *
17433656 TTTTACA-TT
1 TTTAAAATTT
*
17433665 TTTAGTAATTT
1 TTTA-AAATTT
*
17433676 TTTAGAA-TT
1 TTTAAAATTT
*
17433685 TTTATGAA-TT
1 TTTA-AAATTT
17433695 TTTAAAATTT
1 TTTAAAATTT
17433705 CTTTATAAA-TT
1 -TTTA-AAATTT
* *
17433716 TTAAAAATCT
1 TTTAAAATTT
17433726 TTTAAAATTT
1 TTTAAAATTT
*
17433736 TTT--TATTT
1 TTTAAAATTT
17433744 TTTAAAAATTT
1 TTT-AAAATTT
*
17433755 TTTAGAATTGT
1 TTTAAAATT-T
*
17433766 TTT-GAATTT
1 TTTAAAATTT
17433775 TTTGAAAATTT
1 TTT-AAAATTT
17433786 T
1 T
17433787 AAAATTCTGT
Statistics
Matches: 176, Mismatches: 43, Indels: 44
0.67 0.16 0.17
Matches are distributed among these distances:
7 2 0.01
8 10 0.06
9 27 0.15
10 76 0.43
11 58 0.33
12 3 0.02
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (10 bp):
TTTAAAATTT
Found at i:17433698 original size:19 final size:19
Alignment explanation
Indices: 17433662--17433756 Score: 75
Period size: 19 Copynumber: 4.8 Consensus size: 19
17433652 TTCTTTTTAC
* *
17433662 ATTTTTAGTAATTTTTTAGA
1 ATTTTTA-TAAATTTTTAAA
*
17433682 ATTTTTATGAATTTTTAAA
1 ATTTTTATAAATTTTTAAA
*
17433701 ATTTCTTTATAAATTTTAAAA
1 A-TT-TTTATAAATTTTTAAA
**
17433722 ATCTTTTA-AAATTTTTTTA
1 AT-TTTTATAAATTTTTAAA
* *
17433741 TTTTTTAAAAATTTTT
1 ATTTTTATAAATTTTT
17433757 TAGAATTGTT
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
18 5 0.08
19 27 0.44
20 14 0.23
21 16 0.26
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (19 bp):
ATTTTTATAAATTTTTAAA
Found at i:17433730 original size:89 final size:88
Alignment explanation
Indices: 17433610--17433792 Score: 198
Period size: 89 Copynumber: 2.1 Consensus size: 88
17433600 GTATATGTTA
* * *
17433610 AAAATTTTTTAGAATATTTAAAAATTATTTAAAAAATATTTATTCTTTT-TACA-TTTTTAGTAA
1 AAAATTTTTTAAAATATTTAAAAATTATTTAAAAAATATTTATT-TTTTAAAAATTTTTTAG-AA
*
17433673 TT-TTTTAGAATTTTTATG-AATTTTT
64 TTGTTTT-GAATTTTT-TGAAAATTTT
** *
17433698 AAAATTTCTTTATAAAT-TTTAAAAATCT-TTTAAAATTTTTTTATTTTTTAAAAATTTTTTAGA
1 AAAATTT-TTTA-AAATATTTAAAAAT-TATTTAAAAAATATTTATTTTTTAAAAATTTTTTAGA
17433761 ATTGTTTTGAATTTTTTGAAAATTTT
63 ATTGTTTTGAATTTTTTGAAAATTTT
17433787 AAAATT
1 AAAATT
17433793 CTGTTGGAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
88 13 0.16
89 53 0.65
90 15 0.19
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (88 bp):
AAAATTTTTTAAAATATTTAAAAATTATTTAAAAAATATTTATTTTTTAAAAATTTTTTAGAATT
GTTTTGAATTTTTTGAAAATTTT
Found at i:17433737 original size:20 final size:21
Alignment explanation
Indices: 17433685--17433737 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
17433675 TTTTAGAATT
* *
17433685 TTTATGAATTTTTAAAATTTC
1 TTTATAAATTTTTAAAATCTC
*
17433706 TTTATAAATTTTAAAAATCT-
1 TTTATAAATTTTTAAAATCTC
17433726 TTTA-AAATTTTT
1 TTTATAAATTTTT
17433738 TTATTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 7 0.25
20 4 0.14
21 17 0.61
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTATAAATTTTTAAAATCTC
Found at i:17433867 original size:10 final size:11
Alignment explanation
Indices: 17433663--17433786 Score: 53
Period size: 11 Copynumber: 12.3 Consensus size: 11
17433653 TCTTTTTACA
*
17433663 TTTTTAGTAAT
1 TTTTTAGAAAT
17433674 TTTTTAG-AA-
1 TTTTTAGAAAT
17433683 TTTTTATG-AA-
1 TTTTTA-GAAAT
17433693 TTTTTA-AAAT
1 TTTTTAGAAAT
*
17433703 TTCTTTATAAA-
1 TT-TTTAGAAAT
*
17433714 -TTTTAAAAAT
1 TTTTTAGAAAT
*
17433724 CTTTTA-AAAT
1 TTTTTAGAAAT
*
17433734 TTTTT---TAT
1 TTTTTAGAAAT
*
17433742 TTTTTAAAAAT
1 TTTTTAGAAAT
17433753 TTTTTAG-AAT
1 TTTTTAGAAAT
17433763 TGTTTT-G-AAT
1 T-TTTTAGAAAT
17433773 TTTTT-GAAAAT
1 TTTTTAG-AAAT
17433784 TTT
1 TTT
17433787 AAAATTCTGT
Statistics
Matches: 95, Mismatches: 5, Indels: 26
0.75 0.04 0.21
Matches are distributed among these distances:
8 7 0.07
9 20 0.21
10 31 0.33
11 34 0.36
12 3 0.03
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.60
Consensus pattern (11 bp):
TTTTTAGAAAT
Found at i:17442276 original size:6 final size:6
Alignment explanation
Indices: 17442248--17442310 Score: 76
Period size: 6 Copynumber: 10.8 Consensus size: 6
17442238 ACAGCGCTAC
* * * *
17442248 TACTA- TACTA- TACTAT TATTAT TACTAT TACTAA TACTAA TACTAA
1 TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT
17442294 TACTAT TACTAT TACTA
1 TACTAT TACTAT TACTA
17442311 AACTCACTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
5 10 0.19
6 43 0.81
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (6 bp):
TACTAT
Found at i:17445481 original size:20 final size:20
Alignment explanation
Indices: 17445437--17445503 Score: 52
Period size: 20 Copynumber: 3.4 Consensus size: 20
17445427 ATTTGAATTA
* *
17445437 ATTT-TATGTTTATTTATCTT
1 ATTTATATGTTAATTTGT-TT
17445457 A-TTATATGTTAATTTGTTT
1 ATTTATATGTTAATTTGTTT
*
17445476 ATTTATTTGATTAA-TTGATTT
1 ATTTATATG-TTAATTTG-TTT
17445497 -TTTATAT
1 ATTTATAT
17445504 ATAATATTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 5 0.13
20 27 0.69
21 7 0.18
ACGTcount: A:0.25, C:0.01, G:0.07, T:0.66
Consensus pattern (20 bp):
ATTTATATGTTAATTTGTTT
Found at i:17447704 original size:2 final size:2
Alignment explanation
Indices: 17447697--17447723 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17447687 AGTAATGCTT
17447697 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
17447724 GAATAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17450379 original size:19 final size:18
Alignment explanation
Indices: 17450355--17450390 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
17450345 TAAAAATTCA
17450355 ATAATTTTTAGTTTTTTTT
1 ATAATTTTTA-TTTTTTTT
17450374 ATAATTTTTATTTTTTT
1 ATAATTTTTATTTTTTT
17450391 AAAACCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (18 bp):
ATAATTTTTATTTTTTTT
Found at i:17456473 original size:20 final size:21
Alignment explanation
Indices: 17456448--17456492 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
17456438 ATTCGAAATT
*
17456448 TATAAAATATTA-TTTTTAAA
1 TATAAAATACTATTTTTTAAA
17456468 TAT-AAATACTATTTTTTAAA
1 TATAAAATACTATTTTTTAAA
17456488 TATAA
1 TATAA
17456493 TATAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 14 0.64
21 1 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TATAAAATACTATTTTTTAAA
Found at i:17456701 original size:3 final size:3
Alignment explanation
Indices: 17456693--17456734 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
17456683 CGAGTTAGAC
17456693 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17456735 GACAAGTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17456816 original size:2 final size:2
Alignment explanation
Indices: 17456809--17456843 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
17456799 TCCACTTCTA
17456809 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17456844 TGTCTGATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17457447 original size:18 final size:17
Alignment explanation
Indices: 17457407--17457449 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
17457397 GATAAAAAAA
*
17457407 AATTGTTTAAATGTTTTT
1 AATT-TTTAAAAGTTTTT
17457425 AATTTTTAAAAGTTTTT
1 AATTTTTAAAAGTTTTT
17457442 ATATTTTT
1 A-ATTTTT
17457450 TTGAATACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (17 bp):
AATTTTTAAAAGTTTTT
Found at i:17459882 original size:24 final size:24
Alignment explanation
Indices: 17459825--17459882 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
17459815 AAAAAAGATA
*
17459825 TAATATATAATATAATTAAAATATT
1 TAAT-TATAATAAAATTAAAATATT
* * *
17459850 AAATCATAATAAAATTAAAATTTT
1 TAATTATAATAAAATTAAAATATT
17459874 TAATTATAA
1 TAATTATAA
17459883 ACTTGATAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
TAATTATAATAAAATTAAAATATT
Found at i:17460115 original size:20 final size:19
Alignment explanation
Indices: 17460086--17460126 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
17460076 AATTAATGTG
17460086 TTCAATTAAAATGGATATT
1 TTCAATTAAAATGGATATT
* *
17460105 TTCATATTAAAGTGTATATT
1 TTCA-ATTAAAATGGATATT
17460125 TT
1 TT
17460127 TCCTATAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.49
Consensus pattern (19 bp):
TTCAATTAAAATGGATATT
Found at i:17462653 original size:18 final size:18
Alignment explanation
Indices: 17462609--17462673 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
17462599 ATTCGTAAAG
* * *
17462609 TTTTCAGGTTCATAAAGA
1 TTTTCAGATTCACAAAAA
*
17462627 CTTTCAGATTCACAAAAA
1 TTTTCAGATTCACAAAAA
*
17462645 TGTTT-AGATTCGCAAAAA
1 T-TTTCAGATTCACAAAAA
17462663 TTTTCAGATTC
1 TTTTCAGATTC
17462674 GTAAGAATTC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
17 3 0.08
18 33 0.85
19 3 0.08
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (18 bp):
TTTTCAGATTCACAAAAA
Found at i:17462674 original size:18 final size:19
Alignment explanation
Indices: 17462628--17462674 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
17462618 TCATAAAGAC
*
17462628 TTTCAGATTCACAAAAATG
1 TTTCAGATTCGCAAAAATG
17462647 TTT-AGATTCGCAAAAAT-
1 TTTCAGATTCGCAAAAATG
17462664 TTTCAGATTCG
1 TTTCAGATTCG
17462675 TAAGAATTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (19 bp):
TTTCAGATTCGCAAAAATG
Found at i:17462682 original size:18 final size:17
Alignment explanation
Indices: 17462596--17462682 Score: 59
Period size: 18 Copynumber: 4.9 Consensus size: 17
17462586 ACGAGGTTTC
*
17462596 CAGATTCGTAAAGTTTT
1 CAGATTCGTAAAATTTT
* * *
17462613 CAGGTTCATAAAGACTTT
1 CAGATTCGTAAA-ATTTT
**
17462631 CAGATTCACAAAAATGTTT
1 CAGATTC-GTAAAAT-TTT
*
17462650 -AGATTCGCAAAAATTTT
1 CAGATTCG-TAAAATTTT
17462667 CAGATTCGTAAGAATT
1 CAGATTCGTAA-AATT
17462683 CAAATTTATA
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
17 15 0.28
18 33 0.61
19 6 0.11
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (17 bp):
CAGATTCGTAAAATTTT
Found at i:17462907 original size:19 final size:17
Alignment explanation
Indices: 17462861--17462895 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
17462851 GATTCACAAA
17462861 AACTTCAAATTTGCAAG
1 AACTTCAAATTTGCAAG
17462878 AACTTCAAATTTGCAAG
1 AACTTCAAATTTGCAAG
17462895 A
1 A
17462896 GATTCACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (17 bp):
AACTTCAAATTTGCAAG
Found at i:17463058 original size:21 final size:21
Alignment explanation
Indices: 17463034--17463146 Score: 68
Period size: 22 Copynumber: 5.2 Consensus size: 21
17463024 GGTTTATAGC
*
17463034 CAAAATTTAAAGATTTTCATT
1 CAAAATTTAAAGATTCTCATT
* *
17463055 CAAAAAATTT-GAGATTCACATT
1 C--AAAATTTAAAGATTCTCATT
*
17463077 -GAAATTTAAAAGATTCTCATT
1 CAAAATTT-AAAGATTCTCATT
* * * *
17463098 CAAAAATTTTAGGATTCACATC
1 C-AAAATTTAAAGATTCTCATT
* *
17463120 CAAAGTTTCAAATATTCTCATT
1 CAAAATTT-AAAGATTCTCATT
*
17463142 TAAAA
1 CAAAA
17463147 AATTTATGGG
Statistics
Matches: 66, Mismatches: 19, Indels: 13
0.67 0.19 0.13
Matches are distributed among these distances:
19 6 0.09
21 17 0.26
22 30 0.45
23 13 0.20
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.36
Consensus pattern (21 bp):
CAAAATTTAAAGATTCTCATT
Found at i:17463194 original size:46 final size:44
Alignment explanation
Indices: 17463033--17463244 Score: 187
Period size: 43 Copynumber: 4.8 Consensus size: 44
17463023 AGGTTTATAG
* * * *
17463033 CCAAAATTT-AAAGATTTTCATTCAAAAAATTT-GAGATTCACAT
1 CCAAAGTTTCAAAGATTCTCATTCAAAAATTTTAG-GATTCATAT
** * *
17463076 TGAAA-TTTAAAAGATTCTCATTCAAAAATTTTAGGATTCACAT
1 CCAAAGTTTCAAAGATTCTCATTCAAAAATTTTAGGATTCATAT
* * * *
17463119 CCAAAGTTTCAAATATTCTCATTTAAAAAATTTATGGGTTTCATAT
1 CCAAAGTTTCAAAGATTCTCA-TTCAAAAATTT-TAGGATTCATAT
* *
17463165 CCAACATTTTCAAAGATTCACATTCAAAAAATTTTAGGATTCATAT
1 CCAA-AGTTTCAAAGATTCTCATTC-AAAAATTTTAGGATTCATAT
* * ** *
17463211 CCAAAGTTTCGAAGGTTCTTTTTCAAAAACTTTA
1 CCAAAGTTTCAAAGATTCTCATTCAAAAATTTTA
17463245 TGGCTTTAGA
Statistics
Matches: 137, Mismatches: 25, Indels: 13
0.78 0.14 0.07
Matches are distributed among these distances:
42 3 0.02
43 36 0.26
44 23 0.17
45 24 0.18
46 29 0.21
47 22 0.16
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (44 bp):
CCAAAGTTTCAAAGATTCTCATTCAAAAATTTTAGGATTCATAT
Found at i:17469078 original size:37 final size:37
Alignment explanation
Indices: 17469028--17469115 Score: 90
Period size: 38 Copynumber: 2.4 Consensus size: 37
17469018 TTAAAATATA
*
17469028 ATTTATTTTCAAAA-ATATCCTAT-AATATGTTGGTAAG
1 ATTT-TTTTCAAAAGATATCAT-TCAATATGTTGGTAAG
* * *
17469065 ATTTTTTGTCAAAAGTTATCATTCAATCTGTTGGTAGG
1 ATTTTTT-TCAAAAGATATCATTCAATATGTTGGTAAG
*
17469103 ATTTTTTTAAAAA
1 ATTTTTTTCAAAA
17469116 AATTATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
36 3 0.07
37 16 0.37
38 24 0.56
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.45
Consensus pattern (37 bp):
ATTTTTTTCAAAAGATATCATTCAATATGTTGGTAAG
Found at i:17469126 original size:16 final size:16
Alignment explanation
Indices: 17469105--17469135 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17469095 TTGGTAGGAT
17469105 TTTTTTAAAAAAATTA
1 TTTTTTAAAAAAATTA
17469121 TTTTTTAAAAAAATT
1 TTTTTTAAAAAAATT
17469136 CATTAAGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTTTAAAAAAATTA
Found at i:17469713 original size:2 final size:2
Alignment explanation
Indices: 17469655--17469695 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
17469645 CCTCAACCCT
* *
17469655 TC TC TC AC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
17469696 TTTTAAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.02, C:0.46, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:17472983 original size:32 final size:32
Alignment explanation
Indices: 17472942--17473008 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
17472932 ATAAAGATTG
*
17472942 TTTCCTTGGAAAAGTCTATTTCCTTGATTAAT
1 TTTCCTTGGAAAAGTCTATTTCCTTAATTAAT
*
17472974 TTTCCTTGGAAAAGTCTGTTTCCTTAATTAAT
1 TTTCCTTGGAAAAGTCTATTTCCTTAATTAAT
17473006 TTT
1 TTT
17473009 GCTTTTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (32 bp):
TTTCCTTGGAAAAGTCTATTTCCTTAATTAAT
Found at i:17472997 original size:18 final size:18
Alignment explanation
Indices: 17472940--17472998 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
17472930 CAATAAAGAT
17472940 TGTTTCCTTGGAAAAGTC
1 TGTTTCCTTGGAAAAGTC
* *
17472958 TATTTCCTT-GATTAA---
1 TGTTTCCTTGGA-AAAGTC
17472973 T-TTTCCTTGGAAAAGTC
1 TGTTTCCTTGGAAAAGTC
17472990 TGTTTCCTT
1 TGTTTCCTT
17472999 AATTAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 12
0.68 0.06 0.26
Matches are distributed among these distances:
14 9 0.28
15 3 0.09
17 3 0.09
18 17 0.53
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (18 bp):
TGTTTCCTTGGAAAAGTC
Found at i:17481817 original size:7 final size:8
Alignment explanation
Indices: 17481798--17481839 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
17481788 GGTTTCATGG
17481798 TTAAGGTT
1 TTAAGGTT
17481806 TTAAGG-T
1 TTAAGGTT
*
17481813 TTAAGATT
1 TTAAGGTT
*
17481821 TTAGGGTT
1 TTAAGGTT
*
17481829 TTAAGATT
1 TTAAGGTT
17481837 TTA
1 TTA
17481840 GGATTTTAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (8 bp):
TTAAGGTT
Found at i:17481822 original size:15 final size:16
Alignment explanation
Indices: 17481798--17481839 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
17481788 GGTTTCATGG
*
17481798 TTAAGGTTTTAAGG-T
1 TTAAGATTTTAAGGTT
*
17481813 TTAAGATTTTAGGGTT
1 TTAAGATTTTAAGGTT
17481829 TTAAGATTTTA
1 TTAAGATTTTA
17481840 GGATTTTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (16 bp):
TTAAGATTTTAAGGTT
Found at i:17481833 original size:16 final size:16
Alignment explanation
Indices: 17481798--17481908 Score: 72
Period size: 16 Copynumber: 7.1 Consensus size: 16
17481788 GGTTTCATGG
* *
17481798 TTAAGGTTTTAAGG-T
1 TTAAGATTTTAGGGTT
17481813 TTAAGATTTTAGGGTT
1 TTAAGATTTTAGGGTT
*
17481829 TTAAGATTTTAGGATT
1 TTAAGATTTTAGGGTT
*
17481845 TT-AGAGTTTT-GGAGTC
1 TTAAGA-TTTTAGG-GTT
17481861 TT-AGAATTTTAGGG-T
1 TTAAG-ATTTTAGGGTT
* **
17481876 TTAAGGTTTTA-ATTT
1 TTAAGATTTTAGGGTT
* *
17481891 TTAGGGTTTTAGGGTT
1 TTAAGATTTTAGGGTT
17481907 TT
1 TT
17481909 GGGATTTTAA
Statistics
Matches: 76, Mismatches: 12, Indels: 15
0.74 0.12 0.15
Matches are distributed among these distances:
15 35 0.46
16 38 0.50
17 3 0.04
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.50
Consensus pattern (16 bp):
TTAAGATTTTAGGGTT
Found at i:17481844 original size:8 final size:8
Alignment explanation
Indices: 17481812--17481917 Score: 60
Period size: 8 Copynumber: 13.5 Consensus size: 8
17481802 GGTTTTAAGG
*
17481812 TTTAAGAT
1 TTTAGGAT
*
17481820 TTTAGGGT
1 TTTAGGAT
*
17481828 TTTAAGAT
1 TTTAGGAT
17481836 TTTAGGAT
1 TTTAGGAT
17481844 TTTA-GAGT
1 TTTAGGA-T
17481852 TTT-GGAGT
1 TTTAGGA-T
* *
17481860 CTTAGAAT
1 TTTAGGAT
*
17481868 TTTAGGGT
1 TTTAGGAT
*
17481876 TTAAGG-T
1 TTTAGGAT
17481883 TTTA--ATT
1 TTTAGGA-T
*
17481890 TTTAGGGT
1 TTTAGGAT
*
17481898 TTTAGGGT
1 TTTAGGAT
*
17481906 TTTGGGAT
1 TTTAGGAT
17481914 TTTA
1 TTTA
17481918 AAGTTTCATG
Statistics
Matches: 75, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
7 11 0.15
8 62 0.83
9 2 0.03
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.51
Consensus pattern (8 bp):
TTTAGGAT
Found at i:17482949 original size:13 final size:13
Alignment explanation
Indices: 17482931--17482990 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
17482921 TTCGTTCTTC
17482931 TTCTTCTTATTTT
1 TTCTTCTTATTTT
* *
17482944 TTCTTCTTATCTC
1 TTCTTCTTATTTT
*
17482957 TTC-TCTTTTTTT
1 TTCTTCTTATTTT
*
17482969 TTCCTTTTTATTTTT
1 TT-CTTCTTA-TTTT
17482984 TTCTTCT
1 TTCTTCT
17482991 CCATTTCTGG
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
12 8 0.22
13 15 0.42
14 7 0.19
15 6 0.17
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (13 bp):
TTCTTCTTATTTT
Found at i:17482979 original size:26 final size:28
Alignment explanation
Indices: 17482909--17482990 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 28
17482899 ACTTGACTAT
*
17482909 TTTTTTTTTCCTTTCGT-TCTTCTTCTTC
1 TTTTTTTTTCCTTT-TTATCTTCTTCTTC
* *
17482937 TTATTTTTT-CTTCTTATC-TCTTC-TC
1 TTTTTTTTTCCTTTTTATCTTCTTCTTC
* *
17482962 TTTTTTTTTCCTTTTTATTTTTTTCTTC
1 TTTTTTTTTCCTTTTTATCTTCTTCTTC
17482990 T
1 T
17482991 CCATTTCTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
25 10 0.23
26 13 0.30
27 9 0.21
28 11 0.26
ACGTcount: A:0.04, C:0.21, G:0.01, T:0.74
Consensus pattern (28 bp):
TTTTTTTTTCCTTTTTATCTTCTTCTTC
Found at i:17484155 original size:14 final size:14
Alignment explanation
Indices: 17484136--17484184 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
17484126 TTAACCAACC
17484136 CAAATCAAAACATT
1 CAAATCAAAACATT
*
17484150 CAAATC-AAGCA-T
1 CAAATCAAAACATT
*
17484162 AAAATCAAACACATT
1 CAAATCAAA-ACATT
17484177 CAAATCAA
1 CAAATCAA
17484185 TCCAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
12 6 0.21
13 6 0.21
14 8 0.29
15 8 0.29
ACGTcount: A:0.57, C:0.22, G:0.02, T:0.18
Consensus pattern (14 bp):
CAAATCAAAACATT
Found at i:17492230 original size:7 final size:7
Alignment explanation
Indices: 17492218--17492246 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
17492208 GGATGACTGT
17492218 ACTGCCG
1 ACTGCCG
17492225 ACTGCCG
1 ACTGCCG
17492232 ACTGCCG
1 ACTGCCG
17492239 ACTGCCG
1 ACTGCCG
17492246 A
1 A
17492247 AAGTAGCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.17, C:0.41, G:0.28, T:0.14
Consensus pattern (7 bp):
ACTGCCG
Found at i:17492945 original size:16 final size:17
Alignment explanation
Indices: 17492924--17492958 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17492914 TAATTGTATA
17492924 AATTTTGA-AAAAAAAT
1 AATTTTGATAAAAAAAT
*
17492940 AATTTTGATAAATAAAT
1 AATTTTGATAAAAAAAT
17492957 AA
1 AA
17492959 ATTATCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (17 bp):
AATTTTGATAAAAAAAT
Found at i:17496260 original size:2 final size:2
Alignment explanation
Indices: 17496253--17496288 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
17496243 TATGTGCGTG
*
17496253 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17496289 ATTTGTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17510042 original size:22 final size:23
Alignment explanation
Indices: 17510011--17510053 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
17510001 TATTGATAAA
17510011 GGTATAAATG-TAAGGAGTTTAT
1 GGTATAAATGTTAAGGAGTTTAT
* *
17510033 GGTATTAATGTTTAGGAGTTT
1 GGTATAAATGTTAAGGAGTTT
17510054 GTTTCAAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (23 bp):
GGTATAAATGTTAAGGAGTTTAT
Found at i:17511345 original size:50 final size:50
Alignment explanation
Indices: 17511291--17511425 Score: 146
Period size: 49 Copynumber: 2.7 Consensus size: 50
17511281 GTAATTTACC
* * *
17511291 AAATAATTTAATAAATTAATATAAACAAATAAAAAACAAATATTGAATTA
1 AAATAATATAATAAATTAATGTAAACAAATAAAAAACAAATATTAAATTA
* * * * ***
17511341 AAATAATAAAATAGATTAATGCAAACATA-AAAAAATGTATATTAAATTA
1 AAATAATATAATAAATTAATGTAAACAAATAAAAAACAAATATTAAATTA
* * *
17511390 AAATAATCTAACAAATTAATGTAAACTAATAAAAAA
1 AAATAATATAATAAATTAATGTAAACAAATAAAAAA
17511426 ATAAAGAGCA
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
49 38 0.57
50 29 0.43
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (50 bp):
AAATAATATAATAAATTAATGTAAACAAATAAAAAACAAATATTAAATTA
Found at i:17512044 original size:20 final size:21
Alignment explanation
Indices: 17512021--17512061 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
17512011 AATCCAAATT
*
17512021 ATAAAGT-TAAAATCTATAAC
1 ATAAAGTATAAAATCCATAAC
17512041 ATAAAGTACTAAAATCCATAA
1 ATAAAGTA-TAAAATCCATAA
17512062 AATCCATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (21 bp):
ATAAAGTATAAAATCCATAAC
Found at i:17512914 original size:158 final size:157
Alignment explanation
Indices: 17512625--17512971 Score: 412
Period size: 158 Copynumber: 2.2 Consensus size: 157
17512615 ATTGAATACA
* * * * * * *
17512625 CAATAGTTTTCACATTTCATAAAGTCATTGCATCTCAATACATATAAAACACTATCTAGTTTAAT
1 CAATAGTTTTCACCTTTAACAAAATCATTGCATCGCAATACACATAAAACACTACCTAGTTTAAT
* ** *
17512690 ACTAAATTTTTTTACAAATTTTAGGCTTTGAATTACTATAAAGATAGTTCATCAACAATCACAAT
66 AC-AAAATTTACTACAAATTTTAGGATTTGAATTACTATAAAGATAGTTCATCAACAATCACAAT
* * *
17512755 ACACCA-CTAGAATCACAAAGTAAGATATG
130 ACACAATC-AAAATCACAAA-TAAAATATG
* * *
17512784 CAATAGTTTTCACCTTTAACAAAATTATTGCATCGCAATACACATAATATACTACCTAGTTTAAT
1 CAATAGTTTTCACCTTTAACAAAATCATTGCATCGCAATACACATAAAACACTACCTAGTTTAAT
* *
17512849 A-AAGAATTTACTATAAATTTTAGGATTTGAATTACTATAAA-AGTAGTTCATCAATAATCACAA
66 ACAA-AATTTACTACAAATTTTAGGATTTGAATTACTATAAAGA-TAGTTCATCAACAATCACAA
*
17512912 TACACAATCAAAATTACAAATAAAATATG
129 TACACAATCAAAATCACAAATAAAATATG
* * *
17512941 TAATAGTTTTCACCTTTTCATAAAATCATTG
1 CAATAGTTTTCACC-TTTAACAAAATCATTG
17512972 TACCTTAATA
Statistics
Matches: 160, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
157 24 0.15
158 79 0.49
159 57 0.36
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (157 bp):
CAATAGTTTTCACCTTTAACAAAATCATTGCATCGCAATACACATAAAACACTACCTAGTTTAAT
ACAAAATTTACTACAAATTTTAGGATTTGAATTACTATAAAGATAGTTCATCAACAATCACAATA
CACAATCAAAATCACAAATAAAATATG
Found at i:17513001 original size:158 final size:158
Alignment explanation
Indices: 17512625--17513011 Score: 386
Period size: 158 Copynumber: 2.4 Consensus size: 158
17512615 ATTGAATACA
* * * * * * * * * *
17512625 CAATAGTTTTCACATTTCATAAAGTCATTGCATCTCAATACATATAAAACACTATCTAGTTTAAT
1 CAATAGTTTTCACCTTTAACAAAATCATTGCACCGCAATACACAGAAAAAACTACCTAGTTTAAT
* ** * *
17512690 ACTAA-ATTTTTTTACAAATTTTAGGCTTTGAATTACTATAAAGATAGTTCATCAACAATCACAA
66 A--AAGAATTTACTATAAATTTTAGGATTTGAATTACTATAAAGATAGTTCATCAACAATCACAA
* * *
17512754 TACACCACTAGAATCACAAAGTAAGATATG
129 TACACAACTAAAATCACAAAGTAAAATATG
* * * * *
17512784 CAATAGTTTTCACCTTTAACAAAATTATTGCATCGCAATACACATAATATACTACCTAGTTTAAT
1 CAATAGTTTTCACCTTTAACAAAATCATTGCACCGCAATACACAGAAAAAACTACCTAGTTTAAT
*
17512849 AAAGAATTTACTATAAATTTTAGGATTTGAATTACTATAAA-AGTAGTTCATCAATAATCACAAT
66 AAAGAATTTACTATAAATTTTAGGATTTGAATTACTATAAAGA-TAGTTCATCAACAATCACAAT
*
17512913 ACACAA-TCAAAATTACAAA-TAAAATATG
130 ACACAACT-AAAATCACAAAGTAAAATATG
* * * * ** ** * *
17512941 TAATAGTTTTCACCTTTTCATAAAATCATTGTACCTTAATATGCAGAAAAAATTATCTAGTTTAA
1 CAATAGTTTTCACC-TTTAACAAAATCATTGCACCGCAATACACAGAAAAAACTACCTAGTTTAA
17513006 TAAAGA
65 TAAAGA
17513012 TCATTAAACA
Statistics
Matches: 189, Mismatches: 35, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
157 25 0.13
158 108 0.57
159 56 0.30
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (158 bp):
CAATAGTTTTCACCTTTAACAAAATCATTGCACCGCAATACACAGAAAAAACTACCTAGTTTAAT
AAAGAATTTACTATAAATTTTAGGATTTGAATTACTATAAAGATAGTTCATCAACAATCACAATA
CACAACTAAAATCACAAAGTAAAATATG
Found at i:17513145 original size:27 final size:27
Alignment explanation
Indices: 17513115--17513173 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
17513105 ACATTATCAA
17513115 ACACAAGCA-TGCACCATCAG-CTATTTG
1 ACACAAGCACT-CACCATCAGTC-ATTTG
*
17513142 ACACAAGCACTCACCATTAGTCATTTG
1 ACACAAGCACTCACCATCAGTCATTTG
17513169 ACACA
1 ACACA
17513174 CACGTACACA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.36, C:0.31, G:0.12, T:0.22
Consensus pattern (27 bp):
ACACAAGCACTCACCATCAGTCATTTG
Found at i:17514958 original size:31 final size:32
Alignment explanation
Indices: 17514915--17514981 Score: 118
Period size: 31 Copynumber: 2.1 Consensus size: 32
17514905 TATTTTACTA
17514915 AAGTGAAAAAGATGTTGTTAGTGAGACATGTT
1 AAGTGAAAAAGATGTTGTTAGTGAGACATGTT
*
17514947 AAGT-AAAAAGATGTTGTTAGTGAGATATGTT
1 AAGTGAAAAAGATGTTGTTAGTGAGACATGTT
17514978 AAGT
1 AAGT
17514982 CATACTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 30 0.88
32 4 0.12
ACGTcount: A:0.39, C:0.01, G:0.27, T:0.33
Consensus pattern (32 bp):
AAGTGAAAAAGATGTTGTTAGTGAGACATGTT
Found at i:17516873 original size:29 final size:30
Alignment explanation
Indices: 17516823--17516894 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 30
17516813 AAATACCCTC
*
17516823 AAAAATAATCAAACACATAAATAAATA-ACCA
1 AAAAAT-AT-AAACAAATAAATAAATATACCA
17516854 AATAAA-ATAAACAAATAAATAAATATACCA
1 AA-AAATATAAACAAATAAATAAATATACCA
17516884 AAAAATATAAA
1 AAAAATATAAA
17516895 AAAGGAAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
29 19 0.51
30 13 0.35
31 2 0.05
32 3 0.08
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (30 bp):
AAAAATATAAACAAATAAATAAATATACCA
Found at i:17517177 original size:15 final size:14
Alignment explanation
Indices: 17517152--17517181 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
17517142 TTCCTTCATA
17517152 TTTCTTTTCTCTTT
1 TTTCTTTTCTCTTT
17517166 TTTCTCTTTCTCTTT
1 TTTCT-TTTCTCTTT
17517181 T
1 T
17517182 ACAAACCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTCTTTTCTCTTT
Found at i:17517639 original size:24 final size:23
Alignment explanation
Indices: 17517612--17517710 Score: 80
Period size: 24 Copynumber: 4.3 Consensus size: 23
17517602 AATTAAAGAT
*
17517612 AAATCAAATGAAAAAAAATAAAAA
1 AAAT-AAATGAAAAATAATAAAAA
* * * *
17517636 AAATCAAA-GATAAACAACAAAAC
1 AAAT-AAATGAAAAATAATAAAAA
*
17517659 AAATAAAT---AAATAATCAAAA
1 AAATAAATGAAAAATAATAAAAA
17517679 AAATAAATGCAAAAATAATAAAATA
1 AAATAAATG-AAAAATAATAAAA-A
17517704 AAATAAA
1 AAATAAA
17517711 AAATAAAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
20 16 0.27
22 3 0.05
23 15 0.25
24 18 0.30
25 8 0.13
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (23 bp):
AAATAAATGAAAAATAATAAAAA
Found at i:17517662 original size:23 final size:24
Alignment explanation
Indices: 17517612--17517707 Score: 60
Period size: 23 Copynumber: 4.2 Consensus size: 24
17517602 AATTAAAGAT
*
17517612 AAATCAAATGAAAAAAAATAAAAA
1 AAATCAAATGAAAAAAAACAAAAA
* * *
17517636 AAATCAAA-GATAAACAACAAAAC
1 AAATCAAATGAAAAAAAACAAAAA
* *
17517659 AAAT-AAAT--AAATAATC-AAAA
1 AAATCAAATGAAAAAAAACAAAAA
* *
17517679 AAAT-AAATGCAAAAATAATAAAATA
1 AAATCAAATG-AAAAAAAACAAAA-A
17517704 AAAT
1 AAAT
17517708 AAAAAATAAA
Statistics
Matches: 53, Mismatches: 13, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
20 11 0.21
21 4 0.08
22 3 0.06
23 19 0.36
24 11 0.21
25 5 0.09
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.16
Consensus pattern (24 bp):
AAATCAAATGAAAAAAAACAAAAA
Found at i:17517668 original size:20 final size:20
Alignment explanation
Indices: 17517645--17517720 Score: 61
Period size: 20 Copynumber: 3.8 Consensus size: 20
17517635 AAAATCAAAG
17517645 ATAAACAA-CAAAACAAATAA
1 ATAAACAATCAAAA-AAATAA
*
17517665 ATAAATAATCAAAAAAATAA
1 ATAAACAATCAAAAAAATAA
*
17517685 ATGCAAA-AAT-AATAAAATAAA
1 AT--AAACAATCAAAAAAAT-AA
*
17517706 ATAAAAAAT-AAAAAA
1 ATAAACAATCAAAAAA
17517721 TGTAAATAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
19 3 0.06
20 30 0.62
21 12 0.25
22 3 0.06
ACGTcount: A:0.76, C:0.07, G:0.01, T:0.16
Consensus pattern (20 bp):
ATAAACAATCAAAAAAATAA
Found at i:17517713 original size:12 final size:13
Alignment explanation
Indices: 17517690--17517718 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17517680 AATAAATGCA
17517690 AAAATAATAAAAT
1 AAAATAATAAAAT
17517703 AAAATAA-AAAAT
1 AAAATAATAAAAT
17517715 AAAA
1 AAAA
17517719 AATGTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAATAAAAT
Found at i:17517727 original size:20 final size:19
Alignment explanation
Indices: 17517662--17517728 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
17517652 ACAAAACAAA
* *
17517662 TAAATAAATAATCAAAAAAA
1 TAAATAAAAAAT-AAAAAAT
*
17517682 TAAATGCAAAAATAATAAAAT
1 TAAAT-AAAAAATAA-AAAAT
*
17517703 AAAATAAAAAATAAAAAAT
1 TAAATAAAAAATAAAAAAT
17517722 GTAAATA
1 -TAAATA
17517729 GATAATTGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 5 0.13
20 20 0.53
21 13 0.34
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (19 bp):
TAAATAAAAAATAAAAAAT
Found at i:17518059 original size:21 final size:21
Alignment explanation
Indices: 17518033--17518072 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
17518023 TCTGAATGAT
17518033 AAAGAAT-TCGATTTTTAAAAA
1 AAAGAATCTCG-TTTTTAAAAA
17518054 AAAGAATCTCGTTTTTAAA
1 AAAGAATCTCGTTTTTAAA
17518073 TTTTTTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.35
Consensus pattern (21 bp):
AAAGAATCTCGTTTTTAAAAA
Found at i:17518451 original size:14 final size:14
Alignment explanation
Indices: 17518434--17518485 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
17518424 AATATTATTT
17518434 TTTAAATATAAATA
1 TTTAAATATAAATA
*
17518448 TTTAAAAATATAATTA
1 TTT--AAATATAAATA
* *
17518464 TATAAATATATATA
1 TTTAAATATAAATA
*
17518478 ATTAAATA
1 TTTAAATA
17518486 ATTAATTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 18 0.60
16 12 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:17518458 original size:16 final size:16
Alignment explanation
Indices: 17518437--17518475 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
17518427 ATTATTTTTT
*
17518437 AAATATAAATATTTAA
1 AAATATAAATATATAA
*
17518453 AAATATAATTATATAA
1 AAATATAAATATATAA
*
17518469 ATATATA
1 AAATATA
17518476 TAATTAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:17518458 original size:30 final size:30
Alignment explanation
Indices: 17518422--17518493 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
17518412 CGAAATTAAT
* * * *
17518422 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATAATTATATAAATATAAATAATTA
*
17518452 AAAATATAATTATATAAATATATATAATTA
1 AAAATATAATTATATAAATATAAATAATTA
17518482 AATAAT-TAATTA
1 AA-AATATAATTA
17518494 AAAAATAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 33 0.92
31 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATATAATTATATAAATATAAATAATTA
Found at i:17519907 original size:19 final size:21
Alignment explanation
Indices: 17519883--17519923 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
17519873 ATTTTTTACA
17519883 TAATTT-ATAT-AATAAAATT
1 TAATTTAATATGAATAAAATT
17519902 TAATTTACATATGAATAAAATT
1 TAATTTA-ATATGAATAAAATT
17519924 ATTTATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
21 4 0.21
22 9 0.47
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TAATTTAATATGAATAAAATT
Found at i:17520192 original size:17 final size:17
Alignment explanation
Indices: 17520170--17520205 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
17520160 ATCATAAGTG
17520170 ATAAAATTA-TTTTAATA
1 ATAAAATTACTTTT-ATA
17520187 ATAAAATTACTTTTATA
1 ATAAAATTACTTTTATA
17520204 AT
1 AT
17520206 TATATTATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAAAATTACTTTTATA
Found at i:17520785 original size:18 final size:20
Alignment explanation
Indices: 17520762--17520803 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
17520752 AATATATATA
17520762 TTTTAAA-TA-TATGTTATT
1 TTTTAAATTAGTATGTTATT
*
17520780 TTTTAAATTAGTATTTTATT
1 TTTTAAATTAGTATGTTATT
17520800 TTTT
1 TTTT
17520804 TGGATTTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 2 0.10
20 12 0.57
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTTAAATTAGTATGTTATT
Found at i:17521801 original size:3 final size:3
Alignment explanation
Indices: 17521793--17521820 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17521783 TTATGTATCA
17521793 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17521821 TTCCTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17523530 original size:61 final size:62
Alignment explanation
Indices: 17523482--17523655 Score: 173
Period size: 60 Copynumber: 2.9 Consensus size: 62
17523472 TTTTTCTTTT
* *
17523482 TATAATTAGCTAAAATTGTTA-TATTACTCTCTTA-CAACAATTACAAAAATACCTCTCATAA
1 TATAATTAGCTAAAATTATTACAATTACTCTCTTATCAA-AATTACAAAAATACCTCTCATAA
* **
17523543 TATAATTAGCTAAAATTATTACAATTCCTCTCTTATCAAAATTATGAAAATACCT-T--T-A
1 TATAATTAGCTAAAATTATTACAATTACTCTCTTATCAAAATTACAAAAATACCTCTCATAA
* * * * *
17523601 TCATAATTAGCCAAAAATTATTATAATGT-CTCTCATATCATAATTACGAAAATAC
1 T-ATAATTAG-CTAAAATTATTACAAT-TACTCTCTTATCAAAATTACAAAAATAC
17523656 TTTTATGAGT
Statistics
Matches: 98, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
58 2 0.02
59 9 0.09
60 37 0.38
61 22 0.22
62 25 0.26
63 3 0.03
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.37
Consensus pattern (62 bp):
TATAATTAGCTAAAATTATTACAATTACTCTCTTATCAAAATTACAAAAATACCTCTCATAA
Found at i:17524232 original size:60 final size:58
Alignment explanation
Indices: 17524081--17524268 Score: 164
Period size: 60 Copynumber: 3.2 Consensus size: 58
17524071 TATCCAAGTA
* * *
17524081 TATTATAATGCTTTTTTATCATAATTACCAAAATATCCTTATCATGATTAGCTAAAAT
1 TATTATAATACCTTTTTATCATAATTACCAAAATATCCTTATCATAATTAGCTAAAAT
* * ** * * * *
17524139 TATTATAATATCTTTCTATCATAATTATAAAAATGA-CCTTCTACTATAATTTGTTAGAAT
1 TATTATAATACCTTTTTATCATAATTACCAAAAT-ATCCTTAT-C-ATAATTAGCTAAAAT
* ** *
17524199 TACTT-TAATACCTTTTTACCATAATTACCAAAATATTATTTTTATCATAATTAGTTAAAAT
1 TA-TTATAATACCTTTTTATCATAATTACC-AAA-A-TATCCTTATCATAATTAGCTAAAAT
17524260 TATTATAAT
1 TATTATAAT
17524269 GTTTCATATA
Statistics
Matches: 100, Mismatches: 21, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
58 33 0.33
59 2 0.02
60 34 0.34
61 24 0.24
62 3 0.03
63 4 0.04
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (58 bp):
TATTATAATACCTTTTTATCATAATTACCAAAATATCCTTATCATAATTAGCTAAAAT
Found at i:17527889 original size:21 final size:21
Alignment explanation
Indices: 17527863--17527905 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
17527853 GGTCCTTCCT
17527863 GGTCTTCCATCTAGTACAACA
1 GGTCTTCCATCTAGTACAACA
17527884 GGTCTTCCATCTAGTACAACA
1 GGTCTTCCATCTAGTACAACA
17527905 G
1 G
17527906 TTTACTTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (21 bp):
GGTCTTCCATCTAGTACAACA
Found at i:17530955 original size:1 final size:1
Alignment explanation
Indices: 17530909--17530938 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
17530899 CCAAAAAGAG
17530909 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
17530939 GTGTAGTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:17537612 original size:3 final size:3
Alignment explanation
Indices: 17537604--17537633 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
17537594 GAGCCCACTT
17537604 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA
17537634 ACAACAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:17555873 original size:25 final size:25
Alignment explanation
Indices: 17555844--17555891 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
17555834 TATCACTATA
17555844 ACAAGATTTTGTTGATTACAATTAC
1 ACAAGATTTTGTTGATTACAATTAC
17555869 ACAAGATTTTGTTGATTACAATT
1 ACAAGATTTTGTTGATTACAATT
17555892 GTACTTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (25 bp):
ACAAGATTTTGTTGATTACAATTAC
Found at i:17562587 original size:17 final size:18
Alignment explanation
Indices: 17562561--17562602 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
17562551 TAAATGTGAT
* *
17562561 ATATTATTATA-ATTTTA
1 ATATTTTTATACATATTA
17562578 ATATTTTTATACATATTA
1 ATATTTTTATACATATTA
17562596 A-ATTTTT
1 ATATTTTT
17562603 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTTTATACATATTA
Found at i:17565902 original size:25 final size:25
Alignment explanation
Indices: 17565874--17565922 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
17565864 CTAGGCTTAT
* *
17565874 CTTTTCCTATATCTTGAACCTTCAA
1 CTTTGCCTATATCTTGAACATTCAA
* *
17565899 CTTTGCCTATCTCTTTAACATTCA
1 CTTTGCCTATATCTTGAACATTCA
17565923 GCCTTGATAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.22, C:0.29, G:0.04, T:0.45
Consensus pattern (25 bp):
CTTTGCCTATATCTTGAACATTCAA
Found at i:17577836 original size:23 final size:24
Alignment explanation
Indices: 17577809--17577854 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
17577799 TGAAAAGATA
17577809 TATTTTTTTTAA-TTCAAGCTTTT
1 TATTTTTTTTAAGTTCAAGCTTTT
17577832 TATTTTTTTTAAGTTCAAGCTTT
1 TATTTTTTTTAAGTTCAAGCTTT
17577855 GTATATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.22, C:0.09, G:0.07, T:0.63
Consensus pattern (24 bp):
TATTTTTTTTAAGTTCAAGCTTTT
Found at i:17578487 original size:72 final size:72
Alignment explanation
Indices: 17578355--17578498 Score: 168
Period size: 72 Copynumber: 2.0 Consensus size: 72
17578345 ATGCTCCAAA
* * * * * *
17578355 ACCATCCAAATCTCTTTTGATGACAGAAAACTTACAAACGCTTTAGCTTGTTTCCTTAAAGCAAT
1 ACCATCCAAATCTATTTTAATGACAGAAAACTCACAAACGCCTTAGATTATTTCCTTAAAGCAAT
*
17578420 CTTTGCT
66 CCTTGCT
*
17578427 ACCATCCAAATCTATTTTAATGACCA-AAAACTCACAAATGCCTTA-ATTCATTT-CTCTAAAGC
1 ACCATCCAAATCTATTTTAATGA-CAGAAAACTCACAAACGCCTTAGATT-ATTTCCT-TAAAGC
17578489 AATCCTTGCT
63 AATCCTTGCT
17578499 CCACGTCGTG
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
71 4 0.07
72 55 0.90
73 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.33
Consensus pattern (72 bp):
ACCATCCAAATCTATTTTAATGACAGAAAACTCACAAACGCCTTAGATTATTTCCTTAAAGCAAT
CCTTGCT
Found at i:17580317 original size:21 final size:21
Alignment explanation
Indices: 17580291--17580337 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
17580281 ATGACATCTA
* * *
17580291 CATTTGCATTTTTATATGTTG
1 CATTTGCATATCTACATGTTG
17580312 CATTTGCATATCTACATGTTG
1 CATTTGCATATCTACATGTTG
17580333 CATTT
1 CATTT
17580338 ACATCCTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (21 bp):
CATTTGCATATCTACATGTTG
Found at i:17580660 original size:89 final size:88
Alignment explanation
Indices: 17580465--17580636 Score: 200
Period size: 89 Copynumber: 1.9 Consensus size: 88
17580455 TCATTAAAAT
* ** * ** * *
17580465 TTCTTTAATGACAATACCCGAAGACATTTGTATTTTTTGATGGTGATATCTAAAATTATTTTGCA
1 TTCTTTGATGACAATATTCGAA-ACATTTGCATTTTTTGATAATGATATCCAAAATTATTTTACA
* * *
17580530 TTCTTTCGATGGTAATATCTGAGG
65 TTCTCTCAATGGTAATATCTAAGG
* *
17580554 TTCTTTGATGACAATATTAGGAAACATTTGCATTTTTTGGTAATGATATCCAAAATTATTTTACA
1 TTCTTTGATGACAATATT-CGAAACATTTGCATTTTTTGATAATGATATCCAAAATTATTTTACA
*
17580619 TTCTCTCAATGGTGATAT
65 TTCTCTCAATGGTAATAT
17580637 TCAAGGTCTT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
89 66 0.96
90 3 0.04
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (88 bp):
TTCTTTGATGACAATATTCGAAACATTTGCATTTTTTGATAATGATATCCAAAATTATTTTACAT
TCTCTCAATGGTAATATCTAAGG
Found at i:17581854 original size:47 final size:47
Alignment explanation
Indices: 17581769--17581874 Score: 124
Period size: 47 Copynumber: 2.3 Consensus size: 47
17581759 ATATTTTAAA
* * *
17581769 TTCTTAAAGTTGTGGAACCTCTGATGAGAGGAACATTTAAATTTATT
1 TTCTTAAAGTTGTCGAACCTCTGATGAAAAGAACATTTAAATTTATT
* * ** *
17581816 TTCTTGAAGTTGTCGAACCTCTGATGAAAATAGTATTTAGATTTATT
1 TTCTTAAAGTTGTCGAACCTCTGATGAAAAGAACATTTAAATTTATT
*
17581863 TT-TAAAAGTTGT
1 TTCTTAAAGTTGT
17581875 GAAGCCTTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
46 8 0.16
47 41 0.84
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (47 bp):
TTCTTAAAGTTGTCGAACCTCTGATGAAAAGAACATTTAAATTTATT
Found at i:17582032 original size:19 final size:19
Alignment explanation
Indices: 17582007--17582052 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
17581997 AGCCAACCCT
*
17582007 TAAAAAAAATGA-ACAAAC
1 TAAAAAAAATGATACAAAA
*
17582025 TAAAAAAAATTATACAAAA
1 TAAAAAAAATGATACAAAA
17582044 TAAAAAAAA
1 TAAAAAAAA
17582053 AGGAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (19 bp):
TAAAAAAAATGATACAAAA
Found at i:17582161 original size:26 final size:27
Alignment explanation
Indices: 17582111--17582166 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
17582101 TTTCATCTTA
*
17582111 TTTTGTTTATGTTTGATAAT-GTTTTG
1 TTTTGTTTATGTTTGATAATATTTTTG
* **
17582137 TTTTGTTTTTGTTTGATGCTATTTTTG
1 TTTTGTTTATGTTTGATAATATTTTTG
17582164 TTT
1 TTT
17582167 GAGTTTTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.11, C:0.02, G:0.18, T:0.70
Consensus pattern (27 bp):
TTTTGTTTATGTTTGATAATATTTTTG
Found at i:17585147 original size:51 final size:48
Alignment explanation
Indices: 17585091--17585263 Score: 149
Period size: 51 Copynumber: 3.5 Consensus size: 48
17585081 CAAAATTTGC
* * *
17585091 TCCTTTTGATAATTATTCTATTTTTTATGGAAACACTTTCATTAGTTGTGT
1 TCCTTTTGATAATTCTTCTATTTTTTA-GGAAACACTTTCATTA-CT-TAT
*
17585142 TCCTTTTGATATTTCTTCTATTTCTTTAGGAAACCACTCTT-ATTACTTAT
1 TCCTTTTGATAATTCTTCTATTT-TTTAGGAAA-CACT-TTCATTACTTAT
* * * *
17585192 TCCTTTTGATAATTCTACCTTTTTTTTAGGGAAACACTCTCATT-CGTAT
1 TCCTTTTGATAATTCT-TCTATTTTTTA-GGAAACACTTTCATTACTTAT
* *
17585241 T--TTTT-TTAATTCTTTTATTTTTT
1 TCCTTTTGATAATTCTTCTATTTTTT
17585264 TATGGAAATG
Statistics
Matches: 103, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
45 7 0.07
46 7 0.07
47 4 0.04
49 6 0.06
50 28 0.27
51 37 0.36
52 12 0.12
53 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.08, T:0.55
Consensus pattern (48 bp):
TCCTTTTGATAATTCTTCTATTTTTTAGGAAACACTTTCATTACTTAT
Found at i:17587713 original size:18 final size:17
Alignment explanation
Indices: 17587690--17587733 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 17
17587680 TTATTAAGTT
17587690 AAAAATAATTAAATAATA
1 AAAAATAATTAAA-AATA
17587708 AAAAATAAATTAAAAATA
1 AAAAAT-AATTAAAAATA
17587726 ATAAAATA
1 A-AAAATA
17587734 TATATTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAAATAATTAAAAATA
Found at i:17587718 original size:19 final size:18
Alignment explanation
Indices: 17587690--17587733 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
17587680 TTATTAAGTT
17587690 AAAAAT-AATTAAATAATA
1 AAAAATAAATTAAA-AATA
17587708 AAAAATAAATTAAAAATA
1 AAAAATAAATTAAAAATA
17587726 ATAAAATA
1 A-AAAATA
17587734 TATATTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAATAAATTAAAAATA
Found at i:17587726 original size:21 final size:21
Alignment explanation
Indices: 17587700--17587740 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17587690 AAAAATAATT
17587700 AAATAATAAAAAATAAATTAA
1 AAATAATAAAAAATAAATTAA
* *
17587721 AAATAATAAAATATATATTA
1 AAATAATAAAAAATAAATTA
17587741 TATTCGCGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATAATAAAAAATAAATTAA
Found at i:17587728 original size:14 final size:14
Alignment explanation
Indices: 17587688--17587730 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
17587678 TTTTATTAAG
17587688 TTAAAAATAATTAAA
1 TTAAAAATAA-TAAA
*
17587703 -TAATAAAAAATAAA
1 TTAA-AAATAATAAA
17587717 TTAAAAATAATAAA
1 TTAAAAATAATAAA
17587731 ATATATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
TTAAAAATAATAAA
Found at i:17594681 original size:15 final size:15
Alignment explanation
Indices: 17594642--17594683 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
17594632 AGTTAAAATC
*
17594642 TTTTTAAAA-TAATA
1 TTTTTAAAATTAAAA
* *
17594656 TTATAAAAATTAAAA
1 TTTTTAAAATTAAAA
17594671 TTTTTAAAATTAA
1 TTTTTAAAATTAA
17594684 CAAATACAGG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTTTAAAATTAAAA
Found at i:17599664 original size:24 final size:22
Alignment explanation
Indices: 17599629--17599681 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
17599619 ATTAAAAAAA
*
17599629 TAATATAAA-TATAT-TAAATTT
1 TAATAAAAATTATATATAAA-TT
*
17599650 TAATAAAAATTATATATGAATT
1 TAATAAAAATTATATATAAATT
17599672 TAATAAAAAT
1 TAATAAAAAT
17599682 AAAAAATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 8 0.29
22 17 0.61
23 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TAATAAAAATTATATATAAATT
Found at i:17599860 original size:17 final size:17
Alignment explanation
Indices: 17599838--17599870 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17599828 TTTTTATAAT
17599838 TGAAATTATTTAAATAG
1 TGAAATTATTTAAATAG
*
17599855 TGAAATTGTTTAAATA
1 TGAAATTATTTAAATA
17599871 CTCTTACCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (17 bp):
TGAAATTATTTAAATAG
Found at i:17599942 original size:34 final size:34
Alignment explanation
Indices: 17599898--17599971 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
17599888 TCGAAAATAA
* * * *
17599898 ATTTTCGAAAAGTTATATAATCTTTT-GAAACTCT
1 ATTTTTGAAAACTTATATAA-CTTTTCAAAAATCT
17599932 ATTTTTGAAAACTTATATAACTTTTCAAAAATCT
1 ATTTTTGAAAACTTATATAACTTTTCAAAAATCT
17599966 ATTTTT
1 ATTTTT
17599972 TGAAGATGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 5 0.14
34 30 0.86
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.47
Consensus pattern (34 bp):
ATTTTTGAAAACTTATATAACTTTTCAAAAATCT
Found at i:17603213 original size:3 final size:3
Alignment explanation
Indices: 17603202--17603237 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
17603192 TTCTTTTTTT
17603202 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17603238 CTCGTTTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17604080 original size:5 final size:5
Alignment explanation
Indices: 17604072--17604113 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
17604062 TTTCTTTTCC
*
17604072 ATTTT ATTTT A-TTT -TTTG ATTTT ATTTT ATTTT ATTTT ATTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
17604114 CTAACCTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 5 0.15
5 28 0.85
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:17604087 original size:18 final size:18
Alignment explanation
Indices: 17604066--17604104 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
17604056 AGGTTTTTTC
17604066 TTTTCCATTTTATTTTAT
1 TTTTCCATTTTATTTTAT
**
17604084 TTTTTGATTTTATTTTAT
1 TTTTCCATTTTATTTTAT
17604102 TTT
1 TTT
17604105 ATTTTATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTCCATTTTATTTTAT
Found at i:17615626 original size:119 final size:117
Alignment explanation
Indices: 17615349--17615647 Score: 298
Period size: 119 Copynumber: 2.5 Consensus size: 117
17615339 AGATCATTCA
* * * *
17615349 TGGTTTCATCCCTATCAT-TCATTTTCGACCTCGATTCGATCTTGGTTGC-TTTATTTTGAATTG
1 TGGTTTCATCTCAATCATCT-ATTTTTGA-CTCGATTCGATCTTGG-T-CATTTATTTTGACTTG
* * * *
17615412 TGGTTTCATTTCGGTCACTTGGTCTTGGCTCAATCTAGATCATTTATGATGATTTG
62 TGGTTTCATCTCGGTCACTTGGTCTTGGATCAATCCAAATCATTTATGATGATTTG
* * *** * * *
17615468 TGATTTTATCTTGGTTATCTATTTTTGACCCTGACTCGATCTTGGTCCATTTATTTTGACTTGTG
1 TGGTTTCATCTCAATCATCTATTTTTGACTC-GATTCGATCTTGGT-CATTTATTTTGACTTGTG
* ** *
17615533 GTTTCGTCCTC-GTCGTTTGGTCTTGGATCAATCCAAATCATTTCTGATGATTTG
64 GTTTCAT-CTCGGTCACTTGGTCTTGGATCAATCCAAATCATTTATGATGATTTG
* *
17615587 TGGTTTCATCTCAATCATCTATTTTTGACATCGATTCGATCCTGCTCATTTTATTTTGACT
1 TGGTTTCATCTCAATCATCTATTTTTGAC-TCGATTCGATCTTGGTCA-TTTATTTTGACT
17615648 CATGATTTTA
Statistics
Matches: 144, Mismatches: 30, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
118 6 0.04
119 134 0.93
120 4 0.03
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (117 bp):
TGGTTTCATCTCAATCATCTATTTTTGACTCGATTCGATCTTGGTCATTTATTTTGACTTGTGGT
TTCATCTCGGTCACTTGGTCTTGGATCAATCCAAATCATTTATGATGATTTG
Found at i:17615945 original size:26 final size:26
Alignment explanation
Indices: 17615907--17615971 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
17615897 AGCTGTAGAC
* *
17615907 ACCCATTTATGTTCGAGCCCGTTCAA
1 ACCCATTTGTGTTCGAGCCCATTCAA
*
17615933 ACCCATTTGTGTTCGAGCCCATTTAA
1 ACCCATTTGTGTTCGAGCCCATTCAA
* *
17615959 GCCCATCTGTGTT
1 ACCCATTTGTGTT
17615972 TGGGCTCGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (26 bp):
ACCCATTTGTGTTCGAGCCCATTCAA
Found at i:17616098 original size:3 final size:3
Alignment explanation
Indices: 17616090--17616126 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
17616080 TTTTTGCATA
17616090 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
17616127 CCTGTTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:17617694 original size:6 final size:5
Alignment explanation
Indices: 17617672--17617719 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
17617662 TAAAAATAGA
* *
17617672 AAAAT AAAAT AGAA- AAAGT AAAAT AAAAT AAAAT CAAAAT AGAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT A-AAAT AA
17617720 GATGAAAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
4 2 0.06
5 24 0.67
6 10 0.28
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:17629325 original size:22 final size:22
Alignment explanation
Indices: 17629295--17629336 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17629285 GTTTTTAGCA
*
17629295 AAAATGCCTTAAATAATTCACG
1 AAAACGCCTTAAATAATTCACG
*
17629317 AAAACGCCTTGAATAATTCA
1 AAAACGCCTTAAATAATTCA
17629337 TGAATTATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (22 bp):
AAAACGCCTTAAATAATTCACG
Found at i:17629692 original size:84 final size:84
Alignment explanation
Indices: 17629551--17629710 Score: 293
Period size: 84 Copynumber: 1.9 Consensus size: 84
17629541 TTTTCTCACA
* *
17629551 AAAACATGGGTTTATTTATTTTAGATTCGTACTTGTGTGAATCAAATACATATATGTGATACTAC
1 AAAACATAGGTTTATTTATTTCAGATTCGTACTTGTGTGAATCAAATACATATATGTGATACTAC
*
17629616 AAATTATATTTATATTACG
66 AAATTACATTTATATTACG
17629635 AAAACATAGGTTTATTTATTTCAGATTCGTACTTGTGTGAATCAAATACATATATGTGATACTAC
1 AAAACATAGGTTTATTTATTTCAGATTCGTACTTGTGTGAATCAAATACATATATGTGATACTAC
17629700 AAATTACATTT
66 AAATTACATTT
17629711 TGAAATTTAC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 73 1.00
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (84 bp):
AAAACATAGGTTTATTTATTTCAGATTCGTACTTGTGTGAATCAAATACATATATGTGATACTAC
AAATTACATTTATATTACG
Done.