Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 292 of 344
Found at i:97617164 original size:88 final size:87
Alignment explanation
Indices: 97616993--97617193 Score: 217
Period size: 88 Copynumber: 2.3 Consensus size: 87
97616983 ATTAAAAGTG
* * * *
97616993 AATAAAATCTGTTTCAAGATTTATTCCCGTCGTTCAACAAATTTTATTCCAATTTTGATTTTATT
1 AATAAAATTTGTTTCAGGATTTATTCCCGTCGTTCAACAAATTTTATTACAATTCTGATTTTATT
* * * ** *
97617058 TCCAAAATGATCATTAAAATTAA
66 GCAAAAACGAAAAGTAAAATT-A
** *
97617081 AATAAAATTTGTTTCAGGATTTATTCCCG-CTGTTCAACGGATTTTATTAC-ATTCTGATTTTGT
1 AATAAAATTTGTTTCAGGATTTATTCCCGTC-GTTCAACAAATTTTATTACAATTCTGATTTTAT
97617144 TGCAAAAACGAGAAAGTAAAATTA
65 TGCAAAAACGA-AAAGTAAAATTA
* * *
97617168 AATAGAATTTGTTTCGGGACTTATTC
1 AATAAAATTTGTTTCAGGATTTATTC
97617194 TTGCCGTTTA
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
87 44 0.46
88 51 0.54
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.40
Consensus pattern (87 bp):
AATAAAATTTGTTTCAGGATTTATTCCCGTCGTTCAACAAATTTTATTACAATTCTGATTTTATT
GCAAAAACGAAAAGTAAAATTA
Found at i:97617269 original size:85 final size:85
Alignment explanation
Indices: 97617160--97617318 Score: 221
Period size: 85 Copynumber: 1.9 Consensus size: 85
97617150 AACGAGAAAG
* * * ** * *
97617160 TAAAATTAAATAGAATTTGTTTCGGGACTTATTCTTGCCGTTTAATAAGATTTTATTCGAT-TTG
1 TAAAATTAAATAAAATCTATTTCGGGACTTATTCCCGCAGTTTAACAAGATTTTATTCGATATTG
*
97617224 ATTTTGTTTCCAAATTAGATT
66 -TTTTATTTCCAAATTAGATT
*
97617245 TAAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCAGTTTAACAAGATTTTATTCGATATTG
1 TAAAATTAAATAAAATCTATTTCGGGACTTATTCCCGCAGTTTAACAAGATTTTATTCGATATTG
97617310 TTTTATTTC
66 TTTTATTTC
97617319 AAACAAAAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
85 61 0.95
86 3 0.05
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.46
Consensus pattern (85 bp):
TAAAATTAAATAAAATCTATTTCGGGACTTATTCCCGCAGTTTAACAAGATTTTATTCGATATTG
TTTTATTTCCAAATTAGATT
Found at i:97617372 original size:83 final size:83
Alignment explanation
Indices: 97617162--97617383 Score: 209
Period size: 85 Copynumber: 2.7 Consensus size: 83
97617152 CGAGAAAGTA
* * * * * *
97617162 AAATTAAATAGAATTTGTTTCGGGACTTATTCTTGCCGTTTAATAAGATTTTATTCGATTTGATT
1 AAATCAAATAAAATATGTTTCGGGATTTATTCTTG-CATTTAACAAGATTTTATTCGATTTGATT
* ** * *
97617227 TTGTTTCCAAATTAGATTT
65 TTATTTCCAAAAAAAACTT
* * * **
97617246 AAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCAGTTTAACAAGATTTTATTCGATATTG-
1 -AAATCAAATAAAATATGTTTCGGGATTTATTCTTGCA-TTTAACAAGATTTTATTCGAT-TTGA
97617310 TTTTATTT-CAAACAAAAACTT
63 TTTTATTTCCAAA-AAAAACTT
*
97617331 -AATCAAATAAAATATGTTTTGGGATTTATTCTTGTCATTTAAC-AGATTTTATT
1 AAATCAAATAAAATATGTTTCGGGATTTATTCTTG-CATTTAACAAGATTTTATT
97617384 AAATCCCAAA
Statistics
Matches: 114, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
82 10 0.09
83 34 0.30
84 7 0.06
85 60 0.53
86 3 0.03
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (83 bp):
AAATCAAATAAAATATGTTTCGGGATTTATTCTTGCATTTAACAAGATTTTATTCGATTTGATTT
TATTTCCAAAAAAAACTT
Found at i:97617558 original size:74 final size:74
Alignment explanation
Indices: 97617439--97617674 Score: 269
Period size: 74 Copynumber: 3.1 Consensus size: 74
97617429 AACAATATCG
* *
97617439 AATAAAATCTTGTTAAACCGCGGGAATAAATCTCGAAACAGATTTAATTTAA-TTTAATCCTAAT
1 AATAAAATCTTGTTAAACAGCGGGAATAAATCTCGAAACAGATTT-ATTTAACTTTAATTCTAAT
97617503 TTGGAAACAA
65 TTGGAAACAA
* * *
97617513 AATAAAATCTTGTTAAACGGCGGGAATAAATC-CCAAAGCAGATTTATTTAATTTTAATTCTAAT
1 AATAAAATCTTGTTAAACAGCGGGAATAAATCTCGAAA-CAGATTTATTTAACTTTAATTCTAAT
*
97617577 TTAGAAACAAAA
65 TTGGAAAC--AA
* * **
97617589 TCAATAAAATTTTGTTAAACAACAAGAATAAATCTCGAAACAGATTTTATTTAACTTTAATTTCT
1 --AATAAAATCTTGTTAAACAGCGGGAATAAATCTCGAAACAGA-TTTATTTAACTTTAA-TTCT
* * *
97617654 CATTTGAAAATAA
62 AATTTGGAAACAA
97617667 AATAAAAT
1 AATAAAAT
97617675 AAAAAAGGAA
Statistics
Matches: 138, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
73 10 0.07
74 56 0.41
76 10 0.07
78 33 0.24
79 18 0.13
80 11 0.08
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (74 bp):
AATAAAATCTTGTTAAACAGCGGGAATAAATCTCGAAACAGATTTATTTAACTTTAATTCTAATT
TGGAAACAA
Found at i:97620733 original size:37 final size:37
Alignment explanation
Indices: 97620649--97620734 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
97620639 ATTGAATACT
**
97620649 TCAAAGTTATACTACAATTTAATTATCAAAATTTTTA
1 TCAAAGTTATGGTACAATTTAATTATCAAAATTTTTA
97620686 TCAAAGTTATGGTACAATTTAATTATCAAAATTTTTA
1 TCAAAGTTATGGTACAATTTAATTATCAAAATTTTTA
97620723 TCAAAGTTATGG
1 TCAAAGTTATGG
97620735 ATTTTCACCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (37 bp):
TCAAAGTTATGGTACAATTTAATTATCAAAATTTTTA
Found at i:97622544 original size:25 final size:25
Alignment explanation
Indices: 97622456--97622547 Score: 80
Period size: 25 Copynumber: 3.6 Consensus size: 25
97622446 AGGTTCAAGC
* * *
97622456 GAGCCAGT-ATCGGCAAGTTCCGAA
1 GAGCCATTAATCGGGAAGCTCCGAA
* **
97622480 GAGCCATTAATCAGGAAGCTTAGAAAA
1 GAGCCATTAATCGGGAAGCTCCG--AA
*
97622507 GAGCCTTTAATCGGGAAGCTCCGAA
1 GAGCCATTAATCGGGAAGCTCCGAA
97622532 GAGCCA-TATATCGGGA
1 GAGCCATTA-ATCGGGA
97622548 CACTCATAAG
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 9 0.17
25 23 0.43
27 21 0.40
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (25 bp):
GAGCCATTAATCGGGAAGCTCCGAA
Found at i:97624727 original size:22 final size:23
Alignment explanation
Indices: 97624702--97624747 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
97624692 AGGGAGGGGG
97624702 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATGGTATTTTGAGGAGAGA
* *
97624724 ATCGATTGTATTTTGCGGAGAGA
1 ATCGATGGTATTTTGAGGAGAGA
97624747 A
1 A
97624748 GAGATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (23 bp):
ATCGATGGTATTTTGAGGAGAGA
Found at i:97624753 original size:23 final size:22
Alignment explanation
Indices: 97624709--97624758 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
97624699 GGGATCGATG
**
97624709 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
97624731 GTATTTTGCGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
97624754 GTATT
1 GTATT
97624759 AGAGGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:97625412 original size:40 final size:40
Alignment explanation
Indices: 97625362--97625477 Score: 191
Period size: 40 Copynumber: 2.9 Consensus size: 40
97625352 ATAAAGTATG
97625362 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAAT-
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
97625401 GATTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 G-TTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* *
97625442 GTTTTAATTAATAAT-AAAACAAAGTAGCATGGGGGA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGA
97625478 GTGGAATCAA
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
39 20 0.27
40 52 0.71
41 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.19, T:0.29
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
Found at i:97629930 original size:15 final size:15
Alignment explanation
Indices: 97629910--97629940 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
97629900 TTTACTTTCC
97629910 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
97629925 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
97629940 A
1 A
97629941 AAATTTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:97638302 original size:203 final size:203
Alignment explanation
Indices: 97637847--97638629 Score: 1304
Period size: 203 Copynumber: 3.8 Consensus size: 203
97637837 TAGGCCGCAG
* *
97637847 CATAACAGATCTGGCCTTCAGATGTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
1 CATAGCAGATCTCGCCTTCAGATGTT-TACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
*
97637912 TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTA
65 TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATAAAGCAAATCTA
97637977 AGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGA
130 AGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGA
97638042 GAGCAGACA
195 GAGCAGACA
97638051 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
97638116 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAT-AAGCAAATCT
64 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATAAAGCAAATCT
97638180 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAA-GAATCGAAGTTTGGCATCTTCACTTTGATGG
129 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
97638244 AGAGCAGACA
194 AGAGCAGACA
97638254 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* *
97638319 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
64 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATAAAGCAAATCT
*
97638384 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
129 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
97638449 AGAGCAGACA
194 AGAGCAGACA
* * * *
97638459 CATAGCAGATCTCACCTTCGGATGTTTATGCTGAAGCGGATCCAAGATGGTTT-GCATCCTTATG
1 CATAGCAGATCTCGCCTTCAGATGTTTA--CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * * * *
97638523 CTTACAAGGAGCAAATCGAA-TCATAGTTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCT
64 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATAAAGCAAATCT
* * * *
97638587 AAGATGATTTGGCATCTCTGTATTGTCAGGGAACAAATCGAAG
129 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAG
97638630 AAATAGATTT
Statistics
Matches: 552, Mismatches: 21, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
203 236 0.43
204 139 0.25
205 177 0.32
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (203 bp):
CATAGCAGATCTCGCCTTCAGATGTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTT
TACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATAAAGCAAATCTAA
GATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAG
AGCAGACA
Found at i:97638628 original size:408 final size:407
Alignment explanation
Indices: 97637847--97638629 Score: 1308
Period size: 408 Copynumber: 1.9 Consensus size: 407
97637837 TAGGCCGCAG
*
97637847 CATAACAGATCTGGCCTTCAGATGTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
1 CATAACAGATCTCGCCTTCAGATGTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
*
97637912 TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTA
66 TTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTA
*
97637977 AGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGA
131 AGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGA
*
97638042 GAGCAGACACATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGC
196 GAGCAGACACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGC
* *
97638107 ATCCTTGTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATAA
261 ATCCTTATGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATAA
* * *
97638172 GCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAAGAATCGAAGTTTGGCATCTTCACT
326 GCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAAAAATCGAAGTTTGGCATCTTCACT
97638237 TTGATGGAGAGCAGACA
391 TTGATGGAGAGCAGACA
*
97638254 CATAGCAGATCTCGCCTTCAGATGATT-TCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAACAGATCTCGCCTTCAGATG-TTAT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
97638318 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-GAAAGCAAAT
64 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAAAT
97638382 CTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGAT
128 CTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGAT
* *
97638447 GGAGAGCAGACACATAGCAGATCTCACCTTCGGATG-TTT-ATGCTGAAGCGGATCCAAGATGGT
193 GGAGAGCAGACACATAGCAGATCTCACCTTCAGATGATTTCA--CTGAAGCAGATCCAAGATGGT
* * *
97638510 TT-GCATCCTTATGCTTACAAGGAGCAAATCGAA-TCATAGTTGATTTGGCTTTCACGTGCTTAC
256 TTGGCATCCTTATGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTAC
* *
97638573 GTTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGGGAACAAATCGAAG
321 GAT-AAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA-AAATCGAAG
97638630 AAATAGATTT
Statistics
Matches: 352, Mismatches: 17, Indels: 13
0.92 0.04 0.03
Matches are distributed among these distances:
406 30 0.09
407 96 0.27
408 226 0.64
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (407 bp):
CATAACAGATCTCGCCTTCAGATGTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
TTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTA
AGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGA
GAGCAGACACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGC
ATCCTTATGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATAA
GCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAAAAATCGAAGTTTGGCATCTTCACT
TTGATGGAGAGCAGACA
Found at i:97638756 original size:43 final size:43
Alignment explanation
Indices: 97638663--97639204 Score: 437
Period size: 44 Copynumber: 12.4 Consensus size: 43
97638653 TAGACGGGGG
* * * * * * *
97638663 CAGATCAAAGATAGCAGATATCGCCTTCCTGAG-TTACAGTGAA
1 CAGATCGAAGATAGCAGAT-TGGCATCCCTGTGCTTATAGGGAA
**
97638706 GCAGATCGAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTGGCATCCCTGTGCTTATAGGGAA
* * * *
97638750 CAGATCGAAGATAGCAGATCTGACAT-TCTGTGCTTAGAGTGAA
1 CAGATCGAAGATAGCAGAT-TGGCATCCCTGTGCTTATAGGGAA
**
97638793 GCAGATCGAAGATTTC-GCA-TGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTGGCATCCCTGTGCTTATAGGGAA
* * *
97638836 CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATA-GGAA
1 CAGA-TCGAAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGGAA
* * * **
97638879 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTAAA
1 CAGATCGAAGATAGCAGAT-TGGCATCCCTGTGCTTATAGGGAA
**
97638923 GCAGATCGAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTGGCATCCCTGTGCTTATAGGGAA
* * *
97638967 CA-AGTTGAAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCG-AAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGGAA
* * * *
97639012 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGAT-TGGCATCCCTGTGCTTATAGGGAA
** *
97639056 GCAGATCGAAGATTTCAGCA-TGGCATCCCTGTGTTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTGGCATCCCTGTGCTTATAGGGAA
* *
97639100 CA-AGTTGAAGATAGCAGATTTGGCATCCCT-TGTTTATAGGGAA
1 CAGA-TCGAAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGGAA
* * *
97639143 CA-AGTTGAAGACAGCAGATTTGGCATCCCTGTGTTTATAGGGAA
1 CAGA-TCGAAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGGAA
97639187 CAGATCGAAGA-AGCAGAT
1 CAGATCGAAGATAGCAGAT
97639205 CGAAGAACTC
Statistics
Matches: 404, Mismatches: 65, Indels: 60
0.76 0.12 0.11
Matches are distributed among these distances:
41 1 0.00
42 20 0.05
43 153 0.38
44 167 0.41
45 60 0.15
46 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (43 bp):
CAGATCGAAGATAGCAGATTGGCATCCCTGTGCTTATAGGGAA
Found at i:97638804 original size:44 final size:44
Alignment explanation
Indices: 97638726--97639205 Score: 441
Period size: 44 Copynumber: 11.0 Consensus size: 44
97638716 GATTTCAGCA
97638726 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
* * * * **
97638770 TGACAT-TCTGTGCTTAGAGTGAAGCAGATCGAAGATTTC-G--C
1 TGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAGATC
* * * *
97638811 ATGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAACAGCAGATT
1 -TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATC
97638856 TGGCATCCCTGTGCTTATA-GGAACAGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
* * * ** **
97638899 TGACATTCCTGTGCTTACAGTAAAGCAGATCGAAGATTTCAG--C
1 TGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAGATC
* * * *
97638942 ATGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAAACAGCAGATT
1 -TGGCATCCCTGTGCTTATAGGGAACAGA-TCG-AAGATAGCAGATC
97638988 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
* * * * **
97639032 TGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG--C
1 TGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAGATC
* * *
97639075 ATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATT
1 -TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATC
* * * *
97639120 TGGCATCCCT-TGTTTATAGGGAACA-AGTTGAAGACAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATC
*
97639163 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGA-AGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
97639206 GAAGAACTCA
Statistics
Matches: 353, Mismatches: 60, Indels: 47
0.77 0.13 0.10
Matches are distributed among these distances:
41 2 0.01
42 15 0.04
43 131 0.37
44 145 0.41
45 59 0.17
46 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
Found at i:97639045 original size:133 final size:132
Alignment explanation
Indices: 97638726--97639197 Score: 758
Period size: 133 Copynumber: 3.6 Consensus size: 132
97638716 GATTTCAGCA
*
97638726 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT-CTGTGCTTAGAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
97638790 GAAGCAGATCGAAGATTTC-GCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
97638854 TT
131 TT
97638856 TGGCATCCCTGTGCTTATA-GGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
*
97638920 AAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGCAG
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTG-AAAACAGCAG
97638985 ATT
130 ATT
97638988 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * *
97639053 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
97639118 TT
131 TT
* * * * * * * *
97639120 TGGCATCCCT-TGTTTATAGGGAACA-AGTTGAAGACAGCAGATTTGGCATCCCTGTGTTTATAG
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
*
97639183 GGAA-CAGATCGAAGA
65 TGAAGCAGATCGAAGA
97639198 AGCAGATCGA
Statistics
Matches: 322, Mismatches: 15, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
129 31 0.10
130 61 0.19
131 80 0.25
132 53 0.16
133 97 0.30
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
TT
Found at i:97639205 original size:13 final size:13
Alignment explanation
Indices: 97639187--97639211 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97639177 TTATAGGGAA
97639187 CAGATCGAAGAAG
1 CAGATCGAAGAAG
97639200 CAGATCGAAGAA
1 CAGATCGAAGAA
97639212 CTCAAAACTC
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:0.48, C:0.16, G:0.28, T:0.08
Consensus pattern (13 bp):
CAGATCGAAGAAG
Found at i:97639691 original size:22 final size:23
Alignment explanation
Indices: 97639659--97639715 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
97639649 TAAGGGGGGG
*
97639659 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATTGTATTTTGAGGAGAGA
*
97639681 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATTGTATTTTGAGGAGAGA
**
97639704 AGAGATTGTATT
1 ATCGATTGTATT
97639716 AGAGGGGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.35
Consensus pattern (23 bp):
ATCGATTGTATTTTGAGGAGAGA
Found at i:97639710 original size:23 final size:22
Alignment explanation
Indices: 97639666--97639715 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
97639656 GGGATCGATG
**
97639666 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
97639688 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
97639711 GTATT
1 GTATT
97639716 AGAGGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:97640375 original size:78 final size:77
Alignment explanation
Indices: 97640293--97640457 Score: 204
Period size: 78 Copynumber: 2.1 Consensus size: 77
97640283 TTTTATGATA
* * *
97640293 AAAAAAAGAGAAAATAAAGTATGGTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATGGT
1 AAAAAAAGAGAAAATAAAGAATAGTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAATAGT
97640358 TTTAATTAATAAT
65 TTTAATTAATAAT
* * ** *** *
97640371 AAAAACAAAATAGTATGGGGAATAGTTTTAATTAATAATAAAACAAAATAGTATGGGGGAGTAGT
1 AAAAA-AAGAGAAAATAAAGAATAGTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATAGT
97640436 TTTAATTAATAAT
65 TTTAATTAATAAT
97640449 AAAACAAAG
1 AAAA-AAAG
97640458 TAGCATGGGG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
78 48 0.66
79 25 0.34
ACGTcount: A:0.52, C:0.02, G:0.17, T:0.28
Consensus pattern (77 bp):
AAAAAAAGAGAAAATAAAGAATAGTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATAGTT
TTAATTAATAAT
Found at i:97640471 original size:39 final size:40
Alignment explanation
Indices: 97640316--97640469 Score: 251
Period size: 39 Copynumber: 3.9 Consensus size: 40
97640306 ATAAAGTATG
*
97640316 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
97640356 GTTTTAATTAATAATAAAAACAAAATAGTAT-GGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
*
97640395 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* *
97640434 GTTTTAATTAATAAT-AAAACAAAGTAGCATGGGGGA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGA
97640470 GTGGAATCAA
Statistics
Matches: 109, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
38 15 0.14
39 63 0.58
40 31 0.28
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.30
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
Found at i:97648485 original size:36 final size:39
Alignment explanation
Indices: 97648444--97648519 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
97648434 AGGTGAAGCA
*
97648444 AGAAGGA-AGGAGAAGA-AGAGAAA-AAGAAAGAAAAAG
1 AGAAGGAGAGGAGAAGAGAGAAAAAGAAGAAAGAAAAAG
* **
97648480 AGAAGGAGAGGGGGTGAGAGAAAAAGAAGAAAGAAAAAG
1 AGAAGGAGAGGAGAAGAGAGAAAAAGAAGAAAGAAAAAG
97648519 A
1 A
97648520 AAAAGAGAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 7 0.21
37 6 0.18
38 6 0.18
39 14 0.42
ACGTcount: A:0.62, C:0.00, G:0.37, T:0.01
Consensus pattern (39 bp):
AGAAGGAGAGGAGAAGAGAGAAAAAGAAGAAAGAAAAAG
Found at i:97656117 original size:10 final size:9
Alignment explanation
Indices: 97656091--97656147 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
97656081 TATATTAAAA
97656091 AATATTTTT
1 AATATTTTT
*
97656100 TATATTTTT
1 AATATTTTT
97656109 AATACTTTTT
1 AATA-TTTTT
* *
97656119 AAACAATTTT
1 -AATATTTTT
97656129 AATATTTTT
1 AATATTTTT
*
97656138 TA-ATTTTT
1 AATATTTTT
97656146 AA
1 AA
97656148 AAATAGTTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
8 7 0.18
9 19 0.50
10 9 0.24
11 3 0.08
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (9 bp):
AATATTTTT
Found at i:97656152 original size:20 final size:22
Alignment explanation
Indices: 97656129--97656169 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
97656119 AAACAATTTT
*
97656129 AATA-TTTTT-TAATTTTTAAA
1 AATAGTTTTTATAAATTTTAAA
97656149 AATAGTTTTTATAAATTTTAA
1 AATAGTTTTTATAAATTTTAA
97656170 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
AATAGTTTTTATAAATTTTAAA
Found at i:97656159 original size:30 final size:28
Alignment explanation
Indices: 97656088--97656179 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 28
97656078 ATATATATTA
*
97656088 AAAAATATTTTTTATATTTTTAATACTTTTT
1 AAAAATA-TTTTTATATTTTT--TAATTTTT
* *
97656119 AAACA-ATTTTAATATTTTTTAATTTTT
1 AAAAATATTTTTATATTTTTTAATTTTT
**
97656146 AAAAATAGTTTTTATAAATTTTAATTTTT
1 AAAAATA-TTTTTATATTTTTTAATTTTT
97656175 AAAAA
1 AAAAA
97656180 ATTAATTGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 11 0.21
28 1 0.02
29 35 0.67
30 1 0.02
31 4 0.08
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (28 bp):
AAAAATATTTTTATATTTTTTAATTTTT
Found at i:97656184 original size:15 final size:15
Alignment explanation
Indices: 97656137--97656186 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
97656127 TTAATATTTT
97656137 TTAATTTTT-AAAAA
1 TTAATTTTTAAAAAA
* **
97656151 -TAGTTTTTATAAATT
1 TTAATTTTTA-AAAAA
97656166 TTAATTTTTAAAAAA
1 TTAATTTTTAAAAAA
97656181 TTAATT
1 TTAATT
97656187 GTTGACTTGT
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
13 7 0.26
15 12 0.44
16 8 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TTAATTTTTAAAAAA
Found at i:97658037 original size:15 final size:14
Alignment explanation
Indices: 97658013--97658046 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
97658003 TTTGAATTTT
*
97658013 AAATTAATTAAAGA
1 AAATTAATTAAACA
97658027 AAATGTAATTAAACA
1 AAAT-TAATTAAACA
97658042 AAATT
1 AAATT
97658047 TTAATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (14 bp):
AAATTAATTAAACA
Found at i:97658345 original size:19 final size:19
Alignment explanation
Indices: 97658298--97658345 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
97658288 TGAATTTTTA
*
97658298 TTTTTATATATATTTGAAT
1 TTTTTATATATATTTCAAT
* *
97658317 TATTTATATATTTATTTCTAT
1 T-TTT-TATATATATTTCAAT
97658338 TTTTTATA
1 TTTTTATA
97658346 ATTTTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 5 0.21
20 6 0.25
21 13 0.54
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTATATATATTTCAAT
Found at i:97659520 original size:8 final size:8
Alignment explanation
Indices: 97659509--97659542 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
97659499 TAAATATATG
97659509 AAAAAGAA
1 AAAAAGAA
97659517 AAAAAGAA
1 AAAAAGAA
97659525 AAAAAGAA
1 AAAAAGAA
97659533 AAAAAGAA
1 AAAAAGAA
97659541 AA
1 AA
97659543 TTGGGCATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:97664194 original size:7 final size:6
Alignment explanation
Indices: 97664163--97664191 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
97664153 AATTATTTTA
97664163 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
97664192 ATACATAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:97664447 original size:24 final size:24
Alignment explanation
Indices: 97664415--97664463 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
97664405 CGCAGTTTAA
97664415 CACGATATAGCATCCAACACCCTC
1 CACGATATAGCATCCAACACCCTC
97664439 CACGATATAGCATCCAACACCCTC
1 CACGATATAGCATCCAACACCCTC
97664463 C
1 C
97664464 GGGGACGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.43, G:0.08, T:0.16
Consensus pattern (24 bp):
CACGATATAGCATCCAACACCCTC
Found at i:97670850 original size:13 final size:13
Alignment explanation
Indices: 97670827--97670868 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
97670817 AGGTTTATTT
97670827 AAAAT-AAAAATA
1 AAAATAAAAAATA
97670839 AAAATAAAAAATA
1 AAAATAAAAAATA
97670852 AAAATAAAAAATA
1 AAAATAAAAAATA
97670865 AAAA
1 AAAA
97670869 ATGTAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 5 0.17
13 24 0.83
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:97670870 original size:7 final size:6
Alignment explanation
Indices: 97670827--97670868 Score: 66
Period size: 6 Copynumber: 6.7 Consensus size: 6
97670817 AGGTTTATTT
97670827 AAAATA AAAATA AAAATAA AAAATA AAAATAA AAAATA AAAA
1 AAAATA AAAATA AAAAT-A AAAATA AAAAT-A AAAATA AAAA
97670869 ATGTAATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 22 0.65
7 12 0.35
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:97671765 original size:12 final size:12
Alignment explanation
Indices: 97671748--97671783 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
97671738 TAAAACATAT
97671748 ATAATTTTTTAA
1 ATAATTTTTTAA
97671760 ATAA-TTTTTAA
1 ATAATTTTTTAA
97671771 ATAATTTTTTAA
1 ATAATTTTTTAA
97671783 A
1 A
97671784 CTCGTGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.48
12 12 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATAATTTTTTAA
Found at i:97671778 original size:10 final size:11
Alignment explanation
Indices: 97671748--97671779 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
97671738 TAAAACATAT
97671748 ATAATTTTTTAA
1 ATAA-TTTTTAA
97671760 ATAATTTTTAA
1 ATAATTTTTAA
97671771 ATAATTTTT
1 ATAATTTTT
97671780 TAAACTCGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATAATTTTTAA
Found at i:97672592 original size:5 final size:6
Alignment explanation
Indices: 97672580--97672606 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
97672570 TAATTTTTAT
97672580 AATAAA AATAAA AATAAA AATAAA AAT
1 AATAAA AATAAA AATAAA AATAAA AAT
97672607 GGGTTAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:97673825 original size:16 final size:17
Alignment explanation
Indices: 97673796--97673830 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
97673786 TTTCTTTATA
97673796 TATTCTTTAGAATTTTT
1 TATTCTTTAGAATTTTT
*
97673813 TATT-TTTATAATTTTT
1 TATTCTTTAGAATTTTT
97673829 TA
1 TA
97673831 AAAATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (17 bp):
TATTCTTTAGAATTTTT
Found at i:97676641 original size:20 final size:20
Alignment explanation
Indices: 97676597--97676652 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
97676587 TAATTTTTTT
*
97676597 ACCCTAAATCTCGAACCATAA
1 ACCCTAAATCTCAAACCA-AA
97676618 ACCCTAAATCTCAAACTC-AA
1 ACCCTAAATCTCAAAC-CAAA
*
97676638 ACCCTAAATCCCAAA
1 ACCCTAAATCTCAAA
97676653 ATTTGAACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 16 0.50
21 15 0.47
22 1 0.03
ACGTcount: A:0.45, C:0.36, G:0.02, T:0.18
Consensus pattern (20 bp):
ACCCTAAATCTCAAACCAAA
Found at i:97678966 original size:26 final size:28
Alignment explanation
Indices: 97678910--97678970 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
97678900 CTTTGGGTCA
* *
97678910 ATTTTGTTTATAGAATTAATGCATTCATG
1 ATTTTGTTTATAAAAATAATGCATT-ATG
*
97678939 ATTTTGTTTATAAAAAT-GTGCATT-TG
1 ATTTTGTTTATAAAAATAATGCATTATG
97678965 ATTTTG
1 ATTTTG
97678971 GTACAAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 8 0.28
28 6 0.21
29 15 0.52
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.51
Consensus pattern (28 bp):
ATTTTGTTTATAAAAATAATGCATTATG
Found at i:97679083 original size:21 final size:22
Alignment explanation
Indices: 97679032--97679085 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
97679022 GATCATAACG
97679032 ATATAA-AAATAAATTAATAAAC
1 ATATAATAAAT-AATTAATAAAC
97679054 ATA-AATAAATAA-TAATGAAA-
1 ATATAATAAATAATTAAT-AAAC
97679074 ATATAATAAATA
1 ATATAATAAATA
97679086 TTCATTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 7 0.24
21 15 0.52
22 7 0.24
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (22 bp):
ATATAATAAATAATTAATAAAC
Found at i:97679474 original size:21 final size:21
Alignment explanation
Indices: 97679448--97679487 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
97679438 CAAAACAACG
97679448 TAGTTTT-ACCTTTTAACTTGA
1 TAGTTTTGA-CTTTTAACTTGA
97679469 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
97679488 TAGAAAACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:97679892 original size:19 final size:19
Alignment explanation
Indices: 97679787--97679892 Score: 63
Period size: 19 Copynumber: 5.2 Consensus size: 19
97679777 AAAATTATTA
97679787 TTTTATAAA-ATTTTAAAT
1 TTTTATAAATATTTTAAAT
* *
97679805 TTTATATATATATTTTTATAT
1 TTT-TATAAATA-TTTTAAAT
* *
97679826 TTTT-TAAAAATTTGTAATTTT
1 TTTTATAAATATTT-TAA--AT
*
97679847 TTTTAAAAATACAAATTTTAGAAT
1 TTTTATAAAT----ATTTTA-AAT
97679871 TTTTATAAATATTTTAAAT
1 TTTTATAAATATTTTAAAT
97679890 TTT
1 TTT
97679893 AAAAATTATT
Statistics
Matches: 66, Mismatches: 10, Indels: 23
0.67 0.10 0.23
Matches are distributed among these distances:
18 6 0.09
19 17 0.26
20 8 0.12
21 15 0.23
22 3 0.05
24 10 0.15
25 2 0.03
26 5 0.08
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTATAAATATTTTAAAT
Found at i:97679902 original size:19 final size:19
Alignment explanation
Indices: 97679861--97679920 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
97679851 AAAAATACAA
*
97679861 ATTTTAGAATTTTTATAAA-T
1 ATTTTA-AA-TTTTAAAAATT
97679881 ATTTTAAATTTTAAAAATT
1 ATTTTAAATTTTAAAAATT
* *
97679900 ATTTTCAAAATTTGAAAATT
1 ATTTT-AAATTTTAAAAATT
97679920 A
1 A
97679921 CTTTGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.23
19 8 0.23
20 19 0.54
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (19 bp):
ATTTTAAATTTTAAAAATT
Found at i:97681155 original size:26 final size:26
Alignment explanation
Indices: 97681126--97681194 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
97681116 CCCAATATAT
97681126 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* * * *
97681152 GGCTATTTGTGAGCTTCCTGATTAAT
1 GGCTCTTCGTGAGCTTCCCGATTAAA
*
97681178 GGCTCTCCG-GAGCTTCC
1 GGCTCTTCGTGAGCTTCC
97681195 AAATATGGCT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 8 0.22
26 28 0.78
ACGTcount: A:0.16, C:0.26, G:0.25, T:0.33
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:97688721 original size:23 final size:24
Alignment explanation
Indices: 97688678--97688746 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
97688668 TGGAGCTTCG
*
97688678 TAATTAATGGCTC-TTTGGAGCTACC
1 TAATT-ATGGCTCGTAT-GAGCTACC
* * *
97688703 -CATTTTGGCTCGTATGAGCTTCC
1 TAATTATGGCTCGTATGAGCTACC
*
97688726 TAATTATGGCTCTTATGAGCT
1 TAATTATGGCTCGTATGAGCT
97688747 TCCCGTTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
23 13 0.37
24 22 0.63
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (24 bp):
TAATTATGGCTCGTATGAGCTACC
Found at i:97688771 original size:25 final size:25
Alignment explanation
Indices: 97688743--97688812 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
97688733 GGCTCTTATG
* *
97688743 AGCTTCCCGTTATACGGCTCAGATA
1 AGCTTCCCATTATATGGCTCAGATA
* * *
97688768 AGCTTTCCATTACT-TGGCTCACATG
1 AGCTTCCCATTA-TATGGCTCAGATA
97688793 AGCTTCCCATTATATGGCTC
1 AGCTTCCCATTATATGGCTC
97688813 GAGAGAGAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
24 1 0.03
25 35 0.95
26 1 0.03
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (25 bp):
AGCTTCCCATTATATGGCTCAGATA
Found at i:97692214 original size:21 final size:21
Alignment explanation
Indices: 97692188--97692231 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
97692178 CAAACATCTC
* *
97692188 ATATGCCAACTAAACAAATTA
1 ATATGCAAACCAAACAAATTA
*
97692209 ATATGCAAACCAAACATATTA
1 ATATGCAAACCAAACAAATTA
97692230 AT
1 AT
97692232 CTTAAGCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.18, G:0.05, T:0.25
Consensus pattern (21 bp):
ATATGCAAACCAAACAAATTA
Found at i:97695644 original size:23 final size:23
Alignment explanation
Indices: 97695557--97695657 Score: 87
Period size: 23 Copynumber: 4.4 Consensus size: 23
97695547 TCCGCTTGTA
* *
97695557 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACCG-TTTCAGCTCAAT
* * * ***
97695581 GGAGCTTATCGTTTCAACTTGTT
1 AGAGCTTACCGTTTCAGCTCAAT
* **
97695604 TGAGCTTATTG-TTCAGCTCAAT
1 AGAGCTTACCGTTTCAGCTCAAT
97695626 AGAGCTTACCGTTTCAGCTCAAT
1 AGAGCTTACCGTTTCAGCTCAAT
97695649 AGAGCTTAC
1 AGAGCTTAC
97695658 TATTCACCAG
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
22 15 0.25
23 38 0.62
24 8 0.13
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (23 bp):
AGAGCTTACCGTTTCAGCTCAAT
Found at i:97695861 original size:20 final size:19
Alignment explanation
Indices: 97695832--97695927 Score: 84
Period size: 20 Copynumber: 4.8 Consensus size: 19
97695822 AGATATGTGT
* *
97695832 TTATATGGATGAATTATTG
1 TTATACGGATGAATTACTG
*
97695851 TTGATACGGATGAATTGCTG
1 TT-ATACGGATGAATTACTG
* *
97695871 TTATTACTGATGAACTACTG
1 TTA-TACGGATGAATTACTG
*
97695891 TTTATACGGATGAACTACTGG
1 -TTATACGGATGAATTACT-G
* *
97695912 TTATATGAATGAATTA
1 TTATACGGATGAATTA
97695928 TAGTTTATTC
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
19 3 0.05
20 56 0.89
21 4 0.06
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (19 bp):
TTATACGGATGAATTACTG
Found at i:97695934 original size:40 final size:37
Alignment explanation
Indices: 97695832--97695935 Score: 100
Period size: 40 Copynumber: 2.6 Consensus size: 37
97695822 AGATATGTGT
* * *
97695832 TTATATGGATGAATTATTGTTGATACGGATGAATTGCTG
1 TTATAT-GATGAATTA-TGTTTATACGGATGAACTACTG
*
97695871 TTATTACTGATGAACTACTGTTTATACGGATGAACTACTGG
1 TTA-TA-TGATGAATTA-TGTTTATACGGATGAACTACT-G
97695912 TTATATGAATGAATTATAGTTTAT
1 TTATATG-ATGAATTAT-GTTTAT
97695936 TCGAATAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
39 6 0.11
40 43 0.80
41 5 0.09
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (37 bp):
TTATATGATGAATTATGTTTATACGGATGAACTACTG
Found at i:97698009 original size:21 final size:23
Alignment explanation
Indices: 97697971--97698012 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
97697961 TGGCCAAGGT
97697971 TATAATGGTATGTATAGTTGACC
1 TATAATGGTATGTATAGTTGACC
*
97697994 TATAAT-G-ATGTTTAGTTGA
1 TATAATGGTATGTATAGTTGA
97698013 ATATTTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 1 0.06
23 6 0.33
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (23 bp):
TATAATGGTATGTATAGTTGACC
Found at i:97703388 original size:316 final size:316
Alignment explanation
Indices: 97702815--97703444 Score: 1260
Period size: 316 Copynumber: 2.0 Consensus size: 316
97702805 AGGCCCTAAA
97702815 AAATACCTTAGAAATGATTCGAGACCAATTTGAAATCATTTCGAAAGTTTATGAAAAAGTTAGAA
1 AAATACCTTAGAAATGATTCGAGACCAATTTGAAATCATTTCGAAAGTTTATGAAAAAGTTAGAA
97702880 ATTCTGGAATACAGAGGTCACACGACTGTGTGCCTCACATGGATGAGACACACTCCCATGTCTCA
66 ATTCTGGAATACAGAGGTCACACGACTGTGTGCCTCACATGGATGAGACACACTCCCATGTCTCA
97702945 GGTTGTGTAACCTTCGAACTAGGGACATACAACCATATCCCAACCCGTGTCCTCACCCGTGTAAC
131 GGTTGTGTAACCTTCGAACTAGGGACATACAACCATATCCCAACCCGTGTCCTCACCCGTGTAAC
97703010 TCTCTAAGTAAGCTCACACGGTTGTGTCACACGCTCGTGTGCCAGGCCGTATAACTCTCAAAATA
196 TCTCTAAGTAAGCTCACACGGTTGTGTCACACGCTCGTGTGCCAGGCCGTATAACTCTCAAAATA
97703075 GCCTTACACGCCTGTGTACCAGGTCGTGTGCTAAGCCATGTAATTGACTAACTTAG
261 GCCTTACACGCCTGTGTACCAGGTCGTGTGCTAAGCCATGTAATTGACTAACTTAG
97703131 AAATACCTTAGAAATGATTCGAGACCAATTTGAAATCATTTCGAAAGTTTATGAAAAAGTTAGAA
1 AAATACCTTAGAAATGATTCGAGACCAATTTGAAATCATTTCGAAAGTTTATGAAAAAGTTAGAA
97703196 ATTCTGGAATACAGAGGTCACACGACTGTGTGCCTCACATGGATGAGACACACTCCCATGTCTCA
66 ATTCTGGAATACAGAGGTCACACGACTGTGTGCCTCACATGGATGAGACACACTCCCATGTCTCA
97703261 GGTTGTGTAACCTTCGAACTAGGGACATACAACCATATCCCAACCCGTGTCCTCACCCGTGTAAC
131 GGTTGTGTAACCTTCGAACTAGGGACATACAACCATATCCCAACCCGTGTCCTCACCCGTGTAAC
97703326 TCTCTAAGTAAGCTCACACGGTTGTGTCACACGCTCGTGTGCCAGGCCGTATAACTCTCAAAATA
196 TCTCTAAGTAAGCTCACACGGTTGTGTCACACGCTCGTGTGCCAGGCCGTATAACTCTCAAAATA
97703391 GCCTTACACGCCTGTGTACCAGGTCGTGTGCTAAGCCATGTAATTGACTAACTT
261 GCCTTACACGCCTGTGTACCAGGTCGTGTGCTAAGCCATGTAATTGACTAACTT
97703445 GCATACAAAG
Statistics
Matches: 314, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
316 314 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (316 bp):
AAATACCTTAGAAATGATTCGAGACCAATTTGAAATCATTTCGAAAGTTTATGAAAAAGTTAGAA
ATTCTGGAATACAGAGGTCACACGACTGTGTGCCTCACATGGATGAGACACACTCCCATGTCTCA
GGTTGTGTAACCTTCGAACTAGGGACATACAACCATATCCCAACCCGTGTCCTCACCCGTGTAAC
TCTCTAAGTAAGCTCACACGGTTGTGTCACACGCTCGTGTGCCAGGCCGTATAACTCTCAAAATA
GCCTTACACGCCTGTGTACCAGGTCGTGTGCTAAGCCATGTAATTGACTAACTTAG
Found at i:97707920 original size:68 final size:68
Alignment explanation
Indices: 97707846--97707982 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
97707836 TTAAAACGAG
* *
97707846 ATTCCAACCTTTTAACCCAATGGAATTATATTAAAAATCATACCCTTTATTTTGTCAAAAAATAA
1 ATTCCAACATTTTAACCCAATGGAATTATATTAAAAATCATACCCTTTATTTTGTCAAAAAACAA
97707911 AAT
66 AAT
*
97707914 ATTCCAACATTTTAACCCAATGGAATTATATTAAAACTCATACCCTTTATTTTGTCAAAAAACAA
1 ATTCCAACATTTTAACCCAATGGAATTATATTAAAAATCATACCCTTTATTTTGTCAAAAAACAA
97707979 AAT
66 AAT
97707982 A
1 A
97707983 AAATGCATAC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.34
Consensus pattern (68 bp):
ATTCCAACATTTTAACCCAATGGAATTATATTAAAAATCATACCCTTTATTTTGTCAAAAAACAA
AAT
Found at i:97708137 original size:3 final size:3
Alignment explanation
Indices: 97708129--97708154 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
97708119 CTGGAAGAGT
97708129 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
97708155 TTACATCAAA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:97713508 original size:131 final size:131
Alignment explanation
Indices: 97713262--97713587 Score: 404
Period size: 131 Copynumber: 2.5 Consensus size: 131
97713252 CGAACTTGGG
* * * * * * *
97713262 GTGATCTTAAATCAATGAGTTGTTTGAAGAAGTGATATTAAATCAACTATATCAAATAAGACTGT
1 GTGATCTTAAATCAATGAGCTGTTTAAAGAAGCGATATTAAATCAGCTATCTCAAATAAGATTGA
** **
97713327 TCATGATCTTAAATCGAATGAACATAAGTTCTTATCTAAAATCAACGAACCTTAATAATATCAGT
66 TCATGATCTTAAATCGAATGAACATAAGTTCAGATCTAAAATCAACGAACCTTAATAATATCAAC
97713392 T
131 T
* * * *
97713393 GTGATCTTAAATCAGTGAGCTGTTTAAAGAAACGATATTAAATCAGCCATCTCAAATAGGATTGA
1 GTGATCTTAAATCAATGAGCTGTTTAAAGAAGCGATATTAAATCAGCTATCTCAAATAAGATTGA
* * ** *
97713458 TCATGATCTTAAATCGAATGAACATATA-TTGAGATCTTAAA-CTAGTGAACCTTAATAATGTCA
66 TCATGATCTTAAATCGAATGAACATA-AGTTCAGATCTAAAATC-AACGAACCTTAATAATATCA
97713521 ACT
129 ACT
* * * *
97713524 GTGATCTTAAATCAACGAGCTGGTTAGAGAAGCAATATTAAATCAGCTATCTCAAATAAGATTG
1 GTGATCTTAAATCAATGAGCTGTTTAAAGAAGCGATATTAAATCAGCTATCTCAAATAAGATTG
97713588 TTCGTGATGT
Statistics
Matches: 165, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
130 1 0.01
131 163 0.99
132 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (131 bp):
GTGATCTTAAATCAATGAGCTGTTTAAAGAAGCGATATTAAATCAGCTATCTCAAATAAGATTGA
TCATGATCTTAAATCGAATGAACATAAGTTCAGATCTAAAATCAACGAACCTTAATAATATCAAC
T
Found at i:97716090 original size:27 final size:26
Alignment explanation
Indices: 97716053--97716167 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
97716043 AGCATGGCTG
* *
97716053 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
97716079 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
97716107 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
97716134 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
97716161 CCAGAAC
1 CCAGAAC
97716168 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:97716112 original size:54 final size:54
Alignment explanation
Indices: 97716053--97716167 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
97716043 AGCATGGCTG
*
97716053 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
97716107 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
97716161 CCAGAAC
1 CCAGAAC
97716168 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:97717816 original size:26 final size:26
Alignment explanation
Indices: 97717780--97717941 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
97717770 CATGAAATTC
97717780 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
97717806 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
97717832 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
97717858 TTTTCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
97717884 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
97717910 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
97717936 TTATCA
1 TTATCA
97717942 ATTTGTATCA
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 128 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:97717913 original size:78 final size:78
Alignment explanation
Indices: 97717783--97717937 Score: 292
Period size: 78 Copynumber: 2.0 Consensus size: 78
97717773 GAAATTCTTA
97717783 TCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTT
1 TCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTT
97717848 ACCTAACCTATTT
66 ACCTAACCTATTT
* *
97717861 TCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACATTT
1 TCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTT
97717926 ACCTAACCTATT
66 ACCTAACCTATT
97717938 ATCAATTTGT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (78 bp):
TCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTT
ACCTAACCTATTT
Found at i:97718846 original size:21 final size:21
Alignment explanation
Indices: 97718822--97718871 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
97718812 GACTGTGTAA
*
97718822 GTCGCGACA-CTAGGGTTCGTT
1 GTCGCGACACCT-GGGTTCATT
*
97718843 GTCGTGACACCTGGGTTCATT
1 GTCGCGACACCTGGGTTCATT
*
97718864 TTCGCGAC
1 GTCGCGAC
97718872 TATAACACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.14, C:0.26, G:0.30, T:0.30
Consensus pattern (21 bp):
GTCGCGACACCTGGGTTCATT
Found at i:97719853 original size:12 final size:12
Alignment explanation
Indices: 97719836--97719860 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
97719826 TATTGAATGC
97719836 ATTGTTGTGTGA
1 ATTGTTGTGTGA
97719848 ATTGTTGTGTGA
1 ATTGTTGTGTGA
97719860 A
1 A
97719861 GTTTCAGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (12 bp):
ATTGTTGTGTGA
Found at i:97720293 original size:25 final size:24
Alignment explanation
Indices: 97720265--97720328 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
97720255 AATAATTTTA
**
97720265 TTTTTTTATTTTTAATCATATTCAT
1 TTTTTTTATTTTTAAT-ATAACCAT
*
97720290 TTTTTTTCAATTTTAATATAACCAT
1 TTTTTTT-ATTTTTAATATAACCAT
*
97720315 TTTTATTATATTTT
1 TTTTTTTAT-TTTT
97720329 CAATTTATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 1 0.03
25 23 0.72
26 8 0.25
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTTTTTATTTTTAATATAACCAT
Found at i:97720418 original size:24 final size:26
Alignment explanation
Indices: 97720389--97720436 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
97720379 TCTTATTTTA
97720389 ATATTTG-TTT-TTATATTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
97720413 ATATTTGATTTATTATATTTTTAA
1 ATATTTGATTTATTATATTTTTAA
97720437 TTTTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:97721264 original size:68 final size:68
Alignment explanation
Indices: 97721155--97721304 Score: 203
Period size: 68 Copynumber: 2.2 Consensus size: 68
97721145 TTTCATAACG
* *
97721155 CGCCAATCTAGT-ATATTATATGTAACTATGTTGAACATGTTTTATACTTAATGGAGTATGCGCT
1 CGCCAATCTA-TCATATTAAATGTAACTATGTGGAACATGTTTTATACTTAATGGAGTATGCGCT
97721219 ATAT
65 ATAT
* * * *
97721223 CGCCAATCTATCATATTAAATGTAATTGTGTGGAACATGTTTTATGCTTAATGGAGTATGTGCTA
1 CGCCAATCTATCATATTAAATGTAACTATGTGGAACATGTTTTATACTTAATGGAGTATGCGCTA
97721288 TAT
66 TAT
* * *
97721291 TGCAAATTTATCAT
1 CGCCAATCTATCAT
97721305 TATATGTGAT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
67 1 0.01
68 71 0.99
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.40
Consensus pattern (68 bp):
CGCCAATCTATCATATTAAATGTAACTATGTGGAACATGTTTTATACTTAATGGAGTATGCGCTA
TAT
Found at i:97735404 original size:12 final size:12
Alignment explanation
Indices: 97735376--97735412 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
97735366 AAAACCCAAA
97735376 ATAATAATA-AT
1 ATAATAATATAT
97735387 -TAATAATATAT
1 ATAATAATATAT
*
97735398 ATAATAATTTAT
1 ATAATAATATAT
97735410 ATA
1 ATA
97735413 GAAAATAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
10 8 0.35
11 2 0.09
12 13 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATAATAATATAT
Found at i:97738276 original size:39 final size:39
Alignment explanation
Indices: 97738222--97738296 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
97738212 CCAAACGATA
97738222 CTTTTTATTATTTATTATATGTTGTTTTTAAACACACGT
1 CTTTTTATTATTTATTATATGTTGTTTTTAAACACACGT
97738261 CTTTTTATTATTTATTATATGTTGTTTTTAAACACA
1 CTTTTTATTATTTATTATATGTTGTTTTTAAACACA
97738297 AGCCTTTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.57
Consensus pattern (39 bp):
CTTTTTATTATTTATTATATGTTGTTTTTAAACACACGT
Found at i:97748144 original size:42 final size:43
Alignment explanation
Indices: 97748075--97748156 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 43
97748065 GTTTCAAAAC
* *
97748075 CACACGGGCATAGGACATGAGCATGTGTCCAAGCCGTGTGAAT
1 CACACGGCCATAGGACACGAGCATGTGTCCAAGCCGTGTGAAT
* * * *
97748118 CACACGGCCA-AGGACACGGGCGTGTGTCTAGGCCGTGTG
1 CACACGGCCATAGGACACGAGCATGTGTCCAAGCCGTGTG
97748157 GCATATAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 24 0.73
43 9 0.27
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.17
Consensus pattern (43 bp):
CACACGGCCATAGGACACGAGCATGTGTCCAAGCCGTGTGAAT
Found at i:97750015 original size:22 final size:23
Alignment explanation
Indices: 97749987--97750031 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
97749977 TTCTTCTTCC
97749987 TTTTCTCAATC-TTTTTCTTTCT
1 TTTTCTCAATCTTTTTTCTTTCT
**
97750009 TTTTCTCTTTCTTTTTTCTTTCT
1 TTTTCTCAATCTTTTTTCTTTCT
97750032 ATCTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTCTCAATCTTTTTTCTTTCT
Found at i:97750017 original size:12 final size:11
Alignment explanation
Indices: 97749998--97750031 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
97749988 TTTCTCAATC
97749998 TTTTTCTTTCT
1 TTTTTCTTTCT
97750009 TTTTCTCTTTCT
1 TTTT-TCTTTCT
97750021 TTTTTCTTTCT
1 TTTTTCTTTCT
97750032 ATCTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTCTTTCT
Found at i:97750028 original size:19 final size:18
Alignment explanation
Indices: 97750004--97750056 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
97749994 AATCTTTTTC
*
97750004 TTTCTTTTTCTCTTTCTTT
1 TTTCTTTTTCTCTTT-ATT
* *
97750023 TTTCTTTCTATCTTTATT
1 TTTCTTTTTCTCTTTATT
*
97750041 TTTCATTTTCTTCTTT
1 TTTCTTTTTC-TCTTT
97750057 TGCTTCTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTCTTTTTCTCTTTATT
Found at i:97753308 original size:26 final size:26
Alignment explanation
Indices: 97753279--97753331 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
97753269 CCAATGTTTG
97753279 CACATTCTATCAATTTGATCCTAAAT
1 CACATTCTATCAATTTGATCCTAAAT
*
97753305 CACATTCTATCAATTTGATTCTAAAT
1 CACATTCTATCAATTTGATCCTAAAT
97753331 C
1 C
97753332 TAAAAAATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.40
Consensus pattern (26 bp):
CACATTCTATCAATTTGATCCTAAAT
Found at i:97754227 original size:19 final size:19
Alignment explanation
Indices: 97754203--97754248 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
97754193 TTAAAATTTG
97754203 AAAATAAAAATATTATTAT
1 AAAATAAAAATATTATTAT
*** *
97754222 AAAATAATTGTATTGTTAT
1 AAAATAAAAATATTATTAT
97754241 AAAATAAA
1 AAAATAAA
97754249 GAGAGATGGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (19 bp):
AAAATAAAAATATTATTAT
Found at i:97756283 original size:34 final size:28
Alignment explanation
Indices: 97756242--97756325 Score: 82
Period size: 32 Copynumber: 2.8 Consensus size: 28
97756232 TCAGTATTAA
97756242 TCTGGGCCATAGCCCTATTACAATATCAGAG
1 TCTGGGCC-TAGCCCTATTACAATATC--AG
97756273 CATACTGGGCCTAGCCC-A-TATCAATATCAG
1 --T-CTGGGCCTAGCCCTATTA-CAATATCAG
97756303 TCTGGGCCGTAGCCCTATTACAA
1 TCTGGGCC-TAGCCCTATTACAA
97756326 GTCGAGATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
27 7 0.15
28 7 0.15
29 4 0.09
30 4 0.09
31 2 0.04
32 8 0.17
33 7 0.15
34 7 0.15
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (28 bp):
TCTGGGCCTAGCCCTATTACAATATCAG
Found at i:97756316 original size:61 final size:61
Alignment explanation
Indices: 97756181--97756325 Score: 179
Period size: 61 Copynumber: 2.3 Consensus size: 61
97756171 TCAAGCTTTA
* * *
97756181 CTGGGCCTAAGCCCTATT-CAAAAATCAGAGTTAACTGGGCCTTAGCCCATATCAGTATTAAT
1 CTGGGCCT-AGCCCTATTAC-AAAATCAGAGATAACTGGGCCTTAGCCCATATCAATATCAAT
* *
97756243 CTGGGCCATAGCCCTATTACAATATCAGAGCAT-ACTGGGCC-TAGCCCATATCAATATCAGT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAG-ATAACTGGGCCTTAGCCCATATCAATATCAAT
97756304 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
97756326 GTCGAGATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
61 38 0.51
62 33 0.45
63 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (61 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGATAACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:97756452 original size:22 final size:22
Alignment explanation
Indices: 97756427--97756468 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
97756417 CATGATAACC
*
97756427 CCATCC-TACCCTGCACTTCCCT
1 CCATCCAT-CCCTACACTTCCCT
97756449 CCATCCATCCCTACACTTCC
1 CCATCCATCCCTACACTTCC
97756469 TGTGGGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.17, C:0.55, G:0.02, T:0.26
Consensus pattern (22 bp):
CCATCCATCCCTACACTTCCCT
Found at i:97758982 original size:20 final size:22
Alignment explanation
Indices: 97758944--97758983 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
97758934 TTCAAATACG
*
97758944 ATAATATATATATATTTTCCTA
1 ATAATATATATATAATTTCCTA
97758966 ATAATA-AT-TATAATTTCC
1 ATAATATATATATAATTTCC
97758984 ATAAATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATATATATATAATTTCCTA
Found at i:97762432 original size:25 final size:25
Alignment explanation
Indices: 97762404--97762452 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
97762394 ATTAGTTAAC
97762404 ATTT-GTATAAGATCAAACCGATTTA
1 ATTTAGTAT-AGATCAAACCGATTTA
**
97762429 ATTTAGTATTTATCAAACCGATTT
1 ATTTAGTATAGATCAAACCGATTT
97762453 TTTTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (25 bp):
ATTTAGTATAGATCAAACCGATTTA
Found at i:97762463 original size:24 final size:25
Alignment explanation
Indices: 97762415--97762464 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
97762405 TTTGTATAAG
**
97762415 ATCAAACCGATTTAATTTAGTATTT
1 ATCAAACCGATTTAATTTAAAATTT
*
97762440 ATCAAACCGATTT-TTTTAAAATTT
1 ATCAAACCGATTTAATTTAAAATTT
97762464 A
1 A
97762465 GTATTAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (25 bp):
ATCAAACCGATTTAATTTAAAATTT
Found at i:97763826 original size:23 final size:23
Alignment explanation
Indices: 97763800--97763847 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
97763790 AATATCACAG
*
97763800 TTGTTTTTTATAAAGTTAAAATT
1 TTGTTTTTTACAAAGTTAAAATT
*
97763823 TTGTTTTTTACATAGTTAAAATT
1 TTGTTTTTTACAAAGTTAAAATT
97763846 TT
1 TT
97763848 AAATTATGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.58
Consensus pattern (23 bp):
TTGTTTTTTACAAAGTTAAAATT
Found at i:97766409 original size:64 final size:64
Alignment explanation
Indices: 97766335--97766465 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 64
97766325 AATTCATTAG
*
97766335 TTGATGTTGTGTTCACACAATAAAGGGAATATAATCTTTCTTAGATATCTTGTGATTCAGGGCA
1 TTGATGTTGTGTTCACACAATAAAGGGAATAAAATCTTTCTTAGATATCTTGTGATTCAGGGCA
97766399 TTGATGTTGTGTTCACACAATAAAGGGAATAAAATCTTTCTTAGATATCTTGTGATTCAGGGCA
1 TTGATGTTGTGTTCACACAATAAAGGGAATAAAATCTTTCTTAGATATCTTGTGATTCAGGGCA
97766463 TTG
1 TTG
97766466 CTTCTGATAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (64 bp):
TTGATGTTGTGTTCACACAATAAAGGGAATAAAATCTTTCTTAGATATCTTGTGATTCAGGGCA
Found at i:97768192 original size:38 final size:38
Alignment explanation
Indices: 97768016--97768181 Score: 226
Period size: 38 Copynumber: 4.3 Consensus size: 38
97768006 AAACCCAAAC
* * * *
97768016 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
*
97768056 ATAATACCAGCAC-TAGACCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAG-CCTGCGGGATTTAACCCGGAT
97768094 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
97768132 ATATTACCAGTACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
97768170 ATAATTCCAGCA
1 ATAATACCAGCA
97768182 TATAGCCTGC
Statistics
Matches: 113, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
38 86 0.76
39 7 0.06
40 20 0.18
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:97773178 original size:54 final size:54
Alignment explanation
Indices: 97773120--97773230 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
97773110 TCTCTACCCA
* *
97773120 TGTAACTCACTGACTTGAGG-CACACGACCATGTCTCAACCCGTGTCTCAGCCCG
1 TGTAACTCACTAACTTG-GGTCACACGACCATGTCGCAACCCGTGTCTCAGCCCG
* * * *
97773174 TGTAACTCACTAACTTGGGTCACACGGCCATGTCGCAAGCTGTGTGTCAGCCCG
1 TGTAACTCACTAACTTGGGTCACACGACCATGTCGCAACCCGTGTCTCAGCCCG
97773228 TGT
1 TGT
97773231 GGAAACTACA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
53 2 0.04
54 48 0.96
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.24
Consensus pattern (54 bp):
TGTAACTCACTAACTTGGGTCACACGACCATGTCGCAACCCGTGTCTCAGCCCG
Found at i:97775080 original size:25 final size:26
Alignment explanation
Indices: 97775052--97775101 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
97775042 TCATTTTATT
97775052 TATT-ATTATAACATATATATATATA
1 TATTAATTATAACATATATATATATA
*
97775077 TATTAGATTATCACATATATATATA
1 TATTA-ATTATAACATATATATATA
97775102 ATACACACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
27 18 0.82
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (26 bp):
TATTAATTATAACATATATATATATA
Found at i:97775525 original size:22 final size:23
Alignment explanation
Indices: 97775486--97775532 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
97775476 CATATGCATC
** *
97775486 TTATGAATTTAATCTATGTTTTA
1 TTATGAATTTAAAATATGATTTA
97775509 TTATG-ATTTAAAATATGATTTA
1 TTATGAATTTAAAATATGATTTA
97775531 TT
1 TT
97775533 TTGGGATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (23 bp):
TTATGAATTTAAAATATGATTTA
Found at i:97778531 original size:20 final size:19
Alignment explanation
Indices: 97778496--97778535 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
97778486 AAATTAAGTT
*
97778496 TTAATTAATTATAATTAAC
1 TTAATTAATAATAATTAAC
97778515 TTAATTAACTAATAATTAAC
1 TTAATTAA-TAATAATTAAC
97778535 T
1 T
97778536 AACACTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (19 bp):
TTAATTAATAATAATTAAC
Found at i:97778532 original size:11 final size:11
Alignment explanation
Indices: 97778497--97778537 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
97778487 AATTAAGTTT
*
97778497 TAATTAA-TTA
1 TAATTAACTAA
97778507 TAATTAACT--
1 TAATTAACTAA
97778516 TAATTAACTAA
1 TAATTAACTAA
97778527 TAATTAACTAA
1 TAATTAACTAA
97778538 CACTAATCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.32
10 7 0.25
11 12 0.43
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (11 bp):
TAATTAACTAA
Found at i:97784022 original size:40 final size:40
Alignment explanation
Indices: 97783943--97784160 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
97783933 AAGCCAAGTA
* * * * *
97783943 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTTGCACAAATG
* *
97783982 CCTTCGGGACATAGCCCAGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
* *
97784022 CCTTCGGAACTTAGCCCGGATATAGTAACTTGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
*
97784062 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
* * * *
97784102 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAACG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTTGCACAAATG
97784142 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
97784161 TTATCATCAA
Statistics
Matches: 158, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 13 0.08
40 145 0.92
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
Found at i:97792043 original size:39 final size:40
Alignment explanation
Indices: 97791965--97792177 Score: 287
Period size: 39 Copynumber: 5.5 Consensus size: 40
97791955 AAGCCAAGTA
* * * *
97791965 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
97792004 CCTTCGGGACATAGCCCGGATATAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
97792043 CCTTC-GGACTTAGCCCGGATATAGT-ACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
97792081 CCCTCGGGACTTAGCCCGGAT-TAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
97792120 CCTTCGGGACTTAGCCC-GATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
97792159 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
97792178 TTATCATCCA
Statistics
Matches: 159, Mismatches: 8, Indels: 13
0.88 0.04 0.07
Matches are distributed among these distances:
37 8 0.05
38 33 0.21
39 100 0.63
40 18 0.11
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:97797533 original size:40 final size:40
Alignment explanation
Indices: 97797488--97797578 Score: 146
Period size: 40 Copynumber: 2.3 Consensus size: 40
97797478 ATAATTGTGC
* *
97797488 TGGACTTTATTAAACTTATCTTAGTTAATTTTTGAGTTGT
1 TGGACTTTATTAAACTCATCTTAGTTAATTATTGAGTTGT
* *
97797528 TGGACTTTATTAAGCTCATCTTAGTTAATTATTGATTTGT
1 TGGACTTTATTAAACTCATCTTAGTTAATTATTGAGTTGT
97797568 TGGACTTTATT
1 TGGACTTTATT
97797579 TTTATTACAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (40 bp):
TGGACTTTATTAAACTCATCTTAGTTAATTATTGAGTTGT
Found at i:97800830 original size:16 final size:16
Alignment explanation
Indices: 97800809--97800841 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
97800799 ATATAACGCC
*
97800809 CCAAAAATCTTGAAAT
1 CCAAAAATCTCGAAAT
97800825 CCAAAAATCTCGAAAT
1 CCAAAAATCTCGAAAT
97800841 C
1 C
97800842 TTGAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.21
Consensus pattern (16 bp):
CCAAAAATCTCGAAAT
Found at i:97802352 original size:29 final size:28
Alignment explanation
Indices: 97802320--97802426 Score: 110
Period size: 29 Copynumber: 3.8 Consensus size: 28
97802310 ATAATATGAT
97802320 TTGGGCCTAATGGGCCATATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAAT-AGAA
* * *
97802349 TTGGGCCTAGTGGGCCATAAGAATATGAG
1 TTGGGCCTAATGGGCCATATGAATA-GAA
* *
97802378 CTGGGCC-AGATGGGCCATTTGAATA-AGA
1 TTGGGCCTA-ATGGGCCATATGAATAGA-A
*
97802406 TTGGGCCTAGTGGGCCATATG
1 TTGGGCCTAATGGGCCATATG
97802427 CACGTATGTA
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
27 1 0.02
28 18 0.29
29 44 0.70
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATAGAA
Found at i:97802375 original size:58 final size:57
Alignment explanation
Indices: 97802312--97802424 Score: 165
Period size: 58 Copynumber: 2.0 Consensus size: 57
97802302 GCATGAATAT
** *
97802312 AATATGATTTGGGCCTA-ATGGGCCATATGAATGAGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAGCTGGGCC-AGATGGGCCATATGAATAAG-ATTGGGCCTAGTGGGCCATAAG
*
97802370 AATATGAGCTGGGCCAGATGGGCCATTTGAATAAGATTGGGCCTAGTGGGCCATA
1 AATATGAGCTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATA
97802425 TGCACGTATG
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
57 21 0.42
58 29 0.58
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (57 bp):
AATATGAGCTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATAAG
Found at i:97809473 original size:28 final size:28
Alignment explanation
Indices: 97809441--97809510 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
97809431 ATAGTAAGTC
97809441 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
97809469 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
97809497 CGCACACTTAGTGC
1 CGCACACTTAGTGC
97809511 CAATCTCATC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:97812483 original size:28 final size:29
Alignment explanation
Indices: 97812452--97812508 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
97812442 ATCTGAAATA
97812452 CTGATAT-CATGGCCAAAAGCCAAATCAG
1 CTGATATGCATGGCCAAAAGCCAAATCAG
** *
97812480 CTGATATGCATGGCCTGAATCCAAATCAG
1 CTGATATGCATGGCCAAAAGCCAAATCAG
97812509 TTTATTTCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (29 bp):
CTGATATGCATGGCCAAAAGCCAAATCAG
Found at i:97814860 original size:43 final size:43
Alignment explanation
Indices: 97814778--97814864 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
97814768 TGAGGTATGT
* * *
97814778 AGCATCCAAGCTCGTTGAGAGGTCTGAGTTTATTATGGATGCG
1 AGCATCCAAGCTCATTGAGAGGTCTGAATTTATGATGGATGCG
* *
97814821 AGCATCCGAGCTCATTGAGAGGTCT-AATTTCATGGTGGATGCG
1 AGCATCCAAGCTCATTGAGAGGTCTGAATTT-ATGATGGATGCG
97814864 A
1 A
97814865 TTCATGTAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
42 4 0.11
43 34 0.89
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (43 bp):
AGCATCCAAGCTCATTGAGAGGTCTGAATTTATGATGGATGCG
Found at i:97816730 original size:46 final size:46
Alignment explanation
Indices: 97816680--97816848 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
97816670 TTGAGCATCC
*
97816680 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
97816726 AACTCGTTGAGTTGAGTCCGAG-T---TTGTGAAATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G--TCCG
* *
97816773 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
97816819 AGCTCGTTGAGTTAAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
97816849 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 11, Indels: 22
0.75 0.08 0.16
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
45 2 0.02
46 52 0.51
47 26 0.26
48 2 0.02
50 3 0.03
51 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:97816839 original size:93 final size:92
Alignment explanation
Indices: 97816674--97816842 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 92
97816664 GGATGGTTGA
* * *
97816674 GCATCCAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
*
97816739 GAGTCCGAGTTTGTGAAATGTAACTAG
66 AAGTCCGAGTTTGTGAAATGTAACTAG
*
97816766 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCC-AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
97816831 TAAGTCCGAGTT
65 TAAGTCCGAGTT
97816843 CACTTAGGGG
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 6 0.08
93 65 0.92
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (92 bp):
GCATCCAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
AAGTCCGAGTTTGTGAAATGTAACTAG
Found at i:97823741 original size:46 final size:46
Alignment explanation
Indices: 97823691--97823863 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
97823681 TGGTTGAGCA
*
97823691 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
97823737 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
97823782 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
97823830 CCCGATCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
97823864 GGGGTGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:97823800 original size:93 final size:93
Alignment explanation
Indices: 97823688--97823858 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
97823678 GGATGGTTGA
* * *
97823688 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
97823753 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
97823781 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGATCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
97823846 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
97823859 ACTTAGGGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:97825525 original size:13 final size:13
Alignment explanation
Indices: 97825507--97825542 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
97825497 GCCGTGTGAG
97825507 GGACACGGGCCAA
1 GGACACGGGCCAA
97825520 GGACACGGGCCAA
1 GGACACGGGCCAA
97825533 GGACACGGGC
1 GGACACGGGC
97825543 GTGTAGTCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.28, C:0.31, G:0.42, T:0.00
Consensus pattern (13 bp):
GGACACGGGCCAA
Found at i:97840472 original size:20 final size:21
Alignment explanation
Indices: 97840433--97840472 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
97840423 GTTATAATGA
*
97840433 CCACACGGGTGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
97840454 CCACATGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
97840473 GTTTCATGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.35, G:0.30, T:0.25
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:97853545 original size:28 final size:27
Alignment explanation
Indices: 97853488--97853639 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
97853478 TAAATTGTGC
*
97853488 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
97853515 AGCACTAAGTGTGCGAGTTTGACTATTT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
97853543 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
97853570 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
97853598 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
97853625 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
97853640 GACCTAATAT
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:97853552 original size:55 final size:55
Alignment explanation
Indices: 97853488--97853639 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
97853478 TAAATTGTGC
* *
97853488 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATTT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
97853543 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
97853598 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
97853640 GACCTAATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:97856958 original size:43 final size:42
Alignment explanation
Indices: 97856830--97856974 Score: 166
Period size: 43 Copynumber: 3.4 Consensus size: 42
97856820 ATATGTGTTA
* * *
97856830 TCGTGTAAGAGCATGTCTGGAACATTGGCATCAATATATGATT
1 TCGTGTAAGACCATGTCTGGGACA-TGGCATCGATATATGATT
*
97856873 TACGTGTAAGACCATGTCTAGGACATGGGCATCG-TATATGATT
1 T-CGTGTAAGACCATGTCTGGGACAT-GGCATCGATATATGATT
* * *
97856916 TCGTGTAAGACCTTGCCTGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCATGTCTGGGACA-TGGCATCGATATATGATT
* *
97856959 ACATGTAAGACCATGT
1 TCGTGTAAGACCATGT
97856975 ATGAGATGTT
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
42 27 0.31
43 33 0.38
44 26 0.30
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATGGCATCGATATATGATT
Found at i:97867929 original size:39 final size:40
Alignment explanation
Indices: 97867834--97868095 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
97867824 TTGAATGATG
*
97867834 TCCGGGCTAAGTCCCGAAGG-A-TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
97867872 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
97867913 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
97867952 TCCGGGCTAAG-CCCCAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
97867991 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
97868030 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTACA-
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AT
* *
97868070 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
97868096 AACGAGGAGC
Statistics
Matches: 202, Mismatches: 12, Indels: 17
0.87 0.05 0.07
Matches are distributed among these distances:
39 128 0.63
40 61 0.30
41 12 0.06
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:97872464 original size:39 final size:40
Alignment explanation
Indices: 97872260--97872482 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
97872250 TTGAATGCTG
* * * * * *
97872260 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
97872300 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
97872340 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
97872380 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
97872420 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
97872459 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
97872483 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:97872502 original size:79 final size:80
Alignment explanation
Indices: 97872335--97872517 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
97872325 GTGCGAGATA
* * *
97872335 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
97872400 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
97872415 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
97872479 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
97872494 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
97872518 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:97879035 original size:39 final size:39
Alignment explanation
Indices: 97878992--97879201 Score: 325
Period size: 39 Copynumber: 5.3 Consensus size: 39
97878982 GGACTAAGAT
97878992 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
97879031 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
97879070 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
97879109 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* *
97879149 CCGAAGGCATTTGTGCGA-ATTACTACA-ACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-C
97879189 CCGAAGGCATTTG
1 CCGAAGGCATTTG
97879202 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 113 0.70
40 47 0.29
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:97879220 original size:40 final size:38
Alignment explanation
Indices: 97878941--97879201 Score: 257
Period size: 39 Copynumber: 6.7 Consensus size: 38
97878931 TGAATGATGT
* *
97878941 CCGGGCTAAGTCCTGAAGGC--TTGTGCTAAGTGAC-AATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTAA-A
* *
97878979 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAA-A
*
97879020 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAA-A
*
97879059 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAA-A
97879098 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAA
* *
97879136 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTACAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTA-AA
*
97879177 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
97879202 AACGAGGAGC
Statistics
Matches: 201, Mismatches: 11, Indels: 19
0.87 0.05 0.08
Matches are distributed among these distances:
39 128 0.64
40 60 0.30
41 13 0.06
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (38 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAA
Found at i:97896963 original size:164 final size:165
Alignment explanation
Indices: 97896640--97896971 Score: 612
Period size: 164 Copynumber: 2.0 Consensus size: 165
97896630 TAAAAGTGCT
*
97896640 TTTGGAGTTATAAGCAATGCTAAGCAAACAATTTTTGAAAACAAAAGTGTGTTTGAACCCAAAAG
1 TTTGGAGTTATAAGCAATGCTAAGCAAACAACTTTTGAAAACAAAAGTGTGTTTGAACCCAAAAG
* *
97896705 CAAAAACACTTTTTTTTTAGGTTTCAATTTTGGAAAAATTAGTTTTTGAGCCAAATGATATTTTA
66 CAAAAACACTTTTTTTTTAGGTTTCAATTTTGGAAAAATCAGTTTTTGAGCCAAATGACATTTTA
97896770 ACCATTATTTATCTTCCTATGTATCTTATATAATA
131 ACCATTATTTATCTTCCTATGTATCTTATATAATA
97896805 TTTGGAGTTATAAGCAATGCTAAGCAAACAACTTTTGAAAACAAAAGTGTGTTTGAACCCAAAAG
1 TTTGGAGTTATAAGCAATGCTAAGCAAACAACTTTTGAAAACAAAAGTGTGTTTGAACCCAAAAG
*
97896870 CAAAAACAC-TTTTTTTTAGGTTTCGATTTTGGAAAAATCAGTTTTTGAGCCAAATGACATTTTA
66 CAAAAACACTTTTTTTTTAGGTTTCAATTTTGGAAAAATCAGTTTTTGAGCCAAATGACATTTTA
*
97896934 ACCATTATTTTTCTTCCTATGTATCTTATATAATA
131 ACCATTATTTATCTTCCTATGTATCTTATATAATA
97896969 TTT
1 TTT
97896972 ATATTGAGTA
Statistics
Matches: 162, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
164 89 0.55
165 73 0.45
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.39
Consensus pattern (165 bp):
TTTGGAGTTATAAGCAATGCTAAGCAAACAACTTTTGAAAACAAAAGTGTGTTTGAACCCAAAAG
CAAAAACACTTTTTTTTTAGGTTTCAATTTTGGAAAAATCAGTTTTTGAGCCAAATGACATTTTA
ACCATTATTTATCTTCCTATGTATCTTATATAATA
Found at i:97897737 original size:26 final size:26
Alignment explanation
Indices: 97897700--97897783 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
97897690 TGATACAAAT
* *
97897700 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
97897726 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
97897752 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
97897778 TGATAA
1 TGATAA
97897784 AAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:97902802 original size:21 final size:21
Alignment explanation
Indices: 97902772--97902826 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
97902762 AAAGCATAAA
*
97902772 TTTAAAAATCATATATATGA-
1 TTTATAAATCATATATATGAT
97902792 TTTATTAAATCA-A-ATATGAT
1 TTTA-TAAATCATATATATGAT
97902812 TTTCATAAATCATAT
1 TTT-ATAAATCATAT
97902827 TATAAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
19 6 0.21
20 15 0.52
21 8 0.28
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (21 bp):
TTTATAAATCATATATATGAT
Found at i:97903682 original size:3 final size:3
Alignment explanation
Indices: 97903676--97903701 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
97903666 TTATTATATA
97903676 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
97903702 TGCATATTTC
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:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:97907490 original size:63 final size:63
Alignment explanation
Indices: 97907368--97907505 Score: 163
Period size: 63 Copynumber: 2.2 Consensus size: 63
97907358 GACGTGGGTG
* * **
97907368 TGTGCCCAGGCCGTGTAACTTACTATTTTAGGTATAAAAACCACACGGCCAGGGGCATGGACA
1 TGTGCCCAGGCCATGTAACTTACTATTTTAGCTATAAAAACCACACGGCCAGGAACATGGACA
* * *
97907431 TGTGTCCAGGCCATGTAACTTACTGTTTGTA-CT-TAAAAACCACACGGCCAAGGAACATGGGCA
1 TGTGCCCAGGCCATGTAACTTACTATTT-TAGCTATAAAAACCACACGGCC-AGGAACATGGACA
* *
97907494 CGTGCCTAGGCC
1 TGTGCCCAGGCC
97907506 GTGTGGCAGG
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
62 16 0.25
63 45 0.71
64 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (63 bp):
TGTGCCCAGGCCATGTAACTTACTATTTTAGCTATAAAAACCACACGGCCAGGAACATGGACA
Found at i:97912294 original size:13 final size:13
Alignment explanation
Indices: 97912276--97912300 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97912266 TGTCATGTTC
97912276 TTTAGTTAATTAA
1 TTTAGTTAATTAA
97912289 TTTAGTTAATTA
1 TTTAGTTAATTA
97912301 TAGTTTTAAT
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:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TTTAGTTAATTAA
Found at i:97916623 original size:12 final size:11
Alignment explanation
Indices: 97916606--97916648 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
97916596 AAAAAAATTG
97916606 AAATAAATCATA
1 AAATAAAT-ATA
97916618 AAATAAATA-A
1 AAATAAATATA
*
97916628 AAATAAAAATAA
1 AAATAAATAT-A
97916640 AAATAAATA
1 AAATAAATA
97916649 ATTCATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.33
11 1 0.04
12 17 0.63
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (11 bp):
AAATAAATATA
Found at i:97916636 original size:16 final size:16
Alignment explanation
Indices: 97916606--97916649 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 16
97916596 AAAAAAATTG
97916606 AAATAAATCATAAAATAA
1 AAATAAAT-A-AAAATAA
97916624 ATAA-AAATAAAAATAA
1 A-AATAAATAAAAATAA
97916640 AAATAAATAA
1 AAATAAATAA
97916650 TTCATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.08
16 14 0.58
17 1 0.04
18 5 0.21
19 2 0.08
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (16 bp):
AAATAAATAAAAATAA
Found at i:97916658 original size:22 final size:20
Alignment explanation
Indices: 97916606--97916660 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 20
97916596 AAAAAAATTG
97916606 AAATAAATCATAAAAT-AAAT
1 AAAT-AATCATAAAATAAAAT
97916626 AAA-AAT-A-AAAATAAAAAT
1 AAATAATCATAAAAT-AAAAT
97916644 AAATAATTCATAAAATA
1 AAATAA-TCATAAAATA
97916661 TAAAGTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
16 5 0.17
17 1 0.03
18 10 0.34
19 2 0.07
20 4 0.14
21 2 0.07
22 5 0.17
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATAATCATAAAATAAAAT
Found at i:97916664 original size:7 final size:6
Alignment explanation
Indices: 97916622--97916646 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
97916612 ATCATAAAAT
97916622 AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA A
97916647 TAATTCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:97916930 original size:20 final size:20
Alignment explanation
Indices: 97916893--97916930 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
97916883 ATACAAAAGA
*
97916893 ATATATATGAATTACAATCT
1 ATATATATGAAATACAATCT
97916913 ATATAATATGAAAT-CAAT
1 ATAT-ATATGAAATACAAT
97916931 AATCATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (20 bp):
ATATATATGAAATACAATCT
Found at i:97917211 original size:16 final size:14
Alignment explanation
Indices: 97917176--97917213 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
97917166 CATAATATAT
*
97917176 ACAATATAATTCAA
1 ACAATATAATTAAA
97917190 ACAATATATATTAAA
1 ACAATATA-ATTAAA
97917205 ACAA-ATAAT
1 ACAATATAAT
97917214 GAATCTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 2 0.09
14 11 0.50
15 9 0.41
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (14 bp):
ACAATATAATTAAA
Done.