Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 285 of 444
Found at i:82435248 original size:13 final size:14
Alignment explanation
Indices: 82435230--82435269 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
82435220 ATGGGGGTAG
82435230 GATTCTGTATATCT
1 GATTCTGTATATCT
*
82435244 G-TTCTGCATATCT
1 GATTCTGTATATCT
82435257 GATTCTGT-TATCT
1 GATTCTGTATATCT
82435270 ATATTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (14 bp):
GATTCTGTATATCT
Found at i:82437398 original size:71 final size:71
Alignment explanation
Indices: 82437310--82437473 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
82437300 GAGATGTATC
82437310 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
82437375 AGGACA
66 AGGACA
*
82437381 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
82437446 CGGACA
66 AGGACA
82437452 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
82437474 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:82444644 original size:9 final size:9
Alignment explanation
Indices: 82444630--82444654 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
82444620 GTTTATGAGG
82444630 ATATTATAT
1 ATATTATAT
82444639 ATATTATAT
1 ATATTATAT
82444648 ATATTAT
1 ATATTAT
82444655 TATTAAAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATATTATAT
Found at i:82445412 original size:48 final size:47
Alignment explanation
Indices: 82445334--82445430 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 47
82445324 TTTATGCTAC
* *
82445334 TTTAAGGACTGCTATTTGGTGTATTAATGCAGCTGAAAAATATGTTGT
1 TTTAAGGACTGCTATTTGGTGTACTAATGCAGCAGAAAAAT-TGTTGT
* * *
82445382 TTTAAGGACTGTTGTTTGGTGTACTCATGCAGCAGAAAAATTGTTGT
1 TTTAAGGACTGCTATTTGGTGTACTAATGCAGCAGAAAAATTGTTGT
82445429 TT
1 TT
82445431 AGGCATCAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
47 8 0.18
48 36 0.82
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.40
Consensus pattern (47 bp):
TTTAAGGACTGCTATTTGGTGTACTAATGCAGCAGAAAAATTGTTGT
Found at i:82445631 original size:92 final size:91
Alignment explanation
Indices: 82445374--82445746 Score: 593
Period size: 91 Copynumber: 4.1 Consensus size: 91
82445364 AGCTGAAAAA
* * *
82445374 TATGTTGTTTTAAGGACTGTTGTTTGGTGTACTCATGCAGCAGAAAAATTGTTGTTTAGGCATCA
1 TATGTTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACATCA
82445439 ATTAATGTTGTCTAAGTGACTGTATT
66 ATTAATGTTGTCTAAGTGACTGTATT
* * * *
82445465 TATGTTATTTTAAGGACTGTTGTTTGGTGTATTAATACAGCAAAAAAATTGTTGTTTAGATATCA
1 TATGTTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACATCA
*
82445530 ATTAATGTTGTCTAAGTGACTGCATT
66 ATTAATGTTGTCTAAGTGACTGTATT
* * *
82445556 TATGATGTTTTAAGGACTGTTTGTTTGATGTATTAATGCAGTAGAAAAATTGTTGTTTAGACATC
1 TATGTTGTTTTAAGGACTG-TTGTTTGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACATC
82445621 AATTAATGTTGTCTAAGTGACTGTATT
65 AATTAATGTTGTCTAAGTGACTGTATT
* *
82445648 TATGTTGTTCTAAGGACTGTTGTTTGTTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACATCA
1 TATGTTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACATCA
*
82445713 ATTAATGTTGTCTAAGTGTCTGTAAATT
66 ATTAATGTTGTCTAAGTGACTGT--ATT
82445741 TATGTT
1 TATGTT
82445747 AATAATGGTT
Statistics
Matches: 258, Mismatches: 21, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
91 166 0.64
92 83 0.32
93 9 0.03
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (91 bp):
TATGTTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACATCA
ATTAATGTTGTCTAAGTGACTGTATT
Found at i:82445701 original size:183 final size:182
Alignment explanation
Indices: 82445374--82445730 Score: 597
Period size: 183 Copynumber: 2.0 Consensus size: 182
82445364 AGCTGAAAAA
* * * *
82445374 TATGTTGTTTTAAGGACTGTTGTTTGGTGTACTCATGCAGCAGAAAAATTGTTGTTTAGGCATCA
1 TATGATGTTTTAAGGACTGTTGTTTGATGTACTAATGCAGCAGAAAAATTGTTGTTTAGACATCA
*
82445439 ATTAATGTTGTCTAAGTGACTGTATTTATGTTATTTTAAGGACTGTTGTTTGGTGTATTAATACA
66 ATTAATGTTGTCTAAGTGACTGTATTTATGTTATTCTAAGGACTGTTGTTTGGTGTATTAATACA
*
82445504 GCAAAAAAATTGTTGTTTAGATATCAATTAATGTTGTCTAAGTGACTGCATT
131 GCAAAAAAATTGTTGTTTAGACATCAATTAATGTTGTCTAAGTGACTGCATT
* *
82445556 TATGATGTTTTAAGGACTGTTTGTTTGATGTATTAATGCAGTAGAAAAATTGTTGTTTAGACATC
1 TATGATGTTTTAAGGACTG-TTGTTTGATGTACTAATGCAGCAGAAAAATTGTTGTTTAGACATC
* * *
82445621 AATTAATGTTGTCTAAGTGACTGTATTTATGTTGTTCTAAGGACTGTTGTTTGTTGTATTAATGC
65 AATTAATGTTGTCTAAGTGACTGTATTTATGTTATTCTAAGGACTGTTGTTTGGTGTATTAATAC
*
82445686 AGCAGAAAAATTGTTGTTTAGACATCAATTAATGTTGTCTAAGTG
130 AGCAAAAAAATTGTTGTTTAGACATCAATTAATGTTGTCTAAGTG
82445731 TCTGTAAATT
Statistics
Matches: 162, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
182 18 0.11
183 144 0.89
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (182 bp):
TATGATGTTTTAAGGACTGTTGTTTGATGTACTAATGCAGCAGAAAAATTGTTGTTTAGACATCA
ATTAATGTTGTCTAAGTGACTGTATTTATGTTATTCTAAGGACTGTTGTTTGGTGTATTAATACA
GCAAAAAAATTGTTGTTTAGACATCAATTAATGTTGTCTAAGTGACTGCATT
Found at i:82445814 original size:183 final size:183
Alignment explanation
Indices: 82445408--82445819 Score: 442
Period size: 183 Copynumber: 2.3 Consensus size: 183
82445398 TGGTGTACTC
* * * * * *
82445408 ATGCAGCAGAAAAATTGTTGTTTAGGCATCAATTAATGTTGTCTAAGTGACTGTATTTATGTTAT
1 ATGCAGTAGAAAAATAGCTATTTAGACATCAATGAATGTTGTCTAAGTGACTGTATTTATGTTAT
* *
82445473 TTTAAGGACTGTTGTTTGGTGTATTAATACAGCAAAAAAATTGTTGTTTAGATATCAATTAATGT
66 TCTAAGGACTGTTGTTTGGTGTATTAATACAGCAAAAAAATTGTTGTTTAGACATCAATTAATGT
* ** * * * **
82445538 TGTCTAAGTGACTGCATTTATGATGTTTTAAGGACTGTTTGTTTGATGTATTA
131 TGTCTAAGTGACTGAATTTATGATGTAATAAGGACTGGTTGTTTAATGAACAA
* * * * *
82445591 ATGCAGTAGAAAAATTGTTGTTTAGACATCAATTAATGTTGTCTAAGTGACTGTATTTATGTTGT
1 ATGCAGTAGAAAAATAGCTATTTAGACATCAATGAATGTTGTCTAAGTGACTGTATTTATGTTAT
* * *
82445656 TCTAAGGACTGTTGTTTGTTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACATCAATTAATGT
66 TCTAAGGACTGTTGTTTGGTGTATTAATACAGCAAAAAAATTGTTGTTTAGACATCAATTAATGT
* *
82445721 TGTCTAAGTGTCTGTAAATTTATG-T-TAATAATGG-TTGAAGTTG-TTAATGAACAA
131 TGTCTAAGTGACTG--AATTTATGATGTAATAA-GGACTG--GTTGTTTAATGAACAA
* * **
82445775 ATG-A-TATATAAATGAGCTATTTAGATGTTCAA-GAATGTTGTCTAA
1 ATGCAGTAGAAAAAT-AGCTATTTAGA-CATCAATGAATGTTGTCTAA
82445820 ATGGATGAAG
Statistics
Matches: 196, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
182 7 0.04
183 162 0.83
184 17 0.09
185 10 0.05
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (183 bp):
ATGCAGTAGAAAAATAGCTATTTAGACATCAATGAATGTTGTCTAAGTGACTGTATTTATGTTAT
TCTAAGGACTGTTGTTTGGTGTATTAATACAGCAAAAAAATTGTTGTTTAGACATCAATTAATGT
TGTCTAAGTGACTGAATTTATGATGTAATAAGGACTGGTTGTTTAATGAACAA
Found at i:82446699 original size:33 final size:32
Alignment explanation
Indices: 82446627--82446703 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 32
82446617 AGTGTTTATC
** *
82446627 TGTAAGACCATAGTTGGGCTATGGCATTCTGA
1 TGTAAGACCATAACTGGGCTATGGCATACTGA
*
82446659 TGATAAGACCATAACTGGGTTATGGCACTAC-GAA
1 TG-TAAGACCATAACTGGGCTATGGCA-TACTG-A
82446693 TGTAAGACCAT
1 TGTAAGACCAT
82446704 GGCAGGGCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
32 2 0.05
33 31 0.82
34 5 0.13
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGCTATGGCATACTGA
Found at i:82452160 original size:48 final size:48
Alignment explanation
Indices: 82452108--82452535 Score: 775
Period size: 48 Copynumber: 8.9 Consensus size: 48
82452098 TACAAGATAA
*
82452108 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
82452156 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
82452204 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
* * *
82452252 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATAAGATATGT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
*
82452300 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
82452348 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
*
82452396 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
*
82452444 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
* *
82452492 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
82452536 GTGTGTATAT
Statistics
Matches: 369, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 369 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
Found at i:82456095 original size:11 final size:11
Alignment explanation
Indices: 82456079--82456105 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
82456069 CCAAATTAAA
82456079 TCTTTTTATTT
1 TCTTTTTATTT
82456090 TCTTTTTATTT
1 TCTTTTTATTT
82456101 TCTTT
1 TCTTT
82456106 CCAAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.81
Consensus pattern (11 bp):
TCTTTTTATTT
Found at i:82459651 original size:29 final size:28
Alignment explanation
Indices: 82459616--82459670 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
82459606 CGAGTTATAT
*
82459616 TGATTTGGCTTCGGGCTATGAATATCAGC
1 TGATTTGGCTTCGGGCCATG-ATATCAGC
*
82459645 TGATTTGGTTTCGGGCCATGATATCA
1 TGATTTGGCTTCGGGCCATGATATCA
82459671 CTACTTTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.36
Consensus pattern (28 bp):
TGATTTGGCTTCGGGCCATGATATCAGC
Found at i:82464329 original size:43 final size:44
Alignment explanation
Indices: 82464265--82464398 Score: 175
Period size: 43 Copynumber: 3.1 Consensus size: 44
82464255 TATCGAAATG
* *
82464265 TGATATTCGGGCTTCGGGCTTAGCAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCTTAGCAGGCTATAATGCCGGTGAAA
* *
82464309 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCTTAGCAGGCTATAATGCCGGTGAAA
* *
82464352 T-ATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGT-AAA
1 TGA-TATTCG-GGCTTTGAGCTTAGCAGGCTATAATGCCGGTGAAA
82464396 TGA
1 TGA
82464399 AATGTTATGT
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
42 1 0.01
43 37 0.47
44 12 0.15
45 28 0.36
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCTTAGCAGGCTATAATGCCGGTGAAA
Found at i:82464381 original size:45 final size:43
Alignment explanation
Indices: 82464285--82464398 Score: 151
Period size: 45 Copynumber: 2.6 Consensus size: 43
82464275 GCTTCGGGCT
* *
82464285 TAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTGAGCT
1 TAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGAGCC
* *
82464328 TAGTAGGCTATGATGCCGGTGAAAT-ATTATTCGAGCCTTTGAGCC
1 TAGCAGGCTATAATGCCGGTGAAATGA-TA-TCG-GCCTTTGAGCC
82464373 TAGCAGGCTATAATGCCGGT-AAATGA
1 TAGCAGGCTATAATGCCGGTGAAATGA
82464399 AATGTTATGT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
42 1 0.02
43 25 0.41
44 7 0.11
45 28 0.46
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (43 bp):
TAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGAGCC
Found at i:82464726 original size:38 final size:38
Alignment explanation
Indices: 82464695--82464860 Score: 219
Period size: 38 Copynumber: 4.4 Consensus size: 38
82464685 GCAGGCTATA
* * *
82464695 TGCTGGAATTATATCAGGGTTAAATCTCGCAGGCTTCA
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
*
82464733 TGCTGGTAA-TATATTCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
*
82464771 TGCTGGTAA-TATATCCGGGTTAATTCCCGCAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * *
82464809 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
*
82464847 TGCTGGTATTATAT
1 TGCTGGAATTATAT
82464861 TCGGACCTTT
Statistics
Matches: 116, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
37 1 0.01
38 113 0.97
39 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (38 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:82464922 original size:45 final size:45
Alignment explanation
Indices: 82464858--82464980 Score: 165
Period size: 45 Copynumber: 2.7 Consensus size: 45
82464848 GCTGGTATTA
* * *
82464858 TATTCGGACCTTTGAGCCTAGCAAGTTATTATGACGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAAGCTATAATGACGGTGAGACAC
* * * *
82464903 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAAGCTATAATGACGGTGAGACAC
* *
82464948 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATG
1 TATTCGGGCCTTTGAGCCTAGCAAGCTATAATG
82464981 TCGATAAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAAGCTATAATGACGGTGAGACAC
Found at i:82465000 original size:45 final size:45
Alignment explanation
Indices: 82464901--82465003 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 45
82464891 ACGGTGAGAC
* * * * *
82464901 ACTATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGAT
1 ACTAATCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATAAAAT
* * *
82464946 ACTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGTCGATAAAAT
1 ACTAATCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATAAAAT
82464991 GA-TAATCGGGCCT
1 -ACTAATCGGGCCT
82465004 CAATCCTAGC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 48 0.98
46 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (45 bp):
ACTAATCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATAAAAT
Found at i:82466704 original size:25 final size:25
Alignment explanation
Indices: 82466676--82466732 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
82466666 CATATAGCAA
*
82466676 GAAGCTCATGT-GAGCTAAGTAACGG
1 GAAGCTCAT-TCGAGCTAAGTAACAG
* *
82466701 GAAGCTCATTCGAGCTGAGTATCAG
1 GAAGCTCATTCGAGCTAAGTAACAG
82466726 GAAGCTC
1 GAAGCTC
82466733 TTACGAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (25 bp):
GAAGCTCATTCGAGCTAAGTAACAG
Found at i:82469340 original size:13 final size:13
Alignment explanation
Indices: 82469322--82469372 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
82469312 AAAATATTTT
82469322 TTTAATCAATTAA
1 TTTAATCAATTAA
*
82469335 TTTAATAAATTAA
1 TTTAATCAATTAA
* * *
82469348 ATTAATTAATTAC
1 TTTAATCAATTAA
*
82469361 TTT-CTCAATTAA
1 TTTAATCAATTAA
82469373 ATTATTTTCT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
12 6 0.20
13 24 0.80
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTAATCAATTAA
Found at i:82471776 original size:2 final size:2
Alignment explanation
Indices: 82471769--82471802 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
82471759 ATTTATAGAC
82471769 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
82471803 CAGTTTACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82473984 original size:13 final size:13
Alignment explanation
Indices: 82473966--82473997 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
82473956 ATCTACAAGC
82473966 ATCTATACAATCT
1 ATCTATACAATCT
82473979 ATCTATACAATCT
1 ATCTATACAATCT
82473992 ATCTAT
1 ATCTAT
82473998 CATTTGACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (13 bp):
ATCTATACAATCT
Found at i:82476095 original size:27 final size:27
Alignment explanation
Indices: 82476065--82476208 Score: 200
Period size: 27 Copynumber: 5.3 Consensus size: 27
82476055 TACTGAAATG
* *
82476065 CCCTCGATTTGTAGAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
82476092 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
82476119 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
82476146 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
82476173 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTATAGAATTACCGTTTTA
82476200 CCCTCGATT
1 CCCTCGATT
82476209 GTGAAATTAC
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.01
27 105 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:82476267 original size:27 final size:27
Alignment explanation
Indices: 82476237--82476390 Score: 157
Period size: 27 Copynumber: 5.7 Consensus size: 27
82476227 CCCAATAGGA
82476237 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTAGTTTG
82476264 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTAGTTTG
* * * *
82476291 TAAAATTATCGAAATACCACTGGTTTG
1 TAAAATTACCAAAATACCCCTAGTTTG
* ** * *
82476318 TGAAATTACTGAAATACCACTGGTTTG
1 TAAAATTACCAAAATACCCCTAGTTTG
* * * *
82476345 TGAAATTATCGAAATACCCCT-GATTTA
1 TAAAATTACCAAAATACCCCTAG-TTTG
* *
82476372 CAAAATTACAAAAATACCC
1 TAAAATTACCAAAATACCC
82476391 TTGACTTTCT
Statistics
Matches: 110, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 109 0.99
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTAGTTTG
Found at i:82476295 original size:54 final size:53
Alignment explanation
Indices: 82476237--82476390 Score: 173
Period size: 54 Copynumber: 2.8 Consensus size: 53
82476227 CCCAATAGGA
* * *
82476237 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTATCGAAATACCCCT-GTTTGTAAAATTACAAAAATACCCCTAGTTTG
* * ** * *
82476291 TAAAATTATCGAAATACCACTGGTTTGTGAAATTACTGAAATACCACTGGTTTG
1 TAAAATTATCGAAATACCCCT-GTTTGTAAAATTACAAAAATACCCCTAGTTTG
* **
82476345 TGAAATTATCGAAATACCCCTGATTTACAAAATTACAAAAATACCC
1 TAAAATTATCGAAATACCCCTG-TTTGTAAAATTACAAAAATACCC
82476391 TTGACTTTCT
Statistics
Matches: 82, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
53 1 0.01
54 81 0.99
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (53 bp):
TAAAATTATCGAAATACCCCTGTTTGTAAAATTACAAAAATACCCCTAGTTTG
Found at i:82476387 original size:81 final size:81
Alignment explanation
Indices: 82476239--82476389 Score: 180
Period size: 81 Copynumber: 1.9 Consensus size: 81
82476229 CAATAGGATA
* ** *
82476239 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAA
1 AAATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTATCAAA
82476304 ATACCACTGGTTTGTG
66 ATACCACTGGTTTGTG
** * * * *
82476320 AAATTACTGAAATACCACTGGTTTGTGAAATTATCGAAATACCCCT-GATTTACAAAATTA-CAA
1 AAATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTATC-A
82476383 AAATACC
64 AAATACC
82476390 CTTGACTTTC
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
80 2 0.03
81 56 0.97
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTATCAAA
ATACCACTGGTTTGTG
Found at i:82476442 original size:27 final size:27
Alignment explanation
Indices: 82476238--82476443 Score: 89
Period size: 27 Copynumber: 7.6 Consensus size: 27
82476228 CCAATAGGAT
* * * * **
82476238 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTATCGAAATACCACTGGTTTAC
* * * * **
82476265 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTATCGAAATACCACTGGTTTAC
**
82476292 AAAATTATCGAAATACCACTGGTTTGT
1 AAAATTATCGAAATACCACTGGTTTAC
* **
82476319 GAAATTA-CTGAAATACCACTGGTTTGT
1 AAAATTATC-GAAATACCACTGGTTTAC
* * *
82476346 GAAATTATCGAAATACCCCTGATTTAC
1 AAAATTATCGAAATACCACTGGTTTAC
* *
82476373 AAAATTA-CAAAAATACC-CTTGACTTT-C
1 AAAATTATC-GAAATACCAC-TG-GTTTAC
** *
82476400 TAAAAATTATAAAAATACCATTGGTTTAC
1 --AAAATTATCGAAATACCACTGGTTTAC
82476429 AAAATTA-CTGAAATA
1 AAAATTATC-GAAATA
82476444 ACCTTGGTTT
Statistics
Matches: 151, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
26 3 0.02
27 123 0.81
28 7 0.05
29 18 0.12
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (27 bp):
AAAATTATCGAAATACCACTGGTTTAC
Found at i:82476879 original size:16 final size:16
Alignment explanation
Indices: 82476858--82476891 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
82476848 GATGGAACGG
82476858 GTAAGAACTCAATTTT
1 GTAAGAACTCAATTTT
82476874 GTAAGAACTCAATTTT
1 GTAAGAACTCAATTTT
82476890 GT
1 GT
82476892 GCACGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (16 bp):
GTAAGAACTCAATTTT
Found at i:82477479 original size:24 final size:24
Alignment explanation
Indices: 82477397--82477479 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
82477387 AGGAAGTGCT
* *
82477397 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
82477421 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
* *
82477446 AGAAAGGGCTTTGCCCTAG-TTATT
1 A-AAAGGGCTTTGCCCCAGTTTATC
82477470 AAAAGAGGCT
1 AAAAG-GGCT
82477480 AGGCCTCCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:82477673 original size:42 final size:42
Alignment explanation
Indices: 82477614--82477701 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
82477604 TAGTCTCCCC
* * *
82477614 AAATGAGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGAGCTTACATACATCCATTGACATTACATGTGATATTA
*
82477656 AAATGGGCTTACATACATCCATTGACATTACATGTGATATTA
1 AAATGAGCTTACATACATCCATTGACATTACATGTGATATTA
82477698 AAAT
1 AAAT
82477702 CAGCCTAGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (42 bp):
AAATGAGCTTACATACATCCATTGACATTACATGTGATATTA
Found at i:82480038 original size:27 final size:27
Alignment explanation
Indices: 82480020--82480150 Score: 201
Period size: 27 Copynumber: 4.9 Consensus size: 27
82480010 CTCAATTTGT
*
82480020 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
82480047 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
82480074 AGAATTACCGTTTTACCCTTGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
82480101 AAAATTACCATTTTACCCTC-ATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
82480127 AAAATTACCGTTTTACCCTCGATT
1 AGAATTACCATTTTACCCTCGATT
82480151 GTGAAATTAC
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
26 25 0.26
27 71 0.74
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:82480212 original size:27 final size:27
Alignment explanation
Indices: 82480182--82480305 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
82480172 TGTAGGATAG
82480182 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
82480209 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * *
82480236 AATTATCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
82480263 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
82480290 AATTACCAAAATACCC
1 AATTACCAAAATACCC
82480306 GATTTACAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.04
27 79 0.94
28 2 0.02
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:82480221 original size:54 final size:54
Alignment explanation
Indices: 82480149--82480304 Score: 163
Period size: 54 Copynumber: 2.9 Consensus size: 54
82480139 TTACCCTCGA
* * *
82480149 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* * ** * * *
82480203 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAATACCACTGGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* **
82480257 TTGTGAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCGAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
82480305 CGATTTACAA
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 4 0.05
54 78 0.92
55 3 0.04
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (54 bp):
TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:82480250 original size:81 final size:79
Alignment explanation
Indices: 82480149--82480330 Score: 192
Period size: 81 Copynumber: 2.3 Consensus size: 79
82480139 TTACCCTCGA
* *
82480149 TTGTGAAATTA-CTGAAATACCCCT-GTAGGAT-AGAATTACCAAAATACCC-CTAGTTTGTAAA
1 TTGTAAAATTATC-GAAATACCCCTGGTAGG-TGA-AATTACCAAAATACCCTC-AATTTGTAAA
*
82480210 ATTACCAAAATACCCCTAGT
62 ATTACCAAAATA-CCCGA-T
* ** *
82480230 TTGTAAAATTATCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTA
1 TTGTAAAATTATCGAAATACCCCTGGTAGGTGAAATTACCAAAATACCCTCAATTTGTAAAATTA
82480295 CCAAAATACCCGAT
66 CCAAAATACCCGAT
** *
82480309 TTACAAAATTATAGAAATACCC
1 TTGTAAAATTATCGAAATACCC
82480331 TTGACTTTCT
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
79 19 0.22
80 4 0.05
81 57 0.66
82 6 0.07
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (79 bp):
TTGTAAAATTATCGAAATACCCCTGGTAGGTGAAATTACCAAAATACCCTCAATTTGTAAAATTA
CCAAAATACCCGAT
Found at i:82480347 original size:81 final size:81
Alignment explanation
Indices: 82480182--82480358 Score: 191
Period size: 81 Copynumber: 2.2 Consensus size: 81
82480172 TGTAGGATAG
* * ** *
82480182 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCGAGTTTACAAAATTATAGAAA
* * *
82480247 TACCACTGGTTTGTGA
66 TACCACTGCTTTCTAA
*
82480263 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATA-CCCGA-TTTACAAAATTATAGAA
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCGAGTTTACAAAATTATAGAA
82480325 ATACC-CTTGACTTTCTAAA
65 ATACCAC-TG-CTTTCT-AA
**
82480344 AATTATAAAAATACC
1 AATTACCAAAATACC
82480359 ATTGGTTTAC
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
78 1 0.01
79 21 0.27
80 12 0.15
81 44 0.56
82 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCGAGTTTACAAAATTATAGAAA
TACCACTGCTTTCTAA
Found at i:82480477 original size:27 final size:27
Alignment explanation
Indices: 82480434--82480507 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
82480424 AAATGACTAA
*
82480434 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
82480461 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
82480488 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
82480508 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:82480511 original size:27 final size:27
Alignment explanation
Indices: 82480447--82480511 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
82480437 ACCCCTAATA
*
82480447 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
82480474 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
82480501 GGTAAAATGAC
1 GGTAAAATGAC
82480512 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:82481354 original size:25 final size:24
Alignment explanation
Indices: 82481316--82481385 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
82481306 AGGAAGTGCT
*
82481316 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
82481340 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
82481365 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
82481386 ATTAAAAGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:82481640 original size:31 final size:31
Alignment explanation
Indices: 82481605--82481719 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
82481595 CGTTTACAGT
82481605 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
82481636 AAAGGCTTCGGCCCAATGATATGATTTATAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
82481667 AAAGGCTTCAGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
82481698 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
82481720 TCAAGACTAA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 5 0.06
31 72 0.94
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:82490931 original size:40 final size:40
Alignment explanation
Indices: 82490886--82491015 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
82490876 CGGAATACAA
82490886 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
82490926 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
82490966 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
82491006 CCGGATATAA
1 CCGGATATAA
82491016 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:82498872 original size:40 final size:40
Alignment explanation
Indices: 82498827--82498994 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
82498817 CGGAATACAA
82498827 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
82498867 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
82498907 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
82498947 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
82498987 CCGGATAT
1 CCGGATAT
82498995 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:82501771 original size:11 final size:11
Alignment explanation
Indices: 82501757--82501793 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
82501747 AAATACAAAG
82501757 AAAAGAAAGGA
1 AAAAGAAAGGA
*
82501768 AAAATAAA-G-
1 AAAAGAAAGGA
82501777 AAAAGAAAGGA
1 AAAAGAAAGGA
82501788 AAAAGA
1 AAAAGA
82501794 TTCATATAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.32
10 2 0.09
11 13 0.59
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.03
Consensus pattern (11 bp):
AAAAGAAAGGA
Found at i:82501778 original size:20 final size:20
Alignment explanation
Indices: 82501753--82501791 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
82501743 CCAAAAATAC
82501753 AAAGAAAAGAAAGGAAAAAT
1 AAAGAAAAGAAAGGAAAAAT
82501773 AAAGAAAAGAAAGGAAAAA
1 AAAGAAAAGAAAGGAAAAA
82501792 GATTCATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (20 bp):
AAAGAAAAGAAAGGAAAAAT
Found at i:82501876 original size:35 final size:35
Alignment explanation
Indices: 82501830--82501898 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
82501820 CTTTGATTAA
* *
82501830 GGTATGTGTTTTGTTCTGTTTTTTATAATTTCTAG
1 GGTATGTGTTTTGTTCCGTTTTTGATAATTTCTAG
82501865 GGTATGTGTTTTGTTCCGTTTTTGATAATTTCTA
1 GGTATGTGTTTTGTTCCGTTTTTGATAATTTCTA
82501899 TGTTTTTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.14, C:0.07, G:0.20, T:0.58
Consensus pattern (35 bp):
GGTATGTGTTTTGTTCCGTTTTTGATAATTTCTAG
Found at i:82502773 original size:43 final size:42
Alignment explanation
Indices: 82502675--82502776 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 42
82502665 GATTTATGTG
* * * * * * *
82502675 TAAGACCATGTCTGGGACATTGGCATTATATTTGATTTCATG
1 TAAGAACACGTCTGGGACAGTGGCATTATATTCGACTACATA
*
82502717 TAAG-ACCCTGTCTGGGACAGTGGCATTGATATTCGACTACATA
1 TAAGAACAC-GTCTGGGACAGTGGCATT-ATATTCGACTACATA
82502760 TAAGAACACGTCTGGGA
1 TAAGAACACGTCTGGGA
82502777 TGTTGGCATT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.02
42 21 0.44
43 23 0.48
44 3 0.06
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (42 bp):
TAAGAACACGTCTGGGACAGTGGCATTATATTCGACTACATA
Found at i:82510716 original size:30 final size:30
Alignment explanation
Indices: 82510681--82510741 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
82510671 AAAATACAAG
82510681 AAAATCTCACCCAACCATCCAATCACACTA
1 AAAATCTCACCCAACCATCCAATCACACTA
82510711 AAAATCTCACCCAACCATCCAATCACACTA
1 AAAATCTCACCCAACCATCCAATCACACTA
82510741 A
1 A
82510742 CTCTATCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.16
Consensus pattern (30 bp):
AAAATCTCACCCAACCATCCAATCACACTA
Found at i:82512511 original size:46 final size:45
Alignment explanation
Indices: 82512459--82512578 Score: 213
Period size: 46 Copynumber: 2.6 Consensus size: 45
82512449 TGTAACCCGC
82512459 CCATAAGTGAACTCAGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTC-GACTCAACTCAACAAGCTCGGGCGTTCGCAT
82512505 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTC-GACTCAACTCAACAAGCTCGGGCGTTCGCAT
82512551 CCATAAGTGAACTCGAACTCAACTCAAC
1 CCATAAGTGAACTCG-ACTCAACTCAAC
82512579 GAGTTCGGAA
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
45 1 0.01
46 71 0.99
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.19
Consensus pattern (45 bp):
CCATAAGTGAACTCGACTCAACTCAACAAGCTCGGGCGTTCGCAT
Found at i:82527355 original size:16 final size:15
Alignment explanation
Indices: 82527325--82527442 Score: 75
Period size: 15 Copynumber: 7.9 Consensus size: 15
82527315 ACCTTATTTT
*
82527325 TATATTA-TATATTA
1 TATATTATTTTATTA
82527339 TATAATTATTTTATTA
1 TAT-ATTATTTTATTA
* *
82527355 TATACTATTCGTATTA
1 TATATTATT-TTATTA
*
82527371 T-CATTA-TTTATTA
1 TATATTATTTTATTA
82527384 TATATTATTTT-TTCA
1 TATATTATTTTATT-A
* * *
82527399 CAAATTATTATTATTT
1 TATATTATT-TTATTA
* *
82527415 TACATTATTAT-TTA
1 TATATTATTTTATTA
82527429 TATATTATTGTTAT
1 TATATTATT-TTAT
82527443 ATTTTTACTT
Statistics
Matches: 78, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
13 6 0.08
14 20 0.26
15 25 0.32
16 25 0.32
17 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (15 bp):
TATATTATTTTATTA
Found at i:82527423 original size:13 final size:14
Alignment explanation
Indices: 82527405--82527437 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
82527395 TTCACAAATT
82527405 ATTATTATTT-TAC
1 ATTATTATTTATAC
*
82527418 ATTATTATTTATAT
1 ATTATTATTTATAC
82527432 ATTATT
1 ATTATT
82527438 GTTATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTATTATTTATAC
Found at i:82540632 original size:205 final size:206
Alignment explanation
Indices: 82539756--82541271 Score: 2267
Period size: 206 Copynumber: 7.4 Consensus size: 206
82539746 GCAGATCTGG
* *
82539756 CTGAAGCAAGATCCAAGATGGTTTGGAATCCTTGTGCTTATAAGGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
*
82539821 GATTTGGTTTTTGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * *
82539886 AGAACGAATCGAAGTTTGGCGTCTCCATATTCGACAGAGGGCAGACACATAGCGGATCCAATCTT
130 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTT
82539951 CAGATGTTTATA
195 CAGATGTTTATA
* * *
82539963 CTAAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTA
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* *
82540028 ATTTGGTTTTCGTGTGCTTACGCTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
82540093 GAACAAATAGAAGTTCGGCGTCTCCATATTCGACGGAGGGTAGACACATAGCAGATCCAACCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
82540158 AGATGTTTATA
196 AGATGTTTATA
*
82540169 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
82540234 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * *
82540299 GAACAAATCGAAGTTTGGCATCTCCATATTCAACGGAGGGAAGACACATAGCAGATCCAATCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
82540364 AGATGTTTATA
196 AGATGTTTATA
*
82540375 CTGAAGCAGATCCAAGATGGCTTT-GCATCCTTGTGCTTACAAGGAGCAAATCGAAGGCATAGCT
1 CTGAAGCAGATCCAAGATGG-TTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
* * * ** * * * * *
82540439 GATTTGGCTTTCACGTGGTTACATTGAAGAAAATCTAAGATGATTTGGCACCTCTGTGTTTTCAA
65 GATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * *
82540504 AGAACAAATCGAAGTCTGGCATCTCCA-CTTCGACGGAGGGCAGACACATAGCAGATCCAACCTT
130 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTT
*
82540568 CAAATGTTTATA
195 CAGATGTTTATA
* * *
82540580 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGGTTATAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * * * *
82540645 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATATAAGATGATTTGGCATCTCTGTGTTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
82540710 GAACAAATCGAAGTCTGGCATCTCCA-CTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
82540774 AGATGTTTATA
196 AGATGTTTATA
* * *
82540785 CTAAAGCAAATCCAAGATAGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * * *
82540850 ATTTGGCTTTCACGTACTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTC--TATTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * *
82540913 GAACAAATCAAAGTTTGGCGTCCCCATATTCGACTGAGGGCAG---TATAGCAGATCTC-ACATT
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATC-CAACCTT
** *
82540974 CAGATAATTAGA
195 CAGATGTTTATA
* * *
82540986 CTAAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGGCATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * *
82541051 ATTTGGTTTTTGCGTGCTTATGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * *
82541116 GAACAAATCAAAGTTTGGCGTCTCCATATTTGACGGAGGGTAGACACATAGCAGATCTAACCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
* *
82541181 AGATGATTAGA
196 AGATGTTTATA
* *
82541192 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAATGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
82541257 ATTTGGTTTTCGCGT
66 ATTTGGTTTTCGCGT
82541272 ACATAGCTGA
Statistics
Matches: 1199, Mismatches: 100, Indels: 21
0.91 0.08 0.02
Matches are distributed among these distances:
201 130 0.11
202 1 0.00
203 80 0.07
204 17 0.01
205 343 0.29
206 619 0.52
207 9 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
AGATGTTTATA
Found at i:82541280 original size:24 final size:24
Alignment explanation
Indices: 82541248--82541295 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
82541238 CAAATCGAAG
82541248 ACATAGCTGATTTGGTTTTCGCGT
1 ACATAGCTGATTTGGTTTTCGCGT
82541272 ACATAGCTGATTTGGTTTTCGCGT
1 ACATAGCTGATTTGGTTTTCGCGT
82541296 GCTTACGCTG
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:0.17, C:0.17, G:0.25, T:0.42
Consensus pattern (24 bp):
ACATAGCTGATTTGGTTTTCGCGT
Found at i:82543059 original size:19 final size:19
Alignment explanation
Indices: 82543013--82543063 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
82543003 TTATCATTAT
*
82543013 TTATTATATATTATTTTTCA
1 TTATTAT-TATTATTTTACA
**
82543033 CAAGTTATTATTATTTTACA
1 TTA-TTATTATTATTTTACA
82543053 TTATTATTATT
1 TTATTATTATT
82543064 TATATATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 8 0.32
20 13 0.52
21 4 0.16
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (19 bp):
TTATTATTATTATTTTACA
Found at i:82543156 original size:23 final size:23
Alignment explanation
Indices: 82543038--82543159 Score: 67
Period size: 23 Copynumber: 5.3 Consensus size: 23
82543028 TTTCACAAGT
*
82543038 TATTAT-TATTTTACATTATTATTA
1 TATTATATATTATA-ATTATT-TTA
** *
82543062 T-TTATATATTATTGTTATATTTT
1 TATTATATATTATAATTAT-TTTA
* * *
82543085 TACT-TGTATTATATTTATTGATTA
1 TATTATATATTATAATTATT--TTA
*
82543109 T-TTATATA-CAT-ATATATTTTCA
1 TATTATATATTATAAT-TATTTT-A
82543131 TATTATATATTATAATTATTTTA
1 TATTATATATTATAATTATTTTA
82543154 TATTAT
1 TATTAT
82543160 TATGACATTT
Statistics
Matches: 73, Mismatches: 14, Indels: 23
0.66 0.13 0.21
Matches are distributed among these distances:
21 2 0.03
22 4 0.05
23 43 0.59
24 22 0.30
25 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTATATATTATAATTATTTTA
Found at i:82545030 original size:27 final size:27
Alignment explanation
Indices: 82544977--82545027 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
82544967 TTTTAATGTA
* * *
82544977 TTAAATTTATTGATTGAACTATTAATT
1 TTAAATTTAATGATTAAAATATTAATT
82545004 TTAAATTTAATG-TTAAAATATTAA
1 TTAAATTTAATGATTAAAATATTAA
82545028 ATTCATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (27 bp):
TTAAATTTAATGATTAAAATATTAATT
Found at i:82546592 original size:36 final size:36
Alignment explanation
Indices: 82546545--82546613 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
82546535 GTTCTCGTGT
82546545 ATTTATCATTTCTAGCTCAAACATTAGAGAGAGTGC
1 ATTTATCATTTCTAGCTCAAACATTAGAGAGAGTGC
82546581 ATTTATCATTTCTAGCTCAAACATTAGAGAGAG
1 ATTTATCATTTCTAGCTCAAACATTAGAGAGAG
82546614 GTTGCAGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (36 bp):
ATTTATCATTTCTAGCTCAAACATTAGAGAGAGTGC
Found at i:82546792 original size:29 final size:29
Alignment explanation
Indices: 82546730--82546792 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
82546720 TTTAAAATAT
*
82546730 TTTTATATTTACTTTTTTAAATTTTAAAA
1 TTTTATATTTACTATTTTAAATTTTAAAA
* *
82546759 ATTTATATTTA-TATTTTAAATTTTTAAGA
1 TTTTATATTTACTATTTTAAA-TTTTAAAA
82546788 TTTTA
1 TTTTA
82546793 AAAACTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTTATATTTACTATTTTAAATTTTAAAA
Found at i:82546806 original size:36 final size:33
Alignment explanation
Indices: 82546715--82546812 Score: 99
Period size: 36 Copynumber: 2.8 Consensus size: 33
82546705 TTGAGTACAA
**
82546715 AAATCTTT-AAAATATTTTTATATTTACTTTTTT
1 AAAT-TTTAAAAATATTTTTATATTTAAATTTTT
*
82546748 AAATTTTAAAAATTTATATTTATATTTTAAATTTTT
1 AAATTTTAAAAA--TATTTTTATA-TTTAAATTTTT
82546784 AAGATTTTAAAAACTATTTTTATAATTTA
1 AA-ATTTTAAAAA-TATTTTTAT-ATTTA
82546813 TATAATTATG
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
32 3 0.06
33 8 0.15
35 9 0.17
36 23 0.43
37 11 0.20
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (33 bp):
AAATTTTAAAAATATTTTTATATTTAAATTTTT
Found at i:82556323 original size:6 final size:6
Alignment explanation
Indices: 82556312--82556346 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
82556302 AGGTTTCCAT
* *
82556312 AAATGG AAATGG AAATGA AAATAG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
82556347 ATCCATTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:82556338 original size:18 final size:18
Alignment explanation
Indices: 82556312--82556347 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
82556302 AGGTTTCCAT
*
82556312 AAATGGAAATGGAAATGA
1 AAATAGAAATGGAAATGA
82556330 AAATAGAAATGGAAATGA
1 AAATAGAAATGGAAATGA
82556348 TCCATTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.25, T:0.17
Consensus pattern (18 bp):
AAATAGAAATGGAAATGA
Found at i:82561778 original size:21 final size:21
Alignment explanation
Indices: 82561752--82561792 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
82561742 GACAATAACA
* * *
82561752 TATCATTCTTATACCATCATT
1 TATCATGCTTAGAACATCATT
82561773 TATCATGCTTAGAACATCAT
1 TATCATGCTTAGAACATCAT
82561793 ACTAATTTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (21 bp):
TATCATGCTTAGAACATCATT
Found at i:82565682 original size:100 final size:101
Alignment explanation
Indices: 82565495--82565709 Score: 251
Period size: 100 Copynumber: 2.1 Consensus size: 101
82565485 CTAAATGACC
* * * * * **
82565495 TTGTATATTCGGCTACATAGGTATGTACATATGTGATGTTATTTTGGATCTTGAATATTCGGTCA
1 TTGTATATTCGGCCACATAAGTAAGTACACATGTGATGTTAATTTGGATCTTGAATATTCGACCA
** *
82565560 TGAAGGTATGCACAAATGTGATATTATATTTGA-AT
66 TGAAGGTAAACACAAATATGATATTATATTTGATAT
* *
82565595 TTGTATATTCGGCCATATAAGTAAGTACACATGTGATGTTAAATTT-GATCTTGCATATTCGACC
1 TTGTATATTCGGCCACATAAGTAAGTACACATGTGATGTT-AATTTGGATCTTGAATATTCGACC
*
82565659 AT-ATAGGTAAACACATATATGATATTATATTTGATAT
65 ATGA-AGGTAAACACAAATATGATATTATATTTGATAT
82565696 TGTGTAT-TT-GGCCA
1 T-TGTATATTCGGCCA
82565710 AATGAGTGAT
Statistics
Matches: 98, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
99 1 0.01
100 83 0.85
101 9 0.09
102 5 0.05
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.40
Consensus pattern (101 bp):
TTGTATATTCGGCCACATAAGTAAGTACACATGTGATGTTAATTTGGATCTTGAATATTCGACCA
TGAAGGTAAACACAAATATGATATTATATTTGATAT
Found at i:82565691 original size:50 final size:50
Alignment explanation
Indices: 82565494--82565693 Score: 181
Period size: 50 Copynumber: 4.0 Consensus size: 50
82565484 GCTAAATGAC
* * * * * *
82565494 CTTGTATATTCGGCTACATAGGTATGTACATATGTGATGTTAT-TTTGGAT
1 CTTGAATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTT-GAT
* * *
82565544 CTTGAATATTCGGTCATGA-AGGTATGCACAAATGTGATATTATATTTGAAT
1 CTTGAATATTCGGCCAT-ATAGGTAAGCACATATGTGATATTATATTTG-AT
* * * * * *
82565595 -TTGTATATTCGGCCATATAAGTAAGTACACATGTGATGTTAAATTTGAT
1 CTTGAATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
* * * *
82565644 CTTGCATATTCGACCATATAGGTAAACACATATATGATATTATATTTGAT
1 CTTGAATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
82565694 ATTGTGTATT
Statistics
Matches: 121, Mismatches: 24, Indels: 10
0.78 0.15 0.06
Matches are distributed among these distances:
49 3 0.02
50 112 0.93
51 6 0.05
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.40
Consensus pattern (50 bp):
CTTGAATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
Found at i:82566538 original size:2 final size:2
Alignment explanation
Indices: 82566531--82566567 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
82566521 CGTGACAATG
82566531 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
82566568 AGTGCATGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:82573866 original size:27 final size:28
Alignment explanation
Indices: 82573836--82573908 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 28
82573826 TCGATTAATA
*
82573836 AAATTATCGAAATACCCCT-AACTTGTG
1 AAATTACCGAAATACCCCTCAACTTGTG
* *
82573863 AAATTACCGAAATA-CCCTCGATTTGTG
1 AAATTACCGAAATACCCCTCAACTTGTG
82573890 AAATTACCGAAATACCCCT
1 AAATTACCGAAATACCCCT
82573909 GTAGGGTAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
26 4 0.10
27 33 0.80
28 4 0.10
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (28 bp):
AAATTACCGAAATACCCCTCAACTTGTG
Found at i:82573922 original size:27 final size:27
Alignment explanation
Indices: 82573892--82574105 Score: 284
Period size: 27 Copynumber: 7.9 Consensus size: 27
82573882 GATTTGTGAA
82573892 ATTACCGAAATACCCCTGTAGGGTAGG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* *
82573919 ATTACTGAAATACCCCTGTAGGGTAAG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* * *
82573946 ATTACCGAAATACCTCTGTAAGGTACG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* * * *
82573973 ATTATCAAAATACCCCTATGGGGTAGG
1 ATTACCGAAATACCCCTGTAGGGTAGG
82574000 ATTACCGAAATACCCCTGTAGGGTAGG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* *
82574027 ATTATCGAAATACCCCTATAGGGTAGG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* *
82574054 ATTACCAAAATACCACTGTAGGGTAGG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* * *
82574081 ATTACCAAAATACCCTTCTAGGGTA
1 ATTACCGAAATACCCCTGTAGGGTA
82574106 AAATGATCGT
Statistics
Matches: 161, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 161 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (27 bp):
ATTACCGAAATACCCCTGTAGGGTAGG
Found at i:82574123 original size:27 final size:27
Alignment explanation
Indices: 82574093--82574159 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 27
82574083 TACCAAAATA
*
82574093 CCCTTCTAGGGTAAAATGATCGTTTTG
1 CCCTTATAGGGTAAAATGATCGTTTTG
* * *
82574120 CCC-TAAAGAGTAAAATGATTGTTTTG
1 CCCTTATAGGGTAAAATGATCGTTTTG
*
82574146 CCCTTGT-GGGTAAA
1 CCCTTATAGGGTAAA
82574160 TGACTGACTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (27 bp):
CCCTTATAGGGTAAAATGATCGTTTTG
Found at i:82574159 original size:26 final size:26
Alignment explanation
Indices: 82574100--82574149 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
82574090 ATACCCTTCT
82574100 AGGGTAAAATGATCGTTTTGCCCTAA
1 AGGGTAAAATGATCGTTTTGCCCTAA
* *
82574126 AGAGTAAAATGATTGTTTTGCCCT
1 AGGGTAAAATGATCGTTTTGCCCT
82574150 TGTGGGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (26 bp):
AGGGTAAAATGATCGTTTTGCCCTAA
Found at i:82576419 original size:31 final size:31
Alignment explanation
Indices: 82576384--82576447 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
82576374 ATGGCCTAAT
82576384 AAATGAATGTTTTTAAACT-AACTCAAAGTAC
1 AAATGAATGTTTTTAAA-TAAACTCAAAGTAC
82576415 AAATGAATGTTTTTAAATAAACTCAAAGTAC
1 AAATGAATGTTTTTAAATAAACTCAAAGTAC
82576446 AA
1 AA
82576448 CTATGGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.31
Consensus pattern (31 bp):
AAATGAATGTTTTTAAATAAACTCAAAGTAC
Found at i:82577649 original size:46 final size:46
Alignment explanation
Indices: 82577584--82577994 Score: 556
Period size: 46 Copynumber: 9.0 Consensus size: 46
82577574 TTATCTTCGA
* * * * * *
82577584 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* *** *
82577630 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** ** ***
82577676 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
** * *
82577721 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
82577767 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
82577813 CATGTTGCCATGGTATCTTTCAACCATGTTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
82577859 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
82577905 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
82577951 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
82577995 TTCAAAAAGC
Statistics
Matches: 332, Mismatches: 31, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
45 43 0.13
46 289 0.87
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:82581906 original size:25 final size:25
Alignment explanation
Indices: 82581878--82581928 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
82581868 ATGAGTATGT
*
82581878 ATACCTAATGCACCACAAGAGTGAA
1 ATACCTAATACACCACAAGAGTGAA
*
82581903 ATACGTAATACACCACAAGAGTGAA
1 ATACCTAATACACCACAAGAGTGAA
82581928 A
1 A
82581929 CCTTTGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.47, C:0.22, G:0.16, T:0.16
Consensus pattern (25 bp):
ATACCTAATACACCACAAGAGTGAA
Found at i:82583975 original size:48 final size:48
Alignment explanation
Indices: 82583910--82584059 Score: 158
Period size: 48 Copynumber: 3.1 Consensus size: 48
82583900 TTGGGCTATC
82583910 GGCATCGATATGA-GATCCCATGTAAGACCATGTCTAGAACATGGCATT
1 GGCATCGATAT-ACGATCCCATGTAAGACCATGTCTAGAACATGGCATT
* * * ** * *
82583958 GGCATTGATCTACGATCCTACATAAGACCATGTCTGGGACATGGCATT
1 GGCATCGATATACGATCCCATGTAAGACCATGTCTAGAACATGGCATT
** * * * * *
82584006 GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGATACGGCATT
1 GGCATCGATATACGATCCCATGTAAGACCATGTCTAGAACATGGCATT
82584054 GGCATC
1 GGCATC
82584060 CTACTATGTT
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
47 1 0.01
48 83 0.99
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
GGCATCGATATACGATCCCATGTAAGACCATGTCTAGAACATGGCATT
Found at i:82587014 original size:41 final size:41
Alignment explanation
Indices: 82586969--82587139 Score: 263
Period size: 41 Copynumber: 4.2 Consensus size: 41
82586959 TATCTAAATC
* * *
82586969 AATGAAAAGGATGAAAAGGATGTTATTCGAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
* *
82587010 AATGAAAAGGTTGAAAAAGAAGTTATCCAAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
82587051 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
* * *
82587092 AATGAAAAGG-TAAAAAGGATGTTATCCAAAAAGTATAACA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
82587132 AATGAAAA
1 AATGAAAA
82587140 TGACATATTT
Statistics
Matches: 120, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
40 35 0.29
41 85 0.71
ACGTcount: A:0.53, C:0.06, G:0.20, T:0.20
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
Found at i:82589023 original size:17 final size:17
Alignment explanation
Indices: 82589003--82589036 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
82588993 TGTTATTAAA
*
82589003 GGTTAAAATGGTAAAAT
1 GGTTAAAATGATAAAAT
82589020 GGTTAAAATGATAAAAT
1 GGTTAAAATGATAAAAT
82589037 AATTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (17 bp):
GGTTAAAATGATAAAAT
Found at i:82589042 original size:17 final size:17
Alignment explanation
Indices: 82589005--82589045 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
82588995 TTATTAAAGG
* **
82589005 TTAAAATGGTAAAATGG
1 TTAAAATGATAAAATAA
82589022 TTAAAATGATAAAATAA
1 TTAAAATGATAAAATAA
82589039 TTAAAAT
1 TTAAAAT
82589046 AAAGCCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (17 bp):
TTAAAATGATAAAATAA
Found at i:82597807 original size:206 final size:205
Alignment explanation
Indices: 82597362--82598270 Score: 1294
Period size: 206 Copynumber: 4.4 Consensus size: 205
82597352 CTTCAATTCA
* * * *
82597362 TTCTCTAACAATACAGAGATGACAAATCATCTTAGACTTGCTTCATCGTAAGCACGTGAAAGCCA
1 TTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
* * * *
82597427 AATCAGCTATGTCTTTGATTTGTTCATTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCTT
66 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGTACAAGGATGCCAAATCATCTTGGATCTGCTT
* * *
82597492 CAGCATAATCATCTGAAAGTGAGATCTGCTGTGTATCTGCTCTCCATTAAAGTGGAGATGCCGGA
131 CAGCATAATCATCTGAAGGTGAGACCTGCTGTGTATCTGCTCTCCATTAAAGTGGAGATGCCAGA
82597557 CTTCGATTTG
196 CTTCGATTTG
*
82597567 TTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
1 TTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
*
82597632 AATCAACTATGTCTTCGATTTGTTCCTTGTAAGTACAAGGATGCCAAATCATCTTGGATCTTGCT
66 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGTACAAGGATGCCAAATCATCTTGGATC-TGCT
* * * *
82597697 TCAGTC-TAGTCGTCTGAAGGTTAGACCTGCTGTGTATCTGCTCTCCATTGAAGTGGAGATGCCA
130 TCAG-CATAATCATCTGAAGGTGAGACCTGCTGTGTATCTGCTCTCCATTAAAGTGGAGATGCCA
82597761 GACTTCGATTTG
194 GACTTCGATTTG
82597773 TTCTCTGACAATACAGAGACGACAAATCATCTTAGAATTT-CTTCATCGTAAACACGTGAAAGCC
1 TTCTCTGACAATACAGAGACGACAAATCATCTTAG-ATTTGCTTCATCGTAAACACGTGAAAGCC
* * * ** * * **
82597837 AAATCAGCTATATCTTCGATCTGCTCCCCGCCGAA-TACAGAGAGATAAGATC-TGTCATCTTGG
65 AAATCAGCTATGTCTTCGATTTGTTCCTTG--TAAGTACA-AG-GAT--G-CCAAATCATCTTGG
* * * *
82597900 ATCTGCTTCAGCGTACA-CAT-TAGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATTAAAGTGG
123 ATCTGCTTCAGCATA-ATCATCT-GAAGGTGAGACCTGCTGTGTATCTGCTCTCCATTAAAGTGG
82597963 AGATGCCAGACTTCGATTTG
186 AGATGCCAGACTTCGATTTG
*
82597983 TTCTCTGACAATACAGAGACGAAAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
1 TTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
*
82598048 AATCAGCTATGTCTTCGATTTGTTCCTTATAAGTACAAGGATGCCAAATCATCTTGGATCTTGCT
66 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGTACAAGGATGCCAAATCATCTTGGATC-TGCT
* *
82598113 TCAGTC-TAATCTTCTGAAGGTCG-GACCTGCTGTGTATCTGCTCTCCATTGAAGTGGAGATGCC
130 TCAG-CATAATCATCTGAAGGT-GAGACCTGCTGTGTATCTGCTCTCCATTAAAGTGGAGATGCC
*
82598176 AGACTTTGATTTG
193 AGACTTCGATTTG
*
82598189 TTCTCTGACAATACAGAGACGAAAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
1 TTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
*
82598254 AATCAGCTATATCTTCG
66 AATCAGCTATGTCTTCG
82598271 TTCTGCTCCC
Statistics
Matches: 632, Mismatches: 51, Indels: 41
0.87 0.07 0.06
Matches are distributed among these distances:
204 1 0.00
205 131 0.21
206 300 0.47
207 15 0.02
208 8 0.01
209 13 0.02
210 150 0.24
211 13 0.02
212 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (205 bp):
TTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGTACAAGGATGCCAAATCATCTTGGATCTGCTT
CAGCATAATCATCTGAAGGTGAGACCTGCTGTGTATCTGCTCTCCATTAAAGTGGAGATGCCAGA
CTTCGATTTG
Found at i:82598142 original size:416 final size:415
Alignment explanation
Indices: 82597362--82598369 Score: 1566
Period size: 416 Copynumber: 2.4 Consensus size: 415
82597352 CTTCAATTCA
* * * * *
82597362 TTCTCTAACAATACAGAGATGACAAATCATCTTAGACTTGCTTCATCGTAAGCACGTGAAAGCCA
1 TTCTCTGACAATACAGAGACGACAAATCATCTTAGAATTTCTTCATCGTAAACACGTGAAAGCCA
* * * * *** * * * **
82597427 AATCAGCTATGTCTTTGATTTGTTCATTG--TAAGCACAAGA-AT--G-CCAAATCATCTTGGAT
66 AATCAGCTATATCTTCGATCTGCTCCCCGCCGAA-AACAAGAGATAAGATC-TGTCATCTTGGAT
* * *
82597486 CTGCTTCAGCATA-ATCATCTGAAAGTGAGATCTGCTGTGTATCTGCTCTCCATTAAAGTGGAGA
129 CTGCTTCAGCATACA-CATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATTAAAGTGGAGA
* * *
82597550 TGCCGGACTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCG
193 TGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGAAAAATCATCTTAGATTTGCTTCATCG
*
82597615 TAAACACGTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGTACAAGGATGCCAAA
258 TAAACACGTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTATAAGTACAAGGATGCCAAA
* *
82597680 TCATCTTGGATCTTGCTTCAGTCTAGTCGTCTGAAGGTTAGACCTGCTGTGTATCTGCTCTCCAT
323 TCATCTTGGATCTTGCTTCAGTCTAATCGTCTGAAGGTCAGACCTGCTGTGTATCTGCTCTCCAT
82597745 TGAAGTGGAGATGCCAGACTTCGATTTG
388 TGAAGTGGAGATGCCAGACTTCGATTTG
82597773 TTCTCTGACAATACAGAGACGACAAATCATCTTAGAATTTCTTCATCGTAAACACGTGAAAGCCA
1 TTCTCTGACAATACAGAGACGACAAATCATCTTAGAATTTCTTCATCGTAAACACGTGAAAGCCA
*
82597838 AATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATC
66 AATCAGCTATATCTTCGATCTGCTCCCCGCCGAAAACA-AGAGATAAGATCTGTCATCTTGGATC
*
82597903 TGCTTCAGCGTACACAT-TAGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATTAAAGTGGAGAT
130 TGCTTCAGCATACACATCT-GAAGGTGAGATCTGCTATGTGTCTGCTCTCCATTAAAGTGGAGAT
82597967 GCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGAAAAATCATCTTAGATTTGCTTCATCGT
194 GCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGAAAAATCATCTTAGATTTGCTTCATCGT
*
82598032 AAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGTACAAGGATGCCAAAT
259 AAACACGTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTATAAGTACAAGGATGCCAAAT
* *
82598097 CATCTTGGATCTTGCTTCAGTCTAATCTTCTGAAGGTCGGACCTGCTGTGTATCTGCTCTCCATT
324 CATCTTGGATCTTGCTTCAGTCTAATCGTCTGAAGGTCAGACCTGCTGTGTATCTGCTCTCCATT
*
82598162 GAAGTGGAGATGCCAGACTTTGATTTG
389 GAAGTGGAGATGCCAGACTTCGATTTG
*
82598189 TTCTCTGACAATACAGAGACGAAAAATCATCTTAG-ATTTGCTTCATCGTAAACACGTGAAAGCC
1 TTCTCTGACAATACAGAGACGACAAATCATCTTAGAATTT-CTTCATCGTAAACACGTGAAAGCC
*
82598253 AAATCAGCTATATCTTCGTTCTGCTCCCCGCCGAAAACAAAGAGATAAGATCTGTCATCTTGGAT
65 AAATCAGCTATATCTTCGATCTGCTCCCCGCCGAAAAC-AAGAGATAAGATCTGTCATCTTGGAT
* *
82598318 CTGCTTCAGCATACACCTCTGAAGGTGAGATCTGGTATGTGTCTGCTCTCCA
129 CTGCTTCAGCATACACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCA
82598370 ATAACCTGTA
Statistics
Matches: 548, Mismatches: 37, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
411 82 0.15
412 3 0.01
413 5 0.01
414 2 0.00
415 5 0.01
416 447 0.82
417 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (415 bp):
TTCTCTGACAATACAGAGACGACAAATCATCTTAGAATTTCTTCATCGTAAACACGTGAAAGCCA
AATCAGCTATATCTTCGATCTGCTCCCCGCCGAAAACAAGAGATAAGATCTGTCATCTTGGATCT
GCTTCAGCATACACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATTAAAGTGGAGATGC
CAGACTTCGATTTGTTCTCTGACAATACAGAGACGAAAAATCATCTTAGATTTGCTTCATCGTAA
ACACGTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTATAAGTACAAGGATGCCAAATCA
TCTTGGATCTTGCTTCAGTCTAATCGTCTGAAGGTCAGACCTGCTGTGTATCTGCTCTCCATTGA
AGTGGAGATGCCAGACTTCGATTTG
Found at i:82600262 original size:40 final size:40
Alignment explanation
Indices: 82600019--82600262 Score: 273
Period size: 40 Copynumber: 6.1 Consensus size: 40
82600009 CGAAATTTAA
** * *
82600019 CCGGATATAGCT-ACTCGTTCAAACGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
82600059 CCGGTTATAGTAACTCGCATAAACGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
82600099 CCGGATTTAGTAACTCGCATAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
82600139 CCGGATTTAGTAACTCGCACAAATGCCTTCGAG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
82600178 CCGGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CC-GGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
82600218 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
82600258 CCGGA
1 CCGGA
82600263 CATCATTCGA
Statistics
Matches: 180, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
38 1 0.01
39 35 0.19
40 133 0.74
41 11 0.06
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:82603030 original size:21 final size:21
Alignment explanation
Indices: 82603006--82603050 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
82602996 TAATACTGCA
*
82603006 TCGGGT-TTAGGGTTATTCGAG
1 TCGGGTATTAGAG-TATTCGAG
*
82603027 TCGGGTATTCGAGTATTCGAG
1 TCGGGTATTAGAGTATTCGAG
82603048 TCG
1 TCG
82603051 ACCCGAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.16, C:0.13, G:0.36, T:0.36
Consensus pattern (21 bp):
TCGGGTATTAGAGTATTCGAG
Found at i:82606993 original size:39 final size:39
Alignment explanation
Indices: 82606950--82607079 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
82606940 GGACTAGGAT
82606950 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTAATAAA-CCGGGCTAAGTC
* * * *
82606989 CCGAAGGCATTTGTGCAAGTTATTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAA-CCGGGCTAAGTC
* * **
82607029 CCGAAGGCATTCGTGCGAGTCACTATAACCGGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTTAATA-AACCGGGCTAAGTC
82607069 CCGAAGGCATT
1 CCGAAGGCATT
82607080 TGAGTGAGTC
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 33 0.43
40 42 0.55
41 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCGGGCTAAGTC
Found at i:82614241 original size:15 final size:14
Alignment explanation
Indices: 82614199--82614248 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
82614189 ATAACTTTGA
*
82614199 ATGCAAATGATGTG
1 ATGCAAATGATGAG
82614213 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
82614228 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
82614242 ATGCAAA
1 ATGCAAA
82614249 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:82624367 original size:24 final size:24
Alignment explanation
Indices: 82624317--82624380 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
82624307 TTTGAATACC
* *
82624317 CACACGGGCTGGGACACGGGTAAA
1 CACACGGGCTGGGACACGAGCAAA
* **
82624341 CACACTGGCTGGGACACGAGCGGA
1 CACACGGGCTGGGACACGAGCAAA
*
82624365 CACACGGGCTGAGACA
1 CACACGGGCTGGGACA
82624381 TAACCGTGTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.28, C:0.28, G:0.36, T:0.08
Consensus pattern (24 bp):
CACACGGGCTGGGACACGAGCAAA
Found at i:82631792 original size:16 final size:17
Alignment explanation
Indices: 82631771--82631822 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
82631761 AAACTAAGTT
82631771 AAATTAAT-TAAATGCA
1 AAATTAATCTAAATGCA
**
82631787 AAATTAATCCCGAATGC-
1 AAATTAAT-CTAAATGCA
82631804 AAATTAATCTAAATGCA
1 AAATTAATCTAAATGCA
82631821 AA
1 AA
82631823 GTATGATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 14 0.48
17 10 0.34
18 5 0.17
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (17 bp):
AAATTAATCTAAATGCA
Found at i:82639903 original size:210 final size:210
Alignment explanation
Indices: 82639630--82640213 Score: 620
Period size: 210 Copynumber: 2.8 Consensus size: 210
82639620 GCAATGGAAA
* * * * *
82639630 GAAGCAACAAGCTTGCTCAATAGAATGATGAATGAAGGAGTCCATCCTGATGTTGTGACTTTCAA
1 GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCCTGATGTAGTAACTTTCAA
* * ** * ** *
82639695 TTCTTTAATCAATGCTTTATGCAAGTAAAAGAGGACTTCAGAAGCCTTTACTGTGTTGGAATTAA
66 TTCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAA
*
82639760 TGA-TACAGAGAAATGTAAAACCTAACGTTGTCACATACAATTGTTTAATATATGAGTTTTGCAG
131 TGAGT-CAGAGAAATGTAAAACCTAACATTGTCACATACAATTGTTTAATATATGAGTTTTGCAG
82639824 TTCGGGCAAATGGACG
195 TTCGGGCAAATGGACG
*
82639840 GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCTTGATGTAGTAACTTTCAA
1 GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCCTGATGTAGTAACTTTCAA
82639905 TTCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAA
66 TTCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAA
** * * * ** * *
82639970 TGAGTCAGAGAGGTGTAAAACCTGACATTGTGACCTACAATTGTTTAATACGTG-GATTGTGCAA
131 TGAGTCAGAGAAATGTAAAACCTAACATTGTCACATACAATTGTTTAATATATGAG-TTTTGCAG
* ** * *
82640034 TTCAGATAAACGTG-CA
195 TTCGGGCAAATG-GACG
* * * * * * * * * * * * * *
82640050 GAAGCCACAAGCTTGTTTAGTAGGATGTTGAATGGAGGAGTCCAGCCTGATATGGAAACTTT-AA
1 GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCCTGATGTAGTAACTTTCAA
* * * * * * *
82640114 GATCTTTAATCAATGCTTTGTACAAGGAAAACAAGTA-TGAAGAAGCCATTAGCATGTTGGAACT
66 -TTCTTTAATCAATGCCTTATGCAAGGAAAA-GAGGACTGAAGAAGCCATTACCATGTTGGAACT
* *
82640178 AATGAGTCAGAGAAATGTAATACCTGACATTGTCAC
129 AATGAGTCAGAGAAATGTAAAACCTAACATTGTCAC
82640214 CTACTGCTTT
Statistics
Matches: 314, Mismatches: 55, Indels: 10
0.83 0.15 0.03
Matches are distributed among these distances:
209 3 0.01
210 306 0.97
211 5 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (210 bp):
GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCCTGATGTAGTAACTTTCAA
TTCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAA
TGAGTCAGAGAAATGTAAAACCTAACATTGTCACATACAATTGTTTAATATATGAGTTTTGCAGT
TCGGGCAAATGGACG
Found at i:82640275 original size:210 final size:206
Alignment explanation
Indices: 82639906--82640481 Score: 636
Period size: 210 Copynumber: 2.8 Consensus size: 206
82639896 AACTTTCAAT
* * *
82639906 TCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAAT
1 TCTTTAATCAATGCTTTGTGCAAGGAAAA-AAGACTGAAGAAGCCATTACCATGTTGGAACTAAT
** *
82639971 GAGTCAGAGAGGTGTAAAACCTGACATTGTGACCTACAATTGTTTAATACGTGGATTGTGCAATT
65 GAGTCAGAGAAATGTAAAACCTGACATTGTCACCTACAATTGTTTAATACGTGGATTGTGCAATT
*
82640036 CAGATAAACGTGCAGAAGCCACAAGCTTGTTTAGTAGGATGTTGAATGGAGGAGTCCAGCCTGAT
130 CAGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAAT---GGAGTCCAGCCTGAT
*
82640101 ATGGAAACTTTAAGA
192 ATGGAAACCTTAAGA
* *
82640116 TCTTTAATCAATGCTTTGTACAAGGAAAACAAGTA-TGAAGAAGCCATTAGCATGTTGGAACTAA
1 TCTTTAATCAATGCTTTGTGCAAGGAAAA-AAG-ACTGAAGAAGCCATTACCATGTTGGAACTAA
* ** * * *
82640180 TGAGTCAGAGAAATGTAATACCTGACATTGTCACCTACTGCTT-TTTAATACTTGGATTGTGGAG
64 TGAGTCAGAGAAATGTAAAACCTGACATTGTCACCTAC-AATTGTTTAATACGTGGATTGTGCAA
* * ** ** * *
82640244 TTTAGGTAATTGTGCAGAAGTGACTAGCTTGTATAGTAGGATGTTGAATGGAGTCCAGCCTGATG
128 TTCAGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAATGGAGTCCAGCCTGATA
*
82640309 TGGAAACCTTAAGC
193 TGGAAACCTTAAGA
* * * *** *
82640323 TCTTTAATCAATGCTTTGTGCAAAGAAAAAAAGATTGAAGAAGCCATTACCTTGTACAAATTAAT
1 TCTTTAATCAATGCTTTGTGC-AAGGAAAAAAGACTGAAGAAGCCATTACCATGTTGGAACTAAT
* * * * * * * * * *
82640388 GATTCAGAGAGATCTGAAACCAGACATCGTCACCTACAGTTGTTTAATACATGGATTATGCAAAT
65 GAGTCAGAGAAATGTAAAACCTGACATTGTCACCTACAATTGTTTAATACGTGGATTGTGCAATT
* * * *
82640453 CAGGA-CAATGTGGAGAAGCAACAAGCTTG
130 CA-GATAAACGTGCAGAAGCCACAAGCTTG
82640482 CTTAGTAAGA
Statistics
Matches: 304, Mismatches: 56, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
206 3 0.01
207 141 0.46
208 8 0.03
210 149 0.49
211 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (206 bp):
TCTTTAATCAATGCTTTGTGCAAGGAAAAAAGACTGAAGAAGCCATTACCATGTTGGAACTAATG
AGTCAGAGAAATGTAAAACCTGACATTGTCACCTACAATTGTTTAATACGTGGATTGTGCAATTC
AGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAATGGAGTCCAGCCTGATATGG
AAACCTTAAGA
Found at i:82640422 original size:207 final size:206
Alignment explanation
Indices: 82639906--82640481 Score: 638
Period size: 207 Copynumber: 2.8 Consensus size: 206
82639896 AACTTTCAAT
* * * * *
82639906 TCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAAT
1 TCTTTAATCAATGCTTTGTGCAAGGAAAAAAAGATTGAAGAAGCCATTACCATGTTGGAACTAAT
* * * *
82639971 GAGTCAGAGAGGTGTAAAACCTGACATTGTGACCTACAATTGTTTAATACGTGGATTGTGCAATT
66 GAGTCAGAGAGATGT-AAACCTGACATTGTCACCTAC-GTTGTTTAATACATGGATTGTGCAATT
*
82640036 CAGATAAACGTGCAGAAGCCACAAGCTTGTTTAGTAGGATGTTGAATGGAGGAGTCCAGCCTGAT
129 CAGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAAT-G-GGAGTCCAGCCTGAT
*
82640101 ATGGAAACTTTAAGA
192 ATGGAAACCTTAAGA
* * *
82640116 TCTTTAATCAATGCTTTGTACAAGGAAAACAAG-TATGAAGAAGCCATTAGCATGTTGGAACTAA
1 TCTTTAATCAATGCTTTGTGCAAGGAAAAAAAGAT-TGAAGAAGCCATTACCATGTTGGAACTAA
* * * *
82640180 TGAGTCAGAGAAATGTAATACCTGACATTGTCACCTACTGCTT-TTTAATACTTGGATTGTGGAG
65 TGAGTCAGAGAGATGTAA-ACCTGACATTGTCACCTAC-G-TTGTTTAATACATGGATTGTGCAA
* * ** ** *
82640244 TTTAGGTAATTGTGCAGAAGTGACTAGCTTGTATAGTAGGATGTTGAAT-GGAGTCCAGCCTGAT
127 TTCAGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAATGGGAGTCCAGCCTGAT
* *
82640308 GTGGAAACCTTAAGC
192 ATGGAAACCTTAAGA
* * *** *
82640323 TCTTTAATCAATGCTTTGTGCAAAGAAAAAAAGATTGAAGAAGCCATTACCTTGTACAAATTAAT
1 TCTTTAATCAATGCTTTGTGCAAGGAAAAAAAGATTGAAGAAGCCATTACCATGTTGGAACTAAT
* * * * * *
82640388 GATTCAGAGAGATCTGAAACCAGACATCGTCACCTACAGTTGTTTAATACATGGATTATGCAAAT
66 GAGTCAGAGAGATGT-AAACCTGACATTGTCACCTAC-GTTGTTTAATACATGGATTGTGCAATT
* * * *
82640453 CAGGA-CAATGTGGAGAAGCAACAAGCTTG
129 CA-GATAAACGTGCAGAAGCCACAAGCTTG
82640482 CTTAGTAAGA
Statistics
Matches: 305, Mismatches: 54, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
206 2 0.01
207 148 0.49
208 4 0.01
209 2 0.01
210 147 0.48
211 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (206 bp):
TCTTTAATCAATGCTTTGTGCAAGGAAAAAAAGATTGAAGAAGCCATTACCATGTTGGAACTAAT
GAGTCAGAGAGATGTAAACCTGACATTGTCACCTACGTTGTTTAATACATGGATTGTGCAATTCA
GATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAATGGGAGTCCAGCCTGATATGG
AAACCTTAAGA
Found at i:82640662 original size:38 final size:38
Alignment explanation
Indices: 82640620--82640697 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
82640610 CGTGAAGCCG
*
82640620 AATGAATTTACTTACAGGATAATGATTGAAGAAGTGTA
1 AATGAATTTACTTACAGGATAATGATCGAAGAAGTGTA
* *
82640658 AATGAATTTACTTACAGGGTAATGATCGAAGAGGTGTA
1 AATGAATTTACTTACAGGATAATGATCGAAGAAGTGTA
82640696 AA
1 AA
82640698 GCCATTACCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.29
Consensus pattern (38 bp):
AATGAATTTACTTACAGGATAATGATCGAAGAAGTGTA
Found at i:82649739 original size:19 final size:19
Alignment explanation
Indices: 82649693--82649740 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
82649683 GTATATATTT
82649693 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
82649711 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
82649730 TAAGTTTTATT
1 TAAATTTTATT
82649741 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:82649816 original size:42 final size:42
Alignment explanation
Indices: 82649757--82649845 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
82649747 CTAGGAATAT
* * * **
82649757 TTTTATTTTATCTTTTAGTAGTTTATTAGGACAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAAAGAACTA
*
82649799 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAAAGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAAAGAACTA
82649841 TTTTC
1 TTTTC
82649846 CCAATTAGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAAAGAACTA
Found at i:82653694 original size:19 final size:18
Alignment explanation
Indices: 82653647--82653686 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
82653637 GTATATATTT
82653647 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAGA
82653665 TAAATCTTATTTAGGTAGA
1 TAAAT-TTATTTAGGTAGA
82653684 TAA
1 TAA
82653687 GCTTTATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (18 bp):
TAAATTTATTTAGGTAGA
Found at i:82653770 original size:42 final size:42
Alignment explanation
Indices: 82653711--82653798 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
82653701 CTAGGAATAT
* *
82653711 TTTTATTTTATCTTTTAGTAGTTTATTAGGACAAGGGAACTA
1 TTTTATTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
* *
82653753 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTATTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
82653795 TTTT
1 TTTT
82653799 TCCAATTAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.51
Consensus pattern (42 bp):
TTTTATTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
Found at i:82655093 original size:19 final size:19
Alignment explanation
Indices: 82655069--82655105 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
82655059 TATTTTAAAG
82655069 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
82655088 TTATTTAGGTAGATAAAT
1 TTATTTAGGTAGATAAAT
82655106 ATTAGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:82655192 original size:41 final size:41
Alignment explanation
Indices: 82655147--82655226 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
82655137 ATATTTTATT
82655147 TTATCTTTTAATAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAATAGTTTATTAGAATAAGGGAATTATTTTCC
*
82655188 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTT
1 TTATCTTTTAATAGTTTATTAGAATAAGGGAATTATTTT
82655227 TCCAATTAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (41 bp):
TTATCTTTTAATAGTTTATTAGAATAAGGGAATTATTTTCC
Found at i:82658929 original size:19 final size:19
Alignment explanation
Indices: 82658905--82658945 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
82658895 TATTTTAAAG
82658905 TTATTTAGGTAAATAAATC
1 TTATTTAGGTAAATAAATC
*
82658924 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAAATAAATC
82658943 TTA
1 TTA
82658946 GAATAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAAATAAATC
Found at i:82659038 original size:40 final size:40
Alignment explanation
Indices: 82658983--82659062 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
82658973 ATATTTTATT
*
82658983 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTGTTTTC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTC
*
82659023 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTC
82659063 CCAATTAGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (40 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTC
Found at i:82684852 original size:152 final size:154
Alignment explanation
Indices: 82684584--82684871 Score: 467
Period size: 152 Copynumber: 1.9 Consensus size: 154
82684574 AAAATTAAAT
* *
82684584 TTTTCTTTAAAAAAATCACTACTTTTCTTAAAAATCAGAACTTTATTTCGAAATAGCTGAAAAAG
1 TTTTCTTTAAAAAAATCACTACTTTTCTTAAAAATCAGAAATTTATTTCAAAATAGCTGAAAAAG
82684649 ATCAAAACTTTGTTTTAAAAATTTTAAAATTTTCCTTTAAAATGACTAAAAAAACATATTTTTAT
66 ATCAAAACTTTGTTTTAAAAATTTTAAAATTTTCCTTTAAAATGACT-AAAAAACATATTTTTAT
82684714 TTT-CAAAATCTAAAATTTCTATTC
130 TTTACAAAATCTAAAATTTCTATTC
* * *
82684738 TTTT-TTTAAAAAAATCACTATTTTTCTTAAAAATCA-AAATTTATTTTAAAATAGTTGAAAAAG
1 TTTTCTTTAAAAAAATCACTACTTTTCTTAAAAATCAGAAATTTATTTCAAAATAGCTGAAAAAG
* * *
82684801 ATCAAAACTTTGTTTTAAGAA-TTTAAACTTTTCCTTTAATATGACTAAAAAACATATTTTTATT
66 ATCAAAACTTTGTTTTAAAAATTTTAAAATTTTCCTTTAAAATGACTAAAAAACATATTTTTATT
82684865 TTACAAA
131 TTACAAA
82684872 TATAAACTTT
Statistics
Matches: 125, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
150 20 0.16
151 27 0.22
152 43 0.34
153 31 0.25
154 4 0.03
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.42
Consensus pattern (154 bp):
TTTTCTTTAAAAAAATCACTACTTTTCTTAAAAATCAGAAATTTATTTCAAAATAGCTGAAAAAG
ATCAAAACTTTGTTTTAAAAATTTTAAAATTTTCCTTTAAAATGACTAAAAAACATATTTTTATT
TTACAAAATCTAAAATTTCTATTC
Found at i:82685768 original size:42 final size:42
Alignment explanation
Indices: 82685712--82686091 Score: 401
Period size: 42 Copynumber: 9.2 Consensus size: 42
82685702 CTTCATATAC
* *
82685712 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * * **
82685754 AATGCAATGGAAAGTAAACGAACCTCTACACCTGGGTTTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
82685796 AATGCAATGAAAAATGAATGAACCTCCACACCTGGGTCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
82685838 ACTGCAATGAAAAGTGAATGAACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
82685880 AATGCAATGAAAAGTAAATAGAACTCCACACTTGAGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
82685922 AATGCAATAAAAAGTAAATGGACCTTCACACCTGGGCCGCT-
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
82685963 -ATGCAATGAAACGTAAATGGACCTCTACACTTGAG---CTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * * * *
82686001 AATGCAATAAAAAATAAATGGACTTCTACGCTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* ** *
82686043 AATGTAATGAAAAGTAAATGGACCTCCACACCAAGACCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
82686085 AATGCAA
1 AATGCAA
82686092 CGAAGGTTTT
Statistics
Matches: 279, Mismatches: 54, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
37 2 0.01
39 29 0.10
40 29 0.10
42 219 0.78
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
Found at i:82686516 original size:19 final size:19
Alignment explanation
Indices: 82686494--82686557 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 19
82686484 TTTTTCTTTC
82686494 TTTTCTTTTGTTTTTGGTT
1 TTTTCTTTTGTTTTTGGTT
*
82686513 TTTT-TCTTTGTTTTATTGTT
1 TTTTCT-TTTGTTTT-TGGTT
*
82686533 TTTTCTTTCTTTTTTTGTGTT
1 TTTTCTTT-TGTTTTTG-GTT
82686554 TTTT
1 TTTT
82686558 TTATTTAGGC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 1 0.03
19 12 0.32
20 11 0.30
21 13 0.35
ACGTcount: A:0.02, C:0.06, G:0.11, T:0.81
Consensus pattern (19 bp):
TTTTCTTTTGTTTTTGGTT
Found at i:82686517 original size:20 final size:20
Alignment explanation
Indices: 82686494--82686558 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 20
82686484 TTTTTCTTTC
82686494 TTTTCTTTTGTTTTTGGTTT
1 TTTTCTTTTGTTTTTGGTTT
*
82686514 TTTTC-TTTGTTTTATTG-TT
1 TTTTCTTTTGTTTT-TGGTTT
*
82686533 TTTTCTTTCTTTTTTTGTGTTT
1 TTTTCTTT-TGTTTTTG-GTTT
82686555 TTTT
1 TTTT
82686559 TATTTAGGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
19 15 0.41
20 10 0.27
21 6 0.16
22 6 0.16
ACGTcount: A:0.02, C:0.06, G:0.11, T:0.82
Consensus pattern (20 bp):
TTTTCTTTTGTTTTTGGTTT
Found at i:82691900 original size:27 final size:26
Alignment explanation
Indices: 82691863--82692004 Score: 158
Period size: 27 Copynumber: 5.3 Consensus size: 26
82691853 AGCATGGATG
** *
82691863 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
82691889 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
82691917 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
82691944 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
82691971 TCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
82691998 CCAGAAC
1 CCAGAAC
82692005 GCTTCCTCCA
Statistics
Matches: 104, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.05
27 83 0.80
28 16 0.15
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:82691927 original size:54 final size:54
Alignment explanation
Indices: 82691863--82692002 Score: 174
Period size: 54 Copynumber: 2.6 Consensus size: 54
82691853 AGCATGGATG
* *
82691863 CCAGAACAGATA-ATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
82691917 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
* * * * *
82691971 TCAGATCAGATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATGTGACAGAGCCACCAGA
82692003 ACGCTTCCTC
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 59 0.78
55 17 0.22
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:82703151 original size:18 final size:18
Alignment explanation
Indices: 82703120--82703160 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
82703110 ATACTTGAGC
* *
82703120 AAATTGGAATTAAAATTT
1 AAATTAGAAATAAAATTT
82703138 AAATTAGAAATAAAATTT
1 AAATTAGAAATAAAATTT
*
82703156 CAATT
1 AAATT
82703161 TTGATAACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (18 bp):
AAATTAGAAATAAAATTT
Found at i:82709182 original size:19 final size:19
Alignment explanation
Indices: 82709158--82709218 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
82709148 AATCTTTAAG
82709158 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
82709177 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
82709196 GATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATAT
82709213 GATATG
1 GATATG
82709219 ATATGATATG
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.41
19 24 0.59
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:82713340 original size:21 final size:21
Alignment explanation
Indices: 82713316--82713380 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
82713306 AAGACTTTGG
82713316 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
82713337 GCTTCAG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
82713355 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
82713376 GCTTC
1 GCTTC
82713381 AGCTAGACTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 8 0.23
21 12 0.34
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:82713342 original size:39 final size:38
Alignment explanation
Indices: 82713298--82713398 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 38
82713288 GCTCTAATGA
*
82713298 GCTTCAGTAAGACTTTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGT-AGACTTCGGGCTTCCGTTTAGCACTTATGT
*
82713337 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAG-TAGACTTCGGGCTTCCGTTTAGCACTTATGT
82713376 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAG-TAGACTTCGGGCTTC
82713399 AGATCACGAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
39 56 0.98
40 1 0.02
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.37
Consensus pattern (38 bp):
GCTTCAGTAGACTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:82721794 original size:60 final size:60
Alignment explanation
Indices: 82721701--82721820 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
82721691 TTTTGACGAG
82721701 GTGTGATCGGGTCACCTTAAATTAATCATTTTAATAAAAGTTAAGATTTACTAAAGCGAT
1 GTGTGATCGGGTCACCTTAAATTAATCATTTTAATAAAAGTTAAGATTTACTAAAGCGAT
82721761 GTGTGATCGGGTCACCTTAAATTAATCATTTTAATAAAAGTTAAGATTTACTAAAGCGAT
1 GTGTGATCGGGTCACCTTAAATTAATCATTTTAATAAAAGTTAAGATTTACTAAAGCGAT
82721821 AATTTTTAGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (60 bp):
GTGTGATCGGGTCACCTTAAATTAATCATTTTAATAAAAGTTAAGATTTACTAAAGCGAT
Found at i:82723183 original size:3 final size:3
Alignment explanation
Indices: 82723175--82723230 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
82723165 ATAAAAATAC
* *
82723175 AAT AAT AAT AAT AAT -AT ATT AAAT AACA AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AA-T AAT AAT AAT AAT AAT AAT
*
82723221 GAT AAT AAT A
1 AAT AAT AAT A
82723231 TAGAAATATG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 2 0.05
3 38 0.86
4 4 0.09
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:82723227 original size:28 final size:28
Alignment explanation
Indices: 82723175--82723228 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
82723165 ATAAAAATAC
*
82723175 AATAATAATAATAATATATTAAATAACA
1 AATAATAATAATAATATATGAAATAACA
82723203 AATAATAATAATAATA-ATGATAATAA
1 AATAATAATAATAATATATGA-AATAA
82723229 TATAGAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (28 bp):
AATAATAATAATAATATATGAAATAACA
Found at i:82723555 original size:12 final size:12
Alignment explanation
Indices: 82723538--82723589 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
82723528 AAGGCTAATA
82723538 AATAATAAGTAT
1 AATAATAAGTAT
82723550 AATAATAA-TAAT
1 AATAATAAGT-AT
*
82723562 AATAATGAAATAT
1 AATAAT-AAGTAT
* *
82723575 AATAGTATGTAT
1 AATAATAAGTAT
82723587 AAT
1 AAT
82723590 GTTAAAATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 1 0.03
12 23 0.68
13 9 0.26
14 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
AATAATAAGTAT
Found at i:82727204 original size:2 final size:2
Alignment explanation
Indices: 82727197--82727231 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
82727187 TTTATTTTCT
82727197 TA TA TA TA 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 TA TA TA TA T
82727232 GTAATTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:82730270 original size:2 final size:2
Alignment explanation
Indices: 82730258--82730290 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
82730248 ACCCCTAATA
82730258 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
82730291 TAATGTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:82730694 original size:2 final size:2
Alignment explanation
Indices: 82730687--82730730 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
82730677 GTATTACCAA
82730687 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
82730729 AT
1 AT
82730731 GAAAGAAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82732418 original size:30 final size:30
Alignment explanation
Indices: 82732384--82732446 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
82732374 ACTTATTTTA
82732384 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
82732414 TTGTTAGTTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
82732444 TTG
1 TTG
82732447 ATTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:82732589 original size:12 final size:12
Alignment explanation
Indices: 82732568--82732601 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
82732558 TATATTTTTT
*
82732568 AAAATTATATAA
1 AAAATAATATAA
82732580 AAAATAATATAA
1 AAAATAATATAA
*
82732592 AAATTAATAT
1 AAAATAATAT
82732602 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:82733324 original size:21 final size:21
Alignment explanation
Indices: 82733289--82733338 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
82733279 AAATTAAATT
*
82733289 TAATATTTTTCATAA-AGATAAA
1 TAATA-TTATCATAAGA-ATAAA
82733311 TAATATTATCATAAGAATAAA
1 TAATATTATCATAAGAATAAA
*
82733332 TATTATT
1 TAATATT
82733339 TAATTTTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (21 bp):
TAATATTATCATAAGAATAAA
Found at i:82733998 original size:30 final size:30
Alignment explanation
Indices: 82733961--82734046 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
82733951 CTAGCCTTTG
*
82733961 CCACCACCAACTCTACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
82733991 TCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
82734021 CCACTACCTACTCCACTAGCCACACT
1 CCACCACCAACTCCACTAGCCACACT
82734047 CCACCACCAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.27, C:0.48, G:0.06, T:0.20
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:82734543 original size:15 final size:16
Alignment explanation
Indices: 82734523--82734574 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 16
82734513 TTTTTGTTAT
*
82734523 TATTATATT-TCTTAA
1 TATTATATTATATTAA
82734538 TATTATATTATATTATA
1 TATTATATTATATTA-A
* *
82734555 TATATATATTCTTTTAA
1 TAT-TATATTATATTAA
82734572 TAT
1 TAT
82734575 ATTAGGTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 9 0.29
16 4 0.13
17 8 0.26
18 10 0.32
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTATATTATATTAA
Found at i:82734611 original size:2 final size:2
Alignment explanation
Indices: 82734604--82734680 Score: 63
Period size: 2 Copynumber: 39.5 Consensus size: 2
82734594 CTATATTACG
* * * *
82734604 TA TA TA TA TA T- TA TA CTA T- TT TA TG TA TA TA TC TT TA -A TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
*
82734644 CTA TA T- TA TT 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 TA TA TA TA TA T
82734681 TACATGTTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
1 4 0.07
2 53 0.87
3 4 0.07
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (2 bp):
TA
Found at i:82734622 original size:25 final size:25
Alignment explanation
Indices: 82734537--82734749 Score: 112
Period size: 23 Copynumber: 9.0 Consensus size: 25
82734527 ATATTTCTTA
* *
82734537 ATATTATATTATATTATATATATAT
1 ATATTATACTATATTATGTATATAT
* * * *
82734562 ATTCTTTTAATATATTAGGTATAT-T
1 A-TATTATACTATATTATGTATATAT
* * * *
82734587 CTA-AATTCTATATTACGTATATAT
1 ATATTATACTATATTATGTATATAT
*
82734611 ATATTATACTATTTTATGTATATAT
1 ATATTATACTATATTATGTATATAT
*
82734636 CT-TTAATACTATATTAT-T-TATAT
1 ATATT-ATACTATATTATGTATATAT
*
82734659 ATA-TATA-TATA-TATATATATAT
1 ATATTATACTATATTATGTATATAT
* ** *
82734681 -TA-CATGTTATCTTATGTATATAT
1 ATATTATACTATATTATGTATATAT
* *
82734704 -T-TTA-ATTATATTATGTATGTAT
1 ATATTATACTATATTATGTATATAT
* * *
82734726 -TTTTACACTATATTATGTACATAT
1 ATATTATACTATATTATGTATATAT
82734750 TTTTAATATT
Statistics
Matches: 145, Mismatches: 31, Indels: 25
0.72 0.15 0.12
Matches are distributed among these distances:
20 3 0.02
21 9 0.06
22 27 0.19
23 36 0.25
24 22 0.15
25 31 0.21
26 17 0.12
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (25 bp):
ATATTATACTATATTATGTATATAT
Found at i:82734717 original size:22 final size:22
Alignment explanation
Indices: 82734687--82734793 Score: 78
Period size: 22 Copynumber: 4.9 Consensus size: 22
82734677 ATATTACATG
*
82734687 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
82734709 TTATATTATGTATGTATTTTTACA
1 TTATATTATGTATATA-TTTTA-A
* *
82734733 CTATATTATGTACATATTTTTAA
1 TTATATTATGTATATA-TTTTAA
* * *
82734756 -TATTATCACGTATTTATTTT--
1 TTA-TATTATGTATATATTTTAA
*
82734776 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
82734794 ATGTAGTATT
Statistics
Matches: 68, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
19 9 0.13
20 2 0.03
21 2 0.03
22 20 0.29
23 15 0.22
24 20 0.29
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.57
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:82734742 original size:24 final size:23
Alignment explanation
Indices: 82734692--82734755 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 23
82734682 ACATGTTATC
*
82734692 TTATGTATATA-TTTTAATTATA
1 TTATGTATATATTTTTAACTATA
*
82734714 TTATGTATGTATTTTTACACTATA
1 TTATGTATATATTTTTA-ACTATA
*
82734738 TTATGTACATATTTTTAA
1 TTATGTATATATTTTTAA
82734756 TATTATCACG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 10 0.28
23 6 0.17
24 20 0.56
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (23 bp):
TTATGTATATATTTTTAACTATA
Found at i:82734758 original size:20 final size:20
Alignment explanation
Indices: 82734735--82734793 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
82734725 TTTTTACACT
82734735 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
82734755 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
82734778 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
82734794 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:82734932 original size:16 final size:15
Alignment explanation
Indices: 82734908--82734942 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
82734898 TAATTATTAT
82734908 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
82734924 TATTTTAATATTTTA
1 TATTCTAATATTTTA
82734939 TATT
1 TATT
82734943 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Done.