Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 3 of 335
Found at i:644219 original size:16 final size:16
Alignment explanation
Indices: 644179--644220 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
644169 TTTCTTTCTT
644179 TTTATTTT-TTATTTTA
1 TTTATTTTATT-TTTTA
644195 TTTATTTTATTTTTTA
1 TTTATTTTATTTTTTA
*
644211 TTTTTTTTAT
1 TTTATTTTAT
644221 ACACTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTATTTTATTTTTTA
Found at i:652658 original size:84 final size:85
Alignment explanation
Indices: 652537--652706 Score: 315
Period size: 84 Copynumber: 2.0 Consensus size: 85
652527 AAAGAGCATG
* *
652537 AGTTGGTTAGAAGTGAGGGGGAGGGGGGAACTTAATGGTTTTTACAGCTTTTTTCCCTACTTATC
1 AGTTGGTTAGAAGTGAAGGGGAGGGGGGAACTTAATGGTTTTTACAGCTTTTTTCCCCACTTATC
652602 GCACTTATCGCACAAAGACT
66 GCACTTATCGCACAAAGACT
652622 AGTTGGTTAGAAGTGAAGGGG-GGGGGGAACTTAATGGTTTTTACAGCTTTTTTCCCCACTTATC
1 AGTTGGTTAGAAGTGAAGGGGAGGGGGGAACTTAATGGTTTTTACAGCTTTTTTCCCCACTTATC
652686 GCACTTATCGCACAAAGACT
66 GCACTTATCGCACAAAGACT
652706 A
1 A
652707 AAAATAAGTG
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
84 63 0.76
85 20 0.24
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (85 bp):
AGTTGGTTAGAAGTGAAGGGGAGGGGGGAACTTAATGGTTTTTACAGCTTTTTTCCCCACTTATC
GCACTTATCGCACAAAGACT
Found at i:652865 original size:16 final size:16
Alignment explanation
Indices: 652844--652876 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
652834 CATGTAATGG
652844 CTTATAAAGTTTTGAT
1 CTTATAAAGTTTTGAT
652860 CTTATAAAGTTTTGAT
1 CTTATAAAGTTTTGAT
652876 C
1 C
652877 ATTAGCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.48
Consensus pattern (16 bp):
CTTATAAAGTTTTGAT
Found at i:657618 original size:37 final size:37
Alignment explanation
Indices: 657568--657664 Score: 151
Period size: 37 Copynumber: 2.6 Consensus size: 37
657558 ATACAGAAGT
657568 TAGTTTGAAAATAATAAATAATAAATAATGAAACATA
1 TAGTTTGAAAATAATAAATAATAAATAATGAAACATA
*
657605 TAGTTTGAAAATAATATATAATAAATAATGAAACATA
1 TAGTTTGAAAATAATAAATAATAAATAATGAAACATA
* * *
657642 TAATTT-AAATTAATTAATAATAA
1 TAGTTTGAAAATAATAAATAATAA
657665 TAAATGGAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 14 0.25
37 41 0.75
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (37 bp):
TAGTTTGAAAATAATAAATAATAAATAATGAAACATA
Found at i:661626 original size:16 final size:16
Alignment explanation
Indices: 661605--661639 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
661595 TGGTGGAAAC
661605 TTAGTTGCATGTTGTT
1 TTAGTTGCATGTTGTT
661621 TTAGTTGCATGTTGTT
1 TTAGTTGCATGTTGTT
661637 TTA
1 TTA
661640 TAAGATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.06, G:0.23, T:0.57
Consensus pattern (16 bp):
TTAGTTGCATGTTGTT
Found at i:671454 original size:13 final size:13
Alignment explanation
Indices: 671438--671464 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
671428 GACAAATCAA
671438 CTCGACACTAACT
1 CTCGACACTAACT
671451 CTCGACACTAACT
1 CTCGACACTAACT
671464 C
1 C
671465 ACAATTGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.41, G:0.07, T:0.22
Consensus pattern (13 bp):
CTCGACACTAACT
Found at i:685118 original size:163 final size:163
Alignment explanation
Indices: 684873--685198 Score: 643
Period size: 163 Copynumber: 2.0 Consensus size: 163
684863 TTTTTAATTG
684873 CTTTGGTACATGGTTTGAAACTTGTATTTTATCCTATCTATTATGGTTTCGCTGGTCAAATTTTA
1 CTTTGGTACATGGTTTGAAACTTGTATTTTATCCTATCTATTATGGTTTCGCTGGTCAAATTTTA
684938 CTTTACTGGTTTAGATTATGTCAAATAAACCTTTTAAAAAGTATTTAAGAATAAGAGCCAAAATG
66 CTTTACTGGTTTAGATTATGTCAAATAAACCTTTTAAAAAGTATTTAAGAATAAGAGCCAAAATG
685003 GGAAAATGTGTTACATTAGTTTAAAATTGATAT
131 GGAAAATGTGTTACATTAGTTTAAAATTGATAT
*
685036 CTTTGGTACATGGTTTGAAACTTGTATTTTATCTTATCTATTATGGTTTCGCTGGTCAAATTTTA
1 CTTTGGTACATGGTTTGAAACTTGTATTTTATCCTATCTATTATGGTTTCGCTGGTCAAATTTTA
685101 CTTTACTGGTTTAGATTATGTCAAATAAACCTTTTAAAAAGTATTTAAGAATAAGAGCCAAAATG
66 CTTTACTGGTTTAGATTATGTCAAATAAACCTTTTAAAAAGTATTTAAGAATAAGAGCCAAAATG
685166 GGAAAATGTGTTACATTAGTTTAAAATTGATAT
131 GGAAAATGTGTTACATTAGTTTAAAATTGATAT
685199 GATGACAAAT
Statistics
Matches: 162, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 162 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (163 bp):
CTTTGGTACATGGTTTGAAACTTGTATTTTATCCTATCTATTATGGTTTCGCTGGTCAAATTTTA
CTTTACTGGTTTAGATTATGTCAAATAAACCTTTTAAAAAGTATTTAAGAATAAGAGCCAAAATG
GGAAAATGTGTTACATTAGTTTAAAATTGATAT
Found at i:688067 original size:7 final size:6
Alignment explanation
Indices: 688040--688064 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
688030 TAAGTGTTAA
688040 TAATTT TAATTT TAATTT TAATTT T
1 TAATTT TAATTT TAATTT TAATTT T
688065 TAAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TAATTT
Found at i:696630 original size:41 final size:40
Alignment explanation
Indices: 696573--696686 Score: 135
Period size: 40 Copynumber: 2.8 Consensus size: 40
696563 ATTTTAGTGG
696573 CTTTAGCGGCGCTTTTTTAAGAAACGCCGCTATAAG-TAC-AC
1 CTTTAGCGGCGCTTTTTTAA-AAACGCCGCTA-AAGCT-CGAC
* * *
696614 CTTTAGCGGCGCTTTTTGAAAAACGCCGCTAATGCTCGAT
1 CTTTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGCTCGAC
*
696654 CTTTAGCGGCG-TTTTTTAAAAAACGCCACTAAA
1 CTTTAGCGGCGCTTTTTT-AAAAACGCCGCTAAA
696687 AGATTAAATA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
39 8 0.12
40 37 0.58
41 19 0.30
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (40 bp):
CTTTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGCTCGAC
Found at i:697082 original size:22 final size:21
Alignment explanation
Indices: 697057--697107 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
697047 CCCTAAATTA
697057 TAAAACTTAAAACTATAAACCC
1 TAAAAC-TAAAACTATAAACCC
* * *
697079 TAAATCTAAAACCATAAAACC
1 TAAAACTAAAACTATAAACCC
*
697100 TTAAACTA
1 TAAAACTA
697108 TAGACAACAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.55, C:0.22, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAAACTAAAACTATAAACCC
Found at i:697194 original size:12 final size:12
Alignment explanation
Indices: 697177--697209 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
697167 TAAATAATAT
697177 ATATATATATGG
1 ATATATATATGG
*
697189 ATATATATATTG
1 ATATATATATGG
697201 ATATATATA
1 ATATATATA
697210 GATATTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (12 bp):
ATATATATATGG
Found at i:697480 original size:3 final size:3
Alignment explanation
Indices: 697472--697503 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
697462 ATTAATAGGA
697472 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
697504 AAAAGAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:702827 original size:274 final size:275
Alignment explanation
Indices: 702155--703558 Score: 2397
Period size: 274 Copynumber: 5.0 Consensus size: 275
702145 CTAACCTTAT
* *
702155 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATAATTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGTT
*
702220 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGTCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
*
702285 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATTGAGCTCATTTAC-----------TAT-T---CTTAATTTATT
702350 TCCAATTTACTTATAAAAATTAAACTACGATTC-TTTTTTATATTATTATATTTAAATTACTATT
181 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTTATATTATTATATTTAAATTACTATT
702414 TTTTTATATTAATAATGTTTGATTTTAATA
246 TTTTTATATTAATAATGTTTGATTTTAATA
702444 TTT-AATAATTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGTT
1 TTTAAATAATTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGTT
702508 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
702573 AAAGACTTGAAAAAAGTTCTATTGAGCTCATTTACTATTCTTAATTTATTTCCAATTTACTTATA
131 AAAGACTTGAAAAAAGTTCTATTGAGCTCATTTACTATTCTTAATTTATTTCCAATTTACTTATA
702638 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTTAAATTACTA-TTTTTTATATTAATAA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTTAAATTACTATTTTTTTATATTAATAA
702702 TGTTTGATTTTAATA
261 TGTTTGATTTTAATA
702717 TTTAAATAATTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGTT
1 TTTAAATAATTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGTT
702782 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
702847 AAAGACTTGAAAAAAGTTCTATTGAGCTCATTTACTATTCTTAATTTATTTCCAATTTACTTATA
131 AAAGACTTGAAAAAAGTTCTATTGAGCTCATTTACTATTCTTAATTTATTTCCAATTTACTTATA
702912 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTTAAATTACTA-TTTTTTATATTAATAA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTTAAATTACTATTTTTTTATATTAATAA
702976 TGTTTGATTTTAATA
261 TGTTTGATTTTAATA
702991 TTTAAATAATTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGTT
1 TTTAAATAATTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGTT
703056 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
703121 AAAGACTTGAAAAAAGTTCTA-TGAGCTCATTTACTATTCTTAATTTATTTCCAATTTACTTATA
131 AAAGACTTGAAAAAAGTTCTATTGAGCTCATTTACTATTCTTAATTTATTTCCAATTTACTTATA
703185 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTTAAATTACTATTTTTTTATATTAATAA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTTAAATTACTATTTTTTTATATTAATAA
703250 TGTTTGATTTTAATA
261 TGTTTGATTTTAATA
* *
703265 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATAATTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGTT
703330 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
*
703395 AAAGACTTGAAAAAA-TTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATTGAGCTCATTTAC-----------TAT-T---CTTAATTTATT
* * *
703459 TCCAATTTACTTATAAAAATTAAACTACGATTCATTTTTGATATTATTATATTCAAATTACTATT
181 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTTATATTATTATATTTAAATTACTATT
*
703524 TTTTTATATTAATAATGTTTTATTTTAATA
246 TTTTTATATTAATAATGTTTGATTTTAATA
703554 TTTAA
1 TTTAA
703559 TATTTTTAAA
Statistics
Matches: 1085, Mismatches: 11, Indels: 38
0.96 0.01 0.03
Matches are distributed among these distances:
273 174 0.16
274 636 0.59
276 1 0.00
277 3 0.00
285 3 0.00
286 1 0.00
288 157 0.14
289 110 0.10
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (275 bp):
TTTAAATAATTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGTT
GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
AAAGACTTGAAAAAAGTTCTATTGAGCTCATTTACTATTCTTAATTTATTTCCAATTTACTTATA
AAAATTAAACTACGATTCTTTTTTTATATTATTATATTTAAATTACTATTTTTTTATATTAATAA
TGTTTGATTTTAATA
Found at i:703883 original size:24 final size:24
Alignment explanation
Indices: 703856--703923 Score: 111
Period size: 24 Copynumber: 2.8 Consensus size: 24
703846 ATTATTATTG
*
703856 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
703880 AAATATTATTC-TCCGTTTTATCAC
1 AAATATTA-TCGTCCGTTTTATCAC
703904 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
703924 CCGTTTAAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 2 0.05
24 37 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:704256 original size:9 final size:9
Alignment explanation
Indices: 704244--704451 Score: 125
Period size: 9 Copynumber: 22.6 Consensus size: 9
704234 TATTTGATAT
*
704244 CATAATTTA
1 CATAACTTA
704253 CATAACTTA
1 CATAACTTA
* *
704262 TATAACATA
1 CATAACTTA
*
704271 TATAACTTA
1 CATAACTTA
704280 CATAACTTA
1 CATAACTTA
* *
704289 TATAACATA
1 CATAACTTA
704298 CATAACTTA
1 CATAACTTA
*
704307 TATAACTTA
1 CATAACTTA
* *
704316 GATAA-ATA
1 CATAACTTA
*
704324 TATAACTTA
1 CATAACTTA
704333 CATAACTTA
1 CATAACTTA
704342 CATAATACTTA
1 CAT-A-ACTTA
* *
704353 AATATATTTTATA
1 CATA-A--CT-TA
*
704366 TCATAATTTA
1 -CATAACTTA
704376 CATAACTTA
1 CATAACTTA
704385 CATAACTTA
1 CATAACTTA
* *
704394 GATAA-ATA
1 CATAACTTA
* *
704402 TATAATTTA
1 CATAACTTA
*
704411 CATAA-ATA
1 CATAACTTA
* * *
704419 TATATCATA
1 CATAACTTA
*
704428 TCATAAATTA
1 -CATAACTTA
704438 CATAACTTA
1 CATAACTTA
704447 CATAA
1 CATAA
704452 TACTTAAATA
Statistics
Matches: 157, Mismatches: 32, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
8 17 0.11
9 113 0.72
10 11 0.07
11 9 0.06
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:704266 original size:18 final size:18
Alignment explanation
Indices: 704244--704451 Score: 143
Period size: 18 Copynumber: 11.3 Consensus size: 18
704234 TATTTGATAT
* *
704244 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
704262 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
704280 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
704298 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* *
704316 GATAA-ATATATAACTTA
1 CATAACTTATATAACTTA
*
704333 CATAACTTACATAATACTTA
1 CATAACTTATAT-A-ACTTA
* * *
704353 AATATATTTTATATCATAATTTA
1 CATA-A--CT-TAT-ATAACTTA
*
704376 CATAACTTACATAACTTA
1 CATAACTTATATAACTTA
* * *
704394 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
704411 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
704428 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
704447 CATAA
1 CATAA
704452 TACTTAAATA
Statistics
Matches: 147, Mismatches: 33, Indels: 20
0.74 0.17 0.10
Matches are distributed among these distances:
17 37 0.25
18 75 0.51
19 11 0.07
20 9 0.06
21 1 0.01
22 1 0.01
23 8 0.05
24 3 0.02
25 2 0.01
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:704275 original size:27 final size:27
Alignment explanation
Indices: 704240--704451 Score: 161
Period size: 27 Copynumber: 8.0 Consensus size: 27
704230 AATATATTTG
*
704240 ATATCATAATTTACATAACTTATATAAC
1 ATAT-ATAACTTACATAACTTATATAAC
704268 ATATATAACTTACATAACTTATATAAC
1 ATATATAACTTACATAACTTATATAAC
* * *
704295 ATACATAACTTATATAACTTAGATAA-
1 ATATATAACTTACATAACTTATATAAC
*
704321 ATATATAACTTACATAACTTACAT-A-
1 ATATATAACTTACATAACTTATATAAC
* * ** *
704346 ATACT-TAA-ATATAT-TTTATATCATAAT
1 ATA-TATAACTTACATAACT-TAT-ATAAC
* * *
704373 TTACATAACTTACATAACTTAGATAA-
1 ATATATAACTTACATAACTTATATAAC
* * *
704399 ATATATAATTTACATAA-ATATATATC
1 ATATATAACTTACATAACTTATATAAC
* *
704425 ATATCATAAATTACATAACTTACATAA
1 ATAT-ATAACTTACATAACTTATATAA
704452 TACTTAAATA
Statistics
Matches: 144, Mismatches: 29, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
23 1 0.01
24 6 0.04
25 14 0.10
26 41 0.28
27 66 0.46
28 15 0.10
29 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (27 bp):
ATATATAACTTACATAACTTATATAAC
Found at i:704420 original size:62 final size:62
Alignment explanation
Indices: 704213--704451 Score: 231
Period size: 62 Copynumber: 3.9 Consensus size: 62
704203 TGAAATAAAA
* * *
704213 AACTTACATAA-TACATAAATATAT-TTGATATCATAATTTACATAACTTATATAACATATAT
1 AACTTACATAATTACATAAATATATATT-ATATCATAATTTACATAACTTACATAACTTACAT
* * * * * * *
704274 AACTTACATAACTTATATAACATACATAACT-TAT-ATAACTTAGATAA-ATATATAACTTACAT
1 AACTTACATAA-TTACATAA-ATATAT-ATTATATCATAATTTACATAACTTACATAACTTACAT
* * *
704336 AACTTACATAA-TACTTAAATATATTTTATATCATAATTTACATAACTTACATAACTTAGAT
1 AACTTACATAATTACATAAATATATATTATATCATAATTTACATAACTTACATAACTTACAT
* * * *
704397 AA-ATATATAATTTACATAAATATATATCATATCATAAATTACATAACTTACATAA
1 AACTTACATAA-TTACATAAATATATATTATATCATAATTTACATAACTTACATAA
704452 TACTTAAATA
Statistics
Matches: 144, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
58 1 0.01
59 8 0.06
60 22 0.15
61 25 0.17
62 62 0.43
63 17 0.12
64 8 0.06
66 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (62 bp):
AACTTACATAATTACATAAATATATATTATATCATAATTTACATAACTTACATAACTTACAT
Found at i:704439 original size:105 final size:105
Alignment explanation
Indices: 704272--704475 Score: 286
Period size: 105 Copynumber: 1.9 Consensus size: 105
704262 TATAACATAT
* * * *
704272 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTAGATAAATATATAACTTACATA
1 ATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGATAAATATATAAATTACATA
* *
704337 ACTTACATAATACTTAAATATATTTTATATCATAATTTAC
66 ACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * *
704377 ATAACTTACATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCATAAATTACA
1 ATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGATA-AATAT-ATAAATTACA
704440 TAACTTACATAATACTTAAATATATATCATATCATA
64 TAACTTACATAATACTTAAATATATATCATATCATA
704476 CATAACTAGT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
103 5 0.06
104 18 0.21
105 64 0.74
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (105 bp):
ATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGATAAATATATAAATTACATA
ACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:704512 original size:105 final size:102
Alignment explanation
Indices: 704272--704525 Score: 235
Period size: 105 Copynumber: 2.4 Consensus size: 102
704262 TATAACATAT
* * * * * * *
704272 ATAACTTACATAACTTATATAACATACATAACTTATATAACT-TAGATAAATATATAACTTACAT
1 ATAACTTACAAAACTTACATAA-ATACATAA--TACATAAATATATAT-CATATATAAATTACAT
* * *
704336 AACTTACATAATACTTAAATATATTTTATATCATAATTTAC
62 AACTTACATAATACTTAAATATATATCATATCATAATTAAC
* * *
704377 ATAACTTACATAACTTAGATAAATATATAATTTACATAAATATATATCATATCATAAATTACATA
1 ATAACTTACAAAACTTACATAAATACATAA--TACATAAATATATATCATAT-ATAAATTACATA
704442 ACTTACATAATACTTAAATATATATCATATCATACA-TAAC
63 ACTTACATAATACTTAAATATATATCATATCATA-ATTAAC
** * * * *
704482 -TAGTTTACAAAATTTACTTAACTTACATAATACATAAATCTATA
1 ATAACTTACAAAACTTACATAA-ATACATAATACATAAATATATA
704526 GTCGAAAATC
Statistics
Matches: 125, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
103 13 0.10
104 34 0.27
105 77 0.62
106 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (102 bp):
ATAACTTACAAAACTTACATAAATACATAATACATAAATATATATCATATATAAATTACATAACT
TACATAATACTTAAATATATATCATATCATAATTAAC
Found at i:710128 original size:21 final size:21
Alignment explanation
Indices: 710095--710145 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
710085 ACAACTTAGA
*
710095 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
710116 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
710137 GCAGAGGCA
1 GCAGAGGCA
710146 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:710445 original size:31 final size:31
Alignment explanation
Indices: 710399--710465 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
710389 TGGTTGTATT
* *
710399 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
710430 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
710461 TTTTA
1 TTTTA
710466 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:710675 original size:43 final size:43
Alignment explanation
Indices: 710538--710841 Score: 499
Period size: 43 Copynumber: 7.1 Consensus size: 43
710528 GTAAAAAAAG
*
710538 CGCCGCTAAAAGCCTTGA-CTTTAGCGGCGC-TTTCACACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
710579 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG-TTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
710621 CG-CGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCT-AAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
710664 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
*
710707 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTGTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
* *
710750 CGCCGCTAAAAGGCTAGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
* *
710793 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTTTTCCAACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG--CTTTTCCCACAAA
710838 CGCC
1 CGCC
710842 ACAAATTTTT
Statistics
Matches: 247, Mismatches: 9, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
41 22 0.09
42 46 0.19
43 160 0.65
44 4 0.02
45 15 0.06
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.23
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:711794 original size:13 final size:14
Alignment explanation
Indices: 711746--711793 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
711736 TATAACTAAA
*
711746 AAAATAACATTGTAAT
1 AAAATAA-ATT-TAAC
711762 AAACATAAATTTAAC
1 AAA-ATAAATTTAAC
*
711777 AAAATAATTTTAAC
1 AAAATAAATTTAAC
711791 AAA
1 AAA
711794 TGAACTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 13 0.45
15 6 0.21
16 6 0.21
17 4 0.14
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (14 bp):
AAAATAAATTTAAC
Found at i:711878 original size:29 final size:31
Alignment explanation
Indices: 711824--711892 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
711814 TGAGAAATAG
711824 AGGGACTAAATTCCTAAAAAT-AAA-AGTAT
1 AGGGACTAAATTCCTAAAAATAAAAGAGTAT
**
711853 AGGGACTAAATT-CTAAATTTACAAAGAGTAT
1 AGGGACTAAATTCCTAAAAATA-AAAGAGTAT
711884 AGGGACTAA
1 AGGGACTAA
711893 TGTCATGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 6 0.17
29 12 0.34
30 3 0.09
31 14 0.40
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (31 bp):
AGGGACTAAATTCCTAAAAATAAAAGAGTAT
Found at i:717549 original size:6 final size:6
Alignment explanation
Indices: 717538--717585 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
717528 GAAGGAGTAA
* *
717538 TATATC TATATC TATATC TATATC TATCTATC TATATA TATATA TATA
1 TATATC TATATC TATATC TATATC TA--TATC TATATC TATATC TATA
717586 ATGAGCTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
6 33 0.85
8 6 0.15
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (6 bp):
TATATC
Found at i:717575 original size:16 final size:16
Alignment explanation
Indices: 717538--717580 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
717528 GAAGGAGTAA
* *
717538 TATATCTATATCTATA
1 TATATATATATCTATC
* *
717554 TCTATATCTATCTATC
1 TATATATATATCTATC
717570 TATATATATAT
1 TATATATATAT
717581 ATATAATGAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (16 bp):
TATATATATATCTATC
Found at i:719612 original size:21 final size:21
Alignment explanation
Indices: 719588--719638 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
719578 GACACCGTCC
719588 GTGACGGCGATGACTCACCTT
1 GTGACGGCGATGACTCACCTT
* *
719609 GTGACGTCGATGTCTCACCTT
1 GTGACGGCGATGACTCACCTT
**
719630 CCGACGGCG
1 GTGACGGCG
719639 GAGAACCCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.16, C:0.31, G:0.29, T:0.24
Consensus pattern (21 bp):
GTGACGGCGATGACTCACCTT
Found at i:727138 original size:22 final size:21
Alignment explanation
Indices: 727108--727151 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
727098 AACAATCGTT
727108 AAATTTATTAATAT-TGATTTA
1 AAATTTATTAATATAT-ATTTA
*
727129 AAATATTATTTATATATATTTA
1 AAAT-TTATTAATATATATTTA
727151 A
1 A
727152 CTATTAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 15 0.75
23 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
AAATTTATTAATATATATTTA
Found at i:727682 original size:24 final size:24
Alignment explanation
Indices: 727632--727683 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
727622 TTCGTAGGTC
* *
727632 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
* *
727656 AAATATATTATACTAATAAATATT
1 AAATAAATTATACTAATAAATACT
727680 AAAT
1 AAAT
727684 GTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:735811 original size:27 final size:28
Alignment explanation
Indices: 735754--735813 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
735744 CTATTATTAT
* *
735754 TTTTTATTCTACATGTAACTTATTATTA
1 TTTTTATTCTACATGTAACTTACTATAA
*
735782 TTTTTATTCTACATGT-ACTTGCTATAA
1 TTTTTATTCTACATGTAACTTACTATAA
735809 TTTTT
1 TTTTT
735814 TTTTTTTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 13 0.45
28 16 0.55
ACGTcount: A:0.25, C:0.12, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTTTATTCTACATGTAACTTACTATAA
Found at i:737309 original size:18 final size:20
Alignment explanation
Indices: 737286--737322 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
737276 AGTCCCCAAA
737286 AAAATAAAA-C-CATAAAAT
1 AAAATAAAATCTCATAAAAT
737304 AAAATAAAATCTCATAAAA
1 AAAATAAAATCTCATAAAA
737323 ACCTTCCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAATAAAATCTCATAAAAT
Found at i:738209 original size:31 final size:30
Alignment explanation
Indices: 738165--738223 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
738155 TATTGATTAT
*
738165 TTTTTAAAAATATTTTTTTTAATTTTTTAAA
1 TTTTTAAAAATA-TTTTTTAAATTTTTTAAA
* *
738196 TTTTTACATATATTTTTTAAATTTTTTA
1 TTTTTAAAAATATTTTTTAAATTTTTTA
738224 TGAGGTGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTTTAAAAATATTTTTTAAATTTTTTAAA
Found at i:738890 original size:24 final size:24
Alignment explanation
Indices: 738858--738906 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
738848 TAAATTTTAC
738858 AATTAGTTTCGTTTAGTATCTATT
1 AATTAGTTTCGTTTAGTATCTATT
738882 AATTAGTTTCGTTTAGTATCTATT
1 AATTAGTTTCGTTTAGTATCTATT
738906 A
1 A
738907 TTATTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.53
Consensus pattern (24 bp):
AATTAGTTTCGTTTAGTATCTATT
Found at i:745844 original size:21 final size:23
Alignment explanation
Indices: 745813--745859 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
745803 TGATATGTTA
745813 AAAATATTTTAATTAT-TATTTG
1 AAAATATTTTAATTATATATTTG
745835 AAAAT-TTTTAATTATAATATTTG
1 AAAATATTTTAATTAT-ATATTTG
745858 AA
1 AA
745860 TTTATACTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.43
22 5 0.22
23 8 0.35
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
AAAATATTTTAATTATATATTTG
Found at i:748371 original size:18 final size:19
Alignment explanation
Indices: 748318--748360 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
748308 GATGAATCAT
*
748318 ATAGAAAGAG--ATAGAAA
1 ATAGAAAGAGAAAAAGAAA
748335 ATAGAAAGAGAAAAAGAAA
1 ATAGAAAGAGAAAAAGAAA
748354 A-AGAAAG
1 ATAGAAAG
748361 GGGAAGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 6 0.26
19 7 0.30
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (19 bp):
ATAGAAAGAGAAAAAGAAA
Found at i:748793 original size:3 final size:3
Alignment explanation
Indices: 748785--748814 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
748775 AAGGAAGAGG
748785 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
748815 TGAGAGCTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:755747 original size:22 final size:24
Alignment explanation
Indices: 755699--755750 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
755689 TAATATAAAT
*
755699 AAAAAATTTCAAAGACTAAATTGA
1 AAAAAATTTCAAAGACAAAATTGA
*
755723 AAAAAATTT-AAGGACAAAATT-A
1 AAAAAATTTCAAAGACAAAATTGA
755745 AAAAAA
1 AAAAAA
755751 GTGTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 7 0.27
23 10 0.38
24 9 0.35
ACGTcount: A:0.65, C:0.06, G:0.08, T:0.21
Consensus pattern (24 bp):
AAAAAATTTCAAAGACAAAATTGA
Found at i:756468 original size:32 final size:29
Alignment explanation
Indices: 756432--756509 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 29
756422 TTGTATTTTA
*
756432 CTTTATTTATTCAAAAAAATAAGTAAATTAG
1 CTTTATTTATT-AAAAAAAGAA-TAAATTAG
*
756463 TCTTTATATATTAAATAAAAGAATAAATTAG
1 -CTTTATTTATTAAA-AAAAGAATAAATTAG
756494 -TTTATTCTATTAAAAA
1 CTTTATT-TATTAAAAA
756510 TTAATTTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 7 0.17
30 7 0.17
31 11 0.27
32 16 0.39
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (29 bp):
CTTTATTTATTAAAAAAAGAATAAATTAG
Found at i:757577 original size:20 final size:19
Alignment explanation
Indices: 757552--757610 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
757542 CTATCTATAT
757552 TATTATTTAATTTTTTTAAA
1 TATTATTT-ATTTTTTTAAA
*
757572 TATTATATTATTTTTTTATA
1 TATTAT-TTATTTTTTTAAA
* *
757592 TATTTTTTATTTTATTAAA
1 TATTATTTATTTTTTTAAA
757611 ATTTTAAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 11 0.32
20 21 0.62
21 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTATTTATTTTTTTAAA
Found at i:757677 original size:12 final size:12
Alignment explanation
Indices: 757660--757684 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
757650 ACATTATAGA
757660 TTTTATATAAAT
1 TTTTATATAAAT
757672 TTTTATATAAAT
1 TTTTATATAAAT
757684 T
1 T
757685 ATATAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTATATAAAT
Found at i:765294 original size:31 final size:29
Alignment explanation
Indices: 765259--765336 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 29
765249 TTAAAAGTCA
765259 AAAAGTACAAAGACTAAAATTGAAT-AAAT
1 AAAAGTACAAAGACTAAAATTG-ATCAAAT
* * *
765288 AGAAAAGTGCAAGGACTCAAATTGATCAAAT
1 --AAAAGTACAAAGACTAAAATTGATCAAAT
* *
765319 TAAATTACAAAGACTAAA
1 AAAAGTACAAAGACTAAA
765337 TTTACAACTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
29 13 0.34
30 2 0.05
31 23 0.61
ACGTcount: A:0.56, C:0.10, G:0.13, T:0.21
Consensus pattern (29 bp):
AAAAGTACAAAGACTAAAATTGATCAAAT
Found at i:767759 original size:5 final size:5
Alignment explanation
Indices: 767749--767776 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
767739 ATCATATATT
767749 CAACC CAACC CAACC CAACC CAACC CAA
1 CAACC CAACC CAACC CAACC CAACC CAA
767777 ATATTTAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.57, G:0.00, T:0.00
Consensus pattern (5 bp):
CAACC
Found at i:767924 original size:17 final size:17
Alignment explanation
Indices: 767902--767950 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
767892 TTATCATTCC
767902 TCAATTTTATAATTTAA
1 TCAATTTTATAATTTAA
*
767919 TCAATTTAAT-ATTTAA
1 TCAATTTTATAATTTAA
767935 -CAATAATTTATAATTT
1 TCAAT--TTTATAATTT
767951 TATTATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 4 0.15
16 6 0.22
17 13 0.48
18 4 0.15
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (17 bp):
TCAATTTTATAATTTAA
Found at i:768602 original size:18 final size:17
Alignment explanation
Indices: 768547--768602 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
768537 TATTTTAAAA
*
768547 TAATTGAATAAAAACAT
1 TAATAGAATAAAAACAT
768564 TAA-AG-ATAACAAACAT
1 TAATAGAATAA-AAACAT
* *
768580 AAATAGAATAATAAATAT
1 TAATAGAATAA-AAACAT
768598 TAATA
1 TAATA
768603 ATAGGATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 4 0.13
16 9 0.29
17 5 0.16
18 13 0.42
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (17 bp):
TAATAGAATAAAAACAT
Found at i:772258 original size:6 final size:6
Alignment explanation
Indices: 772249--772277 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
772239 GAAATCAACA
772249 TTTCAC TTTCAC TTTCAC TTTCAC TTTCA
1 TTTCAC TTTCAC TTTCAC TTTCAC TTTCA
772278 AATTCAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTCAC
Found at i:772283 original size:18 final size:18
Alignment explanation
Indices: 772249--772283 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
772239 GAAATCAACA
**
772249 TTTCACTTTCACTTTCAC
1 TTTCACTTTCAAATTCAC
772267 TTTCACTTTCAAATTCA
1 TTTCACTTTCAAATTCA
772284 AAAAACAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCACTTTCAAATTCAC
Found at i:784737 original size:13 final size:15
Alignment explanation
Indices: 784710--784743 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
784700 GTATGATTAT
784710 ATTTATTTTTCGTGA
1 ATTTATTTTTCGTGA
784725 ATTT-TTTTT-GTGA
1 ATTTATTTTTCGTGA
784738 ATTTAT
1 ATTTAT
784744 AACTCTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.44
14 6 0.33
15 4 0.22
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.65
Consensus pattern (15 bp):
ATTTATTTTTCGTGA
Found at i:784972 original size:18 final size:18
Alignment explanation
Indices: 784949--784983 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
784939 GCAACACATA
784949 ATATTTTGAGAACTATTT
1 ATATTTTGAGAACTATTT
784967 ATATTTTGAGAACTATT
1 ATATTTTGAGAACTATT
784984 ATTAACAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (18 bp):
ATATTTTGAGAACTATTT
Found at i:788722 original size:23 final size:22
Alignment explanation
Indices: 788682--788724 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
788672 ATAAACATTA
*
788682 TTAAAAAAAATATGTTTAAATT
1 TTAAAAAAAATATATTTAAATT
*
788704 TTAAAAATAATATTATTTAAA
1 TTAAAAAAAATA-TATTTAAA
788725 AAAATAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAAAAAAATATATTTAAATT
Found at i:788741 original size:38 final size:38
Alignment explanation
Indices: 788662--788745 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 38
788652 CATACGTTCG
**
788662 AATTTTAAAAATAAACATTATTAAAAAAAATATGTTTA
1 AATTTTAAAAATAAACATTATTAAAAAAAATATGTCAA
* *
788700 AATTTTAAAAAT-AATATTATTTAAAAAAATAAT-TACAA
1 AATTTTAAAAATAAACATTATTAAAAAAAAT-ATGT-CAA
788738 AATTTTAA
1 AATTTTAA
788746 TTACAAATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
37 17 0.43
38 23 0.57
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (38 bp):
AATTTTAAAAATAAACATTATTAAAAAAAATATGTCAA
Found at i:790424 original size:16 final size:16
Alignment explanation
Indices: 790398--790442 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
790388 ACAGTGATTC
790398 AATTATTAATAAATTT
1 AATTATTAATAAATTT
* *
790414 ATTTTTTAAT-AATTT
1 AATTATTAATAAATTT
790429 AATTATTAA-AAATT
1 AATTATTAATAAATT
790443 ATAAAATATC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTATTAATAAATTT
Found at i:808433 original size:67 final size:70
Alignment explanation
Indices: 808349--808481 Score: 173
Period size: 70 Copynumber: 1.9 Consensus size: 70
808339 ATAGACAATA
* * * * *
808349 TAATGGTTTTGCCTTTTAA-TTTA-ATAA-ATAAACATTTATCAAAATGACGTAGTTTTGTCTTT
1 TAATGATTTTGACTTTTAACTTTAGAAAAGATAAACATTTATCAAAACGACGTAGTTTTGCCTTT
808411 TAAGT
66 TAAGT
* * *
808416 TAATGATTTTGACTTTTAACTTTAGAAAAGATAAATATTTATCAAAACGATGTGGTTTTGCCTTT
1 TAATGATTTTGACTTTTAACTTTAGAAAAGATAAACATTTATCAAAACGACGTAGTTTTGCCTTT
808481 T
66 T
808482 CTTATTTGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
67 17 0.31
68 4 0.07
69 3 0.05
70 31 0.56
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (70 bp):
TAATGATTTTGACTTTTAACTTTAGAAAAGATAAACATTTATCAAAACGACGTAGTTTTGCCTTT
TAAGT
Found at i:815130 original size:2 final size:2
Alignment explanation
Indices: 815123--815147 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
815113 ATCGTTTGAT
815123 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 T
815148 TAAAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:824590 original size:8 final size:7
Alignment explanation
Indices: 824564--824588 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
824554 TCACTAACAC
824564 AAAATAA
1 AAAATAA
824571 AAAATAA
1 AAAATAA
824578 AAAATAA
1 AAAATAA
824585 AAAA
1 AAAA
824589 ATTACGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:830656 original size:16 final size:17
Alignment explanation
Indices: 830626--830659 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
830616 GGAAGTTGGA
830626 GGAGAGGGGAAGGGATG
1 GGAGAGGGGAAGGGATG
*
830643 GGAG-GGGGAGGGGATG
1 GGAGAGGGGAAGGGATG
830659 G
1 G
830660 CTTTTGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.24, C:0.00, G:0.71, T:0.06
Consensus pattern (17 bp):
GGAGAGGGGAAGGGATG
Found at i:831122 original size:12 final size:12
Alignment explanation
Indices: 831105--831130 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
831095 TTGTGTACTA
831105 TACATAAAGTTG
1 TACATAAAGTTG
831117 TACATAAAGTTG
1 TACATAAAGTTG
831129 TA
1 TA
831131 AATATTCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (12 bp):
TACATAAAGTTG
Found at i:832434 original size:23 final size:23
Alignment explanation
Indices: 832403--832460 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
832393 CTTACTTCGT
*
832403 AAATAATTTATATTAAATAT-TTA
1 AAAT-ATTTATATTAAACATATTA
*
832426 AAAGTATTTAAATTAAACATATTA
1 AAA-TATTTATATTAAACATATTA
*
832450 TAATATTTATA
1 AAATATTTATA
832461 AACTTGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
AAATATTTATATTAAACATATTA
Found at i:834295 original size:24 final size:24
Alignment explanation
Indices: 834263--834319 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
834253 ATTGAATCCA
* *
834263 AAAAAAGAAGGGGAGATGGTATTT
1 AAAAAAGAAGGGAAGATGATATTT
*
834287 AAAAAAGAATGGAAGATGATATTT
1 AAAAAAGAAGGGAAGATGATATTT
834311 AAAAAAGAA
1 AAAAAAGAA
834320 AGAAAAGCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (24 bp):
AAAAAAGAAGGGAAGATGATATTT
Found at i:836207 original size:53 final size:53
Alignment explanation
Indices: 836066--836216 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
836056 ATAAGTGCGC
* **
836066 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
836119 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
836172 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
836217 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:843712 original size:53 final size:53
Alignment explanation
Indices: 843576--843721 Score: 213
Period size: 53 Copynumber: 2.7 Consensus size: 53
843566 TAAGTGCGTT
**
843576 TAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
*
843629 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
* *
843682 TAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 TAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
843722 ACCGTGTAAG
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (53 bp):
TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
Found at i:847469 original size:29 final size:29
Alignment explanation
Indices: 847430--847510 Score: 110
Period size: 28 Copynumber: 2.8 Consensus size: 29
847420 CACTTTGTGC
*
847430 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGATGGACTATAT
*
847459 TATTCTGGTGTGTTTGGGA-GGACTATAT
1 TATTCTGGTGTGTTTTGGATGGACTATAT
* * *
847487 GATACTGGTGTGTTTTGGTTGGAC
1 TATTCTGGTGTGTTTTGGATGGAC
847511 ATTTTGGTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 23 0.51
29 22 0.49
ACGTcount: A:0.16, C:0.06, G:0.32, T:0.46
Consensus pattern (29 bp):
TATTCTGGTGTGTTTTGGATGGACTATAT
Found at i:847725 original size:23 final size:23
Alignment explanation
Indices: 847695--847781 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 23
847685 GCTTTACTGA
*
847695 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
* *
847718 TCAGGCACCTTGTGTGTCGCA--
1 TCAGGCACCTTATGTGTCGTATT
* **
847739 GCAGGCACCTCGTGTGTCG--TT
1 TCAGGCACCTTATGTGTCGTATT
847760 TCAGGCA-CTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
847782 CTGATCAGGT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 9 0.17
21 23 0.44
22 2 0.04
23 18 0.35
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:847958 original size:23 final size:23
Alignment explanation
Indices: 847914--847958 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
847904 ATCAATTAAA
*
847914 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
847937 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
847959 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:852036 original size:14 final size:14
Alignment explanation
Indices: 852017--852046 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
852007 AACACTTATA
852017 ATTGAGGTAAAAGT
1 ATTGAGGTAAAAGT
852031 ATTGAGGTAAAAGT
1 ATTGAGGTAAAAGT
852045 AT
1 AT
852047 CATGCGGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (14 bp):
ATTGAGGTAAAAGT
Found at i:861323 original size:7 final size:7
Alignment explanation
Indices: 861311--861336 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
861301 TATTTGTAAA
861311 AGAAATG
1 AGAAATG
861318 AGAAATG
1 AGAAATG
861325 AGAAATG
1 AGAAATG
861332 AGAAA
1 AGAAA
861337 GGGCTTCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.27, T:0.12
Consensus pattern (7 bp):
AGAAATG
Found at i:868884 original size:5 final size:6
Alignment explanation
Indices: 868867--868891 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
868857 CTATTATGTA
868867 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
868892 CTATAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:871067 original size:21 final size:20
Alignment explanation
Indices: 871043--871086 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
871033 TTAAGGATTA
*
871043 TTATTTGATAGTATAAATTTT
1 TTATTTGATA-AATAAATTTT
* *
871064 TTATTTTATAAATAACTTTT
1 TTATTTGATAAATAAATTTT
871084 TTA
1 TTA
871087 AAAATTACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (20 bp):
TTATTTGATAAATAAATTTT
Found at i:872194 original size:2 final size:2
Alignment explanation
Indices: 872187--872216 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
872177 TTTTATTTAC
872187 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
872217 TTTATCACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:888682 original size:19 final size:19
Alignment explanation
Indices: 888655--888699 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
888645 ATTAATATAA
*
888655 TTTATTATTTTAATAATT-T
1 TTTAATATTTTAA-AATTAT
*
888674 TTTAATATTTTAAATTTAT
1 TTTAATATTTTAAAATTAT
888693 TTTAATA
1 TTTAATA
888700 ATAAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTAATATTTTAAAATTAT
Found at i:888716 original size:15 final size:14
Alignment explanation
Indices: 888691--888730 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
888681 TTTTAAATTT
888691 ATTTT-AATAATAA
1 ATTTTAAATAATAA
888704 ATTTTAAAATAAT-A
1 ATTTT-AAATAATAA
888718 ATTTTAAATAATA
1 ATTTTAAATAATA
888731 TTCTTCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 12 0.50
14 6 0.25
15 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAAATAATAA
Found at i:893901 original size:15 final size:15
Alignment explanation
Indices: 893881--893948 Score: 77
Period size: 15 Copynumber: 4.6 Consensus size: 15
893871 GTATCTTGGG
893881 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
893896 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
893911 TTT-TTTATTCC-GGA
1 TTTCTTTA-TCCTGGA
* *
893925 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
893940 TTTCTTTAT
1 TTTCTTTAT
893949 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
14 12 0.28
15 31 0.72
ACGTcount: A:0.13, C:0.18, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:893939 original size:29 final size:30
Alignment explanation
Indices: 893872--893958 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 30
893862 CATAGTATCG
* * *
893872 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
893902 TAT-TCTGGATTT-TTTATTCCGGATTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
893931 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
893959 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
29 30 0.61
30 19 0.39
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:893959 original size:14 final size:14
Alignment explanation
Indices: 893881--893959 Score: 70
Period size: 15 Copynumber: 5.4 Consensus size: 14
893871 GTATCTTGGG
*
893881 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
*
893896 TCTCTTTATTCTGGA
1 TTTCTTTATTC-GGA
893911 TTT-TTTATTCCGGA
1 TTTCTTTATT-CGGA
* *
893925 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
893940 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
893954 TTTCTT
1 TTTCTT
893960 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 21 0.40
15 31 0.58
16 1 0.02
ACGTcount: A:0.11, C:0.18, G:0.13, T:0.58
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:897967 original size:33 final size:33
Alignment explanation
Indices: 897924--898031 Score: 104
Period size: 33 Copynumber: 3.4 Consensus size: 33
897914 ATTTTTTATA
*
897924 ATTATTTTAAAATTAATTTGTTAGTAATTTAGG
1 ATTATGTTAAAATTAATTTGTTAGTAATTTAGG
*
897957 ATTATGTTAAAATT--TTTGGT-GT--TTGTA--
1 ATTATGTTAAAATTAATTTGTTAGTAATT-TAGG
* *
897984 ATTATTTTAAAATTAATTTATTAGTAATTTAGG
1 ATTATGTTAAAATTAATTTGTTAGTAATTTAGG
*
898017 ATTAAGTTATAAATT
1 ATTATGTTA-AAATT
898032 GTTGTGTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
27 13 0.22
28 2 0.03
29 6 0.10
30 4 0.07
31 7 0.12
32 2 0.03
33 20 0.34
34 5 0.08
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (33 bp):
ATTATGTTAAAATTAATTTGTTAGTAATTTAGG
Found at i:897973 original size:60 final size:61
Alignment explanation
Indices: 897909--898041 Score: 189
Period size: 60 Copynumber: 2.2 Consensus size: 61
897899 TGTAATTTTT
* * * *
897909 TTTTTATTTTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTA-AAA
1 TTTTTAGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
* *
897969 TTTTTGGTGTTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
1 TTTTTAGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
*
898030 TTGTT-GTGTTTA
1 TTTTTAGTGTTTA
898042 GTTTAGTATT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 57 0.89
61 7 0.11
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (61 bp):
TTTTTAGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
Found at i:898358 original size:27 final size:27
Alignment explanation
Indices: 898320--898505 Score: 138
Period size: 27 Copynumber: 6.6 Consensus size: 27
898310 CCCACCATTT
* *
898320 GCGCCTCTGAGATAGGCTCGACTAGTC
1 GCGCCTCAGAGATAGGCTCAACTAGTC
*
898347 GCGCCTCAGAGAAAGGCTCAACTAGTC
1 GCGCCTCAGAGATAGGCTCAACTAGTC
*
898374 GCGCCTCAGAGAAAGGCTCAACTAGTC
1 GCGCCTCAGAGATAGGCTCAACTAGTC
* ** * * * * * * *
898401 GTTAAGCAACAGACGTTCCTGTGGGCCCCACCATTT
1 G---CGCCTCAGA-G-----ATAGGCTCAACTAGTC
* *
898437 GCGCCTCTGAGATAGGCTCGACTAGTC
1 GCGCCTCAGAGATAGGCTCAACTAGTC
*
898464 GCGCCTCAGAGAAAGGCTCAACTAGTC
1 GCGCCTCAGAGATAGGCTCAACTAGTC
898491 GCGCCTCAGAGATAG
1 GCGCCTCAGAGATAG
898506 ACGCAACCTG
Statistics
Matches: 121, Mismatches: 29, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
27 99 0.82
30 6 0.05
31 1 0.01
32 1 0.01
33 5 0.04
36 9 0.07
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.19
Consensus pattern (27 bp):
GCGCCTCAGAGATAGGCTCAACTAGTC
Found at i:898491 original size:117 final size:117
Alignment explanation
Indices: 898285--898502 Score: 436
Period size: 117 Copynumber: 1.9 Consensus size: 117
898275 GTTTTGTATT
898285 TTAAGCAACAGACGTTCCTGTGGGCCCCACCATTTGCGCCTCTGAGATAGGCTCGACTAGTCGCG
1 TTAAGCAACAGACGTTCCTGTGGGCCCCACCATTTGCGCCTCTGAGATAGGCTCGACTAGTCGCG
898350 CCTCAGAGAAAGGCTCAACTAGTCGCGCCTCAGAGAAAGGCTCAACTAGTCG
66 CCTCAGAGAAAGGCTCAACTAGTCGCGCCTCAGAGAAAGGCTCAACTAGTCG
898402 TTAAGCAACAGACGTTCCTGTGGGCCCCACCATTTGCGCCTCTGAGATAGGCTCGACTAGTCGCG
1 TTAAGCAACAGACGTTCCTGTGGGCCCCACCATTTGCGCCTCTGAGATAGGCTCGACTAGTCGCG
898467 CCTCAGAGAAAGGCTCAACTAGTCGCGCCTCAGAGA
66 CCTCAGAGAAAGGCTCAACTAGTCGCGCCTCAGAGA
898503 TAGACGCAAC
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 101 1.00
ACGTcount: A:0.24, C:0.30, G:0.26, T:0.20
Consensus pattern (117 bp):
TTAAGCAACAGACGTTCCTGTGGGCCCCACCATTTGCGCCTCTGAGATAGGCTCGACTAGTCGCG
CCTCAGAGAAAGGCTCAACTAGTCGCGCCTCAGAGAAAGGCTCAACTAGTCG
Found at i:901544 original size:16 final size:16
Alignment explanation
Indices: 901523--901553 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
901513 GATATTTTAA
901523 TATATTATATTAATAT
1 TATATTATATTAATAT
*
901539 TATATTATGTTAATA
1 TATATTATATTAATA
901554 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:901650 original size:12 final size:12
Alignment explanation
Indices: 901633--901663 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
901623 GAAGCAGGGG
901633 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
901645 AGAAAAAGGGAA
1 AGAAAAAGAGAA
901657 AGAAAAA
1 AGAAAAA
901664 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:911067 original size:47 final size:48
Alignment explanation
Indices: 910961--911079 Score: 231
Period size: 48 Copynumber: 2.5 Consensus size: 48
910951 ATTACAAACA
910961 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
1 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
911009 TCAATTATTTACCCTATTAACAAATAATCTCATTTT-AAAATTTCATT
1 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
911056 TCAATTATTTACCCTATTAACAAA
1 TCAATTATTTACCCTATTAACAAA
911080 GCTCGGACTA
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
47 35 0.49
48 36 0.51
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (48 bp):
TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
Found at i:914316 original size:22 final size:23
Alignment explanation
Indices: 914274--914324 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
914264 AAATATTACG
*
914274 AAAATTAAAATTATTTGAAAAAT
1 AAAATTAAAATTAATTGAAAAAT
*
914297 AAAA-TAAAATTAAATTAAAAAAAT
1 AAAATTAAAATT-AATT-GAAAAAT
914321 AAAA
1 AAAA
914325 AAAACTCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.29
23 7 0.29
24 10 0.42
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATTAAAATTAATTGAAAAAT
Found at i:914323 original size:24 final size:25
Alignment explanation
Indices: 914291--914337 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
914281 AAATTATTTG
914291 AAAAATAAAATAAAA-T-TAAATTAA
1 AAAAATAAAA-AAAACTCTAAATTAA
914315 AAAAATAAAAAAAACTCTAAATT
1 AAAAATAAAAAAAACTCTAAATT
914338 CACTCGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.23
Consensus pattern (25 bp):
AAAAATAAAAAAAACTCTAAATTAA
Found at i:928550 original size:17 final size:16
Alignment explanation
Indices: 928520--928566 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
928510 AACATGTCAA
* *
928520 TTTGTGTGTATTTTAT
1 TTTGTTTGTTTTTTAT
928536 GTTTGTTTGTTTTTTAT
1 -TTTGTTTGTTTTTTAT
928553 TTT-TTTGATTTTTT
1 TTTGTTTG-TTTTTT
928567 TTGAATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 4 0.15
16 9 0.33
17 14 0.52
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.77
Consensus pattern (16 bp):
TTTGTTTGTTTTTTAT
Found at i:928559 original size:15 final size:18
Alignment explanation
Indices: 928530--928566 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
928520 TTTGTGTGTA
928530 TTTTATGTTTGTTTG-TT
1 TTTTATGTTTGTTTGATT
928547 TTTTAT-TTT-TTTGATT
1 TTTTATGTTTGTTTGATT
928563 TTTT
1 TTTT
928567 TTGAATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.21
16 9 0.47
17 6 0.32
ACGTcount: A:0.08, C:0.00, G:0.11, T:0.81
Consensus pattern (18 bp):
TTTTATGTTTGTTTGATT
Found at i:934545 original size:18 final size:17
Alignment explanation
Indices: 934518--934551 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
934508 TATCAAAAAA
*
934518 AAATTATATTTATATTG
1 AAATTATATTAATATTG
934535 AAATATATATTAATATT
1 AAAT-TATATTAATATT
934552 TGCATTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
AAATTATATTAATATTG
Found at i:934610 original size:12 final size:12
Alignment explanation
Indices: 934595--934639 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
934585 TAAACATGGC
*
934595 ATTAAAATTAGT
1 ATTAAAATTAAT
934607 ATTAAAATTAAT
1 ATTAAAATTAAT
*
934619 AATAAAATTTAAT
1 ATTAAAA-TTAAT
934632 ATCTAAAA
1 AT-TAAAA
934640 ATATCTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 17 0.61
13 6 0.21
14 5 0.18
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (12 bp):
ATTAAAATTAAT
Found at i:935233 original size:10 final size:11
Alignment explanation
Indices: 935198--935237 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
935188 GAATATATCT
935198 CATACCTTACC
1 CATACCTTACC
*
935209 CATACCTTTCC
1 CATACCTTACC
935220 CATACC-TACC
1 CATACCTTACC
935230 CATACCTT
1 CATACCTT
935238 GGAAAGGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.25, C:0.45, G:0.00, T:0.30
Consensus pattern (11 bp):
CATACCTTACC
Found at i:935772 original size:12 final size:12
Alignment explanation
Indices: 935729--935782 Score: 83
Period size: 12 Copynumber: 4.5 Consensus size: 12
935719 TGTGTTAAAA
*
935729 TATATATTAAAT
1 TATATATTATAT
935741 TAT-TATTATAT
1 TATATATTATAT
935752 TAGTATATTATAT
1 TA-TATATTATAT
935765 TATATATTATAT
1 TATATATTATAT
935777 TATATA
1 TATATA
935783 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
11 9 0.23
12 20 0.51
13 10 0.26
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (12 bp):
TATATATTATAT
Found at i:937120 original size:18 final size:19
Alignment explanation
Indices: 937099--937137 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
937089 ATATATAGAT
937099 ATATATACTGAATA-TTGA
1 ATATATACTGAATATTTGA
* *
937117 ATATATATTGATTATTTGA
1 ATATATACTGAATATTTGA
937136 AT
1 AT
937138 TGAATTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (19 bp):
ATATATACTGAATATTTGA
Found at i:938841 original size:44 final size:45
Alignment explanation
Indices: 938751--938879 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
938741 GACAGAACGA
*
938751 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
938797 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
938841 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
938880 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:941385 original size:18 final size:18
Alignment explanation
Indices: 941361--941434 Score: 105
Period size: 18 Copynumber: 4.1 Consensus size: 18
941351 CCGTTTACGA
941361 TACTATTCACGTATACAG
1 TACTATTCACGTATACAG
*
941379 CACTATTCACGTATACTA-
1 TACTATTCACGTATAC-AG
*
941397 TACTATTCACGTATACGG
1 TACTATTCACGTATACAG
*
941415 TACTGTTCACGTATACAG
1 TACTATTCACGTATACAG
941433 TA
1 TA
941435 GCTGGGATTG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 48 0.98
19 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (18 bp):
TACTATTCACGTATACAG
Found at i:945421 original size:11 final size:11
Alignment explanation
Indices: 945405--945447 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
945395 TAGAATATAT
945405 CCCATACCTTG
1 CCCATACCTTG
945416 CCCATACCTCT-
1 CCCATACCT-TG
*
945427 CCCATACC-TA
1 CCCATACCTTG
945437 CCCATACCTTG
1 CCCATACCTTG
945448 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 1 0.04
10 8 0.29
11 18 0.64
12 1 0.04
ACGTcount: A:0.21, C:0.49, G:0.05, T:0.26
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:945432 original size:22 final size:21
Alignment explanation
Indices: 945404--945445 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
945394 TTAGAATATA
*
945404 TCCCATACCTTGCCCATACCTC
1 TCCCATACC-TACCCATACCTC
945426 TCCCATACCTACCCATACCT
1 TCCCATACCTACCCATACCT
945446 TGGAAAGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.21, C:0.50, G:0.02, T:0.26
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTC
Found at i:946833 original size:29 final size:28
Alignment explanation
Indices: 946782--946857 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
946772 GAATTAACTG
*
946782 AAAAAGTTTGGTTCGGTTATTTTTTTGA
1 AAAAAATTTGGTTCGGTTATTTTTTTGA
946810 AAAAAATTTGGTTCGGTTATTTTTTTGA
1 AAAAAATTTGGTTCGGTTATTTTTTTGA
*
946838 AAACAAATTCGGTTCGGTTA
1 AAA-AAATTTGGTTCGGTTA
946858 ACGGTTAAGG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 30 0.67
29 15 0.33
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.45
Consensus pattern (28 bp):
AAAAAATTTGGTTCGGTTATTTTTTTGA
Found at i:947081 original size:19 final size:20
Alignment explanation
Indices: 947053--947096 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
947043 TTAATCCATT
*
947053 TTTAATATTTT-CAAAAAAA
1 TTTAACATTTTACAAAAAAA
947072 TTTAACATTTTAACAAAAAAA
1 TTTAACATTTT-ACAAAAAAA
947093 TTTA
1 TTTA
947097 TTAACTAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.45
21 12 0.55
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTAACATTTTACAAAAAAA
Found at i:948446 original size:13 final size:13
Alignment explanation
Indices: 948428--948452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
948418 TATTGCTATA
948428 TTTATTAAATTTT
1 TTTATTAAATTTT
948441 TTTATTAAATTT
1 TTTATTAAATTT
948453 ACTAGCGCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTATTAAATTTT
Found at i:951317 original size:21 final size:21
Alignment explanation
Indices: 951291--951330 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
951281 ATCTGCTCAA
* *
951291 ACTCCACCTGTTTTGGAGTGC
1 ACTCCACCTGCTGTGGAGTGC
951312 ACTCCACCTGCTGTGGAGT
1 ACTCCACCTGCTGTGGAGT
951331 ATCGCTCGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.30, G:0.25, T:0.30
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTGC
Found at i:958203 original size:19 final size:18
Alignment explanation
Indices: 958179--958225 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
958169 ATAAATAAGA
958179 ATAAATATTAAAATTATAC
1 ATAAATATTAAAATTA-AC
* *
958198 ATAAAT-TTTAATTTAAC
1 ATAAATATTAAAATTAAC
958215 ATATAATATTA
1 ATA-AATATTA
958226 TGTATAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 5 0.22
18 10 0.43
19 8 0.35
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAAATATTAAAATTAAC
Found at i:959012 original size:15 final size:15
Alignment explanation
Indices: 958994--959028 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
958984 ATATCGACTC
958994 AAAAAAGAAGAAAAG
1 AAAAAAGAAGAAAAG
*
959009 AAAAAATAAGAAAAG
1 AAAAAAGAAGAAAAG
959024 AAAAA
1 AAAAA
959029 CCCTTTCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (15 bp):
AAAAAAGAAGAAAAG
Found at i:986818 original size:12 final size:13
Alignment explanation
Indices: 986796--986871 Score: 59
Period size: 13 Copynumber: 5.9 Consensus size: 13
986786 TTTGGCAATC
986796 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
986809 CTTTTG-AAAGTG
1 CTTTTGAAAAGTG
*
986821 C-TGTGAAAAAGTG
1 CTTTTG-AAAAGTG
* * *
986834 C-TGTGAAAAAATA
1 CTTTTG-AAAAGTG
*
986847 CTTCTGAAAAGTG
1 CTTTTGAAAAGTG
*
986860 TTTTTGAAAAGT
1 CTTTTGAAAAGT
986872 TTGGTTTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
11 3 0.06
12 7 0.13
13 39 0.75
14 3 0.06
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:999628 original size:42 final size:42
Alignment explanation
Indices: 999569--999653 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
999559 TCACCAGGCG
*
999569 TAACATTGGGTCTAGTGAAATTACGCTCAACAAAAATAAAAT
1 TAACATTGGGTCTAGTGAAATAACGCTCAACAAAAATAAAAT
999611 TAACATTGGGTCTAGTGAAATAACGCTCAACAAAAATAAAAT
1 TAACATTGGGTCTAGTGAAATAACGCTCAACAAAAATAAAAT
999653 T
1 T
999654 TACTTCTGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (42 bp):
TAACATTGGGTCTAGTGAAATAACGCTCAACAAAAATAAAAT
Found at i:1002252 original size:72 final size:72
Alignment explanation
Indices: 1002135--1002282 Score: 251
Period size: 72 Copynumber: 2.1 Consensus size: 72
1002125 CAATTTCTTC
* *
1002135 CAAACTTGACATACTCCCCATCCACCTTGGTATGTCCCCAGAAAGCTCGTTATTGCTTAAATCCA
1 CAAACTTGACATACTCCCCATCCACCTTGGTATCTCCCCAGAAAGCACGTTATTGCTTAAATCCA
1002200 ATGTTGA
66 ATGTTGA
* * *
1002207 CAAACTTGACATATTCTCCATCCACCTTGGTATCTCCCCAGAAAGCACGTTTTTGCTTAAATCCA
1 CAAACTTGACATACTCCCCATCCACCTTGGTATCTCCCCAGAAAGCACGTTATTGCTTAAATCCA
1002272 ATGTTGA
66 ATGTTGA
1002279 CAAA
1 CAAA
1002283 AAGAAGCAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (72 bp):
CAAACTTGACATACTCCCCATCCACCTTGGTATCTCCCCAGAAAGCACGTTATTGCTTAAATCCA
ATGTTGA
Found at i:1004676 original size:16 final size:16
Alignment explanation
Indices: 1004657--1004688 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1004647 ATTTTAAGTA
1004657 ACTTTAGTTTTTTTTT
1 ACTTTAGTTTTTTTTT
1004673 ACTTTAGTTTTTTTTT
1 ACTTTAGTTTTTTTTT
1004689 GTTTTTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.75
Consensus pattern (16 bp):
ACTTTAGTTTTTTTTT
Found at i:1004761 original size:11 final size:12
Alignment explanation
Indices: 1004733--1004761 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1004723 GTTATTAATA
1004733 TAATTTAGTTCT
1 TAATTTAGTTCT
1004745 TAATTTAGTTC-
1 TAATTTAGTTCT
1004756 TAATTT
1 TAATTT
1004762 GTTTCAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (12 bp):
TAATTTAGTTCT
Found at i:1009436 original size:50 final size:51
Alignment explanation
Indices: 1009359--1009487 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
1009349 GACCATGGCA
1009359 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
1009410 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
1009460 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
1009488 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:1009501 original size:31 final size:31
Alignment explanation
Indices: 1009463--1009580 Score: 164
Period size: 31 Copynumber: 3.8 Consensus size: 31
1009453 ACAAATGACA
* *
1009463 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1009494 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* * *
1009525 AGTGAAAAATGGTTGCACCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* * *
1009556 AGTGAATAGTGGTAGTTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
1009581 AAGTGACAAG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:1009713 original size:42 final size:41
Alignment explanation
Indices: 1009652--1009743 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 41
1009642 TATGTGATTC
*
1009652 GTGTAAGACCATAACTGGGCTATGGCATCGATATA-TGAATAT
1 GTGTAAGACCATAACTGGGCTATGGCATC-AT-TACTGAAGAT
**
1009694 GTGTAAGACCATAGTTGGGCTATGGCATCATTACGTGAAGAT
1 GTGTAAGACCATAACTGGGCTATGGCATCATTAC-TGAAGAT
1009736 GTGTAAGA
1 GTGTAAGA
1009744 GCATGAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
40 2 0.04
41 2 0.04
42 41 0.91
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (41 bp):
GTGTAAGACCATAACTGGGCTATGGCATCATTACTGAAGAT
Found at i:1009909 original size:50 final size:51
Alignment explanation
Indices: 1009832--1009960 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
1009822 GACCATGGCA
1009832 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
1009883 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
1009933 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
1009961 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:1009974 original size:31 final size:31
Alignment explanation
Indices: 1009936--1010053 Score: 182
Period size: 31 Copynumber: 3.8 Consensus size: 31
1009926 ACAAATGACA
* *
1009936 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1009967 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
1009998 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* * *
1010029 AGTGAATAGTGGTAGTTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
1010054 AAGTGACAAG
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 80 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:1010155 original size:473 final size:473
Alignment explanation
Indices: 1009265--1010216 Score: 1850
Period size: 473 Copynumber: 2.0 Consensus size: 473
1009255 CGTGAATAAC
*
1009265 GTAAAAGCATGAAAATTGAATAAATGATCAAATTGAGCATTTTAATTCAGTGACAAGATGAATTG
1 GTAAGAGCATGAAAATTGAATAAATGATCAAATTGAGCATTTTAATTCAGTGACAAGATGAATTG
1009330 AAGGAAAAGACCATGGTTGGACCATGGCAACAAGTGATAAGTGATAGCTTCGGCTACACTTATCT
66 AAGGAAAAGACCATGGTTGGACCATGGCAACAAGTGATAAGTGATAGCTTCGGCTACACTTATCT
1009395 GATCAAGGAAAAGTGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
131 GATCAAGGAAAAGTGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1009460 ACAAGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTGATC
196 ACAAGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
1009525 AGTGAAAAATGGTTGCACCGGCTACCTGATCAGTGAATAGTGGTAGTTTCGGCTACAAGTGACAA
261 AGTGAAAAATGGTAGCACCGGCTACCTGATCAGTGAATAGTGGTAGTTTCGGCTACAAGTGACAA
1009590 GTGAAAAGTGATTTCCGTACAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTCGTG
326 GTGAAAAGTGATTTCCGTACAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTCGTG
1009655 TAAGACCATAACTGGGCTATGGCATCGATATATGAATATGTGTAAGACCATAGTTGGGCTATGGC
391 TAAGACCATAACTGGGCTATGGCATCGATATATGAATATGTGTAAGACCATAGTTGGGCTATGGC
1009720 ATCATTACGTGAAGATGT
456 ATCATTACGTGAAGATGT
*
1009738 GTAAGAGCATGAAAATTGAATAAATGATCAAATTGAGCATTTTAGTTCAGTGACAAGATGAATTG
1 GTAAGAGCATGAAAATTGAATAAATGATCAAATTGAGCATTTTAATTCAGTGACAAGATGAATTG
1009803 AAGGAAAAGACCATGGTTGGACCATGGCAACAAGTGATAAGTGATAGCTTCGGCTACACTTATCT
66 AAGGAAAAGACCATGGTTGGACCATGGCAACAAGTGATAAGTGATAGCTTCGGCTACACTTATCT
1009868 GATCAAGGAAAAGTGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
131 GATCAAGGAAAAGTGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1009933 ACAAGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTGATC
196 ACAAGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
1009998 AGTGAAAAATGGTAGCTCCGGCTACCTGATCAGTGAATAGTGGTAGTTTCGGCTACAAGTGACAA
261 AGTGAAAAATGGTAGCACCGGCTACCTGATCAGTGAATAGTGGTAGTTTCGGCTACAAGTGACAA
*
1010063 GTGAAAAGTGATTTCCGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTCGTG
326 GTGAAAAGTGATTTCCGTACAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTCGTG
1010128 TAAGACCATAACTGGGCTATGGCATCGATATATGAATATGTGTAAGACCATAGTTGGGCTATGGC
391 TAAGACCATAACTGGGCTATGGCATCGATATATGAATATGTGTAAGACCATAGTTGGGCTATGGC
*
1010193 ATCATTATGTGAAGATGT
456 ATCATTACGTGAAGATGT
1010211 GTAAGA
1 GTAAGA
1010217 CCACAGTTGA
Statistics
Matches: 473, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
473 473 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (473 bp):
GTAAGAGCATGAAAATTGAATAAATGATCAAATTGAGCATTTTAATTCAGTGACAAGATGAATTG
AAGGAAAAGACCATGGTTGGACCATGGCAACAAGTGATAAGTGATAGCTTCGGCTACACTTATCT
GATCAAGGAAAAGTGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
ACAAGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTGATC
AGTGAAAAATGGTAGCACCGGCTACCTGATCAGTGAATAGTGGTAGTTTCGGCTACAAGTGACAA
GTGAAAAGTGATTTCCGTACAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTCGTG
TAAGACCATAACTGGGCTATGGCATCGATATATGAATATGTGTAAGACCATAGTTGGGCTATGGC
ATCATTACGTGAAGATGT
Found at i:1010186 original size:42 final size:43
Alignment explanation
Indices: 1010125--1010239 Score: 153
Period size: 42 Copynumber: 2.7 Consensus size: 43
1010115 TATGTGATTC
** *
1010125 GTGTAAGACCATAACTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
*
1010167 GTGTAAGACCATAGTTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
* **
1010209 GTGTAAGACCACAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGTTGGGCTATGGCATCGA
1010240 GAAAACGAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 62 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
Found at i:1018622 original size:24 final size:23
Alignment explanation
Indices: 1018579--1018626 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
1018569 GTATAAATCA
1018579 TTATTTTAATAATAAAAGTAAAT
1 TTATTTTAATAATAAAAGTAAAT
*
1018602 TTATATTTAA-AATTAAGAGTAAAT
1 TTAT-TTTAATAA-TAAAAGTAAAT
1018626 T
1 T
1018627 ATAAATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (23 bp):
TTATTTTAATAATAAAAGTAAAT
Found at i:1021389 original size:3 final size:3
Alignment explanation
Indices: 1021381--1021508 Score: 63
Period size: 3 Copynumber: 43.0 Consensus size: 3
1021371 TTTATTACTG
* * * *
1021381 TTA TTA TTA -TA TTT TTA TTA GTG TT- CTA TTA TTA TTA TT- TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * *
1021425 TGA TGC TTA -TA TATA TATA TTA -TA TTA TATA GTA TTA TTA ATA GCTT-
1 TTA TTA TTA TTA T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA --TTA
*
1021472 TTA ATA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
1021509 GTGTATATTT
Statistics
Matches: 96, Mismatches: 17, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
2 12 0.12
3 71 0.74
4 12 0.12
5 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:1021405 original size:23 final size:26
Alignment explanation
Indices: 1021371--1021421 Score: 72
Period size: 23 Copynumber: 2.1 Consensus size: 26
1021361 TGCTATTACA
1021371 TTTATTACTG-T-TATTATTA-TATT
1 TTTATTACTGTTCTATTATTATTATT
*
1021394 TTTATTAGTGTTCTATTATTATTATT
1 TTTATTACTGTTCTATTATTATTATT
1021420 TT
1 TT
1021422 ATTTGATGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 9 0.38
24 1 0.04
25 8 0.33
26 6 0.25
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (26 bp):
TTTATTACTGTTCTATTATTATTATT
Found at i:1021455 original size:12 final size:13
Alignment explanation
Indices: 1021381--1021508 Score: 73
Period size: 12 Copynumber: 10.2 Consensus size: 13
1021371 TTTATTACTG
1021381 TTATTATTATAT-
1 TTATTATTATATA
*
1021393 TT-TTATTAGTGT-
1 TTATTATTA-TATA
1021405 TCTATTATTAT-TA
1 T-TATTATTATATA
*
1021418 TT-TTATT-TGATGC
1 TTATTATTAT-AT-A
1021431 TTA-TATATATATA
1 TTATTAT-TATATA
1021444 TTA-TATTATATA
1 TTATTATTATATA
*
1021456 GTATTATTA-ATA
1 TTATTATTATATA
*
1021468 GCTT-TTAATAT-TA
1 --TTATTATTATATA
1021481 TTATTATTAT-TA
1 TTATTATTATATA
1021493 TTATTATTATATA
1 TTATTATTATATA
1021506 TTA
1 TTA
1021509 GTGTATATTT
Statistics
Matches: 93, Mismatches: 7, Indels: 31
0.71 0.05 0.24
Matches are distributed among these distances:
10 1 0.01
11 13 0.14
12 37 0.40
13 31 0.33
14 10 0.11
15 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (13 bp):
TTATTATTATATA
Found at i:1021617 original size:3 final size:3
Alignment explanation
Indices: 1021609--1021650 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
1021599 TGTATTTCTA
* *
1021609 TAT TAT TAT TAT TAT TAT TAT CAC TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1021651 ATAGTAGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1021829 original size:12 final size:12
Alignment explanation
Indices: 1021812--1021836 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1021802 GTATTATGTT
1021812 TTTTTAATACCA
1 TTTTTAATACCA
1021824 TTTTTAATACCA
1 TTTTTAATACCA
1021836 T
1 T
1021837 GCACGTTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTTAATACCA
Found at i:1027714 original size:19 final size:20
Alignment explanation
Indices: 1027680--1027718 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1027670 TAAAAATCTT
1027680 AGAGAAAGTGTGAGAGAAAA
1 AGAGAAAGTGTGAGAGAAAA
*
1027700 AGAGAAA-TTTGAGAGAAAA
1 AGAGAAAGTGTGAGAGAAAA
1027719 GTGACGAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.31, T:0.13
Consensus pattern (20 bp):
AGAGAAAGTGTGAGAGAAAA
Found at i:1030756 original size:7 final size:7
Alignment explanation
Indices: 1030736--1030774 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
1030726 CAGAGAAGGA
1030736 GAGGGA-
1 GAGGGAC
1030742 GAGGGAC
1 GAGGGAC
*
1030749 GGGGGAC
1 GAGGGAC
1030756 GAGGGAC
1 GAGGGAC
1030763 GAGGGAC
1 GAGGGAC
1030770 G-GGGA
1 GAGGGA
1030775 TGGTGGTGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 10 0.33
7 20 0.67
ACGTcount: A:0.26, C:0.10, G:0.64, T:0.00
Consensus pattern (7 bp):
GAGGGAC
Done.