Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 78 of 207
Found at i:22698266 original size:16 final size:16
Alignment explanation
Indices: 22698235--22698276 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
22698225 GCGCATGAAT
*
22698235 ATAAGAATAA-AAATA
1 ATAATAATAATAAATA
22698250 ATAATAATAATAAATA
1 ATAATAATAATAAATA
22698266 ATAATAATAAT
1 ATAATAATAAT
22698277 GATACAAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
ATAATAATAATAAATA
Found at i:22698775 original size:19 final size:19
Alignment explanation
Indices: 22698751--22698804 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
22698741 AATCATATCT
22698751 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
22698770 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
22698789 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
22698805 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:22698800 original size:38 final size:40
Alignment explanation
Indices: 22698728--22698804 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
22698718 AAATTAAATC
22698728 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
22698770 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
22698805 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:22703198 original size:32 final size:32
Alignment explanation
Indices: 22703162--22703230 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
22703152 CACAAGCGAG
* *
22703162 CCTAGGTTCACACATGTTAATCTTTTGGTGAA
1 CCTAGGTCCACACATGCTAATCTTTTGGTGAA
** *
22703194 CCTAGGTCCGTACATGCTAGTCTTTTGGTGAA
1 CCTAGGTCCACACATGCTAATCTTTTGGTGAA
22703226 CCTAG
1 CCTAG
22703231 TTTCCTTTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (32 bp):
CCTAGGTCCACACATGCTAATCTTTTGGTGAA
Found at i:22705671 original size:5 final size:5
Alignment explanation
Indices: 22705661--22705685 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
22705651 CTCGAAAGCA
22705661 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
22705686 TTAAGTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:22706113 original size:24 final size:24
Alignment explanation
Indices: 22706086--22706132 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
22706076 TAACATATTT
*
22706086 AATTTTATTTAATTTAACTCGAAC
1 AATTTTATTTAATTCAACTCGAAC
*
22706110 AATTTTATTTAATTCAATTCGAA
1 AATTTTATTTAATTCAACTCGAA
22706133 ATTAATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (24 bp):
AATTTTATTTAATTCAACTCGAAC
Found at i:22713142 original size:30 final size:30
Alignment explanation
Indices: 22713076--22713142 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
22713066 TAGTTTAATG
*
22713076 TGTAATTTGTATACATGAAATTTGATTTTG
1 TGTAATTTGTATACATGAAATTTGATTTTA
22713106 TGTAATTT-TATACAT-AAATTTTTGATTTTA
1 TGTAATTTGTATACATGAAA--TTTGATTTTA
*
22713136 TTTAATT
1 TGTAATT
22713143 CTTGTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 3 0.09
29 7 0.21
30 23 0.70
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.55
Consensus pattern (30 bp):
TGTAATTTGTATACATGAAATTTGATTTTA
Found at i:22724618 original size:116 final size:113
Alignment explanation
Indices: 22724469--22724694 Score: 355
Period size: 116 Copynumber: 2.0 Consensus size: 113
22724459 TGAATGAAAC
* *
22724469 AATTGTATAGACCGGATTGGATCAAACCAGAGATAGTTGGGAAAAAACAAAAATTTTAGATTAGT
1 AATTGTATAGACAGGATTGGATCAAACCAGAGATAATTGGGAAAAAACAAAAATTTTAGATTAGT
* *
22724534 CCTTAAAGTTTCAACTTGCTTGCTATTTTT-CTCAGGTAGGTTCATAAAT
66 CCTTAAAGTTTCAACTTG-TTACTATTTTTCCT-AAGTAGGTTCATAAAT
* *
22724583 AATTGTATAGACTAGGAATTGGATCAAACCAGAGATAATTGGGGAAAAGCAAAAATTTTAGATTA
1 AATTGTATAGAC-AGG-ATTGGATCAAACCAGAGATAATTGGGAAAAAACAAAAATTTTAGATTA
22724648 GTCCTTAAAGTTTCAACTTGTTACTATTTTTCCTAAGTAGGTTCATA
64 GTCCTTAAAGTTTCAACTTGTTACTATTTTTCCTAAGTAGGTTCATA
22724695 TAGTACTTAC
Statistics
Matches: 103, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
114 12 0.12
115 24 0.23
116 67 0.65
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (113 bp):
AATTGTATAGACAGGATTGGATCAAACCAGAGATAATTGGGAAAAAACAAAAATTTTAGATTAGT
CCTTAAAGTTTCAACTTGTTACTATTTTTCCTAAGTAGGTTCATAAAT
Found at i:22728561 original size:39 final size:38
Alignment explanation
Indices: 22728507--22728639 Score: 149
Period size: 39 Copynumber: 3.4 Consensus size: 38
22728497 TATTATAGAT
* *
22728507 TATAATGAGATCTAGCATTTGTTGCAGATCCTCGAGTAA
1 TATAACGAGATCTAGCATTTGTTGCAGATTCT-GAGTAA
* * *
22728546 TATAACAAGATCTAGCCTTTGTTGCAGATTCTTGGGTAA
1 TATAACGAGATCTAGCATTTGTTGCAGATTC-TGAGTAA
* * * *
22728585 TATAATGAGATCTAGCATCTATTGCAGATTCTTAGGTAA
1 TATAACGAGATCTAGCATTTGTTGCAGATTCTGA-GTAA
*
22728624 TATATCGAGATCTAGC
1 TATAACGAGATCTAGC
22728640 CCATTTTGTG
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
38 1 0.01
39 76 0.97
40 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (38 bp):
TATAACGAGATCTAGCATTTGTTGCAGATTCTGAGTAA
Found at i:22728661 original size:78 final size:78
Alignment explanation
Indices: 22728507--22728666 Score: 189
Period size: 78 Copynumber: 2.1 Consensus size: 78
22728497 TATTATAGAT
* * * *
22728507 TATAATGAGATCTAGCATTTGTTGCAGATCCTCGAGTAATATAACAAGATCTAGCCTTTGTTGCA
1 TATAATGAGATCTAGCATCTATTGCAGATCCTAGAGTAATATAACAAGATCTAGCCATTGTTGCA
*
22728572 GATTCTTGGGTAA
66 GATTCTCGGGTAA
* * *
22728585 TATAATGAGATCTAGCATCTATTGCAGATTCTTAG-GTAATATATCGAGATCTAGCCCATT-TTG
1 TATAATGAGATCTAGCATCTATTGCAGA-TCCTAGAGTAATATAACAAGATCTAG-CCATTGTTG
** *
22728648 TGGGTTCTCGGGTAA
64 CAGATTCTCGGGTAA
22728663 TATA
1 TATA
22728667 TGACATGGTT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
78 61 0.88
79 8 0.12
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.36
Consensus pattern (78 bp):
TATAATGAGATCTAGCATCTATTGCAGATCCTAGAGTAATATAACAAGATCTAGCCATTGTTGCA
GATTCTCGGGTAA
Found at i:22730506 original size:19 final size:20
Alignment explanation
Indices: 22730482--22730521 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
22730472 TGAGCTAGTT
*
22730482 GGAGCTGGAA-TGAGCTAAA
1 GGAGCTGAAATTGAGCTAAA
22730501 GGAGCTGAAATTGAGCTAAA
1 GGAGCTGAAATTGAGCTAAA
22730521 G
1 G
22730522 TCAGCTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.10, G:0.35, T:0.17
Consensus pattern (20 bp):
GGAGCTGAAATTGAGCTAAA
Found at i:22737575 original size:89 final size:89
Alignment explanation
Indices: 22737424--22737602 Score: 331
Period size: 89 Copynumber: 2.0 Consensus size: 89
22737414 GCTCATATGT
** *
22737424 ATATAAATTATTAACTTACCTTATATAACAAGTACATAGGTTAAACTAATGTGTATAATCAAATT
1 ATATAAACGATTAACTTACCTTATATAACAAGTACATAGGTCAAACTAATGTGTATAATCAAATT
22737489 TACCTAACATATCAAAACGCAATC
66 TACCTAACATATCAAAACGCAATC
22737513 ATATAAACGATTAACTTACCTTATATAACAAGTACATAGGTCAAACTAATGTGTATAATCAAATT
1 ATATAAACGATTAACTTACCTTATATAACAAGTACATAGGTCAAACTAATGTGTATAATCAAATT
22737578 TACCTAACATATCAAAACGCAATC
66 TACCTAACATATCAAAACGCAATC
22737602 A
1 A
22737603 CAATCAAGTG
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (89 bp):
ATATAAACGATTAACTTACCTTATATAACAAGTACATAGGTCAAACTAATGTGTATAATCAAATT
TACCTAACATATCAAAACGCAATC
Found at i:22738508 original size:35 final size:35
Alignment explanation
Indices: 22738462--22738531 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
22738452 AAAACATACA
22738462 TAGATTCACAATATAAAATCTATAATGATTTAAAC
1 TAGATTCACAATATAAAATCTATAATGATTTAAAC
*
22738497 TAGATTCACAATATAAAATTTATAATGATTTAAAC
1 TAGATTCACAATATAAAATCTATAATGATTTAAAC
22738532 ATAATTACCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.36
Consensus pattern (35 bp):
TAGATTCACAATATAAAATCTATAATGATTTAAAC
Found at i:22742612 original size:9 final size:9
Alignment explanation
Indices: 22742594--22742630 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
22742584 TATAGTTTGA
*
22742594 TATTCAAAT
1 TATTCGAAT
22742603 TATTCGAAT
1 TATTCGAAT
*
22742612 TATTCGAGT
1 TATTCGAAT
22742621 TATTCGAAT
1 TATTCGAAT
22742630 T
1 T
22742631 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:22743600 original size:7 final size:7
Alignment explanation
Indices: 22743590--22743614 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22743580 TTTATTTTGA
22743590 ATTTAGG
1 ATTTAGG
22743597 ATTTAGG
1 ATTTAGG
22743604 ATTTAGG
1 ATTTAGG
22743611 ATTT
1 ATTT
22743615 TTTTTAAGTA
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:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (7 bp):
ATTTAGG
Found at i:22744339 original size:20 final size:20
Alignment explanation
Indices: 22744260--22744335 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
22744250 CCTCATCAAA
*
22744260 TTATTTTATTAATAAAATAT
1 TTATTTTATTAATATAATAT
* *
22744280 TT-TTATTATTCATGTAATAT
1 TTATT-TTATTAATATAATAT
22744300 TTATTTTTATTAAT-TAATAT
1 TTA-TTTTATTAATATAATAT
22744320 TTATTTTA-TAATATAA
1 TTATTTTATTAATATAA
22744336 ATATGGGTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
18 4 0.08
19 10 0.21
20 25 0.52
21 7 0.15
22 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (20 bp):
TTATTTTATTAATATAATAT
Found at i:22744636 original size:23 final size:24
Alignment explanation
Indices: 22744594--22744640 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
22744584 TATAAAATAT
22744594 TAAAAACTTTCATAAAATTATAAA
1 TAAAAACTTTCATAAAATTATAAA
22744618 TAAAAAC-TT-ATAAATATTATAAA
1 TAAAAACTTTCATAAA-ATTATAAA
22744641 AACTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 10 0.45
24 7 0.32
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (24 bp):
TAAAAACTTTCATAAAATTATAAA
Found at i:22744639 original size:9 final size:9
Alignment explanation
Indices: 22744617--22744670 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
22744607 AAAATTATAA
22744617 ATAAAAACTT
1 ATAAAAA-TT
*
22744627 ATAAATATT
1 ATAAAAATT
*
22744636 ATAAAAACT
1 ATAAAAATT
22744645 ATAAAAATT
1 ATAAAAATT
* *
22744654 CTAATAATT
1 ATAAAAATT
22744663 ATAAAAAT
1 ATAAAAAT
22744671 AAAAATAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
9 30 0.83
10 6 0.17
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:22745421 original size:20 final size:20
Alignment explanation
Indices: 22745398--22745435 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22745388 TTCTAATAAA
*
22745398 TTATAAAAAAATTGTAAATT
1 TTATAAAAAAATTATAAATT
*
22745418 TTATAATAAAATTATAAA
1 TTATAAAAAAATTATAAA
22745436 ATATTAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
TTATAAAAAAATTATAAATT
Found at i:22746160 original size:9 final size:9
Alignment explanation
Indices: 22746146--22746292 Score: 66
Period size: 9 Copynumber: 15.6 Consensus size: 9
22746136 TAAACGATTT
22746146 TTTTTATAA
1 TTTTTATAA
*
22746155 TTTTTATAC
1 TTTTTATAA
**
22746164 TTTTTA-GC
1 TTTTTATAA
*
22746172 TTTTTATGA
1 TTTTTATAA
*
22746181 TTTATTAGAA
1 TTT-TTATAA
*
22746191 TTTATAT-A
1 TTTTTATAA
22746199 TTATTTATAA
1 TT-TTTATAA
* *
22746209 ATTTTAGTGA
1 TTTTTA-TAA
*
22746219 TTTTTTTAA
1 TTTTTATAA
22746228 GTTTTTATAAA
1 -TTTTTAT-AA
* *
22746239 ATTTTAAATA
1 TTTTTATA-A
22746249 TGTTTTATAAA
1 T-TTTTAT-AA
*
22746260 TTGTATCATAA
1 TT-T-TTATAA
*
22746271 TTTAT-TAA
1 TTTTTATAA
22746279 TTTTTATAA
1 TTTTTATAA
22746288 TTTTT
1 TTTTT
22746293 TGTAAAATTT
Statistics
Matches: 103, Mismatches: 22, Indels: 26
0.68 0.15 0.17
Matches are distributed among these distances:
8 17 0.17
9 39 0.38
10 29 0.28
11 14 0.14
12 4 0.04
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:22746381 original size:20 final size:19
Alignment explanation
Indices: 22746348--22746387 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22746338 TTATTTTTTT
*
22746348 ATTTTTTAACATTTTTATG
1 ATTTTTTAACATTTCTATG
*
22746367 ATTTTTTAATGATTTCTATG
1 ATTTTTTAA-CATTTCTATG
22746387 A
1 A
22746388 GAAAATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (19 bp):
ATTTTTTAACATTTCTATG
Found at i:22747098 original size:26 final size:24
Alignment explanation
Indices: 22747053--22747106 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 24
22747043 TAATATTCAT
**
22747053 TTATTATAATAAATTTTTAAAAAA
1 TTATTATAATAAATAATTAAAAAA
*
22747077 TTATTATAAAATAAATAATTAAAATA
1 TTATTAT--AATAAATAATTAAAAAA
22747103 TTAT
1 TTAT
22747107 CATACATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.28
26 18 0.72
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TTATTATAATAAATAATTAAAAAA
Found at i:22755739 original size:101 final size:101
Alignment explanation
Indices: 22755559--22755760 Score: 395
Period size: 101 Copynumber: 2.0 Consensus size: 101
22755549 CATCCCTACA
22755559 CGCCATATAGTGTTGATATGACACATCACAGATAATATGCAGTCGAGCTGCTAGAATATAGGCGA
1 CGCCATATAGTGTTGATATGACACATCACAGATAATATGCAGTCGAGCTGCTAGAATATAGGCGA
22755624 AAGGTTATCATACAGATCACTTCCTCCACATATACG
66 AAGGTTATCATACAGATCACTTCCTCCACATATACG
22755660 CGCCATATAGTGTTGATATGACACATCACAGATAATATGCAGTCGAGCTGCTAGAATATAGGCGA
1 CGCCATATAGTGTTGATATGACACATCACAGATAATATGCAGTCGAGCTGCTAGAATATAGGCGA
*
22755725 AAGGTTATCGTACAGATCACTTCCTCCACATATACG
66 AAGGTTATCATACAGATCACTTCCTCCACATATACG
22755761 ATTCTCACCC
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (101 bp):
CGCCATATAGTGTTGATATGACACATCACAGATAATATGCAGTCGAGCTGCTAGAATATAGGCGA
AAGGTTATCATACAGATCACTTCCTCCACATATACG
Found at i:22768167 original size:13 final size:13
Alignment explanation
Indices: 22768149--22768173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22768139 TTTATTAGTG
22768149 AAAGAGTACATAT
1 AAAGAGTACATAT
22768162 AAAGAGTACATA
1 AAAGAGTACATA
22768174 CAAATTTGAT
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:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (13 bp):
AAAGAGTACATAT
Found at i:22768254 original size:20 final size:20
Alignment explanation
Indices: 22768192--22768254 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
22768182 ATACTAATAT
22768192 ATAATTATGTTCAACCTTTA
1 ATAATTATGTTCAACCTTTA
* *
22768212 ATTGATATTA--TTCAA-ATAATA
1 A-T-A-ATTATGTTCAACCT-TTA
22768233 ATAATTATGTTCAACCTTTA
1 ATAATTATGTTCAACCTTTA
22768253 AT
1 AT
22768255 TATGTTCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
18 4 0.12
19 1 0.03
20 12 0.38
21 10 0.31
22 1 0.03
23 4 0.12
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (20 bp):
ATAATTATGTTCAACCTTTA
Found at i:22768826 original size:15 final size:15
Alignment explanation
Indices: 22768806--22768836 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22768796 CCAACCTTCA
22768806 AATTTTAGGTCAATT
1 AATTTTAGGTCAATT
22768821 AATTTTAGGTCAATT
1 AATTTTAGGTCAATT
22768836 A
1 A
22768837 TACATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (15 bp):
AATTTTAGGTCAATT
Found at i:22770427 original size:11 final size:11
Alignment explanation
Indices: 22770411--22770437 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
22770401 TAGAAATTAG
22770411 TTTGTGAAACT
1 TTTGTGAAACT
22770422 TTTGTGAAACT
1 TTTGTGAAACT
22770433 TTTGT
1 TTTGT
22770438 ATTGATTTTT
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:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:22771962 original size:91 final size:92
Alignment explanation
Indices: 22771834--22772026 Score: 300
Period size: 91 Copynumber: 2.1 Consensus size: 92
22771824 TTGATTTTAG
* * *
22771834 TAAATTCATATAAGAAAATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCTTATAAGAAAATGTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* *
22771899 ATTTAAT-ATTAATTATTTTAAATTGTA
66 ATGTAATAATT-ATTATTTTAAATTATA
*
22771926 TAAATTCTTATAAGAAAA-GTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTAT
1 TAAATTCTTATAAGAAAATGTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
22771990 ATGTAATAATTATTATTTTAAATTATA
66 ATGTAATAATTATTATTTTAAATTATA
*
22772017 CAAATTCTTA
1 TAAATTCTTA
22772027 AAATATAATT
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
91 73 0.78
92 20 0.22
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (92 bp):
TAAATTCTTATAAGAAAATGTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:22772459 original size:45 final size:44
Alignment explanation
Indices: 22772377--22772467 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 44
22772367 ACCTCTATTC
*
22772377 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACCATTACGCCTCTATTCCATTA
*
22772421 CATTCAACCAAACA-AATGATTTGCCATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAA-GA-TTACCATTACGCCTCTATTCCATTA
22772466 CA
1 CA
22772468 GCGAACCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 2 0.05
44 16 0.37
45 25 0.58
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACCATTACGCCTCTATTCCATTA
Found at i:22779347 original size:31 final size:31
Alignment explanation
Indices: 22779271--22779363 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 31
22779261 AAACCTTTTT
* * *
22779271 ACTTTTCCCTTAAAACTTTTACT-CTTTCTC
1 ACTTTTCCCCTAAAACTTTTACTCCCTTCCC
* * *
22779301 ACTTTCCCCCCAAAACTTTTACTCCCCTCCC
1 ACTTTTCCCCTAAAACTTTTACTCCCTTCCC
*
22779332 ACTTTTCCCCTAAAACTTTTATTCCCTTCCC
1 ACTTTTCCCCTAAAACTTTTACTCCCTTCCC
22779363 A
1 A
22779364 TCCCACCTCT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
30 20 0.38
31 32 0.62
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
ACTTTTCCCCTAAAACTTTTACTCCCTTCCC
Found at i:22779470 original size:17 final size:17
Alignment explanation
Indices: 22779443--22779503 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
22779433 ACTCCCCCTA
22779443 TTTACTTTCCCTCAAACT
1 TTTACTTTCCC-CAAACT
*
22779461 TTTA-TTTCCCAAAACTT
1 TTTACTTTCCCCAAAC-T
*
22779478 TTTATTTTCCCCCTAAACT
1 TTTACTTT-CCCC-AAACT
22779497 TTTACTT
1 TTTACTT
22779504 CTCACCCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 4 0.11
17 11 0.31
18 7 0.19
19 10 0.28
20 4 0.11
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTACTTTCCCCAAACT
Found at i:22781721 original size:18 final size:18
Alignment explanation
Indices: 22781698--22781732 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22781688 ATACATATAC
*
22781698 TTTTATAATTTATAATTT
1 TTTTATAATTTAAAATTT
*
22781716 TTTTATATTTTAAAATT
1 TTTTATAATTTAAAATT
22781733 ATATATATTT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTATAATTTAAAATTT
Found at i:22782219 original size:16 final size:16
Alignment explanation
Indices: 22782171--22782219 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
22782161 ACTAAAATAG
22782171 AAATA-AAATGATCTA
1 AAATAGAAATGATCTA
* *
22782186 AAA-CGAAAATAATC-A
1 AAATAG-AAATGATCTA
22782201 AAATAGAAATGATCTA
1 AAATAGAAATGATCTA
22782217 AAA
1 AAA
22782220 CGTTGACTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.20
Consensus pattern (16 bp):
AAATAGAAATGATCTA
Found at i:22783061 original size:14 final size:14
Alignment explanation
Indices: 22783023--22783062 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
22783013 ACAAAAAAGT
*
22783023 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
22783037 AAATCATTTTACGG
1 AAAACATTTTACAG
22783051 AAAACATTTTAC
1 AAAACATTTTAC
22783063 TGACAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:22794662 original size:23 final size:23
Alignment explanation
Indices: 22794632--22794676 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
22794622 ATAAGTTTTA
*
22794632 TGTGTGTTTTTTTTATGTTTATT
1 TGTGTGTTTATTTTATGTTTATT
*
22794655 TGTGTGTTTATTTTATTTTTAT
1 TGTGTGTTTATTTTATGTTTAT
22794677 GCAATTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.16, T:0.73
Consensus pattern (23 bp):
TGTGTGTTTATTTTATGTTTATT
Found at i:22795133 original size:9 final size:9
Alignment explanation
Indices: 22795119--22795149 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22795109 GTTAAACGAA
22795119 TCGAGTTAT
1 TCGAGTTAT
*
22795128 TCGAGTTAA
1 TCGAGTTAT
22795137 TCGAGTTAT
1 TCGAGTTAT
22795146 TCGA
1 TCGA
22795150 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:22795314 original size:30 final size:31
Alignment explanation
Indices: 22795280--22795340 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
22795270 AAACCTTTTT
*
22795280 ACTTTTCCCTCAAAACTTTTACTCCT-TCCC
1 ACTTTTCCCCCAAAACTTTTACTCCTCTCCC
22795310 ACTTTTCCCCCAAAACTTTTACTCCTCTCCC
1 ACTTTTCCCCCAAAACTTTTACTCCTCTCCC
22795341 CTCCTAACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.20, C:0.43, G:0.00, T:0.38
Consensus pattern (31 bp):
ACTTTTCCCCCAAAACTTTTACTCCTCTCCC
Found at i:22795615 original size:16 final size:18
Alignment explanation
Indices: 22795596--22795628 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
22795586 ACTTTCCCTC
22795596 AAACTTT-TA-TTCCCCA
1 AAACTTTCTATTTCCCCA
22795612 AAACTTTCTATTTCCCC
1 AAACTTTCTATTTCCCC
22795629 CCTAAACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (18 bp):
AAACTTTCTATTTCCCCA
Found at i:22799740 original size:38 final size:38
Alignment explanation
Indices: 22799679--22799795 Score: 162
Period size: 38 Copynumber: 3.1 Consensus size: 38
22799669 AACTTTTATT
* *
22799679 ACACCGGCAATAAGCCTGCTAGGCACCAAGCCTGAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAATA
** * **
22799717 ACATTGGCACTAAGCCTGCTAGGCATAAAGCCCAAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAATA
*
22799755 ACACCGGCACCAAGCCTGCTAGGCACAAAGCCTGAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAATA
22799793 ACA
1 ACA
22799796 GTATAATTCA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 66 1.00
ACGTcount: A:0.36, C:0.31, G:0.20, T:0.14
Consensus pattern (38 bp):
ACACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAATA
Found at i:22806391 original size:50 final size:50
Alignment explanation
Indices: 22806279--22806525 Score: 201
Period size: 50 Copynumber: 4.8 Consensus size: 50
22806269 ATTTGGGTAA
* * *
22806279 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTCTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATG
* **
22806335 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
22806385 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * * *
22806435 AGAACTCCCATGTAAGACCATATATGGGATATGACATTGGTA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * *
22806484 AAACATCCCATGTAAGATCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
22806526 TGTTATTATC
Statistics
Matches: 155, Mismatches: 35, Indels: 9
0.78 0.18 0.05
Matches are distributed among these distances:
48 1 0.01
49 35 0.23
50 77 0.50
52 1 0.01
53 2 0.01
55 1 0.01
56 38 0.25
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:22818699 original size:25 final size:25
Alignment explanation
Indices: 22818671--22818732 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
22818661 AAAAGCTGTA
22818671 AACGGTAAGCTCCTCCGAGC-CACAT
1 AACGGTAAGCTCCTCCGAGCTCA-AT
* *
22818696 AACGGTAAGCTCCTTCGAGCTGAAT
1 AACGGTAAGCTCCTCCGAGCTCAAT
*
22818721 AACTGTAAGCTC
1 AACGGTAAGCTC
22818733 ATGCAAGCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (25 bp):
AACGGTAAGCTCCTCCGAGCTCAAT
Found at i:22818741 original size:25 final size:24
Alignment explanation
Indices: 22818694--22818759 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
22818684 TCCGAGCCAC
* * *
22818694 ATAACGGTAAGCTCCTTCGAGCTGA
1 ATAAC-GTAAGCTCATGCAAGCTGA
22818719 ATAACTGTAAGCTCATGCAAGCTGA
1 ATAAC-GTAAGCTCATGCAAGCTGA
*
22818744 GTAACGATAAGCTCAT
1 ATAACG-TAAGCTCAT
22818760 ATGAGCTGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (24 bp):
ATAACGTAAGCTCATGCAAGCTGA
Found at i:22818766 original size:25 final size:23
Alignment explanation
Indices: 22818694--22818769 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 23
22818684 TCCGAGCCAC
*
22818694 ATAACGGTAAGCTCCTTCGAGCTGA
1 ATAAC-GTAAGCTCATT-GAGCTGA
22818719 ATAACTGTAAGCTCA-TGCAAGCTGA
1 ATAAC-GTAAGCTCATTG--AGCTGA
*
22818744 GTAACGATAAGCTCATATGAGCTGA
1 ATAACG-TAAGCTCAT-TGAGCTGA
22818769 A
1 A
22818770 ATCAGTAACC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
23 1 0.02
24 2 0.05
25 37 0.88
27 2 0.05
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (23 bp):
ATAACGTAAGCTCATTGAGCTGA
Found at i:22819664 original size:20 final size:19
Alignment explanation
Indices: 22819635--22819674 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
22819625 TAAAATATGA
*
22819635 TATCTTTAATGTATTTTAT
1 TATCTTTAATATATTTTAT
*
22819654 TATCATTTAATATGTTTTAT
1 TATC-TTTAATATATTTTAT
22819674 T
1 T
22819675 TAAATTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TATCTTTAATATATTTTAT
Found at i:22824954 original size:17 final size:17
Alignment explanation
Indices: 22824932--22824990 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
22824922 TACGAGTGGA
22824932 AAATATAATTATATAAT
1 AAATATAATTATATAAT
22824949 AAATAT-ATT-TATAA-
1 AAATATAATTATATAAT
* * *
22824963 AAATTTGATATAAATAAT
1 AAATATAAT-TATATAAT
*
22824981 AAATACAATT
1 AAATATAATT
22824991 TTATTTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 4 0.12
17 11 0.33
18 6 0.18
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
AAATATAATTATATAAT
Found at i:22826474 original size:62 final size:62
Alignment explanation
Indices: 22826408--22826546 Score: 143
Period size: 62 Copynumber: 2.2 Consensus size: 62
22826398 ATTTTTAAAA
* * * ** ** * *
22826408 TTTTTAGAGTTAGGACTGAATTGACTGATTTTGTAAATGTTGAGGGCTGAATTTATTGATTT
1 TTTTTAGAATTAGGACTAAAATGACAAATTTTGTAAACATTGAGGGCTGAATTTATTAAATT
* * * *
22826470 TTTTTAGAATTAGAACTAAAATGACAAATTTTTTAAACATTGAGGGCTTAATTTGTTAAATT
1 TTTTTAGAATTAGGACTAAAATGACAAATTTTGTAAACATTGAGGGCTGAATTTATTAAATT
* *
22826532 TTTTTATATTTAGGA
1 TTTTTAGAATTAGGA
22826547 TCAAAGTGAT
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (62 bp):
TTTTTAGAATTAGGACTAAAATGACAAATTTTGTAAACATTGAGGGCTGAATTTATTAAATT
Found at i:22829477 original size:3 final size:3
Alignment explanation
Indices: 22829469--22829540 Score: 57
Period size: 3 Copynumber: 26.0 Consensus size: 3
22829459 TTCCATTTTC
*
22829469 TCT TCT TCT TC- TCC TCT TCT TCT T-T TCT TCT T-T T-T TCT TCT TC-
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * * *
22829512 TCA TAT TCT TCT TTT TC- TCT TGT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
22829541 ACTGCCCAGA
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
2 12 0.21
3 44 0.79
ACGTcount: A:0.03, C:0.29, G:0.01, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:22829486 original size:11 final size:11
Alignment explanation
Indices: 22829466--22829523 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
22829456 TCCTTCCATT
22829466 TTCTCTTCTTC
1 TTCTCTTCTTC
*
22829477 TTCTCCTCTTC
1 TTCTCTTCTTC
*
22829488 TTCTTTTCTTC
1 TTCTCTTCTTC
*
22829499 TT-TTTTCTTC
1 TTCTCTTCTTC
* *
22829509 TTCTCATATTC
1 TTCTCTTCTTC
22829520 TTCT
1 TTCT
22829524 TTTTCTCTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
10 10 0.25
11 30 0.75
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (11 bp):
TTCTCTTCTTC
Found at i:22829648 original size:39 final size:40
Alignment explanation
Indices: 22829605--22829686 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 40
22829595 ATGTCATGTT
*
22829605 ACTTTTCCATTA-AGTTTATAACAGAAAATGGTTAAAATG
1 ACTTTTCCATTATAGTTTAAAACAGAAAATGGTTAAAATG
** ** *
22829644 ACTTTTTTATTATTTTTTAAAATAGAAAATGGTTAAAATG
1 ACTTTTCCATTATAGTTTAAAACAGAAAATGGTTAAAATG
22829684 ACT
1 ACT
22829687 CTTTTATTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 10 0.28
40 26 0.72
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.41
Consensus pattern (40 bp):
ACTTTTCCATTATAGTTTAAAACAGAAAATGGTTAAAATG
Found at i:22829672 original size:40 final size:40
Alignment explanation
Indices: 22829627--22829705 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
22829617 AGTTTATAAC
*
22829627 AGAAAATGGTTAAAATGACTTTTTTATTATTTTTTAAAAT
1 AGAAAATGGTTAAAATGACTCTTTTATTATTTTTTAAAAT
22829667 AGAAAATGGTTAAAATGACTCTTTTATTATTTTTTAAAA
1 AGAAAATGGTTAAAATGACTCTTTTATTATTTTTTAAAA
22829706 GTTGAGTGAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.46
Consensus pattern (40 bp):
AGAAAATGGTTAAAATGACTCTTTTATTATTTTTTAAAAT
Found at i:22832703 original size:59 final size:59
Alignment explanation
Indices: 22832611--22832730 Score: 213
Period size: 59 Copynumber: 2.0 Consensus size: 59
22832601 TTACATTGTT
* *
22832611 ATTCTCAACTATTATTGACTCTTCGTGTTCAACTTTGAAATTCATGCTTAGACGTCTCA
1 ATTCTCAACTATTATTGACTCTTCGTGTTCAACTTCGAAATTAATGCTTAGACGTCTCA
*
22832670 ATTCTCAGCTATTATTGACTCTTCGTGTTCAACTTCGAAATTAATGCTTAGACGTCTCA
1 ATTCTCAACTATTATTGACTCTTCGTGTTCAACTTCGAAATTAATGCTTAGACGTCTCA
22832729 AT
1 AT
22832731 CTTCGTAGAG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (59 bp):
ATTCTCAACTATTATTGACTCTTCGTGTTCAACTTCGAAATTAATGCTTAGACGTCTCA
Found at i:22834469 original size:42 final size:42
Alignment explanation
Indices: 22834421--22834643 Score: 207
Period size: 42 Copynumber: 5.3 Consensus size: 42
22834411 TCGGTTTATT
* *
22834421 TGATGATGCACTTACGTGTCAGTATATTTTCTTTGGTATATC
1 TGATGATGCACTTATGTGCCAGTATATTTTCTTTGGTATATC
* * * * *
22834463 TGATGATACACTTATGTGACAGTATATTTTCTTCGATATACC
1 TGATGATGCACTTATGTGCCAGTATATTTTCTTTGGTATATC
** *
22834505 CAATGATGCACTTATGTGCCAGTATATTTTCTTTGGTACATC
1 TGATGATGCACTTATGTGCCAGTATATTTTCTTTGGTATATC
* * * * ** * *
22834547 TGATAATGCACTTACGTGCCAGCATAATTGATTCGGTTTATC
1 TGATGATGCACTTATGTGCCAGTATATTTTCTTTGGTATATC
* * *
22834589 CGATGATGCAC-TATGTGTTCCAGTATATTTCCTTTGGTTTA-C
1 TGATGATGCACTTATGTG--CCAGTATATTTTCTTTGGTATATC
*
22834631 TCAATGATGCACT
1 T-GATGATGCACT
22834644 GCGGTGCCAG
Statistics
Matches: 142, Mismatches: 35, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
41 5 0.04
42 111 0.78
43 26 0.18
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.40
Consensus pattern (42 bp):
TGATGATGCACTTATGTGCCAGTATATTTTCTTTGGTATATC
Found at i:22834595 original size:84 final size:84
Alignment explanation
Indices: 22834410--22834626 Score: 247
Period size: 84 Copynumber: 2.6 Consensus size: 84
22834400 AGGTCTATAT
** * * * *
22834410 TTCGGTTTATTTGATGATGCACTTACGTGTCAGTATATTTTCTTTGGTATATCTGATGATACACT
1 TTCGGTTTATCCGATGATGCACTTATGTGCCAGTATATTTTCTTTGGTACATCTGATAATACACT
* * * **
22834475 TATGTGACAGTATATTTTC
66 TACGTGACAGCATAATTGA
* * * * *
22834494 TTCGATATACCCAATGATGCACTTATGTGCCAGTATATTTTCTTTGGTACATCTGATAATGCACT
1 TTCGGTTTATCCGATGATGCACTTATGTGCCAGTATATTTTCTTTGGTACATCTGATAATACACT
*
22834559 TACGTGCCAGCATAATTGA
66 TACGTGACAGCATAATTGA
*
22834578 TTCGGTTTATCCGATGATGCAC-TATGTGTTCCAGTATATTTCCTTTGGT
1 TTCGGTTTATCCGATGATGCACTTATGTG--CCAGTATATTTTCTTTGGT
22834627 TTACTCAATG
Statistics
Matches: 109, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
83 6 0.06
84 85 0.78
85 18 0.17
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (84 bp):
TTCGGTTTATCCGATGATGCACTTATGTGCCAGTATATTTTCTTTGGTACATCTGATAATACACT
TACGTGACAGCATAATTGA
Found at i:22841528 original size:2 final size:2
Alignment explanation
Indices: 22841521--22841554 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
22841511 AGGATGAAAA
**
22841521 GT GT GT GT GT AC GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
22841555 AATGAATGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.03, C:0.03, G:0.47, T:0.47
Consensus pattern (2 bp):
GT
Found at i:22842981 original size:87 final size:89
Alignment explanation
Indices: 22842822--22843041 Score: 263
Period size: 87 Copynumber: 2.4 Consensus size: 89
22842812 GGTGTAAAAA
*
22842822 ACCCTCAAACTTTTTCAAAAAAAGCAATTAAGTCTCTGTCTCTCTCTCTCTCACTCAATTAAGTA
1 ACCCTCAAAC-TTTTCAAAAAAAGCAATTAAG-CCCTG-CTCTCTCTCTCTCACTCAATTAAGTA
*
22842887 CTTGAACTTTCAAAATGCATCAA-ACAG
63 CTTGAACTTTCAAAATACATCAAGA-AG
* *
22842914 ACCCTCAAACTTCTTCAAAAAAAAGCAATTAAGCCCTGCT-T-T-T-TTTCACTCAATTAGGTAC
1 ACCCTCAAACTT-TTC-AAAAAAAGCAATTAAGCCCTGCTCTCTCTCTCTCACTCAATTAAGTAC
22842975 TTGAACTTTCAAAATACATCAAGAAG
64 TTGAACTTTCAAAATACATCAAGAAG
* * *
22843001 ACCCTTAAAAGTTTTC-AAAAAAGCAATTAAACCCATGCTCT
1 ACCC-TCAAACTTTTCAAAAAAAGCAATTAAGCCC-TGCTCT
22843042 TATTAAAAAT
Statistics
Matches: 115, Mismatches: 7, Indels: 17
0.83 0.05 0.12
Matches are distributed among these distances:
85 17 0.15
86 4 0.03
87 47 0.41
88 8 0.07
89 1 0.01
90 1 0.01
91 4 0.03
92 17 0.15
93 16 0.14
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (89 bp):
ACCCTCAAACTTTTCAAAAAAAGCAATTAAGCCCTGCTCTCTCTCTCTCACTCAATTAAGTACTT
GAACTTTCAAAATACATCAAGAAG
Found at i:22843070 original size:9 final size:9
Alignment explanation
Indices: 22843058--22843154 Score: 54
Period size: 9 Copynumber: 10.6 Consensus size: 9
22843048 AAATTAGAAA
22843058 AAAAATTAT
1 AAAAATTAT
*
22843067 AAAAAATA-
1 AAAAATTAT
22843075 AAAAATTATT
1 AAAAATTA-T
** *
22843085 AAATTTTAG
1 AAAAATTAT
22843094 AAAAATTAT
1 AAAAATTAT
* *
22843103 -TAAATTTT
1 AAAAATTAT
*
22843111 AAAAATATAAA
1 AAAAAT-T-AT
*
22843122 AAAAATTGT
1 AAAAATTAT
*
22843131 AAAATTTTAT
1 AAAA-ATTAT
*
22843141 AAAAATCAT
1 AAAAATTAT
22843150 AAAAA
1 AAAAA
22843155 AACTAGGGGT
Statistics
Matches: 63, Mismatches: 19, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
8 13 0.21
9 29 0.46
10 15 0.24
11 6 0.10
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:22843097 original size:19 final size:18
Alignment explanation
Indices: 22843073--22843115 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 18
22843063 TTATAAAAAA
22843073 TAAAAAATTATTAAATTT
1 TAAAAAATTATTAAATTT
22843091 TAGAAAAATTATTAAATTT
1 TA-AAAAATTATTAAATTT
22843110 TAAAAA
1 TAAAAA
22843116 TATAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAAAAATTATTAAATTT
Found at i:22843125 original size:28 final size:31
Alignment explanation
Indices: 22843094--22843156 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 31
22843084 TAAATTTTAG
*
22843094 AAAAATTATTAAA-TTT-TAAAAAT-ATAAA
1 AAAAATTATAAAATTTTATAAAAATCATAAA
*
22843122 AAAAATTGTAAAATTTTATAAAAATCATAAA
1 AAAAATTATAAAATTTTATAAAAATCATAAA
22843153 AAAA
1 AAAA
22843157 CTAGGGGTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 11 0.37
29 3 0.10
30 7 0.23
31 9 0.30
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (31 bp):
AAAAATTATAAAATTTTATAAAAATCATAAA
Found at i:22843298 original size:10 final size:10
Alignment explanation
Indices: 22843285--22843318 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
22843275 AATTTAATAA
22843285 TTTTTTAATT
1 TTTTTTAATT
*
22843295 TTTTCTAATT
1 TTTTTTAATT
22843305 TTTTTCTAATT
1 TTTTT-TAATT
22843316 TTT
1 TTT
22843319 AATAAAGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.62
11 8 0.38
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTAATT
Found at i:22843303 original size:21 final size:21
Alignment explanation
Indices: 22843279--22843318 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22843269 TATTAAAATT
22843279 TAATAATTTTT-TAATTTTTTC
1 TAAT-ATTTTTCTAATTTTTTC
*
22843300 TAATTTTTTTCTAATTTTT
1 TAATATTTTTCTAATTTTT
22843319 AATAAAGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (21 bp):
TAATATTTTTCTAATTTTTTC
Found at i:22843307 original size:11 final size:11
Alignment explanation
Indices: 22843285--22843318 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
22843275 AATTTAATAA
22843285 TTTTT-TAA-T
1 TTTTTCTAATT
22843294 TTTTTCTAATT
1 TTTTTCTAATT
22843305 TTTTTCTAATT
1 TTTTTCTAATT
22843316 TTT
1 TTT
22843319 AATAAAGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 5 0.22
10 3 0.13
11 15 0.65
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTCTAATT
Found at i:22843529 original size:90 final size:90
Alignment explanation
Indices: 22843342--22843529 Score: 234
Period size: 91 Copynumber: 2.1 Consensus size: 90
22843332 GATTAATTAC
* * * *
22843342 TTTTTTTTAAAAAAAGTTTGAGGGTTTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAAT
1 TTTTTTTTAAAAAAAGTTTGAGGGTTTTTTTGATGCATTTTAAAAATTCAAGTACACAAATGAAT
* ****
22843407 GTAAAAAAAAAAGTAGGGGCTTAAT
66 GTAAAAAAAAAAGCAGAAAATTAAT
** *
22843432 TGCTTTTTAAAAAAAGATTTGAGGGTTTTTTTGATGCATTTTAAAAATTCAAGTACACAAATGAG
1 TTTTTTTTAAAAAAAG-TTTGAGGGTTTTTTTGATGCATTTTAAAAATTCAAGTACACAAATGAA
* *
22843497 TG-CAAAAAAAATGCAGAAAATTAAT
65 TGTAAAAAAAAAAGCAGAAAATTAAT
22843522 TTTTTTTT
1 TTTTTTTT
22843530 TTTTAAAAAG
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
90 36 0.44
91 45 0.56
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.38
Consensus pattern (90 bp):
TTTTTTTTAAAAAAAGTTTGAGGGTTTTTTTGATGCATTTTAAAAATTCAAGTACACAAATGAAT
GTAAAAAAAAAAGCAGAAAATTAAT
Found at i:22843530 original size:91 final size:91
Alignment explanation
Indices: 22843333--22843544 Score: 230
Period size: 91 Copynumber: 2.3 Consensus size: 91
22843323 AAGCCAAGGG
* * *
22843333 ATTAATTACTTTTTTTTAAAAAAAGTTTGAGGGTTTTTTTGATGCATTTTGAAAGTTCAAGTACC
1 ATTAATT--TTTTTTTTAAAAAAAGTTTGAGGGTTTTTTTGATGCATTTTAAAAATTCAAGTACA
* * ***
22843398 CAATTGAATGTAAAAAAAAAAGTAGGGG
64 CAAATGAATGTAAAAAAAAAAGCAGAAA
* **
22843426 CTTAA-TTGCTTTTTAAAAAAAGATTTGAGGGTTTTTTTGATGCATTTTAAAAATTCAAGTACAC
1 ATTAATTTTTTTTTTAAAAAAAG-TTTGAGGGTTTTTTTGATGCATTTTAAAAATTCAAGTACAC
* * *
22843490 AAATGAGTG-CAAAAAAAATGCAGAAA
65 AAATGAATGTAAAAAAAAAAGCAGAAA
**
22843516 ATTAATTTTTTTTTTTTTAAAAAGTTTGA
1 ATTAA-TTTTTTTTTTAAAAAAAGTTTGA
22843545 AAACTTTTTA
Statistics
Matches: 97, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
90 29 0.30
91 50 0.52
92 14 0.14
93 4 0.04
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (91 bp):
ATTAATTTTTTTTTTAAAAAAAGTTTGAGGGTTTTTTTGATGCATTTTAAAAATTCAAGTACACA
AATGAATGTAAAAAAAAAAGCAGAAA
Found at i:22845096 original size:243 final size:236
Alignment explanation
Indices: 22844724--22845359 Score: 709
Period size: 241 Copynumber: 2.6 Consensus size: 236
22844714 TCCCCCATTT
* * * *
22844724 TCTTCATTTTTATTTCTCAATTGTTTATTTC-A-CCGTCT-GTTCGTGGTATTTGGTTTTCCATT
1 TCTTCATTTTT-TTTCTCAATTGTTAATTTCAATGCG-CTAGTTCGTGGAATTTGGTTTTTCATT
** * *
22844786 TCTGA-CAGTATTTAGGGCAAAAATAGGATCGTAGAATTCTAAATTTATATTCAATTAAATCAGC
64 TC-GAGTTGTATTTAGGGGAAAAAAAGGATCGTAGAA-TCTAAATTTATATTCAATTAAATCAGC
* * * * *
22844850 CTAACATTTTTGTTAATAATTGTTTTTAATAAAGTTTCGTAGCTAATAAATTTATTAATCTG-A-
127 CTAACATTTTTGTTAATTATTGTTTTTAAT----TTCCGTACCTAACAAATTGATTAATCTGAAT
* *
22844913 A-TTATTATTTATTTTGCGAAATTTGATAAAAAATTATGTTGTTTTTTCTTTG
188 ATTTATTATTTATTTTGC---A-CTGATAAAAAATTAGGTTGTTTTTTCTTTG
* *
22844965 TCTTCATTTTTGTTTCTCAATTGTTAATTCCAATGCGCTAGTTCGTGGAATTAGGTTTTTCATTT
1 TCTTCATTTTT-TTTCTCAATTGTTAATTTCAATGCGCTAGTTCGTGGAATTTGGTTTTTCATTT
* * * * *
22845030 CGAGTTGTATATAGGGGAAAAGAAAAGATCGTAGAATCTAAATTTATAGTCAGTTATATCAGCCT
65 CGAGTTGTATTTAGGGGAAAA-AAAGGATCGTAGAATCTAAATTTATATTCAATTAAATCAGCCT
*
22845095 AACATTTTTGTTAATTATTG--TTTCATTTCCGTACCTAACAAATTGATTAATCTGATTAAGTTA
129 AACATTTTTGTTAATTATTGTTTTTAATTTCCGTACCTAACAAATTGATTAATCTG---AA--TA
*
22845158 TTTATTATTTATTTTGCACTGATAAAAGATTAGGTTGTTTTTTCTTTG
189 TTTATTATTTATTTTGCACTGATAAAAAATTAGGTTGTTTTTTCTTTG
* * * *
22845206 TCTTCATTTTTTCTTCTCAATTATTAATTTCAATGCGCCATTTTGTGGAATTTGGTTTTTCATTT
1 TCTTCATTTTTT-TTCTCAATTGTTAATTTCAATGCGCTAGTTCGTGGAATTTGGTTTTTCATTT
* *
22845271 TG-GATTGTATTTAGGGGGAAAAAATAGGATCGTGGAAT-TGAAATTTATATTCAATTAAATCAG
65 CGAG-TTGTATTTA-GGGGAAAAAA-AGGATCGTAGAATCT-AAATTTATATTCAATTAAATCAG
22845334 CCTAACATTTTTGTTAATTATTGTTT
126 CCTAACATTTTTGTTAATTATTGTTT
22845360 GTTTCTAATC
Statistics
Matches: 337, Mismatches: 38, Indels: 37
0.82 0.09 0.09
Matches are distributed among these distances:
237 24 0.07
240 2 0.01
241 130 0.39
242 68 0.20
243 83 0.25
244 14 0.04
245 16 0.05
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.46
Consensus pattern (236 bp):
TCTTCATTTTTTTTCTCAATTGTTAATTTCAATGCGCTAGTTCGTGGAATTTGGTTTTTCATTTC
GAGTTGTATTTAGGGGAAAAAAAGGATCGTAGAATCTAAATTTATATTCAATTAAATCAGCCTAA
CATTTTTGTTAATTATTGTTTTTAATTTCCGTACCTAACAAATTGATTAATCTGAATATTTATTA
TTTATTTTGCACTGATAAAAAATTAGGTTGTTTTTTCTTTG
Found at i:22857259 original size:276 final size:276
Alignment explanation
Indices: 22856742--22857579 Score: 1435
Period size: 276 Copynumber: 3.0 Consensus size: 276
22856732 CTGCATTTTA
*
22856742 GTTGTTATCCTACTGCAGCTGGTAGAAATTCACATTTCCTGATTCTTTTTGTTTGGTTTAGCATG
1 GTTGTTATCCTACTGCTGCTGGTAGAAATTCACATTTCCTGATTCTTTTTGTTTGGTTTAGCATG
*
22856807 TAATAAATCCAAGTTCAAGTGTTGCTAATTCCGGAGAAGCTGATGCCCATGTACCAACCGTGAGT
66 TAATAAAT-C-----CAAGTGTTGCTAATTCCGGAGAAGCTGATGCCCATGTCCCAACCGTGAGT
* * * *
22856872 AGTCATGAACTGAATTTTTCTTTTTTCTTTGGTGGGATAAATATCAAAGCTACCAATGAACTTTG
125 AATCATGAACTGAATTTTTC----CT-TTTAGTGGGATAAATATCAAAGCTACCCATGAACTTTG
*
22856937 GTCTATATGTGGTACATGAATTTTGATTTTGTGCAATTGCATACATGAAATTTCAATTTAATTCA
185 GTCTATATATGGTACATGAATTTTGATTTTGTGCAATTGCATACATGAAATTTCAATTTAATTCA
22857002 ATTTTCACAAGACACTAACACTGTTTG
250 ATTTTCACAAGACACTAACACTGTTTG
22857029 GTTGTTATCCTACTGCTGCTGGTAGAAATTCACATTTCCTGATTCTTTTTGTTTGGTTTAGCATG
1 GTTGTTATCCTACTGCTGCTGGTAGAAATTCACATTTCCTGATTCTTTTTGTTTGGTTTAGCATG
22857094 TAATAAATCCAAGTGTTGCTAATTCCGGAGAAGCTGATGCCCATGTCCCAACCGTGAGTAATCAT
66 TAATAAATCCAAGTGTTGCTAATTCCGGAGAAGCTGATGCCCATGTCCCAACCGTGAGTAATCAT
22857159 GAACTGAATTTTTCCTTTTAGTGGGATAAATATCAAAGCTACCCATGAACTTTGGTCTATATATG
131 GAACTGAATTTTTCCTTTTAGTGGGATAAATATCAAAGCTACCCATGAACTTTGGTCTATATATG
* *
22857224 GTACATGAATTTTGATTTTGTGCAGTTGCATACATGAAATTTCAATTTAATTCAATTTTCACAAA
196 GTACATGAATTTTGATTTTGTGCAATTGCATACATGAAATTTCAATTTAATTCAATTTTCACAAG
22857289 ACACTAACACTGTTTG
261 ACACTAACACTGTTTG
* *
22857305 GTTGTTATCCTATTGCTGCTAGTAGAAATTCACATTTCCTGATTCTTTTTGTTTGGTTTAGCATG
1 GTTGTTATCCTACTGCTGCTGGTAGAAATTCACATTTCCTGATTCTTTTTGTTTGGTTTAGCATG
22857370 TAATAAATCCAAGTGTTGCTAATTCCGGAGAAGCTGATGCCCATGTCCCAACCGTGAGTAATCAT
66 TAATAAATCCAAGTGTTGCTAATTCCGGAGAAGCTGATGCCCATGTCCCAACCGTGAGTAATCAT
* *
22857435 GAACTGAATTTTTTCTTTTTGTGGGATAAATATCAAAGCTACCCATGAACTTTGGTCTATATATG
131 GAACTGAATTTTTCCTTTTAGTGGGATAAATATCAAAGCTACCCATGAACTTTGGTCTATATATG
22857500 GTACATGAATTTTGATTTTGTGCAATTGCATACATGAAATTTCAATTTAATTCAATTTTCACATA
196 GTACATGAATTTTGATTTTGTGCAATTGCATACATGAAATTTCAATTTAATTCAATTTTCACA-A
*
22857565 G-CACTGACACTGTTT
260 GACACTAACACTGTTT
22857580 TCGACGTAAC
Statistics
Matches: 534, Mismatches: 16, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
276 391 0.73
277 2 0.00
281 68 0.13
286 1 0.00
287 72 0.13
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (276 bp):
GTTGTTATCCTACTGCTGCTGGTAGAAATTCACATTTCCTGATTCTTTTTGTTTGGTTTAGCATG
TAATAAATCCAAGTGTTGCTAATTCCGGAGAAGCTGATGCCCATGTCCCAACCGTGAGTAATCAT
GAACTGAATTTTTCCTTTTAGTGGGATAAATATCAAAGCTACCCATGAACTTTGGTCTATATATG
GTACATGAATTTTGATTTTGTGCAATTGCATACATGAAATTTCAATTTAATTCAATTTTCACAAG
ACACTAACACTGTTTG
Found at i:22857716 original size:31 final size:31
Alignment explanation
Indices: 22857681--22857768 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 31
22857671 AATGTTTACG
*
22857681 ATTGAATCAATATCAAAGTTTCATATATATA
1 ATTGAATCAAAATCAAAGTTTCATATATATA
* * * *
22857712 ATTGAATTAAAATCAAATTTTCATGTGTATA
1 ATTGAATCAAAATCAAAGTTTCATATATATA
* *
22857743 A-TAATATC-ACATCAAAG-TTCATATAT
1 ATTGA-ATCAAAATCAAAGTTTCATATAT
22857769 TACAATGTAC
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
29 7 0.16
30 9 0.20
31 29 0.64
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (31 bp):
ATTGAATCAAAATCAAAGTTTCATATATATA
Found at i:22864455 original size:4 final size:4
Alignment explanation
Indices: 22864446--22864498 Score: 70
Period size: 4 Copynumber: 13.2 Consensus size: 4
22864436 AACGCATACG
* * * *
22864446 CGTA CGTA CGTA CGTA CGTA CATA CGTA CATA CGTA CATA CGTA CATA
1 CGTA CGTA CGTA CGTA CGTA CGTA CGTA CGTA CGTA CGTA CGTA CGTA
22864494 CGTA C
1 CGTA C
22864499 ATACATATTC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (4 bp):
CGTA
Found at i:22864459 original size:8 final size:8
Alignment explanation
Indices: 22864446--22864502 Score: 96
Period size: 8 Copynumber: 7.1 Consensus size: 8
22864436 AACGCATACG
*
22864446 CGTACGTA
1 CGTACATA
*
22864454 CGTACGTA
1 CGTACATA
22864462 CGTACATA
1 CGTACATA
22864470 CGTACATA
1 CGTACATA
22864478 CGTACATA
1 CGTACATA
22864486 CGTACATA
1 CGTACATA
22864494 CGTACATA
1 CGTACATA
22864502 C
1 C
22864503 ATATTCTAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
8 48 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (8 bp):
CGTACATA
Found at i:22867654 original size:16 final size:16
Alignment explanation
Indices: 22867633--22867664 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22867623 ATTTTACTAT
*
22867633 ATAGTGGTTCATAAAA
1 ATAGTGATTCATAAAA
22867649 ATAGTGATTCATAAAA
1 ATAGTGATTCATAAAA
22867665 GGTTGTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (16 bp):
ATAGTGATTCATAAAA
Found at i:22870469 original size:15 final size:15
Alignment explanation
Indices: 22870449--22870477 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22870439 ATAGTTACGG
22870449 TCAATTCAATTTATT
1 TCAATTCAATTTATT
22870464 TCAATTCAATTTAT
1 TCAATTCAATTTAT
22870478 AACAAGAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (15 bp):
TCAATTCAATTTATT
Found at i:22871323 original size:22 final size:24
Alignment explanation
Indices: 22871298--22871351 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
22871288 TTATAAATTC
22871298 AATTTAA-AATATATAAT-ACAAT
1 AATTTAAGAATATATAATAACAAT
* *
22871320 AATTTCAAGCATATTTAATAACAAT
1 AATTT-AAGAATATATAATAACAAT
*
22871345 AGTTTAA
1 AATTTAA
22871352 TCATCAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 5 0.19
23 2 0.08
24 10 0.38
25 9 0.35
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (24 bp):
AATTTAAGAATATATAATAACAAT
Found at i:22872723 original size:183 final size:183
Alignment explanation
Indices: 22872408--22872772 Score: 561
Period size: 183 Copynumber: 2.0 Consensus size: 183
22872398 ATTTTCCTTT
* *
22872408 GTTTTCGCACGCGGTTAGTGCTTGCTTAGTTTCGGTAAGTGTTTCTCTTCGTTTCTATCATGAAT
1 GTTTTCACACGCGGTTAGTGCTCGCTTAGTTTCGGTAAGTGTTTCTCTTCGTTTCTATCATGAAT
* * * * * * **
22872473 CTCTTAACGACTGAAGTGGTAATGTTTTTTCTCTGCAGTTTGGGCGTAGGGGGAGGCTTGGACTG
66 ATCTTAACAACTGAAGTGATAATGTTTTTGCTCTGCAGTTTGGGCGTAAGGAGAGGCTCAGACTG
*
22872538 GTGAATTCGATGTTCTCGTCTTAACAATAGTTAAATGGAGGGTTATCATTGGC
131 GTGAATTCGATGTTCTCGTCTTAACAATAGTTAAACGGAGGGTTATCATTGGC
* * *
22872591 GTTTTCACACGCGGTTAGTGCTCGCTTAGTTTCGGTAAGTGTTTCTTTTTGTTTCTGTCATGAAT
1 GTTTTCACACGCGGTTAGTGCTCGCTTAGTTTCGGTAAGTGTTTCTCTTCGTTTCTATCATGAAT
*
22872656 ATCTTAACAACTGAAGTGATAATGTTTTTGCTTTGC-GATTTGGGCGTAAGGAGAGGCTCAGACT
66 ATCTTAACAACTGAAGTGATAATGTTTTTGCTCTGCAG-TTTGGGCGTAAGGAGAGGCTCAGACT
* *
22872720 GGTGAATTCGGTGTTCTCGTCTTAACAATAGTTAAACGGAGGGTTATCGTTGG
130 GGTGAATTCGATGTTCTCGTCTTAACAATAGTTAAACGGAGGGTTATCATTGG
22872773 TGGTAAGTTG
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
182 1 0.01
183 163 0.99
ACGTcount: A:0.20, C:0.15, G:0.27, T:0.38
Consensus pattern (183 bp):
GTTTTCACACGCGGTTAGTGCTCGCTTAGTTTCGGTAAGTGTTTCTCTTCGTTTCTATCATGAAT
ATCTTAACAACTGAAGTGATAATGTTTTTGCTCTGCAGTTTGGGCGTAAGGAGAGGCTCAGACTG
GTGAATTCGATGTTCTCGTCTTAACAATAGTTAAACGGAGGGTTATCATTGGC
Found at i:22886451 original size:132 final size:132
Alignment explanation
Indices: 22886235--22887298 Score: 1835
Period size: 132 Copynumber: 8.1 Consensus size: 132
22886225 CCCTACTATC
* * * ** * *
22886235 TTGGGAAGATAAGATTCATCGTCTTTGATCTGCTTTACTACTGCTTAGGGAT-ACAAAATCTACA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGG-TGACAGAATCTGCA
* * *
22886299 ATCTTTGACCTATTCTACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
65 ATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
22886364 GTA
130 GTA
*
22886367 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAAGCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
22886432 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
22886497 TA
131 TA
*
22886499 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCGA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
*
22886564 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
22886629 TA
131 TA
*
22886631 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATTTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
*
22886696 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCAT-CACT
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTC-TCCACT
*
22886760 TTA
130 GTA
* *
22886763 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATATGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* *
22886828 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
22886893 TA
131 TA
* * * *
22886895 TTGGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCATAGGGTGACAAAATCTGTAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
*
22886960 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
22887025 TA
131 TA
* *
22887027 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTACATAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
22887092 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
22887157 TA
131 TA
*
22887159 TTGAGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
*
22887224 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGTTTAAATCTGCTTCTCCACTG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
22887289 TA
131 TA
22887291 TTGGGAAG
1 TTGGGAAG
22887299 GATAGGCACT
Statistics
Matches: 891, Mismatches: 38, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
131 2 0.00
132 888 1.00
133 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
TA
Found at i:22888711 original size:14 final size:14
Alignment explanation
Indices: 22888679--22888710 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
22888669 AGCCTCTCCA
22888679 TTTTTATTTTTCAT
1 TTTTTATTTTTCAT
22888693 TTTTTATTTTT-AT
1 TTTTTATTTTTCAT
22888706 TTTTT
1 TTTTT
22888711 TGACCCAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTATTTTTCAT
Found at i:22889513 original size:12 final size:13
Alignment explanation
Indices: 22889496--22889531 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
22889486 CCTTGACCTC
22889496 TCTTTTT-TCTTT
1 TCTTTTTCTCTTT
22889508 TCTTTTTCTCTTT
1 TCTTTTTCTCTTT
22889521 T-TTTTTCTCTT
1 TCTTTTTCTCTT
22889532 ATTTTTGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 17 0.74
13 6 0.26
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TCTTTTTCTCTTT
Found at i:22889543 original size:23 final size:23
Alignment explanation
Indices: 22889498--22889543 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22889488 TTGACCTCTC
* * *
22889498 TTTTTTCTTTTCTTTTTCTCTTT
1 TTTTTTCTCTTATTTTTCACTTT
*
22889521 TTTTTTCTCTTATTTTTGACTTT
1 TTTTTTCTCTTATTTTTCACTTT
22889544 GATTGATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTTTCTCTTATTTTTCACTTT
Found at i:22892247 original size:19 final size:19
Alignment explanation
Indices: 22892223--22892268 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
22892213 GTGAAAATTT
* *
22892223 AATGCATATG-ATGCAATG
1 AATGCAAATGTATGAAATG
22892241 CAATGCAAATGTATGAAATG
1 -AATGCAAATGTATGAAATG
22892261 AATGCAAA
1 AATGCAAA
22892269 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.24
Consensus pattern (19 bp):
AATGCAAATGTATGAAATG
Found at i:22893707 original size:13 final size:13
Alignment explanation
Indices: 22893689--22893720 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
22893679 TTAGCCTCTC
22893689 CATTTTTATTTTT
1 CATTTTTATTTTT
22893702 CATTTTTATTTTT
1 CATTTTTATTTTT
22893715 -ATTTTT
1 CATTTTT
22893721 TTGACCCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (13 bp):
CATTTTTATTTTT
Found at i:22893721 original size:7 final size:6
Alignment explanation
Indices: 22893690--22893720 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
22893680 TAGCCTCTCC
22893690 ATTTTT ATTTTT CATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT -ATTTTT ATTTTT ATTTTT
22893721 TTGACCCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:22894516 original size:22 final size:23
Alignment explanation
Indices: 22894486--22894530 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
22894476 TCGCCTTGAC
*
22894486 CTCTCTTTTTTTCT-TTCTTTTT
1 CTCTCTTTTTTTCTCTTATTTTT
*
22894508 CTCTTTTTTTTTCTCTTATTTTT
1 CTCTCTTTTTTTCTCTTATTTTT
22894531 GACTTGATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (23 bp):
CTCTCTTTTTTTCTCTTATTTTT
Found at i:22896276 original size:88 final size:86
Alignment explanation
Indices: 22896174--22897115 Score: 285
Period size: 88 Copynumber: 10.7 Consensus size: 86
22896164 GACCTATTCT
* * * *
22896174 ACTACTGCTTAGGGTGATAGGACT-AATGGCTTAAATCTGCTTCTCCACTG-TATTGGGAAGATA
1 ACTACTGCTTAGGGTGATAGGACTCAAT--CTTAAATCTACTCCACCACTGCT-TAGGG-AGATA
22896237 AGATTCACCATCTTCGATCTGCTCC
62 AGATTCACCATCTTCGATCTGCTCC
* * * * * * *
22896262 ACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGG
1 ACTACTGCTTAGGGTGATAGGA-CT-CAATCTTAAATCTACTCCACCACTGCTTAGGGAGATAAG
* ** *
22896327 ACT-A--ATGGCTTAAATCTGCTTC
64 ATTCACCAT--CTTCGATCTGCTCC
* * * * * * ** * * * *
22896349 TCCACTG-TATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGA-C
1 ACTACTGCT-TAGGG-TGATAGGACTCA--ATCTTAAATCTACTCCACCACTGCTTAGGGAGATA
* * * * *
22896412 AGAATCTGCAATCTTCGACCTACTCC
62 AGATTC-ACCATCTTCGATCTGCTCC
* * *
22896438 ACTACTGCTTAGGGTGATAGGACT-AATGGCTTAAATCTACTTCTCCACTG-TATTGGGAAGATA
1 ACTACTGCTTAGGGTGATAGGACTCAAT--CTTAAATCTACTCCACCACTGCT-TAGGG-AGATA
22896501 AGATTCACCATCTTCGATCTGCTCC
62 AGATTCACCATCTTCGATCTGCTCC
* * * * * * * *
22896526 ACTACTGCTTAGGGTGACAGAATTTGCAATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGG
1 ACTACTGCTTAGGGTGATAGGA-CT-CAATCTTAAATCTACTCCACCACTGCTTAGGGAGATAAG
* ** *
22896591 ACT-A--ATGGCTTAAATCTGCTTC
64 ATTCACCAT--CTTCGATCTGCTCC
** * * * ** * * * * *
22896613 A-TCACTTATT-GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCATAGGGTGA-C
1 ACT-ACTGCTTAGGG-TGATAGGACTCA--ATCTTAAATCTACTCCACCACTGCTTAGGGAGATA
* * *
22896675 AGAATATGCA--ATCTTCAACCTACTCC
62 AG-AT-T-CACCATCTTCGATCTGCTCC
* * * * *
22896701 ACTACTGCTTAGGGTGATAGGACT-AATGGCTTAAATATGCTTCTCCACTG-TATTGGGAAGATA
1 ACTACTGCTTAGGGTGATAGGACTCAAT--CTTAAATCTACTCCACCACTGCT-TAGGG-AGATA
*
22896764 AGATTCACCATCTTCGATCTACTCC
62 AGATTCACCATCTTCGATCTGCTCC
* ** * * * * *
22896789 ACTACTGCTTAGGGTGACAAAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGG
1 ACTACTGCTTAGGGTGATAGGA-CT-CAATCTTAAATCTACTCCACCACTGCTTAGGGAGATAAG
* *** ** *
22896854 ACT-AATGTCTTAAATCTGCTTC
64 ATTCACCATCTTCGATCTGCTCC
* * * * * * ** * * * * * *
22896876 TCCACTG-TATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTACATAGGGTGA-C
1 ACTACTGCT-TAGGG-TGATAGGACTCA--ATCTTAAATCTACTCCACCACTGCTTAGGGAGATA
* * * * *
22896939 AGAATCTGCAATCTTCGACCTACTCC
62 AGATTC-ACCATCTTCGATCTGCTCC
* * * * *
22896965 ACTACTGCTTAGGGTGATAGGACT-AATGGCTTAAATCTGCTTCTCCACTG-TATTGAGAAGATA
1 ACTACTGCTTAGGGTGATAGGACTCAAT--CTTAAATCTACTCCACCACTGCT-TAG-GGAGATA
22897028 AGATTCACCATCTTCGATCTGCTCC
62 AGATTCACCATCTTCGATCTGCTCC
* * ** * * *
22897053 ACTACTGCTTAGGGTGACAGAATCTGCAATCTTCGACCTACTCCACTACTGCTTAGGGTGATA
1 ACTACTGCTTAGGGTGATAGGA-CT-CAATCTTAAATCTACTCCACCACTGCTTAGGGAGATA
22897116 GGACTAATGG
Statistics
Matches: 608, Mismatches: 183, Indels: 126
0.66 0.20 0.14
Matches are distributed among these distances:
85 12 0.02
86 16 0.03
87 161 0.26
88 263 0.43
89 133 0.22
90 9 0.01
91 14 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (86 bp):
ACTACTGCTTAGGGTGATAGGACTCAATCTTAAATCTACTCCACCACTGCTTAGGGAGATAAGAT
TCACCATCTTCGATCTGCTCC
Found at i:22896320 original size:132 final size:132
Alignment explanation
Indices: 22896096--22897249 Score: 1985
Period size: 132 Copynumber: 8.8 Consensus size: 132
22896086 CCCTACTATC
* * * ** *
22896096 TTGGGAA-ATAAGATTCATCGTCTTTGATCTGCTTTACTACTGCTTAGGGAT-ACA-AATCTACA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGG-TGACAGAATCTGCA
** * *
22896158 ATCTTTGACCTATTCTACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
65 ATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
22896223 GTA
130 GTA
22896226 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
22896291 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
22896356 TA
131 TA
22896358 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* *
22896423 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTCCACTG
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
22896488 TA
131 TA
*
22896490 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATTTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
22896555 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCAT-CACT
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTC-TCCACT
22896619 -TA
130 GTA
* *
22896621 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATATGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
*
22896686 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTG
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
22896751 TA
131 TA
* *
22896753 TTGGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGTGACAAAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
*
22896818 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGTCTTAAATCTGCTTCTCCACTG
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
22896883 TA
131 TA
* *
22896885 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTACATAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
*
22896950 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
22897015 TA
131 TA
*
22897017 TTGAGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* *
22897082 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGTTTAAATCTGCTTCTCCACTG
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
22897147 TA
131 TA
** *
22897149 TTGGGAAGATAAGATTCACCATCTTCGGCCTGCTCCACTACTGCTTAGGGTGACAGAATATGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* *
22897214 TCTTCAACCTACTCCACCACTGTTTAGGGTGATAGG
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGG
22897250 TTTGTGTCTT
Statistics
Matches: 977, Mismatches: 41, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
130 9 0.01
131 166 0.17
132 801 0.82
133 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
TA
Found at i:22897320 original size:527 final size:528
Alignment explanation
Indices: 22896096--22897249 Score: 1888
Period size: 527 Copynumber: 2.2 Consensus size: 528
22896086 CCCTACTATC
* * * * ** * * *
22896096 TTGGGAA-ATAAGATTCATCGTCTTTGATCTGCTTTACTACTGCTTAGGGAT-ACA-AATCTACA
1 TTGGGAAGATAAGATTCACCATCTTCGACCTGCTCCACTACTGCATAGGG-TGACAGAATATGCA
** * * * *
22896158 ATCTTTGACCTATTCTACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
65 ATCTTCAACCTACTCCACCACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACT
** * * * *
22896223 GTATTGGGAAGATAAGATTCACCATCTTCG-ATCTGCTCCACTACTGCTTAGGGTGACAGAATCT
130 GTAAGGGGAAGACAAGATTCACCATCTTCGAACCAGCTCCACTACTGCTTAGGGTGACAAAATCT
22896287 GCAATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCC
195 GCAATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCC
* *
22896352 ACTGTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAAT
260 ACTGTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTACATAGGGTGACAGAAT
22896417 CTGCAATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCT
325 CTGCAATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCT
*
22896482 CCACTGTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGA
390 CCACTGTATTGAGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGA
*
22896547 ATTTGCAATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTT
455 ATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTT
22896612 CATCACTTA
520 CATCACTTA
*
22896621 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATATGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGACCTGCTCCACTACTGCATAGGGTGACAGAATATGCAA
*
22896686 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTG
66 TCTTCAACCTACTCCACCACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTG
** * * *
22896751 TATTGGGAAGATAAGATTCACCATCTTCGATCTA-CTCCACTACTGCTTAGGGTGACAAAATCTG
131 TAAGGGGAAGACAAGATTCACCATCTTCGAACCAGCTCCACTACTGCTTAGGGTGACAAAATCTG
*
22896815 CAATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGTCTTAAATCTGCTTCTCCA
196 CAATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCA
22896880 CTGTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTACATAGGGTGACAGAATC
261 CTGTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTACATAGGGTGACAGAATC
*
22896945 TGCAATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTC
326 TGCAATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTC
22897010 CACTGTATTGAGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAA
391 CACTGTATTGAGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAA
* *
22897075 TCTGCAATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGTTTAAATCTGCTTC
456 TCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTC
22897140 -TCCACTGTA
521 AT-CACT-TA
* *
22897149 TTGGGAAGATAAGATTCACCATCTTCGGCCTGCTCCACTACTGCTTAGGGTGACAGAATATGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGACCTGCTCCACTACTGCATAGGGTGACAGAATATGCAA
*
22897214 TCTTCAACCTACTCCACCACTGTTTAGGGTGATAGG
66 TCTTCAACCTACTCCACCACTGCTTAGGGTGATAGG
22897250 TTTGTGTCTT
Statistics
Matches: 592, Mismatches: 31, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
525 8 0.01
526 40 0.07
527 446 0.75
528 98 0.17
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (528 bp):
TTGGGAAGATAAGATTCACCATCTTCGACCTGCTCCACTACTGCATAGGGTGACAGAATATGCAA
TCTTCAACCTACTCCACCACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTG
TAAGGGGAAGACAAGATTCACCATCTTCGAACCAGCTCCACTACTGCTTAGGGTGACAAAATCTG
CAATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCA
CTGTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTACATAGGGTGACAGAATC
TGCAATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTACTTCTC
CACTGTATTGAGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAA
TCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTC
ATCACTTA
Found at i:22899496 original size:11 final size:11
Alignment explanation
Indices: 22899474--22899517 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
22899464 TCGCCTTGAC
*
22899474 CTCTCTTTTTT
1 CTCTTTTTTTT
22899485 CT-TTTCTTTTT
1 CTCTTT-TTTTT
22899496 CTCTTTTTTTT
1 CTCTTTTTTTT
22899507 CTCTTATTTTT
1 CTCTT-TTTTT
22899518 GACTTTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 2 0.07
11 19 0.66
12 8 0.28
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (11 bp):
CTCTTTTTTTT
Found at i:22899504 original size:22 final size:22
Alignment explanation
Indices: 22899474--22899517 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22899464 TCGCCTTGAC
* *
22899474 CTCTCTTTTTTCTTTTCTTTTT
1 CTCTCTTTTTTCTCTTATTTTT
*
22899496 CTCTTTTTTTTCTCTTATTTTT
1 CTCTCTTTTTTCTCTTATTTTT
22899518 GACTTTGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (22 bp):
CTCTCTTTTTTCTCTTATTTTT
Found at i:22899523 original size:22 final size:22
Alignment explanation
Indices: 22899479--22899523 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
22899469 TTGACCTCTC
* * *
22899479 TTTTTTCTTTTCTTTTTCTCTT
1 TTTTTTCTCTTATTTTTCACTT
*
22899501 TTTTTTCTCTTATTTTTGACTT
1 TTTTTTCTCTTATTTTTCACTT
22899523 T
1 T
22899524 GATTGATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTTTCTCTTATTTTTCACTT
Found at i:22902233 original size:19 final size:19
Alignment explanation
Indices: 22902209--22902254 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
22902199 GTGAAAATTT
* *
22902209 AATGCATATG-ATGCAATG
1 AATGCAAATGTATGAAATG
22902227 CAATGCAAATGTATGAAATG
1 -AATGCAAATGTATGAAATG
22902247 AATGCAAA
1 AATGCAAA
22902255 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.24
Consensus pattern (19 bp):
AATGCAAATGTATGAAATG
Found at i:22904689 original size:26 final size:25
Alignment explanation
Indices: 22904651--22904700 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
22904641 AATATTTAAA
*
22904651 AAGAGATATAGATATATATACATAAT
1 AAGAGATAAAGATATATATA-ATAAT
* *
22904677 AAGATATAAAGATATTTATAATAA
1 AAGAGATAAAGATATATATAATAA
22904701 GGTATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (25 bp):
AAGAGATAAAGATATATATAATAAT
Found at i:22904713 original size:22 final size:22
Alignment explanation
Indices: 22904662--22904718 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
22904652 AGAGATATAG
*
22904662 ATATATATACATAATAAGATAT
1 ATATATATATATAATAAGATAT
* * * *
22904684 AAAGATATTTATAATAAGGTAT
1 ATATATATATATAATAAGATAT
*
22904706 ATATATATGTATA
1 ATATATATATATA
22904719 TGAAAATTAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.39
Consensus pattern (22 bp):
ATATATATATATAATAAGATAT
Found at i:22910476 original size:2 final size:2
Alignment explanation
Indices: 22910469--22910503 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
22910459 TTCAATTAAA
*
22910469 AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
22910504 ACTTAGAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22916142 original size:19 final size:19
Alignment explanation
Indices: 22916118--22916154 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22916108 ATTTTCAAGA
22916118 TCCACACGGCCTGGGCATT
1 TCCACACGGCCTGGGCATT
* *
22916137 TCCACATGGGCTGGGCAT
1 TCCACACGGCCTGGGCAT
22916155 ACGTCCATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.32, G:0.30, T:0.22
Consensus pattern (19 bp):
TCCACACGGCCTGGGCATT
Found at i:22923124 original size:24 final size:23
Alignment explanation
Indices: 22923097--22923162 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 23
22923087 CCCTTCTATT
22923097 TTATTTTATTTATTATTTCTTATA
1 TTATTTTATTTATTA-TTCTTATA
22923121 TTA-TTTATTT-TTATT-TTACTA
1 TTATTTTATTTATTATTCTTA-TA
22923142 --ATTTTATTTATTATTCTTATA
1 TTATTTTATTTATTATTCTTATA
22923163 CTTAGATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
19 1 0.03
20 10 0.26
21 11 0.29
22 6 0.16
23 7 0.18
24 3 0.08
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (23 bp):
TTATTTTATTTATTATTCTTATA
Found at i:22923164 original size:24 final size:24
Alignment explanation
Indices: 22923099--22923173 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 24
22923089 CTTCTATTTT
*
22923099 ATTTTATTTATTATTTCTTATA-TT
1 ATTTTATTTATTA-TTCTTATACTA
22923123 A-TTTATTT-TTA-T-TT-TACTA
1 ATTTTATTTATTATTCTTATACTA
22923142 ATTTTATTTATTATTCTTATACTTA
1 ATTTTATTTATTATTCTTATAC-TA
22923167 GATTTTA
1 -ATTTTA
22923174 AATTTATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
18 2 0.05
19 4 0.10
20 8 0.19
21 3 0.07
22 4 0.10
23 9 0.21
24 4 0.10
25 2 0.05
26 6 0.14
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (24 bp):
ATTTTATTTATTATTCTTATACTA
Found at i:22923187 original size:43 final size:40
Alignment explanation
Indices: 22923093--22923189 Score: 99
Period size: 43 Copynumber: 2.3 Consensus size: 40
22923083 CCACCCCTTC
**
22923093 TATTTT-ATTTTATTTATTATTTCTTATATTATTTATTTT
1 TATTTTAATTTTATTTATTATTTCTTATATTATTTAAATT
22923132 TATTTTACTAATTTTATTTATTA-TTCTTATACTTAGATTTTAAATT
1 TA-TTT--TAATTTTATTTATTATTTCTTATA-TT--A-TTTAAATT
22923178 TATTTTAATTTT
1 TATTTTAATTTT
22923190 TCTGCTATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
39 2 0.04
40 3 0.06
42 9 0.19
43 22 0.46
45 4 0.08
46 8 0.17
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (40 bp):
TATTTTAATTTTATTTATTATTTCTTATATTATTTAAATT
Found at i:22927980 original size:28 final size:29
Alignment explanation
Indices: 22927944--22927998 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
22927934 GGTGGGATTT
** *
22927944 TGTTTTTTTTCTTTCTCT-GTTCTTTTAC
1 TGTTTTTTTAATTTATCTAGTTCTTTTAC
22927972 TGTTTTTTTAATTTATCTAGTTCTTTT
1 TGTTTTTTTAATTTATCTAGTTCTTTT
22927999 CTTTTGCTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.09, C:0.13, G:0.07, T:0.71
Consensus pattern (29 bp):
TGTTTTTTTAATTTATCTAGTTCTTTTAC
Found at i:22928626 original size:29 final size:28
Alignment explanation
Indices: 22928559--22928627 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
22928549 TATTTGCGCA
* *
22928559 TATATATGTTAATATATATATGTATATTC
1 TATATATTTTAATACATATATGTATA-TC
* *
22928588 TAAATGTTTTAATACATATATGTAGTA-C
1 TATATATTTTAATACATATATGTA-TATC
22928616 GTATATATTTTA
1 -TATATATTTTA
22928628 TTATCACATC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
28 1 0.03
29 29 0.91
30 2 0.06
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (28 bp):
TATATATTTTAATACATATATGTATATC
Found at i:22930286 original size:40 final size:40
Alignment explanation
Indices: 22930233--22930372 Score: 115
Period size: 40 Copynumber: 3.5 Consensus size: 40
22930223 AACACGCTAG
* **
22930233 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
* * *
22930273 TTTGACACTCAGTGTCTCATCGGTTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
* * * * * * *
22930311 TTAG-CACCCAATGCCTCATTGAATTAATCCAAAGTAGTAA
1 TTTGACACCCAGTGCCTCATCGGA-TAAACCGAAGTAATAA
* *
22930351 ATTGACACCCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
22930373 ACTTGAAGTC
Statistics
Matches: 75, Mismatches: 21, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
37 13 0.17
38 14 0.19
39 1 0.01
40 33 0.44
41 14 0.19
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
Found at i:22930830 original size:24 final size:23
Alignment explanation
Indices: 22930802--22930847 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
22930792 TGCTTTCTCT
22930802 TTCCTTTCTTTCCTTTTTCTTTTC
1 TTCCTTTCTTT-CTTTTTCTTTTC
22930826 TTCCTTTCTTTCTTTTTCTTTT
1 TTCCTTTCTTTCTTTTTCTTTT
22930848 TGTTTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (23 bp):
TTCCTTTCTTTCTTTTTCTTTTC
Found at i:22930838 original size:4 final size:4
Alignment explanation
Indices: 22930799--22930873 Score: 55
Period size: 4 Copynumber: 18.2 Consensus size: 4
22930789 TGTTGCTTTC
* * *
22930799 TCTT TCCTT TCTT TCCT T-TT TCTTT TCTT CCTT TCTT TCTT T-TT CTTTT
1 TCTT T-CTT TCTT TCTT TCTT TC-TT TCTT TCTT TCTT TCTT TCTT -TCTT
* *
22930848 TGTT TCATT TCTA TCTT TCTT TCTT T
1 TCTT TC-TT TCTT TCTT TCTT TCTT T
22930874 TTATTTATTC
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
3 4 0.07
4 39 0.68
5 14 0.25
ACGTcount: A:0.03, C:0.24, G:0.01, T:0.72
Consensus pattern (4 bp):
TCTT
Found at i:22930908 original size:30 final size:31
Alignment explanation
Indices: 22930874--22930932 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
22930864 TTCTTTCTTT
22930874 TTATT-TATTCATTA-TTTGTTTTATTATACA
1 TTATTATATT-ATTATTTTGTTTTATTATACA
22930904 TTATTATATTATTATTTTGTTTTATTATA
1 TTATTATATTATTATTTTGTTTTATTATA
22930933 ATATAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.66
Consensus pattern (31 bp):
TTATTATATTATTATTTTGTTTTATTATACA
Found at i:22931848 original size:15 final size:15
Alignment explanation
Indices: 22931828--22931856 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22931818 AATAATATTA
22931828 ATAATAATGATAATG
1 ATAATAATGATAATG
22931843 ATAATAATGATAAT
1 ATAATAATGATAAT
22931857 TTAAAGTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (15 bp):
ATAATAATGATAATG
Found at i:22932098 original size:13 final size:12
Alignment explanation
Indices: 22932071--22932103 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
22932061 GTTTAATAAT
22932071 ATAATAATAAAA
1 ATAATAATAAAA
22932083 ATAATAATAGAAA
1 ATAATAATA-AAA
22932096 ATAATAAT
1 ATAATAAT
22932104 GACAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (12 bp):
ATAATAATAAAA
Found at i:22933332 original size:14 final size:14
Alignment explanation
Indices: 22933309--22933342 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
22933299 ATTTGGACTA
22933309 TTTTGCTGTTTGGG
1 TTTTGCTGTTTGGG
*
22933323 TTTTGGTGTTTGGG
1 TTTTGCTGTTTGGG
22933337 TTTTGC
1 TTTTGC
22933343 CCTGGGCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.06, G:0.35, T:0.59
Consensus pattern (14 bp):
TTTTGCTGTTTGGG
Found at i:22938043 original size:107 final size:107
Alignment explanation
Indices: 22937874--22938136 Score: 292
Period size: 107 Copynumber: 2.5 Consensus size: 107
22937864 CACCGCGATG
* ** * * * *
22937874 GCTGAAATCCTGCATATGTTATGGATTCTCGACAGCTTGTGTGAGCAACATCGTGAATTGGTGAA
1 GCTGAGATCCTGCATATGTTGCGAATTCTCGACAGCTTGTGTGAGCAGCATCGCGAACTGGTGAA
* ** * * * * * *
22937939 CTGAATGGCTACTTTATTTTGATGATATAGATCGTTTCAATA
66 ATGAATGAATACTCTATTATGATGAAACAGATCATTACAATA
* *
22937981 GTTGAGATCCTGCATATGTTGCAAATTCTCGACAGCTTGTGTGAGCAGCATCGCGAACTGGTGAA
1 GCTGAGATCCTGCATATGTTGCGAATTCTCGACAGCTTGTGTGAGCAGCATCGCGAACTGGTGAA
* * * * *
22938046 ATGACTGAATACTCTGTTATGATGAAACGGATCATTACGATG
66 ATGAATGAATACTCTATTATGATGAAACAGATCATTACAATA
* * *
22938088 GCTGAGATCCTACATACGTTGCGAATTCTCGTCAGCTTGTGTGAGCAGC
1 GCTGAGATCCTGCATATGTTGCGAATTCTCGACAGCTTGTGTGAGCAGC
22938137 CTCATGAACC
Statistics
Matches: 128, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
107 128 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (107 bp):
GCTGAGATCCTGCATATGTTGCGAATTCTCGACAGCTTGTGTGAGCAGCATCGCGAACTGGTGAA
ATGAATGAATACTCTATTATGATGAAACAGATCATTACAATA
Found at i:22940410 original size:28 final size:26
Alignment explanation
Indices: 22940370--22940429 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
22940360 TCAACCTTTT
22940370 ATTTT-TAATTAATTTGTATGTTATATC
1 ATTTTGTAATTAATTT-T-TGTTATATC
* * *
22940397 ATTTTGTAGTTAATTTTTTTTATATT
1 ATTTTGTAATTAATTTTTGTTATATC
22940423 ATTTTGT
1 ATTTTGT
22940430 TTATAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 14 0.48
27 6 0.21
28 9 0.31
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.65
Consensus pattern (26 bp):
ATTTTGTAATTAATTTTTGTTATATC
Found at i:22950556 original size:25 final size:25
Alignment explanation
Indices: 22950508--22950555 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
22950498 CCCAAATAAT
* *
22950508 AAATATTTTTATTTTTTTAATTTTA
1 AAATACTTTTATTTTTTAAATTTTA
22950533 AAATACTTTT-TTTTTTAAATTTT
1 AAATACTTTTATTTTTTAAATTTT
22950556 TTAATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
AAATACTTTTATTTTTTAAATTTTA
Found at i:22950570 original size:40 final size:41
Alignment explanation
Indices: 22950528--22950627 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 41
22950518 ATTTTTTTAA
22950528 TTTTAAAATACTTTTTTTTTTAAATTTTTTAATTTTAAAATTT
1 TTTTAAAATACTTTTTTTTTTAAATTTTTTAATTTTAAAA--T
*
22950571 TTTTAAAATAC---TTTTTTTAATTTTTTTAATTTTAAAATT
1 TTTTAAAATACTTTTTTTTTTAAATTTTTTAATTTTAAAA-T
22950610 TTTTAAAAATACTTTTTT
1 TTTT-AAAATACTTTTTT
22950628 AATTTTTATT
Statistics
Matches: 52, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
39 6 0.12
40 32 0.62
43 14 0.27
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (41 bp):
TTTTAAAATACTTTTTTTTTTAAATTTTTTAATTTTAAAAT
Found at i:22950586 original size:39 final size:40
Alignment explanation
Indices: 22950542--22950641 Score: 154
Period size: 40 Copynumber: 2.6 Consensus size: 40
22950532 AAAATACTTT
*
22950542 TTTTTTTAAATTTTTTAATTTTAAAATTTTTTTAAAATAC
1 TTTTTTTAAATTTTTTAATTTTAAAATTTTTTAAAAATAC
*
22950582 TTTTTTTAATTTTTTTAATTTTAAAATTTTTTAAAAATAC
1 TTTTTTTAAATTTTTTAATTTTAAAATTTTTTAAAAATAC
22950622 -TTTTTT-AA-TTTTT-ATTTTAA
1 TTTTTTTAAATTTTTTAATTTTAA
22950642 TTTTTAAAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
36 7 0.12
37 5 0.09
38 1 0.02
39 6 0.11
40 38 0.67
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (40 bp):
TTTTTTTAAATTTTTTAATTTTAAAATTTTTTAAAAATAC
Found at i:22951500 original size:11 final size:11
Alignment explanation
Indices: 22951486--22951511 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22951476 TTACACTGTC
22951486 CACTCACTACT
1 CACTCACTACT
22951497 CACTCACTACT
1 CACTCACTACT
22951508 CACT
1 CACT
22951512 ACCCTTGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.46, G:0.00, T:0.27
Consensus pattern (11 bp):
CACTCACTACT
Found at i:22960165 original size:75 final size:75
Alignment explanation
Indices: 22960015--22960168 Score: 168
Period size: 75 Copynumber: 2.1 Consensus size: 75
22960005 TCATAAAAGT
* * * * *
22960015 TATTTTATTGTATTTTACATCAATAATATATTTATTTACAATCTAAGAAAAAAAATCAAAAAATT
1 TATTCTATTGTATTTCACATAAATAATATACTTATTTACAATATAAGAAAAAAAATCAAAAAATT
* **
22960080 ATTTGTATTG
66 ACTTACATTG
* * *
22960090 TATTCTATTGTATTTCATATAAATAATATAGACTTATTTACAATATATG-AAAAAAAT-GAAAAA
1 TATTCTATTGTATTTCACATAAATAATAT--ACTTATTTACAATATAAGAAAAAAAATCAAAAAA
*
22960153 TTGCTTACATTG
64 TTACTTACATTG
22960165 TATT
1 TATT
22960169 TTACATCAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
75 42 0.65
76 8 0.12
77 15 0.23
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (75 bp):
TATTCTATTGTATTTCACATAAATAATATACTTATTTACAATATAAGAAAAAAAATCAAAAAATT
ACTTACATTG
Found at i:22971886 original size:19 final size:22
Alignment explanation
Indices: 22971837--22971890 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
22971827 AATTAGTTTT
* *
22971837 TTTTGTTATTGTTTTGCTGTCA
1 TTTTGTTGTTGTTTTGCTGACA
22971859 TTTTGTTGTTGTTTTGCT-AC-
1 TTTTGTTGTTGTTTTGCTGACA
22971879 TTTT-TTGTTGTT
1 TTTTGTTGTTGTT
22971891 ATTGTTTGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 8 0.27
20 4 0.13
21 1 0.03
22 17 0.57
ACGTcount: A:0.06, C:0.07, G:0.19, T:0.69
Consensus pattern (22 bp):
TTTTGTTGTTGTTTTGCTGACA
Found at i:22973275 original size:23 final size:23
Alignment explanation
Indices: 22973248--22973298 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
22973238 AGATTTAAAT
22973248 AAATACTCATA-TTTATATTACTA
1 AAATACTCATATTTTATATTA-TA
* *
22973271 AAATATTTATATTTTATATTATA
1 AAATACTCATATTTTATATTATA
22973294 AAATA
1 AAATA
22973299 TTTTTAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (23 bp):
AAATACTCATATTTTATATTATA
Found at i:22973299 original size:17 final size:17
Alignment explanation
Indices: 22973279--22973340 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
22973269 TAAAATATTT
22973279 ATATTTTATATTATAAA
1 ATATTTTATATTATAAA
* *
22973296 ATATTTT-TAATCATAAT
1 ATATTTTAT-ATTATAAA
*
22973313 ATATATTA-A-TATAAA
1 ATATTTTATATTATAAA
22973328 AT-TTTATATATTA
1 ATATTT-TATATTA
22973341 CTTAAAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
14 2 0.06
15 8 0.24
16 3 0.09
17 21 0.62
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATTTTATATTATAAA
Found at i:22973351 original size:18 final size:20
Alignment explanation
Indices: 22973312--22973350 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22973302 TTAATCATAA
22973312 TATATATTAATATAAAATTT
1 TATATATTAATATAAAATTT
*
22973332 TATATATTACT-TAAAATTT
1 TATATATTAATATAAAATTT
22973351 AAATTCTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TATATATTAATATAAAATTT
Found at i:22973469 original size:9 final size:9
Alignment explanation
Indices: 22973443--22973485 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
22973433 ATTTGATATT
22973443 AATATTTTA
1 AATATTTTA
*
22973452 ATATTTTTTA
1 A-ATATTTTA
22973462 AATATTTTA
1 AATATTTTA
22973471 AA-ATTTTA
1 AATATTTTA
*
22973479 AAAATTT
1 AATATTT
22973486 ATTATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 8 0.27
9 14 0.47
10 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AATATTTTA
Found at i:22973483 original size:19 final size:19
Alignment explanation
Indices: 22973443--22973483 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22973433 ATTTGATATT
* **
22973443 AATATTTTAATATTTTTTA
1 AATATTTTAAAATTTTAAA
22973462 AATATTTTAAAATTTTAAA
1 AATATTTTAAAATTTTAAA
22973481 AAT
1 AAT
22973484 TTATTATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATATTTTAAAATTTTAAA
Found at i:22973921 original size:20 final size:21
Alignment explanation
Indices: 22973896--22973934 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22973886 TTTATATTTA
22973896 TTTTTTAA-TTTTAAAATACT
1 TTTTTTAATTTTTAAAATACT
22973916 TTTTTTAATTTTTAAAATA
1 TTTTTTAATTTTTAAAATA
22973935 AATTTTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTTAATTTTTAAAATACT
Found at i:22973940 original size:20 final size:20
Alignment explanation
Indices: 22973897--22973941 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
22973887 TTATATTTAT
**
22973897 TTTTTAATTTTAAAATACTT
1 TTTTTAATTTTAAAATACAA
22973917 TTTTTAATTTTTAAAATA-AA
1 TTTTTAA-TTTTAAAATACAA
22973937 TTTTT
1 TTTTT
22973942 GGTGGTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTAATTTTAAAATACAA
Found at i:22973940 original size:21 final size:20
Alignment explanation
Indices: 22973895--22973941 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
22973885 ATTTATATTT
*
22973895 ATTTTTTAATTTTAAAATAC
1 ATTTTTTAATTTTAAAATAA
*
22973915 TTTTTTTAATTTTTAAAATAA
1 ATTTTTTAA-TTTTAAAATAA
22973936 ATTTTT
1 ATTTTT
22973942 GGTGGTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTTAATTTTAAAATAA
Found at i:22975333 original size:14 final size:14
Alignment explanation
Indices: 22975314--22975348 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
22975304 TAGTAATTGC
22975314 ATTTAACCAAAAGA
1 ATTTAACCAAAAGA
22975328 ATTTAACCAAAAGA
1 ATTTAACCAAAAGA
22975342 ATTTAAC
1 ATTTAAC
22975349 TGCTTCTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.26
Consensus pattern (14 bp):
ATTTAACCAAAAGA
Done.