Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 3 of 120
Found at i:542077 original size:37 final size:37
Alignment explanation
Indices: 542027--542122 Score: 147
Period size: 37 Copynumber: 2.6 Consensus size: 37
542017 ATTTGATTGT
*
542027 TTTTAATTGTTTAAAGCAGCCACAATCATTCATTCTC
1 TTTTAATTGTTTAAAGCAGCCACAATCATGCATTCTC
*
542064 TTTTAATTGTTTAAAGCAGCCACAATGATGCATTCTC
1 TTTTAATTGTTTAAAGCAGCCACAATCATGCATTCTC
* * *
542101 TGTCATTTGTTTAAAGCAGCCA
1 TTTTAATTGTTTAAAGCAGCCA
542123 TTCACCCTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (37 bp):
TTTTAATTGTTTAAAGCAGCCACAATCATGCATTCTC
Found at i:566514 original size:13 final size:13
Alignment explanation
Indices: 566496--566520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
566486 CAGCCACTTT
566496 TTCTTCTCTTCTC
1 TTCTTCTCTTCTC
566509 TTCTTCTCTTCT
1 TTCTTCTCTTCT
566521 AATTCAAAAT
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:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (13 bp):
TTCTTCTCTTCTC
Found at i:570709 original size:2 final size:2
Alignment explanation
Indices: 570702--570749 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
570692 CCAAATTTTC
570702 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
570744 AT AT AT
1 AT AT AT
570750 GAAAATTTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:575185 original size:51 final size:51
Alignment explanation
Indices: 575109--575224 Score: 223
Period size: 51 Copynumber: 2.3 Consensus size: 51
575099 ACACCAACAA
575109 TCACTCAACTTTGATATGGAGAAACAAATAGTCACTTGATTTACATTTCAG
1 TCACTCAACTTTGATATGGAGAAACAAATAGTCACTTGATTTACATTTCAG
*
575160 TCACTCAACTTTGATATGGAGAAACAAATAGTCATTTGATTTACATTTCAG
1 TCACTCAACTTTGATATGGAGAAACAAATAGTCACTTGATTTACATTTCAG
575211 TCACTCAACTTTGA
1 TCACTCAACTTTGA
575225 AAATGTGACA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (51 bp):
TCACTCAACTTTGATATGGAGAAACAAATAGTCACTTGATTTACATTTCAG
Found at i:575497 original size:30 final size:31
Alignment explanation
Indices: 575432--575498 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
575422 TTCTAACCCT
*
575432 ACTGTTTTGTCACTTTTCAATAACGTTAGTG
1 ACTGTTTTGTCACTTTTCAATAACGTTAATG
575463 ACTGTTTTGTCACATTTTC-A-AA-GTTGAATG
1 ACTGTTTTGTCAC-TTTTCAATAACGTT-AATG
575493 ACTGTT
1 ACTGTT
575499 ATGTTAAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
29 3 0.09
30 11 0.33
31 14 0.42
32 5 0.15
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (31 bp):
ACTGTTTTGTCACTTTTCAATAACGTTAATG
Found at i:579712 original size:25 final size:26
Alignment explanation
Indices: 579682--579769 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 26
579672 AGTTTTAATA
579682 ATATATAAATTATATAAAATAAAAATT
1 ATATA-AAATTATATAAAATAAAAATT
* *
579709 ATATAAACATTATGTAAAATATAAA-T
1 ATATAAA-ATTATATAAAATAAAAATT
* * *
579735 AT-TCAAATATATATAAATTTAAAATGT
1 ATATAAAAT-TATATAAAATAAAAAT-T
579762 ATA-AAAAT
1 ATATAAAAT
579770 ATTACTATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
24 2 0.04
25 14 0.29
26 5 0.10
27 27 0.56
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (26 bp):
ATATAAAATTATATAAAATAAAAATT
Found at i:579764 original size:17 final size:18
Alignment explanation
Indices: 579727--579773 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
579717 ATTATGTAAA
*
579727 ATATAAATATTCAAATAT
1 ATATAAATATTAAAATAT
*
579745 ATATAAAT-TTAAAATGT
1 ATATAAATATTAAAATAT
*
579762 ATAAAAATATTA
1 ATATAAATATTA
579774 CTATTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
ATATAAATATTAAAATAT
Found at i:593819 original size:19 final size:19
Alignment explanation
Indices: 593774--593847 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 19
593764 CGTAAATATC
*
593774 ATTAAATTATTAGTAAATTT
1 ATTAAATTA-TAATAAATTT
*
593794 ACGTTAAATTATAATATATTT
1 A--TTAAATTATAATAAATTT
*
593815 ATTAAATTATTTAAAAAATTTT
1 ATTAAATTA--TAATAAA-TTT
593837 ATTTAAATTAT
1 A-TTAAATTAT
593848 TAAATTGTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
19 8 0.18
20 1 0.02
21 15 0.34
22 12 0.27
23 8 0.18
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (19 bp):
ATTAAATTATAATAAATTT
Found at i:594160 original size:27 final size:30
Alignment explanation
Indices: 594130--594213 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 30
594120 GAACTTAAAA
594130 AAATAAAAA-CTT-AATAA-TTAATGACTT
1 AAATAAAAATCTTAAATAATTTAATGACTT
* *
594157 AAATAAAAATTTTCAAATAATTTAGTGACTT
1 AAATAAAAATCTT-AAATAATTTAATGACTT
* * *
594188 AAATAAAAGTTTTTAAATTATTTAAT
1 AAATAAAA-ATCTTAAATAATTTAAT
594214 AATTTTAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
27 9 0.19
28 2 0.04
30 5 0.11
31 27 0.57
32 4 0.09
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (30 bp):
AAATAAAAATCTTAAATAATTTAATGACTT
Found at i:594186 original size:31 final size:31
Alignment explanation
Indices: 594142--594213 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
594132 ATAAAAACTT
594142 AATAA-TTAATGACTTAAATAAAAATTTTCA
1 AATAATTTAATGACTTAAATAAAAATTTTCA
* * *
594172 AATAATTTAGTGACTTAAATAAAAGTTTTTA
1 AATAATTTAATGACTTAAATAAAAATTTTCA
*
594203 AATTATTTAAT
1 AATAATTTAAT
594214 AATTTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 5 0.14
31 31 0.86
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.42
Consensus pattern (31 bp):
AATAATTTAATGACTTAAATAAAAATTTTCA
Found at i:596206 original size:20 final size:20
Alignment explanation
Indices: 596183--596220 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
596173 ATTTAACTTT
* *
596183 TTTAATCAATTTTTAATTGA
1 TTTAATAAATTTTCAATTGA
596203 TTTAATAAATTTTCAATT
1 TTTAATAAATTTTCAATT
596221 TAAAATTTCA
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:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTAATAAATTTTCAATTGA
Found at i:596547 original size:29 final size:30
Alignment explanation
Indices: 596500--596556 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
596490 TTGATTTAAT
* * *
596500 GTGCAATTGTATACATG-AACTTTAATTTG
1 GTGCAATTATACACATGAAACTCTAATTTG
*
596529 GTGCAATTATACACGTGAAACTCTAATT
1 GTGCAATTATACACATGAAACTCTAATT
596557 ATAGTTCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 14 0.61
30 9 0.39
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (30 bp):
GTGCAATTATACACATGAAACTCTAATTTG
Found at i:596777 original size:29 final size:30
Alignment explanation
Indices: 596731--596788 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
596721 TAATTATATC
*
596731 AAATCAAAATTTTATGTATAAAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
*
596761 AAATCAAAA-TTCATGTATACAATTACAC
1 AAATCAAAATTTCATGTATAAAATTACAC
596789 TTTAAACCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACACA
Found at i:601799 original size:22 final size:22
Alignment explanation
Indices: 601774--601876 Score: 124
Period size: 22 Copynumber: 4.8 Consensus size: 22
601764 ATTATATTAT
601774 TGTTTTGATGTTGTTTTTTTAC
1 TGTTTTGATGTTGTTTTTTTAC
*
601796 TGTTTTGA--TTGCTTTTTTTAT
1 TGTTTTGATGTTG-TTTTTTTAC
*
601817 TGTTTTGATGTTATTTTTTTAC
1 TGTTTTGATGTTGTTTTTTTAC
*
601839 TGTTTTGATG--CTTTTTTTAC
1 TGTTTTGATGTTGTTTTTTTAC
*
601859 TATTTTGATTGTTGTTTT
1 TGTTTTGA-TGTTGTTTT
601877 AGTGATTTCT
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
20 19 0.28
21 18 0.26
22 26 0.38
23 6 0.09
ACGTcount: A:0.11, C:0.05, G:0.16, T:0.69
Consensus pattern (22 bp):
TGTTTTGATGTTGTTTTTTTAC
Found at i:601834 original size:43 final size:42
Alignment explanation
Indices: 601770--601876 Score: 169
Period size: 43 Copynumber: 2.5 Consensus size: 42
601760 AAAAATTATA
601770 TTATTGTTTTGATGTTGTTTTTTTACTGTTTTGATTGCTTTTT
1 TTATTGTTTTGATGTTGTTTTTTTACTGTTTTGA-TGCTTTTT
*
601813 TTATTGTTTTGATGTTATTTTTTTACTGTTTTGATGCTTTTT
1 TTATTGTTTTGATGTTGTTTTTTTACTGTTTTGATGCTTTTT
* *
601855 TTACTATTTTGATTGTTGTTTT
1 TTATTGTTTTGA-TGTTGTTTT
601877 AGTGATTTCT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 18 0.31
43 41 0.69
ACGTcount: A:0.11, C:0.05, G:0.15, T:0.69
Consensus pattern (42 bp):
TTATTGTTTTGATGTTGTTTTTTTACTGTTTTGATGCTTTTT
Found at i:601884 original size:21 final size:20
Alignment explanation
Indices: 601774--601877 Score: 111
Period size: 20 Copynumber: 5.0 Consensus size: 20
601764 ATTATATTAT
601774 TGTTTTGATGTTGTTTTTTTAC
1 TGTTTTGA--TTGTTTTTTTAC
*
601796 TGTTTTGATTGCTTTTTTTAT
1 TGTTTTGATTG-TTTTTTTAC
*
601817 TGTTTTGATGTTATTTTTTTAC
1 TGTTTTGA--TTGTTTTTTTAC
601839 TGTTTTGA-TGCTTTTTTTAC
1 TGTTTTGATTG-TTTTTTTAC
* *
601859 TATTTTGATTGTTGTTTTA
1 TGTTTTGATTGTTTTTTTA
601878 GTGATTTCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.01
20 26 0.37
21 18 0.25
22 24 0.34
23 2 0.03
ACGTcount: A:0.12, C:0.05, G:0.15, T:0.68
Consensus pattern (20 bp):
TGTTTTGATTGTTTTTTTAC
Found at i:601936 original size:21 final size:22
Alignment explanation
Indices: 601906--601966 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
601896 TTAGTGTTGT
*
601906 TTTTGCTGTTATTTTTGTTGCTG
1 TTTT-CTGTTATTTTTATTGCTG
* *
601929 TTTT-TGTTACTTTTATTGTTG
1 TTTTCTGTTATTTTTATTGCTG
601950 TTTTGCTGTTATTTTTA
1 TTTT-CTGTTATTTTTA
601967 CTGTTGATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 18 0.56
23 14 0.44
ACGTcount: A:0.08, C:0.07, G:0.16, T:0.69
Consensus pattern (22 bp):
TTTTCTGTTATTTTTATTGCTG
Found at i:602155 original size:16 final size:18
Alignment explanation
Indices: 602136--602168 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
602126 TTTTAATGTA
602136 TTTTAAT-TTT-TTTTAT
1 TTTTAATATTTATTTTAT
602152 TTTTAATATTTATTTTA
1 TTTTAATATTTATTTTA
602169 ATGTTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTAATATTTATTTTAT
Found at i:603768 original size:120 final size:117
Alignment explanation
Indices: 603465--603779 Score: 330
Period size: 120 Copynumber: 2.6 Consensus size: 117
603455 TTGGGTTGGC
* *
603465 AACAAGTGGACCA-ACACGTCCATCTTTAATGGGCTAAGAAACGCCTGTGGGTCTTGGGGAGAAA
1 AACAAGTGGA-CATACACGTCCATCTTTAGTGGGCCAAGAAACG-C-GTGGGTCTT-GGGAGAAA
* * *
603529 CACGGAGCAACTTTGGGAGATCGAAATGGGCAATCACCTAGACAAAATTTTCCTAT
62 CACAGAGCAACTTTGGGAGATCGAAATAGGCAATCACCTAGACAAAATTTTCCCAT
* * **
603585 AACAAGTGGACATACACG-CTCATCTTCAGTGGGCCAAGATATACGCATGATTCTTGAGGAGAAA
1 AACAAGTGGACATACACGTC-CATCTTTAGTGGGCCAAGA-A-ACGCGTGGGTCTTG-GGAGAAA
* * * *
603649 CATAGAGCAACTTTGGGAGATCGAAATAGGCGGA-CACCTGGGCAAAATTTTCCCAT
62 CACAGAGCAACTTTGGGAGATCGAAATAGGC-AATCACCTAGACAAAATTTTCCCAT
* * * * *
603705 AGCAAGTTGACATTCACGTCCATATTTAGTGGGCCAAGACAAGCGCGTGGGCCTTGGGAAGAAAC
1 AACAAGTGGACATACACGTCCATCTTTAGTGGGCCAAGA-AA-CGCGTGGGTCTTGGG-AGAAAC
*
603770 ACAAAGCAAC
63 ACAGAGCAAC
603780 AATGGGTGAC
Statistics
Matches: 161, Mismatches: 25, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
119 7 0.04
120 147 0.91
121 4 0.02
122 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (117 bp):
AACAAGTGGACATACACGTCCATCTTTAGTGGGCCAAGAAACGCGTGGGTCTTGGGAGAAACACA
GAGCAACTTTGGGAGATCGAAATAGGCAATCACCTAGACAAAATTTTCCCAT
Found at i:608823 original size:21 final size:21
Alignment explanation
Indices: 608794--608835 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
608784 TTAACAATGT
608794 ATTTAGATAAATATTTTTAAA
1 ATTTAGATAAATATTTTTAAA
* * *
608815 ATTTTGATATATTTTTTTAAA
1 ATTTAGATAAATATTTTTAAA
608836 TATTAACGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTTAGATAAATATTTTTAAA
Found at i:620417 original size:20 final size:20
Alignment explanation
Indices: 620376--620413 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
620366 CTTTCTAATT
620376 TTTTTTATCTTATTTCCTTC
1 TTTTTTATCTTATTTCCTTC
620396 TTTTTT-TCATTA-TTCCTT
1 TTTTTTATC-TTATTTCCTT
620414 TCTTCTTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTATCTTATTTCCTTC
Found at i:622245 original size:6 final size:6
Alignment explanation
Indices: 622228--622261 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
622218 TATAAATGAA
622228 ACCCACC ACCCAC ACCCAC ACCCAC ACCCAC ACC
1 ACCCA-C ACCCAC ACCCAC ACCCAC ACCCAC ACC
622262 GTTTTCATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCCAC
Found at i:631598 original size:30 final size:28
Alignment explanation
Indices: 631564--631634 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 28
631554 ACTATTTGAT
* *
631564 TTAAATTTTGAAATCTAAAAA-ATAGAGTGA
1 TTAAATTTTGAAA-ATAAAAATATA-A-AGA
631594 TTAAATTTTTGAAAATAAAAATATAAAGA
1 TTAAA-TTTTGAAAATAAAAATATAAAGA
631623 TTAAATTTTGAA
1 TTAAATTTTGAA
631635 TTTATAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 7 0.19
29 7 0.19
30 12 0.32
31 11 0.30
ACGTcount: A:0.52, C:0.01, G:0.10, T:0.37
Consensus pattern (28 bp):
TTAAATTTTGAAAATAAAAATATAAAGA
Found at i:631642 original size:30 final size:29
Alignment explanation
Indices: 631564--631643 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 29
631554 ACTATTTGAT
**
631564 TTAAATTTTGAAATCTA-AAAAATAGAGTGA
1 TTAAATTTTG-AAT-TATAAAAATAGAAAGA
* *
631594 TTAAATTTTTGAA-AATAAAAATATAAAGA
1 TTAAA-TTTTGAATTATAAAAATAGAAAGA
631623 TTAAATTTTGAATTTATAAAA
1 TTAAATTTTGAA-TTATAAAA
631644 GTACAAGGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
28 8 0.20
29 15 0.37
30 13 0.32
31 5 0.12
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.38
Consensus pattern (29 bp):
TTAAATTTTGAATTATAAAAATAGAAAGA
Found at i:635180 original size:16 final size:16
Alignment explanation
Indices: 635141--635199 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
635131 TTAAAATTTT
635141 AATAAAA-AAATA-TA
1 AATAAAATAAATATTA
635155 AA-AAGTAATAAATATTA
1 AATAA--AATAAATATTA
*
635172 AATAAAATATATATTA
1 AATAAAATAAATATTA
*
635188 AAAATAAATAAA
1 AATA-AAATAAA
635200 ATATAGGTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
13 2 0.06
14 2 0.06
15 2 0.06
16 18 0.50
17 10 0.28
18 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AATAAAATAAATATTA
Found at i:641446 original size:43 final size:43
Alignment explanation
Indices: 641363--641446 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
641353 TTTAATTGCA
** * *
641363 AAACAGTATATTCACACGGTCTGGCACACGCCCGTGTGCCCCC
1 AAACAGTATACACACACGGTCTGGCACACGCCCATATGCCCCC
*
641406 AAACAGTATACACACACGGTCTGGCACACGTCCATATGCCC
1 AAACAGTATACACACACGGTCTGGCACACGCCCATATGCCC
641447 AGCTCGTGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.27, C:0.36, G:0.19, T:0.18
Consensus pattern (43 bp):
AAACAGTATACACACACGGTCTGGCACACGCCCATATGCCCCC
Found at i:644550 original size:62 final size:59
Alignment explanation
Indices: 644441--644557 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
644431 ATCACTTTAA
* * *
644441 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAAGATTAAATCT
* *
644500 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTATATTTAAGATTAA
1 TATTAAATTAATAGAATACTTA--T-CAAGATAAATATTAAATTAAATTTAAGATTAA
644558 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
61 1 0.02
62 29 0.58
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (59 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAAGATTAAATCT
Found at i:644583 original size:20 final size:18
Alignment explanation
Indices: 644533--644584 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
644523 CTACAAGATA
644533 AATATTAAATT-ATATTT
1 AATATTAAATTAATATTT
*
644550 AAGATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
644570 AATATTAAATTAATA
1 AATATTAAATTAATA
644585 AAATACTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 8 0.29
18 3 0.11
19 3 0.11
20 14 0.50
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:644654 original size:9 final size:9
Alignment explanation
Indices: 644634--644664 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
644624 AAAATATCAT
644634 ATTAATTTTA
1 ATTAA-TTTA
644644 ATTAATTTA
1 ATTAATTTA
644653 ATTAATTTA
1 ATTAATTTA
644662 ATT
1 ATT
644665 TTACTTGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:646704 original size:2 final size:2
Alignment explanation
Indices: 646699--646737 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
646689 AATAGAAGGC
646699 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
646738 GTAGTATAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:651847 original size:19 final size:19
Alignment explanation
Indices: 651820--651857 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
651810 TTTTTAAATA
*
651820 ATTATTTTTTGAAAATTTT
1 ATTAATTTTTGAAAATTTT
651839 ATTAATTTTTGAAAATTTT
1 ATTAATTTTTGAAAATTTT
651858 CTATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
ATTAATTTTTGAAAATTTT
Found at i:651885 original size:15 final size:15
Alignment explanation
Indices: 651867--651896 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
651857 TCTATTTTTA
*
651867 AATTTTCTAAAATTT
1 AATTTTCAAAAATTT
651882 AATTTTCAAAAATTT
1 AATTTTCAAAAATTT
651897 GATATAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTTTCAAAAATTT
Found at i:659967 original size:74 final size:74
Alignment explanation
Indices: 659866--660020 Score: 256
Period size: 74 Copynumber: 2.1 Consensus size: 74
659856 TACACTTAGT
* * *
659866 ATATCGGACACGAGAAAAATCACGAATCCTAGTAACATATTGTAACTAAAACCCCATGTAATTGG
1 ATATCGGACACGAGAAAAATCACGAATCCCAATAACATATTGTAACTAAAACCCCATGTAACTGG
659931 TACGTATTG
66 TACGTATTG
* * *
659940 ATATCGGACATGAGAACAATCATGAATCCCAATAACATATTGTAACTAAAACCCCATGTAACTGG
1 ATATCGGACACGAGAAAAATCACGAATCCCAATAACATATTGTAACTAAAACCCCATGTAACTGG
660005 TACGTATTG
66 TACGTATTG
660014 ATATCGG
1 ATATCGG
660021 GTATTCATCA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (74 bp):
ATATCGGACACGAGAAAAATCACGAATCCCAATAACATATTGTAACTAAAACCCCATGTAACTGG
TACGTATTG
Found at i:666373 original size:35 final size:35
Alignment explanation
Indices: 666334--666411 Score: 122
Period size: 35 Copynumber: 2.2 Consensus size: 35
666324 GGTCTATGAT
666334 TATATATATATATATATTA-CGGGAATCAATAATTA
1 TATATATATATATATATTATCGGGAAT-AATAATTA
* *
666369 TATATATATATATATATTATGGGGAATAATTATTA
1 TATATATATATATATATTATCGGGAATAATAATTA
666404 TATATATA
1 TATATATA
666412 GTTTTTTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
35 34 0.85
36 6 0.15
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.44
Consensus pattern (35 bp):
TATATATATATATATATTATCGGGAATAATAATTA
Found at i:667586 original size:36 final size:37
Alignment explanation
Indices: 667523--667592 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
667513 AATATTACTT
* *
667523 TTATTATTATTGTGTAATAATACTAATA-AATTATTA
1 TTATTATTATTATGTAATAATAATAATATAATTATTA
*
667559 TTATTATTATTATGTCAAT-TTAATAATATAATTA
1 TTATTATTATTATGT-AATAATAATAATATAATTA
667593 AAAATTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 21 0.72
37 8 0.28
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (37 bp):
TTATTATTATTATGTAATAATAATAATATAATTATTA
Found at i:671291 original size:15 final size:16
Alignment explanation
Indices: 671266--671304 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
671256 CAGCAAAAAA
671266 TAGTGAAAATA-TTTAT
1 TAGT-AAAATATTTTAT
671282 TAGTAAAATATTTTAT
1 TAGTAAAATATTTTAT
*
671298 AAGTAAA
1 TAGTAAA
671305 CAAACACACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (16 bp):
TAGTAAAATATTTTAT
Found at i:671578 original size:6 final size:6
Alignment explanation
Indices: 671548--671577 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
671538 CAAACCTTAC
*
671548 CTTGAT CTTGAT CTTGAT CTTGAT GTTGAT
1 CTTGAT CTTGAT CTTGAT CTTGAT CTTGAT
671578 GGACATCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.20, T:0.50
Consensus pattern (6 bp):
CTTGAT
Found at i:671910 original size:13 final size:13
Alignment explanation
Indices: 671892--671919 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
671882 TGAAGTGGGC
671892 AATGTCTTAGTGA
1 AATGTCTTAGTGA
671905 AATGTCTTAGTGA
1 AATGTCTTAGTGA
671918 AA
1 AA
671920 AGATCTGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (13 bp):
AATGTCTTAGTGA
Found at i:679850 original size:30 final size:30
Alignment explanation
Indices: 679812--679893 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
679802 GGGTAACCTC
* *
679812 GATATAATGTCAACTTGTGTGAGCAATATT
1 GATATAATGTCAGCTTGTGTGAGCAACATT
* * * *
679842 GTTATAATGTTAGCTTGTGTGAGTAACCTT
1 GATATAATGTCAGCTTGTGTGAGCAACATT
*
679872 GATATATTGTCAGCTTGTGTGA
1 GATATAATGTCAGCTTGTGTGA
679894 ACAGTTTATT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (30 bp):
GATATAATGTCAGCTTGTGTGAGCAACATT
Found at i:683641 original size:28 final size:28
Alignment explanation
Indices: 683610--683668 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
683600 TCCACATAAG
*
683610 ATAATCCTTGGCAAACTTTACAGAACAA
1 ATAATCCTTAGCAAACTTTACAGAACAA
*
683638 ATAATCCTTAGCAGACTTTACAGAACAA
1 ATAATCCTTAGCAAACTTTACAGAACAA
683666 ATA
1 ATA
683669 GTCATTGACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.25
Consensus pattern (28 bp):
ATAATCCTTAGCAAACTTTACAGAACAA
Found at i:684943 original size:29 final size:30
Alignment explanation
Indices: 684887--684965 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 30
684877 ATATTAAAAT
*
684887 TATACATGAACTTTGATTTAATGTGTAATTG
1 TATACATGAACTTTAATTTAA-GTGTAATTG
* * *
684918 TATACATGAATTTTAATTTGA-TGTAATTA
1 TATACATGAACTTTAATTTAAGTGTAATTG
* *
684947 TACACGTGAAACTTTAATT
1 TATACATG-AACTTTAATT
684966 GTGGTTCAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 13 0.32
30 9 0.22
31 18 0.45
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.44
Consensus pattern (30 bp):
TATACATGAACTTTAATTTAAGTGTAATTG
Found at i:685172 original size:30 final size:29
Alignment explanation
Indices: 685138--685197 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
685128 GGAATTGGAT
*
685138 AAAATCAAAATTTCATGTATAAAATTGCAC
1 AAAATCAAAATTT-ATGTATAAAATTACAC
* *
685168 AAAATCAAAGTTTATGTATATAATTACAC
1 AAAATCAAAATTTATGTATAAAATTACAC
685197 A
1 A
685198 TTAAATCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.32
Consensus pattern (29 bp):
AAAATCAAAATTTATGTATAAAATTACAC
Found at i:685204 original size:31 final size:29
Alignment explanation
Indices: 685138--685218 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 29
685128 GGAATTGGAT
* *
685138 AAAATCAAAATTTCATGTATAAAATTGCAC
1 AAAATCAAAGTTT-ATGTATAAAATTACAC
*
685168 AAAATCAAAGTTTATGTATATAATTACAC
1 AAAATCAAAGTTTATGTATAAAATTACAC
* *
685197 ATTAAATCATAGTTCATGTATA
1 A--AAATCAAAGTTTATGTATA
685219 GTTTTGGTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 15 0.34
30 12 0.27
31 17 0.39
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (29 bp):
AAAATCAAAGTTTATGTATAAAATTACAC
Found at i:691157 original size:18 final size:19
Alignment explanation
Indices: 691134--691177 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
691124 TTAAAACTCT
*
691134 TATTATAAAT-ATAATAAA
1 TATTATAAATAATAAAAAA
691152 TATTAT-AATAATAAAAAA
1 TATTATAAATAATAAAAAA
691170 TATT-TAAA
1 TATTATAAA
691178 ATTACATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TATTATAAATAATAAAAAA
Found at i:697129 original size:29 final size:30
Alignment explanation
Indices: 697065--697130 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
697055 CTTTGACCTT
* * * *
697065 ATTTGATTCTTTTTAATAGTACATGGATTA
1 ATTTGATTCTATTTAATAATACAGGGACTA
* *
697095 AATTGATTC-ATTTAATAATAGAGGGACTA
1 ATTTGATTCTATTTAATAATACAGGGACTA
697124 ATTTGAT
1 ATTTGAT
697131 AAATTTCCTA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (30 bp):
ATTTGATTCTATTTAATAATACAGGGACTA
Found at i:698414 original size:21 final size:21
Alignment explanation
Indices: 698390--698433 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
698380 TGAGTTTTAA
*
698390 AGTTGCTTCATACTCAGGGCG
1 AGTTGCTTCATACCCAGGGCG
698411 AGTTGCTTCATACCCAGGGCG
1 AGTTGCTTCATACCCAGGGCG
698432 AG
1 AG
698434 GATTGAACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (21 bp):
AGTTGCTTCATACCCAGGGCG
Found at i:700234 original size:26 final size:23
Alignment explanation
Indices: 700180--700231 Score: 90
Period size: 22 Copynumber: 2.3 Consensus size: 23
700170 TACCTACCCC
700180 TATTTA-TGAATAAAATCATGTA
1 TATTTATTGAATAAAATCATGTA
700202 TATTTATTG-ATAAAATCATGTA
1 TATTTATTGAATAAAATCATGTA
700224 TATTTATT
1 TATTTATT
700232 TATATTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 27 0.93
23 2 0.07
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (23 bp):
TATTTATTGAATAAAATCATGTA
Found at i:701362 original size:11 final size:11
Alignment explanation
Indices: 701348--701389 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
701338 AGTGTTTAAT
701348 AAATAATATTA
1 AAATAATATTA
701359 AAATAATATTTTA
1 AAATAATA--TTA
701372 AAATTAAT-TTA
1 AAA-TAATATTA
701383 AAATAAT
1 AAATAAT
701390 TCTATTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 4 0.14
11 14 0.50
13 6 0.21
14 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAATAATATTA
Found at i:705093 original size:6 final size:6
Alignment explanation
Indices: 705078--705124 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
705068 TTGAAGGAGA
*
705078 TGGCAG TGGCAA TGGCAG TGGCAG TGGCAG TGGCAG TGGCAG TGGCA
1 TGGCAG TGGCAG TGGCAG TGGCAG TGGCAG TGGCAG TGGCAG TGGCA
705125 TGGGCAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.19, C:0.17, G:0.47, T:0.17
Consensus pattern (6 bp):
TGGCAG
Found at i:705130 original size:18 final size:18
Alignment explanation
Indices: 705078--705130 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 18
705068 TTGAAGGAGA
705078 TGGCAGTGGCAAT-GGCAG
1 TGGCAGTGGC-ATGGGCAG
705096 TGGCAGTGGCA-GTGGCAG
1 TGGCAGTGGCATG-GGCAG
705114 TGGCAGTGGCATGGGCA
1 TGGCAGTGGCATGGGCA
705131 ATTTCGAGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.03
18 30 0.94
19 1 0.03
ACGTcount: A:0.19, C:0.17, G:0.47, T:0.17
Consensus pattern (18 bp):
TGGCAGTGGCATGGGCAG
Found at i:710997 original size:40 final size:39
Alignment explanation
Indices: 710916--711023 Score: 96
Period size: 40 Copynumber: 2.7 Consensus size: 39
710906 CAATAACACA
* * *
710916 CCAGTTTGTGGACAAGCCACTA-ATAATGCAGATAAATTG
1 CCAG-TTGTGGACAAGCCACCAGATAATGCAGACAAACTG
* *
710955 CCAAAGTTGTGGACAAGCCACCAGA-ATTGCAGACAAGCTG
1 CC--AGTTGTGGACAAGCCACCAGATAATGCAGACAAACTG
*
710995 CCAGTAATGTGGACAAGCCGCCAG-TAATG
1 CCAGT--TGTGGACAAGCCACCAGATAATG
711024 TGGACAAGCC
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
38 3 0.05
39 2 0.04
40 48 0.86
41 3 0.05
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (39 bp):
CCAGTTGTGGACAAGCCACCAGATAATGCAGACAAACTG
Found at i:711009 original size:20 final size:20
Alignment explanation
Indices: 710962--711043 Score: 96
Period size: 20 Copynumber: 4.1 Consensus size: 20
710952 TTGCCAAAGT
*
710962 TGTGGACAAGCCACCAG-AA
1 TGTGGACAAGCCGCCAGTAA
*
710981 T-TGCAGACAAGCTGCCAGTAA
1 TGTG--GACAAGCCGCCAGTAA
711002 TGTGGACAAGCCGCCAGTAA
1 TGTGGACAAGCCGCCAGTAA
* *
711022 TGTGGACAAGCCACTAGTAA
1 TGTGGACAAGCCGCCAGTAA
711042 TG
1 TG
711044 CAGATAAACT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 46 0.85
21 3 0.06
22 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (20 bp):
TGTGGACAAGCCGCCAGTAA
Found at i:711026 original size:60 final size:60
Alignment explanation
Indices: 710961--711117 Score: 167
Period size: 60 Copynumber: 2.6 Consensus size: 60
710951 ATTGCCAAAG
* **
710961 TTGTGGACAAGCCACCAGAATTGCAGACAAGCTGCCAGTAAT-GTGGACAAGCCGCCAGTAA
1 TTGTGGACAAGCCACCAGAATTGCAGATAAGCTGCCAGT-ATCGCAGACAAGCCGCCAG-AA
* * * **
711022 -TGTGGACAAGCCACTAGTAA-TGCAGATAAACTGCTAGTATCGCAGACAAGTTGCCAGAA
1 TTGTGGACAAGCCACCAG-AATTGCAGATAAGCTGCCAGTATCGCAGACAAGCCGCCAGAA
* * *
711081 TTGTGGACAAGCCACCAAAATTGTAGATAAGTTGCCA
1 TTGTGGACAAGCCACCAGAATTGCAGATAAGCTGCCA
711118 ATACTTCCTC
Statistics
Matches: 78, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
59 6 0.08
60 70 0.90
61 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (60 bp):
TTGTGGACAAGCCACCAGAATTGCAGATAAGCTGCCAGTATCGCAGACAAGCCGCCAGAA
Found at i:715978 original size:42 final size:41
Alignment explanation
Indices: 715837--716019 Score: 249
Period size: 41 Copynumber: 4.4 Consensus size: 41
715827 CGCTTTCCAC
*
715837 AAAGCGCCGCTAAAGGTCGGGTCATTAGCGGTGCTTATAGA
1 AAAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTATAGA
* *
715878 AAAGCGCCGCTAAAGATCGGGTCATTAGCGGCACTTATAGA
1 AAAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTATAGA
* ** * *
715919 AAAGCACCGCTAAAGGTCTTGTCATTAGCGGCGCTTTTATA
1 AAAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTATAGA
* *
715960 ATAAGCGCCGCTAAAGGTCAGGTCTTTAGCGGCGCTTATTAGA
1 A-AAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTA-TAGA
*
716003 AAAGCGCCACTAAAGGT
1 AAAGCGCCGCTAAAGGT
716020 GTGAATTGGG
Statistics
Matches: 123, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
41 73 0.59
42 46 0.37
43 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (41 bp):
AAAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTATAGA
Found at i:717150 original size:16 final size:16
Alignment explanation
Indices: 717125--717157 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
717115 ATTTAGTTTG
717125 ATTAATTTAAAA-AAA
1 ATTAATTTAAAAGAAA
717140 ATTAGATTTAAAAGAAA
1 ATTA-ATTTAAAAGAAA
717157 A
1 A
717158 AAACAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
ATTAATTTAAAAGAAA
Found at i:717315 original size:13 final size:13
Alignment explanation
Indices: 717297--717322 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
717287 TACGTACCAA
717297 AATCAGCCAAAAT
1 AATCAGCCAAAAT
717310 AATCAGCCAAAAT
1 AATCAGCCAAAAT
717323 CTGAGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.08, T:0.15
Consensus pattern (13 bp):
AATCAGCCAAAAT
Found at i:719555 original size:10 final size:10
Alignment explanation
Indices: 719540--719587 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
719530 TTAAAGTAAA
719540 TAATTATATT
1 TAATTATATT
719550 TAA-T-TATT
1 TAATTATATT
*
719558 TAATTATGTT
1 TAATTATATT
719568 TAATTATATATT
1 TAA-T-TATATT
719580 TAATTATA
1 TAATTATA
719588 AACAGTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
8 7 0.22
9 2 0.06
10 13 0.41
11 2 0.06
12 8 0.25
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TAATTATATT
Found at i:719561 original size:18 final size:18
Alignment explanation
Indices: 719540--719574 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
719530 TTAAAGTAAA
719540 TAATTATATTTAATTATT
1 TAATTATATTTAATTATT
*
719558 TAATTATGTTTAATTAT
1 TAATTATATTTAATTAT
719575 ATATTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TAATTATATTTAATTATT
Found at i:719624 original size:8 final size:8
Alignment explanation
Indices: 719611--719668 Score: 57
Period size: 8 Copynumber: 7.2 Consensus size: 8
719601 AATTTGAAAG
719611 ATTTAATT
1 ATTTAATT
719619 ATTTAATTAT
1 ATTTAA-T-T
719629 ATTTAATT
1 ATTTAATT
719637 ATTTAATT
1 ATTTAATT
*
719645 ATGT--TT
1 ATTTAATT
* *
719651 AATTAAAT
1 ATTTAATT
719659 ATTTAATT
1 ATTTAATT
719667 AT
1 AT
719669 AGACATTATC
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
6 4 0.10
8 27 0.68
9 2 0.05
10 7 0.17
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (8 bp):
ATTTAATT
Found at i:719633 original size:10 final size:10
Alignment explanation
Indices: 719618--719669 Score: 63
Period size: 10 Copynumber: 5.2 Consensus size: 10
719608 AAGATTTAAT
719618 TATTTAATTA
1 TATTTAATTA
719628 TATTTAA-T-
1 TATTTAATTA
719636 TATTTAATTA
1 TATTTAATTA
*
719646 TGTTTAATTAAA
1 TATTTAATT--A
719658 TATTTAATTA
1 TATTTAATTA
719668 TA
1 TA
719670 GACATTATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
8 7 0.19
9 2 0.06
10 18 0.50
12 9 0.25
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TATTTAATTA
Found at i:719634 original size:18 final size:18
Alignment explanation
Indices: 719611--719655 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
719601 AATTTGAAAG
719611 ATTTAATTATTTAATTAT
1 ATTTAATTATTTAATTAT
719629 ATTTAATTATTTAATTAT
1 ATTTAATTATTTAATTAT
*
719647 GTTTAATTA
1 ATTTAATTA
719656 AATATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTTAATTATTTAATTAT
Found at i:719683 original size:82 final size:78
Alignment explanation
Indices: 719540--719728 Score: 256
Period size: 82 Copynumber: 2.4 Consensus size: 78
719530 TTAAAGTAAA
* *
719540 TAATTATATTTAATTATTTAATTATGTTTAATTATATATTTAATTATAAACAGTATTAGTTAATT
1 TAATTATATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATCAGTTAA-T
719605 TGAAAGATTTAATTATT
65 T-AAAGATTTAA-T-TT
* *
719622 TAATTATATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAGACATTATCAGTTAATT
1 TAATTATATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATCAGTTAATT
*
719687 AAATATTTAATTT
66 AAAGATTTAATTT
* * *
719700 GAA--AGATTTAATTATTTAATTATATTTAA
1 TAATTATATTTAATTATTTAATTATGTTTAA
719729 ATGAATAAAA
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
76 24 0.24
78 4 0.04
79 1 0.01
80 9 0.09
81 2 0.02
82 59 0.60
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (78 bp):
TAATTATATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATCAGTTAATT
AAAGATTTAATTT
Found at i:719782 original size:134 final size:135
Alignment explanation
Indices: 719622--720145 Score: 676
Period size: 134 Copynumber: 3.8 Consensus size: 135
719612 TTTAATTATT
* * * *
719622 TAATTATATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAGACATTATCAGTTAATT
1 TAATTATATTTAATTATTTAACTATGTTTAATTATATATTTAATTATAAACAGTATCAGTTAATT
719687 AAATATTTAATTTGAAAGATTTAATTATTTAATTATATTTAAATGAATAAAATTAAAATATTAAA
66 AAATATTTAATTTGAAAGATTTAATTATTTAATTATATTTAAATGAATAAAATTAAAATATTAAA
719752 GTAAA
131 GTAAA
719757 -AATTATATTTAATTATTTAACTATGTTTAATTATATATTTAATTATAAACAGTATCAGTTAATT
1 TAATTATATTTAATTATTTAACTATGTTTAATTATATATTTAATTATAAACAGTATCAGTTAATT
719821 AAATATTTAATTTGAAAGATTTAATTATTTAATTATATTTAAATGAATAAAATTAAAATATTAAA
66 AAATATTTAATTTGAAAGATTTAATTATTTAATTATATTTAAATGAATAAAATTAAAATATTAAA
719886 GTAAA
131 GTAAA
*
719891 TAATTATATTTAATTATTTAACTATGTTTAATTATATATTTAATTATAAACAGTATTAGTT-ATT
1 TAATTATATTTAATTATTTAACTATGTTTAATTATATATTTAATTATAAACAGTATCAGTTAATT
* * * * * *
719955 TAATATTTAATTTAAAAGATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGT
66 AAATATTTAATTTGAAAGATTTAATTATTTAATTATATTTAAATGAATA---AAAT-TAAA-A-T
* *
720020 ATTAGTTAATTTAA
125 ATTA---AAGTAAA
* * * * * *
720034 TATTTA-ATTTAAAATATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAATAGTAT
1 TAATTATATTT-AATTATTT-A--A-CT-A-TG--TTTAATTATATATTTAATTATAAACAGTAT
* *
720098 TAGTTAATTTAATATTTAATTTGAAAGATTTAATTATTTAATTATATT
57 CAGTTAATTAAATATTTAATTTGAAAGATTTAATTATTTAATTATATT
720146 AAAGTAAATA
Statistics
Matches: 348, Mismatches: 21, Indels: 23
0.89 0.05 0.06
Matches are distributed among these distances:
134 177 0.51
135 59 0.17
137 3 0.01
138 4 0.01
139 1 0.00
140 5 0.01
142 4 0.01
143 17 0.05
144 1 0.00
146 1 0.00
147 1 0.00
148 1 0.00
149 1 0.00
151 33 0.09
152 40 0.11
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (135 bp):
TAATTATATTTAATTATTTAACTATGTTTAATTATATATTTAATTATAAACAGTATCAGTTAATT
AAATATTTAATTTGAAAGATTTAATTATTTAATTATATTTAAATGAATAAAATTAAAATATTAAA
GTAAA
Found at i:719862 original size:76 final size:74
Alignment explanation
Indices: 719763--720145 Score: 384
Period size: 76 Copynumber: 5.3 Consensus size: 74
719753 TAAAAATTAT
* * *
719763 ATTTAATTATTTAACTATGTTTAATTATATATTTAATTATAAACAGTATCAGTTAATTAAATATT
1 ATTTAATTATTTAATTATATTTAA--ATATATTTAATTATAAACAGTATTAGTTAATTAAATATT
719828 TAATTTGAAAG
64 TAATTTGAAAG
* * * *
719839 ATTTAATTATTTAATTATATTTAAATGA-A-TAAAAT-TAAA-A-TATTA---AAGTAAATAATT
1 ATTTAATTATTTAATTATATTTAAAT-ATATTTAATTATAAACAGTATTAGTTAATTAAATATTT
**
719896 ATATTT-AATT
65 A-ATTTGAAAG
* * *
719906 ATTTAACTATGT--TTA-A-TT--ATATATTTAATTATAAACAGTATTAGTT-ATTTAATATTTA
1 ATTTAATTATTTAATTATATTTAAATATATTTAATTATAAACAGTATTAGTTAATTAAATATTTA
*
719964 ATTTAAAAG
66 ATTTGAAAG
* * *
719973 ATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATATT
1 ATTTAATTATTTAATTATATTTAA--ATATATTTAATTATAAACAGTATTAGTTAATTAAATATT
* *
720038 TAATTTAAAAT
64 TAATTTGAAAG
* * * *
720049 ATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAATAGTATTAGTTAATTTAATATT
1 ATTTAATTATTTAATTATATTTAA--ATATATTTAATTATAAACAGTATTAGTTAATTAAATATT
720114 TAATTTGAAAG
64 TAATTTGAAAG
720125 ATTTAATTATTTAATTATATT
1 ATTTAATTATTTAATTATATT
720146 AAAGTAAATA
Statistics
Matches: 260, Mismatches: 27, Indels: 40
0.80 0.08 0.12
Matches are distributed among these distances:
60 1 0.00
61 3 0.01
62 4 0.02
63 6 0.02
64 2 0.01
65 8 0.03
66 4 0.02
67 44 0.17
68 4 0.02
69 3 0.01
70 4 0.02
71 3 0.01
72 4 0.02
73 4 0.02
74 3 0.01
75 28 0.11
76 135 0.52
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (74 bp):
ATTTAATTATTTAATTATATTTAAATATATTTAATTATAAACAGTATTAGTTAATTAAATATTTA
ATTTGAAAG
Found at i:719986 original size:8 final size:8
Alignment explanation
Indices: 719973--720178 Score: 60
Period size: 8 Copynumber: 26.2 Consensus size: 8
719963 AATTTAAAAG
719973 ATTTAATT
1 ATTTAATT
719981 ATTTAATT
1 ATTTAATT
*
719989 ATGT--TT
1 ATTTAATT
* *
719995 AATTAAAT
1 ATTTAATT
720003 ATTTAATT
1 ATTTAATT
** *
720011 ATAAACAGT
1 ATTTA-ATT
*
720020 A-TTAGTT
1 ATTTAATT
720027 AATTTAA-T
1 -ATTTAATT
720035 ATTTAA-T
1 ATTTAATT
* *
720042 -TTAAAAT
1 ATTTAATT
720049 ATTTAATT
1 ATTTAATT
720057 ATTTAATT
1 ATTTAATT
*
720065 ATGT--TT
1 ATTTAATT
* *
720071 AATTAAAT
1 ATTTAATT
720079 ATTTAATT
1 ATTTAATT
*
720087 A--TAAAT
1 ATTTAATT
*
720093 AGTATTAGTT
1 A-T-TTAATT
720103 AATTTAA-T
1 -ATTTAATT
720111 ATTTAA-T
1 ATTTAATT
* **
720118 -TTGAAAG
1 ATTTAATT
720125 ATTTAATT
1 ATTTAATT
720133 ATTTAATT
1 ATTTAATT
*
720141 ATATTAAAGT
1 AT-TT-AATT
**
720151 AAATAATT
1 ATTTAATT
720159 ATATTAAATT
1 AT-TT-AATT
720169 ATTTAATT
1 ATTTAATT
720177 AT
1 AT
720179 GTTTAATTTA
Statistics
Matches: 140, Mismatches: 38, Indels: 40
0.64 0.17 0.18
Matches are distributed among these distances:
6 21 0.15
7 16 0.11
8 73 0.52
9 15 0.11
10 14 0.10
11 1 0.01
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (8 bp):
ATTTAATT
Found at i:720155 original size:76 final size:76
Alignment explanation
Indices: 719898--720142 Score: 438
Period size: 76 Copynumber: 3.2 Consensus size: 76
719888 AAATAATTAT
* *
719898 ATTTAATTATTTAACTATGTTTAATTATATATTTAATTATAAACAGTATTAGTT-ATTTAATATT
1 ATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATATT
719962 TAATTTAAAAG
66 TAATTTAAAAG
719973 ATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATATT
1 ATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATATT
*
720038 TAATTTAAAAT
66 TAATTTAAAAG
*
720049 ATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAATAGTATTAGTTAATTTAATATT
1 ATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATATT
*
720114 TAATTTGAAAG
66 TAATTTAAAAG
720125 ATTTAATTATTTAATTAT
1 ATTTAATTATTTAATTAT
720143 ATTAAAGTAA
Statistics
Matches: 163, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
75 52 0.32
76 111 0.68
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (76 bp):
ATTTAATTATTTAATTATGTTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTTAATATT
TAATTTAAAAG
Found at i:720186 original size:18 final size:18
Alignment explanation
Indices: 720129--720178 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
720119 TGAAAGATTT
720129 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
720147 AAGTAAATAATTATATTA
1 AATTATTTAATTATATTA
720165 AATTATTTAATTAT
1 AATTATTTAATTAT
720179 GTTTAATTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
AATTATTTAATTATATTA
Found at i:720539 original size:15 final size:15
Alignment explanation
Indices: 720519--720547 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
720509 ATTTGAAGTT
720519 ATTGGTTGGATTTGC
1 ATTGGTTGGATTTGC
720534 ATTGGTTGGATTTG
1 ATTGGTTGGATTTG
720548 AATTTACAGG
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:0.14, C:0.03, G:0.34, T:0.48
Consensus pattern (15 bp):
ATTGGTTGGATTTGC
Found at i:720687 original size:41 final size:43
Alignment explanation
Indices: 720616--720711 Score: 160
Period size: 41 Copynumber: 2.3 Consensus size: 43
720606 ATCTGTTATA
*
720616 TTAGCGGCGCTTTTGGAGAAAGCGCCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCT
*
720659 TTAGCGGCGCTTGTGG-G-AAGCGCCGCTAAAGAACATTGCCT
1 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCT
720700 TTAGCGGCGCTT
1 TTAGCGGCGCTT
720712 TTTCGCATAA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 35 0.69
42 1 0.02
43 15 0.29
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.23
Consensus pattern (43 bp):
TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCT
Found at i:722621 original size:27 final size:27
Alignment explanation
Indices: 722591--722645 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
722581 TTTTCGTTTA
*
722591 ATTTAGAGTTAAATTGATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
* *
722618 ATTTAAATTTAAATTTATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
722645 A
1 A
722646 ATTATTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (27 bp):
ATTTAAAGTTAAATTGATTTTAAATTT
Found at i:722627 original size:6 final size:6
Alignment explanation
Indices: 722609--722702 Score: 79
Period size: 6 Copynumber: 15.8 Consensus size: 6
722599 TTAAATTGAT
*
722609 TTTAAA TTT--A TTTAAA TTTAAA TTT-AT TTTAAA TTTAATTA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA--A TTTAAA
* ** **
722656 TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TAAAAA TATTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA
722703 CATTAAAAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
4 4 0.05
5 9 0.12
6 51 0.69
7 4 0.05
8 6 0.08
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:722627 original size:17 final size:16
Alignment explanation
Indices: 722609--722679 Score: 94
Period size: 17 Copynumber: 4.4 Consensus size: 16
722599 TTAAATTGAT
722609 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
722625 TTTAAATTTATTTTAAA
1 TTTAAATTTA-TTTAAA
722642 TTT-AA-TTATTTAAA
1 TTTAAATTTATTTAAA
722656 TTT-AATTTGAATTTAAA
1 TTTAAATTT--ATTTAAA
722673 TTTAAAT
1 TTTAAAT
722680 AAAAATAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.22
15 5 0.10
16 12 0.24
17 19 0.38
18 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:722654 original size:31 final size:31
Alignment explanation
Indices: 722616--722677 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
722606 GATTTTAAAT
*
722616 TTATTTAAATTTAAATTT-ATTTTAAATTTAA
1 TTATTTAAATTT-AATTTGAATTTAAATTTAA
722647 TTATTTAAATTTAATTTGAATTTAAATTTAA
1 TTATTTAAATTTAATTTGAATTTAAATTTAA
722678 ATAAAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (31 bp):
TTATTTAAATTTAATTTGAATTTAAATTTAA
Found at i:723466 original size:12 final size:13
Alignment explanation
Indices: 723438--723469 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
723428 TTAAATACTG
723438 TTAATGAATATTA
1 TTAATGAATATTA
723451 TTAATGAATA-TA
1 TTAATGAATATTA
723463 TTAATGA
1 TTAATGA
723470 CAATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (13 bp):
TTAATGAATATTA
Found at i:723787 original size:18 final size:19
Alignment explanation
Indices: 723752--723793 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
723742 TTTTTTAAAA
* *
723752 AAAAAATAAAGAGAGAAAG
1 AAAAAACAAAAAGAGAAAG
723771 AAAAAACAAAAAG-GAAAG
1 AAAAAACAAAAAGAGAAAG
723789 AAAAA
1 AAAAA
723794 GAAGAGGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (19 bp):
AAAAAACAAAAAGAGAAAG
Found at i:723840 original size:11 final size:11
Alignment explanation
Indices: 723812--723841 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
723802 ATCCTACCTT
*
723812 GGACGGCGGTC
1 GGACGGTGGTC
723823 GGACGGTGGTC
1 GGACGGTGGTC
723834 GGACGGTG
1 GGACGGTG
723842 CGTGTACGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.20, G:0.57, T:0.13
Consensus pattern (11 bp):
GGACGGTGGTC
Found at i:724411 original size:162 final size:162
Alignment explanation
Indices: 724229--724541 Score: 581
Period size: 162 Copynumber: 1.9 Consensus size: 162
724219 GCTTTTCAAT
724229 TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
*
724294 TGTAGTCCCTGACATTTTTAATTTATTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACGA
66 TGTAGTCCCTAACATTTTTAATTTATTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACGA
724359 AATTGGCCCAAGAATTTTTCATGGTTTATAAA
131 AATTGGCCCAAGAATTTTTCATGGTTTATAAA
*
724391 TTAGTCCTTTGACTGTTTGACTGTACCAGGGGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
* * *
724456 TTTAGTCCCTAACATTTTTAATTTGTTTTAATTTAATCCCCAAATTAACTTTTATTTAATTACGA
66 TGTAGTCCCTAACATTTTTAATTTATTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACGA
724521 AATTGGCCCAAGAATTTTTCA
131 AATTGGCCCAAGAATTTTTCA
724542 AGATTTACAA
Statistics
Matches: 146, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
162 146 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
TGTAGTCCCTAACATTTTTAATTTATTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACGA
AATTGGCCCAAGAATTTTTCATGGTTTATAAA
Found at i:734740 original size:15 final size:15
Alignment explanation
Indices: 734720--734764 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
734710 AACAGTCAAA
734720 GTCAACGATCAACGG
1 GTCAACGATCAACGG
734735 GTCAACGAGTCAAC-G
1 GTCAACGA-TCAACGG
*
734750 TTCAACGATCAACGG
1 GTCAACGATCAACGG
734765 TAGGTCAACG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 5 0.19
15 17 0.63
16 5 0.19
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (15 bp):
GTCAACGATCAACGG
Found at i:734741 original size:8 final size:8
Alignment explanation
Indices: 734706--734763 Score: 56
Period size: 7 Copynumber: 8.0 Consensus size: 8
734696 TTTTAAAAAA
734706 AGTCAAC-
1 AGTCAACG
734713 AGTCAA--
1 AGTCAACG
734719 AGTCAACG
1 AGTCAACG
734727 A-TCAACG
1 AGTCAACG
*
734734 GGTCAACG
1 AGTCAACG
734742 AGTCAACG
1 AGTCAACG
*
734750 -TTCAACG
1 AGTCAACG
734757 A-TCAACG
1 AGTCAACG
734764 GTAGGTCAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
6 6 0.14
7 24 0.55
8 14 0.32
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.16
Consensus pattern (8 bp):
AGTCAACG
Found at i:734777 original size:7 final size:7
Alignment explanation
Indices: 734707--734777 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 7
734697 TTTAAAAAAA
*
734707 GTCAACA
1 GTCAACG
*
734714 GTCAA-A
1 GTCAACG
734720 GTCAACG
1 GTCAACG
*
734727 ATCAACGG
1 GTCAAC-G
734735 GTCAACG
1 GTCAACG
734742 AGTCAACG
1 -GTCAACG
*
734750 TTCAACG
1 GTCAACG
*
734757 ATCAACG
1 GTCAACG
734764 GT--A-G
1 GTCAACG
734768 GTCAACG
1 GTCAACG
734775 GTC
1 GTC
734778 GGCTTGGCTT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
4 3 0.06
5 1 0.02
6 7 0.13
7 28 0.54
8 13 0.25
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:744133 original size:21 final size:22
Alignment explanation
Indices: 744086--744145 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
744076 AACTGTGCAG
***
744086 ATTTCTACTGATACCTTTACTA
1 ATTTCTACTGATACAAGTACTA
744108 A-TTCTACTGATACAAGTA-TA
1 ATTTCTACTGATACAAGTACTA
*
744128 ATTTCTACCGATACAAGT
1 ATTTCTACTGATACAAGT
744146 CGTGCAACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 3 0.09
21 29 0.88
22 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.38
Consensus pattern (22 bp):
ATTTCTACTGATACAAGTACTA
Found at i:745003 original size:51 final size:51
Alignment explanation
Indices: 744877--745167 Score: 368
Period size: 51 Copynumber: 5.6 Consensus size: 51
744867 TTTCATTTAA
** * * * *
744877 TACTCACGATGACA-TATAGTCATCGGACCCTTTTGTTTCATATAGGAATTCATA
1 TACTCACGATGACACT-TAGTCATCGGA-CC-TTTAATCCGTAAAGG-ATTCATT
* * * * *
744931 AACTCACGATGACACTTAGTCATCGAACCTTTAATTCGTTATGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* *
744982 TACTTACGATGACACTCAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
*
745033 TACTCACGATGACACTTAGTCATCGGGCCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* *
745084 TACTCACGATGACACTTAGTCATCGGACCTTGAATCCGTAAGGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
**
745135 TACTCATAATGACACTTAGTCATCGGACTCTTT
1 TACTCACGATGACACTTAGTCATCGGAC-CTTT
745168 TGTTTATAGC
Statistics
Matches: 210, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
51 172 0.82
52 12 0.06
53 2 0.01
54 23 0.11
55 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.33
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
Found at i:748745 original size:17 final size:16
Alignment explanation
Indices: 748723--748802 Score: 61
Period size: 17 Copynumber: 4.6 Consensus size: 16
748713 ATTCATTTTG
748723 GTTTAAATTTGATTCAA
1 GTTTAAATTTGATT-AA
*
748740 GTTTAAACTTTGCTTTTAAA
1 GTTTAAA-TTTG--ATT-AA
*
748760 GTTTAAATTTAAATTAA
1 GTTTAAATTT-GATTAA
*
748777 GTTTAAATTTAAATTAA
1 GTTTAAATTT-GATTAA
*
748794 ATTTAAATT
1 GTTTAAATT
748803 AAATTAAATT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
17 34 0.63
18 6 0.11
19 3 0.06
20 11 0.20
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (16 bp):
GTTTAAATTTGATTAA
Found at i:748772 original size:6 final size:6
Alignment explanation
Indices: 748754--748812 Score: 72
Period size: 6 Copynumber: 10.3 Consensus size: 6
748744 AAACTTTGCT
*
748754 TTTAAA GTTTAAA TTTAAA -TTAAG TTTAAA TTTAAA -TTAAA TTTAAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
748801 -TTAAA -TTAAA TT
1 TTTAAA TTTAAA TT
748813 AAAGAGGTCC
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
5 19 0.40
6 22 0.47
7 6 0.13
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:748781 original size:11 final size:11
Alignment explanation
Indices: 748755--748815 Score: 72
Period size: 11 Copynumber: 5.5 Consensus size: 11
748745 AACTTTGCTT
748755 TTAAAGTTTAAA
1 TTAAA-TTTAAA
*
748767 TTTAAA-TTAAGT
1 -TTAAATTTAA-A
748779 TTAAATTTAAA
1 TTAAATTTAAA
748790 TTAAATTTAAA
1 TTAAATTTAAA
748801 TTAAA-TTAAA
1 TTAAATTTAAA
748811 TTAAA
1 TTAAA
748816 GAGGTCCAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
10 10 0.23
11 25 0.57
12 4 0.09
13 5 0.11
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:748793 original size:5 final size:5
Alignment explanation
Indices: 748762--748815 Score: 63
Period size: 5 Copynumber: 10.0 Consensus size: 5
748752 CTTTTAAAGT
*
748762 TTAAA TTTAAA TTAAGT TTAAA TTTAAA TTAAA TTTAAA TTAAA TTAAA
1 TTAAA -TTAAA TTAA-A TTAAA -TTAAA TTAAA -TTAAA TTAAA TTAAA
748811 TTAAA
1 TTAAA
748816 GAGGTCCAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
5 24 0.56
6 19 0.44
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (5 bp):
TTAAA
Found at i:749598 original size:24 final size:24
Alignment explanation
Indices: 749528--749599 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
749518 TAACTATTTT
*
749528 TAATAATA-TTAATAATAAATTTAA
1 TAATAATATTTATTAATAAA-TTAA
* *
749552 TAATAATGTTT-TT--TTAATTAA
1 TAATAATATTTATTAATAAATTAA
*
749573 TAATAATATTTATTAATAAATAAA
1 TAATAATATTTATTAATAAATTAA
749597 TAA
1 TAA
749600 AAAGAATTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
21 14 0.37
22 5 0.13
24 17 0.45
25 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (24 bp):
TAATAATATTTATTAATAAATTAA
Found at i:750634 original size:59 final size:61
Alignment explanation
Indices: 750566--750865 Score: 365
Period size: 59 Copynumber: 5.1 Consensus size: 61
750556 AGGAATTATA
** *
750566 TTTTGACCCCGTAACTTTCAAAAATTA-CATTTTTA-CCTTGAAACTTCCAAAAAATCCAT
1 TTTTGACCCCAAAACTTTCAAAAATTACCATTTTTACCCTTGAAACTTCCAAAAATTCCAT
* * * *
750625 TTTTAACCCCAAAACTTTCAAAAATTATCATTTTTACCCCT-AAAC-TCCCAAAATTCCAT
1 TTTTGACCCCAAAACTTTCAAAAATTACCATTTTTACCCTTGAAACTTCCAAAAATTCCAT
*
750684 TTTTGACCCCAAAACTTCCAAAAATTA-CATTTTTACCC-T-AAACTTCCAAAAATTCCAT
1 TTTTGACCCCAAAACTTTCAAAAATTACCATTTTTACCCTTGAAACTTCCAAAAATTCCAT
* ** *
750742 TTTTAACCTTAAAACTTCCAAAAATTACCA-TTTTACCCCTTG-AACTTCC-AAAATTCCAT
1 TTTTGACCCCAAAACTTTCAAAAATTACCATTTTTA-CCCTTGAAACTTCCAAAAATTCCAT
**
750801 TTTTGACCATAAAACTTTCAAAAATTACCA-TTTTACCCTTG-AA-TGTCCAAAAATTCCAT
1 TTTTGACCCCAAAACTTTCAAAAATTACCATTTTTACCCTTGAAACT-TCCAAAAATTCCAT
750860 TTTTGA
1 TTTTGA
750866 TCTTGACTTT
Statistics
Matches: 217, Mismatches: 15, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
57 6 0.03
58 64 0.29
59 124 0.57
60 20 0.09
61 3 0.01
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.35
Consensus pattern (61 bp):
TTTTGACCCCAAAACTTTCAAAAATTACCATTTTTACCCTTGAAACTTCCAAAAATTCCAT
Found at i:750640 original size:30 final size:29
Alignment explanation
Indices: 750578--750863 Score: 251
Period size: 30 Copynumber: 9.8 Consensus size: 29
750568 TTGACCCCGT
* * ***
750578 AACTTTCAAAAATTACATTTTTACCTTGA
1 AACTTCCAAAAATTCCATTTTTACCCCAA
*
750607 AACTTCCAAAAAATCCATTTTTAACCCCAA
1 AACTTCCAAAAATTCCATTTTT-ACCCCAA
* * *
750637 AACTTTCAAAAATTATCATTTTTACCCCTA
1 AACTTCCAAAAATT-CCATTTTTACCCCAA
*
750667 AAC-TCCCAAAATTCCATTTTTGACCCCAA
1 AACTTCCAAAAATTCCATTTTT-ACCCCAA
* *
750696 AACTTCCAAAAATTACATTTTTA-CCCTA
1 AACTTCCAAAAATTCCATTTTTACCCCAA
**
750724 AACTTCCAAAAATTCCATTTTTAACCTTAA
1 AACTTCCAAAAATTCCATTTTT-ACCCCAA
**
750754 AACTTCCAAAAATTACCA-TTTTACCCCTTG
1 AACTTCCAAAAATT-CCATTTTTACCCC-AA
**
750784 AACTTCC-AAAATTCCATTTTTGACCATAA
1 AACTTCCAAAAATTCCATTTTT-ACCCCAA
* ***
750813 AACTTTCAAAAATTACCA-TTTTACCCTTG
1 AACTTCCAAAAATT-CCATTTTTACCCCAA
750842 AA-TGTCCAAAAATTCCATTTTT
1 AACT-TCCAAAAATTCCATTTTT
750864 GATCTTGACT
Statistics
Matches: 209, Mismatches: 34, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
28 39 0.19
29 76 0.36
30 81 0.39
31 13 0.06
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.35
Consensus pattern (29 bp):
AACTTCCAAAAATTCCATTTTTACCCCAA
Found at i:750774 original size:117 final size:117
Alignment explanation
Indices: 750566--750863 Score: 404
Period size: 117 Copynumber: 2.5 Consensus size: 117
750556 AGGAATTATA
** * *
750566 TTTTGACCCCGTAACTTTCAAAAATTACATTTTTACCTTGAAACTTCCAAAAAATCCATTTTTAA
1 TTTTGACCCCAAAACTTTCAAAAATTACATTTTTACCCT-AAACTTCCAAAAATTCCATTTTTAA
* *
750631 CCCCAAAACTTTCAAAAATTATCATTTTTACCCC-TAAACTCCCAAAATTCCAT
65 CCCCAAAACTTCCAAAAATTACCA-TTTTACCCCTTAAACTCCCAAAATTCCAT
*
750684 TTTTGACCCCAAAACTTCCAAAAATTACATTTTTACCCTAAACTTCCAAAAATTCCATTTTTAAC
1 TTTTGACCCCAAAACTTTCAAAAATTACATTTTTACCCTAAACTTCCAAAAATTCCATTTTTAAC
** * *
750749 CTTAAAACTTCCAAAAATTACCATTTTACCCCTTGAACTTCCAAAATTCCAT
66 CCCAAAACTTCCAAAAATTACCATTTTACCCCTTAAACTCCCAAAATTCCAT
** *
750801 TTTTGACCATAAAACTTTCAAAAATTACCA-TTTTACCCTTGAA-TGTCCAAAAATTCCATTTTT
1 TTTTGACCCCAAAACTTTCAAAAATTA-CATTTTTACCC-TAAACT-TCCAAAAATTCCATTTTT
750864 GATCTTGACT
Statistics
Matches: 161, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
116 9 0.06
117 94 0.58
118 58 0.36
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.36
Consensus pattern (117 bp):
TTTTGACCCCAAAACTTTCAAAAATTACATTTTTACCCTAAACTTCCAAAAATTCCATTTTTAAC
CCCAAAACTTCCAAAAATTACCATTTTACCCCTTAAACTCCCAAAATTCCAT
Found at i:756520 original size:5 final size:5
Alignment explanation
Indices: 756510--756594 Score: 72
Period size: 5 Copynumber: 16.8 Consensus size: 5
756500 TTCAATGAAT
*
756510 AAAAG AAAAG AAAAG AAACA- AGAAG AAAAAG AAAAAG AAAAG AAAA-
1 AAAAG AAAAG AAAAG AAA-AG AAAAG -AAAAG -AAAAG AAAAG AAAAG
756556 AACAAGG AAAA- AAAAG AAAAG -AAA- AAAAG AAAAAG AAAA
1 AA-AA-G AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAAA
756595 AGAGAGGTCG
Statistics
Matches: 68, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
4 13 0.19
5 35 0.51
6 18 0.26
7 2 0.03
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:756543 original size:6 final size:6
Alignment explanation
Indices: 756510--756597 Score: 65
Period size: 6 Copynumber: 14.0 Consensus size: 6
756500 TTCAATGAAT
*
756510 AAAAG- AAAAGA AAAGAAA CAAGAAGA AAAAGA AAAAG- AAAAGA AAAA-A
1 AAAAGA AAAAGA AAA-AGA -AA-AAGA AAAAGA AAAAGA AAAAGA AAAAGA
* *
756558 CAAGGAAAA AAAAGA AAAGAAA AAAAGA AAAAGA AAAAGA
1 -AA--AAGA AAAAGA AAA-AGA AAAAGA AAAAGA AAAAGA
756598 GAGGTCGAGG
Statistics
Matches: 68, Mismatches: 5, Indels: 19
0.74 0.05 0.21
Matches are distributed among these distances:
5 11 0.16
6 38 0.56
7 9 0.13
8 8 0.12
9 2 0.03
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:756550 original size:27 final size:25
Alignment explanation
Indices: 756510--756597 Score: 110
Period size: 25 Copynumber: 3.5 Consensus size: 25
756500 TTCAATGAAT
756510 AAAAG-AAAAGAAAAGAAACAAGAAGA
1 AAAAGAAAAAGAAAAGAAA-AA-AAGA
756536 AAAAGAAAAAGAAAAGAAAAAACA-A
1 AAAAGAAAAAGAAAAGAAAAAA-AGA
*
756561 GGAAA-AAAAAGAAAAGAAAAAAAGA
1 -AAAAGAAAAAGAAAAGAAAAAAAGA
756586 AAAAGAAAAAGA
1 AAAAGAAAAAGA
756598 GAGGTCGAGG
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
24 4 0.07
25 27 0.49
26 11 0.20
27 13 0.24
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (25 bp):
AAAAGAAAAAGAAAAGAAAAAAAGA
Found at i:757063 original size:49 final size:50
Alignment explanation
Indices: 756946--757069 Score: 160
Period size: 49 Copynumber: 2.5 Consensus size: 50
756936 GGCGAACCTT
* * * * *
756946 GTACCTCAGAGACATTACGGGAAAGATCTAAGACCGCAACGGTGGATCCA
1 GTACCACAAAGACATGAAGGGAAAGATCTAAGACCGCAACGGCGGATCCA
* *
756996 GTACCACGAAGACATGAAGGGAAAGATCTAAG-CCGCGACGGCGGATCCA
1 GTACCACAAAGACATGAAGGGAAAGATCTAAGACCGCAACGGCGGATCCA
**
757045 GTACCACAAAGATTTGAAGGGAAAG
1 GTACCACAAAGACATGAAGGGAAAG
757070 GTTTAAGTCG
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
49 37 0.58
50 27 0.42
ACGTcount: A:0.36, C:0.22, G:0.28, T:0.14
Consensus pattern (50 bp):
GTACCACAAAGACATGAAGGGAAAGATCTAAGACCGCAACGGCGGATCCA
Found at i:757419 original size:39 final size:39
Alignment explanation
Indices: 757371--757577 Score: 150
Period size: 39 Copynumber: 5.3 Consensus size: 39
757361 AAGCCTTTTG
* *
757371 ATCTTTTACCCTGAGCTTGGGGCAGATTATCATCAACCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTATCATCAACCA
* * * **
757410 ATCTCTTACCCCGAGCCTGGGGCAGATT-GCAGCAATTTA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTATCATCAA-CCA
* * * ** * *
757449 ATTTTTTACCCCGAGCCTGGGGCAGATCGTCGTCAATCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTATCATCAACCA
* * *
757488 ATCTCTTACCCCGAG-TCTGGGGCAGATTA-CAACCATCCG
1 ATCTCTTACCCCGAGCT-TGGGGCAGATTATC-ATCAACCA
* * * * * *
757527 ACCTTTTACTCCGAGCTTGGAGCAGATCATTATCAACCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTATCATCAACCA
*
757566 ATCTCCTACCCC
1 ATCTCTTACCCC
757578 AATCACGAGA
Statistics
Matches: 125, Mismatches: 37, Indels: 12
0.72 0.21 0.07
Matches are distributed among these distances:
38 6 0.05
39 114 0.91
40 5 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCTTGGGGCAGATTATCATCAACCA
Found at i:757427 original size:78 final size:77
Alignment explanation
Indices: 757332--757577 Score: 278
Period size: 78 Copynumber: 3.2 Consensus size: 77
757322 GAAGATTCTG
* *
757332 ATCTCTTACCCCAAGCCTGGGGCAGATTGAAGCCTTTTGATCTTTTACCCTGAGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGAAGCCATTTGATCTTTTACCC-GAGCTTGGGGCAGA
*
757397 TTATCATCAACCA
65 TCATCATCAACCA
* * * * *
757410 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCAATTTAATTTTTTACCCCGAGCCTGGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGAAGCCATTTGATCTTTTA-CCCGAGCTTGGGGCAGA
* * *
757475 TCGTCGTCAATCA
65 TCATCATCAACCA
* * ** * *
757488 ATCTCTTACCCCGAGTCTGGGGCAGATT-ACAACCATCCGACCTTTTACTCCGAGCTTGGAGCAG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGA-AGCCATTTGATCTTTTAC-CCGAGCTTGGGGCAG
*
757552 ATCATTATCAACCA
64 ATCATCATCAACCA
*
757566 ATCTCCTACCCC
1 ATCTCTTACCCC
757578 AATCACGAGA
Statistics
Matches: 138, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
77 1 0.01
78 134 0.97
79 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (77 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATTGAAGCCATTTGATCTTTTACCCGAGCTTGGGGCAGAT
CATCATCAACCA
Found at i:758203 original size:171 final size:171
Alignment explanation
Indices: 757913--758257 Score: 600
Period size: 171 Copynumber: 2.0 Consensus size: 171
757903 TACTAAGAAG
* *
757913 TGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAACGGGACGGTTATCT
1 TGGACCAAATTCATCTTCCTAATAAGATACAGAGAAGCAGATTGAAACAAACGGGACGGTTATCT
*
757978 TCCTGATAAGATATAGAGAAGTATACCAACTCAGGGCTCGATGTGAGCAAATCTTCGAATCCCAA
66 TCCTGATAAGATACAGAGAAGTATACCAACTCAGGGCTCGATGTGAGCAAATCTTCGAATCCCAA
* *
758043 CTTCCTGATGAGATACTGAGAAGCAGGTCAAAGTAATAAAA
131 CTTCCTAATGAGATACTGAGAAGCAGGTCAAAGCAATAAAA
*
758084 TGGACCAAATTCGTCTTCCTAATAAGATACAGAGAAGCAGATTGAAACAAACGGGACGGTTATCT
1 TGGACCAAATTCATCTTCCTAATAAGATACAGAGAAGCAGATTGAAACAAACGGGACGGTTATCT
* *
758149 TCCTGATGAGATACAGAGAAGTATACCAACTCAGGGCTCGATGTGAGTAAATCTTCGAATCCCAA
66 TCCTGATAAGATACAGAGAAGTATACCAACTCAGGGCTCGATGTGAGCAAATCTTCGAATCCCAA
* *
758214 CTTCCTAATGAGATACTGAGAAGTAGGTCGAAGCAATAAAA
131 CTTCCTAATGAGATACTGAGAAGCAGGTCAAAGCAATAAAA
758255 TGG
1 TGG
758258 TTAGCTTCTC
Statistics
Matches: 164, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
171 164 1.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.23
Consensus pattern (171 bp):
TGGACCAAATTCATCTTCCTAATAAGATACAGAGAAGCAGATTGAAACAAACGGGACGGTTATCT
TCCTGATAAGATACAGAGAAGTATACCAACTCAGGGCTCGATGTGAGCAAATCTTCGAATCCCAA
CTTCCTAATGAGATACTGAGAAGCAGGTCAAAGCAATAAAA
Found at i:758785 original size:206 final size:206
Alignment explanation
Indices: 758084--758785 Score: 869
Period size: 206 Copynumber: 3.4 Consensus size: 206
758074 AGTAATAAAA
* * * * * *
758084 TGGACCAAATTCGTCTTCCTAATAAGATACAGAGAAGCAGATTGAAACAAACG-GGACGGTTATC
1 TGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAATGACG-CGGTCATC
* * * * ** *
758148 TTCCTGATGAGATAC--AG-AGAAG--TATA-CCAACTCAGGGCTCGATGTGAGTAAATCTTCGA
65 TTCCTGATGAGATACTGAGAAGAAGAACAAATCAAACCCA-TACTCGATGTGAGCAAATCTTCGA
* * * * *
758207 ATCCCAACTTCCTAATGAGATACTGAGAAGTAGGTCGAAGCAATAAAATGGTTAGCTTCTCGATG
129 ACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCTTGATG
758272 AGATACTGAGAAG
194 AGATACTGAGAAG
** *
758285 TGGACCAAATTTATCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAATGACGCGGTGATCT
1 TGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAATGACGCGGTCATCT
* * * * *
758350 TCCTAATGAGATACTGAGAAGAATACCAAATCAAATCCATGCTCGATGTGAGCAAATCTTCGAAC
66 TCCTGATGAGATACTGAGAAGAAGAACAAATCAAACCCATACTCGATGTGAGCAAATCTTCGAAC
* * * ** *
758415 CCCGGCTTCCTGATGAGATACTGAGAAGCGGGTCAAAATAATAAAATGGTTAGCTTCCTGATGAG
131 CCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCTTGATGAG
*
758480 ATACTGAGAAA
196 ATACTGAGAAG
* * * **
758491 TGGACCAAATTCGTATTTCTAATGAGATACAGAGAAGCGGATTGAAACAAATGACGTAGTCATCT
1 TGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAATGACGCGGTCATCT
*
758556 TCCTGATGAGATACCGAGAAGAAGAACAAATCAAACCCATACTCGATGTGAGCAAATCTTCGAAC
66 TCCTGATGAGATACTGAGAAGAAGAACAAATCAAACCCATACTCGATGTGAGCAAATCTTCGAAC
* *
758621 CCCAGCTTCCTGATAAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCTTAATGAG
131 CCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCTTGATGAG
*
758686 ATACGGAGAAG
196 ATACTGAGAAG
* * * * * * ** * *
758697 TGAACCAAATCCGTCTTCCTGATGAAACACAGAGAAGTGAATCAAAACAAGTGATGCGGTCATCT
1 TGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAATGACGCGGTCATCT
758762 TCCTGATGAGATACTGAGAAGAAG
66 TCCTGATGAGATACTGAGAAGAAG
758786 GCCAAGTCAA
Statistics
Matches: 425, Mismatches: 69, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
201 68 0.16
202 1 0.00
203 2 0.00
204 4 0.01
206 345 0.81
207 5 0.01
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.23
Consensus pattern (206 bp):
TGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAATGACGCGGTCATCT
TCCTGATGAGATACTGAGAAGAAGAACAAATCAAACCCATACTCGATGTGAGCAAATCTTCGAAC
CCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCTTGATGAG
ATACTGAGAAG
Found at i:759162 original size:17 final size:18
Alignment explanation
Indices: 759136--759189 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 18
759126 CCATTTTATT
*
759136 CATTTCAGTTTAAATTTG
1 CATTTAAGTTTAAATTTG
759154 -ATTTAAGTTTAAACTTTG
1 CATTTAAGTTTAAA-TTTG
*
759172 CTTTTAAAGTTTAAATTT
1 CATTT-AAGTTTAAATTT
759190 AAATTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 12 0.39
18 4 0.13
19 6 0.19
20 9 0.29
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.52
Consensus pattern (18 bp):
CATTTAAGTTTAAATTTG
Found at i:759841 original size:12 final size:12
Alignment explanation
Indices: 759800--759859 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
759790 ACATTGTTCG
759800 TAATAAATATTAA
1 TAAT-AATATTAA
* **
759813 TAAAAACTATTTT
1 TAATAA-TATTAA
759826 TAATAATATTAA
1 TAATAATATTAA
759838 TAATAA-ATTTAA
1 TAATAATA-TTAA
759850 TAATAATATT
1 TAATAATATT
759860 TATTTATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
11 1 0.03
12 24 0.63
13 13 0.34
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATAATATTAA
Found at i:760949 original size:59 final size:60
Alignment explanation
Indices: 760874--761176 Score: 370
Period size: 60 Copynumber: 5.1 Consensus size: 60
760864 AGGAATTATA
** *
760874 TTTTGACCTCGTAACTTTCAAAAATTA-CATTTTTACCTTGAAACTTCCAAAAATTCCAT
1 TTTTGACCTCAAAACTTTCAAAAATTACCATTTTTACCTCGAAACTTCCAAAAATTCCAT
*
760933 TTTTGACCTCAAAACTTTCAAAAATTA-CATTTTTACCTCAAAACTTCCAAAAATTCCAT
1 TTTTGACCTCAAAACTTTCAAAAATTACCATTTTTACCTCGAAACTTCCAAAAATTCCAT
* * * *
760992 TTTTGACCCCAAAACTTTTAAAAATTATCATTTTTACCTCGAAACTCCCAAAAATTCCAT
1 TTTTGACCTCAAAACTTTCAAAAATTACCATTTTTACCTCGAAACTTCCAAAAATTCCAT
* * * * *
761052 TTTTAACC-CTAAAACTTCCAAAAATTACCATTTTTACCCCG-AA-TGTCCAAAAAACTCTAT
1 TTTTGACCTC-AAAACTTTCAAAAATTACCATTTTTACCTCGAAACT-TCC-AAAAATTCCAT
**
761112 TTTTGACCTTGAAACTTTCAAAAATTACCA-TTTTACCCTC-AAA-TGTCCAAAAATTCCAT
1 TTTTGACCTCAAAACTTTCAAAAATTACCATTTTTA-CCTCGAAACT-TCCAAAAATTCCAT
761171 TTTTGA
1 TTTTGA
761177 TCCCGTTTTT
Statistics
Matches: 214, Mismatches: 23, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
58 1 0.00
59 105 0.49
60 108 0.50
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (60 bp):
TTTTGACCTCAAAACTTTCAAAAATTACCATTTTTACCTCGAAACTTCCAAAAATTCCAT
Found at i:760955 original size:30 final size:29
Alignment explanation
Indices: 760886--761174 Score: 257
Period size: 30 Copynumber: 9.8 Consensus size: 29
760876 TTGACCTCGT
* * **
760886 AACTTTCAAAAATTACATTTTTACCTTGA
1 AACTTCCAAAAATTCCATTTTTACCTCAA
760915 AACTTCCAAAAATTCCATTTTTGACCTCAA
1 AACTTCCAAAAATTCCATTTTT-ACCTCAA
* *
760945 AACTTTCAAAAATTACATTTTTACCTCAA
1 AACTTCCAAAAATTCCATTTTTACCTCAA
*
760974 AACTTCCAAAAATTCCATTTTTGACCCCAA
1 AACTTCCAAAAATTCCATTTTT-ACCTCAA
** * *
761004 AACTTTTAAAAATTATCATTTTTACCTCGA
1 AACTTCCAAAAATT-CCATTTTTACCTCAA
*
761034 AACTCCCAAAAATTCCATTTTTAACC-CTAA
1 AACTTCCAAAAATTCCATTTTT-ACCTC-AA
**
761064 AACTTCCAAAAATTACCATTTTTACC-CCG
1 AACTTCCAAAAATT-CCATTTTTACCTCAA
* * **
761093 AA-TGTCCAAAAAACTCTATTTTTGACCTTGA
1 AACT-TCC-AAAAATTCCATTTTT-ACCTCAA
*
761124 AACTTTCAAAAATTACCA-TTTTACCCTC-A
1 AACTTCCAAAAATT-CCATTTTTA-CCTCAA
761153 AA-TGTCCAAAAATTCCATTTTT
1 AACT-TCCAAAAATTCCATTTTT
761175 GATCCCGTTT
Statistics
Matches: 213, Mismatches: 32, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
28 5 0.02
29 84 0.39
30 102 0.48
31 21 0.10
32 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (29 bp):
AACTTCCAAAAATTCCATTTTTACCTCAA
Found at i:761166 original size:29 final size:31
Alignment explanation
Indices: 760886--761174 Score: 215
Period size: 29 Copynumber: 9.7 Consensus size: 31
760876 TTGACCTCGT
* * *
760886 AACTTTCAAAAATTA-CATTTTT-ACCTTGA
1 AACTTCCAAAAATTACCATTTTTAACCCTCA
*
760915 AACTTCCAAAAATT-CCATTTTTGA-CCTCAA
1 AACTTCCAAAAATTACCATTTTTAACCCTC-A
*
760945 AACTTTCAAAAATTA-CATTTTT-A-CCTCAA
1 AACTTCCAAAAATTACCATTTTTAACCCTC-A
*
760974 AACTTCCAAAAATT-CCATTTTTGACCC-CAA
1 AACTTCCAAAAATTACCATTTTTAACCCTC-A
** *
761004 AACTTTTAAAAATTATCATTTTT-A-CCTCGA
1 AACTTCCAAAAATTACCATTTTTAACCCTC-A
* *
761034 AACTCCCAAAAATT-CCATTTTTAACCCTAA
1 AACTTCCAAAAATTACCATTTTTAACCCTCA
*
761064 AACTTCCAAAAATTACCATTTTT-ACCC-CG
1 AACTTCCAAAAATTACCATTTTTAACCCTCA
* * *
761093 AA-TGTCCAAAAA--ACTCTATTTTTGACCTTGA
1 AACT-TCCAAAAATTAC-C-ATTTTTAACCCTCA
*
761124 AACTTTCAAAAATTACCA-TTTT-ACCCTCA
1 AACTTCCAAAAATTACCATTTTTAACCCTCA
761153 AA-TGTCCAAAAATT-CCATTTTT
1 AACT-TCCAAAAATTACCATTTTT
761175 GATCCCGTTT
Statistics
Matches: 214, Mismatches: 24, Indels: 44
0.76 0.09 0.16
Matches are distributed among these distances:
27 2 0.01
28 6 0.03
29 94 0.44
30 78 0.36
31 30 0.14
32 2 0.01
33 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (31 bp):
AACTTCCAAAAATTACCATTTTTAACCCTCA
Found at i:766042 original size:29 final size:29
Alignment explanation
Indices: 766010--766103 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
766000 AAACGATAAT
766010 TTTTGGTAAAATCAGGGTTAAAAATGGAA
1 TTTTGGTAAAATCAGGGTTAAAAATGGAA
* * *
766039 TTTTGG-AAAGTTCGGGGGT-AAAATGGTAA
1 TTTTGGTAAA-ATCAGGGTTAAAAATGG-AA
* * *
766068 TTTTTGGTGAAA-CTGAGGTCAAAAATGGAA
1 -TTTTGGTAAAATCAG-GGTTAAAAATGGAA
766098 TTTTGG
1 TTTTGG
766104 AAAGTTTGAG
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
28 10 0.20
29 22 0.43
30 10 0.20
31 9 0.18
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (29 bp):
TTTTGGTAAAATCAGGGTTAAAAATGGAA
Found at i:766092 original size:59 final size:59
Alignment explanation
Indices: 765874--766133 Score: 251
Period size: 59 Copynumber: 4.4 Consensus size: 59
765864 ATTTTTGACT
* * * *
765874 TTCGGGGGTAAAAAT-GTAA-TTTTGGTGAAATTAGGGTCAAAAATGAAATTTTCGAAAG
1 TTCGGGGGT-AAAATGGTAATTTTTGGTAAAATGAGGGTCAAAAATGGAATTTTGGAAAG
* * * * * * * ** *
765932 TTTGAGGGTAAAACGGTAATTTTTGATAAAATCGAGGCT-AACAGTGGGGTTTTAGAAAG
1 TTCGGGGGTAAAATGGTAATTTTTGGTAAAAT-GAGGGTCAAAAATGGAATTTTGGAAAG
* * * * *
765991 ATCGGGGGT-AAACGATAATTTTTGGTAAAATCAGGGTTAAAAATGGAATTTTGGAAAG
1 TTCGGGGGTAAAATGGTAATTTTTGGTAAAATGAGGGTCAAAAATGGAATTTTGGAAAG
*
766049 TTCGGGGGTAAAATGGTAATTTTTGGTGAAACTGA-GGTCAAAAATGGAATTTTGGAAAG
1 TTCGGGGGTAAAATGGTAATTTTTGGT-AAAATGAGGGTCAAAAATGGAATTTTGGAAAG
* *
766108 TTTGAGGGTAAAATGGTAATCTTTTG
1 TTCGGGGGTAAAATGGTAAT-TTTTG
766134 AAGGTTTTGG
Statistics
Matches: 162, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
57 8 0.05
58 54 0.33
59 86 0.53
60 14 0.09
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (59 bp):
TTCGGGGGTAAAATGGTAATTTTTGGTAAAATGAGGGTCAAAAATGGAATTTTGGAAAG
Found at i:766107 original size:117 final size:117
Alignment explanation
Indices: 765893--766107 Score: 263
Period size: 117 Copynumber: 1.8 Consensus size: 117
765883 AAAAATGTAA
* * *
765893 TTTTGGTGAAATTAGGGTCAAAAATGAAATTTTCGAAAGTTTGAGGGTAAAACGGTAATTTTTGA
1 TTTTGGTAAAATCAGGGTCAAAAATGAAATTTTCGAAAGTTCGAGGGTAAAACGGTAATTTTTGA
* * **
765958 TAAAATCGAGGCTAACAGTGGGGTTTTAGAAAGATCGGGGGTAAACGATAAT
66 TAAAATCGAGGCTAAAAATGGAATTTTAGAAAGATCGGGGGTAAACGATAAT
* * * * * *
766010 TTTTGGTAAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGG
1 TTTTGGTAAAATCAGGGTCAAAAATGAAATTTTCGAAAGTTCGAGGGTAAAACGGTAATTTTTGA
* *
766075 TGAAA-CTGAGG-TCAAAAATGGAATTTTGGAAAG
66 TAAAATC-GAGGCT-AAAAATGGAATTTTAGAAAG
766108 TTTGAGGGTA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
116 2 0.02
117 79 0.98
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.31
Consensus pattern (117 bp):
TTTTGGTAAAATCAGGGTCAAAAATGAAATTTTCGAAAGTTCGAGGGTAAAACGGTAATTTTTGA
TAAAATCGAGGCTAAAAATGGAATTTTAGAAAGATCGGGGGTAAACGATAAT
Found at i:766113 original size:29 final size:28
Alignment explanation
Indices: 766028--766120 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 28
766018 AAATCAGGGT
* *
766028 TAAAAATGGAATTTTGGAAAGTTCGGGGG
1 TAAAAATGGAATTTTGGAAAGTT-TGAGG
*
766057 T-AAAATGGTAATTTTTGGTGAAA--CTGAGG
1 TAAAAATGG-AA-TTTT-G-GAAAGTTTGAGG
766086 TCAAAAATGGAATTTTGGAAAGTTTGAGGG
1 T-AAAAATGGAATTTTGGAAAGTTTGA-GG
766116 TAAAA
1 TAAAA
766121 TGGTAATCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 18
0.70 0.05 0.25
Matches are distributed among these distances:
27 4 0.08
28 8 0.16
29 18 0.35
30 9 0.18
31 8 0.16
32 4 0.08
ACGTcount: A:0.38, C:0.03, G:0.29, T:0.30
Consensus pattern (28 bp):
TAAAAATGGAATTTTGGAAAGTTTGAGG
Found at i:767259 original size:22 final size:22
Alignment explanation
Indices: 767234--767288 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 22
767224 AAAAAAGTTC
767234 ATTATTATTAAAATCACTTATT
1 ATTATTATTAAAATCACTTATT
* *
767256 ATTATTA--GAAA-CATTTATT
1 ATTATTATTAAAATCACTTATT
767275 ATTATTATTAAAAT
1 ATTATTATTAAAAT
767289 GTTATCAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 14 0.52
20 3 0.11
21 3 0.11
22 7 0.26
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTATTATTAAAATCACTTATT
Found at i:768644 original size:200 final size:200
Alignment explanation
Indices: 768255--769472 Score: 1694
Period size: 200 Copynumber: 6.2 Consensus size: 200
768245 CCATCCGGCC
* * * * * *
768255 TTCTTCTCCGTGTCTCATCAAGAGGATGACCG-CAATCATCTGTTTTAATTCGCTTCTCTGGATC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGTC--TCGTTTGTTTTAATTCGCTTCTCTGGATC
* * *
768319 TCCTTAGGAAGACGAATTTGGCCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCT
64 TCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCT
** * * * *
768384 TCGACCTGCTTCTCAGTACCTCATCAAGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTTAA
129 TCGACCTGCTTCTCAGTGTCTCATCAGGAAGCCGGGTTCGAAGATTTGCTCGCTTTGAGCGTTGA
768449 GTTGGTA
194 GTTGGTA
* * * *
768456 TTCTTCTCTGTATCTCATCAGGAAGATTACCGTCTCGTTTGTTTTAATTCACTTTTCTAGATCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGTCTCGTTTGTTTTAATTCGCTTCTCTGGATCTC
768521 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTC
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTC
* * *
768586 GACCTGCTTCTCAGTGTCTCATCAGGAAACCGAGTCCGAAGATTTGCTCGCTTTGAGCGTTGAGT
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCCGGGTTCGAAGATTTGCTCGCTTTGAGCGTTGAGT
768651 TGGTA
196 TGGTA
* * * *
768656 TTCTTTTCTGTATCTCATCAGGAAGATGACCGTCTTGTTTGTTTCAATTTGCTTCTCTGGATCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGTCTCGTTTGTTTTAATTCGCTTCTCTGGATCTC
* * * * *
768721 CTCAAGAAGATGAATTCGGTTCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGTTTC
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTC
* * *
768786 GA-------C-C--TG-----TCAGGAAGCTGGGTTCGAAGATTTGCTTGCGTTGAGCGTTGAGT
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCCGGGTTCGAAGATTTGCTCGCTTTGAGCGTTGAGT
768836 TGGTA
196 TGGTA
* *
768841 TTCTTCTCTGTATCTCATCAGGAAGATGCCCGTCTCGTTTGTTTTAATTCGCTTTTCTGGATCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGTCTCGTTTGTTTTAATTCGCTTCTCTGGATCTC
* *
768906 CTCAGGAAGACGAATATGGTCCACTTCTCTGTGTCTCATTAGGAAGCTAACCATTTTATTGCTTC
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTC
* * * * * * * *
768971 CACATGCTTCTCAGTGTCTCATTAGGAAGCCAGGTCCAAAGATTTGCTCGCTTTGAACGTTGGGT
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCCGGGTTCGAAGATTTGCTCGCTTTGAGCGTTGAGT
769036 TGGTA
196 TGGTA
* * *
769041 TTCTTCTCTGTATCTCATCAGGAAGATGACTGTCTTGTTTGTTTCAATTCGCTTCTCTGGATCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGTCTCGTTTGTTTTAATTCGCTTCTCTGGATCTC
* *
769106 CTCAGGAAGACGAATTTGGTTCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGTTTC
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTC
* * *
769171 GACCTGCTCCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTTGAGT
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCCGGGTTCGAAGATTTGCTCGCTTTGAGCGTTGAGT
769236 TGGTA
196 TGGTA
* ** * *
769241 TTCTTCTCTGCATCTCATCAGGAAGATGACCACCTCGCTTGTTTTAATTCGCTTTTCTGGATCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGTCTCGTTTGTTTTAATTCGCTTCTCTGGATCTC
* * *
769306 CTCAAGAAGACGAATTTGGTCCACTTCTCTGTGTCTCCTCAAGAAGCTAACCATTTTATTGCTTC
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTC
* * *
769371 GACCTGCTTCTCAGTGTCTCATCATGAAGTCGGGTTCAAAGATTTGCTCGCTTTGAGCGTTGAGT
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCCGGGTTCGAAGATTTGCTCGCTTTGAGCGTTGAGT
769436 TGGTA
196 TGGTA
* * *
769441 TTCTTCTCTGTATCCCATCAGAAAGATTACCG
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCG
769473 CCTTACTATT
Statistics
Matches: 893, Mismatches: 108, Indels: 33
0.86 0.10 0.03
Matches are distributed among these distances:
185 161 0.18
190 2 0.00
192 2 0.00
193 2 0.00
195 2 0.00
200 696 0.78
201 27 0.03
202 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (200 bp):
TTCTTCTCTGTATCTCATCAGGAAGATGACCGTCTCGTTTGTTTTAATTCGCTTCTCTGGATCTC
CTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTC
GACCTGCTTCTCAGTGTCTCATCAGGAAGCCGGGTTCGAAGATTTGCTCGCTTTGAGCGTTGAGT
TGGTA
Found at i:781627 original size:59 final size:57
Alignment explanation
Indices: 781512--781874 Score: 371
Period size: 59 Copynumber: 6.3 Consensus size: 57
781502 TTCGAGGTTA
* * *
781512 AAAAT-GTAATTTTGGA-GAAAT-TAGGGTT-AAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGATGAAATCGA-GGTTAAAAAT-GAATTTTGGAAAGTTAG-GGGT
* * * **
781568 AAAACGGTAATTTTTGGTGAAATCGAGGCTAAAAATAGGGTTTTGGAAAGTTAAGGGGT
1 AAAATGGTAATTTTTGATGAAATCGAGGTTAAAAAT-GAATTTTGGAAAGTT-AGGGGT
*
781627 AAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGAAATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATG-AATTTTGGAAAGTTAG-GGGT
* * * *
781686 AAAATGGTAA--TTTGCTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGATGAAATCGAGGTTAAAAAT-GAATTTTGGAAAG-TTAGGGGT
* *
781743 AAAATGGTAATTTTTTATGAAATCGAGGTT-AAAATAGAATTTTGAAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGATGAAATCGAGGTTAAAAAT-GAATTTTGGAAAG-TTAGGGGT
* * * * *
781801 AAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTAGAAAGTTTGAGGGT
1 AAAATGGTAATTTTTGATGAAATCGAGGTTAAAAAT-GAATTTTGGAAAGTTAG-GGGT
*
781860 AAAATGATAATTTTT
1 AAAATGGTAATTTTT
781875 CGAAACTTTT
Statistics
Matches: 259, Mismatches: 35, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
56 4 0.02
57 56 0.22
58 67 0.26
59 131 0.51
60 1 0.00
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (57 bp):
AAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGAATTTTGGAAAGTTAGGGGT
Found at i:781734 original size:116 final size:115
Alignment explanation
Indices: 781512--781874 Score: 443
Period size: 116 Copynumber: 3.1 Consensus size: 115
781502 TTCGAGGTTA
* * * *
781512 AAAAT-GTAATTTTGGA-GAAAT-TAGGGTTAAAATGGAATTTTGGAAAGTTCGAGGGTAAAACG
1 AAAATGGTAATTTTTGATGAAATCGA-GGTTAAAATGAAATTTTGGAAAGTTCGAGGGTAAAATG
* *
781574 GTAATTTTTGGTGAAATCGAGGCTAAAAATAGGG-TTTTGGAAAGTTAAGGGGT
65 GTAA-TTTTGGTGAAATCGGGGTTAAAAAT-GGGATTTTGGAAAGTT-AGGGGT
781627 AAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGAAATTTTGGAAAGTTCGAGGGTAAAATG
1 AAAATGGTAATTTTTGATGAAATCGAGGTT-AAAATGAAATTTTGGAAAGTTCGAGGGTAAAATG
* *
781692 GTAA-TTTGCTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGT
65 GTAATTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG-TTAGGGGT
* * *
781743 AAAATGGTAATTTTTTATGAAATCGAGGTTAAAAT-AGAATTTTGAAAAGTT-TAGGGGTAAAAT
1 AAAATGGTAATTTTTGATGAAATCGAGGTTAAAATGA-AATTTTGGAAAGTTCGA-GGGTAAAAT
* * * *
781806 GGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTAGAAAGTTTGAGGGT
64 GGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTAG-GGGT
*
781860 AAAATGATAATTTTT
1 AAAATGGTAATTTTT
781875 CGAAACTTTT
Statistics
Matches: 220, Mismatches: 17, Indels: 20
0.86 0.07 0.08
Matches are distributed among these distances:
114 2 0.01
115 40 0.18
116 78 0.35
117 63 0.29
118 37 0.17
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (115 bp):
AAAATGGTAATTTTTGATGAAATCGAGGTTAAAATGAAATTTTGGAAAGTTCGAGGGTAAAATGG
TAATTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTAGGGGT
Found at i:781836 original size:174 final size:174
Alignment explanation
Indices: 781535--781872 Score: 498
Period size: 174 Copynumber: 1.9 Consensus size: 174
781525 GGAGAAATTA
*
781535 GGGTTAAAATGGAATTTTGGAAAGTTCGAGGGTAAAACGGTAATTTTTGGTGAAATCGAGGCTAA
1 GGGTTAAAATGGAATTTTGGAAAGTTCGAGGGTAAAACGGTAATTTTTGATGAAATCGAGGCTAA
** * *
781600 AAATAGGGTTTTGGAAAGTTAAGGGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGA
66 AAATAGAATTTTGAAAAGTTAAGGGGTAAAATGGTAATTTTTGATGAAACCGAGGTTAAAAATGA
* *
781665 AATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTGCTGAAATCG
131 AATTTTAGAAAGTTCGAGGGTAAAATGATAATTTGCTGAAATCG
* * * * * *
781709 GGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTTATGAAATCGAGG-TT
1 GGGTT-AAAATGGAATTTTGGAAAGTTCGAGGGTAAAACGGTAATTTTTGATGAAATCGAGGCTA
* * *
781773 AAAATAGAATTTTGAAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATG
65 AAAATAGAATTTTGAAAAGTTAAGGGGTAAAATGGTAATTTTTGATGAAACCGAGGTTAAAAATG
* *
781838 GAATTTTAGAAAGTTTGAGGGTAAAATGATAATTT
130 AAATTTTAGAAAGTTCGAGGGTAAAATGATAATTT
781873 TTCGAAACTT
Statistics
Matches: 145, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
174 95 0.66
175 50 0.34
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.32
Consensus pattern (174 bp):
GGGTTAAAATGGAATTTTGGAAAGTTCGAGGGTAAAACGGTAATTTTTGATGAAATCGAGGCTAA
AAATAGAATTTTGAAAAGTTAAGGGGTAAAATGGTAATTTTTGATGAAACCGAGGTTAAAAATGA
AATTTTAGAAAGTTCGAGGGTAAAATGATAATTTGCTGAAATCG
Found at i:782986 original size:19 final size:17
Alignment explanation
Indices: 782974--783021 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 17
782964 AAAAAAGTTC
782974 ATTATTATTAAAATCACTT
1 ATTATTATTAAAA-CA-TT
782993 ATTATTATTAGAAACATTT
1 ATTATTATTA-AAACA-TT
783012 ATTATTATTA
1 ATTATTATTA
783022 TTATTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 24 0.89
20 3 0.11
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (17 bp):
ATTATTATTAAAACATT
Found at i:782999 original size:22 final size:21
Alignment explanation
Indices: 782974--783031 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
782964 AAAAAAGTTC
782974 ATTATTATTAAAATCACTTATT
1 ATTATTATTAAAATCA-TTATT
* *
782996 ATTATTA-GAAACATTTATTATT
1 ATTATTATTAAA-A-TCATTATT
783018 ATTATTATTAAAAT
1 ATTATTATTAAAAT
783032 GTTATCAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
21 4 0.13
22 21 0.70
23 5 0.17
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (21 bp):
ATTATTATTAAAATCATTATT
Found at i:783347 original size:24 final size:26
Alignment explanation
Indices: 783289--783347 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
783279 TGGTTATATT
* *
783289 AGAATAGTGTTTTTCTATTGATTTTC
1 AGAATAGGGTTTTTCTAGTGATTTTC
* *
783315 AAAACAGGGTTTTTCT-GT-ATTTTC
1 AGAATAGGGTTTTTCTAGTGATTTTC
783339 AGAATAGGG
1 AGAATAGGG
783348 ATTTCGTAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
24 13 0.48
25 1 0.04
26 13 0.48
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.44
Consensus pattern (26 bp):
AGAATAGGGTTTTTCTAGTGATTTTC
Found at i:783783 original size:16 final size:17
Alignment explanation
Indices: 783747--783809 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 17
783737 TTTTAAATGT
783747 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
* *
783764 ATTTAAATTT-GAATAA
1 ATTTAAATTTAAAACAA
* **
783780 ATTTAAAATTAATTCAA
1 ATTTAAATTTAAAACAA
*
783797 ACTT-AATTTAAAA
1 ATTTAAATTTAAAA
783810 TCCAAGTTGG
Statistics
Matches: 34, Mismatches: 11, Indels: 3
0.71 0.23 0.06
Matches are distributed among these distances:
16 19 0.56
17 15 0.44
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:786680 original size:51 final size:51
Alignment explanation
Indices: 786592--786895 Score: 423
Period size: 51 Copynumber: 5.9 Consensus size: 51
786582 CCCTTTGTTC
* * * *
786592 CGTATAAGAATTCATATACTCACGATGACACTGAGTCATCAGACCTTTAATT
1 CGTA-AAGGATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATT
* * *
786644 CGTCATGGATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATC
1 CGTAAAGGATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATT
* * *
786695 CGTAAAGGATTCATTTACTCACGATGACACTTAGTTATCGGGCCTTTAATC
1 CGTAAAGGATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATT
* * *
786746 CGTAAAGGATTCATTTACTCACGATAACACTTAGTCATCGAACTTTTAA-T
1 CGTAAAGGATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATT
*
786796 CTGTAAAGGATTCATTTACTCACGATGACACTTAGTCATCAGACCTTTAA-T
1 C-GTAAAGGATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATT
*
786847 CTGTAAGGGATTCATTTACTCACGATGACACTTAGTCATCGGACTCTTT
1 C-GTAAAGGATTCATTTACTCACGATGACACTTAGTCATCGGAC-CTTT
786896 TGTTTATAGC
Statistics
Matches: 227, Mismatches: 23, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
50 1 0.00
51 219 0.96
52 7 0.03
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (51 bp):
CGTAAAGGATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATT
Found at i:786741 original size:102 final size:102
Alignment explanation
Indices: 786554--786895 Score: 454
Period size: 102 Copynumber: 3.3 Consensus size: 102
786544 TTTCATTTAA
** ** * *
786554 TACTCACGATGACA-TATAGTCATTAGACCCCTTTGTTCCGTATAAGAATTCATATACTCACGAT
1 TACTCACGATGACACT-TAGTCATCGGA--CCTTTAATCCGTA-AAGGATTCATTTACTCACGAT
* * *
786618 GACACTGAGTCATCAGACCTTTAATTCGTCATGGATTCATT
62 GACACTTAGTCATCAGACCTTTAATTCGTAAAGGATTCATT
786659 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACA
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACA
* * * *
786724 CTTAGTTATCGGGCCTTTAATCCGTAAAGGATTCATT
66 CTTAGTCATCAGACCTTTAATTCGTAAAGGATTCATT
* * * *
786761 TACTCACGATAACACTTAGTCATCGAACTTTTAATCTGTAAAGGATTCATTTACTCACGATGACA
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACA
*
786826 CTTAGTCATCAGACCTTTAA-TCTGTAAGGGATTCATT
66 CTTAGTCATCAGACCTTTAATTC-GTAAAGGATTCATT
786863 TACTCACGATGACACTTAGTCATCGGACTCTTT
1 TACTCACGATGACACTTAGTCATCGGAC-CTTT
786896 TGTTTATAGC
Statistics
Matches: 209, Mismatches: 25, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
101 1 0.00
102 170 0.81
103 14 0.07
105 23 0.11
106 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (102 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACA
CTTAGTCATCAGACCTTTAATTCGTAAAGGATTCATT
Found at i:791508 original size:25 final size:26
Alignment explanation
Indices: 791479--791531 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
791469 TCTGGTAAGC
791479 TTTCTCCTTTTCTTG-TTTC-TCTATT
1 TTTCT-CTTTTCTTGTTTTCTTCTATT
* *
791504 TTTCTTTTTTTTTGTTTTCTTCTATT
1 TTTCTCTTTTCTTGTTTTCTTCTATT
791530 TT
1 TT
791532 GATTCATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 9 0.38
26 8 0.33
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.75
Consensus pattern (26 bp):
TTTCTCTTTTCTTGTTTTCTTCTATT
Found at i:793031 original size:12 final size:11
Alignment explanation
Indices: 793012--793045 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
793002 ATTGCAAGTG
793012 GGAATGGCAAT
1 GGAATGGCAAT
793023 GGCAATGGCAAT
1 GG-AATGGCAAT
*
793035 GGAATGACAAT
1 GGAATGGCAAT
793046 CTACACTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.38, C:0.12, G:0.32, T:0.18
Consensus pattern (11 bp):
GGAATGGCAAT
Done.