Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 89 of 205
Found at i:26025158 original size:86 final size:84
Alignment explanation
Indices: 26025061--26025227 Score: 237
Period size: 86 Copynumber: 2.0 Consensus size: 84
26025051 TTTAAAAGAT
** *
26025061 ATATTTTTAGCGGCGGTTGTGTTAAAAGCGCTGCTAAAGGTC-TATTCTATAGCGGCGTTTGTGG
1 ATATTTTTAGCGGCGGTTGTGAAAAAAGCGCCGCTAAAGGTCTTA-TCTATAGCGGCGTTTGTGG
26025125 GAAAAAGCGCCGCTAAAGCTTA
65 G--AAAGCGCCGCTAAAGCTTA
* *
26025147 ATATTTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTGG
1 ATATTTTTAGCGGCGGTTGTGAAAAAAGCGCCGCTAAAGGTCTT-ATCTATAGCGGCGTTTGTGG
*
26025212 GGAAGCGCCGCTAAAG
65 GAAAGCGCCGCTAAAG
26025228 GTCTTGGTCT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
85 14 0.19
86 38 0.52
87 20 0.27
88 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (84 bp):
ATATTTTTAGCGGCGGTTGTGAAAAAAGCGCCGCTAAAGGTCTTATCTATAGCGGCGTTTGTGGG
AAAGCGCCGCTAAAGCTTA
Found at i:26028393 original size:95 final size:95
Alignment explanation
Indices: 26028227--26028405 Score: 223
Period size: 95 Copynumber: 1.9 Consensus size: 95
26028217 GTTCACCAGG
* * * * **
26028227 AAACATGAGGTTATATTGTGTAAGACCATAACTCGACTATGGCAGCTTATGGAGTCTGTCGGAAC
1 AAACATGAGGTTATATTATGTAAGACCATAACTCGACTATGACAACATATGGAACCTGTCGGAAC
* *
26028292 ATTAAACATAAGGTAGTCCGCTTGGACGTT
66 AATAAACATAAGATAGTCCGCTTGGACGTT
* * * * * *
26028322 AAACATGGGGTTATATTATGTAAGACCATAGCTTGGCTATGACAACATATGGAACCTGTTGGGAC
1 AAACATGAGGTTATATTATGTAAGACCATAACTCGACTATGACAACATATGGAACCTGTCGGAAC
*
26028387 AATAAACATGAGATAGTCC
66 AATAAACATAAGATAGTCC
26028406 ACTGAGATAA
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
95 69 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (95 bp):
AAACATGAGGTTATATTATGTAAGACCATAACTCGACTATGACAACATATGGAACCTGTCGGAAC
AATAAACATAAGATAGTCCGCTTGGACGTT
Found at i:26030671 original size:51 final size:51
Alignment explanation
Indices: 26030548--26030678 Score: 146
Period size: 50 Copynumber: 2.6 Consensus size: 51
26030538 GAAAGTGATG
* *
26030548 GTCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGAATGATAGTTC
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTATC-G-ATGATAGTTC
* * *
26030601 G-CA--TGTATAGTACTATGTGCAGGCTACTATGCGTA-C-CTGATAGTTTC
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTATCGATGATAG-TTC
26030648 GATCACGTGTGTAGTACTATGTGCAGGCTAC
1 G-TCACGTGTGTAGTACTATGTGCAGGCTAC
26030679 GTGTATCGAA
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
46 6 0.09
47 4 0.06
49 3 0.04
50 28 0.42
51 23 0.34
52 2 0.03
53 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (51 bp):
GTCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTATCGATGATAGTTC
Found at i:26032349 original size:13 final size:12
Alignment explanation
Indices: 26032331--26032378 Score: 87
Period size: 12 Copynumber: 3.9 Consensus size: 12
26032321 TAGTTTCTCG
26032331 AAAAAAAAATTCA
1 AAAAAAAAATT-A
26032344 AAAAAAAAATTA
1 AAAAAAAAATTA
26032356 AAAAAAAAATTA
1 AAAAAAAAATTA
26032368 AAAAAAAAATT
1 AAAAAAAAATT
26032379 TTGGTTTCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 24 0.69
13 11 0.31
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAAAAAATTA
Found at i:26032441 original size:15 final size:15
Alignment explanation
Indices: 26032421--26032457 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
26032411 TCAAGTTGTG
* *
26032421 AAAAAAAATTTTTAA
1 AAAAAAAATTGTGAA
26032436 AAAAAAAATTGTGAA
1 AAAAAAAATTGTGAA
26032451 AAAAAAA
1 AAAAAAA
26032458 GAGAGCTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (15 bp):
AAAAAAAATTGTGAA
Found at i:26035720 original size:45 final size:45
Alignment explanation
Indices: 26035651--26035739 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
26035641 TGTGTACTGA
* *
26035651 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
*
26035696 ACATTATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
26035740 AGTATCTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:26040814 original size:65 final size:65
Alignment explanation
Indices: 26040710--26040856 Score: 242
Period size: 65 Copynumber: 2.3 Consensus size: 65
26040700 GATACACGGA
* *
26040710 TCTCCAACACACCAAATGACTCATAGAGTCAAACATATCCC-AAAGTTGAAGCATAGAGCTAACA
1 TCTCCAACACACCAAATGACTCATAGAGTCAAACATATCCCAAAAG-TGAAGCATAAAACTAACA
26040774 C
65 C
* *
26040775 TCTCCAACACACTAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAACTAACAC
1 TCTCCAACACACCAAATGACTCATAGAGTCAAACATATCCCAAAAGTGAAGCATAAAACTAACAC
26040840 TCTCCAACACACCAAAT
1 TCTCCAACACACCAAAT
26040857 ATGTCCCATT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
65 72 0.95
66 4 0.05
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.18
Consensus pattern (65 bp):
TCTCCAACACACCAAATGACTCATAGAGTCAAACATATCCCAAAAGTGAAGCATAAAACTAACAC
Found at i:26043082 original size:4 final size:4
Alignment explanation
Indices: 26043073--26043105 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
26043063 TCTAACATTC
26043073 ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA A
1 ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA A
26043106 TAAAGGTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
ACAA
Found at i:26045224 original size:22 final size:22
Alignment explanation
Indices: 26045176--26045224 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
26045166 AAAGAGATGA
*
26045176 TTTTTATAGAGAAAAAATTAGT
1 TTTTTACAGAGAAAAAATTAGT
* *
26045198 GTTTTACAG-GAAAAACTTGAGT
1 TTTTTACAGAGAAAAAATT-AGT
26045220 TTTTT
1 TTTTT
26045225 TTATAAAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.43
Consensus pattern (22 bp):
TTTTTACAGAGAAAAAATTAGT
Found at i:26046913 original size:27 final size:27
Alignment explanation
Indices: 26046875--26046932 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
26046865 CATTTTGAGC
*
26046875 TTCTCTAACTCCAATCTCAGCTTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
26046902 TTCTCTAACTCCAATCTCAGCCTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
26046929 TTCT
1 TTCT
26046933 GGTGCAACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.38, G:0.03, T:0.38
Consensus pattern (27 bp):
TTCTCTAACTCCAATCTCAGCCTCTCA
Found at i:26048663 original size:3 final size:3
Alignment explanation
Indices: 26048655--26048689 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
26048645 GTTGGTAGTT
26048655 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
26048690 TAAAATAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:26053296 original size:28 final size:28
Alignment explanation
Indices: 26053274--26053368 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 28
26053264 AAATTTTAAT
*
26053274 AAAATATTAAAATATTAAAAATTAGAAA
1 AAAATATAAAAATATTAAAAATTAGAAA
** *
26053302 AAAATATAAAAATCGTAAAAA-TATAAA
1 AAAATATAAAAATATTAAAAATTAGAAA
* * * *
26053329 AAATTGT-AAAATTTTATAAAGATT-GTAA
1 AAAATATAAAAATATTA-AAA-ATTAGAAA
26053357 AAAATATAAAAA
1 AAAATATAAAAA
26053369 ATAGAAGTAT
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
26 7 0.14
27 13 0.25
28 26 0.51
29 5 0.10
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.28
Consensus pattern (28 bp):
AAAATATAAAAATATTAAAAATTAGAAA
Found at i:26053304 original size:19 final size:19
Alignment explanation
Indices: 26053282--26053333 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
26053272 ATAAAATATT
26053282 AAAATATTAAAAATTAGAA
1 AAAATATTAAAAATTAGAA
* *
26053301 AAAA-ATATAAAAA-TCGTA
1 AAAATAT-TAAAAATTAGAA
*
26053319 AAAATATAAAAAATT
1 AAAATATTAAAAATT
26053334 GTAAAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (19 bp):
AAAATATTAAAAATTAGAA
Found at i:26053332 original size:37 final size:38
Alignment explanation
Indices: 26053282--26053374 Score: 102
Period size: 37 Copynumber: 2.5 Consensus size: 38
26053272 ATAAAATATT
*
26053282 AAAATATTAAAAATTAGAAAAAAATATAAAAATCGT-A
1 AAAATATAAAAAATTAGAAAAAAATATAAAAATCGTAA
*** * *
26053319 AAAATATAAAAAATT-GTAAAATTTTATAAAGATTGTAA
1 AAAATATAAAAAATTAG-AAAAAAATATAAAAATCGTAA
26053357 AAAATATAAAAAA-TAGAA
1 AAAATATAAAAAATTAGAA
26053375 GTATAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
36 1 0.02
37 31 0.66
38 15 0.32
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.27
Consensus pattern (38 bp):
AAAATATAAAAAATTAGAAAAAAATATAAAAATCGTAA
Found at i:26053392 original size:53 final size:54
Alignment explanation
Indices: 26053300--26053402 Score: 154
Period size: 53 Copynumber: 1.9 Consensus size: 54
26053290 AAAAATTAGA
* *
26053300 AAAAAATATAAAAATCGTAAAAATATAAAAAATTGTAAAATTTTATAAAGATTGT
1 AAAAAATATAAAAA-CATAAAAATATAAAAAATTATAAAATTTTATAAAGATTGT
* *
26053355 AAAAAATATAAAAA-ATAGAAGTATAAAAAATTATAAAATTTTATAAAG
1 AAAAAATATAAAAACATAAAAATATAAAAAATTATAAAATTTTATAAAG
26053403 TCATAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 30 0.68
55 14 0.32
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (54 bp):
AAAAAATATAAAAACATAAAAATATAAAAAATTATAAAATTTTATAAAGATTGT
Found at i:26053696 original size:26 final size:27
Alignment explanation
Indices: 26053640--26053701 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 27
26053630 TTTGATGCAT
**
26053640 TTTTTATTTTTATAAAATTTTACAATT
1 TTTTTATTTTTATAAAATTTTACAAAG
** *
26053667 TTTTTATTTTT-TATGATTTTATAAAG
1 TTTTTATTTTTATAAAATTTTACAAAG
26053693 TTTTT-TTTT
1 TTTTTATTTT
26053702 CTAATTTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 4 0.13
26 15 0.50
27 11 0.37
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (27 bp):
TTTTTATTTTTATAAAATTTTACAAAG
Found at i:26053736 original size:28 final size:28
Alignment explanation
Indices: 26053705--26053759 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
26053695 TTTTTTTCTA
*
26053705 ATTTTTAGTAAATTTTAA-ATATTTTTAC
1 ATTTTTAGTAAAATTTAATA-ATTTTTAC
*
26053733 ATTTTTATTAAAATTTAATAATTTTTA
1 ATTTTTAGTAAAATTTAATAATTTTTA
26053760 TAAAACTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (28 bp):
ATTTTTAGTAAAATTTAATAATTTTTAC
Found at i:26068696 original size:21 final size:21
Alignment explanation
Indices: 26068648--26068698 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
26068638 CACCTAAAAT
* *
26068648 AAATAAAAAATAAATTATTAA
1 AAATAAAAAATAAATAAATAA
**
26068669 AGTTAAAAAATAAATAAATAA
1 AAATAAAAAATAAATAAATAA
26068690 AAATAAAAA
1 AAATAAAAA
26068699 CCACACTGTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (21 bp):
AAATAAAAAATAAATAAATAA
Found at i:26069728 original size:25 final size:24
Alignment explanation
Indices: 26069683--26069729 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
26069673 TGGGTTAATA
* * *
26069683 GGGAGTGATTTTAGGAGATAATGG
1 GGGAGAGATTTTAGAAAATAATGG
26069707 GGGAGAGATTATTAGAAAATAAT
1 GGGAGAGATT-TTAGAAAATAAT
26069730 CTGATTATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (24 bp):
GGGAGAGATTTTAGAAAATAATGG
Found at i:26072613 original size:7 final size:7
Alignment explanation
Indices: 26072603--26072634 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
26072593 GAGGGATGAT
26072603 GGATCAG
1 GGATCAG
26072610 GGATCAG
1 GGATCAG
26072617 GGATCAG
1 GGATCAG
26072624 GGATCAG
1 GGATCAG
26072631 GGAT
1 GGAT
26072635 GTATGGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.44, T:0.16
Consensus pattern (7 bp):
GGATCAG
Found at i:26072620 original size:21 final size:21
Alignment explanation
Indices: 26072594--26072634 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
26072584 ATGAATGTTG
* *
26072594 AGGGATGATGGATCAGGGATC
1 AGGGATCAGGGATCAGGGATC
26072615 AGGGATCAGGGATCAGGGAT
1 AGGGATCAGGGATCAGGGAT
26072635 GTATGGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.10, G:0.44, T:0.17
Consensus pattern (21 bp):
AGGGATCAGGGATCAGGGATC
Found at i:26076364 original size:21 final size:21
Alignment explanation
Indices: 26076340--26076381 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
26076330 GATGTGACTT
26076340 GAAAGGAAG-AAAATAACAAAA
1 GAAA-GAAGAAAAATAACAAAA
* *
26076361 GAAATAAGAAAAATAAGAAAA
1 GAAAGAAGAAAAATAACAAAA
26076382 CTAAACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (21 bp):
GAAAGAAGAAAAATAACAAAA
Found at i:26079129 original size:12 final size:14
Alignment explanation
Indices: 26079099--26079130 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
26079089 AAAAAAAGGA
26079099 AAAAATTAGAATGT
1 AAAAATTAGAATGT
26079113 AAAAATTA-AAT-T
1 AAAAATTAGAATGT
26079125 AAAAAT
1 AAAAAT
26079131 AAAAGTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 3 0.17
14 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (14 bp):
AAAAATTAGAATGT
Found at i:26079956 original size:31 final size:31
Alignment explanation
Indices: 26079907--26079968 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
26079897 AAAAAACGCC
* * *
26079907 GCTAAAGATCGAGTATTAGGGGCGCTTTTTG
1 GCTAAAAATCGAGCATTAGCGGCGCTTTTTG
* *
26079938 GCTAAAAATTGAGCATTAGCGGCGTTTTTTG
1 GCTAAAAATCGAGCATTAGCGGCGCTTTTTG
26079969 AAACTTAGGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (31 bp):
GCTAAAAATCGAGCATTAGCGGCGCTTTTTG
Found at i:26080095 original size:41 final size:41
Alignment explanation
Indices: 26080006--26080105 Score: 112
Period size: 41 Copynumber: 2.5 Consensus size: 41
26079996 TAAGGTTTCG
* * * *
26080006 GGGCTTTAGTGGC-TTTTTTAAGAAGCATCGCTAATGCATG
1 GGGCTTTAGCGGCGTTTTTTAAAAAGCATCGCTAAAGCATA
* * * **
26080046 GGGATTTAGCGGCGTTTTTTAAAAAGCGTCGGTAAAGGTTA
1 GGGCTTTAGCGGCGTTTTTTAAAAAGCATCGCTAAAGCATA
26080087 GGGCTTTAGCGGCGTTTTT
1 GGGCTTTAGCGGCGTTTTT
26080106 AAGGAAGCGC
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
40 11 0.22
41 38 0.78
ACGTcount: A:0.21, C:0.13, G:0.31, T:0.35
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTTAAAAAGCATCGCTAAAGCATA
Found at i:26080565 original size:7 final size:7
Alignment explanation
Indices: 26080520--26080615 Score: 70
Period size: 7 Copynumber: 13.7 Consensus size: 7
26080510 AGTTACTATT
26080520 TTTA-GG
1 TTTATGG
*
26080526 TTTATAG
1 TTTATGG
*
26080533 ATTATGAG
1 TTTATG-G
*
26080541 TTTAGGG
1 TTTATGG
* *
26080548 ATTATGA
1 TTTATGG
26080555 TTTATGG
1 TTTATGG
26080562 TTTATGG
1 TTTATGG
26080569 TTTATGG
1 TTTATGG
*
26080576 TTTAAGG
1 TTTATGG
26080583 TTTA-GAG
1 TTTATG-G
* *
26080590 GTTACGG
1 TTTATGG
*
26080597 TTTATGA
1 TTTATGG
*
26080604 TTTAAGG
1 TTTATGG
26080611 TTTAT
1 TTTAT
26080616 AGATTAAGGG
Statistics
Matches: 68, Mismatches: 18, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
6 5 0.07
7 57 0.84
8 6 0.09
ACGTcount: A:0.24, C:0.01, G:0.26, T:0.49
Consensus pattern (7 bp):
TTTATGG
Found at i:26080622 original size:14 final size:14
Alignment explanation
Indices: 26080456--26080624 Score: 92
Period size: 14 Copynumber: 11.9 Consensus size: 14
26080446 TTAATTATCA
*
26080456 TTATAGTTTATGGT
1 TTATAGTTTAAGGT
26080470 TTATAG-TTAAGGGT
1 TTATAGTTTAA-GGT
* *
26080484 ATATAGTTTAGGGT
1 TTATAGTTTAAGGT
*
26080498 TTAAAGTTTAAGAG-
1 TTATAGTTTAAG-GT
* *
26080512 TTACTATTTTTAGGT
1 TTA-TAGTTTAAGGT
* *
26080527 TTATAGATTATGAGT
1 TTATAGTTTAAG-GT
** * * *
26080542 TTAGGGATTATGAT
1 TTATAGTTTAAGGT
* *
26080556 TTATGGTTTATGGT
1 TTATAGTTTAAGGT
*
26080570 TTATGGTTTAAGGT
1 TTATAGTTTAAGGT
* * *
26080584 TTAGAGGTTACGGT
1 TTATAGTTTAAGGT
26080598 TTAT-GATTTAAGGT
1 TTATAG-TTTAAGGT
*
26080612 TTATAGATTAAGG
1 TTATAGTTTAAGG
26080625 GTTGGGGTTT
Statistics
Matches: 119, Mismatches: 28, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
13 4 0.03
14 89 0.75
15 26 0.22
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.47
Consensus pattern (14 bp):
TTATAGTTTAAGGT
Found at i:26080635 original size:21 final size:21
Alignment explanation
Indices: 26080609--26080668 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
26080599 TATGATTTAA
26080609 GGTTTATAGATTAAGGGTT-GG
1 GGTTTA-AGATTAAGGGTTAGG
* * *
26080630 GGTTTAGGGTTAGGGGTTAGG
1 GGTTTAAGATTAAGGGTTAGG
26080651 GG-TTAAGAGTTAAGGGTT
1 GGTTTAAGA-TTAAGGGTT
26080669 TAAGGTTTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (21 bp):
GGTTTAAGATTAAGGGTTAGG
Found at i:26080800 original size:16 final size:16
Alignment explanation
Indices: 26080781--26080835 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
26080771 ATAGTTTAAA
*
26080781 TTATTTATAAATAATT
1 TTATATATAAATAATT
26080797 TTATAT-TAAATAA-T
1 TTATATATAAATAATT
26080811 TTATATATTAAATAATT
1 TTATATA-TAAATAATT
*
26080828 TAATATAT
1 TTATATAT
26080836 TAACATAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 7 0.21
15 7 0.21
16 13 0.38
17 7 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATATATAAATAATT
Found at i:26080808 original size:15 final size:16
Alignment explanation
Indices: 26080788--26080844 Score: 89
Period size: 16 Copynumber: 3.5 Consensus size: 16
26080778 AAATTATTTA
26080788 TAAATAATTT-TATAT
1 TAAATAATTTATATAT
26080803 TAAATAATTTATATAT
1 TAAATAATTTATATAT
26080819 TAAATAATTTAATATAT
1 TAAATAATTT-ATATAT
26080836 TAACATAAT
1 TAA-ATAAT
26080845 GATTATAGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.26
16 15 0.38
17 9 0.23
18 5 0.13
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAATAATTTATATAT
Found at i:26080851 original size:17 final size:15
Alignment explanation
Indices: 26080788--26080851 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 15
26080778 AAATTATTTA
*
26080788 TAAATAATTTTATAT
1 TAAATAATATTATAT
*
26080803 TAAATAATTTATATAT
1 TAAATAATAT-TATAT
*
26080819 TAAATAATTTAATATAT
1 TAAATAA--TATTATAT
26080836 TAACATAATGATTATA
1 TAA-ATAAT-ATTATA
26080852 GTGTTTTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
15 10 0.24
16 13 0.32
17 13 0.32
18 5 0.12
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
TAAATAATATTATAT
Found at i:26081048 original size:502 final size:480
Alignment explanation
Indices: 26080363--26081270 Score: 1207
Period size: 502 Copynumber: 1.8 Consensus size: 480
26080353 GTTTTTTAGG
*
26080363 TACATGACTGATTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAAGATAGTAT
1 TACATGACTGATTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAAGATAATAT
*
26080428 TAATTTTAAAATATTGAATTAATTATCATTATAGTTTATGGTTTATAGTTAAGGGTATATAGTTT
66 TAATTTTAAAATATTGAATTAATTATCATTATAGTTTATGGTTTATAGTTAAGGGTATATAGTGT
* * *
26080493 AGGGTTTAAAGTTTAAGAGTTACTATTTTTAGGTTTATAGATTATGAGTTTAGGGATTA-TGATT
131 AAGGTTTAAAGTTTAAGAGTTACTATTTTAAGGTTTATAGATTATGAGTTTAGGGATTACAG-TT
* * * *
26080557 TATGGTTT-ATGGTTTATGGTTTAAGGTTTAGAGGTTA-CGGTTTATGATTT-AAGGTTTATAGA
195 TATGGTTTAAGGGTTGA-GATTTAAGGTTTAGAGGTTAGCGGTTTAAGATTTCAAGG-TTAT-G-
* * *
26080619 TTAAGGGTTGGGGTTTAGGGTTAGGGGTTAGGGGTTAAGAGTTAAGGGTTTAAGGTTTAGATTAA
256 TT-----TTAGGATTTA----T--GAGTTAGGGG---AGAG---A-GGTTTAAGGTTTAGATTAA
* *
26080684 TTAGTGTTTTTTAATTTATATATTAAATAATTTATTATATAGTTGTAAAAGAGATAATATTAAAT
303 TTAGTGTTTATTAATTTATATATTAAATAATTTATTATATAATTGTAAAAGAGATAATATTAAAT
*
26080749 TTAAAATATTAAAAATATGATTATAGTTTAAATTATTTATAAATAATTTTATATTAAATAATTTA
368 TTAAAATATTAAAAATATAATTATAGTTTAAATTATTTATAAATAATTTTATATTAAATAATTTA
26080814 TATATTAAATAATTTAATATATTAACATAATGATTATAGTGTTTTTAA
433 TATATTAAATAATTTAATATATTAACATAATGATTATAGTGTTTTTAA
*
26080862 TACATGACTGATTGTTTTTTAATTTATATATTAAATTATTTCTTATATAATCGTAAAAGAGATAA
1 TACATGACTGA-T-TTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAA-AGATAA
* * *
26080927 TATTAATTTTAAAATATTGAATTAATTATGATTATAGTTT-TGGGTTTATAGTTTAGGGTATATG
63 TATTAATTTTAAAATATTGAATTAATTATCATTATAGTTTAT-GGTTTATAGTTAAGGGTATATA
* *
26080991 GTGTAAGGTTT-AAGCTTTAAGAGTTACTATTTTAAGGTTTATGGATTATGGGTTTAGGGATTAC
127 GTGTAAGGTTTAAAG-TTTAAGAGTTACTATTTTAAGGTTTATAGATTATGAGTTTAGGGATTAC
* * *
26081055 AGTTTATTGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGGGGTTTAAGATTTCAAGGTTATG
191 AGTTTATGGTTTAAGGGTTGAGATTTAAGGTTTAGAGGTTAGCGGTTTAAGATTTCAAGGTTATG
* * * *
26081120 TTTTATGATTTATGATTTAGGGGATAGAGGTTTAGGGTTTAGATTAATTAGTGTTTATTAATTTA
256 TTTTAGGATTTATGAGTTAGGGGAGAGAGGTTTAAGGTTTAGATTAATTAGTGTTTATTAATTTA
* * * * * * *
26081185 TCTATTAAATATTTTCTTATATAATTGTGAAAGAGATAATATTAATTTTAATATATTAAAATTAT
321 TATATTAAATAATTTATTATATAATTGTAAAAGAGATAATATTAAATTTAAAATATTAAAAATAT
26081250 AATTATAGTTTAAATTATTTA
386 AATTATAGTTTAAATTATTTA
26081271 AGAGATAATC
Statistics
Matches: 365, Mismatches: 35, Indels: 34
0.84 0.08 0.08
Matches are distributed among these distances:
483 112 0.31
484 1 0.00
487 3 0.01
490 8 0.02
492 1 0.00
496 7 0.02
499 11 0.03
500 1 0.00
501 49 0.13
502 146 0.40
503 22 0.06
504 4 0.01
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.46
Consensus pattern (480 bp):
TACATGACTGATTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAAGATAATAT
TAATTTTAAAATATTGAATTAATTATCATTATAGTTTATGGTTTATAGTTAAGGGTATATAGTGT
AAGGTTTAAAGTTTAAGAGTTACTATTTTAAGGTTTATAGATTATGAGTTTAGGGATTACAGTTT
ATGGTTTAAGGGTTGAGATTTAAGGTTTAGAGGTTAGCGGTTTAAGATTTCAAGGTTATGTTTTA
GGATTTATGAGTTAGGGGAGAGAGGTTTAAGGTTTAGATTAATTAGTGTTTATTAATTTATATAT
TAAATAATTTATTATATAATTGTAAAAGAGATAATATTAAATTTAAAATATTAAAAATATAATTA
TAGTTTAAATTATTTATAAATAATTTTATATTAAATAATTTATATATTAAATAATTTAATATATT
AACATAATGATTATAGTGTTTTTAA
Found at i:26084643 original size:27 final size:27
Alignment explanation
Indices: 26084605--26084665 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
26084595 GGAAGGACCA
26084605 AACGCGCAAATTCCCTTTTAGGGCCAG
1 AACGCGCAAATTCCCTTTTAGGGCCAG
26084632 AACGCGCAAATTCCCTTTTAGGGCCAG
1 AACGCGCAAATTCCCTTTTAGGGCCAG
26084659 AACGCGC
1 AACGCGC
26084666 GGACCCTGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (27 bp):
AACGCGCAAATTCCCTTTTAGGGCCAG
Found at i:26086732 original size:22 final size:22
Alignment explanation
Indices: 26086685--26086733 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
26086675 AAATAGCTTA
* *
26086685 TTTTTACAGATAAAAATCTAGG
1 TTTTTACAGAGAAAAATATAGG
26086707 TTTTTACAG-GAAAAATAT-GAG
1 TTTTTACAGAGAAAAATATAG-G
26086728 TTTTTA
1 TTTTTA
26086734 TAGGGAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.58
22 9 0.38
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (22 bp):
TTTTTACAGAGAAAAATATAGG
Found at i:26088163 original size:21 final size:21
Alignment explanation
Indices: 26088147--26088217 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
26088137 CCAAAAATTT
26088147 ATTTTAAAAATTAAAAAAAAG
1 ATTTTAAAAATTAAAAAAAAG
** *
26088168 ATTTTAAAAATATTTAAAAAAT
1 ATTTTAAAAAT-TAAAAAAAAG
*
26088190 ACTTT-AAAATTAAAAAAAA-
1 ATTTTAAAAATTAAAAAAAAG
26088209 A-TTTAAAAA
1 ATTTTAAAAA
26088218 GTATTTTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
18 3 0.07
19 5 0.12
20 7 0.17
21 16 0.38
22 11 0.26
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (21 bp):
ATTTTAAAAATTAAAAAAAAG
Found at i:26088176 original size:10 final size:10
Alignment explanation
Indices: 26088170--26088297 Score: 72
Period size: 11 Copynumber: 13.0 Consensus size: 10
26088160 AAAAAAAGAT
26088170 TTTAAAAATA
1 TTTAAAAATA
26088180 TTTAAAAAATA
1 TTT-AAAAATA
26088191 CTTT-AAAAT-
1 -TTTAAAAATA
** *
26088200 TAAAAAAAAA
1 TTTAAAAATA
26088210 TTTAAAAAGTA
1 TTTAAAAA-TA
*
26088221 TTTTAAAATA
1 TTTAAAAATA
*
26088231 TTT-TAAA-A
1 TTTAAAAATA
*
26088239 TTAAAAAATAA
1 TTTAAAAAT-A
**
26088250 TAAAAAAATA
1 TTTAAAAATA
26088260 TTTTAAAAATA
1 -TTTAAAAATA
*
26088271 TTT-TAAA-A
1 TTTAAAAATA
*
26088279 -TTAAAAAAA
1 TTTAAAAATA
26088288 TTTAAAAATA
1 TTTAAAAATA
26088298 AATATATTTA
Statistics
Matches: 90, Mismatches: 16, Indels: 24
0.69 0.12 0.18
Matches are distributed among these distances:
7 2 0.02
8 8 0.09
9 14 0.16
10 31 0.34
11 32 0.36
12 3 0.03
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (10 bp):
TTTAAAAATA
Found at i:26088213 original size:30 final size:30
Alignment explanation
Indices: 26088173--26088229 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
26088163 AAAAGATTTT
*
26088173 AAAAATATTTAAAAAATACTTTAAAATTAA
1 AAAAAAATTTAAAAAATACTTTAAAATTAA
* *
26088203 AAAAAAATTTAAAAAGTATTTTAAAAT
1 AAAAAAATTTAAAAAATACTTTAAAAT
26088230 ATTTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (30 bp):
AAAAAAATTTAAAAAATACTTTAAAATTAA
Found at i:26088216 original size:40 final size:39
Alignment explanation
Indices: 26088146--26088297 Score: 191
Period size: 40 Copynumber: 3.8 Consensus size: 39
26088136 ACCAAAAATT
26088146 TATTTTAAAAATTAAAAAAAAGATTTTAAAAATATTTAAAAAA
1 TATTTT-AAAATTAAAAAAAA-A-TTTAAAAATATTT-AAAAA
* *
26088189 TACTTTAAAATTAAAAAAAAATTTAAAAAGTATTTTAAAA
1 TATTTTAAAATTAAAAAAAAATTTAAAAA-TATTTAAAAA
* **
26088229 TATTTTAAAATTAAAAAATAATAAAAAAATATTTTAAAAA
1 TATTTTAAAATTAAAAAAAAATTTAAAAATA-TTTAAAAA
26088269 TATTTTAAAATT--AAAAAAATTTAAAAATA
1 TATTTTAAAATTAAAAAAAAATTTAAAAATA
26088298 AATATATTTA
Statistics
Matches: 97, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
38 14 0.14
39 2 0.02
40 56 0.58
41 6 0.06
42 14 0.14
43 5 0.05
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (39 bp):
TATTTTAAAATTAAAAAAAAATTTAAAAATATTTAAAAA
Found at i:26088284 original size:17 final size:17
Alignment explanation
Indices: 26088262--26088306 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
26088252 AAAAAATATT
26088262 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
*
26088279 TTAAAAA-AATTTAAAA
1 TTAAAAATATTTTAAAA
* *
26088295 ATAAATATATTT
1 TTAAAAATATTT
26088307 ATTATATCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:26089248 original size:93 final size:93
Alignment explanation
Indices: 26088828--26089228 Score: 784
Period size: 93 Copynumber: 4.3 Consensus size: 93
26088818 GCTTCTCATT
26088828 CTCTAACTCCAATCTCAGCCTCTCATTCTGGTGCAACAATTGATCTTCTTCTTTGATCACTTGAA
1 CTCTAACTCCAATCTCAGCCTCTCATTCTGGTGCAACAATTGATCTTCTTCTTTGATCACTTGAA
26088893 TCAATTTCAAGTTCGGTTCCCTTTCACG
66 TCAATTTCAAGTTCGGTTCCCTTTCACG
26088921 CTCTAACTCCAATCTCAGCCTCTCATTCTGGTGCAACAATTGATCTTCTTCTTTGATCACTTGAA
1 CTCTAACTCCAATCTCAGCCTCTCATTCTGGTGCAACAATTGATCTTCTTCTTTGATCACTTGAA
26088986 TCAATTTCAAGTTCGGTTCCCTTTCACG
66 TCAATTTCAAGTTCGGTTCCCTTTCACG
26089014 CTCTAACTCCAATCTCAGCCTCTCATTCTGGTGCAACAATTGATCTTCTTCTTTGATCACTTGAA
1 CTCTAACTCCAATCTCAGCCTCTCATTCTGGTGCAACAATTGATCTTCTTCTTTGATCACTTGAA
26089079 TCAATTTCAAGTTCGGTTCCCTTTCACG
66 TCAATTTCAAGTTCGGTTCCCTTTCACG
26089107 CTCTAACTCCAATCTCAGCCTCTCATTCTGGTGCAACAATTGATCTTCTTCTTTGATCACTTGAA
1 CTCTAACTCCAATCTCAGCCTCTCATTCTGGTGCAACAATTGATCTTCTTCTTTGATCACTTGAA
26089172 TCAATTTCAAGTTCGGTTCCCTTTCACG
66 TCAATTTCAAGTTCGGTTCCCTTTCACG
* *
26089200 CTCTAACTCCAATCTAAGCCTCGCATTCT
1 CTCTAACTCCAATCTCAGCCTCTCATTCT
26089229 CCTTCTCCAG
Statistics
Matches: 306, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 306 1.00
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.37
Consensus pattern (93 bp):
CTCTAACTCCAATCTCAGCCTCTCATTCTGGTGCAACAATTGATCTTCTTCTTTGATCACTTGAA
TCAATTTCAAGTTCGGTTCCCTTTCACG
Found at i:26089305 original size:78 final size:78
Alignment explanation
Indices: 26089176--26089331 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
26089166 CTTGAATCAA
*
26089176 TTTCAAGTTCGGTTCCCTTTCACGCTCTAACTCCAATCTAAGCCTCGCATTCTCCTTCTCCAGTT
1 TTTCAAGTTCGGTTCCCTTTCACGCTCTAACTCCAATCTAAGCCTCGCATTCTCCTTCTCCAATT
26089241 CATCTTCTCTGTC
66 CATCTTCTCTGTC
26089254 TTTCAAGTTCGGTTCCCTTTCACGCTCTAACTCCAATCTAAGCCTCGCATTCTCCTTCTCCAATT
1 TTTCAAGTTCGGTTCCCTTTCACGCTCTAACTCCAATCTAAGCCTCGCATTCTCCTTCTCCAATT
26089319 CATCTTCTCTGTC
66 CATCTTCTCTGTC
26089332 GATCGTTTCA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.16, C:0.36, G:0.10, T:0.38
Consensus pattern (78 bp):
TTTCAAGTTCGGTTCCCTTTCACGCTCTAACTCCAATCTAAGCCTCGCATTCTCCTTCTCCAATT
CATCTTCTCTGTC
Found at i:26090686 original size:10 final size:10
Alignment explanation
Indices: 26090671--26090698 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
26090661 CAATTGCTAC
26090671 ATTTTAAATA
1 ATTTTAAATA
26090681 ATTTTAAATA
1 ATTTTAAATA
26090691 ATTTTAAA
1 ATTTTAAA
26090699 AGCAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTTTAAATA
Found at i:26092284 original size:20 final size:20
Alignment explanation
Indices: 26092244--26092284 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
26092234 AAACAATCAC
*
26092244 AAAAAGTATCGATGCCCTTT
1 AAAAAGTATCGATACCCTTT
* *
26092264 AAAAAGTATTGATACCTTTT
1 AAAAAGTATCGATACCCTTT
26092284 A
1 A
26092285 CCAGGTGTCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (20 bp):
AAAAAGTATCGATACCCTTT
Found at i:26093449 original size:12 final size:11
Alignment explanation
Indices: 26093432--26093503 Score: 56
Period size: 12 Copynumber: 6.3 Consensus size: 11
26093422 GATAAGAAGA
26093432 AATAATGAAAAT
1 AATAAT-AAAAT
26093444 AATAATAACAAT
1 AATAATAA-AAT
*
26093456 AATAGTACAAAT
1 AATAATA-AAAT
* *
26093468 AATAATAGGATT
1 AATAATA-AAAT
*
26093480 AATAA-ATAAT
1 AATAATAAAAT
*
26093490 AATAATAAATT
1 AATAATAAAAT
26093501 AAT
1 AAT
26093504 TAGTAAAAGC
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
10 7 0.15
11 9 0.19
12 31 0.65
13 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:26093749 original size:19 final size:21
Alignment explanation
Indices: 26093711--26093749 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
26093701 CTTTTTTTAA
*
26093711 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
26093732 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
26093750 ACAGTAAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:26093967 original size:19 final size:19
Alignment explanation
Indices: 26093943--26094017 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
26093933 AATCACATCT
26093943 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
26093962 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
26093983 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
26094002 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
26094018 CTCGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:26093980 original size:21 final size:21
Alignment explanation
Indices: 26093954--26094016 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
26093944 CTAAGATTAC
26093954 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
26093975 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
26093994 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
26094015 AT
1 AT
26094017 CCTCGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:26094027 original size:17 final size:18
Alignment explanation
Indices: 26093946--26094027 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 18
26093936 CACATCTTCT
* *
26093946 AAGATTACATATCATATCT
1 AAGATTGCATATCA-ATCG
*
26093965 AAGATTGCATATATCATATCT
1 AAGATTGC--ATATCA-ATCG
*
26093986 AAGATTGCATATCATATCT
1 AAGATTGCATATCA-ATCG
*
26094005 AAGATTGCATATC-CTCG
1 AAGATTGCATATCAATCG
26094022 AAGATT
1 AAGATT
26094028 ATGTTTCCAT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.14
19 31 0.53
21 19 0.33
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (18 bp):
AAGATTGCATATCAATCG
Found at i:26098373 original size:43 final size:43
Alignment explanation
Indices: 26098170--26098371 Score: 282
Period size: 43 Copynumber: 4.7 Consensus size: 43
26098160 TTTTAGAAAT
* * *
26098170 AAACGCCGCTATAGATCATAACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTCTCCCAC
* * *
26098213 AAACGCCGCTATAGCA-CAAGACTTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAG-ATCATGACTTTTAGCGGCGCTTCTCCCAC
* *
26098256 AAACGCCGCTATAAATCATGACTTTTAGCGGCGCTTTCTTCC-C
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGC-TTCTCCCAC
*
26098299 AAACGCCGCTATAGATCATGACTTTTAGCGACGCTTCTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTCTCCCAC
*
26098342 AAACGCCGCTATAGATCATTACTTTTAGCG
1 AAACGCCGCTATAGATCATGACTTTTAGCG
26098372 ACTGACTTTT
Statistics
Matches: 144, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
42 7 0.05
43 130 0.90
44 7 0.05
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTCTCCCAC
Found at i:26099671 original size:73 final size:73
Alignment explanation
Indices: 26099590--26099735 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
26099580 TCATAAGAAT
*
26099590 TGCTCTAACCAGTCAAAGAAATTCCTACATATCAACTCATTAACATGATTCTAATTATTTTTGTA
1 TGCTCTAACCAGTCAAAGAAATCCCTACATATCAACTCATTAACATGATTCTAATTATTTTTGTA
26099655 CTGGGGAG
66 CTGGGGAG
*
26099663 TGCTCTAACCAGTCAAAGAAATCCCTACATATCAACTCATTAACATGATTCTAATTATTTTTGTG
1 TGCTCTAACCAGTCAAAGAAATCCCTACATATCAACTCATTAACATGATTCTAATTATTTTTGTA
26099728 CTGGGGAG
66 CTGGGGAG
26099736 GGGCATTTTC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (73 bp):
TGCTCTAACCAGTCAAAGAAATCCCTACATATCAACTCATTAACATGATTCTAATTATTTTTGTA
CTGGGGAG
Found at i:26102975 original size:24 final size:23
Alignment explanation
Indices: 26102948--26103002 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
26102938 TATATGAAAT
26102948 TATTTAATATATAAATTAAAAACA
1 TATTTAATATATAAATTAAAAA-A
*
26102972 TATTTAAAATATAAATTAAAAAA
1 TATTTAATATATAAATTAAAAAA
*
26102995 TAATTAAT
1 TATTTAAT
26103003 CTAAACCCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TATTTAATATATAAATTAAAAAA
Found at i:26103158 original size:15 final size:15
Alignment explanation
Indices: 26103122--26103162 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
26103112 AAATCTCAAC
26103122 CCTTAAA-CCATAAT
1 CCTTAAATCCATAAT
*
26103136 CCCT-AATCCATAAT
1 CCTTAAATCCATAAT
26103150 CCTTAAATCCATA
1 CCTTAAATCCATA
26103163 CTCCCTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 8 0.35
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
CCTTAAATCCATAAT
Found at i:26103175 original size:22 final size:22
Alignment explanation
Indices: 26103101--26103178 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
26103091 ACCACTAACC
26103101 CCCTAAACCTTAAATCTCA-AC-
1 CCCTAAACCTTAAATC-CATACT
* * * *
26103122 CCTTAAACCAT-AATCCCTAAT
1 CCCTAAACCTTAAATCCATACT
* *
26103143 CCATAATCCTTAAATCCATACT
1 CCCTAAACCTTAAATCCATACT
26103165 CCCTAAACCTTAAA
1 CCCTAAACCTTAAA
26103179 ACAGTAACTC
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
19 1 0.02
20 5 0.12
21 17 0.40
22 20 0.47
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (22 bp):
CCCTAAACCTTAAATCCATACT
Found at i:26103605 original size:41 final size:41
Alignment explanation
Indices: 26103535--26103671 Score: 179
Period size: 41 Copynumber: 3.3 Consensus size: 41
26103525 GGCGTTTAAT
*
26103535 CAAAAACGCCGCTAAAGCCCCTA--CAATTAGCGGCGCTTTTC
1 CAAAAACGCCGCTAAAGACCC-AGGC-ATTAGCGGCGCTTTTC
*
26103576 CAAAAACGCCGCTAAAGACCCGGGCATTAGCGGCGCTTTTC
1 CAAAAACGCCGCTAAAGACCCAGGCATTAGCGGCGCTTTTC
* * * *
26103617 CAAAAACGCCGCAAAACACCTAGGCATTAGCGGCGTTTTTC
1 CAAAAACGCCGCTAAAGACCCAGGCATTAGCGGCGCTTTTC
*
26103658 CAAAAACGCTGCTA
1 CAAAAACGCCGCTA
26103672 TTGCTTGATT
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
41 84 0.99
42 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (41 bp):
CAAAAACGCCGCTAAAGACCCAGGCATTAGCGGCGCTTTTC
Found at i:26104551 original size:39 final size:39
Alignment explanation
Indices: 26104455--26104553 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
26104445 ATTCACTTTT
* * * *
26104455 AAGCCTATATCACATTACACATATAAGTACATAACGTTC
1 AAGCATATATCACAATACTCATATAAGTACATAACATTC
* * *
26104494 AAGCACATATCGCAATACTCATATAA-TCACATAATATTC
1 AAGCATATATCACAATACTCATATAAGT-ACATAACATTC
*
26104533 AAGCATATAACACAATACTCA
1 AAGCATATATCACAATACTCA
26104554 AAAACATGTT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
38 1 0.02
39 48 0.98
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.26
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAAGTACATAACATTC
Found at i:26117703 original size:6 final size:6
Alignment explanation
Indices: 26117692--26117739 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
26117682 AATTTAGCCA
**
26117692 TTTAAT TTTAAT TTTAAT TTTAA- --TAAT TTTGTT TTTAAT TTTAAT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT
26117737 TTT
1 TTT
26117740 CTTTTATTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 3 0.09
6 32 0.91
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (6 bp):
TTTAAT
Found at i:26117720 original size:21 final size:21
Alignment explanation
Indices: 26117694--26117736 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
26117684 TTTAGCCATT
26117694 TAATTTTAATTTTAATTTTAA
1 TAATTTTAATTTTAATTTTAA
**
26117715 TAATTTTGTTTTTAATTTTAA
1 TAATTTTAATTTTAATTTTAA
26117736 T
1 T
26117737 TTTCTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TAATTTTAATTTTAATTTTAA
Found at i:26119417 original size:16 final size:16
Alignment explanation
Indices: 26119393--26119429 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
26119383 AAAAGATCCA
*
26119393 ATAAGTTTAATGTCTT
1 ATAAATTTAATGTCTT
26119409 ATAAATTTAATGTCTT
1 ATAAATTTAATGTCTT
26119425 ATAAA
1 ATAAA
26119430 ATGTTCAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (16 bp):
ATAAATTTAATGTCTT
Found at i:26126961 original size:17 final size:16
Alignment explanation
Indices: 26126931--26127021 Score: 85
Period size: 16 Copynumber: 5.5 Consensus size: 16
26126921 ATTATTTAGA
*
26126931 TTTTATTTAGTTTTAT
1 TTTTATTTATTTTTAT
*
26126947 GTTTTATTTATTTTTCT
1 -TTTTATTTATTTTTAT
* *
26126964 TTTTCTTTTTTTTCTAT
1 TTTTATTTATTTT-TAT
26126981 TTTTACTTTTATTTTTAT
1 TTTTA--TTTATTTTTAT
* *
26126999 TATTAGTTATTTTTA-
1 TTTTATTTATTTTTAT
26127014 TTTTATTT
1 TTTTATTT
26127022 TTAGACTTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
15 6 0.10
16 20 0.33
17 20 0.33
18 7 0.12
19 7 0.12
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTATTTATTTTTAT
Found at i:26126998 original size:6 final size:6
Alignment explanation
Indices: 26126936--26127024 Score: 64
Period size: 6 Copynumber: 15.7 Consensus size: 6
26126926 TTAGATTTTA
* * * *
26126936 TTTAGT TTTATGT TTTA-- TTTATT TTTCTT TTTCTT TTT-TT TCTATT
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * *
26126982 TTTACT TTTATT TTTATT ATTA-- GTTATT TTTA-T TTTATT TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA
26127025 GACTTATATG
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
4 7 0.10
5 9 0.13
6 46 0.69
7 5 0.07
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:26129945 original size:20 final size:20
Alignment explanation
Indices: 26129920--26129964 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
26129910 TATAATACAT
26129920 AAAAAA-TACTAAAAACATTA
1 AAAAAATTACTAAAAA-ATTA
* *
26129940 AAAAAATTCCTAACAAATTA
1 AAAAAATTACTAAAAAATTA
26129960 AAAAA
1 AAAAA
26129965 CAAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAAAATTACTAAAAAATTA
Found at i:26136758 original size:16 final size:16
Alignment explanation
Indices: 26136734--26136764 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26136724 TCATAAACTT
26136734 TTTAATATTTATTTTA
1 TTTAATATTTATTTTA
*
26136750 TTTATTATTTATTTT
1 TTTAATATTTATTTT
26136765 TAAATTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTAATATTTATTTTA
Found at i:26136859 original size:19 final size:20
Alignment explanation
Indices: 26136818--26136863 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
26136808 CGTTAGCATC
*
26136818 ATTAAAATTTTAATAATTTA
1 ATTAAAATTTTAATAATTAA
26136838 ATTAAAA-TTTAA-AATTAAA
1 ATTAAAATTTTAATAATT-AA
26136857 ATTAAAA
1 ATTAAAA
26136864 GTATTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 13 0.54
20 7 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTAAAATTTTAATAATTAA
Found at i:26137730 original size:23 final size:23
Alignment explanation
Indices: 26137704--26137748 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
26137694 ACCGCAATAA
26137704 ATACATAACAAAAATATTAACCT
1 ATACATAACAAAAATATTAACCT
26137727 ATACATAACAAAAATATTAACC
1 ATACATAACAAAAATATTAACC
26137749 CTCTCTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (23 bp):
ATACATAACAAAAATATTAACCT
Found at i:26142473 original size:14 final size:14
Alignment explanation
Indices: 26142454--26142493 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
26142444 TAAAATAGAA
26142454 ATAATATAAATATT
1 ATAATATAAATATT
26142468 ATAATATAAATATT
1 ATAATATAAATATT
*
26142482 ATAATACAAATA
1 ATAATATAAATA
26142494 ATATTGTTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAATATAAATATT
Found at i:26143464 original size:25 final size:25
Alignment explanation
Indices: 26143436--26143516 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 25
26143426 ACCAAATGGT
26143436 ATATTAAGCCTATTAAAATTACTAA
1 ATATTAAGCCTATTAAAATTACTAA
* * **
26143461 ATATTAAG-TTGTTACCAAA-TGGT--
1 ATATTAAGCCTATTA--AAATTACTAA
26143484 ATATTAAGCCTATTAAAATTACTAA
1 ATATTAAGCCTATTAAAATTACTAA
26143509 ATATTAAG
1 ATATTAAG
26143517 TTGTTAAGCT
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
22 3 0.07
23 10 0.24
24 8 0.19
25 18 0.43
26 3 0.07
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (25 bp):
ATATTAAGCCTATTAAAATTACTAA
Found at i:26143496 original size:48 final size:48
Alignment explanation
Indices: 26143425--26143522 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
26143415 CAAACTTGGG
26143425 TACCAAATGGTATATTAAGCCTATTAAAATTACTAAATATTAAGTTGT
1 TACCAAATGGTATATTAAGCCTATTAAAATTACTAAATATTAAGTTGT
26143473 TACCAAATGGTATATTAAGCCTATTAAAATTACTAAATATTAAGTTGT
1 TACCAAATGGTATATTAAGCCTATTAAAATTACTAAATATTAAGTTGT
26143521 TA
1 TA
26143523 AGCTTAAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (48 bp):
TACCAAATGGTATATTAAGCCTATTAAAATTACTAAATATTAAGTTGT
Found at i:26144060 original size:20 final size:19
Alignment explanation
Indices: 26144035--26144082 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
26144025 AAAACATAAA
26144035 ATTTTAAAAACTATAATTTT
1 ATTTTAAAAACTATAA-TTT
* *
26144055 ATTTTAAAAATTTTAATTT
1 ATTTTAAAAACTATAATTT
26144074 -TTTTAAAAA
1 ATTTTAAAAA
26144083 AAATTATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
19 3 0.12
20 14 0.54
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTAAAAACTATAATTT
Found at i:26144381 original size:15 final size:17
Alignment explanation
Indices: 26144354--26144388 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
26144344 TAAAGCAAAT
26144354 AAATTATTAAAA-TAAA
1 AAATTATTAAAATTAAA
26144370 AAATTA-TAAAATTAAA
1 AAATTATTAAAATTAAA
26144386 AAA
1 AAA
26144389 ATGGGTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATTATTAAAATTAAA
Found at i:26148990 original size:13 final size:13
Alignment explanation
Indices: 26148972--26149005 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
26148962 TCAGTCAATT
26148972 TTTTTTCATTTAA
1 TTTTTTCATTTAA
*
26148985 TTTTTTGATTTAA
1 TTTTTTCATTTAA
26148998 TTCTTTTC
1 TT-TTTTC
26149006 CTTTTCTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (13 bp):
TTTTTTCATTTAA
Found at i:26150017 original size:24 final size:22
Alignment explanation
Indices: 26149963--26150027 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 22
26149953 ACATATAAGT
*
26149963 CTAAAAATTAAAATAAAAACAA
1 CTAAAAAATAAAATAAAAACAA
*
26149985 CTAACAAATAAAATAAAAGTACAA
1 CTAAAAAATAAAATAAAA--ACAA
26150009 CTAAAAAATAAAAATAAAA
1 CTAAAAAAT-AAAATAAAA
26150028 TAACTAGAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.43
24 12 0.32
25 9 0.24
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.17
Consensus pattern (22 bp):
CTAAAAAATAAAATAAAAACAA
Found at i:26150048 original size:28 final size:29
Alignment explanation
Indices: 26149983--26150048 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
26149973 AAATAAAAAC
*
26149983 AACTAACAAATAAAATAAAAGTACAACTAAA
1 AACTAA-AAATAAAAT-AAACTACAACTAAA
* * *
26150014 AAATAAAAATAAAAT-AACTAGAACTGAA
1 AACTAAAAATAAAATAAACTACAACTAAA
26150042 AACTAAA
1 AACTAAA
26150049 GAAGATTTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 16 0.53
30 9 0.30
31 5 0.17
ACGTcount: A:0.68, C:0.11, G:0.05, T:0.17
Consensus pattern (29 bp):
AACTAAAAATAAAATAAACTACAACTAAA
Found at i:26152834 original size:3 final size:3
Alignment explanation
Indices: 26152826--26152905 Score: 56
Period size: 3 Copynumber: 26.7 Consensus size: 3
26152816 TATTTTTAAC
* * * *
26152826 ATT ATT ATT ATT ATT ATT ATT ATT ATC ATCT -TC ACT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
* * * *
26152871 AGT A-T ATTT ATT AAT ATT ATT GTT ATT ATT GTT AT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT AT
26152906 GTTTTTATTT
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
2 2 0.03
3 54 0.93
4 2 0.03
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:26156897 original size:18 final size:17
Alignment explanation
Indices: 26156876--26156942 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 17
26156866 GCTTTAATTT
26156876 TTTTATTTATTTGTTTAC
1 TTTTATTTATTTGTTT-C
26156894 TTTTATTTA-TTGATTTC
1 TTTTATTTATTTG-TTTC
*
26156911 TTTT-TATTATATGTTTGCC
1 TTTTAT-TTATTTGTTT--C
26156930 ATTTTATTTATTT
1 -TTTTATTTATTT
26156943 ATCTTTTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
16 1 0.03
17 14 0.35
18 14 0.35
19 1 0.03
20 9 0.22
21 1 0.03
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
TTTTATTTATTTGTTTC
Found at i:26156902 original size:22 final size:21
Alignment explanation
Indices: 26156868--26156909 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
26156858 ATTTAAGTGC
*
26156868 TTTAATTTTTTTATTTATTTG
1 TTTAATTTTTTTATTGATTTG
*
26156889 TTTACTTTTATTTATTGATTT
1 TTTAATTTT-TTTATTGATTT
26156910 CTTTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTAATTTTTTTATTGATTTG
Found at i:26163282 original size:15 final size:15
Alignment explanation
Indices: 26163247--26163297 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
26163237 TATTTAGCTA
**
26163247 ATTATTTTTAACGTT
1 ATTATTTTTAATATT
26163262 ATTATTTTTAATATT
1 ATTATTTTTAATATT
* * *
26163277 ACTATTATTATTATT
1 ATTATTTTTAATATT
26163292 ATTATT
1 ATTATT
26163298 ATTATCATCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (15 bp):
ATTATTTTTAATATT
Found at i:26163285 original size:3 final size:3
Alignment explanation
Indices: 26163260--26163356 Score: 63
Period size: 3 Copynumber: 32.3 Consensus size: 3
26163250 ATTTTTAACG
* * * *
26163260 TTA TTA TTT TTA ATA TTA CTA TTA TTA TTA TTA TTA TTA TTA TCA TCT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * * * * *
26163308 TCA CTA TTG TTA TTA GTA -TA TTTA TTA ATA TTA TTG TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
26163353 TTA T
1 TTA T
26163357 GTTTTTATTT
Statistics
Matches: 69, Mismatches: 21, Indels: 8
0.70 0.21 0.08
Matches are distributed among these distances:
2 2 0.03
3 65 0.94
4 2 0.03
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:26163754 original size:18 final size:17
Alignment explanation
Indices: 26163731--26163796 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 17
26163721 TTAATTTTTA
26163731 TTTATTTATTTGTTTACT
1 TTTATTTATTTGTTT-CT
26163749 TTTATTTA-TTGATTTCT
1 TTTATTTATTTG-TTTCT
*
26163766 TTT-TATTATATGTTTGCCAT
1 TTTAT-TTATTTGTTT--C-T
26163786 TTTATTTATTT
1 TTTATTTATTT
26163797 ATCTTTTCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
16 1 0.03
17 14 0.36
18 13 0.33
19 1 0.03
20 9 0.23
21 1 0.03
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
TTTATTTATTTGTTTCT
Found at i:26164748 original size:30 final size:30
Alignment explanation
Indices: 26164714--26164814 Score: 100
Period size: 30 Copynumber: 3.4 Consensus size: 30
26164704 CTAAAATCAT
* *
26164714 TAATACTAATAATGAACAGAATAAG-AATAC
1 TAATACTAATAATAAACAAAAT-AGTAATAC
*
26164744 TAATATTAATAATAAACAAAATAGTAATAC
1 TAATACTAATAATAAACAAAATAGTAATAC
* *
26164774 TAATACTACA-AATAAA-AAAAGTAATAATAT
1 TAATACTA-ATAATAAACAAAA-TAGTAATAC
*
26164804 TAATAGTAATA
1 TAATACTAATA
26164815 GTAATAGTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
29 7 0.12
30 52 0.87
31 1 0.02
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (30 bp):
TAATACTAATAATAAACAAAATAGTAATAC
Found at i:26164813 original size:6 final size:6
Alignment explanation
Indices: 26164798--26164827 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
26164788 AAAAAAGTAA
*
26164798 TAATAT TAATAG TAATAG TAATAG TAATAG
1 TAATAG TAATAG TAATAG TAATAG TAATAG
26164828 AAACTAATAT
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:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (6 bp):
TAATAG
Found at i:26171598 original size:43 final size:43
Alignment explanation
Indices: 26171505--26171769 Score: 277
Period size: 43 Copynumber: 6.2 Consensus size: 43
26171495 ATGCCGTTAT
** * **
26171505 AGAACATGACCTTTAGCAACGCTTTTAT-AAAAAAACCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTATCACAAACTCCGCTAA
* *
26171547 AGAGCATGACCTTTAGCGGCG-TTTTACCCACAAACTCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTA-TCACAAACTCCGCTAA
* *
26171590 AGAACATGATCTTTAGTGGCGCTTTTATCACAAA-TGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTATCACAAACT-CCGCTAA
* *
26171633 AGAACATGACCTTTAGCAGCGCTTTTATCACAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTATCACAAACTCCGCTAA
* * * *
26171676 AGAGCATGACCTTTAGCGGTGCTTTTATCACAAACGCCGCTAT
1 AGAACATGACCTTTAGCGGCGCTTTTATCACAAACTCCGCTAA
* ** ** *
26171719 AGAGA-ATGACTTTTAGCAACTTTTTTTTCACAAACTCCGCTAA
1 AGA-ACATGACCTTTAGCGGCGCTTTTATCACAAACTCCGCTAA
*
26171762 ATAACATG
1 AGAACATG
26171770 TTCTTTCGCG
Statistics
Matches: 186, Mismatches: 30, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
41 5 0.03
42 20 0.11
43 156 0.84
44 5 0.03
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGCGCTTTTATCACAAACTCCGCTAA
Found at i:26171750 original size:129 final size:128
Alignment explanation
Indices: 26171493--26171769 Score: 328
Period size: 129 Copynumber: 2.2 Consensus size: 128
26171483 CATGTGAAAA
* *
26171493 AAATGCCGTTATAGAACATGACCTTTAGCAACGCTTTTATAAAAAAACCGCTAAAGAGCATGACC
1 AAATGCCGCTAAAGAACATGACCTTTAGCAACGCTTTTATAAAAAAACCGCTAAAGAGCATGACC
* ***
26171558 TTTAGCGGCGTTTTACCCACAAACTCCGCTAAAGAACATGATCTTTAGTGGCGCTTTTATCAC
66 TTTAGCGGCGTTTTACCCACAAACGCCGCTAAAGAACATGATCTTTAGCAACGCTTTTATCAC
* * **
26171621 AAATGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAGAGCATGAC
1 AAATGCCGCTAAAGAACATGACCTTTAGCAACGCTTTTAT-AAAAAAACCGCTAAAGAGCATGAC
* * * ** *
26171686 CTTTAGCGGTGCTTTTA-TCACAAACGCCGCTATAGAGA-ATGA-CTTTTAGCAACTTTTTTTTC
65 CTTTAGCGGCG-TTTTACCCACAAACGCCGCTAAAGA-ACATGATC-TTTAGCAACGCTTTTATC
26171748 AC
127 AC
*
26171750 AAACT-CCGCTAAATAACATG
1 AAA-TGCCGCTAAAGAACATG
26171770 TTCTTTCGCG
Statistics
Matches: 127, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
128 38 0.30
129 82 0.65
130 7 0.06
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (128 bp):
AAATGCCGCTAAAGAACATGACCTTTAGCAACGCTTTTATAAAAAAACCGCTAAAGAGCATGACC
TTTAGCGGCGTTTTACCCACAAACGCCGCTAAAGAACATGATCTTTAGCAACGCTTTTATCAC
Found at i:26174095 original size:215 final size:215
Alignment explanation
Indices: 26173724--26174154 Score: 862
Period size: 215 Copynumber: 2.0 Consensus size: 215
26173714 AATTTGGAGT
26173724 ATTTTGAACAATACTTAGATCTCACAATCTTCTTCTAGGCATTTTATTTGCAATACACATAAGAT
1 ATTTTGAACAATACTTAGATCTCACAATCTTCTTCTAGGCATTTTATTTGCAATACACATAAGAT
26173789 AGTTGAAATTTTGGTAACTAATTACAACAATAATAGTACATATAAAATAGTTGAAATATTTAACA
66 AGTTGAAATTTTGGTAACTAATTACAACAATAATAGTACATATAAAATAGTTGAAATATTTAACA
26173854 AGACCAAGATTTAAATTATAATATTACATATAATTAAAAAAATCGTAAAATCCTACTACATCATA
131 AGACCAAGATTTAAATTATAATATTACATATAATTAAAAAAATCGTAAAATCCTACTACATCATA
26173919 ATTCGTAAATATCTTCATCA
196 ATTCGTAAATATCTTCATCA
26173939 ATTTTGAACAATACTTAGATCTCACAATCTTCTTCTAGGCATTTTATTTGCAATACACATAAGAT
1 ATTTTGAACAATACTTAGATCTCACAATCTTCTTCTAGGCATTTTATTTGCAATACACATAAGAT
26174004 AGTTGAAATTTTGGTAACTAATTACAACAATAATAGTACATATAAAATAGTTGAAATATTTAACA
66 AGTTGAAATTTTGGTAACTAATTACAACAATAATAGTACATATAAAATAGTTGAAATATTTAACA
26174069 AGACCAAGATTTAAATTATAATATTACATATAATTAAAAAAATCGTAAAATCCTACTACATCATA
131 AGACCAAGATTTAAATTATAATATTACATATAATTAAAAAAATCGTAAAATCCTACTACATCATA
26174134 ATTCGTAAATATCTTCATCA
196 ATTCGTAAATATCTTCATCA
26174154 A
1 A
26174155 CATCCTGGCA
Statistics
Matches: 216, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
215 216 1.00
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (215 bp):
ATTTTGAACAATACTTAGATCTCACAATCTTCTTCTAGGCATTTTATTTGCAATACACATAAGAT
AGTTGAAATTTTGGTAACTAATTACAACAATAATAGTACATATAAAATAGTTGAAATATTTAACA
AGACCAAGATTTAAATTATAATATTACATATAATTAAAAAAATCGTAAAATCCTACTACATCATA
ATTCGTAAATATCTTCATCA
Found at i:26177866 original size:9 final size:9
Alignment explanation
Indices: 26177852--26178082 Score: 90
Period size: 9 Copynumber: 24.0 Consensus size: 9
26177842 TAAGTATAAT
26177852 TAAGTTATG
1 TAAGTTATG
26177861 TAAGTTATG
1 TAAGTTATG
*
26177870 TGAGTTATG
1 TAAGTTATG
26177879 TAAGTTATG
1 TAAGTTATG
* *
26177888 ATATGATATATA
1 -TAAG-T-TATG
26177900 TAAGTTATTATG
1 TAAG---TTATG
*
26177912 TATGTTATG
1 TAAGTTATG
*
26177921 TGAGTTATG
1 TAAGTTATG
26177930 TAAGTTATG
1 TAAGTTATG
* *
26177939 ATATGATATATA
1 -TAAG-T-TATG
26177951 TAAGTTAT-
1 TAAGTTATG
*
26177959 TAAGTTAAG
1 TAAGTTATG
* *
26177968 ATCCAAAGTTTTTTTT
1 -T---AAG---TTATG
* *
26177984 TAA-TTCTT
1 TAAGTTATG
26177992 TAAAGTTATG
1 T-AAGTTATG
26178002 TAAGTTATG
1 TAAGTTATG
*
26178011 TAAGTTTTG
1 TAAGTTATG
* * **
26178020 ATATGATACA
1 -TAAGTTATG
*
26178030 T-ATTTATG
1 TAAGTTATG
26178038 TAAGTTATG
1 TAAGTTATG
*
26178047 TAAATTATG
1 TAAGTTATG
*
26178056 CAAGTTATG
1 TAAGTTATG
26178065 TAAGTTATG
1 TAAGTTATG
*
26178074 TTAGTTATG
1 TAAGTTATG
26178083 ATATATATTT
Statistics
Matches: 165, Mismatches: 37, Indels: 40
0.68 0.15 0.17
Matches are distributed among these distances:
8 15 0.09
9 104 0.63
10 16 0.10
11 8 0.05
12 14 0.08
13 5 0.03
15 1 0.01
16 2 0.01
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:26177919 original size:51 final size:51
Alignment explanation
Indices: 26177856--26177960 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
26177846 TATAATTAAG
26177856 TTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTA
1 TTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTA
*
26177907 TTATGTATGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTA
1 TTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTA
26177958 TTA
1 TTA
26177961 AGTTAAGATC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (51 bp):
TTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTA
Found at i:26180122 original size:14 final size:14
Alignment explanation
Indices: 26180099--26180146 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
26180089 CCCCAAAAAT
26180099 CTAAACCTTAAACC
1 CTAAACCTTAAACC
* *
26180113 CTAAATCTTAAAATC
1 CTAAACCTT-AAACC
*
26180128 ATAAACCTTAAACC
1 CTAAACCTTAAACC
26180142 CTAAA
1 CTAAA
26180147 ATAAAATATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (14 bp):
CTAAACCTTAAACC
Found at i:26180125 original size:29 final size:29
Alignment explanation
Indices: 26180078--26180146 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
26180068 TATACGGAAA
26180078 TAAACCCTAAACCCCAAAAATC-TAAACCT
1 TAAACCCTAAACCCC-AAAATCATAAACCT
* **
26180107 TAAACCCTAAATCTTAAAATCATAAACCT
1 TAAACCCTAAACCCCAAAATCATAAACCT
26180136 TAAACCCTAAA
1 TAAACCCTAAA
26180147 ATAAAATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 6 0.17
29 30 0.83
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (29 bp):
TAAACCCTAAACCCCAAAATCATAAACCT
Found at i:26180132 original size:22 final size:22
Alignment explanation
Indices: 26180107--26180148 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
26180097 ATCTAAACCT
* *
26180107 TAAACCCTAAATCTTAAAATCA
1 TAAACCCTAAACCCTAAAATCA
*
26180129 TAAACCTTAAACCCTAAAAT
1 TAAACCCTAAACCCTAAAAT
26180149 AAAATATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (22 bp):
TAAACCCTAAACCCTAAAATCA
Found at i:26180516 original size:84 final size:84
Alignment explanation
Indices: 26180382--26180551 Score: 268
Period size: 84 Copynumber: 2.0 Consensus size: 84
26180372 AGCGCCATTA
*
26180382 AAAAACTTAATTCCCTATAGTGAAACGATGACGTTTAAGTCAAATTGGTATCGCAATTTTGCGGC
1 AAAAACTTAATTCCCTATAGTGAAACGACGACGTTTAAGTCAAATTGGTATCGCAATTTTGCGGC
26180447 GTTTATGAAAAACGCCACT
66 GTTTATGAAAAACGCCACT
* * * * * * *
26180466 AAAAACTTGATTCCTTGTAGTGAAACGACGCCGTTTAAGTCAAATTGGTATTGCAGTTTTGCGGT
1 AAAAACTTAATTCCCTATAGTGAAACGACGACGTTTAAGTCAAATTGGTATCGCAATTTTGCGGC
26180531 GTTTATGAAAAACGCCACT
66 GTTTATGAAAAACGCCACT
26180550 AA
1 AA
26180552 TGTATAACCT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (84 bp):
AAAAACTTAATTCCCTATAGTGAAACGACGACGTTTAAGTCAAATTGGTATCGCAATTTTGCGGC
GTTTATGAAAAACGCCACT
Found at i:26180650 original size:101 final size:101
Alignment explanation
Indices: 26180483--26180674 Score: 276
Period size: 101 Copynumber: 1.9 Consensus size: 101
26180473 TGATTCCTTG
* * * * **
26180483 TAGTGAAACGACGCCGTTTAAGTCAAATTGGTATTGCAGTTTTGCGGTGTTTATGAAAAACGCCA
1 TAGTAAAACGAAGCCGTTTAAGTCAAATTGGTATTGCAATTTTGCAGCATTTATGAAAAACGCCA
*
26180548 CTAATGTATAACCTTTACGGCGTTTTTAATTCCCTA
66 CTAACGTATAACCTTTACGGCGTTTTTAATTCCCTA
* * *
26180584 TAGTAAAACGAAGCCGTTTAAGTCAAATTGGTATTGTAATTTTGCAGCATTTCTGAAAAATGCCA
1 TAGTAAAACGAAGCCGTTTAAGTCAAATTGGTATTGCAATTTTGCAGCATTTATGAAAAACGCCA
* *
26180649 CTAACGTATAACCTTTGCGGTGTTTT
66 CTAACGTATAACCTTTACGGCGTTTT
26180675 CAGTCAAAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 79 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (101 bp):
TAGTAAAACGAAGCCGTTTAAGTCAAATTGGTATTGCAATTTTGCAGCATTTATGAAAAACGCCA
CTAACGTATAACCTTTACGGCGTTTTTAATTCCCTA
Found at i:26180819 original size:124 final size:124
Alignment explanation
Indices: 26180598--26180823 Score: 301
Period size: 124 Copynumber: 1.8 Consensus size: 124
26180588 AAAACGAAGC
* ** *
26180598 CGTTTAAGTCAAATTGGTATTGTAATTTTGCAGCATTTCTGAAAAATGCCACTAACGTATAACCT
1 CGTTTAAGTCAAATTGGTATTGCAATTTTGCAGCATTTCAAAAAAAAGCCACTAACGTATAACCT
* ** * *
26180663 TTGCGGTGTTTTCAGTCAAAATACCACTAAAAATTTAATGTTTTGTAGTGAAACAATGA
66 TTACGGCATTTTCAATCAAAACACCACTAAAAATTTAATGTTTTGTAGTGAAACAATGA
* * * *
26180722 CGTTTAAGTCGAATTGGTATTGCAATTTTGCAGCGTTT-AAAAAAAAGCCACTAATGTATCACCT
1 CGTTTAAGTCAAATTGGTATTGCAATTTTGCAGCATTTCAAAAAAAAGCCACTAACGTATAACCT
* *
26180786 TTATGGCATTTTCAATCAAAACGCCACTAAAAAATTTA
66 TTACGGCATTTTCAATCAAAACACCACT-AAAAATTTA
26180824 TTTCCTGTAG
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
123 42 0.49
124 44 0.51
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (124 bp):
CGTTTAAGTCAAATTGGTATTGCAATTTTGCAGCATTTCAAAAAAAAGCCACTAACGTATAACCT
TTACGGCATTTTCAATCAAAACACCACTAAAAATTTAATGTTTTGTAGTGAAACAATGA
Found at i:26180833 original size:123 final size:124
Alignment explanation
Indices: 26180598--26180838 Score: 299
Period size: 123 Copynumber: 2.0 Consensus size: 124
26180588 AAAACGAAGC
* ** *
26180598 CGTTTAAGTCAAATTGGTATTGTAATTTTGCAGCATTTCTGAAAAATGCCACTAACGTATAACCT
1 CGTTTAAGTCAAATTGGTATTGCAATTTTGCAGCATTTCAAAAAAAAGCCACTAACGTATAACCT
* ** * * *
26180663 TTGCGGTGTTTTCAGTCAAAATACCACTAAAAATTTAATGTTTTGTAGTGAAACAATGA
66 TTACGGCATTTTCAATCAAAACACCACTAAAAATTTAATGTTCTGTAGTGAAACAATGA
* * * *
26180722 CGTTTAAGTCGAATTGGTATTGCAATTTTGCAGCGTTT-AAAAAAAAGCCACTAATGTATCACCT
1 CGTTTAAGTCAAATTGGTATTGCAATTTTGCAGCATTTCAAAAAAAAGCCACTAACGTATAACCT
* *
26180786 TTATGGCATTTTCAATCAAAACGCCACTAAAAAATTT-AT-TTCCTGTAGTGAAA
66 TTACGGCATTTTCAATCAAAACACCACT-AAAAATTTAATGTT-CTGTAGTGAAA
26180839 TGGCGTTGTT
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
122 2 0.02
123 54 0.55
124 43 0.43
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (124 bp):
CGTTTAAGTCAAATTGGTATTGCAATTTTGCAGCATTTCAAAAAAAAGCCACTAACGTATAACCT
TTACGGCATTTTCAATCAAAACACCACTAAAAATTTAATGTTCTGTAGTGAAACAATGA
Found at i:26185030 original size:15 final size:15
Alignment explanation
Indices: 26185010--26185040 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
26185000 AAACATGAAA
26185010 TTGTTATGAATATCT
1 TTGTTATGAATATCT
26185025 TTGTTATGAATATCT
1 TTGTTATGAATATCT
26185040 T
1 T
26185041 ATTAAGTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (15 bp):
TTGTTATGAATATCT
Found at i:26185379 original size:43 final size:43
Alignment explanation
Indices: 26185324--26185448 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
26185314 GCTTTTCATT
* *
26185324 AAAA-CGCTGCTAAGGAACATGATCTTTAGTGGCGTTTGTAGG
1 AAAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTGTAGG
* * *
26185366 AAAAGCGCCGCTAAAGATCATGTTCTTTAGTAGCGTTTGTAGG
1 AAAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTGTAGG
* * * * * *
26185409 AAAAGCCCCACTAAATACCATGATCATTAGCGGCGTTTGT
1 AAAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTGT
26185449 GAGAAAAAAC
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 4 0.06
43 65 0.94
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTGTAGG
Found at i:26185455 original size:43 final size:43
Alignment explanation
Indices: 26185341--26185466 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
26185331 TGCTAAGGAA
* * *
26185341 CATGATCTTTAGTGGCGTTTGTAGGAAAAGCGCCGCTAAAGAT
1 CATGATCTTTAGTGGCGTTTGTAGGAAAAGCCCCACTAAAGAC
* * *
26185384 CATGTTCTTTAGTAGCGTTTGTAGGAAAAGCCCCACTAAATAC
1 CATGATCTTTAGTGGCGTTTGTAGGAAAAGCCCCACTAAAGAC
* * * * *
26185427 CATGATCATTAGCGGCGTTTGTGAGAAAAAACACCACTAA
1 CATGATCTTTAGTGGCGTTTGT-AGGAAAAGCCCCACTAA
26185467 CTTTATCAGA
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
43 55 0.80
44 14 0.20
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (43 bp):
CATGATCTTTAGTGGCGTTTGTAGGAAAAGCCCCACTAAAGAC
Found at i:26189948 original size:14 final size:14
Alignment explanation
Indices: 26189929--26189957 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26189919 CTAATCTATG
26189929 ATTTCCATCTAACC
1 ATTTCCATCTAACC
26189943 ATTTCCATCTAACC
1 ATTTCCATCTAACC
26189957 A
1 A
26189958 CCAATGATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (14 bp):
ATTTCCATCTAACC
Found at i:26194466 original size:33 final size:33
Alignment explanation
Indices: 26194402--26194466 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 33
26194392 ATTCGCGAAA
* * *
26194402 AAGAGGGAGATGGATAGGGTTGATTGTGCAAAG
1 AAGAGGGAGATGGAAAGGGTTGACTGAGCAAAG
* * *
26194435 AAGAGGGAGTTGGAAATGTTTGACTGAGCAAA
1 AAGAGGGAGATGGAAAGGGTTGACTGAGCAAA
26194467 TGAGAGAAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.35, C:0.05, G:0.38, T:0.22
Consensus pattern (33 bp):
AAGAGGGAGATGGAAAGGGTTGACTGAGCAAAG
Found at i:26194968 original size:5 final size:5
Alignment explanation
Indices: 26194953--26194991 Score: 51
Period size: 5 Copynumber: 7.2 Consensus size: 5
26194943 AAATAAAGTG
26194953 ATAATA ATAAA ATAAA ATAAA ATAATA ATTAAA ATAAA A
1 ATAA-A ATAAA ATAAA ATAAA ATAA-A A-TAAA ATAAA A
26194992 AAATTTGGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 20 0.65
6 8 0.26
7 3 0.10
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (5 bp):
ATAAA
Found at i:26194992 original size:18 final size:18
Alignment explanation
Indices: 26194955--26194991 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
26194945 ATAAAGTGAT
26194955 AATAATAAAATAAAATAA
1 AATAATAAAATAAAATAA
*
26194973 AATAAT-AATTAAAATAA
1 AATAATAAAATAAAATAA
26194990 AA
1 AA
26194992 AAATTTGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AATAATAAAATAAAATAA
Found at i:26199889 original size:26 final size:27
Alignment explanation
Indices: 26199860--26199916 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
26199850 AGCTGAGCTG
*
26199860 CCAGTA-CAG-AATATGTGACATAGCCA
1 CCAGTAGCAGTAAT-TGTGACAGAGCCA
*
26199886 CCAGTAGCAGTAATTGTGGCAGAGCCA
1 CCAGTAGCAGTAATTGTGACAGAGCCA
26199913 CCAG
1 CCAG
26199917 AAATAATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 6 0.22
27 18 0.67
28 3 0.11
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.18
Consensus pattern (27 bp):
CCAGTAGCAGTAATTGTGACAGAGCCA
Found at i:26200140 original size:26 final size:26
Alignment explanation
Indices: 26200107--26200166 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
26200097 TTCCCTACCG
* * *
26200107 GGGTATTTCAGTACTTTACCCATCGA
1 GGGTATTTCAGTAATTTACACATCAA
**
26200133 GGGTATTTTGGTAATTTACACATCAA
1 GGGTATTTCAGTAATTTACACATCAA
26200159 GGGTATTT
1 GGGTATTT
26200167 GGGTCAACAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (26 bp):
GGGTATTTCAGTAATTTACACATCAA
Found at i:26200843 original size:170 final size:172
Alignment explanation
Indices: 26200524--26200850 Score: 480
Period size: 170 Copynumber: 1.9 Consensus size: 172
26200514 TTCTCTGAAT
* * *
26200524 TCTTCAGTACTATCAAATTAGAGTCTTCTCAAATCTAAATCTATGATTTCCATCTAACCATCGAC
1 TCTTCAGTACCATCAAATTAAAGTCTTCTCAAATCTAAATCTATGATTTCCATCTAACCACCGAC
* * *
26200589 GATGCCAAATATAAGAGAATTTATTCCCATTATATAACGTCTTCAAACATGTTTGCGCAACACAA
66 GATGCCAAATATAAGAGAACTTATTCCCATTATATAACATCTTCAAACATGTTTACGCAACACAA
*
26200654 TAAGGACAAGCATAACGTCCATTGGTATTCCAACCAGAGAAC
131 CAAGGACAAGCATAACGTCCATTGGTATTCCAACCAGAGAAC
* ** *
26200696 TCTTCAGTACCATCTAA-TAAAGTCTTCTGGAATCT-AATCTATGATTTCCATCTAACCACCGAT
1 TCTTCAGTACCATCAAATTAAAGTCTTCTCAAATCTAAATCTATGATTTCCATCTAACCACCGAC
** * *
26200759 GATGCCCCATATAAGAGAACTTATTCCCATTATATAACCAT-TTCGAACATGTTTACGCAACATA
66 GATGCCAAATATAAGAGAACTTATTCCCATTATATAA-CATCTTCAAACATGTTTACGCAACACA
*
26200823 ACAAGGACAAGCATAACGTCCTTTGGTA
130 ACAAGGACAAGCATAACGTCCATTGGTA
26200851 CTTAAACCTA
Statistics
Matches: 138, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
170 106 0.77
171 17 0.12
172 15 0.11
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (172 bp):
TCTTCAGTACCATCAAATTAAAGTCTTCTCAAATCTAAATCTATGATTTCCATCTAACCACCGAC
GATGCCAAATATAAGAGAACTTATTCCCATTATATAACATCTTCAAACATGTTTACGCAACACAA
CAAGGACAAGCATAACGTCCATTGGTATTCCAACCAGAGAAC
Found at i:26205781 original size:17 final size:17
Alignment explanation
Indices: 26205759--26205794 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
26205749 ATAAAGTGAT
26205759 AATAATAAATAAAATAA
1 AATAATAAATAAAATAA
*
26205776 AATAATAATTAAAATAA
1 AATAATAAATAAAATAA
26205793 AA
1 AA
26205795 AATTTGGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AATAATAAATAAAATAA
Found at i:26205795 original size:23 final size:22
Alignment explanation
Indices: 26205734--26205794 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
26205724 AGGAATTAAT
* *
26205734 TAATAATT-AAACAAAATAAAG
1 TAATAATTAAAATAAAATAAAA
* *
26205755 TGATAATAATAAATAAAATAAAA
1 TAATAATTA-AAATAAAATAAAA
26205778 TAATAATTAAAATAAAA
1 TAATAATTAAAATAAAA
26205795 AATTTGGGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 6 0.19
22 8 0.25
23 18 0.56
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (22 bp):
TAATAATTAAAATAAAATAAAA
Found at i:26210829 original size:28 final size:28
Alignment explanation
Indices: 26210798--26210893 Score: 66
Period size: 28 Copynumber: 3.2 Consensus size: 28
26210788 CCCTTTCCAG
26210798 TATCAGTGTGGGCCTTAGCCCAATACAA
1 TATCAGTGTGGGCCTTAGCCCAATACAA
* * *
26210826 TATCGGAACAGTGCGGGCCTTAGCCTAATATAA
1 TAT-----CAGTGTGGGCCTTAGCCCAATACAA
* * * ** *
26210859 TAACAGTGTAGGCCTAAGCCCGTTACAC
1 TATCAGTGTGGGCCTTAGCCCAATACAA
26210887 TATCAGT
1 TATCAGT
26210894 ATGCTGCAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
28 26 0.52
33 24 0.48
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (28 bp):
TATCAGTGTGGGCCTTAGCCCAATACAA
Found at i:26211280 original size:27 final size:25
Alignment explanation
Indices: 26211225--26211337 Score: 93
Period size: 26 Copynumber: 4.3 Consensus size: 25
26211215 ACCCTTTAGG
*
26211225 GGGTATTTCAGTAATTTTTCCCTAT-A
1 GGGTATTTCAGTAA-TTTACCC-ATGA
*
26211251 GGGGTATTTCAATAATTTACCCATCGA
1 -GGGTATTTCAGTAATTTACCCAT-GA
**
26211278 GGGTATTTTTGTAATTTACCCATTGA
1 GGGTATTTCAGTAATTTACCCA-TGA
** * *
26211304 GGGTATTTTGGTAATTTACACATTA
1 GGGTATTTCAGTAATTTACCCATGA
26211329 CGGGTATTT
1 -GGGTATTT
26211338 GGGTCAACAC
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
25 4 0.05
26 55 0.74
27 15 0.20
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.42
Consensus pattern (25 bp):
GGGTATTTCAGTAATTTACCCATGA
Found at i:26211327 original size:26 final size:26
Alignment explanation
Indices: 26211263--26211337 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
26211253 GGTATTTCAA
* *
26211263 TAATTTACCCATCGAGGGTATTTTTG
1 TAATTTACCCATTGAGGGTATTTTGG
26211289 TAATTTACCCATTGAGGGTATTTTGG
1 TAATTTACCCATTGAGGGTATTTTGG
*
26211315 TAATTTACACATT-ACGGGTATTT
1 TAATTTACCCATTGA-GGGTATTT
26211338 GGGTCAACAC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
25 1 0.02
26 44 0.98
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (26 bp):
TAATTTACCCATTGAGGGTATTTTGG
Found at i:26212219 original size:22 final size:21
Alignment explanation
Indices: 26212194--26212240 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
26212184 AAGTCGGTGC
26212194 AAAAGAAAAAATAAAAACACTGA
1 AAAAGAAAAAA-AAAAACACT-A
* *
26212217 AAAAGAGAAAAAAAAACTCTA
1 AAAAGAAAAAAAAAAACACTA
26212238 AAA
1 AAA
26212241 GACATAGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 8 0.36
23 10 0.45
ACGTcount: A:0.74, C:0.09, G:0.09, T:0.09
Consensus pattern (21 bp):
AAAAGAAAAAAAAAAACACTA
Found at i:26218152 original size:28 final size:28
Alignment explanation
Indices: 26218121--26218196 Score: 80
Period size: 33 Copynumber: 2.5 Consensus size: 28
26218111 CCCTTTCTAG
26218121 TATCAGTGTGGGCCTTAGCCCAATACAA
1 TATCAGTGTGGGCCTTAGCCCAATACAA
*
26218149 TATCAAAATAGTGTGGGCCTTAGCCCAATATAA
1 TATC-----AGTGTGGGCCTTAGCCCAATACAA
* *
26218182 TAACAGTGTAGGCCT
1 TATCAGTGTGGGCCT
26218197 AAGCGCGTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
28 14 0.35
33 26 0.65
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (28 bp):
TATCAGTGTGGGCCTTAGCCCAATACAA
Found at i:26218652 original size:26 final size:26
Alignment explanation
Indices: 26218586--26218698 Score: 138
Period size: 26 Copynumber: 4.3 Consensus size: 26
26218576 ACCCTTCTAG
* *
26218586 GGGTATTTTAGTAATTTTTCCCTATAGA
1 GGGTATTTTAGTAA-TTTACCC-ATCGA
*
26218614 -GGTATTTCAGTAATTTACCCATCGA
1 GGGTATTTTAGTAATTTACCCATCGA
* * *
26218639 GGGTATTTTGGTAATTTACGCACCGA
1 GGGTATTTTAGTAATTTACCCATCGA
*
26218665 GGGTATTTTGGTAATTTACCCATCGA
1 GGGTATTTTAGTAATTTACCCATCGA
26218691 GGGTATTT
1 GGGTATTT
26218699 GGGTCAACAC
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
25 4 0.05
26 59 0.79
27 12 0.16
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.40
Consensus pattern (26 bp):
GGGTATTTTAGTAATTTACCCATCGA
Found at i:26221310 original size:79 final size:78
Alignment explanation
Indices: 26221208--26221431 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
26221198 GCTCCTCGTT
* *
26221208 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
26221273 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
26221288 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
26221351 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * * * *
26221366 CAAATGCCTTCGGATCTTAGTCCGAATATGGTCACTTAGCACAAA-GCCTTTGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCG-GTATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
26221430 GA
63 GA
26221432 CATCATTCAA
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
78 38 0.31
79 51 0.41
80 34 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:26221325 original size:39 final size:40
Alignment explanation
Indices: 26221208--26221431 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
26221198 GCTCCTCGTT
* *
26221208 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
26221248 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
26221288 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
26221327 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
26221366 CAAATGCCTTC-GGATCTTAGTCC-GAATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGT-ATC-TCGCA
*
26221407 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
26221432 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 77 0.47
40 69 0.42
41 16 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:26226149 original size:35 final size:35
Alignment explanation
Indices: 26226109--26226176 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
26226099 TTTTTATATT
26226109 CTTTAAATGTTTATGTAAGTTATGATAATCATTAA
1 CTTTAAATGTTTATGTAAGTTATGATAATCATTAA
*
26226144 CTTTAAATGTTTATGTAAGTTATGATTATCATT
1 CTTTAAATGTTTATGTAAGTTATGATAATCATT
26226177 TTTTTATCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.49
Consensus pattern (35 bp):
CTTTAAATGTTTATGTAAGTTATGATAATCATTAA
Found at i:26226365 original size:59 final size:59
Alignment explanation
Indices: 26226302--26226938 Score: 857
Period size: 59 Copynumber: 10.8 Consensus size: 59
26226292 TAAATGAATG
* * * * *
26226302 ATTAATCGAAAATTAATTAATAATTCATAGAATTATTATGAAACATAATCATTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * *
26226361 ATTAATTGAAAATTGATTAATTATTCATAGAATTATTATGAAATATGATTATTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
26226420 ATTAATC-AAAATTTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
1 ATTAATCGAAAA-TTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
** * * *
26226479 ATTAATTAAAAATTAATTAATTATTCGTAATATTATTATGAAATATGATTGTTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * *
26226538 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATCAAATATGATTATCTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * * * * *
26226597 ATTAATCGGAAATTAATTAATTATTCGTAAAATTATTATCAAATATGGTTGTCTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * * *
26226656 ATTAATCGAAAATTAATTAATTAGTCGTAAAATTATTATGAAATATAATTCTTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* ** * *
26226715 TTTCTTTGAAAATTAATTAATTAATCATAAAATTATTATGAAATATGATTATTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * **
26226774 TTTAATCAAAAATTAATTAATTATTCATAGCATTATTATGAAATATGATTATTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * * *
26226833 ATTAATCAAAAATTAATTAATTATTCATAGAATTGTTATGAAATATGATTATTTATATA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* **
26226892 ATTAATC-ATAAATTACTTAATTATTTGT-AAATTATTATGAAATATGA
1 ATTAATCGA-AAATTAATTAATTATTCATAAAATTATTATGAAATATGA
26226939 CCCAGCTTTT
Statistics
Matches: 520, Mismatches: 55, Indels: 7
0.89 0.09 0.01
Matches are distributed among these distances:
58 22 0.04
59 494 0.95
60 4 0.01
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (59 bp):
ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
Found at i:26226535 original size:32 final size:31
Alignment explanation
Indices: 26226333--26226888 Score: 154
Period size: 32 Copynumber: 18.8 Consensus size: 31
26226323 AATTCATAGA
* * *
26226333 ATTATTATGAAACATAATCATTTATT-T-A-
1 ATTATTATGAAATATGATTATTTATTCTAAT
* *
26226361 ATTAAT-TGAAA-ATTGATTAATTATTCATAGA-
1 ATTATTATGAAATA-TGATTATTTATTC-TA-AT
26226392 ATTATTATGAAATATGATTATTTATT-TAAT
1 ATTATTATGAAATATGATTATTTATTCTAAT
* * * * * *
26226422 -TAATCA--AAATTTAATTAATTATTCATAAA
1 ATTATTATGAAATATGATTATTTATTC-TAAT
26226451 ATTATTATGAAATATGATTATTTATT-TAAT
1 ATTATTATGAAATATGATTATTTATTCTAAT
* * * *
26226481 -TAATTA-AAAAT-TAATTAATTATTCGTAAT
1 ATTATTATGAAATATGATTATTTATTC-TAAT
*
26226510 ATTATTATGAAATATGATTGTTTATT-TAAT
1 ATTATTATGAAATATGATTATTTATTCTAAT
* * * * * *
26226540 -TAATCA-AAAAT-TAATTAATTATTCATAAA
1 ATTATTATGAAATATGATTATTTATTC-TAAT
* *
26226569 ATTATTATCAAATATGATTATCTATT-T-A-
1 ATTATTATGAAATATGATTATTTATTCTAAT
* ** * * *
26226597 ATTAATCGGAAAT-TAATTAATTATTCGTAAA
1 ATTATTATGAAATATGATTATTTATTC-TAAT
* * * *
26226628 ATTATTATCAAATATGGTTGTCTATT-T-A-
1 ATTATTATGAAATATGATTATTTATTCTAAT
* * * *
26226656 ATTA--ATCGAAA-ATTAATTAATTAGTCGTAAA
1 ATTATTAT-GAAATA-TGATTATTTATTC-TAAT
* *
26226687 ATTATTATGAAATATAATTCTTTATT-T-AT
1 ATTATTATGAAATATGATTATTTATTCTAAT
* * * * *
26226716 -TTCTT-TGAAA-ATTAATTAATTAATCATAAA
1 ATTATTATGAAATA-TGATTATTTATTC-TAAT
26226746 ATTATTATGAAATATGATTATTTATT-T-AT
1 ATTATTATGAAATATGATTATTTATTCTAAT
* * * * **
26226775 -TTA--ATCAAAAATTAATTAATTATTCATAGC
1 ATTATTATGAAATA-TGATTATTTATTC-TAAT
26226805 ATTATTATGAAATATGATTATTTATT-TAAT
1 ATTATTATGAAATATGATTATTTATTCTAAT
* * * * *
26226835 -TAATCA-AAAAT-TAATTAATTATTCATAGA-
1 ATTATTATGAAATATGATTATTTATTC-TA-AT
*
26226864 ATTGTTATGAAATATGATTATTTAT
1 ATTATTATGAAATATGATTATTTAT
26226889 ATAATTAATC
Statistics
Matches: 371, Mismatches: 100, Indels: 110
0.64 0.17 0.19
Matches are distributed among these distances:
26 11 0.03
27 99 0.27
28 37 0.10
29 39 0.11
30 35 0.09
31 38 0.10
32 101 0.27
33 11 0.03
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.46
Consensus pattern (31 bp):
ATTATTATGAAATATGATTATTTATTCTAAT
Found at i:26226559 original size:19 final size:20
Alignment explanation
Indices: 26226535--26226572 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
26226525 GATTGTTTAT
26226535 TTAATTAATCA-AAAATTAA
1 TTAATTAATCATAAAATTAA
*
26226554 TTAATTATTCATAAAATTA
1 TTAATTAATCATAAAATTA
26226573 TTATCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATTAATCATAAAATTAA
Found at i:26226677 original size:19 final size:20
Alignment explanation
Indices: 26226653--26226690 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
26226643 GGTTGTCTAT
26226653 TTAATTAATCG-AAAATTAA
1 TTAATTAATCGTAAAATTAA
*
26226672 TTAATTAGTCGTAAAATTA
1 TTAATTAATCGTAAAATTA
26226691 TTATGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.39
Consensus pattern (20 bp):
TTAATTAATCGTAAAATTAA
Found at i:26229202 original size:23 final size:24
Alignment explanation
Indices: 26229172--26229222 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
26229162 CATGGGTTGC
26229172 TGTTTTTTTTCTC-TTTTCTGGGT
1 TGTTTTTTTTCTCTTTTTCTGGGT
26229195 TGTTTTTTTTCTCTTTTTCTGGGT
1 TGTTTTTTTTCTCTTTTTCTGGGT
26229219 TGTT
1 TGTT
26229223 GTTTCTGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.00, C:0.12, G:0.18, T:0.71
Consensus pattern (24 bp):
TGTTTTTTTTCTCTTTTTCTGGGT
Found at i:26229375 original size:25 final size:25
Alignment explanation
Indices: 26229339--26229466 Score: 150
Period size: 25 Copynumber: 5.1 Consensus size: 25
26229329 AAACTTACAC
*
26229339 GGCGATGCAGCAGAGGACTGTCGAT
1 GGCGATGCAGCAGAGGACTATCGAT
*
26229364 GGCGATGTAGCAGAGGACTATCGAT
1 GGCGATGCAGCAGAGGACTATCGAT
* *
26229389 GGCAATGC-GACAGAGGACTTTCGAT
1 GGCGATGCAG-CAGAGGACTATCGAT
** * *
26229414 GATGATGCGGCAGAGGACTATTGAT
1 GGCGATGCAGCAGAGGACTATCGAT
* *
26229439 GGTGATGCAACAGAGGACTATCGAT
1 GGCGATGCAGCAGAGGACTATCGAT
26229464 GGC
1 GGC
26229467 ATTGAAGCAG
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
24 1 0.01
25 84 0.98
26 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.36, T:0.20
Consensus pattern (25 bp):
GGCGATGCAGCAGAGGACTATCGAT
Found at i:26229997 original size:7 final size:7
Alignment explanation
Indices: 26229985--26230011 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
26229975 ACTCTCAAAG
26229985 TTTGCTA
1 TTTGCTA
26229992 TTTGCTA
1 TTTGCTA
26229999 TTTGCTA
1 TTTGCTA
26230006 TTTGCT
1 TTTGCT
26230012 TGGGGATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.15, G:0.15, T:0.59
Consensus pattern (7 bp):
TTTGCTA
Done.