Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 83 of 125
Found at i:25881311 original size:82 final size:81
Alignment explanation
Indices: 25881057--25881318 Score: 357
Period size: 82 Copynumber: 3.2 Consensus size: 81
25881047 TCATGTCTCA
* *
25881057 GAATGAGCATGAAATTATGTTTAAGGAAGACTCGTGACTCGGAATGAGCATGAGATTATGTTTAA
1 GAATGAGCATGAGATTAAGTTTAAGGAAGACTCGTGACTCGGAATGAGCATGAGATTATGTTTAA
*
25881122 GGAAGACTCGTGACTC
66 GGAAGACTTGTGACTC
* * * * *
25881138 GAAATGAGAATGATATTAAGTTTAAGGAAGACTCATGACTCGGAATGAACATGAGGTTATGTTTA
1 G-AATGAGCATGAGATTAAGTTTAAGGAAGACTCGTGACTCGGAATGAGCATGAGATTATGTTTA
25881203 AGGAAGACTTGTGACTC
65 AGGAAGACTTGTGACTC
* *
25881220 AGAATGAGCATGAGATTAAGTTTAAGGAAGACTCGTGACTCAGAAAGAGCATGAGATTATGTTTA
1 -GAATGAGCATGAGATTAAGTTTAAGGAAGACTCGTGACTCGGAATGAGCATGAGATTATGTTT-
*
25881285 AAGGTAA-ACTTATGACTC
64 AAGG-AAGACTTGTGACTC
*
25881303 G-ATAGAGCATAAGATT
1 GAAT-GAGCATGAGATT
25881319 GTTTAGAAAG
Statistics
Matches: 160, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
81 3 0.02
82 140 0.88
83 15 0.09
84 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.27
Consensus pattern (81 bp):
GAATGAGCATGAGATTAAGTTTAAGGAAGACTCGTGACTCGGAATGAGCATGAGATTATGTTTAA
GGAAGACTTGTGACTC
Found at i:25881312 original size:41 final size:41
Alignment explanation
Indices: 25881040--25881285 Score: 350
Period size: 41 Copynumber: 6.0 Consensus size: 41
25881030 ATGTGTAAAT
* * *
25881040 GGAAGACTCATGTCTCAGAATGAGCATGAAATTATGTTTAA
1 GGAAGACTCGTGACTCAGAATGAGCATGAGATTATGTTTAA
*
25881081 GGAAGACTCGTGACTCGGAATGAGCATGAGATTATGTTTAA
1 GGAAGACTCGTGACTCAGAATGAGCATGAGATTATGTTTAA
* * *
25881122 GGAAGACTCGTGACTC-GAAATGAGAATGATATTAAGTTTAA
1 GGAAGACTCGTGACTCAG-AATGAGCATGAGATTATGTTTAA
* * * *
25881163 GGAAGACTCATGACTCGGAATGAACATGAGGTTATGTTTAA
1 GGAAGACTCGTGACTCAGAATGAGCATGAGATTATGTTTAA
* *
25881204 GGAAGACTTGTGACTCAGAATGAGCATGAGATTAAGTTTAA
1 GGAAGACTCGTGACTCAGAATGAGCATGAGATTATGTTTAA
*
25881245 GGAAGACTCGTGACTCAGAAAGAGCATGAGATTATGTTTAA
1 GGAAGACTCGTGACTCAGAATGAGCATGAGATTATGTTTAA
25881286 AGGTAAACTT
Statistics
Matches: 181, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 1 0.01
41 179 0.99
42 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (41 bp):
GGAAGACTCGTGACTCAGAATGAGCATGAGATTATGTTTAA
Found at i:25881318 original size:41 final size:40
Alignment explanation
Indices: 25881053--25881318 Score: 277
Period size: 41 Copynumber: 6.5 Consensus size: 40
25881043 AGACTCATGT
* *
25881053 CTCAGAATGAGCATGAAATTATGTTTAAGGAAGACTCGTGA
1 CTCAGAA-GAGCATGAGATTATGTTTAAGGAAGACTTGTGA
* *
25881094 CTCGGAATGAGCATGAGATTATGTTTAAGGAAGACTCGTGA
1 CTCAGAA-GAGCATGAGATTATGTTTAAGGAAGACTTGTGA
* * * **
25881135 CTC-GAAATGAGAATGATATTAAGTTTAAGGAAGACTCATGA
1 CTCAG-AA-GAGCATGAGATTATGTTTAAGGAAGACTTGTGA
* * *
25881176 CTCGGAATGAACATGAGGTTATGTTTAAGGAAGACTTGTGA
1 CTCAGAA-GAGCATGAGATTATGTTTAAGGAAGACTTGTGA
* *
25881217 CTCAGAATGAGCATGAGATTAAGTTTAAGGAAGACTCGTGA
1 CTCAGAA-GAGCATGAGATTATGTTTAAGGAAGACTTGTGA
*
25881258 CTCAGAAAGAGCATGAGATTATGTTTAAAGGTAA-ACTTATGA
1 CTCAG-AAGAGCATGAGATTATGTTT-AAGG-AAGACTTGTGA
*
25881300 CTC-GATAGAGCATAAGATT
1 CTCAGA-AGAGCATGAGATT
25881319 GTTTAGAAAG
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.01
41 177 0.90
42 16 0.08
43 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.27
Consensus pattern (40 bp):
CTCAGAAGAGCATGAGATTATGTTTAAGGAAGACTTGTGA
Found at i:25882467 original size:28 final size:27
Alignment explanation
Indices: 25882388--25882455 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
25882378 GCTTAAGGAG
*
25882388 TATTCTGATTTTGGCTCAAAAGAGCGT
1 TATTCTGATTCTGGCTCAAAAGAGCGT
25882415 TATTCTGATTCTGGCTCAAAAGAGCGT
1 TATTCTGATTCTGGCTCAAAAGAGCGT
*
25882442 TATTCTTATTCTGG
1 TATTCTGATTCTGG
25882456 GCTCGTAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (27 bp):
TATTCTGATTCTGGCTCAAAAGAGCGT
Found at i:25882685 original size:24 final size:24
Alignment explanation
Indices: 25882449--25882677 Score: 334
Period size: 24 Copynumber: 9.6 Consensus size: 24
25882439 CGTTATTCTT
*
25882449 ATTCTGGGCTCGTAAGAGCTAACC
1 ATTCTAGGCTCGTAAGAGCTAACC
*
25882473 ATTCTAGGCTCGTAAGATCTAACC
1 ATTCTAGGCTCGTAAGAGCTAACC
**
25882497 ATTCTAGGCTCGTAAGATTTAACC
1 ATTCTAGGCTCGTAAGAGCTAACC
*
25882521 ATTCTCGGCTC-TAAGAGCTAACC
1 ATTCTAGGCTCGTAAGAGCTAACC
25882544 ATTCTAGGCTCGTAAGAGCTAACC
1 ATTCTAGGCTCGTAAGAGCTAACC
* *
25882568 ATTCTGGGCTCGTAAGAGCTAATC
1 ATTCTAGGCTCGTAAGAGCTAACC
* * *
25882592 ATTTTAGGCTCGTAAAAGCTAATC
1 ATTCTAGGCTCGTAAGAGCTAACC
25882616 ATTCTAGGCTCGTAAGAGCTAACC
1 ATTCTAGGCTCGTAAGAGCTAACC
* *
25882640 GTTTTAGGCTCGTAAGAGCTAACC
1 ATTCTAGGCTCGTAAGAGCTAACC
*
25882664 ATTCTGGGCTCGTA
1 ATTCTAGGCTCGTA
25882678 TGGGCTAAAT
Statistics
Matches: 184, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
23 20 0.11
24 164 0.89
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
ATTCTAGGCTCGTAAGAGCTAACC
Found at i:25886049 original size:4 final size:4
Alignment explanation
Indices: 25886040--25886199 Score: 149
Period size: 4 Copynumber: 39.5 Consensus size: 4
25886030 ATTTTACGAT
* * * * * *
25886040 ATAA ATAA ATAA GTAA GTAA ATAA GTAA ATGA ATAA CTAA GTAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* **
25886088 GTAA ATAA ATAA GCAA ATAA ATAA ATAA ATAA ATAA ATAA ATAAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA
* * * * * * * *
25886137 CTAA CTAA ATAA AGAA ATAA ATAA GTAA TTAA TTAA TTAA CTAAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA
25886186 ATAA ATAA ATAA AT
1 ATAA ATAA ATAA AT
25886200 TATTTTTAAA
Statistics
Matches: 131, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
4 124 0.95
5 7 0.05
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:25886452 original size:22 final size:25
Alignment explanation
Indices: 25886421--25886469 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
25886411 ATTGTTCTAT
25886421 AAAATAAATA-AA-T-ATAATATTGA
1 AAAATAAATACAACTAATAATA-TGA
25886444 AAAAT-AATACAACTAATAATATGA
1 AAAATAAATACAACTAATAATATGA
25886468 AA
1 AA
25886470 TACATATACT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 4 0.17
23 7 0.30
24 6 0.26
25 6 0.26
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (25 bp):
AAAATAAATACAACTAATAATATGA
Found at i:25886896 original size:31 final size:31
Alignment explanation
Indices: 25886861--25886920 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
25886851 TTTGATACTC
*
25886861 AAACTTGACACTTTTTCCTAATTTGGTACCT
1 AAACTTGACACTTTTTCCTAAGTTGGTACCT
* * *
25886892 AAACTTGATATTTTTTCTTAAGTTGGTAC
1 AAACTTGACACTTTTTCCTAAGTTGGTAC
25886921 TTAAGCTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.45
Consensus pattern (31 bp):
AAACTTGACACTTTTTCCTAAGTTGGTACCT
Found at i:25887610 original size:59 final size:57
Alignment explanation
Indices: 25887545--25887656 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
25887535 AAAAAAATGA
* * *
25887545 CAAGTTCAAATACCAAATTTGATCGAAAAAAGTTTAAGTACCAAACTAAGAAAAAGTAT
1 CAAGTTCAAATA-CAAAATTGA-CCAAAAAAATTTAAGTACCAAACTAAGAAAAAGTAT
** * * *
25887604 CAAGTTCAGGTACAAAATTGACCAAAAAAATTTAAGTATCAAATTAGGAAAAA
1 CAAGTTCAAATACAAAATTGACCAAAAAAATTTAAGTACCAAACTAAGAAAAA
25887657 TGTCAAGCTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
57 27 0.60
58 8 0.18
59 10 0.22
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.23
Consensus pattern (57 bp):
CAAGTTCAAATACAAAATTGACCAAAAAAATTTAAGTACCAAACTAAGAAAAAGTAT
Found at i:25888014 original size:19 final size:19
Alignment explanation
Indices: 25887958--25888018 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
25887948 ATTCACGAAA
25887958 AAAATAATTTTTATACTTTTT
1 AAAATAATTTTTAT--TTTTT
* *
25887979 --AATAA-TTTCAATTTTT
1 AAAATAATTTTTATTTTTT
25887995 AAAATAATTTTTATTTTTT
1 AAAATAATTTTTATTTTTT
25888014 AAAAT
1 AAAAT
25888019 TTAAAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 5 0.15
18 9 0.27
19 19 0.58
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
AAAATAATTTTTATTTTTT
Found at i:25891890 original size:132 final size:132
Alignment explanation
Indices: 25891651--25891911 Score: 423
Period size: 132 Copynumber: 2.0 Consensus size: 132
25891641 ATAGGCCTGT
*
25891651 TCACACGAGCTGTGGGTCAAGATGTTAGACTACACGATGCTGCTCACACGAGCTGTGGAGAATTC
1 TCACACGAGCTGTGGGTCAAGATGTTAGACTACACGATGCTGCTCACACGAGCTGTGGAGAATCC
* * * *
25891716 GCAACAAATACCGGATCTCAGCCATCTGTAGGACATCTAAGACCAGCACCCATATAACCTGTAAT
66 GCAACAAATACCGGATCTCAACCATCGGTAGGACATCCAAGACCAACACCCATATAACCTGTAAT
25891781 GC
131 GC
* * *
25891783 TCACACGAGTTGTGGGTCGAGATGTTAGGCTACACGATGCTGCTCACACGAGCTGTGGAGAATCC
1 TCACACGAGCTGTGGGTCAAGATGTTAGACTACACGATGCTGCTCACACGAGCTGTGGAGAATCC
* * *
25891848 GCAACAAATGCCGGATCTCAACCATCGGTGGGACATCCAAGACCAACACTCATATAACCTGTAA
66 GCAACAAATACCGGATCTCAACCATCGGTAGGACATCCAAGACCAACACCCATATAACCTGTAA
25891912 ATCTCGAAAT
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 118 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (132 bp):
TCACACGAGCTGTGGGTCAAGATGTTAGACTACACGATGCTGCTCACACGAGCTGTGGAGAATCC
GCAACAAATACCGGATCTCAACCATCGGTAGGACATCCAAGACCAACACCCATATAACCTGTAAT
GC
Found at i:25898383 original size:13 final size:13
Alignment explanation
Indices: 25898365--25898390 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25898355 GCCTTTGGGA
25898365 TGTTCGCCTTCGT
1 TGTTCGCCTTCGT
25898378 TGTTCGCCTTCGT
1 TGTTCGCCTTCGT
25898391 CATGTGCCTC
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:0.00, C:0.31, G:0.23, T:0.46
Consensus pattern (13 bp):
TGTTCGCCTTCGT
Found at i:25898517 original size:24 final size:24
Alignment explanation
Indices: 25898483--25898536 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
25898473 GTTCCTCCAT
*
25898483 AGTCTGTTCGAAAATTTTTGTTAG
1 AGTCTGCTCGAAAATTTTTGTTAG
*
25898507 AGTCTGCTCGAGAATTTTTGTTAG
1 AGTCTGCTCGAAAATTTTTGTTAG
*
25898531 ACTCTG
1 AGTCTG
25898537 ATCCTTCTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (24 bp):
AGTCTGCTCGAAAATTTTTGTTAG
Found at i:25900770 original size:111 final size:112
Alignment explanation
Indices: 25900608--25900815 Score: 321
Period size: 111 Copynumber: 1.8 Consensus size: 112
25900598 TCCTCTCACC
*
25900608 GTTTTGATTTTTTTATTTTTAAATCAATCATTTATATTTATTTACTTATATATTAACTATTAACT
1 GTTTTGATTCTTTTATTTTTAAATC-A-CATTTATATTTATTTACTTATATATTAACTATTAACT
* * *
25900673 TGTTTAGTTTATGTATTAAATATATATATATATATATGTATCCTATCATT
64 TATTTAGTTTATATATT-AATATACATATATATATATGTATCCTATCATT
*
25900723 GTTTTGATTCTTTTATTTTT-AATC-CTTTTATATTTATTTACTTATATATTAACTATTAACTTA
1 GTTTTGATTCTTTTATTTTTAAATCACATTTATATTTATTTACTTATATATTAACTATTAACTTA
*
25900786 TTTAGTTTATATATTAATATGCATATATAT
66 TTTAGTTTATATATTAATATACATATATAT
25900816 TATTATTCGT
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
110 13 0.15
111 51 0.59
114 4 0.05
115 19 0.22
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (112 bp):
GTTTTGATTCTTTTATTTTTAAATCACATTTATATTTATTTACTTATATATTAACTATTAACTTA
TTTAGTTTATATATTAATATACATATATATATATGTATCCTATCATT
Found at i:25902525 original size:20 final size:19
Alignment explanation
Indices: 25902488--25902533 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
25902478 GTCTCTCAAT
* *
25902488 AAAAATTTTTTAAAAATTC
1 AAAAAATTTTAAAAAATTC
*
25902507 AAAAAATTTTAAAATAATTT
1 AAAAAATTTTAAAA-AATTC
25902527 AAAAAAT
1 AAAAAAT
25902534 CCAAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAAATTTTAAAAAATTC
Found at i:25902528 original size:28 final size:28
Alignment explanation
Indices: 25902496--25902558 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
25902486 ATAAAAATTT
*
25902496 TTTAAAAATTCAAAAAATTT-TAAAATAA
1 TTTAAAAAATCAAAAAATTTATAAAA-AA
* *
25902524 TTTAAAAAATCCAAATATTTATAAAAAA
1 TTTAAAAAATCAAAAAATTTATAAAAAA
*
25902552 TCTAAAA
1 TTTAAAA
25902559 TTTATATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (28 bp):
TTTAAAAAATCAAAAAATTTATAAAAAA
Found at i:25902539 original size:18 final size:19
Alignment explanation
Indices: 25902518--25902553 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25902508 AAAAATTTTA
25902518 AAATAATT-TAAAAAATCC
1 AAATAATTATAAAAAATCC
*
25902536 AAATATTTATAAAAAATC
1 AAATAATTATAAAAAATC
25902554 TAAAATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATAATTATAAAAAATCC
Found at i:25902561 original size:18 final size:19
Alignment explanation
Indices: 25902526--25902564 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
25902516 TAAAATAATT
25902526 TAAAAAATCCAAATATTTA
1 TAAAAAATCCAAATATTTA
*
25902545 TAAAAAATCTAAA-ATTTA
1 TAAAAAATCCAAATATTTA
25902563 TA
1 TA
25902565 TATATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAAATCCAAATATTTA
Found at i:25902566 original size:20 final size:19
Alignment explanation
Indices: 25902517--25902564 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
25902507 AAAAAATTTT
*
25902517 AAAATAATT-TAAAAAATC
1 AAAATATTTATAAAAAATC
*
25902535 CAAATATTTATAAAAAATC
1 AAAATATTTATAAAAAATC
*
25902554 TAAA-ATTTATA
1 AAAATATTTATA
25902565 TATATTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATATTTATAAAAAATC
Found at i:25902575 original size:16 final size:16
Alignment explanation
Indices: 25902554--25902590 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
25902544 ATAAAAAATC
* *
25902554 TAAAATTTATATATAT
1 TAAAATATATATATAA
25902570 TAAAATATATATATAA
1 TAAAATATATATATAA
25902586 TAAAA
1 TAAAA
25902591 AAATTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAAATATATATATAA
Found at i:25902847 original size:24 final size:22
Alignment explanation
Indices: 25902808--25902854 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
25902798 TTGACATGTT
*
25902808 TAATTTTTTAATTTAATTTAAA
1 TAATTTTTTAATTTAATTCAAA
25902830 TAATTTTATTGAATTTAATTCAAA
1 TAATTTT-TT-AATTTAATTCAAA
25902854 T
1 T
25902855 CTAATCGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.32
23 2 0.09
24 13 0.59
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TAATTTTTTAATTTAATTCAAA
Found at i:25906919 original size:88 final size:84
Alignment explanation
Indices: 25906787--25906960 Score: 312
Period size: 84 Copynumber: 2.0 Consensus size: 84
25906777 GAATGCTTGC
25906787 ATCATATTTGAGCTTCATATATGTCCTATATTCTATCCCTTTTTTTTTTTTATTAAGGTTCAACT
1 ATCATATTTGAGCTTCATATATGTCCTATATTCTATCCC----TTTTTTTTATTAAGGTTCAACT
25906852 GTCAAGTTTTTTTTTTTACTGTA
62 GTCAAGTTTTTTTTTTTACTGTA
25906875 ATCATATTTGAGCTTCATATATGTCCTATATTCTATCCCTTTTTTTTATTAAGGTTCAACTGTCA
1 ATCATATTTGAGCTTCATATATGTCCTATATTCTATCCCTTTTTTTTATTAAGGTTCAACTGTCA
25906940 AGTTTTTTTTTTTACTGTA
66 AGTTTTTTTTTTTACTGTA
25906959 AT
1 AT
25906961 TAGGTAAAAT
Statistics
Matches: 86, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
84 47 0.55
88 39 0.45
ACGTcount: A:0.22, C:0.15, G:0.09, T:0.53
Consensus pattern (84 bp):
ATCATATTTGAGCTTCATATATGTCCTATATTCTATCCCTTTTTTTTATTAAGGTTCAACTGTCA
AGTTTTTTTTTTTACTGTA
Found at i:25913649 original size:15 final size:15
Alignment explanation
Indices: 25913629--25913666 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
25913619 GCACATCAAA
*
25913629 CAAGAATTACTATAT
1 CAAGAATTACTAAAT
25913644 CAAGAA-TACTAAAT
1 CAAGAATTACTAAAT
25913658 CAAGAATTA
1 CAAGAATTA
25913667 AGCACACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (15 bp):
CAAGAATTACTAAAT
Found at i:25914074 original size:25 final size:23
Alignment explanation
Indices: 25914046--25914091 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
25914036 GTTGGATCCA
25914046 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAA-TCTAAAAA-ATAATTTG
*
25914071 AATTAAATCTAAATAATAATT
1 AATTAAATCTAAAAAATAATT
25914092 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTTG
Found at i:25914178 original size:13 final size:13
Alignment explanation
Indices: 25914157--25914190 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
25914147 ACAATATAAT
25914157 AATAATAATCCTA
1 AATAATAATCCTA
*
25914170 AATATTAATCCTA
1 AATAATAATCCTA
*
25914183 AAAAATAA
1 AATAATAA
25914191 AGTTTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:25915141 original size:25 final size:23
Alignment explanation
Indices: 25915112--25915175 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
25915102 ACACTTTGTC
*
25915112 TTTTTCTTTCTTTCTTTTTCTCAAT
1 TTTTTCATTCTTT-TTTTT-TCAAT
*
25915137 TTTTTAATTCTTTTTTTTTCAAT
1 TTTTTCATTCTTTTTTTTTCAAT
25915160 TTTTTCGATT-TTTTTT
1 TTTTTC-ATTCTTTTTT
25915176 CTTTTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 16 0.46
24 8 0.23
25 11 0.31
ACGTcount: A:0.11, C:0.12, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTCATTCTTTTTTTTTCAAT
Found at i:25915163 original size:23 final size:25
Alignment explanation
Indices: 25915119--25915164 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
25915109 GTCTTTTTCT
25915119 TTCTTTCTTTTTCTCAATTTTTTAA
1 TTCTTTCTTTTTCTCAATTTTTTAA
25915144 TTCTTT-TTTTT-TCAATTTTTT
1 TTCTTTCTTTTTCTCAATTTTTT
25915165 CGATTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 10 0.48
24 5 0.24
25 6 0.29
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (25 bp):
TTCTTTCTTTTTCTCAATTTTTTAA
Found at i:25916111 original size:12 final size:11
Alignment explanation
Indices: 25916094--25916163 Score: 72
Period size: 12 Copynumber: 6.2 Consensus size: 11
25916084 GTACATAATT
25916094 AAAATAAAATTA
1 AAAATAAAA-TA
25916106 AAAATAAAAT-
1 AAAATAAAATA
*
25916116 AGAATAAAATA
1 AAAATAAAATA
25916127 AAAACTGAAAATA
1 AAAA-T-AAAATA
*
25916140 AAAATGAAAATG
1 AAAAT-AAAATA
25916152 AAAAT-AAATA
1 AAAATAAAATA
25916162 AA
1 AA
25916164 CTAATTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
10 15 0.29
11 4 0.08
12 22 0.43
13 10 0.20
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:25916113 original size:6 final size:6
Alignment explanation
Indices: 25916094--25916159 Score: 57
Period size: 6 Copynumber: 11.3 Consensus size: 6
25916084 GTACATAATT
* * *
25916094 AAAATA AAATTA AAAAT- AAAAT- AGAAT- AAAATA AAAACTG AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA-TA AAAATA
* *
25916140 AAAATG AAAATG AAAATA AA
1 AAAATA AAAATA AAAATA AA
25916160 TAAACTAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
5 13 0.26
6 32 0.64
7 5 0.10
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:25916130 original size:22 final size:23
Alignment explanation
Indices: 25916096--25916139 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
25916086 ACATAATTAA
*
25916096 AATAAAATTAAAAAT-AAAATAG
1 AATAAAATAAAAAATGAAAATAG
*
25916118 AATAAAATAAAAACTGAAAATA
1 AATAAAATAAAAAATGAAAATA
25916140 AAAATGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (23 bp):
AATAAAATAAAAAATGAAAATAG
Found at i:25916141 original size:18 final size:17
Alignment explanation
Indices: 25916094--25916159 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 17
25916084 GTACATAATT
25916094 AAAATAAAATTAAAAAT-
1 AAAATAAAA-TAAAAATG
* *
25916111 AAAATAGAAT-AAAATA
1 AAAATAAAATAAAAATG
25916127 AAAACTGAAAATAAAAATG
1 AAAA-T-AAAATAAAAATG
25916146 AAAATGAAAATAAA
1 AAAAT-AAAATAAA
25916160 TAAACTAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
15 5 0.12
16 5 0.12
17 9 0.21
18 14 0.33
19 9 0.21
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAATAAAATAAAAATG
Found at i:25916206 original size:21 final size:21
Alignment explanation
Indices: 25916182--25916221 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25916172 TTTTTTGAAC
25916182 TTTTCAATTTTTTTCAAAATT
1 TTTTCAATTTTTTTCAAAATT
** *
25916203 TTTTTTATTTTTTTTAAAA
1 TTTTCAATTTTTTTCAAAA
25916222 ACATGAAAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTCAATTTTTTTCAAAATT
Found at i:25917865 original size:15 final size:15
Alignment explanation
Indices: 25917845--25917883 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
25917835 GCACATCAAA
*
25917845 CAAGAATTAATATAT
1 CAAGAATTAATAAAT
*
25917860 CAAGAA-TACTAAAT
1 CAAGAATTAATAAAT
25917874 CAAGAATTAA
1 CAAGAATTAA
25917884 GCACATAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (15 bp):
CAAGAATTAATAAAT
Found at i:25918261 original size:24 final size:23
Alignment explanation
Indices: 25918234--25918278 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
25918224 GTTGGATCCA
25918234 AATTAAATCTAAAAAGATAATTTG
1 AATTAAATCTAAAAA-ATAATTTG
*
25918258 AATTAAATCTAAATAATAATT
1 AATTAAATCTAAAAAATAATT
25918279 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTTG
Found at i:25920268 original size:5 final size:5
Alignment explanation
Indices: 25920258--25920327 Score: 61
Period size: 5 Copynumber: 12.8 Consensus size: 5
25920248 AGTACATAAT
*
25920258 TAAAA TAAAA TTAAAAA TAAAA TAGAA TAAAA TAAAA CTGAAAA TAAAAA
1 TAAAA TAAAA -T-AAAA TAAAA TAAAA TAAAA TAAAA -T-AAAA T-AAAA
25920308 TGAAAA TGAAAA T-AAA TAAA
1 T-AAAA T-AAAA TAAAA TAAA
25920328 CTAATTTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
4 4 0.07
5 24 0.43
6 20 0.36
7 8 0.14
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:25920276 original size:12 final size:11
Alignment explanation
Indices: 25920259--25920327 Score: 70
Period size: 12 Copynumber: 6.2 Consensus size: 11
25920249 GTACATAATT
25920259 AAAATAAAATTA
1 AAAATAAAA-TA
25920271 AAAATAAAAT-
1 AAAATAAAATA
*
25920281 AGAATAAAATA
1 AAAATAAAATA
*
25920292 AAACTGAAAATA
1 AAAAT-AAAATA
*
25920304 AAAATGAAAATG
1 AAAAT-AAAATA
25920316 AAAAT-AAATA
1 AAAATAAAATA
25920326 AA
1 AA
25920328 CTAATTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
10 15 0.31
11 4 0.08
12 30 0.61
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:25920278 original size:6 final size:6
Alignment explanation
Indices: 25920259--25920323 Score: 55
Period size: 6 Copynumber: 11.3 Consensus size: 6
25920249 GTACATAATT
* * * *
25920259 AAAATA AAATTA AAAAT- AAAAT- AGAAT- AAAATA AAACTG AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
25920304 AAAATG AAAATG AAAATA AA
1 AAAATA AAAATA AAAATA AA
25920324 TAAACTAATT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
5 13 0.27
6 35 0.73
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:25920286 original size:22 final size:22
Alignment explanation
Indices: 25920261--25920303 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25920251 ACATAATTAA
25920261 AATAAAATTAAAAAT-AAAATAG
1 AATAAAA-TAAAAATGAAAATAG
*
25920283 AATAAAATAAAACTGAAAATA
1 AATAAAATAAAAATGAAAATA
25920304 AAAATGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (22 bp):
AATAAAATAAAAATGAAAATAG
Found at i:25920368 original size:20 final size:20
Alignment explanation
Indices: 25920330--25920368 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25920320 TAAATAAACT
** *
25920330 AATTTTTTTTTGAACTTTTC
1 AATTTTTTTTCAAAATTTTC
25920350 AATTTTTTTTCAAAATTTT
1 AATTTTTTTTCAAAATTTT
25920369 TTTTTTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.64
Consensus pattern (20 bp):
AATTTTTTTTCAAAATTTTC
Found at i:25923444 original size:15 final size:15
Alignment explanation
Indices: 25923424--25923462 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
25923414 GCACATCAAA
*
25923424 CAAGAATTAATATAT
1 CAAGAATTAATAAAT
*
25923439 CAAGAA-TACTAAAT
1 CAAGAATTAATAAAT
25923453 CAAGAATTAA
1 CAAGAATTAA
25923463 GCACACATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (15 bp):
CAAGAATTAATAAAT
Found at i:25923869 original size:25 final size:23
Alignment explanation
Indices: 25923841--25923886 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
25923831 GTTGGATCCA
25923841 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAA-TCTAAAAA-ATAATTTG
*
25923866 AATTAAATCTAAATAATAATT
1 AATTAAATCTAAAAAATAATT
25923887 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTTG
Found at i:25923973 original size:13 final size:13
Alignment explanation
Indices: 25923952--25923985 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
25923942 ACAATATAAT
25923952 AATAATAATCCTA
1 AATAATAATCCTA
*
25923965 AATATTAATCCTA
1 AATAATAATCCTA
*
25923978 AAAAATAA
1 AATAATAA
25923986 AGTTTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:25927477 original size:18 final size:18
Alignment explanation
Indices: 25927450--25927498 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
25927440 TTTTAAATCA
*
25927450 ATAAATTTAATTAAAAA-
1 ATAAAATTAATTAAAAAG
25927467 ATAGAAATTAA-TAAAAAG
1 ATA-AAATTAATTAAAAAG
25927485 ATAAAA-TAATTAAA
1 ATAAAATTAATTAAA
25927499 GGATAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 3 0.11
17 16 0.57
18 9 0.32
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
ATAAAATTAATTAAAAAG
Found at i:25927494 original size:16 final size:17
Alignment explanation
Indices: 25927450--25927505 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 17
25927440 TTTTAAATCA
*
25927450 ATAAATTTAATTAAAAA-
1 ATAAAATTAA-TAAAAAG
25927467 ATAGAAATTAATAAAAAG
1 ATA-AAATTAATAAAAAG
* *
25927485 ATAAAA-TAATTAAAGG
1 ATAAAATTAATAAAAAG
25927501 ATAAA
1 ATAAA
25927506 TTATATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 13 0.38
17 12 0.35
18 9 0.26
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (17 bp):
ATAAAATTAATAAAAAG
Found at i:25927535 original size:14 final size:16
Alignment explanation
Indices: 25927504--25927535 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
25927494 TTAAAGGATA
25927504 AATTATATTTTAAATT
1 AATTATATTTTAAATT
25927520 AATTA-ATTTT-AATT
1 AATTATATTTTAAATT
25927534 AA
1 AA
25927536 ATAAAAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 5 0.31
16 5 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTATATTTTAAATT
Found at i:25933384 original size:14 final size:14
Alignment explanation
Indices: 25933365--25933393 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25933355 CAAGTTATAT
25933365 ATCTGATGAAGAAA
1 ATCTGATGAAGAAA
25933379 ATCTGATGAAGAAA
1 ATCTGATGAAGAAA
25933393 A
1 A
25933394 CTCTTCAATA
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:0.52, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
ATCTGATGAAGAAA
Found at i:25940067 original size:16 final size:17
Alignment explanation
Indices: 25940046--25940078 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25940036 TTTCATGAAA
25940046 TTTATA-TTTTTAAAAT
1 TTTATAGTTTTTAAAAT
*
25940062 TTTATAGTTTTTTAAAT
1 TTTATAGTTTTTAAAAT
25940079 AATTTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTATAGTTTTTAAAAT
Found at i:25940414 original size:114 final size:114
Alignment explanation
Indices: 25940206--25940441 Score: 436
Period size: 114 Copynumber: 2.1 Consensus size: 114
25940196 AATTTAATCC
25940206 TTATAATACACAAAATATTTAACCCATAAAAGAATAAAGAGAGTGGCAAGTTGGCCCATACACAT
1 TTATAATACACAAAATATTTAACCCATAAAAGAATAAAGAGAGTGGCAAGTTGGCCCATACACAT
*
25940271 GACATTGACTCCCACCTTACTTAATTTAAGAGGTTGAGATGATTATTTT
66 GACATTGACTCCCACCTTACTTAACTTAAGAGGTTGAGATGATTATTTT
* *
25940320 TTATGATACACAAAATATTTAACCCATAAAAGAATAAAGAGAGTGGCAAGTTGGCCGATACACAT
1 TTATAATACACAAAATATTTAACCCATAAAAGAATAAAGAGAGTGGCAAGTTGGCCCATACACAT
25940385 GACATTGACTCCCACCTTACTTAACTTAAGAGGTTGAGATGATTATTTT
66 GACATTGACTCCCACCTTACTTAACTTAAGAGGTTGAGATGATTATTTT
*
25940434 TTAAAATA
1 TTATAATA
25940442 AAATTTATTT
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 117 1.00
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (114 bp):
TTATAATACACAAAATATTTAACCCATAAAAGAATAAAGAGAGTGGCAAGTTGGCCCATACACAT
GACATTGACTCCCACCTTACTTAACTTAAGAGGTTGAGATGATTATTTT
Found at i:25940474 original size:6 final size:6
Alignment explanation
Indices: 25940463--25940492 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
25940453 AAGATTGATG
25940463 AATAAA AATAAA AATAAA AATAAA AA-AAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA A
25940493 TATTAAGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AATAAA
Found at i:25940788 original size:39 final size:35
Alignment explanation
Indices: 25940745--25940841 Score: 105
Period size: 31 Copynumber: 2.8 Consensus size: 35
25940735 CAGGATCCGG
25940745 TTTTTTAAAATGAATAATAATGATAAATTATATTTTAA
1 TTTTTTAAAAT-AATAATAAT-ATAAATTATA-TTTAA
*
25940783 CTTTTTAAAA-AATAATAA-A-AAATT-TATTTAA
1 TTTTTTAAAATAATAATAATATAAATTATATTTAA
* *
25940814 TTTTTAAAAATTATAA-AATATAAATTAT
1 TTTTTTAAAATAATAATAATATAAATTAT
25940842 TAAATTAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
31 15 0.29
32 7 0.14
33 10 0.20
34 2 0.04
36 8 0.16
38 9 0.18
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (35 bp):
TTTTTTAAAATAATAATAATATAAATTATATTTAA
Found at i:25940829 original size:29 final size:33
Alignment explanation
Indices: 25940746--25940831 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 33
25940736 AGGATCCGGT
25940746 TTTTTAAAATGAATAATAATGATAAATTATATTTTAAC
1 TTTTTAAAA--AATAATAA--A-AAATTATATTTTAAC
25940784 TTTTTAAAAAATAATAAAAAATT-TA-TTTAA-
1 TTTTTAAAAAATAATAAAAAATTATATTTTAAC
*
25940814 TTTTT-AAAAATTATAAAA
1 TTTTTAAAAAATAATAAAA
25940832 TATAAATTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
29 12 0.26
30 5 0.11
31 5 0.11
32 2 0.04
33 5 0.11
34 1 0.02
36 8 0.17
38 9 0.19
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (33 bp):
TTTTTAAAAAATAATAAAAAATTATATTTTAAC
Found at i:25952664 original size:39 final size:39
Alignment explanation
Indices: 25952610--25952704 Score: 154
Period size: 39 Copynumber: 2.4 Consensus size: 39
25952600 TAAGGACAAG
* * *
25952610 AAGAAGAAGAAGAAGAATCATGACGAGGGTGAGCGTCCA
1 AAGAAAAAGAAGAAGAATCATGACGAAGGTGAACGTCCA
25952649 AAGAAAAAGAAGAAGAATCATGACGAAGGTGAACGTCCA
1 AAGAAAAAGAAGAAGAATCATGACGAAGGTGAACGTCCA
*
25952688 AAGAAAAAAAAGAAGAA
1 AAGAAAAAGAAGAAGAA
25952705 AACTAAAGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.54, C:0.11, G:0.27, T:0.08
Consensus pattern (39 bp):
AAGAAAAAGAAGAAGAATCATGACGAAGGTGAACGTCCA
Found at i:25956049 original size:11 final size:11
Alignment explanation
Indices: 25956033--25956057 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25956023 TTTAAATGGT
25956033 TAAAAATGTTA
1 TAAAAATGTTA
25956044 TAAAAATGTTA
1 TAAAAATGTTA
25956055 TAA
1 TAA
25956058 GTATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (11 bp):
TAAAAATGTTA
Found at i:25958984 original size:18 final size:18
Alignment explanation
Indices: 25958939--25958977 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
25958929 GATTCTCGGA
* *
25958939 GTACTCACATACCCTGTT
1 GTACTCATATACCATGTT
25958957 GTACTCATATACCATGTT
1 GTACTCATATACCATGTT
25958975 GTA
1 GTA
25958978 ACTATATTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.36
Consensus pattern (18 bp):
GTACTCATATACCATGTT
Found at i:25961051 original size:34 final size:34
Alignment explanation
Indices: 25961008--25961073 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
25960998 CCAGCGATAG
25961008 TATTGTAGGATTATACGTGTAAATCTAATTTTAC
1 TATTGTAGGATTATACGTGTAAATCTAATTTTAC
25961042 TATTGTAGGATTATACGTGTAAATCTAATTTT
1 TATTGTAGGATTATACGTGTAAATCTAATTTT
25961074 GGAAATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (34 bp):
TATTGTAGGATTATACGTGTAAATCTAATTTTAC
Found at i:25962055 original size:29 final size:29
Alignment explanation
Indices: 25961982--25962055 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 29
25961972 TTTGCATGTT
* * *
25961982 ACAGTTCACACATAAACAAATCGTATATA
1 ACAGTTCACATATAATCAAATCGTATACA
*
25962011 ACAGTTCACATATAATCAATTCGTATACA
1 ACAGTTCACATATAATCAAATCGTATACA
*
25962040 ATAGTTCACATATAAT
1 ACAGTTCACATATAAT
25962056 AAGTTCAATC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.30
Consensus pattern (29 bp):
ACAGTTCACATATAATCAAATCGTATACA
Found at i:25962062 original size:15 final size:15
Alignment explanation
Indices: 25962013--25962062 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
25962003 CGTATATAAC
25962013 AGTTCACATATAATCA
1 AGTTCACATATAAT-A
** *
25962029 A-TTCGTATACAAT-
1 AGTTCACATATAATA
25962042 AGTTCACATATAATA
1 AGTTCACATATAATA
25962057 AGTTCA
1 AGTTCA
25962063 ATCTAGTGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
13 1 0.04
14 9 0.35
15 15 0.58
16 1 0.04
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (15 bp):
AGTTCACATATAATA
Found at i:25962901 original size:21 final size:22
Alignment explanation
Indices: 25962877--25962918 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
25962867 TCACAACATC
*
25962877 TAAAAGGGTTTGCATA-GCATA
1 TAAAAGAGTTTGCATATGCATA
25962898 TAAAAGAGTTTGCATATGCAT
1 TAAAAGAGTTTGCATATGCAT
25962919 GTAACTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (22 bp):
TAAAAGAGTTTGCATATGCATA
Found at i:25968930 original size:22 final size:22
Alignment explanation
Indices: 25968886--25968929 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
25968876 AATTGTTTTC
25968886 ATTCAATAATATTATTTTTAAA
1 ATTCAATAATATTATTTTTAAA
25968908 ATTCGAAT-ATATT-TTTTTAAA
1 ATTC-AATAATATTATTTTTAAA
25968929 A
1 A
25968930 AAATATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.43
22 9 0.43
23 3 0.14
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTCAATAATATTATTTTTAAA
Found at i:25971799 original size:29 final size:31
Alignment explanation
Indices: 25971746--25971849 Score: 81
Period size: 31 Copynumber: 3.4 Consensus size: 31
25971736 TTATGTGTCA
* *
25971746 ATTTTGTAAAATT-TGAGAGTTAAATTTATTG
1 ATTTTTTAGAATTATGA-AGTTAAATTTATTG
* **
25971777 ATTTTTTAGAATTAT-AAG-TAAATTGATAA
1 ATTTTTTAGAATTATGAAGTTAAATTTATTG
* * * *
25971806 ATTTTATA-AATTTTGAGGTTAATTTTATTG
1 ATTTTTTAGAATTATGAAGTTAAATTTATTG
25971836 AATTTTTTAGAATT
1 -ATTTTTTAGAATT
25971850 CGAACTAAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
28 5 0.09
29 17 0.31
30 9 0.16
31 19 0.35
32 5 0.09
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (31 bp):
ATTTTTTAGAATTATGAAGTTAAATTTATTG
Found at i:25972442 original size:88 final size:88
Alignment explanation
Indices: 25972293--25972466 Score: 305
Period size: 88 Copynumber: 2.0 Consensus size: 88
25972283 ACCAGCAGTC
*
25972293 TTAATCGTGAGGTGTTAGGCAAGCTAAAGGTTCTAGGTTTAAACCCCTTGATTACACTTATTTAT
1 TTAATCGTAAGGTGTTAGGCAAGCTAAAGGTTCTAGGTTTAAACCCCTTGATTACACTTATTTAT
25972358 TGAT-TTTTTCGAACGGAAAATTG
66 TGATATTTTT-GAACGGAAAATTG
* *
25972381 TTAATGGTAAGGTGTTAGGCAAGCTAAAGGTTCTAGGTTTAAACCTCTTGATTACACTTATTTAT
1 TTAATCGTAAGGTGTTAGGCAAGCTAAAGGTTCTAGGTTTAAACCCCTTGATTACACTTATTTAT
25972446 TGATATTTTTGAACGGAAAAT
66 TGATATTTTTGAACGGAAAAT
25972467 GATTAAAGAA
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
88 77 0.94
89 5 0.06
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (88 bp):
TTAATCGTAAGGTGTTAGGCAAGCTAAAGGTTCTAGGTTTAAACCCCTTGATTACACTTATTTAT
TGATATTTTTGAACGGAAAATTG
Found at i:25974511 original size:30 final size:29
Alignment explanation
Indices: 25974468--25974798 Score: 312
Period size: 29 Copynumber: 11.3 Consensus size: 29
25974458 GAGAATGCGA
25974468 GGTTAAAATGTAATTTTAGAAAAGTTTAGG
1 GGTTAAAATGTAATTTTAGAAAAGTTT-GG
* *
25974498 GGTAAAAAAGTAATTTT-GAGAAAGTTTGG
1 GGTTAAAATGTAATTTTAGA-AAAGTTTGG
* * * *
25974527 GGTTAAATTGTGATTTTGGAGAAGTTTGG
1 GGTTAAAATGTAATTTTAGAAAAGTTTGG
* * * *
25974556 AGTTAAAATGTGATTTCA-AGAAGGTTTAGG
1 GGTTAAAATGTAATTTTAGA-AAAGTTT-GG
* * *
25974586 GGTTAAAATGTGATTTTGGATAAGTTTGAG
1 GGTTAAAATGTAATTTTAGAAAAGTTTG-G
*
25974616 GGTTAAAATGTAATTTTAGAAAAGTTTAG
1 GGTTAAAATGTAATTTTAGAAAAGTTTGG
**
25974645 GGTTAAAATGTAATTTTAGAGAAAG-TTAA
1 GGTTAAAATGTAATTTTAGA-AAAGTTTGG
*
25974674 GGTTAAAATATAATTTTAGAAACA-TTTGTG
1 GGTTAAAATGTAATTTTAGAAA-AGTTTG-G
* *
25974704 GGTCAAAATATAATTTT-GAAAAGTTTAGG
1 GGTTAAAATGTAATTTTAGAAAAGTTT-GG
* * *
25974733 GGTCAAAATGTAATTTCAAAAAAGTTTGG
1 GGTTAAAATGTAATTTTAGAAAAGTTTGG
* * *
25974762 GGTTAAAGTGTAATTTTGGAAAGGTTTGG
1 GGTTAAAATGTAATTTTAGAAAAGTTTGG
*
25974791 GGATAAAA
1 GGTTAAAA
25974799 ATATGATTTT
Statistics
Matches: 250, Mismatches: 38, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
28 4 0.02
29 145 0.58
30 100 0.40
31 1 0.00
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.36
Consensus pattern (29 bp):
GGTTAAAATGTAATTTTAGAAAAGTTTGG
Found at i:25974531 original size:59 final size:57
Alignment explanation
Indices: 25974468--25974800 Score: 301
Period size: 59 Copynumber: 5.7 Consensus size: 57
25974458 GAGAATGCGA
* *
25974468 GGTTAAAATGTAATTTTAGAAAAGTTTAGGGGTAAAAAAGTAATTTTGAGAAAGTTTGG
1 GGTTAAAATGTAATTTTGGAAAAGTTT-GGGGTAAAAATGTAATTTT-AGAAAGTTTGG
* * * * * * * *
25974527 GGTTAAATTGTGATTTTGGAGAAGTTTGGAGTTAAAATGTGATTTCAAGAAGGTTTAGG
1 GGTTAAAATGTAATTTTGGAAAAGTTTGGGGTAAAAATGTAATTT-TAGAAAGTTT-GG
* * * *
25974586 GGTTAAAATGTGATTTTGGATAAGTTTGAGGGTTAAAATGTAATTTTAGAAAAGTTTAG
1 GGTTAAAATGTAATTTTGGAAAAGTTTG-GGGTAAAAATGTAATTTTAG-AAAGTTTGG
* ** * * *
25974645 GGTTAAAATGTAATTTTAGAGAAAG-TTAAGGTTAAAATATAATTTTAGAAACATTTGTG
1 GGTTAAAATGTAATTTTGGA-AAAGTTTGGGGTAAAAATGTAATTTTAGAAA-GTTTG-G
* * * * *
25974704 GGTCAAAATATAATTTT-GAAAAGTTTAGGGGTCAAAATGTAATTTCAAAAAAGTTTGG
1 GGTTAAAATGTAATTTTGGAAAAGTTT-GGGGTAAAAATGTAATTT-TAGAAAGTTTGG
* *
25974762 GGTTAAAGTGTAATTTTGGAAAGGTTTGGGGATAAAAAT
1 GGTTAAAATGTAATTTTGGAAAAGTTTGGGG-TAAAAAT
25974801 ATGATTTTGG
Statistics
Matches: 223, Mismatches: 39, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
57 7 0.03
58 66 0.30
59 122 0.55
60 28 0.13
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.36
Consensus pattern (57 bp):
GGTTAAAATGTAATTTTGGAAAAGTTTGGGGTAAAAATGTAATTTTAGAAAGTTTGG
Found at i:25974562 original size:88 final size:90
Alignment explanation
Indices: 25974468--25974814 Score: 313
Period size: 88 Copynumber: 3.9 Consensus size: 90
25974458 GAGAATGCGA
*
25974468 GGTTAAAATGTAATTTTAGA-AAAGTTTAGGGGTAAAAAAGTAATTTTGAGAAA-GTTTG-GGGT
1 GGTTAAAATGTAATTTCAGAGAAAGTTTAGGGGTAAAAAAGTAATTTTG-GAAACGTTTGAGGGT
* * * *
25974530 TAAATTGTGATTTTGGAGAAGTTT-G
65 TAAAATATAATTTTGGAAAAGTTTAG
* * * * *
25974555 GAGTTAAAATGTGATTTCA-AGAAGGTTTAGGGGTTAAAATGTGATTTTGGATAA-GTTTGAGGG
1 G-GTTAAAATGTAATTTCAGAGAAAGTTTAGGGGTAAAAAAGTAATTTTGGA-AACGTTTGAGGG
* *
25974618 TTAAAATGTAATTTTAGAAAAGTTTAG
64 TTAAAATATAATTTTGGAAAAGTTTAG
* * * * * * * *
25974645 GGTTAAAATGTAATTTTAGAGAAAG-TTAAGGTTAAAATA-TAATTTTAGAAACATTTGTGGGTC
1 GGTTAAAATGTAATTTCAGAGAAAGTTTAGGGGTAAAAAAGTAATTTTGGAAACGTTTGAGGGTT
25974708 AAAATATAATTTT-GAAAAGTTTAGG
66 AAAATATAATTTTGGAAAAGTTTA-G
* * * ** *
25974733 GGTCAAAATGTAATTTCA-AAAAAGTTT-GGGGTTAAAGTGTAATTTTGGAAAGGTTTG-GGGAT
1 GGTTAAAATGTAATTTCAGAGAAAGTTTAGGGGTAAAAAAGTAATTTTGGAAACGTTTGAGGG-T
* *
25974795 AAAAATATGATTTTGGAAAA
65 TAAAATATAATTTTGGAAAA
25974815 ATTCGAGGGT
Statistics
Matches: 211, Mismatches: 37, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
87 30 0.14
88 121 0.57
89 53 0.25
90 7 0.03
ACGTcount: A:0.38, C:0.01, G:0.25, T:0.36
Consensus pattern (90 bp):
GGTTAAAATGTAATTTCAGAGAAAGTTTAGGGGTAAAAAAGTAATTTTGGAAACGTTTGAGGGTT
AAAATATAATTTTGGAAAAGTTTAG
Found at i:25974868 original size:30 final size:30
Alignment explanation
Indices: 25974796--25974874 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
25974786 TTTGGGGATA
* *
25974796 AAAATATGATTTTGGAAAAATTCGAGGGTC
1 AAAATATGATTTTGGAAAAATTCGACGATC
* * *
25974826 GAAATGTTATTTT-GAAAAAGTTCGACGATC
1 AAAATATGATTTTGGAAAAA-TTCGACGATC
*
25974856 AAAATCTGATTTTAGGAAA
1 AAAATATGATTTT-GGAAA
25974875 TTCGAGGCCA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
29 6 0.16
30 28 0.74
32 4 0.11
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.32
Consensus pattern (30 bp):
AAAATATGATTTTGGAAAAATTCGACGATC
Found at i:25975788 original size:21 final size:21
Alignment explanation
Indices: 25975745--25975793 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
25975735 TAATCTCCTT
*
25975745 TTTTATTATTTATTACATATA
1 TTTTATTATATATTACATATA
*
25975766 TTTTATTATAT-TTAC-TATT
1 TTTTATTATATATTACATATA
25975785 TATTTATTA
1 T-TTTATTA
25975794 AAACATTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 10 0.40
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTATTATATATTACATATA
Found at i:25977074 original size:85 final size:85
Alignment explanation
Indices: 25976901--25977076 Score: 219
Period size: 85 Copynumber: 2.1 Consensus size: 85
25976891 ATGCTTCATT
* * * * * *
25976901 GATTTGGTTTACTTCTCTGTATCTCATCACGAAGATGACCGTCTCATTGTTTTAATCCACTTCTC
1 GATTTGGTTCACTTCTCTGCATCTCATCACGAAGATGACCGACTCATTGATTCAACCCACTTCTC
*
25976966 TGTATCTCATCAGGAAGACA
66 TGTATCTCATCAAGAAGACA
* * * * *
25976986 GATTTGGTTCACTTCTCTGCATTTCGTCAGGAAGATGACC-ACTTATTGATTCGACCCACTTCTC
1 GATTTGGTTCACTTCTCTGCATCTCATCACGAAGATGACCGACTCATTGATTCAACCCACTTCTC
*
25977050 TGTATCTCATCAAGAAGATGA
66 TGTATCTCATCAAGAAGA-CA
25977071 GATTTG
1 GATTTG
25977077 AAGTCTCATT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
84 35 0.45
85 42 0.55
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (85 bp):
GATTTGGTTCACTTCTCTGCATCTCATCACGAAGATGACCGACTCATTGATTCAACCCACTTCTC
TGTATCTCATCAAGAAGACA
Found at i:25977253 original size:85 final size:86
Alignment explanation
Indices: 25977110--25977284 Score: 208
Period size: 85 Copynumber: 2.0 Consensus size: 86
25977100 GCTTCATTGA
* * * * *
25977110 TTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCCCCTCATTATTTTAATCCACTTATCTG
1 TTTGGTCCACTTCTCTATATCTCATCAAGAAGATAACCCCCTCATTACTTTAACCCACTTATCTG
25977175 TATCTCATCAGGAAGA-CGGG
66 TATCTCATCAGGAAGATCGGG
* * * * * * * *
25977195 TTTGGTCCACTTCTCTGTATCTCATCAAGAAGATAATCTCTTTATTGCTTTGACCCACTTTTCTG
1 TTTGGTCCACTTCTCTATATCTCATCAAGAAGATAACCCCCTCATTACTTTAACCCACTTATCTG
* *
25977260 TATCTCATTAGGAAGATGGGG
66 TATCTCATCAGGAAGATCGGG
25977281 TTTG
1 TTTG
25977285 AAGTTTCACT
Statistics
Matches: 74, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
85 67 0.91
86 7 0.09
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (86 bp):
TTTGGTCCACTTCTCTATATCTCATCAAGAAGATAACCCCCTCATTACTTTAACCCACTTATCTG
TATCTCATCAGGAAGATCGGG
Found at i:25977341 original size:208 final size:207
Alignment explanation
Indices: 25976788--25977398 Score: 810
Period size: 207 Copynumber: 2.9 Consensus size: 207
25976778 CTCTCAATCT
* * *
25976788 ACTTCTCTGTATCTCATTAGGAAGATGACCGCTTTATTGCTTTGACCCACTTCTCTGTACCTCAT
1 ACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCAT
* **
25976853 CAGGAAGATAGGGTTTGAAGTTTCATTCACGTTGAGCTATGCTTCATTGATTTGGTTTACTTCTC
66 CAGGAAGATGGGGTTTGAAGTTTCATTCACACTGAGCT-TGCTTCATTGATTTGGTTTACTTCTC
* ** *
25976918 TGTATCTCATCACGAAGATGACCGTCTCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAG
130 TGTATCTCATCAGGAAGATGACCACCTCATTATTTTAATCCACTTCTCTGTATCTCATCAGGAAG
*
25976983 ACAGATTTGGTTC
195 ACAGATTTGGTCC
* * * * *
25976996 ACTTCTCTGCATTTCGTCAGGAAGATGACCAC-TTATTGATTCGACCCACTTCTCTGTATCTCAT
1 ACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCAT
* * * * ** *
25977060 CAAGAAGATGAGATTTGAAGTCTCATTCGTACTGAGCTTTGCTTCATTGATTTGGTCTACTTCTC
66 CAGGAAGATGGGGTTTGAAGTTTCATTCACACTGAGC-TTGCTTCATTGATTTGGTTTACTTCTC
* * *
25977125 TATATCTCATCAGGAAGATGACCCCCTCATTATTTTAATCCACTTATCTGTATCTCATCAGGAAG
130 TGTATCTCATCAGGAAGATGACCACCTCATTATTTTAATCCACTTCTCTGTATCTCATCAGGAAG
* *
25977190 ACGGGTTTGGTCC
195 ACAGATTTGGTCC
* * * * *
25977203 ACTTCTCTGTATCTCATCAAGAAGATAATCTCTTTATTGCTTTGACCCACTTTTCTGTATCTCAT
1 ACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCAT
* * *
25977268 TAGGAAGATGGGGTTTGAAGTTTCACTCACACTGAGCTTCGCTTCAATGATTTGGTTTACTTCTC
66 CAGGAAGATGGGGTTTGAAGTTTCATTCACACTGAGCTT-GCTTCATTGATTTGGTTTACTTCTC
* * * * * *
25977333 TGTATCTCACCAGGAAGACGACCACTTCATTATTGTGATCCACTTCTCTGTATTTCATCAGGAAG
130 TGTATCTCATCAGGAAGATGACCACCTCATTATTTTAATCCACTTCTCTGTATCTCATCAGGAAG
25977398 A
195 A
25977399 TGATCGCTTT
Statistics
Matches: 344, Mismatches: 56, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
207 178 0.52
208 166 0.48
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (207 bp):
ACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCAT
CAGGAAGATGGGGTTTGAAGTTTCATTCACACTGAGCTTGCTTCATTGATTTGGTTTACTTCTCT
GTATCTCATCAGGAAGATGACCACCTCATTATTTTAATCCACTTCTCTGTATCTCATCAGGAAGA
CAGATTTGGTCC
Found at i:25977493 original size:171 final size:172
Alignment explanation
Indices: 25977200--25977570 Score: 539
Period size: 171 Copynumber: 2.2 Consensus size: 172
25977190 ACGGGTTTGG
* * * * *
25977200 TCCACTTCTCTGTATCTCATCAAGAAGATAATCTCTTTATTGCTTTGACCCACTTTTCTGTATCT
1 TCCACTTCTCTGTATCTCATCAGGAAGATAATCGCTTTATTGCTTCGACCCACTTCTCTATATCT
* * *
25977265 CATTAGGAAGATGGGGTTTGAAGTTTCACTCACACTGAGCTTCGCTTCAATGATTTGGTTTACTT
66 CATCAGGAAGATAGGGTTTGAAGTTTCACTCACACTGAGCTTCGCTTCAATGATTTGGTCTACTT
* *
25977330 CTCTGTATCTCACCAGGAAGACGACCACTTCA-TTATTGTGA
131 CTCTGTATCTCACCAGGAAGACGACCACATCACTTATTGTAA
* * *
25977371 TCCACTTCTCTGTATTTCATCAGGAAGATGATCGCTTTATTGCTTCGACTCACTTCTCTATATCT
1 TCCACTTCTCTGTATCTCATCAGGAAGATAATCGCTTTATTGCTTCGACCCACTTCTCTATATCT
* *
25977436 CATCAGGAAGATAGGGTTTGAAGTTTCACTTACATTGAGCTTCGCTTC-ATCGATTTGGTCTACT
66 CATCAGGAAGATAGGGTTTGAAGTTTCACTCACACTGAGCTTCGCTTCAAT-GATTTGGTCTACT
* * * *
25977500 TCTCTGTATCTCATCAGGAAGATGACCGCATCACTTATTTTAA
130 TCTCTGTATCTCACCAGGAAGACGACCACATCACTTATTGTAA
*
25977543 TCCACTTCTCTATATCTCATCAGGAAGA
1 TCCACTTCTCTGTATCTCATCAGGAAGA
25977571 CGGATTTGAT
Statistics
Matches: 177, Mismatches: 21, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
170 2 0.01
171 142 0.80
172 33 0.19
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (172 bp):
TCCACTTCTCTGTATCTCATCAGGAAGATAATCGCTTTATTGCTTCGACCCACTTCTCTATATCT
CATCAGGAAGATAGGGTTTGAAGTTTCACTCACACTGAGCTTCGCTTCAATGATTTGGTCTACTT
CTCTGTATCTCACCAGGAAGACGACCACATCACTTATTGTAA
Found at i:25977759 original size:210 final size:210
Alignment explanation
Indices: 25977368--25978156 Score: 951
Period size: 210 Copynumber: 3.8 Consensus size: 210
25977358 TTCATTATTG
* * *
25977368 TGATCCACTTCTCTGTATTTCATCAGGAAGATGATCGCTTTATTGCTTCGACTCACTTCTCTA-T
1 TGATCCACTTCTCTGTATCTCATCAGGAAGACGATCGCTTTATTGCTTCGACCCACTTCTC-AGT
* * * *
25977432 ATCTCATCAGGAAGAT-AGGGTTTGAAGTTTCACTTACATTGAGCTTCGCTTCATCGATTTGGTC
65 ATCTCATCAGAAAGATGAGGGTTCGAAGTTTCACTCACATTAAGCTTCGCTTCATCGATTTGGTC
* * * * * *
25977496 TACTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTATTTTAATCCACTTCTCTATATCTC
130 TACTTCTCTGTATCTCATCAAGAAGAAGACCGCATTATTTGTTTTAATCCACTTCTCTGTATCTC
25977561 ATCAGGAAGACGGATT
195 ATCAGGAAGACGGATT
* *
25977577 TGATCCACTTCTCTGTATCTCATCAGGAAGACAATCGCTTTATTGCTTTGACCCACTTCTCAGTA
1 TGATCCACTTCTCTGTATCTCATCAGGAAGACGATCGCTTTATTGCTTCGACCCACTTCTCAGTA
*
25977642 TCTCATCAGAAAGATGGGGGTTCGAAGTTTCACTCACATTAAGCTTCGCTTCATCGATTTGGTCT
66 TCTCATCAGAAAGATGAGGGTTCGAAGTTTCACTCACATTAAGCTTCGCTTCATCGATTTGGTCT
* * * *
25977707 ACTTCTCTATATCTCATTAAGAAGAAGACCGTATTATTTGTTTTAATCCACTTCTCTGTATCTAA
131 ACTTCTCTGTATCTCATCAAGAAGAAGACCGCATTATTTGTTTTAATCCACTTCTCTGTATCTCA
*
25977772 TCAGGAAGATGGATT
196 TCAGGAAGACGGATT
* * * * *
25977787 TGGTCCACTTCTCTATATCTCATCAGGAAGACGGTCGCTTTATTGCTTTGACTCACTTCTCAGTA
1 TGATCCACTTCTCTGTATCTCATCAGGAAGACGATCGCTTTATTGCTTCGACCCACTTCTCAGTA
* * * * *
25977852 TCTCATCA-AGAAGTTGAGGTTTCGAAGTTTCACTCACATTGAGCTTCACTTTATCGATTTGGTC
66 TCTCATCAGA-AAGATGAGGGTTCGAAGTTTCACTCACATTAAGCTTCGCTTCATCGATTTGGTC
* * *
25977916 TACTTCTTTGTATCTCATCAGGAAGATA-ACTGCATTATTTGTTTTAATCCACTTCTCTGTATCT
130 TACTTCTCTGTATCTCATCAAGAAGA-AGACCGCATTATTTGTTTTAATCCACTTCTCTGTATCT
*
25977980 CATCAAGAAGACGGATT
194 CATCAGGAAGACGGATT
* * * * * * * * * *
25977997 TGGTTCATTTCTTTGTATCTCATCAAGAAGATGACCACTTTATTGCTTCGACCCACATCTCTGTA
1 TGATCCACTTCTCTGTATCTCATCAGGAAGACGATCGCTTTATTGCTTCGACCCACTTCTCAGTA
* ** * ** * * * * *
25978062 TCTCATTAGGAAA-ATGCA-TTTTTGAAGTTTCACTCGTATTAAGCTTCTCATCATTGTTTTGGC
66 TCTCATCA-GAAAGATG-AGGGTTCGAAGTTTCACTCACATTAAGCTTCGCTTCATCGATTTGGT
* * * *
25978125 CTGCTTCTTTGTATCTCATTAAGAAGATGACC
129 CTACTTCTCTGTATCTCATCAAGAAGAAGACC
25978157 TTTTTAAGTT
Statistics
Matches: 500, Mismatches: 72, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
208 1 0.00
209 73 0.15
210 421 0.84
211 4 0.01
212 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (210 bp):
TGATCCACTTCTCTGTATCTCATCAGGAAGACGATCGCTTTATTGCTTCGACCCACTTCTCAGTA
TCTCATCAGAAAGATGAGGGTTCGAAGTTTCACTCACATTAAGCTTCGCTTCATCGATTTGGTCT
ACTTCTCTGTATCTCATCAAGAAGAAGACCGCATTATTTGTTTTAATCCACTTCTCTGTATCTCA
TCAGGAAGACGGATT
Found at i:25977940 original size:420 final size:419
Alignment explanation
Indices: 25977371--25978156 Score: 1092
Period size: 420 Copynumber: 1.9 Consensus size: 419
25977361 ATTATTGTGA
* * *
25977371 TCCACTTCTCTGTATTTCATCAGGAAGATGATCGCTTTATTGCTTCGACTCACTTCTCTATATCT
1 TCCACTTCTCTATATCTCATCAGGAAGACGATCGCTTTATTGCTTCGACTCACTTCTCTATATCT
* * *
25977436 CATCAGGAAGATAGGGTTTGAAGTTTCACTTACATTGAGCTTCGCTTCATCGATTTGGTCTACTT
66 CATCAAGAAGATAGGGTTTGAAGTTTCACTCACATTGAGCTTCACTTCATCGATTTGGTCTACTT
* *
25977501 CTCTGTATCTCATCAGGAAGATGACCGCATCACTTATTTTAATCCACTTCTCTATATCTCATCAG
131 CTCTGTATCTCATCAGGAAGATAACCGCATCACTTATTTTAATCCACTTCTCTATATCTCATCAA
* * * *
25977566 GAAGACGGATTTGATCCACTTCTCTGTATCTCATCAGGAAGACAATCGCTTTATTGCTTTGACCC
196 GAAGACGGATTTGATCCACTTCTCTGTATCTCATCAAGAAGACAACCACTTTATTGCTTCGACCC
* ** *
25977631 ACTTCTCAGTATCTCATCA-GAAAGATGGGGGTTCGAAGTTTCACTCACATTAAGCTTCGCTTCA
261 ACATCTCAGTATCTCATCAGGAAA-ATGCAGGTTCGAAGTTTCACTCACATTAAGCTTCGCATCA
*
25977695 TCGATTTGGTCTACTTCTCTATATCTCATTAAGAAGAAGACCGTATTATTTGTTTTAATCCACTT
325 TCGATTTGGCCTACTTCTCTATATCTCATTAAGAAGAAGACCGTATTATTTGTTTTAATCCACTT
25977760 CTCTGTATCTAATCAGGAAGATGGATTTGG
390 CTCTGTATCTAATCAGGAAGATGGATTTGG
* *
25977790 TCCACTTCTCTATATCTCATCAGGAAGACGGTCGCTTTATTGCTTTGACTCACTTCTC-AGTATC
1 TCCACTTCTCTATATCTCATCAGGAAGACGATCGCTTTATTGCTTCGACTCACTTCTCTA-TATC
* *
25977854 TCATCAAGAAG-TTGAGGTTTCGAAGTTTCACTCACATTGAGCTTCACTTTATCGATTTGGTCTA
65 TCATCAAGAAGATAG-GGTTT-GAAGTTTCACTCACATTGAGCTTCACTTCATCGATTTGGTCTA
* * * * * *
25977918 CTTCTTTGTATCTCATCAGGAAGATAACTGCATTATTTGTTTTAATCCACTTCTCTGTATCTCAT
128 CTTCTCTGTATCTCATCAGGAAGATAACCGCATCACTTATTTTAATCCACTTCTCTATATCTCAT
* * * * **
25977983 CAAGAAGACGGATTTGGTTCATTTCTTTGTATCTCATCAAGAAGATGACCACTTTATTGCTTCGA
193 CAAGAAGACGGATTTGATCCACTTCTCTGTATCTCATCAAGAAGACAACCACTTTATTGCTTCGA
* * ** * ** *
25978048 CCCACATCTCTGTATCTCATTAGGAAAATGCATTTTTGAAGTTTCACTCGTATTAAGCTTCTCAT
258 CCCACATCTCAGTATCTCATCAGGAAAATGCAGGTTCGAAGTTTCACTCACATTAAGCTTCGCAT
* * * * * *
25978113 CATTGTTTTGGCCTGCTTCTTTGTATCTCATTAAGAAGATGACC
323 CATCGATTTGGCCTACTTCTCTATATCTCATTAAGAAGAAGACC
25978157 TTTTTAAGTT
Statistics
Matches: 316, Mismatches: 47, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
418 3 0.01
419 72 0.23
420 237 0.75
421 4 0.01
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (419 bp):
TCCACTTCTCTATATCTCATCAGGAAGACGATCGCTTTATTGCTTCGACTCACTTCTCTATATCT
CATCAAGAAGATAGGGTTTGAAGTTTCACTCACATTGAGCTTCACTTCATCGATTTGGTCTACTT
CTCTGTATCTCATCAGGAAGATAACCGCATCACTTATTTTAATCCACTTCTCTATATCTCATCAA
GAAGACGGATTTGATCCACTTCTCTGTATCTCATCAAGAAGACAACCACTTTATTGCTTCGACCC
ACATCTCAGTATCTCATCAGGAAAATGCAGGTTCGAAGTTTCACTCACATTAAGCTTCGCATCAT
CGATTTGGCCTACTTCTCTATATCTCATTAAGAAGAAGACCGTATTATTTGTTTTAATCCACTTC
TCTGTATCTAATCAGGAAGATGGATTTGG
Found at i:25978290 original size:39 final size:39
Alignment explanation
Indices: 25978186--25978359 Score: 194
Period size: 38 Copynumber: 4.4 Consensus size: 39
25978176 CCTGTGGTCT
*
25978186 GGGTAAGAGATTGTATGATAGCTGCAATCTGCCGCATGATC-
1 GGGTAAGAGATTG---GATGGCTGCAATCTGCCGCATGATCG
** *
25978227 GGGTAAGAGATTACATGGCTGCAATCTGTCC-CTTGATCG
1 GGGTAAGAGATTGGATGGCTGCAATCTG-CCGCATGATCG
* *
25978266 GGGTAAGAGATTGGATGG-TCGCAAT-TGCCTCGTGATCG
1 GGGTAAGAGATTGGATGGCT-GCAATCTGCCGCATGATCG
* * *
25978304 GGGTAAAAGATTGGATGGCTGCAATCTGCCCCACGATCG
1 GGGTAAGAGATTGGATGGCTGCAATCTGCCGCATGATCG
25978343 GGGTAAGAGATTGGATG
1 GGGTAAGAGATTGGATG
25978360 ATGATTTAAC
Statistics
Matches: 115, Mismatches: 12, Indels: 14
0.82 0.09 0.10
Matches are distributed among these distances:
37 2 0.02
38 51 0.44
39 50 0.43
41 12 0.10
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (39 bp):
GGGTAAGAGATTGGATGGCTGCAATCTGCCGCATGATCG
Found at i:25978315 original size:77 final size:79
Alignment explanation
Indices: 25978186--25978361 Score: 223
Period size: 77 Copynumber: 2.2 Consensus size: 79
25978176 CCTGTGGTCT
* *
25978186 GGGTAAGAGATTGTATGATAGCTGCAATCTGCCGCATGATCGGGTAAGAGATTACATGGCTGCAA
1 GGGTAAGAGATTGGATGATA-CTGCAATCTGCCGCATGATCGGGTAAAAGATTACATGGCTGCAA
* **
25978251 TCTGTCCCTTGATCG
65 TCTGCCCCACGATCG
* * * **
25978266 GGGTAAGAGATTGGATGGT-C-GCAAT-TGCCTCGTGATCGGGGTAAAAGATTGGATGGCTGCAA
1 GGGTAAGAGATTGGATGATACTGCAATCTGCCGCATGATC-GGGTAAAAGATTACATGGCTGCAA
25978328 TCTGCCCCACGATCG
65 TCTGCCCCACGATCG
25978343 GGGTAAGAGATTGGATGAT
1 GGGTAAGAGATTGGATGAT
25978362 GATTTAACTT
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
76 10 0.12
77 56 0.67
78 1 0.01
80 17 0.20
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (79 bp):
GGGTAAGAGATTGGATGATACTGCAATCTGCCGCATGATCGGGTAAAAGATTACATGGCTGCAAT
CTGCCCCACGATCG
Found at i:25978940 original size:50 final size:49
Alignment explanation
Indices: 25978596--25978941 Score: 277
Period size: 50 Copynumber: 7.0 Consensus size: 49
25978586 GTCATGTTCT
* * * * *
25978596 TAAGGTATCAGGTTCGCCGTTACGGCCTCAACCTTTCCCATCACAT-TTC
1 TAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTT-CCTTCACATCTTC
* * * * * * * *
25978645 -ATGGTATCAGATTCATCGTTGTGGCCTCAATCTTTCCTATCACGTCTTC
1 TAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCT-TCACATCTTC
* ** * * * *
25978694 TAAGGTATCGGGTTCACCGTTGTAGCCTCAACTTTTTTCGTCAAATCTTC
1 TAAGGTACCGGGTTCACCGTTGCGGCCTCAAC-CTTTCCTTCACATCTTC
* * *
25978744 -ATGATACCGGGTTCACCGTTGCTGCCTCAACCTTTCCTATCACATCTTC
1 TAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCT-TCACATCTTC
* * **
25978793 TAAGGTACCGGGTTCATCGTTACGGCCTCAACCTTTCCCTTCGTATCTTC
1 TAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTT-CCTTCACATCTTC
* * * * *
25978843 -ATGGTACCAGGTTCGCCATTACGGCCTCAACCTTTCCTATCACATCTTC
1 TAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCT-TCACATCTTC
* * * *
25978892 TAAGGTACCGAGTTTACCGTTGCGGCCTCAACTTTTCCCTTCATATCTTC
1 TAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTT-CCTTCACATCTTC
25978942 ATGGTACTGC
Statistics
Matches: 235, Mismatches: 52, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
47 2 0.01
48 40 0.17
49 76 0.32
50 107 0.46
51 10 0.04
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (49 bp):
TAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCTTCACATCTTC
Found at i:25978945 original size:99 final size:99
Alignment explanation
Indices: 25978596--25978948 Score: 411
Period size: 99 Copynumber: 3.6 Consensus size: 99
25978586 GTCATGTTCT
* * * * * * *
25978596 TAAGGTATCAGGTTCGCCGTTACGGCCTCAACCTTTCCCATCACAT-TTCATGGTATCAGATTCA
1 TAAGGTACCGGGTTCACCGTTACGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAGGTTCA
* * * *
25978660 TCGTTGTGGCCTCAATCTTTCCTATCACGTCTTC
66 CCGTTGCGGCCTCAACCTTTCCTATCACATCTTC
* *** * ** * * * *
25978694 TAAGGTATCGGGTTCACCGTTGTAGCCTCAACTTTTTTCGTCAAATCTTCATGATACCGGGTTCA
1 TAAGGTACCGGGTTCACCGTTACGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAGGTTCA
*
25978759 CCGTTGCTGCCTCAACCTTTCCTATCACATCTTC
66 CCGTTGCGGCCTCAACCTTTCCTATCACATCTTC
* * *
25978793 TAAGGTACCGGGTTCATCGTTACGGCCTCAACCTTTCCCTTCGTATCTTCATGGTACCAGGTTCG
1 TAAGGTACCGGGTTCACCGTTACGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAGGTTCA
* *
25978858 CCATTACGGCCTCAACCTTTCCTATCACATCTTC
66 CCGTTGCGGCCTCAACCTTTCCTATCACATCTTC
* * * *
25978892 TAAGGTACCGAGTTTACCGTTGCGGCCTCAACTTTTCCCTTCATATCTTCATGGTAC
1 TAAGGTACCGGGTTCACCGTTACGGCCTCAACCTTTCCCTTCATATCTTCATGGTAC
25978949 TGCGGTTCAT
Statistics
Matches: 212, Mismatches: 42, Indels: 1
0.83 0.16 0.00
Matches are distributed among these distances:
98 36 0.17
99 176 0.83
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.34
Consensus pattern (99 bp):
TAAGGTACCGGGTTCACCGTTACGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAGGTTCA
CCGTTGCGGCCTCAACCTTTCCTATCACATCTTC
Found at i:25979898 original size:7 final size:8
Alignment explanation
Indices: 25979881--25979927 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
25979871 TCGATCTCTC
25979881 TTTTTCTT
1 TTTTTCTT
25979889 TTTTTCTT
1 TTTTTCTT
*
25979897 TTTTTC-C
1 TTTTTCTT
25979904 TTTTTCATT
1 TTTTTC-TT
25979913 TATTTTCCTT
1 T-TTTT-CTT
25979923 TTTTT
1 TTTTT
25979928 ATTTATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
7 6 0.18
8 14 0.42
9 5 0.15
10 7 0.21
11 1 0.03
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTCTT
Found at i:25979918 original size:18 final size:19
Alignment explanation
Indices: 25979881--25979938 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 19
25979871 TCGATCTCTC
*
25979881 TTTTTCTTTTTTTC--TT-
1 TTTTTCCTTTTTTCATTTA
25979897 TTTTTCC-TTTTTCATTTA
1 TTTTTCCTTTTTTCATTTA
*
25979915 -TTTTCCTTTTTTTATTTA
1 TTTTTCCTTTTTTCATTTA
25979933 TTTTTC
1 TTTTTC
25979939 ATTGAATTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
15 6 0.17
16 6 0.17
17 8 0.23
18 10 0.29
19 5 0.14
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTCCTTTTTTCATTTA
Found at i:25985459 original size:59 final size:60
Alignment explanation
Indices: 25985396--25985717 Score: 264
Period size: 59 Copynumber: 5.4 Consensus size: 60
25985386 AAGTATACGA
** ** * *
25985396 GGTCAAAACATAATTTTAAAAAAGTTTAGGGGTAAAAATGTAATTTTGGGAAAGTTT-AG
1 GGTCAAATTATAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTAAG
* * * * * *
25985455 GGTCAAATTATGATTTTGGAGAAGTTTA-GGGTTGAAATGTGATTTCGTG-AAGGTTTAAG
1 GGTCAAATTATAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTG-GAAAAGTTTAAG
* * * * * *
25985514 GGTCAAAATGTGA-TTTGGAAAAG-TTCGAAGGTTAAAATATAATTTTGGAAAAGTTT-AG
1 GGTCAAATTATAATTTTGGAAAAGTTTAG-GGGTTAAAATGTAATTTTGGAAAAGTTTAAG
* * * *** * * **
25985572 GATTAAGATGA-AATTTCAAAAAAGTTTAAGGGTTAAAATATAATTTTGGAAAAGTTTGGG
1 GGTCAA-ATTATAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTAAG
* **
25985632 GGTCAAATTATAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAATTTGGG
1 GGTCAAATTATAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTAAG
*
25985692 GGTCGAAA-TATTATTTTGGAAAAGTT
1 GGTC-AAATTATAATTTTGGAAAAGTT
25985718 CGACTATCAA
Statistics
Matches: 208, Mismatches: 44, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
57 2 0.01
58 38 0.18
59 94 0.45
60 71 0.34
61 3 0.01
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.35
Consensus pattern (60 bp):
GGTCAAATTATAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTAAG
Found at i:25985758 original size:30 final size:30
Alignment explanation
Indices: 25985396--25985768 Score: 238
Period size: 30 Copynumber: 12.6 Consensus size: 30
25985386 AAGTATACGA
** ** *
25985396 GGTCAAAACATAATTTTAAAAAAGTTTAGG
1 GGTCAAAATGTAATTTTGGAAAAGTTTAAG
* *
25985426 GGTAAAAATGTAATTTTGGGAAAGTTT-AG
1 GGTCAAAATGTAATTTTGGAAAAGTTTAAG
* * * *
25985455 GGTCAAATTATGATTTTGGAGAAGTTT-AG
1 GGTCAAAATGTAATTTTGGAAAAGTTTAAG
** * * *
25985484 GGTTGAAATGTGATTTCGTG-AAGGTTTAAG
1 GGTCAAAATGTAATTTTG-GAAAAGTTTAAG
* *
25985514 GGTCAAAATGTGA-TTTGGAAAAGTTCGAA-
1 GGTCAAAATGTAATTTTGGAAAAGTT-TAAG
* *
25985543 GGTTAAAATATAATTTTGGAAAAGTTT-AG
1 GGTCAAAATGTAATTTTGGAAAAGTTTAAG
* * * * ***
25985572 GATTAAGATGAAATTTCAAAAAAGTTTAAG
1 GGTCAAAATGTAATTTTGGAAAAGTTTAAG
* * **
25985602 GGTTAAAATATAATTTTGGAAAAGTTTGGG
1 GGTCAAAATGTAATTTTGGAAAAGTTTAAG
* * *
25985632 GGTCAAATTATAATTTTGGAAAAGTTTAGG
1 GGTCAAAATGTAATTTTGGAAAAGTTTAAG
* * **
25985662 GGTTAAAATGTAATTTTGGAAAAATTTGGG
1 GGTCAAAATGTAATTTTGGAAAAGTTTAAG
* * * ** *
25985692 GGTCGAAATATTATTTTGGAAAAGTTCGAC
1 GGTCAAAATGTAATTTTGGAAAAGTTTAAG
** *
25985722 TATCAAAATGTGATTTTGTG-AAAGTTTAAG
1 GGTCAAAATGTAATTTTG-GAAAAGTTTAAG
*
25985752 GGTCAAAATGCAATTTT
1 GGTCAAAATGTAATTTT
25985769 CAAAGAAATA
Statistics
Matches: 262, Mismatches: 73, Indels: 16
0.75 0.21 0.05
Matches are distributed among these distances:
28 2 0.01
29 80 0.31
30 179 0.68
31 1 0.00
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.35
Consensus pattern (30 bp):
GGTCAAAATGTAATTTTGGAAAAGTTTAAG
Found at i:25986619 original size:20 final size:20
Alignment explanation
Indices: 25986594--25986639 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
25986584 ATCTCTTTTT
*
25986594 TTTATTATTTATTAC-ATATA
1 TTTATTATAT-TTACTATATA
*
25986614 TTTATTATATTTACTATTTA
1 TTTATTATATTTACTATATA
25986634 TTTATT
1 TTTATT
25986640 TAAACATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTATTATATTTACTATATA
Found at i:25986631 original size:16 final size:15
Alignment explanation
Indices: 25986612--25986641 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
25986602 TTATTACATA
25986612 TATTTATTATATTTAC
1 TATTTATT-TATTTAC
25986628 TATTTATTTATTTA
1 TATTTATTTATTTA
25986642 AACATTTCGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTATTTATTTAC
Found at i:25992083 original size:22 final size:21
Alignment explanation
Indices: 25992032--25992084 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
25992022 GTTCTACATA
*
25992032 ATTATCATTTTAAAAAATATTT
1 ATTAT-ATTTTAAAAAATAATT
25992054 ATTA-ATTTTAAAAAATAAATT
1 ATTATATTTTAAAAAAT-AATT
*
25992075 GTTATATTTT
1 ATTATATTTT
25992085 CATTTTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.44
21 6 0.22
22 9 0.33
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTATATTTTAAAAAATAATT
Found at i:25992774 original size:13 final size:13
Alignment explanation
Indices: 25992756--25992781 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25992746 TTAAAATAGA
25992756 AAAAATATTTTTT
1 AAAAATATTTTTT
25992769 AAAAATATTTTTT
1 AAAAATATTTTTT
25992782 TGACTTTGAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAAAATATTTTTT
Found at i:25995096 original size:21 final size:20
Alignment explanation
Indices: 25995076--25995115 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25995066 TTTTACTAAT
*
25995076 ATATCAATT-AGTGTTTATA
1 ATATAAATTCAGTGTTTATA
*
25995095 ATCTAAATTCAGTGTTTATA
1 ATATAAATTCAGTGTTTATA
25995115 A
1 A
25995116 AATTTGATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (20 bp):
ATATAAATTCAGTGTTTATA
Found at i:25996140 original size:20 final size:21
Alignment explanation
Indices: 25996102--25996140 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
25996092 TCAATAATTA
*
25996102 TATTTTTATTAATTTAATTCT
1 TATTTTTATTAATTAAATTCT
*
25996123 TATTTTT-TTAGTTAAATT
1 TATTTTTATTAATTAAATT
25996141 TAATCATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (21 bp):
TATTTTTATTAATTAAATTCT
Found at i:25996268 original size:14 final size:14
Alignment explanation
Indices: 25996249--25996276 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25996239 CCCACGTATA
25996249 CTTTATGCTGACAT
1 CTTTATGCTGACAT
25996263 CTTTATGCTGACAT
1 CTTTATGCTGACAT
25996277 GGTAGAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (14 bp):
CTTTATGCTGACAT
Found at i:26000008 original size:23 final size:24
Alignment explanation
Indices: 25999982--26000029 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
25999972 ACAAAAAGAC
*
25999982 ATTTTTAATAT-TAATAAAATTTA
1 ATTTTTAATATAAAATAAAATTTA
* *
26000005 ATTTTTATTATAAAATAATATTTA
1 ATTTTTAATATAAAATAAAATTTA
26000029 A
1 A
26000030 AATATCACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTTTTAATATAAAATAAAATTTA
Found at i:26005416 original size:23 final size:23
Alignment explanation
Indices: 26005366--26005426 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 23
26005356 TTTATGTGTC
*
26005366 TATACTATATATTATAAAAAATAA
1 TATA-TATATATTTTAAAAAATAA
26005390 TATAT-T-TATTTTAAAAAATATA
1 TATATATATATTTTAAAAAATA-A
26005412 TTATATATATATTTT
1 -TATATATATATTTT
26005427 TAATAATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
21 13 0.41
22 2 0.06
23 6 0.19
24 5 0.16
25 6 0.19
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TATATATATATTTTAAAAAATAA
Found at i:26005440 original size:26 final size:25
Alignment explanation
Indices: 26005366--26005442 Score: 72
Period size: 26 Copynumber: 3.2 Consensus size: 25
26005356 TTTATGTGTC
*
26005366 TATACTATATATTATAAAAAAT-AA-
1 TATA-TATATATTTTAAAAAATAAAT
*
26005390 TATAT-T-TATTTTAAAAAATATAT
1 TATATATATATTTTAAAAAATAAAT
* *
26005413 TATATATATATTTTTAATAATTAAAT
1 TATATATATA-TTTTAAAAAATAAAT
26005439 TATA
1 TATA
26005443 AAAAAGAACT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 12 0.28
22 2 0.05
23 6 0.14
24 5 0.12
25 2 0.05
26 16 0.37
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (25 bp):
TATATATATATTTTAAAAAATAAAT
Found at i:26005546 original size:16 final size:14
Alignment explanation
Indices: 26005525--26005558 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
26005515 TAATCATTTT
26005525 TTATAAATGTTATATA
1 TTATAAAT-TT-TATA
26005541 TTATAAATTTTATA
1 TTATAAATTTTATA
26005555 TTAT
1 TTAT
26005559 TTTTACCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:26007005 original size:33 final size:32
Alignment explanation
Indices: 26006967--26007035 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
26006957 CTTAAATTGA
26006967 AATTCAAATTAATCCTTTTAAAATCCTAATTAG
1 AATTCAAATTAATCCTTTTAAAATCCTAA-TAG
* *
26007000 AATTCAAATTACTCCTTTTCAAATCCTAATAG
1 AATTCAAATTAATCCTTTTAAAATCCTAATAG
26007032 AATT
1 AATT
26007036 TTTCTTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (32 bp):
AATTCAAATTAATCCTTTTAAAATCCTAATAG
Found at i:26007458 original size:28 final size:29
Alignment explanation
Indices: 26007427--26007502 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 29
26007417 CTTGTACCAC
26007427 TGTTTTACAGATTTTATAGATC-TGTCA-T
1 TGTTTTACAGATTTTATAGATCTTG-CACT
* *
26007455 TGTTTTTCCAGATTTTACA-ATCTTGCACT
1 TG-TTTTACAGATTTTATAGATCTTGCACT
* *
26007484 GGTTTTTCAGATTTTATAG
1 TGTTTTACAGATTTTATAG
26007503 TTCTACCACT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
28 21 0.54
29 18 0.46
ACGTcount: A:0.22, C:0.13, G:0.14, T:0.50
Consensus pattern (29 bp):
TGTTTTACAGATTTTATAGATCTTGCACT
Found at i:26007461 original size:29 final size:29
Alignment explanation
Indices: 26007424--26007528 Score: 85
Period size: 29 Copynumber: 3.7 Consensus size: 29
26007414 GACCTTGTAC
*
26007424 CACT-GTTTTACAGATTTTATAGATC-TG
1 CACTGGTTTTTCAGATTTTATAGATCTTG
* *
26007451 TCA-TTGTTTTTCCAGATTTTACA-ATCTTG
1 -CACTGGTTTTT-CAGATTTTATAGATCTTG
* **
26007480 CACTGGTTTTTCAGATTTTATAGTTCTAC
1 CACTGGTTTTTCAGATTTTATAGATCTTG
*
26007509 CACT-ATTTTTCTAGATTTTA
1 CACTGGTTTTTC-AGATTTTA
26007529 CAGTTTTGCC
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
27 1 0.02
28 28 0.44
29 34 0.54
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.50
Consensus pattern (29 bp):
CACTGGTTTTTCAGATTTTATAGATCTTG
Found at i:26007518 original size:57 final size:58
Alignment explanation
Indices: 26007423--26007598 Score: 171
Period size: 57 Copynumber: 3.1 Consensus size: 58
26007413 CGACCTTGTA
* * * * *
26007423 CCACT-GTTTTACAGATTTTATAGATCTGTCATTGTTTTTCCAGATTTTACAATCTTG
1 CCACTGGTTTTTCAGATTTTATAGTTCTGCCACTATTTTTCCAGATTTTACAATCTTG
* * * *
26007480 -CACTGGTTTTTCAGATTTTATAGTTCTACCACTATTTTTCTAGATTTTACAGTTTTG
1 CCACTGGTTTTTCAGATTTTATAGTTCTGCCACTATTTTTCCAGATTTTACAATCTTG
* * * * * * *
26007537 CCATTGATTTTATAAAATTTT-CAGTTCTGCCACTATTTTT-CAGATTTTACAATTTTA
1 CCACTGGTTTT-TCAGATTTTATAGTTCTGCCACTATTTTTCCAGATTTTACAATCTTG
26007594 CCACT
1 CCACT
26007599 ATTCTTAAAA
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
56 4 0.04
57 61 0.63
58 25 0.26
59 7 0.07
ACGTcount: A:0.24, C:0.18, G:0.10, T:0.48
Consensus pattern (58 bp):
CCACTGGTTTTTCAGATTTTATAGTTCTGCCACTATTTTTCCAGATTTTACAATCTTG
Found at i:26007533 original size:29 final size:28
Alignment explanation
Indices: 26007486--26007601 Score: 117
Period size: 29 Copynumber: 4.1 Consensus size: 28
26007476 CTTGCACTGG
*
26007486 TTTTTCAGATTTTATAGTTCTACCACTA
1 TTTTTCAGATTTTACAGTTCTACCACTA
* * *
26007514 TTTTTCTAGATTTTACAGTTTTGCCATTGA
1 TTTTTC-AGATTTTACAGTTCTACCACT-A
* * *
26007544 TTTTATAAAATTTT-CAGTTCTGCCACTA
1 TTTT-TCAGATTTTACAGTTCTACCACTA
* *
26007572 TTTTTCAGATTTTACAATTTTACCACTA
1 TTTTTCAGATTTTACAGTTCTACCACTA
26007600 TT
1 TT
26007602 CTTAAAAATA
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
27 7 0.10
28 24 0.34
29 28 0.39
30 11 0.15
31 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.51
Consensus pattern (28 bp):
TTTTTCAGATTTTACAGTTCTACCACTA
Found at i:26009370 original size:23 final size:23
Alignment explanation
Indices: 26009344--26009560 Score: 247
Period size: 23 Copynumber: 9.4 Consensus size: 23
26009334 TTATTATATC
*
26009344 TATGCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATGTGATT
* *
26009367 TATGATAAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
* * *
26009390 TGTGTTTAAGTATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
* *
26009413 TATGCTTAAATATTAATATTATT
1 TATGCTTAAATATTAATGTGATT
* * *
26009436 TGTTCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATGTGATT
* *
26009459 TGTG-TTCAAATATTAATGTGACT
1 TATGCTT-AAATATTAATGTGATT
*
26009482 TATGATTAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
* * *
26009505 TGTGCTTAAATATTAATATGATC
1 TATGCTTAAATATTAATGTGATT
*
26009528 TATGATTAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
*
26009551 TGTGCTTAAA
1 TATGCTTAAA
26009561 GAATTAAGAT
Statistics
Matches: 162, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
22 2 0.01
23 158 0.98
24 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (23 bp):
TATGCTTAAATATTAATGTGATT
Found at i:26009458 original size:69 final size:69
Alignment explanation
Indices: 26009344--26009560 Score: 299
Period size: 69 Copynumber: 3.1 Consensus size: 69
26009334 TTATTATATC
* * * * *
26009344 TATGCTTAAATATTAATATGATTTATGATAAAATATTAATGTGATTTGTGTTTAAGTATTAATGT
1 TATGCTTAAATATTAATATGATTTGTGCTTAAATATTAATATGATTTGTGTTTAAATATTAATGT
26009409 GATT
66 GATT
* * *
26009413 TATGCTTAAATATTAATATTATTTGTTCTTAAATATTAATATGATTTGTGTTCAAATATTAATGT
1 TATGCTTAAATATTAATATGATTTGTGCTTAAATATTAATATGATTTGTGTTTAAATATTAATGT
*
26009478 GACT
66 GATT
* * * * *
26009482 TATGATTAAATATTAATGTGATTTGTGCTTAAATATTAATATGATCTATGATTAAATATTAATGT
1 TATGCTTAAATATTAATATGATTTGTGCTTAAATATTAATATGATTTGTGTTTAAATATTAATGT
26009547 GATT
66 GATT
*
26009551 TGTGCTTAAA
1 TATGCTTAAA
26009561 GAATTAAGAT
Statistics
Matches: 128, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 128 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (69 bp):
TATGCTTAAATATTAATATGATTTGTGCTTAAATATTAATATGATTTGTGTTTAAATATTAATGT
GATT
Found at i:26009728 original size:36 final size:35
Alignment explanation
Indices: 26009639--26009740 Score: 113
Period size: 36 Copynumber: 2.9 Consensus size: 35
26009629 TTGTGAAAGT
*
26009639 GAATATGTAGGTATGTTCTTCATGCCA--TG-CAAA
1 GAATATGTGGGTAT-TTCTTCATGCCATGTGACAAA
* *
26009672 AAATATGCGAGTGTA-TTCTTCATGCCATGTGACAAA
1 GAATATGTG-G-GTATTTCTTCATGCCATGTGACAAA
26009708 GAATATGTGGGTATTCTCTTCATGCCATGTGAC
1 GAATATGTGGGTATT-TCTTCATGCCATGTGAC
26009741 TGATTATATT
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
33 18 0.32
34 4 0.07
35 7 0.12
36 28 0.49
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (35 bp):
GAATATGTGGGTATTTCTTCATGCCATGTGACAAA
Found at i:26026250 original size:24 final size:24
Alignment explanation
Indices: 26026202--26026248 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
26026192 AAGAGTTAGT
26026202 TTGTCAATGCAAATATAAAATAAA
1 TTGTCAATGCAAATATAAAATAAA
26026226 TTGTCAGA-GCAAAT-TAAAATAAA
1 TTGTCA-ATGCAAATATAAAATAAA
26026249 ATGAATAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.41
24 12 0.55
25 1 0.05
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.28
Consensus pattern (24 bp):
TTGTCAATGCAAATATAAAATAAA
Found at i:26028290 original size:11 final size:11
Alignment explanation
Indices: 26028261--26028298 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
26028251 CTTCTCTTGC
26028261 GTTCTT-GCTT
1 GTTCTTAGCTT
26028271 -TTCTATAGCTT
1 GTTCT-TAGCTT
26028282 GTTCTTAGCTT
1 GTTCTTAGCTT
26028293 GTTCTT
1 GTTCTT
26028299 TGTTGCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.16
10 1 0.04
11 16 0.64
12 4 0.16
ACGTcount: A:0.08, C:0.18, G:0.16, T:0.58
Consensus pattern (11 bp):
GTTCTTAGCTT
Found at i:26030115 original size:30 final size:30
Alignment explanation
Indices: 26030079--26030242 Score: 220
Period size: 30 Copynumber: 5.5 Consensus size: 30
26030069 AACCGAGTCA
*
26030079 AAATTTGAATTTTTAGAAAGTTCAGGGGTC
1 AAATTTGAATTTTTAGAAAGTTCAAGGGTC
26030109 AAATTTGAATTTTTAGAAAGTTCAAGGGTC
1 AAATTTGAATTTTTAGAAAGTTCAAGGGTC
* * * *
26030139 AAATTGGAATTTTTGGAAAGTTTAAGGGTT
1 AAATTTGAATTTTTAGAAAGTTCAAGGGTC
** * *
26030169 AAATTCAAATTTTTAGAAAGTTCGAGGGTT
1 AAATTTGAATTTTTAGAAAGTTCAAGGGTC
* *
26030199 AAATTTGAATTTTTAAAAAGTTTAAGGGTC
1 AAATTTGAATTTTTAGAAAGTTCAAGGGTC
*
26030229 AAATTTAAATTTTT
1 AAATTTGAATTTTT
26030243 GGATAATTTG
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 117 1.00
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.40
Consensus pattern (30 bp):
AAATTTGAATTTTTAGAAAGTTCAAGGGTC
Found at i:26030270 original size:60 final size:60
Alignment explanation
Indices: 26030084--26030275 Score: 176
Period size: 60 Copynumber: 3.2 Consensus size: 60
26030074 AGTCAAAATT
* * * ** * * *
26030084 TGAATTTTTAGAAAGTTCAGGGGTCAAATTTGAATTTTTAGAAAGTTCAAGGGTCAAA-T
1 TGAATTTTTAAAAAGTTTAAGGGTCAAATTCAAATTTTTAGAAAGTTCGAGGGTTAAACA
** * **
26030143 TGGAATTTTTGGAAAGTTTAAGGGTTAAATTCAAATTTTTAGAAAGTTCGAGGGTTAAATT
1 T-GAATTTTTAAAAAGTTTAAGGGTCAAATTCAAATTTTTAGAAAGTTCGAGGGTTAAACA
* * * *
26030204 TGAATTTTTAAAAAGTTTAAGGGTCAAATTTAAATTTTTGGATAA-TTTGGGGGTTAAAACA
1 TGAATTTTTAAAAAGTTTAAGGGTCAAATTCAAATTTTTAGA-AAGTTCGAGGGTT-AAACA
26030265 T-AA-TTTTAAAA
1 TGAATTTTTAAAA
26030276 TAAAGCAAGG
Statistics
Matches: 112, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
59 9 0.08
60 95 0.85
61 8 0.07
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (60 bp):
TGAATTTTTAAAAAGTTTAAGGGTCAAATTCAAATTTTTAGAAAGTTCGAGGGTTAAACA
Found at i:26030270 original size:90 final size:90
Alignment explanation
Indices: 26030086--26030271 Score: 252
Period size: 90 Copynumber: 2.1 Consensus size: 90
26030076 TCAAAATTTG
* *
26030086 AATTTTTAGAAAGTTCAGGGGTCAAATTTGAATTTTTAGAAAGTTCAAGGGTCAAATTGGAATTT
1 AATTTTTAGAAAGTTCAGGGGTCAAATTTGAATTTTTAAAAAGTTCAAGGGTCAAATTGAAATTT
*
26030151 TTGGAAAGTTTAAGGGTTAAATTCA
66 TTGGAAAGTTTAAGGGTTAAATACA
* * *
26030176 AATTTTTAGAAAGTTC-GAGGGTTAAATTTGAATTTTTAAAAAGTTTAAGGGTCAAATTTAAATT
1 AATTTTTAGAAAGTTCAG-GGGTCAAATTTGAATTTTTAAAAAGTTCAAGGGTCAAATTGAAATT
**
26030240 TTTGGATAA-TTTGGGGGTTAAA-ACA
65 TTTGGA-AAGTTTAAGGGTTAAATACA
26030265 TAATTTT
1 -AATTTT
26030272 AAAATAAAGC
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
89 3 0.04
90 80 0.94
91 2 0.02
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.39
Consensus pattern (90 bp):
AATTTTTAGAAAGTTCAGGGGTCAAATTTGAATTTTTAAAAAGTTCAAGGGTCAAATTGAAATTT
TTGGAAAGTTTAAGGGTTAAATACA
Found at i:26031286 original size:17 final size:17
Alignment explanation
Indices: 26031250--26031287 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
26031240 ATTTATATTT
*
26031250 ATAAAATAAATAAAATA
1 ATAAAATAAATAAAAAA
26031267 ATAAAATAAA-AACAAAA
1 ATAAAATAAATAA-AAAA
26031284 ATAA
1 ATAA
26031288 GAAATGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
ATAAAATAAATAAAAAA
Found at i:26032415 original size:23 final size:23
Alignment explanation
Indices: 26032384--26032864 Score: 586
Period size: 23 Copynumber: 20.9 Consensus size: 23
26032374 TTATTATATC
26032384 TATGCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATATGATT
* * *
26032407 TATGATTAAATGTTAATGTGATT
1 TATGCTTAAATATTAATATGATT
* ** * *
26032430 TGTGCTTAAGCATTAATGTGAGT
1 TATGCTTAAATATTAATATGATT
26032453 TATGCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATATGATT
* *
26032476 TGTGCTTAAATATTAATATGAAT
1 TATGCTTAAATATTAATATGATT
* * *
26032499 TGTGTTTAAATATTAATGTGATT
1 TATGCTTAAATATTAATATGATT
*
26032522 TATGCTTAAATATTAATGTGATT
1 TATGCTTAAATATTAATATGATT
*
26032545 TGTGCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATATGATT
*
26032568 TATGAC-TAAATATTAATGTGATT
1 TATG-CTTAAATATTAATATGATT
* * *
26032591 TGTGCTTAAGTATTAATGTGATT
1 TATGCTTAAATATTAATATGATT
26032614 TATGCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATATGATT
* * *
26032637 TGTGCTCAAATATTAATGTGATT
1 TATGCTTAAATATTAATATGATT
*
26032660 TGTGCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATATGATT
* * * *
26032683 TTTGCTCAAATATTAATGTGAAT
1 TATGCTTAAATATTAATATGATT
* *
26032706 TATGTTTAAATATTATTATGATT
1 TATGCTTAAATATTAATATGATT
* *
26032729 TATGCTGAAATGTTAATATGATT
1 TATGCTTAAATATTAATATGATT
*
26032752 TATGCTTAAATATTAGTATGATT
1 TATGCTTAAATATTAATATGATT
*
26032775 TATGCTTAAATATTAATGTGATT
1 TATGCTTAAATATTAATATGATT
* *
26032798 TGTGTTTAAATATTAATATGATT
1 TATGCTTAAATATTAATATGATT
* *
26032821 TATGATTAAATATTAATGTGATT
1 TATGCTTAAATATTAATATGATT
* *
26032844 TGTGCTTAAAGAATTAATATG
1 TATGCTTAAA-TATTAATATG
26032865 TGGTATTATG
Statistics
Matches: 391, Mismatches: 64, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
22 1 0.00
23 381 0.97
24 9 0.02
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (23 bp):
TATGCTTAAATATTAATATGATT
Found at i:26032999 original size:36 final size:36
Alignment explanation
Indices: 26032922--26032999 Score: 111
Period size: 36 Copynumber: 2.2 Consensus size: 36
26032912 TGATGACTGT
* * * *
26032922 TGTGAAAGTGAATATGTGGGCATGTTCTTCATGCCA
1 TGTGACAGAGAATATGTAGGCATGCTCTTCATGCCA
*
26032958 TGTGACAGAGAATATGTAGGTATGCTCTTCATGCCA
1 TGTGACAGAGAATATGTAGGCATGCTCTTCATGCCA
26032994 TGTGAC
1 TGTGAC
26033000 TGATTATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (36 bp):
TGTGACAGAGAATATGTAGGCATGCTCTTCATGCCA
Found at i:26033048 original size:3 final size:3
Alignment explanation
Indices: 26033035--26033071 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
26033025 ATATGCAGTG
26033035 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26033072 GTGAATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:26036677 original size:20 final size:20
Alignment explanation
Indices: 26036654--26036696 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
26036644 TTTTATTTTA
*
26036654 TTTATTATTTAT-TTATGTAT
1 TTTATTATTT-TGTTATCTAT
26036674 TTTATTATTTTGTTATCTAT
1 TTTATTATTTTGTTATCTAT
26036694 TTT
1 TTT
26036697 CATGCTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (20 bp):
TTTATTATTTTGTTATCTAT
Found at i:26036681 original size:12 final size:12
Alignment explanation
Indices: 26036642--26036679 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
26036632 TTATATCCTC
26036642 ATTT-TTATTTT
1 ATTTATTATTTT
26036653 ATTTATTA-TTT
1 ATTTATTATTTT
26036664 ATTTATGTATTTT
1 ATTTAT-TATTTT
26036677 ATT
1 ATT
26036680 ATTTTGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 13 0.54
12 5 0.21
13 6 0.25
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
ATTTATTATTTT
Found at i:26036752 original size:26 final size:25
Alignment explanation
Indices: 26036723--26036780 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 25
26036713 TATTTCCTTG
*
26036723 TTTATAATTGTTTGTTTATTTTATTA
1 TTTATAATTGTGTG-TTATTTTATTA
26036749 TTTAT--TTGTGTGTTATTTTATTA
1 TTTATAATTGTGTGTTATTTTATTA
26036772 TATT-TAATT
1 T-TTATAATT
26036781 TTATTAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 13 0.46
24 8 0.29
25 2 0.07
26 5 0.18
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (25 bp):
TTTATAATTGTGTGTTATTTTATTA
Found at i:26044741 original size:123 final size:124
Alignment explanation
Indices: 26044513--26045000 Score: 560
Period size: 123 Copynumber: 4.0 Consensus size: 124
26044503 CCCTTTACAA
* ** * * * * *
26044513 GAAGCGAAA-CTCAATG-CTAGTGAAACTTCAATTCCCAACTTCTTTAT-GAGATGCAGAGAAGT
1 GAAGC-AAAGCTCAATGTC-AGCGAAACTTCAAACCCCATCTTCCTGATAGAGATACAAAGAAGT
* * * * * * *
26044575 GGGTCAAAATAATGAAGTGGTCATCTTCTTGATGAGATACAGAGAATTAAACCAAAATAAT
64 GGATCAAAACAATCAAGTGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAAT
* * * * * *
26044636 GAACCAAAGCTCAATGTGAGTGAAACTTCAAACGCCCATCTTCTTGA-AGAGATATAGAGAAGTG
1 GAAGCAAAGCTCAATGTCAGCGAAACTTCAAAC-CCCATCTTCCTGATAGAGATACAAAGAAGTG
* *
26044700 GATC-AAACAATCAAGTGGTCATCTTCCTGAGGAGATACAGAGAAGTAGACCAAAATAAT
65 GATCAAAACAATCAAGTGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAAT
* *
26044759 GAAGTAAAGTTCAATGTCAGCGAAACTTCAAACCCCATCTTCCTGATA-AGATACAAAGAAGTGG
1 GAAGCAAAGCTCAATGTCAGCGAAACTTCAAACCCCATCTTCCTGATAGAGATACAAAGAAGTGG
* * * * * *
26044823 GTCAAAACAATGAAGTGATAATCTTTCTGATGAGATATAGAGAAGTAGACCAAAACAAT
66 ATCAAAACAATCAAGTGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAAT
* *
26044882 GAAGCAAAGCTCCATGTCAGCAAAACTTCAAACCCCCATCTTCCTGATAG-GATACAAAGAAGTG
1 GAAGCAAAGCTCAATGTCAGCGAAACTTCAAA-CCCCATCTTCCTGATAGAGATACAAAGAAGTG
* * *
26044946 GATC-AAACAATCAAGCGATCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAA
65 GATCAAAACAATCAAGTGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAA
26045001 CAGTCAAGCG
Statistics
Matches: 314, Mismatches: 43, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
122 31 0.10
123 222 0.71
124 61 0.19
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (124 bp):
GAAGCAAAGCTCAATGTCAGCGAAACTTCAAACCCCATCTTCCTGATAGAGATACAAAGAAGTGG
ATCAAAACAATCAAGTGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAAT
Found at i:26044972 original size:47 final size:48
Alignment explanation
Indices: 26044918--26045039 Score: 203
Period size: 48 Copynumber: 2.6 Consensus size: 48
26044908 TTCAAACCCC
*
26044918 CATCTTCCTGAT-AGGATACAAAGAAGTGGATC-AAACAATCAAGCGAT
1 CATCTTCCTGATGA-GATACAGAGAAGTGGATCAAAACAATCAAGCGAT
*
26044965 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAGTCAAGCGAT
1 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATCAAGCGAT
26045013 CATCTTCCTGATGAGATACAGAGAAGT
1 CATCTTCCTGATGAGATACAGAGAAGT
26045040 AAACGAAAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
47 29 0.41
48 42 0.59
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (48 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATCAAGCGAT
Found at i:26044992 original size:171 final size:170
Alignment explanation
Indices: 26044794--26045163 Score: 483
Period size: 171 Copynumber: 2.2 Consensus size: 170
26044784 CTTCAAACCC
* * * * * *
26044794 CATCTTCCTGATAAGATACAAAGAAGTGGGTCAAAACAATGAAGTGATAATCTTTCTGATGAGAT
1 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATCAAGCGATAATCTTCCTGATGAGAT
* * *
26044859 ATAGAGAAGTAGACCAAAACAATGAAGCAAAGCTCCATGTCAGCAAAACTTCAAACCCCCATCTT
66 ACAGAGAAGTAAACCAAAACAATGAAGCAAAGCTCAATGTCAGCAAAACTTCAAA-CCCCATCTT
*
26044924 CCTGAT-AGGATACAAAGAAGTGGATCAAACA-ATCAAGCGAT
130 CCTAATGAGG-TACAAAGAAGTGGATCAAA-AGATCAAGCGAT
* *
26044965 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAGTCAAGCGATCATCTTCCTGATGAGAT
1 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATCAAGCGATAATCTTCCTGATGAGAT
* * * * ** *
26045030 ACAGAGAAGTAAACGAAAATAATGAAGCGAAGCTCAATGTGAGTGAAACTTTAAACCCCATCTTC
66 ACAGAGAAGTAAACCAAAACAATGAAGCAAAGCTCAATGTCAGCAAAACTTCAAACCCCATCTTC
* * *
26045095 CTAATGAGGTACAGAGAAGTGGATCAAAATGATGAAGCGGT
131 CTAATGAGGTACAAAGAAGTGGATCAAAA-GATCAAGCGAT
*
26045136 CATCTTCTTGATGAGATACAGAGAAGTG
1 CATCTTCCTGATGAGATACAGAGAAGTG
26045164 AACCAAAATA
Statistics
Matches: 173, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
169 1 0.01
170 32 0.18
171 140 0.81
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (170 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATCAAGCGATAATCTTCCTGATGAGAT
ACAGAGAAGTAAACCAAAACAATGAAGCAAAGCTCAATGTCAGCAAAACTTCAAACCCCATCTTC
CTAATGAGGTACAAAGAAGTGGATCAAAAGATCAAGCGAT
Found at i:26045058 original size:48 final size:48
Alignment explanation
Indices: 26044918--26045059 Score: 173
Period size: 48 Copynumber: 3.0 Consensus size: 48
26044908 TTCAAACCCC
* * *
26044918 CATCTTCCTGAT-AGGATACAAAGAAGTGGATC-AAACAATCAAGCGAT
1 CATCTTCCTGATGA-GATACAGAGAAGTGAAACAAAACAATCAAGCGAT
* * *
26044965 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAGTCAAGCGAT
1 CATCTTCCTGATGAGATACAGAGAAGTGAAACAAAACAATCAAGCGAT
* *
26045013 CATCTTCCTGATGAGATACAGAGAAGT-AAACGAAAATAATGAAGCGA
1 CATCTTCCTGATGAGATACAGAGAAGTGAAAC-AAAACAATCAAGCGA
26045060 AGCTCAATGT
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
47 31 0.36
48 54 0.64
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (48 bp):
CATCTTCCTGATGAGATACAGAGAAGTGAAACAAAACAATCAAGCGAT
Found at i:26045088 original size:294 final size:293
Alignment explanation
Indices: 26044672--26045240 Score: 800
Period size: 294 Copynumber: 1.9 Consensus size: 293
26044662 TTCAAACGCC
* * * *
26044672 CATCTTCTTGAAGAGATATAGAGAAGTGGATCAAACAATCAAGTGGTCATCTTCCTGAGGAGATA
1 CATCTTCCTGAAGAGATACAGAGAAGTGGATCAAACAATCAAGCGATCATCTTCCTGAGGAGATA
* * *
26044737 CAGAGAAGTAGACCAAAATAATGAAGTAAAGTTCAATGTCAGCGAAACTTCAAACCCCATCTTCC
66 CAGAGAAGTAAACCAAAATAATGAAGCAAAGCTCAATGTCAGCGAAACTTCAAACCCCATCTTCC
* * * *
26044802 TGATAAGATACAAAGAAGTGGGTCAAAACAATGAAGTGATAATCTT-TCTGATGAGATATAGAGA
131 TAATAAGATACAAAGAAGTGGATCAAAACAATGAAGCGATAATCTTCT-TGATGAGATACAGAGA
*
26044866 AGT-AGACCAAAACAATGAAGCAAAGCTCCATGTCAGCAAAACTTCAAACCCCCATCTTCCTGAT
195 AGTGA-ACCAAAACAATGAAGCAAAGCTCAATGTCAGCAAAACTTCAAACCCCCATCTTCCTGAT
26044930 AGGATACAAAGAAGTGGATCAAACAATCAAGCGAT
259 AGGATACAAAGAAGTGGATCAAACAATCAAGCGAT
* * *
26044965 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAGTCAAGCGATCATCTTCCTGATGAGAT
1 CATCTTCCTGAAGAGATACAGAGAAGTGGATC-AAACAATCAAGCGATCATCTTCCTGAGGAGAT
* * * * *
26045030 ACAGAGAAGTAAACGAAAATAATGAAGCGAAGCTCAATGTGAGTGAAACTTTAAACCCCATCTTC
65 ACAGAGAAGTAAACCAAAATAATGAAGCAAAGCTCAATGTCAGCGAAACTTCAAACCCCATCTTC
* * * ** * *
26045095 CTAATGAGGTACAGAGAAGTGGATCAAAATGATGAAGCGGTCATCTTCTTGATGAGATACAGAGA
130 CTAATAAGATACAAAGAAGTGGATCAAAACAATGAAGCGATAATCTTCTTGATGAGATACAGAGA
* * ** * *
26045160 AGTGAACCAAAATAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCTTGATG
195 AGTGAACCAAAACAATGAAGCAAAGCTCAATGTCAGCAAAACTTCAAACCCCCATCTTCCTGATA
26045225 GGATACAAAGAAGTGG
260 GGATACAAAGAAGTGG
26045241 TGGTCACCTT
Statistics
Matches: 240, Mismatches: 33, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
293 29 0.12
294 209 0.87
295 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.22
Consensus pattern (293 bp):
CATCTTCCTGAAGAGATACAGAGAAGTGGATCAAACAATCAAGCGATCATCTTCCTGAGGAGATA
CAGAGAAGTAAACCAAAATAATGAAGCAAAGCTCAATGTCAGCGAAACTTCAAACCCCATCTTCC
TAATAAGATACAAAGAAGTGGATCAAAACAATGAAGCGATAATCTTCTTGATGAGATACAGAGAA
GTGAACCAAAACAATGAAGCAAAGCTCAATGTCAGCAAAACTTCAAACCCCCATCTTCCTGATAG
GATACAAAGAAGTGGATCAAACAATCAAGCGAT
Found at i:26045159 original size:48 final size:48
Alignment explanation
Indices: 26045088--26045180 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
26045078 CTTTAAACCC
* * * *
26045088 CATCTTCCTAATGAGGTACAGAGAAGTGGATCAAAATGATGAAGCGGT
1 CATCTTCCTAATGAGATACAGAGAAGTGAACCAAAATAATGAAGCGGT
* *
26045136 CATCTTCTTGATGAGATACAGAGAAGTGAACCAAAATAATGAAGC
1 CATCTTCCTAATGAGATACAGAGAAGTGAACCAAAATAATGAAGC
26045181 AAAGCTCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (48 bp):
CATCTTCCTAATGAGATACAGAGAAGTGAACCAAAATAATGAAGCGGT
Found at i:26045186 original size:123 final size:124
Alignment explanation
Indices: 26044965--26045413 Score: 477
Period size: 123 Copynumber: 3.8 Consensus size: 124
26044955 ATCAAGCGAT
*
26044965 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAGTCAAGCGATCATCTTCCTGATGAGAT
1 CATCTTCCTGATGAGGTACAGAGAAGTGGATCAAAACAGTCAAGCGATCATCTTCCTGATGAGAT
* * *
26045030 ACAGAGAAGTAAACGAAAATAATGAAGCGAAGCTCAATGTGAGTGAAACTTTAAA-CCC
66 ACAGAGAAGTAAACCAAAATAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCC
* * * * *
26045088 CATCTTCCTAATGAGGTACAGAGAAGTGGATCAAAA-TGATGAAGCGGTCATCTTCTTGATGAGA
1 CATCTTCCTGATGAGGTACAGAGAAGTGGATCAAAACAG-TCAAGCGATCATCTTCCTGATGAGA
*
26045152 TACAGAGAAGTGAACCAAAATAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCC
65 TACAGAGAAGTAAACCAAAATAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCC
* * * *
26045212 CATCTTCTTGATG-GGATACAAAGAAGT-G---------GT---G-G-TCACCTTCATGATGAGA
1 CATCTTCCTGATGAGG-TACAGAGAAGTGGATCAAAACAGTCAAGCGATCATCTTCCTGATGAGA
** *
26045261 TACAGAGAAGTGGACCAAAAAAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCC
65 TACAGAGAAGTAAACCAAAATAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCC
* * * * * * *
26045321 CATCTTCCTGATGAGATATAGAAAAGTGGATCAAAATAATGAAGC-AGTCATCTTCCTAATGAGA
1 CATCTTCCTGATGAGGTACAGAGAAGTGGATCAAAACAGTCAAGCGA-TCATCTTCCTGATGAGA
* ** * *
26045385 TACAAAGAAGTGGATCAAAATAATAAAGC
65 TACAGAGAAGTAAACCAAAATAATGAAGC
26045414 GGTCATCTTC
Statistics
Matches: 276, Mismatches: 30, Indels: 39
0.80 0.09 0.11
Matches are distributed among these distances:
109 93 0.34
110 3 0.01
111 1 0.00
114 1 0.00
115 1 0.00
119 1 0.00
122 2 0.01
123 111 0.40
124 63 0.23
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (124 bp):
CATCTTCCTGATGAGGTACAGAGAAGTGGATCAAAACAGTCAAGCGATCATCTTCCTGATGAGAT
ACAGAGAAGTAAACCAAAATAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCC
Found at i:26045349 original size:109 final size:109
Alignment explanation
Indices: 26045133--26045338 Score: 358
Period size: 109 Copynumber: 1.9 Consensus size: 109
26045123 ATGATGAAGC
* * *
26045133 GGTCATCTTCTTGATGAGATACAGAGAAGTGAACCAAAATAATGAAGCAAAGCTCAATGTGAGTG
1 GGTCACCTTCATGATGAGATACAGAGAAGTGAACCAAAAAAATGAAGCAAAGCTCAATGTGAGTG
* *
26045198 AAACTTCAAACCCCCATCTTCTTGATGGGATACAAAGAAGTGGT
66 AAACTTCAAACCCCCATCTTCCTGATGAGATACAAAGAAGTGGT
*
26045242 GGTCACCTTCATGATGAGATACAGAGAAGTGGACCAAAAAAATGAAGCAAAGCTCAATGTGAGTG
1 GGTCACCTTCATGATGAGATACAGAGAAGTGAACCAAAAAAATGAAGCAAAGCTCAATGTGAGTG
26045307 AAACTTCAAACCCCCATCTTCCTGATGAGATA
66 AAACTTCAAACCCCCATCTTCCTGATGAGATA
26045339 TAGAAAAGTG
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
109 91 1.00
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.22
Consensus pattern (109 bp):
GGTCACCTTCATGATGAGATACAGAGAAGTGAACCAAAAAAATGAAGCAAAGCTCAATGTGAGTG
AAACTTCAAACCCCCATCTTCCTGATGAGATACAAAGAAGTGGT
Found at i:26045462 original size:48 final size:48
Alignment explanation
Indices: 26045321--26045462 Score: 194
Period size: 48 Copynumber: 3.0 Consensus size: 48
26045311 TTCAAACCCC
* * *
26045321 CATCTTCCTGATGAGATATAGAAAAGTGGATCAAAATAATGAAGCAGT
1 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGT
* * *
26045369 CATCTTCCTAATGAGATACAAAGAAGTGGATCAAAATAATAAAGCGGT
1 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGT
* * * *
26045417 CATCTTCATGATGAGATACAGAGAAGTGGACCAAGACAATGAAGCG
1 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCG
26045463 AAGCTCAAAT
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.22
Consensus pattern (48 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATGAAGCGGT
Done.