Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 288 of 290
Found at i:92095802 original size:18 final size:18
Alignment explanation
Indices: 92095779--92095815 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
92095769 ATCATGAATG
*
92095779 ATCAATAAATGCATGACA
1 ATCAATAAAAGCATGACA
*
92095797 ATCAATAAAAGTATGACA
1 ATCAATAAAAGCATGACA
92095815 A
1 A
92095816 GTACGTGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.22
Consensus pattern (18 bp):
ATCAATAAAAGCATGACA
Found at i:92108685 original size:41 final size:41
Alignment explanation
Indices: 92108635--92108892 Score: 399
Period size: 41 Copynumber: 6.3 Consensus size: 41
92108625 AATTCATCAT
* *
92108635 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* * *
92108676 ATTCAGATCACTGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
92108717 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
92108758 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
92108799 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
92108840 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
92108881 ATTCATATCACC
1 ATTCAGATCACC
92108893 AATTCCAAAC
Statistics
Matches: 195, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 195 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:92108778 original size:82 final size:82
Alignment explanation
Indices: 92108641--92108892 Score: 486
Period size: 82 Copynumber: 3.1 Consensus size: 82
92108631 TCATATTCGG
*
92108641 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACTGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
92108706 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
92108723 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
92108788 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
*
92108805 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
92108870 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
92108887 ATCACC
1 ATCACC
92108893 AATTCCAAAC
Statistics
Matches: 168, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 168 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:92109128 original size:19 final size:19
Alignment explanation
Indices: 92109104--92109140 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
92109094 TTGTTCGATC
*
92109104 CACACATATATATATATTA
1 CACACATATACATATATTA
92109123 CACACATATACATATATT
1 CACACATATACATATATT
92109141 CGCACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CACACATATACATATATTA
Found at i:92116399 original size:41 final size:41
Alignment explanation
Indices: 92116349--92116606 Score: 408
Period size: 41 Copynumber: 6.3 Consensus size: 41
92116339 AATTCATCAT
* *
92116349 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
92116390 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
92116431 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
92116472 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
92116513 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
92116554 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
92116595 ATTCATATCACC
1 ATTCAGATCACC
92116607 AATTCCAAAC
Statistics
Matches: 197, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 197 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:92116492 original size:82 final size:82
Alignment explanation
Indices: 92116355--92116606 Score: 495
Period size: 82 Copynumber: 3.1 Consensus size: 82
92116345 TCATATTCGG
92116355 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
92116420 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
92116437 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
92116502 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
*
92116519 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
92116584 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
92116601 ATCACC
1 ATCACC
92116607 AATTCCAAAC
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 169 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:92116842 original size:19 final size:19
Alignment explanation
Indices: 92116818--92116854 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
92116808 TTGTTCGATC
*
92116818 CACACATATATATATATTA
1 CACACATATACATATATTA
92116837 CACACATATACATATATT
1 CACACATATACATATATT
92116855 CGCACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CACACATATACATATATTA
Found at i:92118848 original size:29 final size:29
Alignment explanation
Indices: 92118800--92118891 Score: 150
Period size: 29 Copynumber: 3.2 Consensus size: 29
92118790 CCAAATTAAA
*
92118800 CACCCTACTAGACCGA-CCACTAACTCCAT
1 CACCCTACTAAACC-ATCCACTAACTCCAT
92118829 CACCCTACTAAACCATCCACTAACTCCAT
1 CACCCTACTAAACCATCCACTAACTCCAT
*
92118858 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCCTACTAAACCATCCACTAACTCCAT
92118887 CACCC
1 CACCC
92118892 CCACTAACTC
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
28 1 0.02
29 59 0.98
ACGTcount: A:0.32, C:0.48, G:0.02, T:0.18
Consensus pattern (29 bp):
CACCCTACTAAACCATCCACTAACTCCAT
Found at i:92118897 original size:18 final size:18
Alignment explanation
Indices: 92118874--92118909 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
92118864 ACTAAACCAT
*
92118874 CCACTACCTCCATCACCC
1 CCACTAACTCCATCACCC
92118892 CCACTAACTCCATCACCC
1 CCACTAACTCCATCACCC
92118910 TACTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.58, G:0.00, T:0.17
Consensus pattern (18 bp):
CCACTAACTCCATCACCC
Found at i:92119337 original size:64 final size:64
Alignment explanation
Indices: 92119196--92119327 Score: 155
Period size: 64 Copynumber: 2.1 Consensus size: 64
92119186 TTTATTTTTG
* *
92119196 TTATTTTACTGTTAAATTAATTAATTTGAGGTTTATTCTCATTATTTTTATAGTTGTTTTTATTA
1 TTATTTT-CTATTAAATTAATTAATTTGAGGTTTATTCTCATTATTGTTATAGTTGTTTTTATTA
* * *
92119261 TTATTTTCTATTAATTTAATTAATTTGA-G-TTATGTTTCA-TATTGTTATA-TTATTTATTTAT
1 TTATTTTCTATTAAATTAATTAATTTGAGGTTTAT-TCTCATTATTGTTATAGTT-GTT-TTTAT
92119322 TA
63 TA
92119324 TTAT
1 TTAT
92119328 ATATTTATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
61 2 0.03
62 15 0.25
63 16 0.27
64 19 0.32
65 7 0.12
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.61
Consensus pattern (64 bp):
TTATTTTCTATTAAATTAATTAATTTGAGGTTTATTCTCATTATTGTTATAGTTGTTTTTATTA
Found at i:92119348 original size:17 final size:14
Alignment explanation
Indices: 92119308--92119338 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
92119298 CATATTGTTA
*
92119308 TATTATTTATTTAT
1 TATTATATATTTAT
92119322 TATTATATATTTAT
1 TATTATATATTTAT
92119336 TAT
1 TAT
92119339 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:92120020 original size:126 final size:126
Alignment explanation
Indices: 92119795--92120038 Score: 425
Period size: 126 Copynumber: 1.9 Consensus size: 126
92119785 CATTGATCTT
* * *
92119795 CTCTCAAAATTTTTTAAAATAAAGGTAATGTTCGGTATTTAAAGAATTCAAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGAATCGTGCCCTA
*
92119860 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTATCAGTTCA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCAAATATCCTCTTATCAGTTCA
* *
92119921 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTTGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGAATCGTGCCCTA
*
92119986 ACGTACTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCAAATATCCTCTTA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCAAATATCCTCTTA
92120039 AGGCTAAAAT
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 111 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.39
Consensus pattern (126 bp):
CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGAATCGTGCCCTA
ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCAAATATCCTCTTATCAGTTCA
Found at i:92121973 original size:27 final size:27
Alignment explanation
Indices: 92121943--92122000 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
92121933 GTTCAACATA
92121943 CAAAAAAAAAAATTCAA-ATCTAATTAC
1 CAAAAAAAAAAATTCAACAT-TAATTAC
** **
92121970 CAAATTATGAAATTCAACATTAATTAC
1 CAAAAAAAAAAATTCAACATTAATTAC
92121997 CAAA
1 CAAA
92122001 TTATAAATTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.26
Consensus pattern (27 bp):
CAAAAAAAAAAATTCAACATTAATTAC
Found at i:92122001 original size:27 final size:27
Alignment explanation
Indices: 92121952--92122013 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 27
92121942 ACAAAAAAAA
92121952 AAATTCAA-ATCTAATTACCAAATTAT
1 AAATTCAACATCTAATTACCAAATTAT
92121978 GAAATTCAACAT-TAATTACCAAATTAT
1 -AAATTCAACATCTAATTACCAAATTAT
92122005 AAATTCAAC
1 AAATTCAAC
92122014 TTACAGAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 9 0.26
27 23 0.68
28 2 0.06
ACGTcount: A:0.50, C:0.16, G:0.02, T:0.32
Consensus pattern (27 bp):
AAATTCAACATCTAATTACCAAATTAT
Found at i:92123447 original size:14 final size:14
Alignment explanation
Indices: 92123417--92123450 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
92123407 ATGGGAGAGT
92123417 AAAATTTTAAAAGA
1 AAAATTTTAAAAGA
92123431 AAAATGTTTAAAA-A
1 AAAAT-TTTAAAAGA
92123445 AAAATT
1 AAAATT
92123451 GAGGAAGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 11 0.58
15 7 0.37
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (14 bp):
AAAATTTTAAAAGA
Found at i:92125890 original size:3 final size:3
Alignment explanation
Indices: 92125882--92125907 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
92125872 AAGGCGTGGC
92125882 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
92125908 TAGATAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:92129464 original size:25 final size:24
Alignment explanation
Indices: 92129415--92129469 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
92129405 TTATTAAATT
92129415 ATATATTTTAATTATAATATATTTA
1 ATATATTTTAATTAT-ATATATTTA
*
92129440 ATATATTTAATAATTAT-TATGTTTA
1 ATATATTT--TAATTATATATATTTA
92129465 A-ATAT
1 ATATAT
92129470 GATTAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.15
25 16 0.59
27 7 0.26
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
ATATATTTTAATTATATATATTTA
Found at i:92129656 original size:44 final size:45
Alignment explanation
Indices: 92129607--92129701 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
92129597 TTACACCTCT
* *
92129607 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
92129651 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
92129696 ATTACA
1 ATTACA
92129702 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:92129701 original size:16 final size:16
Alignment explanation
Indices: 92129682--92129733 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
92129672 GATTTGCTAT
* *
92129682 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
92129698 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
92129714 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
92129730 TACA
1 TACA
92129734 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:92135387 original size:21 final size:21
Alignment explanation
Indices: 92135362--92135410 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
92135352 TAAGAAAATG
92135362 AAAAT-ATATAAAATTATCATA
1 AAAATAAT-TAAAATTATCATA
*
92135383 AAAATAATTAATATTATCATA
1 AAAATAATTAAAATTATCATA
92135404 AAAATAA
1 AAAATAA
92135411 ATATTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATAATTAAAATTATCATA
Found at i:92135415 original size:18 final size:18
Alignment explanation
Indices: 92135369--92135415 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 18
92135359 ATGAAAATAT
92135369 ATAAA-ATTATCATAAAA
1 ATAAATATTATCATAAAA
92135386 ATAATTAATATTATCATAAAA
1 AT-A--AATATTATCATAAAA
92135407 ATAAATATT
1 ATAAATATT
92135416 TTTAATTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 2 0.08
18 7 0.27
20 3 0.12
21 14 0.54
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAAATATTATCATAAAA
Found at i:92135423 original size:25 final size:26
Alignment explanation
Indices: 92135373--92135445 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 26
92135363 AAATATATAA
*
92135373 AATTATCATAAAAAT--A-ATTA-AT
1 AATTATCATAAAAATAAATATTATTT
92135395 -ATTATCATAAAAATAAATATT-TTT
1 AATTATCATAAAAATAAATATTATTT
* * *
92135419 AATTATCATTAAGATAATTATTATTT
1 AATTATCATAAAAATAAATATTATTT
92135445 A
1 A
92135446 TCTTAATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
21 14 0.34
23 1 0.02
24 4 0.10
25 18 0.44
26 4 0.10
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (26 bp):
AATTATCATAAAAATAAATATTATTT
Found at i:92135904 original size:18 final size:19
Alignment explanation
Indices: 92135881--92135919 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
92135871 TATTTAGGGT
92135881 TTGGGTTAGGGAAAT-TGG
1 TTGGGTTAGGGAAATCTGG
*
92135899 TTGGGTTTGGGAAATCTGG
1 TTGGGTTAGGGAAATCTGG
92135918 TT
1 TT
92135920 AAGGAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.18, C:0.03, G:0.41, T:0.38
Consensus pattern (19 bp):
TTGGGTTAGGGAAATCTGG
Found at i:92138068 original size:18 final size:17
Alignment explanation
Indices: 92138045--92138078 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
92138035 TATAATGCAC
*
92138045 ATAAAAGTAAGGTAATAT
1 ATAAAAATAAGG-AATAT
92138063 ATAAAAATAAGGAATA
1 ATAAAAATAAGGAATA
92138079 ATAGTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (17 bp):
ATAAAAATAAGGAATAT
Found at i:92145636 original size:43 final size:44
Alignment explanation
Indices: 92145494--92145661 Score: 185
Period size: 44 Copynumber: 3.8 Consensus size: 44
92145484 GAGGAAGATT
* * * *
92145494 TGGCAACTTGTCTGTGAATTTGGTGGTTTTGTCCAAAACCTACA
1 TGGCAGCTTGTCTGTGAATTTGGTGGCTTTATCCACAACCTACA
* * * *
92145538 TGGCAGCTTGTCTGAGAATTTAGTAGCTTTATCCATAACCTACA
1 TGGCAGCTTGTCTGTGAATTTGGTGGCTTTATCCACAACCTACA
*
92145582 TGGCAACTTGTCTGTGAATTTGGTGG-TTTATCCACAACCTACA
1 TGGCAGCTTGTCTGTGAATTTGGTGGCTTTATCCACAACCTACA
* * * *** *
92145625 CGACAGTTTGTCTACAAATTTGGTGGCTTTGTCCACA
1 TGGCAGCTTGTCTGTGAATTTGGTGGCTTTATCCACA
92145662 TATATATTAG
Statistics
Matches: 103, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
43 35 0.34
44 68 0.66
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (44 bp):
TGGCAGCTTGTCTGTGAATTTGGTGGCTTTATCCACAACCTACA
Found at i:92146606 original size:19 final size:19
Alignment explanation
Indices: 92146582--92146623 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
92146572 CGCGTACTGG
92146582 CACACGAAGTGCATCCTGA
1 CACACGAAGTGCATCCTGA
*
92146601 CACACGAAGTGCATCCTGG
1 CACACGAAGTGCATCCTGA
92146620 CACA
1 CACA
92146624 TAAACACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.31, C:0.33, G:0.21, T:0.14
Consensus pattern (19 bp):
CACACGAAGTGCATCCTGA
Found at i:92161673 original size:18 final size:18
Alignment explanation
Indices: 92161624--92161667 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
92161614 TGTTGCTACT
92161624 ATTTTGTTGTTATTGTATA
1 ATTTTGTT-TTATTGTATA
*
92161643 ACTTTGTTTTATTGT-TA
1 ATTTTGTTTTATTGTATA
92161660 ATTTTGTT
1 ATTTTGTT
92161668 ACTATTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 7 0.30
19 7 0.30
ACGTcount: A:0.18, C:0.02, G:0.14, T:0.66
Consensus pattern (18 bp):
ATTTTGTTTTATTGTATA
Found at i:92176861 original size:25 final size:25
Alignment explanation
Indices: 92176833--92176880 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
92176823 AATATAAATT
* *
92176833 ATATACACAAACAATTATATTTACC
1 ATATACAAAAACAATTAAATTTACC
* *
92176858 ATATATAAAAATAATTAAATTTA
1 ATATACAAAAACAATTAAATTTA
92176881 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.35
Consensus pattern (25 bp):
ATATACAAAAACAATTAAATTTACC
Found at i:92182453 original size:27 final size:27
Alignment explanation
Indices: 92182401--92182469 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 27
92182391 ATGCCTTATT
**
92182401 GGTGTGTTTGGGAGGATATATTATATC
1 GGTGTGTTTGGGAGGATATACAATATC
*
92182428 GGTGTG-TTGTGGAGGATTTACAATATTCC
1 GGTGTGTTTG-GGAGGATATACAATA-T-C
92182457 GGGTGTGTTTGGG
1 -GGTGTGTTTGGG
92182470 TTGGATATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
26 3 0.09
27 18 0.53
28 1 0.03
29 1 0.03
30 8 0.24
31 3 0.09
ACGTcount: A:0.17, C:0.06, G:0.38, T:0.39
Consensus pattern (27 bp):
GGTGTGTTTGGGAGGATATACAATATC
Found at i:92182584 original size:48 final size:48
Alignment explanation
Indices: 92182528--92182643 Score: 232
Period size: 48 Copynumber: 2.4 Consensus size: 48
92182518 CCGAGCTTTA
92182528 TTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTATTTG
1 TTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTATTTG
92182576 TTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTATTTG
1 TTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTATTTG
92182624 TTAATAGGGTAAATAATTGA
1 TTAATAGGGTAAATAATTGA
92182644 TGTTTGTAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (48 bp):
TTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTATTTG
Found at i:92185322 original size:15 final size:15
Alignment explanation
Indices: 92185302--92185332 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
92185292 GAGGTCTTCG
92185302 ATTCCATCCAGTCAT
1 ATTCCATCCAGTCAT
92185317 ATTCCATCCAGTCAT
1 ATTCCATCCAGTCAT
92185332 A
1 A
92185333 GCCCCTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.32
Consensus pattern (15 bp):
ATTCCATCCAGTCAT
Found at i:92188402 original size:39 final size:39
Alignment explanation
Indices: 92188348--92188521 Score: 208
Period size: 40 Copynumber: 4.4 Consensus size: 39
92188338 AAACCAAGTA
* * * *
92188348 CCTTCGGAATTTAGCCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATG
*
92188387 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
*
92188427 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
* * * *
92188467 CCTTCGGG-CTTAGCCCGAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCGGATA-TAGTAACTCGCACAAATG
92188506 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
92188522 CGGTTATCAT
Statistics
Matches: 121, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
38 4 0.03
39 42 0.35
40 75 0.62
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
Found at i:92188425 original size:40 final size:40
Alignment explanation
Indices: 92188381--92188528 Score: 237
Period size: 40 Copynumber: 3.7 Consensus size: 40
92188371 GCTACTTGCT
92188381 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
92188421 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * *
92188461 CAAATGCCTTCGGG-CTTAGCCC-GAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
92188500 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
92188529 CATCCGAATA
Statistics
Matches: 99, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
38 2 0.02
39 32 0.32
40 63 0.64
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:92188480 original size:79 final size:80
Alignment explanation
Indices: 92188381--92188528 Score: 237
Period size: 79 Copynumber: 1.9 Consensus size: 80
92188371 GCTACTTGCT
** *
92188381 CAAATGCCTTCGGGACTTAGCCCG-GTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGAAAT-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCG
92188445 GTTATAGTAACTCGCA
65 GTTATAGTAACTCGCA
*
92188461 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
92188525 TTAT
66 TTAT
92188529 CATCCGAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
79 48 0.76
80 15 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
TTATAGTAACTCGCA
Found at i:92192806 original size:35 final size:35
Alignment explanation
Indices: 92192743--92192811 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 35
92192733 CTAGTTTTAG
*** *
92192743 TTTTATCCCCAAATCAGTTTCCCAAAATCTCTTAT
1 TTTTATCCCCAAATCAAAATCCCAAAATCCCTTAT
* *
92192778 TTTTTTCCCCAAATCAAAATCCCCAAATCCCTTA
1 TTTTATCCCCAAATCAAAATCCCAAAATCCCTTA
92192812 GATTTTCCCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.30, C:0.32, G:0.01, T:0.36
Consensus pattern (35 bp):
TTTTATCCCCAAATCAAAATCCCAAAATCCCTTAT
Found at i:92192886 original size:25 final size:25
Alignment explanation
Indices: 92192827--92192887 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
92192817 TCCCTGAATG
*
92192827 TCTGCTGCATCGCCGTCGACAGTCC
1 TCTGCTGCATCGCCATCGACAGTCC
* * *
92192852 TCTACCGCATCGCCATCGACAGTCT
1 TCTGCTGCATCGCCATCGACAGTCC
92192877 TCTGCTGCATC
1 TCTGCTGCATC
92192888 ACCTTGTAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.15, C:0.39, G:0.20, T:0.26
Consensus pattern (25 bp):
TCTGCTGCATCGCCATCGACAGTCC
Found at i:92201657 original size:34 final size:34
Alignment explanation
Indices: 92201595--92201659 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
92201585 ACATTTATCA
* * *
92201595 TCATGTCATTATTATTAACATATTTCATGGATTT
1 TCATGCCATTATTATTAACAAATATCATGGATTT
92201629 TCATGCCATTATTA-TAACCAAATATCATGGA
1 TCATGCCATTATTATTAA-CAAATATCATGGA
92201660 CTTATAACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 3 0.11
34 24 0.89
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (34 bp):
TCATGCCATTATTATTAACAAATATCATGGATTT
Found at i:92202033 original size:20 final size:18
Alignment explanation
Indices: 92201996--92202034 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
92201986 ATAGAAGCCC
*
92201996 ATATTTTTCCATTATTTT
1 ATATTTTTCCAATATTTT
92202014 ATATTTTTACCACATATTTT
1 ATATTTTT-CCA-ATATTTT
92202034 A
1 A
92202035 CACCTTTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 3 0.17
20 7 0.39
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTTTTCCAATATTTT
Found at i:92205762 original size:16 final size:17
Alignment explanation
Indices: 92205678--92205764 Score: 60
Period size: 16 Copynumber: 5.1 Consensus size: 17
92205668 TAAAGAAATG
92205678 TAAAATAATA-TT-TAA
1 TAAAATAATACTTATAA
*
92205693 GAAAAATAATAC--ATAA
1 -TAAAATAATACTTATAA
92205709 TAAGTAATAAT-CATATATAA
1 TAA--AATAATAC-T-TATAA
92205729 TTAAAATAATACTTATAA
1 -TAAAATAATACTTATAA
*
92205747 TAAAATAAT-TTTATAA
1 TAAAATAATACTTATAA
92205763 TA
1 TA
92205765 TATAATATAA
Statistics
Matches: 58, Mismatches: 3, Indels: 20
0.72 0.04 0.25
Matches are distributed among these distances:
15 2 0.03
16 21 0.36
17 15 0.26
18 5 0.09
19 7 0.12
20 5 0.09
21 3 0.05
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (17 bp):
TAAAATAATACTTATAA
Found at i:92207553 original size:27 final size:25
Alignment explanation
Indices: 92207495--92207555 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
92207485 AATTTTGAGT
*
92207495 TTTATAATAATTTAATAATATATAA
1 TTTATTATAATTTAATAATATATAA
*
92207520 TGT-TTATAATATTAA-AATTATATGAA
1 TTTATTATAAT-TTAATAA-TATAT-AA
92207546 TTTATTATAA
1 TTTATTATAA
92207556 ATAAGTATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 8 0.28
25 11 0.38
26 4 0.14
27 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
TTTATTATAATTTAATAATATATAA
Found at i:92208518 original size:16 final size:16
Alignment explanation
Indices: 92208497--92208532 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
92208487 TGGTTCACTA
*
92208497 TAATGGAATAGGGCTG
1 TAATGGAATAGAGCTG
92208513 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTG
92208529 TAAT
1 TAAT
92208533 CAGTAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.31, T:0.28
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:92208731 original size:26 final size:26
Alignment explanation
Indices: 92208701--92208794 Score: 71
Period size: 26 Copynumber: 3.4 Consensus size: 26
92208691 TTGTTATTAA
92208701 ATTTTAATAAAATTATTATTAAATAT
1 ATTTTAATAAAATTATTATTAAATAT
* * **
92208727 ATTTTATTAAAAATAATAAATAATTTAACCAT
1 ATTTTAAT-AAAAT--T--ATTA-TTAAATAT
* *
92208759 ATTTTAACATAATTATTATTAAATAT
1 ATTTTAATAAAATTATTATTAAATAT
*
92208785 AATTTAATAA
1 ATTTTAATAA
92208795 TAAATACAAT
Statistics
Matches: 49, Mismatches: 13, Indels: 12
0.66 0.18 0.16
Matches are distributed among these distances:
26 20 0.41
27 8 0.16
29 2 0.04
31 7 0.14
32 12 0.24
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTTTAATAAAATTATTATTAAATAT
Found at i:92208800 original size:17 final size:17
Alignment explanation
Indices: 92208778--92208811 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
92208768 TAATTATTAT
*
92208778 TAAATATAATTTAATAA
1 TAAATACAATTTAATAA
92208795 TAAATACAATTTAATAA
1 TAAATACAATTTAATAA
92208812 CATTCTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATACAATTTAATAA
Found at i:92208826 original size:55 final size:57
Alignment explanation
Indices: 92208704--92208832 Score: 140
Period size: 58 Copynumber: 2.3 Consensus size: 57
92208694 TTATTAAATT
* * * *
92208704 TTAATAAAATTATTATTAAATATATTTTATTAAAAATAATAAATAATTTAACCATATT
1 TTAATATAATTATTATTAAATATAATTTAATAAAAATAATAAATAA-TTAACCATATC
* **
92208762 TTAACATAATTATTATTAAATATAATTTAATAATAAATACA-ATTTAA-TAA-CAT-TC
1 TTAATATAATTATTATTAAATATAATTTAATAA-AAATA-ATAAATAATTAACCATATC
92208817 TTAATATAATTATTAT
1 TTAATATAATTATTAT
92208833 ATGAATTAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
55 16 0.26
56 3 0.05
57 3 0.05
58 29 0.48
59 9 0.15
60 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (57 bp):
TTAATATAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTAACCATATC
Found at i:92212457 original size:12 final size:12
Alignment explanation
Indices: 92212440--92212464 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92212430 CCGTATCAAC
92212440 TACAGAACCAAA
1 TACAGAACCAAA
92212452 TACAGAACCAAA
1 TACAGAACCAAA
92212464 T
1 T
92212465 CGAATCAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.24, G:0.08, T:0.12
Consensus pattern (12 bp):
TACAGAACCAAA
Found at i:92213307 original size:57 final size:59
Alignment explanation
Indices: 92213244--92213365 Score: 158
Period size: 57 Copynumber: 2.1 Consensus size: 59
92213234 TCATATTCAT
* *
92213244 TTTTCATTTTCATTTTAAAGAAAACCACATTAATTTCCAAATGA-TTC-CATTTCTCCA
1 TTTTCATTTTCATTTTAAAGAAAACCACAATAATTTCCAAATAATTTCTCATTTCTCCA
** * * * *
92213301 TTTTCATTTTCATTTTGGAGAAAACTATAATCATTTCCAAATAATTTCTCATTTCTCTA
1 TTTTCATTTTCATTTTAAAGAAAACCACAATAATTTCCAAATAATTTCTCATTTCTCCA
92213360 TTTTCA
1 TTTTCA
92213366 ACCATTTCTG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 37 0.67
58 3 0.05
59 15 0.27
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (59 bp):
TTTTCATTTTCATTTTAAAGAAAACCACAATAATTTCCAAATAATTTCTCATTTCTCCA
Found at i:92216182 original size:34 final size:34
Alignment explanation
Indices: 92216144--92216211 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
92216134 TCTGTCTTCA
92216144 CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
1 CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
*
92216178 CCAACCATGTGTATTGCTTTAGCTGCCTATTGAC
1 CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
92216212 ATTGACCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.34
Consensus pattern (34 bp):
CCAACCATGTGTATTGCTTTAGCTGCCCATTGAC
Found at i:92220624 original size:10 final size:9
Alignment explanation
Indices: 92220600--92220625 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
92220590 ACAAGGTTGA
92220600 TTAAAAATT
1 TTAAAAATT
92220609 TTAAAAATT
1 TTAAAAATT
92220618 TTAAAAAT
1 TTAAAAAT
92220626 AAATAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TTAAAAATT
Found at i:92224245 original size:48 final size:46
Alignment explanation
Indices: 92224160--92224263 Score: 163
Period size: 48 Copynumber: 2.2 Consensus size: 46
92224150 TTGGCATATG
* *
92224160 TATTATTATTAATGTAAGAGAATGTGAGTTTAAGTACGCTGAAACC
1 TATTATTATCAATGTAAGAGAAGGTGAGTTTAAGTACGCTGAAACC
*
92224206 TATTATTATCAATGTATAGGTGAAGGTGAGTTTAAGTACGCTGAAACC
1 TATTATTATCAATGTA-A-GAGAAGGTGAGTTTAAGTACGCTGAAACC
92224254 TATTATTATC
1 TATTATTATC
92224264 TTATTTTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
46 15 0.28
47 1 0.02
48 37 0.70
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.37
Consensus pattern (46 bp):
TATTATTATCAATGTAAGAGAAGGTGAGTTTAAGTACGCTGAAACC
Found at i:92229560 original size:17 final size:17
Alignment explanation
Indices: 92229538--92229571 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
92229528 ATAAACTAAC
92229538 AGAAACGCCACTAGAAT
1 AGAAACGCCACTAGAAT
92229555 AGAAACGCCACTAGAAT
1 AGAAACGCCACTAGAAT
92229572 TAGATGGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.12
Consensus pattern (17 bp):
AGAAACGCCACTAGAAT
Found at i:92231028 original size:16 final size:16
Alignment explanation
Indices: 92231007--92231039 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
92230997 TGCGTTTGAG
92231007 ACTTAGAAGGAGTTTC
1 ACTTAGAAGGAGTTTC
92231023 ACTTAGAAGGAGTTTC
1 ACTTAGAAGGAGTTTC
92231039 A
1 A
92231040 AAAAAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (16 bp):
ACTTAGAAGGAGTTTC
Found at i:92231829 original size:8 final size:8
Alignment explanation
Indices: 92231812--92231875 Score: 62
Period size: 8 Copynumber: 8.4 Consensus size: 8
92231802 AACAAACTGA
92231812 AGGG-TTT
1 AGGGTTTT
92231819 AGGGTTTT
1 AGGGTTTT
92231827 AGGGTTTT
1 AGGGTTTT
*
92231835 A-GGATTT
1 AGGGTTTT
* *
92231842 A-AGCTTT
1 AGGGTTTT
92231849 AGGGTTTT
1 AGGGTTTT
*
92231857 AGAGTTTT
1 AGGGTTTT
*
92231865 AGAGTTTT
1 AGGGTTTT
92231873 AGG
1 AGG
92231876 CTTTCTTTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
7 15 0.31
8 33 0.69
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.45
Consensus pattern (8 bp):
AGGGTTTT
Found at i:92231836 original size:355 final size:360
Alignment explanation
Indices: 92231181--92231902 Score: 1177
Period size: 355 Copynumber: 2.0 Consensus size: 360
92231171 AAATAAGCAT
* *
92231181 TCTACTAGTTCGAAGATGGGTTGAAGTCTTGGGCAAAATAGGAGATGCATCGACAAGGTATCATT
1 TCTACTAGTTCAAAGATGGGTTGAAGTATTGGGCAAAATAGGAGATGCATCGACAAGG-ATCATT
*
92231246 AAACTTACTATAGCCATGGCTAATGCAAAGCCCTTTGTCGAGCTTTGTCTAATGAAAGACAAGTT
65 AAACTTACTATAGCCATGGCTAAGGCAAAGCCCTTTGTCGAGCTTTGTCTAATGAAAGACAAGTT
*
92231311 CAAGTCTTCCGATCCCAAAGAGATAAACAATGGTGCGAGAAACCATGAGGAAGAGGGACAAGTTG
130 CAAGTCTTCCGAGCCCAAAGAGATAAACAATGGTGCGAGAAACCATGAGGAAGAGGGACAAGTTG
* * * *
92231376 AAAATGGAAATAGTGGAAATCGTAAGAATGGTGGTAATGAGAAACCACATAATGGGAAGTGGAAG
195 AAAATGGAAATAGTGAAAATCGTAAGAATGGTGGTAATGAGAAACCACATAATAGAAAGTAGAAG
92231441 TCTAACAACAAACTGAAGGGTTTAGGGTTTTAAAGTTTTAGAATTTAGAG-TTTAGGGTTTT-AG
260 TCTAACAACAAACTGAAGGGTTTAGGGTTTTAAAGTTTTAGAATTTA-AGCTTTAGGGTTTTAAG
92231504 -G-GTTTTAGGCTTTCTTTATGACAATTCGCGTATAA
324 TGAGTTTTAGGCTTTCTTTATGACAATTCGCGTATAA
* * **
92231539 TCTACTATTTCAAAGATGGGTTGAAGTATTGGGCAAAATAGGAGTTGTGTCGACAAGG-T-ATTA
1 TCTACTAGTTCAAAGATGGGTTGAAGTATTGGGCAAAATAGGAGATGCATCGACAAGGATCATTA
92231602 AACTTACTATAGCCATGGCTAAGGCAAAGCCCTTTGTCGAGCTTTGTCTAATGAAAGACAAGTTC
66 AACTTACTATAGCCATGGCTAAGGCAAAGCCCTTTGTCGAGCTTTGTCTAATGAAAGACAAGTTC
* *
92231667 AAGTCTTCCGAGCCCAAAGAGATAGACAATGGTGCGAGAAACCATGGGGAAGAGGGACAAGTTGA
131 AAGTCTTCCGAGCCCAAAGAGATAAACAATGGTGCGAGAAACCATGAGGAAGAGGGACAAGTTGA
*
92231732 AAATGGAAATAGTGAAAATCGTAAGAATGGTGGTAATGAGAAATCACATAATAGAAAGTAGAAGT
196 AAATGGAAATAGTGAAAATCGTAAGAATGGTGGTAATGAGAAACCACATAATAGAAAGTAGAAGT
** *
92231797 CTAACAACAAACTGAAGGGTTTAGGGTTTTAGGGTTTTAGGATTTAAGCTTTAGGGTTTTAGAGT
261 CTAACAACAAACTGAAGGGTTTAGGGTTTTAAAGTTTTAGAATTTAAGCTTTAGGGTTTTA-AG-
92231862 TTTAGAGTTTTAGGCTTTCTTTATGACAATTCGCGTATAA
324 --T-GAGTTTTAGGCTTTCTTTATGACAATTCGCGTATAA
92231902 T
1 T
92231903 AAGGAATTGT
Statistics
Matches: 337, Mismatches: 18, Indels: 13
0.92 0.05 0.04
Matches are distributed among these distances:
354 2 0.01
355 244 0.72
356 1 0.00
357 2 0.01
358 52 0.15
362 1 0.00
363 35 0.10
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (360 bp):
TCTACTAGTTCAAAGATGGGTTGAAGTATTGGGCAAAATAGGAGATGCATCGACAAGGATCATTA
AACTTACTATAGCCATGGCTAAGGCAAAGCCCTTTGTCGAGCTTTGTCTAATGAAAGACAAGTTC
AAGTCTTCCGAGCCCAAAGAGATAAACAATGGTGCGAGAAACCATGAGGAAGAGGGACAAGTTGA
AAATGGAAATAGTGAAAATCGTAAGAATGGTGGTAATGAGAAACCACATAATAGAAAGTAGAAGT
CTAACAACAAACTGAAGGGTTTAGGGTTTTAAAGTTTTAGAATTTAAGCTTTAGGGTTTTAAGTG
AGTTTTAGGCTTTCTTTATGACAATTCGCGTATAA
Found at i:92233246 original size:75 final size:75
Alignment explanation
Indices: 92233167--92233312 Score: 175
Period size: 75 Copynumber: 1.9 Consensus size: 75
92233157 TTGCCACAAA
* * * * * * * *
92233167 GGCTTTCCAGATTATACGTCACATAAGCTTTTTACATAACTTGTCACAATGACTTTCCAGATAAT
1 GGCTTTCAAGATAATACGCCACATAAGATTTTCAAATAACTTGACACAAAGACTTTCCAGATAAT
92233232 ACGCCATAAT
66 ACGCCATAAT
* * * *
92233242 GGCTTTTAAGATAATACGCCACATAGGATTTTCAAATAACTTGACACAAAGGCTTTCTAGATAAT
1 GGCTTTCAAGATAATACGCCACATAAGATTTTCAAATAACTTGACACAAAGACTTTCCAGATAAT
*
92233307 ATGCCA
66 ACGCCA
92233313 CATAAGCCTT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
75 58 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.32
Consensus pattern (75 bp):
GGCTTTCAAGATAATACGCCACATAAGATTTTCAAATAACTTGACACAAAGACTTTCCAGATAAT
ACGCCATAAT
Found at i:92233314 original size:25 final size:25
Alignment explanation
Indices: 92233158--92233314 Score: 72
Period size: 25 Copynumber: 6.3 Consensus size: 25
92233148 TCAAATAACT
* *
92233158 TGCCACAAAGGCTTTCCAGATTATA
1 TGCCACAAAGGCTTTCTAGATAATA
* * * *
92233183 CGTCACATAA-GCTTTTTACATAACT-
1 TGCCACA-AAGGCTTTCTAGATAA-TA
* * * *
92233208 TGTCACAATGACTTTCCAGATAATA
1 TGCCACAAAGGCTTTCTAGATAATA
* * *
92233233 CGCCATAATGGCTTT-TAAGATAATA
1 TGCCACAAAGGCTTTCT-AGATAATA
* * * *
92233258 CGCCACATAGGATTT-TCAAATAACT-
1 TGCCACAAAGGCTTTCT-AGATAA-TA
*
92233283 TGACACAAAGGCTTTCTAGATAATA
1 TGCCACAAAGGCTTTCTAGATAATA
92233308 TGCCACA
1 TGCCACA
92233315 TAAGCCTTGT
Statistics
Matches: 95, Mismatches: 29, Indels: 16
0.68 0.21 0.11
Matches are distributed among these distances:
24 3 0.03
25 87 0.92
26 5 0.05
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (25 bp):
TGCCACAAAGGCTTTCTAGATAATA
Found at i:92234950 original size:12 final size:12
Alignment explanation
Indices: 92234935--92235167 Score: 72
Period size: 12 Copynumber: 19.7 Consensus size: 12
92234925 TTGTTATTTA
92234935 TATTATTACTAT
1 TATTATTACTAT
*** *
92234947 TATTAACGCTCT
1 TATTATTACTAT
*
92234959 TATTATTGCTAT
1 TATTATTACTAT
** *
92234971 TATTATCCCTTT
1 TATTATTACTAT
*
92234983 TACTATTACTAT
1 TATTATTACTAT
* *
92234995 TATTACTATCTTT
1 TATTATTA-CTAT
* *
92235008 TTTTATGT-TTAT
1 TATTAT-TACTAT
* *
92235020 TTTTATTAATAT
1 TATTATTACTAT
*
92235032 TATTATTA-TAA
1 TATTATTACTAT
* *
92235043 TCTTATT-TTAT
1 TATTATTACTAT
*
92235054 TACTATTA-TCAT
1 TATTATTACT-AT
*
92235066 T-TT-TTA-AAT
1 TATTATTACTAT
*
92235075 TATTGTTACTAT
1 TATTATTACTAT
* *
92235087 TATTCTTTTACCA-
1 TA-T-TATTACTAT
*
92235100 T-TTAATAC-AT
1 TATTATTACTAT
*
92235110 TATTATTGCTAT
1 TATTATTACTAT
* * *
92235122 TTTTGTTATTAT
1 TATTATTACTAT
*
92235134 TACTATTACTATT
1 TATTATTACTA-T
92235147 GTATTATTACTAT
1 -TATTATTACTAT
92235160 TATTATTA
1 TATTATTA
92235168 TTACATTTTC
Statistics
Matches: 159, Mismatches: 46, Indels: 32
0.67 0.19 0.14
Matches are distributed among these distances:
9 4 0.03
10 10 0.06
11 27 0.17
12 90 0.57
13 11 0.07
14 17 0.11
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:92234962 original size:24 final size:24
Alignment explanation
Indices: 92234935--92234999 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
92234925 TTGTTATTTA
*
92234935 TATTATTACTATTATTAACGCTCT
1 TATTATTACTATTATTAACCCTCT
* * *
92234959 TATTATTGCTATTATTATCCCTTT
1 TATTATTACTATTATTAACCCTCT
*
92234983 TACTATTACTATTATTA
1 TATTATTACTATTATTA
92235000 CTATCTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.54
Consensus pattern (24 bp):
TATTATTACTATTATTAACCCTCT
Found at i:92235153 original size:20 final size:20
Alignment explanation
Indices: 92235128--92235166 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
92235118 CTATTTTTGT
92235128 TATTATTACTATTACTATTG
1 TATTATTACTATTACTATTG
*
92235148 TATTATTACTATTATTATT
1 TATTATTACTATTACTATT
92235167 ATTACATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.59
Consensus pattern (20 bp):
TATTATTACTATTACTATTG
Found at i:92235558 original size:3 final size:3
Alignment explanation
Indices: 92235331--92235542 Score: 146
Period size: 3 Copynumber: 70.7 Consensus size: 3
92235321 CAAACTTTAG
* **
92235331 ATT ATTT ATT ATT -TGT ATT ATT ATT ATT ATT ACT ATTT ATT ATT ACC
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * * *
92235378 ATT ATT ATT ACT ATT ATT TTT ACTT -TT ATT ACT ATT ACT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
92235422 ATT TTT ATT TTT ATT TTT ATT TTCT ATT ACT ATT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
92235468 AAT ACT AAT ATT AAT ATT CTT ATT ATT ATT ATT ATT ATT ATC ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
92235516 ATT ATT ATT -TT -TT ACT ACT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
92235543 CGTCTTCATT
Statistics
Matches: 161, Mismatches: 39, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
2 9 0.06
3 142 0.88
4 10 0.06
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:92235831 original size:16 final size:17
Alignment explanation
Indices: 92235804--92235836 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
92235794 TCGATGTATT
*
92235804 AAAATAATTATTTCATA
1 AAAATAATTATTCCATA
92235821 AAAATAA-TATTCCATA
1 AAAATAATTATTCCATA
92235837 TTTAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATAATTATTCCATA
Found at i:92237917 original size:30 final size:30
Alignment explanation
Indices: 92237881--92237940 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
92237871 AAGACAAGTA
92237881 AATATTTAAACTTATTTTTTAAAAAAATAT
1 AATATTTAAACTTATTTTTTAAAAAAATAT
92237911 AATATTTAAACTTATTTTTTAAAAAAATAT
1 AATATTTAAACTTATTTTTTAAAAAAATAT
92237941 TTAGGCATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (30 bp):
AATATTTAAACTTATTTTTTAAAAAAATAT
Found at i:92238305 original size:24 final size:23
Alignment explanation
Indices: 92238278--92238329 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
92238268 ATTTGAAGTT
*
92238278 ATATTA-AAAACTGCATTTTAAAAA
1 ATATTACAAAA-TG-ATATTAAAAA
*
92238302 ATATTACAAAATGATATTAATAA
1 ATATTACAAAATGATATTAAAAA
92238325 ATATT
1 ATATT
92238330 TTTTTTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 13 0.52
24 8 0.32
25 4 0.16
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (23 bp):
ATATTACAAAATGATATTAAAAA
Found at i:92243155 original size:20 final size:20
Alignment explanation
Indices: 92243130--92243169 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
92243120 TAGAGATGGT
92243130 AATAAAGATTCTGGCTGGAC
1 AATAAAGATTCTGGCTGGAC
92243150 AATAAAGATTCTGGCTGGAC
1 AATAAAGATTCTGGCTGGAC
92243170 TCATGGGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (20 bp):
AATAAAGATTCTGGCTGGAC
Found at i:92261507 original size:45 final size:45
Alignment explanation
Indices: 92261435--92261521 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
92261425 CAAATCTACC
*
92261435 CTTTGAACTTAATTCTTATTAGCTTAATGAA-ATATAATGACTTAT
1 CTTTGAACTTAATTCTTACTAGCTTAAT-AACATATAATGACTTAT
* *
92261480 CTTTTAACTTAATTCTTACTAGTTTAATAACATATAATGACT
1 CTTTGAACTTAATTCTTACTAGCTTAATAACATATAATGACT
92261522 AATAAATAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 2 0.05
45 36 0.95
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (45 bp):
CTTTGAACTTAATTCTTACTAGCTTAATAACATATAATGACTTAT
Found at i:92266064 original size:14 final size:16
Alignment explanation
Indices: 92266045--92266083 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
92266035 TAATTCATGA
92266045 TTCAAAAATT-TC-AT
1 TTCAAAAATTGTCAAT
92266059 TTCAAAAATTGTCAAT
1 TTCAAAAATTGTCAAT
*
92266075 TCCAAAAAT
1 TTCAAAAAT
92266084 GATAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
15 2 0.09
16 10 0.45
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (16 bp):
TTCAAAAATTGTCAAT
Found at i:92268605 original size:17 final size:17
Alignment explanation
Indices: 92268583--92268643 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 17
92268573 AGTCATCTTA
92268583 ACATTATTTAAATATTT
1 ACATTATTTAAATATTT
92268600 ACATTA--TAATAGTCATCTT
1 ACATTATTTAA-A-T-AT-TT
92268619 AACATTATTTAAATATTT
1 -ACATTATTTAAATATTT
92268637 ACATTAT
1 ACATTAT
92268644 AGTAGTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
15 3 0.08
16 1 0.03
17 14 0.38
18 4 0.11
19 4 0.11
20 7 0.19
21 1 0.03
22 3 0.08
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.48
Consensus pattern (17 bp):
ACATTATTTAAATATTT
Found at i:92268619 original size:37 final size:37
Alignment explanation
Indices: 92268567--92268649 Score: 150
Period size: 37 Copynumber: 2.3 Consensus size: 37
92268557 TTGAATTTTT
92268567 TTAT-ATAGTCATCTTAACATTATTTAAATATTTACA
1 TTATAATAGTCATCTTAACATTATTTAAATATTTACA
92268603 TTATAATAGTCATCTTAACATTATTTAAATATTTACA
1 TTATAATAGTCATCTTAACATTATTTAAATATTTACA
*
92268640 TTATAGTAGT
1 TTATAATAGT
92268650 ATTATATATT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
36 4 0.09
37 41 0.91
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.47
Consensus pattern (37 bp):
TTATAATAGTCATCTTAACATTATTTAAATATTTACA
Found at i:92268625 original size:20 final size:20
Alignment explanation
Indices: 92268567--92268626 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
92268557 TTGAATTTTT
92268567 TTAT-ATAGTCATCTTAACA
1 TTATAATAGTCATCTTAACA
92268586 TTATTTAA-A-T-AT-TT-ACA
1 TTA--TAATAGTCATCTTAACA
92268603 TTATAATAGTCATCTTAACA
1 TTATAATAGTCATCTTAACA
92268623 TTAT
1 TTAT
92268627 TTAAATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 15
0.69 0.00 0.31
Matches are distributed among these distances:
15 3 0.09
16 1 0.03
17 7 0.21
18 4 0.12
19 7 0.21
20 8 0.24
21 2 0.06
22 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (20 bp):
TTATAATAGTCATCTTAACA
Found at i:92269760 original size:21 final size:23
Alignment explanation
Indices: 92269734--92269776 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
92269724 ATTATAACAC
*
92269734 TTTTTTTTATAA-ATA-AGTATA
1 TTTTTTGTATAATATATAGTATA
92269755 TTTTTTGTATAATATATAGTAT
1 TTTTTTGTATAATATATAGTAT
92269777 GCACATGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 3 0.16
23 5 0.26
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (23 bp):
TTTTTTGTATAATATATAGTATA
Found at i:92269911 original size:22 final size:24
Alignment explanation
Indices: 92269881--92269924 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
92269871 ACACAAATTA
92269881 ATTTCATAATATA-TTTTTTTAGG
1 ATTTCATAATATAGTTTTTTTAGG
92269904 ATTT-ATAATATAGTTTTTTTA
1 ATTTCATAATATAGTTTTTTTA
92269925 AAAAAGTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (24 bp):
ATTTCATAATATAGTTTTTTTAGG
Found at i:92270597 original size:22 final size:22
Alignment explanation
Indices: 92270569--92270610 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
92270559 AATTTAAAAT
92270569 TTATATT-TATTAAATAATTTAA
1 TTATATTCTA-TAAATAATTTAA
*
92270591 TTATATTCTATAATTAATTT
1 TTATATTCTATAAATAATTT
92270611 TAAAGAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATATTCTATAAATAATTTAA
Found at i:92270845 original size:23 final size:23
Alignment explanation
Indices: 92270819--92270866 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
92270809 AATAAGGTCA
92270819 GTCGCAACCTAAAGCACGAGGAT
1 GTCGCAACCTAAAGCACGAGGAT
92270842 GTCGCAACCTAAAGCACGAGGAT
1 GTCGCAACCTAAAGCACGAGGAT
92270865 GT
1 GT
92270867 TGAGCAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.27, T:0.15
Consensus pattern (23 bp):
GTCGCAACCTAAAGCACGAGGAT
Found at i:92271127 original size:21 final size:22
Alignment explanation
Indices: 92271081--92271127 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
92271071 TTTTTTTCTG
* *
92271081 TTTTTTATTGTTTTATTGATAT
1 TTTTTTATTGTTTTACTCATAT
92271103 TTTTTTATTG-TTTACTCATTAT
1 TTTTTTATTGTTTTACTCA-TAT
92271125 TTT
1 TTT
92271128 ATTACAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.72
Consensus pattern (22 bp):
TTTTTTATTGTTTTACTCATAT
Found at i:92273540 original size:20 final size:20
Alignment explanation
Indices: 92273498--92273563 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
92273488 ATATAAATAT
*
92273498 TTATT-AATTATTATTATT-
1 TTATTAAATTATAATTATTA
*
92273516 CTATTAAATTATAATT-TATA
1 TTATTAAATTATAATTAT-TA
*
92273536 TTATTAAATTATGATTATTA
1 TTATTAAATTATAATTATTA
92273556 TTATTAAA
1 TTATTAAA
92273564 AATAAATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 5 0.12
19 10 0.25
20 24 0.60
21 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTATTAAATTATAATTATTA
Found at i:92273831 original size:3 final size:3
Alignment explanation
Indices: 92273825--92273850 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
92273815 AATAATAATA
92273825 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
92273851 AAAGTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:92273875 original size:13 final size:14
Alignment explanation
Indices: 92273857--92273903 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 14
92273847 TTATAAAGTT
92273857 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
92273870 AATAAAAGAAATGA
1 AATAAAATAAAAGA
92273884 AATAAAAT-AAAGA
1 AATAAAATAAAAGA
92273897 AATAAAA
1 AATAAAA
92273904 CAAAGTAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 22 0.76
14 7 0.24
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.15
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:92273897 original size:18 final size:18
Alignment explanation
Indices: 92273861--92273915 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
92273851 AAAGTTAATA
* *
92273861 AAATAAAAGAATA-AAAG
1 AAATAAAACAAAATAAAG
* *
92273878 AAATGAAATAAAATAAAG
1 AAATAAAACAAAATAAAG
*
92273896 AAATAAAACAAAGTAAAG
1 AAATAAAACAAAATAAAG
92273914 AA
1 AA
92273916 GAAACAGAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
17 10 0.32
18 21 0.68
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.13
Consensus pattern (18 bp):
AAATAAAACAAAATAAAG
Found at i:92275019 original size:45 final size:45
Alignment explanation
Indices: 92274969--92275075 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 45
92274959 CGACTACTGT
92274969 TACTGTTAACGTTACTGTTATC-GATTC-GACACTTTGTGTGTCGAA
1 TACTGTTAACGTTACTGTTA-CAGATTCAG-CACTTTGTGTGTCGAA
* *
92275014 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTAACGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
92275059 TACTGTT-ACTGTTACTG
1 TACTGTTAAC-GTTACTG
92275076 CTACTGCTAC
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
44 2 0.04
45 53 0.95
46 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (45 bp):
TACTGTTAACGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:92276190 original size:27 final size:27
Alignment explanation
Indices: 92276135--92276198 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
92276125 AAAATGTCTC
*
92276135 TAAATTAAT-AAATATTAATTCATCGA
1 TAAATTAATAAAATATTAATTCATCAA
92276161 TAAATTAATAAAATATTAA-TCTATCAA
1 TAAATTAATAAAATATTAATTC-ATCAA
*
92276188 TAAACTAATAA
1 TAAATTAATAA
92276199 CCTCGATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 11 0.32
27 23 0.68
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.36
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTCATCAA
Found at i:92277111 original size:1 final size:1
Alignment explanation
Indices: 92277105--92277131 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
92277095 TCAGCTCTAG
92277105 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
92277132 GTCGTGTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:92286445 original size:23 final size:23
Alignment explanation
Indices: 92286411--92286454 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
92286401 TTCTACCCAT
92286411 AATTATCATCTCAACA-CAAAGG
1 AATTATCATCTCAACATCAAAGG
* *
92286433 AATTGATCTTCTCTACATCAAA
1 AATT-ATCATCTCAACATCAAA
92286455 CCAAAGCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.30
Consensus pattern (23 bp):
AATTATCATCTCAACATCAAAGG
Found at i:92288821 original size:6 final size:6
Alignment explanation
Indices: 92288810--92288850 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
92288800 AACAGCAGTT
* * *
92288810 CCAGCA CCAGCA CCAGCA CCAACA CCAACA CCAACA CCAGC
1 CCAGCA CCAGCA CCAGCA CCAGCA CCAGCA CCAGCA CCAGC
92288851 CCCCTCCCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.39, C:0.51, G:0.10, T:0.00
Consensus pattern (6 bp):
CCAGCA
Found at i:92288827 original size:12 final size:12
Alignment explanation
Indices: 92288810--92288850 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
92288800 AACAGCAGTT
*
92288810 CCAGCACCAGCA
1 CCAGCACCAACA
92288822 CCAGCACCAACA
1 CCAGCACCAACA
*
92288834 CCAACACCAACA
1 CCAGCACCAACA
92288846 CCAGC
1 CCAGC
92288851 CCCCTCCCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.39, C:0.51, G:0.10, T:0.00
Consensus pattern (12 bp):
CCAGCACCAACA
Found at i:92293802 original size:18 final size:16
Alignment explanation
Indices: 92293773--92293823 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
92293763 ATTTTAATTA
*
92293773 TTTTAAAAAATATATT
1 TTTTTAAAAATATATT
92293789 TTTATTAAATAATAT-TT
1 TTT-TTAAA-AATATATT
92293806 TTTTTAAAAATA-ATT
1 TTTTTAAAAATATATT
92293821 TTT
1 TTT
92293824 CTGACAAGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 9 0.29
16 8 0.26
17 9 0.29
18 5 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTTAAAAATATATT
Found at i:92293805 original size:16 final size:16
Alignment explanation
Indices: 92293780--92293823 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
92293770 TTATTTTAAA
92293780 AAAT-ATATTTTTATT
1 AAATAATATTTTTATT
*
92293795 AAATAATATTTTTTTT
1 AAATAATATTTTTATT
92293811 AAA-AATAATTTTT
1 AAATAAT-ATTTTT
92293824 CTGACAAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 7 0.27
16 19 0.73
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AAATAATATTTTTATT
Found at i:92303043 original size:7 final size:7
Alignment explanation
Indices: 92303031--92303056 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
92303021 GTTAGTTTTG
92303031 TTTATAA
1 TTTATAA
92303038 TTTATAA
1 TTTATAA
92303045 TTTATAA
1 TTTATAA
92303052 TTTAT
1 TTTAT
92303057 TTTTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTATAA
Found at i:92310654 original size:22 final size:23
Alignment explanation
Indices: 92310624--92310674 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
92310614 AAAATTAAGT
92310624 GAGAA-TTAAAAG-GGAATTGAGA
1 GAGAATTTAAAAGAGG-ATTGAGA
*
92310646 GA-AATTTAAAAGAGGTTTGAGA
1 GAGAATTTAAAAGAGGATTGAGA
92310668 GAGAATT
1 GAGAATT
92310675 GAGAATGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.08
22 17 0.68
23 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (23 bp):
GAGAATTTAAAAGAGGATTGAGA
Found at i:92313185 original size:5 final size:5
Alignment explanation
Indices: 92313175--92313202 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
92313165 ACACACAAAA
92313175 ATTAT ATTAT ATTAT ATTAT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATT
92313203 GTTATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTAT
Found at i:92316349 original size:15 final size:16
Alignment explanation
Indices: 92316325--92316357 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
92316315 ACTAATTTTT
92316325 TTTATATTTT-TAATA
1 TTTATATTTTATAATA
*
92316340 TTTATTTTTTATAATA
1 TTTATATTTTATAATA
92316356 TT
1 TT
92316358 ATAATGGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTATATTTTATAATA
Found at i:92321263 original size:53 final size:53
Alignment explanation
Indices: 92321140--92321248 Score: 200
Period size: 53 Copynumber: 2.1 Consensus size: 53
92321130 TATCTCAAAC
*
92321140 TCTCTTGAATGTCTTTTTTGTGGTAAGGAATGAGAATTTAGGAACCATCTTCT
1 TCTCTTGAATGTCTTTTTTGTGGTAAGGAATGAGAATCTAGGAACCATCTTCT
*
92321193 TCTCTTGAATGTCTTTTTTGTGGTAAGGAATGAGAATCTAGGAACCATTTTCT
1 TCTCTTGAATGTCTTTTTTGTGGTAAGGAATGAGAATCTAGGAACCATCTTCT
92321246 TCT
1 TCT
92321249 TCTTCTTTTC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (53 bp):
TCTCTTGAATGTCTTTTTTGTGGTAAGGAATGAGAATCTAGGAACCATCTTCT
Found at i:92321265 original size:11 final size:10
Alignment explanation
Indices: 92321251--92321288 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
92321241 TTTCTTCTTC
92321251 TTCTTTTCTTT
1 TTCTTTT-TTT
*
92321262 TTCTATTTTT
1 TTCTTTTTTT
92321272 TTCTTTTTTT
1 TTCTTTTTTT
92321282 TT-TTTTT
1 TTCTTTTT
92321289 GCAAATAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 5 0.20
10 14 0.56
11 6 0.24
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:92321284 original size:14 final size:14
Alignment explanation
Indices: 92321240--92321287 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
92321230 CTAGGAACCA
* * *
92321240 TTTTCTTCTTCTTC
1 TTTTCTTTTTTTTT
92321254 TTTTCTTTTTCTATTT
1 TTTTCTTTTT-T-TTT
92321270 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
92321284 TTTT
1 TTTT
92321288 TGCAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 16 0.55
15 1 0.03
16 12 0.41
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTCTTTTTTTTT
Found at i:92321288 original size:16 final size:16
Alignment explanation
Indices: 92321254--92321287 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
92321244 CTTCTTCTTC
92321254 TTTTCTTTTTCTATTT
1 TTTTCTTTTTCTATTT
92321270 TTTTCTTTTT-T-TTT
1 TTTTCTTTTTCTATTT
92321284 TTTT
1 TTTT
92321288 TGCAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 1 0.06
16 10 0.56
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTCTTTTTCTATTT
Found at i:92328096 original size:17 final size:17
Alignment explanation
Indices: 92328071--92328104 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
92328061 TAATGATAAA
*
92328071 TTTCATTGAAAAGTACT
1 TTTCATTGAAAACTACT
*
92328088 TTTCTTTGAAAACTACT
1 TTTCATTGAAAACTACT
92328105 GACTATTGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (17 bp):
TTTCATTGAAAACTACT
Found at i:92339761 original size:15 final size:15
Alignment explanation
Indices: 92339741--92339773 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
92339731 GATCATAAAC
92339741 GAAAGTGAAAAGTTG
1 GAAAGTGAAAAGTTG
*
92339756 GAAAGTGAACAGTTG
1 GAAAGTGAAAAGTTG
92339771 GAA
1 GAA
92339774 TTTAGCTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.33, T:0.18
Consensus pattern (15 bp):
GAAAGTGAAAAGTTG
Found at i:92342094 original size:15 final size:15
Alignment explanation
Indices: 92342065--92342093 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92342055 AATTATGTTA
92342065 AATTTAATTCTTTTT
1 AATTTAATTCTTTTT
92342080 AATTTAATT-TTTTT
1 AATTTAATTCTTTTT
92342094 TGTTGTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
AATTTAATTCTTTTT
Found at i:92343026 original size:49 final size:49
Alignment explanation
Indices: 92342927--92343027 Score: 121
Period size: 49 Copynumber: 2.1 Consensus size: 49
92342917 TGATTCATGC
* * * **
92342927 TATACAATGCCAAACTTGGTCTTCCACTGTCTACACTATTATCATTATT
1 TATACAATGCCAAACTTAGTCTTCCAATGTCTACACTATTATAACAATT
* * * *
92342976 TATACATTGCTAAATTTAGTCTTCCAATGTCTACACTCTTATAACAATT
1 TATACAATGCCAAACTTAGTCTTCCAATGTCTACACTATTATAACAATT
92343025 TAT
1 TAT
92343028 CCTTTCTTGA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.41
Consensus pattern (49 bp):
TATACAATGCCAAACTTAGTCTTCCAATGTCTACACTATTATAACAATT
Found at i:92344377 original size:43 final size:43
Alignment explanation
Indices: 92344327--92344412 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
92344317 TCATATTTCA
* *
92344327 TTTCTCATCTCATAAGTATTTTTCATATTTGTCATTTCAATAT
1 TTTCTCATCTCATAAGTATTTCTCATATTTGCCATTTCAATAT
* ** *
92344370 TTTCTCATCTCTTACTTATTTCTCATCTTTGCCATTTCAATAT
1 TTTCTCATCTCATAAGTATTTCTCATATTTGCCATTTCAATAT
92344413 CAATCACATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.22, C:0.21, G:0.03, T:0.53
Consensus pattern (43 bp):
TTTCTCATCTCATAAGTATTTCTCATATTTGCCATTTCAATAT
Found at i:92348941 original size:30 final size:30
Alignment explanation
Indices: 92348907--92348966 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
92348897 ACTTAACAAG
92348907 CAAATGCCTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
* *
92348937 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
92348967 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:92351869 original size:21 final size:21
Alignment explanation
Indices: 92351844--92351909 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
92351834 TAGCCTTCGG
*
92351844 GCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTTAGCACTTGTGT
92351865 GCTTCAG-TTAGC-CTTCG-G-
1 GCTTCAGTTTAGCACTT-GTGT
* *
92351883 GCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTTAGCACTTGTGT
92351904 GCTTCA
1 GCTTCA
92351910 ACTAGACTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 6 0.17
19 9 0.25
20 10 0.28
21 11 0.31
ACGTcount: A:0.12, C:0.24, G:0.23, T:0.41
Consensus pattern (21 bp):
GCTTCAGTTTAGCACTTGTGT
Found at i:92351880 original size:39 final size:39
Alignment explanation
Indices: 92351826--92351926 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
92351816 GCTCTGATGA
*
92351826 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
92351865 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
92351904 GCTTCAACTAGACTTCGGGCTTC
1 GCTTCAATTAGCCTTCGGGCTTC
92351927 AGATCACGAT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.38
Consensus pattern (39 bp):
GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:92358269 original size:18 final size:19
Alignment explanation
Indices: 92358242--92358278 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
92358232 TCACACCCCT
*
92358242 GACAATTCCA-AAAAAATA
1 GACAAATCCATAAAAAATA
92358260 GACAAATCCATAAAAAATA
1 GACAAATCCATAAAAAATA
92358279 AAAAGGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.62, C:0.16, G:0.05, T:0.16
Consensus pattern (19 bp):
GACAAATCCATAAAAAATA
Found at i:92370861 original size:21 final size:21
Alignment explanation
Indices: 92370837--92370876 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
92370827 TTATAACAAC
*
92370837 AATAAAGGAAGATATATTTCA
1 AATAAAGGAAGATAAATTTCA
*
92370858 AATAAAGGAATATAAATTT
1 AATAAAGGAAGATAAATTT
92370877 AGTAACATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (21 bp):
AATAAAGGAAGATAAATTTCA
Found at i:92376956 original size:31 final size:32
Alignment explanation
Indices: 92376907--92376970 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
92376897 TATTTATAAA
*
92376907 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
92376938 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
92376970 A
1 A
92376971 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:92377418 original size:15 final size:15
Alignment explanation
Indices: 92377398--92377454 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
92377388 CGATGAATTT
92377398 ATTGAATTTATATTG
1 ATTGAATTTATATTG
** *
92377413 ATTGAAACTATTTTG
1 ATTGAATTTATATTG
92377428 ATTGAATTTATATTG
1 ATTGAATTTATATTG
92377443 ATTGAA-TTATAT
1 ATTGAATTTATAT
92377455 AATATATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:92377838 original size:23 final size:23
Alignment explanation
Indices: 92377812--92377858 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
92377802 GCTTTACCGA
* *
92377812 TCAGACACTTTGTGTGTCGTATT
1 TCAGACACCTTCTGTGTCGTATT
*
92377835 TCAGGCACCTTCTGTGTCGTATT
1 TCAGACACCTTCTGTGTCGTATT
92377858 T
1 T
92377859 TAGGCACCCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.43
Consensus pattern (23 bp):
TCAGACACCTTCTGTGTCGTATT
Found at i:92377863 original size:23 final size:23
Alignment explanation
Indices: 92377824--92377899 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
92377814 AGACACTTTG
*
92377824 TGTGTCGTATTTCAGGCACCTTC
1 TGTGTCGTATTTTAGGCACCTTC
92377847 TGTGTCGTATTTTAGGCACC--C
1 TGTGTCGTATTTTAGGCACCTTC
* *
92377868 GTGTGTCG--TTTTAGGCACTTTA
1 -TGTGTCGTATTTTAGGCACCTTC
*
92377890 TGTGCCGTAT
1 TGTGTCGTAT
92377900 ACTGATCAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 10 0.23
21 7 0.16
22 7 0.16
23 20 0.45
ACGTcount: A:0.13, C:0.21, G:0.25, T:0.41
Consensus pattern (23 bp):
TGTGTCGTATTTTAGGCACCTTC
Found at i:92378171 original size:28 final size:28
Alignment explanation
Indices: 92378139--92378201 Score: 126
Period size: 28 Copynumber: 2.2 Consensus size: 28
92378129 ATTAGAGTTC
92378139 GAATTGATGATATATGATGCCACTTGAT
1 GAATTGATGATATATGATGCCACTTGAT
92378167 GAATTGATGATATATGATGCCACTTGAT
1 GAATTGATGATATATGATGCCACTTGAT
92378195 GAATTGA
1 GAATTGA
92378202 AATGTGATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (28 bp):
GAATTGATGATATATGATGCCACTTGAT
Found at i:92391377 original size:3 final size:3
Alignment explanation
Indices: 92391369--92391406 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
92391359 CTCAAGCTGT
92391369 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
92391407 TATGTTGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:92393003 original size:50 final size:50
Alignment explanation
Indices: 92392928--92393029 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
92392918 TGTTTTGCCA
92392928 AGTTGGATAAAACTGGATTTCTCATCTATGAACCAGCCTGTATCCTGTCC
1 AGTTGGATAAAACTGGATTTCTCATCTATGAACCAGCCTGTATCCTGTCC
92392978 AGTTGGATAAAACTGGATTTCTCATCTATGAACCAGCCTGTATCCTGTCC
1 AGTTGGATAAAACTGGATTTCTCATCTATGAACCAGCCTGTATCCTGTCC
92393028 AG
1 AG
92393030 GGTAACATGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (50 bp):
AGTTGGATAAAACTGGATTTCTCATCTATGAACCAGCCTGTATCCTGTCC
Found at i:92406419 original size:24 final size:24
Alignment explanation
Indices: 92406374--92406419 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
92406364 AACATCAGTC
* *
92406374 ACGGAGTTAAAATATTTTTTTTGG
1 ACGGAGTTAAAATATATATTTTGG
* *
92406398 ACGGATTTAAATTATATATTTT
1 ACGGAGTTAAAATATATATTTT
92406420 TATAATAGTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (24 bp):
ACGGAGTTAAAATATATATTTTGG
Found at i:92409512 original size:17 final size:17
Alignment explanation
Indices: 92409487--92409519 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
92409477 TTTCTCCTTC
*
92409487 TTTCGTTCTTCATCCAA
1 TTTCCTTCTTCATCCAA
92409504 TTTCCTTCTTCATCCA
1 TTTCCTTCTTCATCCA
92409520 TTTTGTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.33, G:0.03, T:0.48
Consensus pattern (17 bp):
TTTCCTTCTTCATCCAA
Found at i:92411281 original size:19 final size:19
Alignment explanation
Indices: 92411245--92411281 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
92411235 ATTTAACATT
*
92411245 TTACTCTCCAATCATTGTG
1 TTACTCTCCAAACATTGTG
*
92411264 TTACTCTCCAAACTTTGT
1 TTACTCTCCAAACATTGT
92411282 TTGATTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.27, G:0.08, T:0.43
Consensus pattern (19 bp):
TTACTCTCCAAACATTGTG
Found at i:92416300 original size:8 final size:8
Alignment explanation
Indices: 92416289--92416321 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
92416279 TATTTTTACT
92416289 ATTTTTAA
1 ATTTTTAA
92416297 ATTTTTAA
1 ATTTTTAA
92416305 ATTTTTAA
1 ATTTTTAA
92416313 ATTTTTAA
1 ATTTTTAA
92416321 A
1 A
92416322 AAGTATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATTTTTAA
Found at i:92422451 original size:27 final size:27
Alignment explanation
Indices: 92422412--92422479 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
92422402 AAATTAACAC
* *
92422412 TTAATTAAATTTAAAG-TTTTATACTTT
1 TTAAATAAATTTAAAGATTTT-TAATTT
* *
92422439 TTAAATAATTTTAATGATTTTTAATTT
1 TTAAATAAATTTAAAGATTTTTAATTT
92422466 TTAAAAATAAATTT
1 TT--AAATAAATTT
92422480 TTTGAATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 20 0.61
28 4 0.12
29 9 0.27
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (27 bp):
TTAAATAAATTTAAAGATTTTTAATTT
Found at i:92424774 original size:15 final size:15
Alignment explanation
Indices: 92424754--92424785 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
92424744 TGATAAATTG
*
92424754 AAAAATTAAGTATTA
1 AAAAATTAAGTACTA
92424769 AAAAATTAAGTACTA
1 AAAAATTAAGTACTA
92424784 AA
1 AA
92424786 TTCAAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (15 bp):
AAAAATTAAGTACTA
Found at i:92428287 original size:17 final size:15
Alignment explanation
Indices: 92428234--92428287 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 15
92428224 AATTTTTTAA
92428234 AAATTATAAATATAT
1 AAATTATAAATATAT
92428249 AAATTATTAAA-ATAAT
1 AAATTA-TAAATAT-AT
92428265 AAAATTCATAAATATAT
1 -AAATT-ATAAATATAT
92428282 ATAATT
1 A-AATT
92428288 TAATTCTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
15 8 0.24
16 7 0.21
17 15 0.45
18 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATTATAAATATAT
Found at i:92434416 original size:65 final size:65
Alignment explanation
Indices: 92434343--92434476 Score: 259
Period size: 65 Copynumber: 2.1 Consensus size: 65
92434333 AAATAAATGG
*
92434343 AAAGGGAACGTGTTTCTTTTTTAAATTAACAGTGGGAATCCAGGTAAAGATCATAAAGAAAAGGA
1 AAAGGGAACATGTTTCTTTTTTAAATTAACAGTGGGAATCCAGGTAAAGATCATAAAGAAAAGGA
92434408 AAAGGGAACATGTTTCTTTTTTAAATTAACAGTGGGAATCCAGGTAAAGATCATAAAGAAAAGGA
1 AAAGGGAACATGTTTCTTTTTTAAATTAACAGTGGGAATCCAGGTAAAGATCATAAAGAAAAGGA
92434473 AAAG
1 AAAG
92434477 TAATTACCAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.25
Consensus pattern (65 bp):
AAAGGGAACATGTTTCTTTTTTAAATTAACAGTGGGAATCCAGGTAAAGATCATAAAGAAAAGGA
Found at i:92436465 original size:22 final size:22
Alignment explanation
Indices: 92436440--92436505 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
92436430 TTAAAATTTT
92436440 TAAAATTTTAAATTAATAAAGG
1 TAAAATTTTAAATTAATAAAGG
* *
92436462 TAAAATTGT-ACTT--T----G
1 TAAAATTTTAAATTAATAAAGG
92436477 TAAAATTTTAAATTAATAAAGG
1 TAAAATTTTAAATTAATAAAGG
92436499 TAAAATT
1 TAAAATT
92436506 GTACTTTGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
15 9 0.27
16 3 0.09
18 1 0.03
19 1 0.03
21 3 0.09
22 16 0.48
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (22 bp):
TAAAATTTTAAATTAATAAAGG
Found at i:92436484 original size:37 final size:37
Alignment explanation
Indices: 92436440--92436513 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
92436430 TTAAAATTTT
92436440 TAAAATTTTAAATTAATAAAGGTAAAATTGTACTTTG
1 TAAAATTTTAAATTAATAAAGGTAAAATTGTACTTTG
92436477 TAAAATTTTAAATTAATAAAGGTAAAATTGTACTTTG
1 TAAAATTTTAAATTAATAAAGGTAAAATTGTACTTTG
92436514 GCCTACCCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.41
Consensus pattern (37 bp):
TAAAATTTTAAATTAATAAAGGTAAAATTGTACTTTG
Done.