Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 197 of 213
Found at i:58977144 original size:30 final size:29
Alignment explanation
Indices: 58977104--58977205 Score: 123
Period size: 30 Copynumber: 3.4 Consensus size: 29
58977094 ATTTAGGATT
58977104 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAA-GAAAGTTTAGGGGTC
* * *
58977134 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTT-AAGAAAGTTTAGGGGTC
* *
58977164 AAAATAAAATTTAGAAAAAGTTTAGGGGTC
1 AAAATGAAATTTA-AGAAAGTTTAGGGGTC
*
58977194 AAAATGCAATTT
1 AAAATGAAATTT
58977206 TTATTTTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 1 0.02
30 57 0.95
31 2 0.03
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.29
Consensus pattern (29 bp):
AAAATGAAATTTAAGAAAGTTTAGGGGTC
Found at i:58977227 original size:15 final size:16
Alignment explanation
Indices: 58977203--58977235 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
58977193 CAAAATGCAA
58977203 TTTTTATTTT-AAAAT
1 TTTTTATTTTGAAAAT
*
58977218 TTTTTTTTTTGAAAAT
1 TTTTTATTTTGAAAAT
58977234 TT
1 TT
58977236 GAAAATTAAA
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:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTTATTTTGAAAAT
Found at i:58981590 original size:30 final size:30
Alignment explanation
Indices: 58981527--58981600 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 30
58981517 AGTCTATATC
* * * *
58981527 TTTATAATTTTTAAAAGGTTAAATTAAATT
1 TTTATAATTTTTAAAAAGTCAAAATAAACT
* *
58981557 TTTATCATTTTTAAAAAGTCAAAATATACT
1 TTTATAATTTTTAAAAAGTCAAAATAAACT
* *
58981587 TTTATTATTATTAA
1 TTTATAATTTTTAA
58981601 TTTAAATTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (30 bp):
TTTATAATTTTTAAAAAGTCAAAATAAACT
Found at i:58981624 original size:82 final size:81
Alignment explanation
Indices: 58981465--58981626 Score: 186
Period size: 82 Copynumber: 2.0 Consensus size: 81
58981455 TGGAAGGCGA
* *
58981465 AAATTAAATTTATATTTTTACAATAGTAAAAATATAATTTCATTATTTTAATAGTCTATATCTTT
1 AAATTAAATTTATATTTTTACAAAAGTAAAAATATAATTTCATTATTTTAATA-TCTAAATCTTT
* *
58981530 ATAATTTTTAAAAGGTT
65 ATAAATTATAAAAGGTT
* * * *
58981547 AAATTAAATTTTTATCATTTTTA-AAAAGTCAAAATATACTTTTATTATTATTAAT-T-TAAATT
1 AAATTAAA--TTTAT-ATTTTTACAAAAGTAAAAATATAATTTCATTATT-TTAATATCTAAATC
58981609 TTTATAAATTATAAAAGG
62 TTTATAAATTATAAAAGG
58981627 CCTGAATTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
82 28 0.41
83 1 0.01
84 27 0.40
85 12 0.18
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (81 bp):
AAATTAAATTTATATTTTTACAAAAGTAAAAATATAATTTCATTATTTTAATATCTAAATCTTTA
TAAATTATAAAAGGTT
Found at i:58981789 original size:17 final size:17
Alignment explanation
Indices: 58981767--58981801 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
58981757 TTCATTACAA
58981767 CATGTTGAAGACAAATC
1 CATGTTGAAGACAAATC
58981784 CATGTTGAAGACAAATC
1 CATGTTGAAGACAAATC
58981801 C
1 C
58981802 TTTTTGGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (17 bp):
CATGTTGAAGACAAATC
Found at i:58986891 original size:47 final size:45
Alignment explanation
Indices: 58986791--58986893 Score: 109
Period size: 47 Copynumber: 2.2 Consensus size: 45
58986781 TGATAAATTT
* * * * * *
58986791 AAATAATATTAATGGTAATTTAAAATAATAGTATATTATATATTA
1 AAATAATACTAATGGAAATTTAAAACAATAGTAGATTAAATACTA
*
58986836 AAACAATACTAATGAGAAATTTAAAACAAT-GTTAAGATTAAATACTA
1 AAATAATACTAATG-GAAATTTAAAACAATAG-T-AGATTAAATACTA
58986883 AAATAATACTA
1 AAATAATACTA
58986894 TATTTAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
45 13 0.28
46 14 0.30
47 20 0.43
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (45 bp):
AAATAATACTAATGGAAATTTAAAACAATAGTAGATTAAATACTA
Found at i:58992241 original size:20 final size:20
Alignment explanation
Indices: 58992203--58992241 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
58992193 CTTCGTCTCC
*
58992203 TTCTTTCTCCTTTTTTTTCT
1 TTCTTTCTCCTTTTGTTTCT
58992223 TTCTTT-TCCTTTGTGTTTC
1 TTCTTTCTCCTTT-TGTTTC
58992242 ATTTTGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.72
Consensus pattern (20 bp):
TTCTTTCTCCTTTTGTTTCT
Found at i:58996936 original size:24 final size:24
Alignment explanation
Indices: 58996891--58996938 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
58996881 TCTTGAGATC
* *
58996891 CATAATCTTAATAATATCTAATAT
1 CATAATATTAATAATATATAATAT
58996915 CATAATATTAATAAT-TAATAATAT
1 CATAATATTAATAATAT-ATAATAT
58996939 AATTTATGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (24 bp):
CATAATATTAATAATATATAATAT
Found at i:58998490 original size:25 final size:25
Alignment explanation
Indices: 58998452--58998500 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
58998442 ATGTTCCTGT
58998452 ATTTTTGGACTTTTAATTTATTTTTA
1 ATTTTTGGACTTTT-ATTTATTTTTA
* *
58998478 ATTTTTTGA-TTTTATTTGTTTTT
1 ATTTTTGGACTTTTATTTATTTTT
58998501 GTAAGGGCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 4 0.19
26 8 0.38
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.71
Consensus pattern (25 bp):
ATTTTTGGACTTTTATTTATTTTTA
Found at i:59003586 original size:28 final size:30
Alignment explanation
Indices: 59003536--59003613 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
59003526 ATTTTAAATT
* *
59003536 AATAATGATAAAATTATATTTTAAT-TTTTTA
1 AATAAT-A-AAAATTATAATTTAATCTTTATA
59003567 AATAATAAAAATT-TAATTTAATCTTTATA
1 AATAATAAAAATTATAATTTAATCTTTATA
*
59003596 AATTATAAAAATATATAA
1 AATAATAAAAAT-TATAA
59003614 ACTATTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 8 0.20
29 22 0.54
30 2 0.05
31 9 0.22
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (30 bp):
AATAATAAAAATTATAATTTAATCTTTATA
Found at i:59003614 original size:17 final size:17
Alignment explanation
Indices: 59003592--59003632 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
59003582 ATTTAATCTT
59003592 TATAAATTATAAAAATA
1 TATAAATTATAAAAATA
* *
59003609 TATAAACTATTAAAATA
1 TATAAATTATAAAAATA
*
59003626 TAAAAAT
1 TATAAAT
59003633 ATTTTTTTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
TATAAATTATAAAAATA
Found at i:59008206 original size:17 final size:17
Alignment explanation
Indices: 59008181--59008227 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
59008171 CATAAATAAG
*
59008181 TAAAAATAAATAAAAAA
1 TAAACATAAATAAAAAA
*
59008198 TAAACATAACTAAAAAA
1 TAAACATAAATAAAAAA
*
59008215 -ACATCATAAATAA
1 TA-AACATAAATAA
59008228 TTAAAGTGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 1 0.04
17 24 0.96
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (17 bp):
TAAACATAAATAAAAAA
Found at i:59008504 original size:3 final size:3
Alignment explanation
Indices: 59008490--59008540 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
59008480 TTTTAAATAT
*
59008490 TTA TTC TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
59008538 TTA
1 TTA
59008541 ACTTTTATGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:59017236 original size:18 final size:17
Alignment explanation
Indices: 59017203--59017236 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
59017193 TCGACGGATA
*
59017203 TCTAAAATATGGTTTTT
1 TCTAAAATAAGGTTTTT
59017220 TCTAAAATAAAGGTTTT
1 TCTAAAAT-AAGGTTTT
59017237 CCAAAAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (17 bp):
TCTAAAATAAGGTTTTT
Found at i:59018149 original size:21 final size:21
Alignment explanation
Indices: 59018124--59018175 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
59018114 TAGATAATTT
59018124 GACTAAAATTTAAAAGTCGAA
1 GACTAAAATTTAAAAGTCGAA
59018145 GACTAAAATTTAAAAGTCGAA
1 GACTAAAATTTAAAAGTCGAA
59018166 GACTAAAATT
1 GACTAAAATT
59018176 ATCCCAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.25
Consensus pattern (21 bp):
GACTAAAATTTAAAAGTCGAA
Found at i:59018475 original size:12 final size:12
Alignment explanation
Indices: 59018458--59018491 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
59018448 CCGGCCCGCC
59018458 ATATTAATTTTT
1 ATATTAATTTTT
*
59018470 ATATTATTTTTT
1 ATATTAATTTTT
59018482 ATA-TAATTTT
1 ATATTAATTTT
59018492 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:59018650 original size:30 final size:30
Alignment explanation
Indices: 59018614--59018676 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
59018604 ACTTAACAAG
59018614 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
*
59018644 CAAATGTCTTTAAAATGATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
59018674 CAA
1 CAA
59018677 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.29
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAACAAAATTAA
Found at i:59018729 original size:22 final size:22
Alignment explanation
Indices: 59018703--59018745 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
59018693 TATTCAAACA
59018703 ATAATAACAAAATAGTAGCAAC
1 ATAATAACAAAATAGTAGCAAC
** *
59018725 ATAATAGTAAAATGGTAGCAA
1 ATAATAACAAAATAGTAGCAA
59018746 AATAGGAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCAAC
Found at i:59022647 original size:69 final size:69
Alignment explanation
Indices: 59022561--59022711 Score: 187
Period size: 69 Copynumber: 2.2 Consensus size: 69
59022551 AATAGTATAA
* * * * * *
59022561 CCCTATGTTTATCGTCCCGAC-GGACTCCAATGGTTGGCATAGCCGAGCTATGGTCCTACACCTC
1 CCCTATGTTTATTGTCCCAACAGGA-TCCAATGGTCGCCATAGCCGACCTATGGTCCTAAACCTC
*
59022625 GTTAT
65 GTAAT
* * *
59022630 CCCTATGTTTATTGTCCCAACAGGATCTATTGGTCGCCATAGCCGACCTATGGTCTTAAACCTCG
1 CCCTATGTTTATTGTCCCAACAGGATCCAATGGTCGCCATAGCCGACCTATGGTCCTAAACCTCG
59022695 TAAT
66 TAAT
*
59022699 CCCCATGTTTATT
1 CCCTATGTTTATT
59022712 ATCCTAGCAG
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
69 67 0.96
70 3 0.04
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.32
Consensus pattern (69 bp):
CCCTATGTTTATTGTCCCAACAGGATCCAATGGTCGCCATAGCCGACCTATGGTCCTAAACCTCG
TAAT
Found at i:59022730 original size:69 final size:69
Alignment explanation
Indices: 59022598--59022756 Score: 203
Period size: 69 Copynumber: 2.3 Consensus size: 69
59022588 CAATGGTTGG
* * * * *
59022598 CATAGCCGAGCTATGGTCCTACACCTCGTTATCCCTATGTTTATTGTCCCAACAGGATCTATTGG
1 CATAGCCGAGCTATGGTCTTAAACCTCGTAATCCCCATGTTTATTATCCCAACAGGATCTATTGG
59022663 TCGC
66 TCGC
* * * *
59022667 CATAGCCGACCTATGGTCTTAAACCTCGTAATCCCCATGTTTATTATCCTAGCA-GATTTTATTG
1 CATAGCCGAGCTATGGTCTTAAACCTCGTAATCCCCATGTTTATTATCCCAACAGGA-TCTATTG
*
59022731 GTCGT
65 GTCGC
*
59022736 CATAGCCGAGTTATGGTCTTA
1 CATAGCCGAGCTATGGTCTTA
59022757 CACCCTAAAC
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
68 2 0.03
69 75 0.97
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (69 bp):
CATAGCCGAGCTATGGTCTTAAACCTCGTAATCCCCATGTTTATTATCCCAACAGGATCTATTGG
TCGC
Found at i:59024145 original size:23 final size:23
Alignment explanation
Indices: 59024094--59024145 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
59024084 ATTGGCACCA
* *
59024094 CATTTCATACATAAAACATTAAC
1 CATTTCAAACATAAAAAATTAAC
*
59024117 CA-TTCAAACATAAACAAATT-AG
1 CATTTCAAACATAAA-AAATTAAC
59024139 CATTTCA
1 CATTTCA
59024146 TATCCATTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.29
Consensus pattern (23 bp):
CATTTCAAACATAAAAAATTAAC
Found at i:59027483 original size:24 final size:24
Alignment explanation
Indices: 59027455--59027508 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
59027445 AAACTATCCA
*
59027455 TTGGGAGGATTTGAAATTTGACTG
1 TTGGGAGGATTTGAAATTTGACCG
*
59027479 TTGGGCGGATTTGAAATTTGACCG
1 TTGGGAGGATTTGAAATTTGACCG
59027503 TTGGGA
1 TTGGGA
59027509 TGTTCCTATT
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:0.07, G:0.35, T:0.35
Consensus pattern (24 bp):
TTGGGAGGATTTGAAATTTGACCG
Found at i:59028324 original size:20 final size:21
Alignment explanation
Indices: 59028301--59028340 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
59028291 AACTATTCAA
*
59028301 ATAA-TATTTTTTGAATAATT
1 ATAATTATTTTTTAAATAATT
*
59028321 ATAATTCTTTTTTAAATAAT
1 ATAATTATTTTTTAAATAAT
59028341 CAAATGATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
ATAATTATTTTTTAAATAATT
Found at i:59031932 original size:43 final size:43
Alignment explanation
Indices: 59031864--59031950 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
59031854 AGGGCAATCT
* *
59031864 CTGAGAACATGCAACAACTCCTCAGATCTATGCCCACAAAAAC
1 CTGAAAACATGCAACAACTCCTCAGATCCATGCCCACAAAAAC
* *
59031907 CTGAAAACATGCAACACCTCTTCAGATCCATGCCCACAAAAAC
1 CTGAAAACATGCAACAACTCCTCAGATCCATGCCCACAAAAAC
59031950 C
1 C
59031951 ACGTGTTGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.39, C:0.34, G:0.10, T:0.16
Consensus pattern (43 bp):
CTGAAAACATGCAACAACTCCTCAGATCCATGCCCACAAAAAC
Found at i:59038088 original size:19 final size:18
Alignment explanation
Indices: 59038064--59038099 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
59038054 TGTCATTCAT
*
59038064 GACAAATTTTCTGAGAGTA
1 GACAAAATTTCT-AGAGTA
59038083 GACAAAATTTCTAGAGT
1 GACAAAATTTCTAGAGT
59038100 GGTGGTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (18 bp):
GACAAAATTTCTAGAGTA
Found at i:59043161 original size:25 final size:25
Alignment explanation
Indices: 59043126--59043176 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
59043116 AACAAAAACA
59043126 CAAAACGCCCCGTTTCAATTAACTC
1 CAAAACGCCCCGTTTCAATTAACTC
*
59043151 CAAAACTCCCCGTTTCAATTAACTC
1 CAAAACGCCCCGTTTCAATTAACTC
59043176 C
1 C
59043177 TCAACAGTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.37, G:0.06, T:0.25
Consensus pattern (25 bp):
CAAAACGCCCCGTTTCAATTAACTC
Found at i:59054908 original size:20 final size:20
Alignment explanation
Indices: 59054883--59054923 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
59054873 GGGTCTAACA
59054883 TATCCTCTTGCTATTCTTAG
1 TATCCTCTTGCTATTCTTAG
59054903 TATCCTCTTGCTATTCTTAG
1 TATCCTCTTGCTATTCTTAG
59054923 T
1 T
59054924 TAAGTTCACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.24, G:0.10, T:0.51
Consensus pattern (20 bp):
TATCCTCTTGCTATTCTTAG
Found at i:59058548 original size:24 final size:24
Alignment explanation
Indices: 59058478--59058548 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 24
59058468 CACATAAACG
* * * *
59058478 GGAAGCTCATGTGAGCCATGTAACG
1 GGAAGTTCATGCGAGCC-TATAACA
* * *
59058503 GGAAGTTTATCCG-GGCTATAACA
1 GGAAGTTCATGCGAGCCTATAACA
59058526 GGAAGTTCATGCGAGCCTATAAC
1 GGAAGTTCATGCGAGCCTATAAC
59058549 GGGTAGCTCC
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
23 16 0.46
24 10 0.29
25 9 0.26
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (24 bp):
GGAAGTTCATGCGAGCCTATAACA
Found at i:59060657 original size:23 final size:21
Alignment explanation
Indices: 59060627--59060676 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
59060617 GTAAGCAATT
59060627 AATTATTTTTTAAAAAATTATAA
1 AATTATTTTTT-AAAAATT-TAA
*
59060650 AATTA-TTTTTAAAAATTTTA
1 AATTATTTTTTAAAAATTTAA
59060670 AATTATT
1 AATTATT
59060677 AAAAAAGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 8 0.32
22 5 0.20
23 5 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTATTTTTTAAAAATTTAA
Found at i:59060672 original size:20 final size:22
Alignment explanation
Indices: 59060627--59060701 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 22
59060617 GTAAGCAATT
59060627 AATTATTTTTTAAAAAATTATAA
1 AATTA-TTTTTAAAAAATTATAA
*
59060650 AATTATTTTT-AAAAATT-TTA
1 AATTATTTTTAAAAAATTATAA
**
59060670 AATTA---TTAAAAAAGCATAA
1 AATTATTTTTAAAAAATTATAA
*
59060689 AAATATTTTTAAA
1 AATTATTTTTAAA
59060702 TAATATTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
17 2 0.05
18 5 0.12
19 6 0.14
20 7 0.17
21 7 0.17
22 10 0.24
23 5 0.12
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (22 bp):
AATTATTTTTAAAAAATTATAA
Found at i:59060719 original size:40 final size:39
Alignment explanation
Indices: 59060633--59060721 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 39
59060623 AATTAATTAT
** *
59060633 TTTTTAAAAAATTATAAAATTATTTTTAAAAATTTTAAA
1 TTTTTAAAAAAGCATAAAAATATTTTTAAAAATTTTAAA
* *
59060672 TTATTAAAAAAGCATAAAAATATTTTTAAATAATATTT-TA
1 TTTTTAAAAAAGCATAAAAATATTTTTAAA-AAT-TTTAAA
59060712 TTTTTAAAAA
1 TTTTTAAAAA
59060722 TACAATTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 26 0.62
40 13 0.31
41 3 0.07
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (39 bp):
TTTTTAAAAAAGCATAAAAATATTTTTAAAAATTTTAAA
Found at i:59063748 original size:18 final size:18
Alignment explanation
Indices: 59063725--59063763 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
59063715 AACACAATCC
*
59063725 AAAAAAAA-TCAAAATATT
1 AAAAAAAACCCAAAA-ATT
59063743 AAAAAAAACCCAAAAATT
1 AAAAAAAACCCAAAAATT
59063761 AAA
1 AAA
59063764 TCTAAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAAAAAACCCAAAAATT
Found at i:59063749 original size:19 final size:18
Alignment explanation
Indices: 59063725--59063763 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
59063715 AACACAATCC
*
59063725 AAAAAAAATCAAAATATTA
1 AAAAAAAACCAAAA-ATTA
*
59063744 AAAAAAACCCAAAAATTA
1 AAAAAAAACCAAAAATTA
59063762 AA
1 AA
59063764 TCTAAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAAAAAACCAAAAATTA
Found at i:59074213 original size:19 final size:17
Alignment explanation
Indices: 59074188--59074234 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
59074178 TTTCAATGCA
*
59074188 TCCAATAATTATACATAT
1 TCCAATAATAATACA-AT
*
59074206 TACCAATAATAATTCAAT
1 T-CCAATAATAATACAAT
59074224 TCCAATAATAA
1 TCCAATAATAA
59074235 AATACATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 10 0.38
18 4 0.15
19 12 0.46
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (17 bp):
TCCAATAATAATACAAT
Found at i:59076546 original size:16 final size:16
Alignment explanation
Indices: 59076498--59076550 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
59076488 TTTCCTTGAT
*
59076498 TTTATATTTTATATCA
1 TTTATATATTATATCA
59076514 ---ATA-ATTA-ATCA
1 TTTATATATTATATCA
*
59076525 TCTATATATTATATCA
1 TTTATATATTATATCA
59076541 TTTATATATT
1 TTTATATATT
59076551 CTCTTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
11 4 0.13
12 3 0.10
13 3 0.10
14 3 0.10
15 4 0.13
16 13 0.43
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTATATATTATATCA
Found at i:59080419 original size:21 final size:21
Alignment explanation
Indices: 59080395--59080438 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
59080385 CCATTCTAAA
59080395 AAAATTTATTCAAAGAAAGTC
1 AAAATTTATTCAAAGAAAGTC
59080416 AAAATTTATTCAAAGAAAGTC
1 AAAATTTATTCAAAGAAAGTC
59080437 AA
1 AA
59080439 GGAGAGGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAATTTATTCAAAGAAAGTC
Found at i:59084361 original size:35 final size:35
Alignment explanation
Indices: 59084315--59084385 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
59084305 ACCTTCACAA
59084315 CCCCTTTAGTTGAGGAAAGTGTAACTTTTCTCGGG
1 CCCCTTTAGTTGAGGAAAGTGTAACTTTTCTCGGG
59084350 CCCCTTTAGTTGAGGAAAGTGTAACTTTTCTCGGG
1 CCCCTTTAGTTGAGGAAAGTGTAACTTTTCTCGGG
59084385 C
1 C
59084386 TTTGGTTGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (35 bp):
CCCCTTTAGTTGAGGAAAGTGTAACTTTTCTCGGG
Found at i:59086217 original size:37 final size:37
Alignment explanation
Indices: 59086167--59086241 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
59086157 ATCAAGTATA
*
59086167 AATCAGAGTTCCTAAATCATACAAATACGGTAACAGC
1 AATCAGAGTTCCTAAATCATACAAATACAGTAACAGC
*
59086204 AATCAGAGTTCCTAAATCATACAAATACAGTAAGAGC
1 AATCAGAGTTCCTAAATCATACAAATACAGTAACAGC
59086241 A
1 A
59086242 GGCAAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.21
Consensus pattern (37 bp):
AATCAGAGTTCCTAAATCATACAAATACAGTAACAGC
Found at i:59090012 original size:37 final size:36
Alignment explanation
Indices: 59089966--59090039 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
59089956 TTATGATTGT
* * *
59089966 TTATTTATAAAATATATT-ATTATTGTTATTATTTTA
1 TTATTTATAAAATAAATTGATTA-TATTATTATATTA
*
59090002 TTATATTATAAATTAAATTGATTATATTATTATATTA
1 TTAT-TTATAAAATAAATTGATTATATTATTATATTA
59090039 T
1 T
59090040 GAAATAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 4 0.12
37 24 0.75
38 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (36 bp):
TTATTTATAAAATAAATTGATTATATTATTATATTA
Found at i:59090016 original size:29 final size:29
Alignment explanation
Indices: 59089993--59090049 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
59089983 TATTATTGTT
*
59089993 ATTATTTTATTATATTAT-AAATTAAATTG
1 ATTATATTATTATATTATGAAATT-AATTG
*
59090022 ATTATATTATTATATTATGAAATAAATT
1 ATTATATTATTATATTATGAAATTAATT
59090050 AAGAAAAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (29 bp):
ATTATATTATTATATTATGAAATTAATTG
Found at i:59090297 original size:3 final size:3
Alignment explanation
Indices: 59090289--59090343 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
59090279 AAATAGATAT
* * *
59090289 TTA TTA TTA TTA TTA TAA TTA TTG TTA TTA TTA TT- TAA TTGA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
59090333 TTA -TA TTA TTA
1 TTA TTA TTA TTA
59090344 GATTTATGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 4 0.10
3 37 0.88
4 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:59090529 original size:15 final size:16
Alignment explanation
Indices: 59090509--59090538 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59090499 AACAAAAAGA
59090509 AATAGAAA-GAAACAT
1 AATAGAAACGAAACAT
59090524 AATAGAAACGAAACA
1 AATAGAAACGAAACA
59090539 GGAAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.10, G:0.13, T:0.10
Consensus pattern (16 bp):
AATAGAAACGAAACAT
Found at i:59090573 original size:10 final size:10
Alignment explanation
Indices: 59090492--59090576 Score: 62
Period size: 10 Copynumber: 8.3 Consensus size: 10
59090482 ATGAAAGCAT
*
59090492 AAAAAGAAAC
1 AAAAAGAAAG
*
59090502 AAAAAGAAAT
1 AAAAAGAAAG
* *
59090512 AGAAAGAAAC
1 AAAAAGAAAG
*
59090522 ATAATAGAAACG
1 A-AAAAGAAA-G
* *
59090534 AAACAGGAAG
1 AAAAAGAAAG
59090544 AAAAAGAAAG
1 AAAAAGAAAG
*
59090554 AAAAAAAAAG
1 AAAAAGAAAG
**
59090564 GGAAAGAAAG
1 AAAAAGAAAG
59090574 AAA
1 AAA
59090577 GGAGAAATAG
Statistics
Matches: 57, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
10 44 0.77
11 12 0.21
12 1 0.02
ACGTcount: A:0.73, C:0.05, G:0.19, T:0.04
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:59090763 original size:29 final size:29
Alignment explanation
Indices: 59090722--59090779 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
59090712 TTTTTTAGTA
59090722 GGGTTCATGTTGAATA-AATGATTGAATTAG
1 GGGTTCATGTTG-ATAGAATGATTG-ATTAG
* *
59090752 GGGTTTAT-TTGATAGAATTATTGATTAG
1 GGGTTCATGTTGATAGAATGATTGATTAG
59090780 AATTGATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 8 0.32
29 10 0.40
30 7 0.28
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.41
Consensus pattern (29 bp):
GGGTTCATGTTGATAGAATGATTGATTAG
Found at i:59091548 original size:38 final size:37
Alignment explanation
Indices: 59091487--59091578 Score: 114
Period size: 38 Copynumber: 2.5 Consensus size: 37
59091477 CGGATAGATT
* *
59091487 CGATGAGATACTGGGTATCACTTTACTTCG-ACTAGGC
1 CGATGAGACACTGGGTGTCACTTTACTTCGAACTA-GC
* *
59091524 CGATGAGACACTGGGTGTCAACTTTGCTTCGAACTATC
1 CGATGAGACACTGGGTGTC-ACTTTACTTCGAACTAGC
*
59091562 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
59091579 CCAATCTGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
37 17 0.35
38 27 0.56
39 4 0.08
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (37 bp):
CGATGAGACACTGGGTGTCACTTTACTTCGAACTAGC
Found at i:59095479 original size:24 final size:25
Alignment explanation
Indices: 59095433--59095479 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
59095423 AACAACATTT
* *
59095433 TAATTTTTTAATTTCTAAAATATAC
1 TAATATTTTAATTTATAAAATATAC
*
59095458 TAATATTTT-ATTTATAATATAT
1 TAATATTTTAATTTATAAAATAT
59095480 TAAATTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (25 bp):
TAATATTTTAATTTATAAAATATAC
Found at i:59099442 original size:23 final size:23
Alignment explanation
Indices: 59099411--59099455 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
59099401 AAAACATATA
59099411 TAAAAATATAT-TTATTAAAATTT
1 TAAAAATATATATT-TTAAAATTT
*
59099434 TAAATATATATATTTTAAAATT
1 TAAAAATATATATTTTAAAATT
59099456 CAAAAGAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAAATATATATTTTAAAATTT
Found at i:59099866 original size:37 final size:36
Alignment explanation
Indices: 59099820--59099889 Score: 113
Period size: 37 Copynumber: 1.9 Consensus size: 36
59099810 TTTAAAAGTA
* *
59099820 ATTAAAATTTAGCTCATAATTTATGAAAACAAAAAAT
1 ATTAAAATTTAACCCATAATTTATGAAAA-AAAAAAT
59099857 ATTAAAATTTAACCCATAATTTATGAAAAAAAA
1 ATTAAAATTTAACCCATAATTTATGAAAAAAAA
59099890 TAAAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 4 0.13
37 27 0.87
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (36 bp):
ATTAAAATTTAACCCATAATTTATGAAAAAAAAAAT
Found at i:59108105 original size:34 final size:34
Alignment explanation
Indices: 59108067--59108135 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
59108057 AAAATTTTCA
59108067 AGAATAACATGGTAGAGCTTAAGTTAGAAAAAGC
1 AGAATAACATGGTAGAGCTTAAGTTAGAAAAAGC
59108101 AGAATAACATGGTAGAGCTTAAGTTAGAAAAAGC
1 AGAATAACATGGTAGAGCTTAAGTTAGAAAAAGC
59108135 A
1 A
59108136 TGCTGCTCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.48, C:0.09, G:0.23, T:0.20
Consensus pattern (34 bp):
AGAATAACATGGTAGAGCTTAAGTTAGAAAAAGC
Found at i:59108613 original size:11 final size:11
Alignment explanation
Indices: 59108591--59108650 Score: 84
Period size: 11 Copynumber: 5.4 Consensus size: 11
59108581 AACTAATCCT
59108591 CTCTCAAATTTC
1 CTCTC-AATTTC
59108603 CTCTCAATTTC
1 CTCTCAATTTC
*
59108614 CTCTAAATTTC
1 CTCTCAATTTC
*
59108625 CTCTAAATTTC
1 CTCTCAATTTC
*
59108636 CTCTCAATTTG
1 CTCTCAATTTC
59108647 CTCT
1 CTCT
59108651 TAAATCCCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
11 40 0.89
12 5 0.11
ACGTcount: A:0.22, C:0.32, G:0.02, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:59108634 original size:33 final size:35
Alignment explanation
Indices: 59108591--59108675 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 35
59108581 AACTAATCCT
59108591 CTCTCAAATTTCCTCTCAATTTCCTC-TAAATTTC
1 CTCTCAAATTTCCTCTCAATTTCCTCTTAAATTTC
* *
59108625 CTCT-AAATTTCCTCTCAATTTGCTCTTAAA-TCC
1 CTCTCAAATTTCCTCTCAATTTCCTCTTAAATTTC
59108658 CT-TCCAAATTT-CTCTCAA
1 CTCT-CAAATTTCCTCTCAA
59108676 ATCCATATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
32 1 0.02
33 31 0.67
34 14 0.30
ACGTcount: A:0.25, C:0.32, G:0.01, T:0.42
Consensus pattern (35 bp):
CTCTCAAATTTCCTCTCAATTTCCTCTTAAATTTC
Found at i:59108676 original size:11 final size:11
Alignment explanation
Indices: 59108590--59108677 Score: 60
Period size: 11 Copynumber: 7.9 Consensus size: 11
59108580 AAACTAATCC
59108590 TCTCTCAAATT
1 TCTCTCAAATT
59108601 TCCTCTC-AATT
1 T-CTCTCAAATT
59108612 TC-CTCTAAATT
1 TCTCTC-AAATT
59108623 TC-CTCTAAATT
1 TCTCTC-AAATT
59108634 TCCTCTC-AATT
1 T-CTCTCAAATT
* *
59108645 TGCTCTTAAATC
1 T-CTCTCAAATT
*
59108657 CCT-TCCAAATT
1 TCTCT-CAAATT
59108668 TCTCTCAAAT
1 TCTCTCAAAT
59108678 CCATATTTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
9 3 0.05
10 2 0.03
11 44 0.71
12 10 0.16
13 3 0.05
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:59108696 original size:51 final size:51
Alignment explanation
Indices: 59108637--59108736 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
59108627 CTAAATTTCC
*
59108637 TCTCAATTTGCTCTTAA-ATCC-CTTCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAGATCCTCTT--AAATTTCTCTCAAATCCATATTTAA
* * *
59108688 TCTCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAGATCCTCTTAAATTTCTCTCAAATCCATATTT
59108737 TTAAATAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 37 0.86
52 3 0.07
53 3 0.07
ACGTcount: A:0.26, C:0.27, G:0.03, T:0.44
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAGATCCTCTTAAATTTCTCTCAAATCCATATTTAA
Found at i:59110559 original size:18 final size:18
Alignment explanation
Indices: 59110532--59110571 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
59110522 CAGGTGCGTT
* *
59110532 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
59110550 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
59110568 TCCT
1 TCCT
59110572 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:59111093 original size:7 final size:8
Alignment explanation
Indices: 59111063--59111091 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
59111053 AACTAATTTA
59111063 TTATAAAT
1 TTATAAAT
59111071 TTATAAAT
1 TTATAAAT
59111079 TTAT-AAT
1 TTATAAAT
59111086 TTATAA
1 TTATAA
59111092 TTAAATGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTATAAAT
Found at i:59111148 original size:21 final size:21
Alignment explanation
Indices: 59111143--59112160 Score: 564
Period size: 21 Copynumber: 48.0 Consensus size: 21
59111133 TAAAAACCCT
59111143 AACCCTAA-CCTTAAACTTAAA
1 AACCCTAACCCTT-AACTTAAA
* *
59111164 AACCCTAAATCATTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
59111186 AACCATAAACCCTTGACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
59111208 AACCCTAACCCTCAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
59111229 AACTCTAACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
59111250 AACCCTAAACTTTAAAATCTT-AA
1 AACCCTAACCCTT--AA-CTTAAA
59111273 AACCCTAAACCCTTAACTT-AA
1 AACCCT-AACCCTTAACTTAAA
* ** ** *
59111294 AGCTTTAAACTTTTAATTTAAA
1 AACCCT-AACCCTTAACTTAAA
* * *
59111316 AACCCTAAACCTTTAAATTTAA
1 AACCCT-AACCCTTAACTTAAA
* *
59111338 AACCTTAA-----AACCCT-AA
1 AACCCTAACCCTTAA-CTTAAA
** * *
59111354 AACCCTAAATTCATAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
59111376 AACCTTAACCCTTAACGTAAA
1 AACCCTAACCCTTAACTTAAA
*
59111397 AACCCTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
**
59111419 AACTTTAA-----AACCTT-AA
1 AACCCTAACCCTTAA-CTTAAA
** *
59111435 AACCCTAAACTTTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
59111457 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
59111478 AACCATAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* * *
59111500 AATCGTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
59111522 AACCATAA-----ACCTT-AA
1 AACCCTAACCCTTAACTTAAA
* *
59111537 AACCCTAAACCTTTTACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
59111559 AACCTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*** * *
59111581 AATTGTAACACTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
*
59111602 AACCTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*** *
59111624 AATTGTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * * *
59111645 AGCACTAACCTTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
*
59111666 AACCCTAAACTCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
***
59111688 AATTGTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
59111709 AGCCCTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
59111730 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
** * *
59111752 AACTATAAACCGTTAAATT-AA
1 AACCCT-AACCCTTAACTTAAA
* *
59111773 AACTCTAAAACCTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTT--A-----A-CTTAAA
** *
59111803 AACTATAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
59111824 AGCACTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
59111845 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*** *
59111867 AATTGTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * * *
59111888 AGCCATAACCATTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
*
59111909 AACCCTAAACTCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*** * *
59111931 AATTGTAAACCCTTAAATTAAT
1 AACCCT-AACCCTTAACTTAAA
* *
59111953 AACCTTAA-----AACCT-AA
1 AACCCTAACCCTTAACTTAAA
*
59111968 AACCCTAAACCCTTATCTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
59111990 AACCATAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
59112012 AACCCTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
*
59112033 AACCATATACCCTTAACTTAAA
1 AACCCTA-ACCCTTAACTTAAA
* * *
59112055 AATCATAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
59112076 TACCATAAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
* * *
59112098 AATCATAACCCTTAA-ATAAA
1 AACCCTAACCCTTAACTTAAA
*
59112118 AACCCCTAACACTTAACTTAAA
1 AA-CCCTAACCCTTAACTTAAA
59112140 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
59112161 TATAATTTGA
Statistics
Matches: 767, Mismatches: 173, Indels: 114
0.73 0.16 0.11
Matches are distributed among these distances:
15 13 0.02
16 27 0.04
17 7 0.01
20 5 0.01
21 341 0.44
22 335 0.44
23 14 0.02
24 8 0.01
27 1 0.00
28 1 0.00
29 8 0.01
30 7 0.01
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:59111184 original size:22 final size:22
Alignment explanation
Indices: 59111114--59112160 Score: 669
Period size: 22 Copynumber: 49.0 Consensus size: 22
59111104 TTTAATTGAC
* *
59111114 AAACCTTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
*
59111136 AAACCCTAACCCTAACCTTAAACTTAA
1 AAACCCTAA----ACCCTT-AACTTAA
* *
59111163 AAACCCTAAATCATTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
59111185 AAACCATAAACCCTTGACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
59111207 AAACCCT-AACCCTCAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
59111228 AAACTCT-AACACTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
59111249 AAACCCTAAA-CTTTAAAATCTT-A
1 AAACCCTAAACCCTT--AA-CTTAA
59111272 AAACCCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
* ** ** *
59111293 AAGCTTTAAACTTTTAATTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
59111315 AAACCCTAAACCTTTAAATTTA
1 AAACCCTAAACCCTTAACTTAA
* *
59111337 AAACCTTAAAACC----C-T-A
1 AAACCCTAAACCCTTAACTTAA
** * *
59111353 AAACCCTAAATTCATAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* *
59111375 AAA-CCTTAACCCTTAACGTAA
1 AAACCCTAAACCCTTAACTTAA
*
59111396 AAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
** *
59111418 AAACTTTAAA-----ACCTT-A
1 AAACCCTAAACCCTTAACTTAA
** *
59111434 AAACCCTAAACTTTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
59111456 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
59111477 AAACCATAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
59111499 AAATCGTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
59111521 AAACCATAAA--C----CTT-A
1 AAACCCTAAACCCTTAACTTAA
* *
59111536 AAACCCTAAACCTTTTACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
59111558 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*** * *
59111580 AAATTGT-AACACTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
59111601 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*** *
59111623 AAATTGT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* * * *
59111644 AAGCACT-AACCTTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
59111665 AAACCCTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
***
59111687 AAATTGT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
59111708 AAGCCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
59111729 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
** * *
59111751 AAACTATAAACCGTTAAATT-A
1 AAACCCTAAACCCTTAACTTAA
* *
59111772 AAACTCTAAAACCTTAAACCCTTAA
1 AAACCCTAAACCCTT-AA--CTTAA
** *
59111797 CTTAAAAACTATAACCCTTAAATTAA
1 ---AAACCCTA-AACCCTTAACTTAA
* *
59111823 AAGCACT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
59111844 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*** *
59111866 AAATTGT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* * * *
59111887 AAGCCAT-AACCATTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
59111908 AAACCCTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*** *
59111930 AAATTGTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
59111952 TAA-CCTTAA-----AACCT-A
1 AAACCCTAAACCCTTAACTTAA
*
59111967 AAACCCTAAACCCTTATCTTAA
1 AAACCCTAAACCCTTAACTTAA
*
59111989 AAACCATAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
59112011 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
59112032 AAACCATATACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
59112054 AAATCAT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
59112075 ATACCATAAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* * *
59112097 AAATCAT-AACCCTTAA-ATAA
1 AAACCCTAAACCCTTAACTTAA
*
59112117 AAACCCCT-AACACTTAACTTAA
1 AAA-CCCTAAACCCTTAACTTAA
59112139 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
59112160 A
1 A
59112161 TATAATTTGA
Statistics
Matches: 790, Mismatches: 179, Indels: 113
0.73 0.17 0.10
Matches are distributed among these distances:
15 13 0.02
16 30 0.04
17 4 0.01
20 6 0.01
21 320 0.41
22 348 0.44
23 22 0.03
24 8 0.01
25 1 0.00
26 9 0.01
27 15 0.02
28 8 0.01
29 6 0.01
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.27
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:59111375 original size:81 final size:80
Alignment explanation
Indices: 59111256--59111501 Score: 278
Period size: 81 Copynumber: 3.0 Consensus size: 80
59111246 TAAAAACCCT
* ** * * * ** **
59111256 AAACTTTAAAATCTTAAAACCCTAAACCCTTAACTTAAAGCTTTAAACTTTTAATTTAAAAACCC
1 AAACTTTAAAACCTTAAAACCCTAAATTCTTAAATTAAAACCTT-AACCCTTAACGTAAAAACCC
* *
59111321 TAAACCTTTAAATTTA
65 TAAACCCTTAAATTAA
* * *
59111337 AAACCTTAAAACCCTAAAACCCTAAATTCATAAATTAAAAACCTTAACCCTTAACGTAAAAACCC
1 AAACTTTAAAACCTTAAAACCCTAAATTCTTAAATT-AAAACCTTAACCCTTAACGTAAAAACCC
59111402 TAAACCCTTAAATTAA
65 TAAACCCTTAAATTAA
* *
59111418 AAACTTTAAAACCTTAAAACCCTAAACTT-TTAAATTAAAAACCCTAACCCTTAACTTAAAAACC
1 AAACTTTAAAACCTTAAAACCCTAAA-TTCTTAAATT-AAAACCTTAACCCTTAACGTAAAAACC
* *
59111482 ATAAACCCTTAACTTAA
64 CTAAACCCTTAAATTAA
59111499 AAA
1 AAA
59111502 TCGTAAACCC
Statistics
Matches: 141, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
81 133 0.94
82 8 0.06
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.28
Consensus pattern (80 bp):
AAACTTTAAAACCTTAAAACCCTAAATTCTTAAATTAAAACCTTAACCCTTAACGTAAAAACCCT
AAACCCTTAAATTAA
Found at i:59111487 original size:43 final size:43
Alignment explanation
Indices: 59111371--59112160 Score: 547
Period size: 43 Copynumber: 18.6 Consensus size: 43
59111361 AATTCATAAA
* * * *
59111371 TTAAAAACCTTAACCCTTAACGTAAAAACCCTAAACCCTTAAA
1 TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
** * ** *
59111414 TTAAAAACTTTAA-----AACCTT-AAAACCCTAAACTTTTAAA
1 TTAAAAACCCTAACCCTTAA-CTTAAAAACCATAAACCCTTAAC
59111452 TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
* * *
59111495 TTAAAAATCGTAAACCCTTAAATTAAAAACCATAAA--C----C
1 TTAAAAACCCT-AACCCTTAACTTAAAAACCATAAACCCTTAAC
* * *
59111533 TT-AAAACCCTAAACCTTTTACTTAAAAACCTTAAACCCTTAAC
1 TTAAAAACCCT-AACCCTTAACTTAAAAACCATAAACCCTTAAC
*** * * *
59111576 TTAAAAATTGTAACACTTAACTTTAAAACCTTAAACCCTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
*** * * *
59111619 TTAAAAATTGTAACCCTTAAATT-AAAAGCACT-AACCTTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCA-TAAACCCTTAAC
* * ***
59111661 TTTAAAACCCTAAACTCTTAACTTAAAAATTGT-AACCCTTAAC
1 TTAAAAACCCT-AACCCTTAACTTAAAAACCATAAACCCTTAAC
* * *
59111704 TTAAAAGCCCTAACCCTTAACTTTAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
** * * *
59111747 TTAAAAACTATAAACCGTTAAATTAAAACTCTAAAACCTTAAACCCTTAAC
1 TTAAAAACCCT-AACCCTTAACTT---A----AAAACCATAAACCCTTAAC
** * *
59111798 TTAAAAACTATAACCCTTAAATT-AAAAGCACT-AACCCTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCA-TAAACCCTTAAC
*** *
59111840 TTAAAAACCCTAAACCCTTAACTTAAAAATTGT-AACCCTTAAA
1 TTAAAAACCCT-AACCCTTAACTTAAAAACCATAAACCCTTAAC
* * * * * *
59111883 TTAAAAGCCATAACCATTAACTTTAAAACCCTAAACTCTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
*** * * *
59111926 TTAAAAATTGTAAACCCTTAAATTAATAACC-TTAA-----AAC
1 TTAAAAACCCT-AACCCTTAACTTAAAAACCATAAACCCTTAAC
* *
59111964 CT-AAAACCCTAAACCCTTATCTTAAAAACCATAAACCCTTAAC
1 TTAAAAACCCT-AACCCTTAACTTAAAAACCATAAACCCTTAAC
* *
59112007 TTAAAAACCCTAACCCTTAACTTTAAAACCATATACCCTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
* * * *
59112050 TTAAAAATCATAACCCTTAAATTAAATACCATAAACCCTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
* * * * * *
59112093 TTTAAAATCATAACCCTTAA-ATAAAAACCCCT-AACACTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAA-CCATAAACCCTTAAC
59112135 TTAAAAACCCTAACCCTTAACTTAAA
1 TTAAAAACCCTAACCCTTAACTTAAA
59112161 TATAATTTGA
Statistics
Matches: 596, Mismatches: 110, Indels: 82
0.76 0.14 0.10
Matches are distributed among these distances:
37 49 0.08
38 40 0.07
39 3 0.01
42 112 0.19
43 283 0.47
44 69 0.12
50 11 0.02
51 29 0.05
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.28
Consensus pattern (43 bp):
TTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAAC
Found at i:59111514 original size:81 final size:81
Alignment explanation
Indices: 59111306--59111588 Score: 272
Period size: 81 Copynumber: 3.5 Consensus size: 81
59111296 CTTTAAACTT
* * * * *
59111306 TTAATTTAAAAACCCTAAACCTTTAAATTTAAAACCTTAAAACCC-TAAAACCCTAAA-TTCATA
1 TTAACTTAAAAACCCTAAACCCTTAAATTAAAAATCGT-AAACCCTTAAAACCCTAAACTT-ATA
*
59111369 AATTAAAAACCTTAACCC
64 AATTAAAAACCCTAACCC
* * * *
59111387 TTAACGTAAAAACCCTAAACCCTTAAATTAAAAA-CTTTAAAACCTTAAAACCCTAAACTTTTAA
1 TTAACTTAAAAACCCTAAACCCTTAAATTAAAAATC-GTAAACCCTTAAAACCCTAAACTTATAA
59111451 ATTAAAAACCCTAACCC
65 ATTAAAAACCCTAACCC
* * **** *
59111468 TTAACTTAAAAACCATAAACCCTTAACTTAAAAATCGTAAACCCTT-AAATTAAAAAC-CATAAA
1 TTAACTTAAAAACCCTAAACCCTTAAATTAAAAATCGTAAACCCTTAAAACCCTAAACTTATAAA
*
59111531 CCTT-AAAACCCTAAACCT
66 --TTAAAAACCCT-AACCC
* * * *
59111549 TTTACTTAAAAACCTTAAACCCTTAACTTAAAAATTGTAA
1 TTAACTTAAAAACCCTAAACCCTTAAATTAAAAATCGTAA
59111589 CACTTAACTT
Statistics
Matches: 173, Mismatches: 22, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
79 4 0.02
80 21 0.12
81 145 0.84
82 3 0.02
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.28
Consensus pattern (81 bp):
TTAACTTAAAAACCCTAAACCCTTAAATTAAAAATCGTAAACCCTTAAAACCCTAAACTTATAAA
TTAAAAACCCTAACCC
Found at i:59111538 original size:15 final size:15
Alignment explanation
Indices: 59111520--59111549 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59111510 CCTTAAATTA
59111520 AAAACCATAAACCTT
1 AAAACCATAAACCTT
*
59111535 AAAACCCTAAACCTT
1 AAAACCATAAACCTT
59111550 TTACTTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAACCATAAACCTT
Found at i:59111602 original size:81 final size:80
Alignment explanation
Indices: 59111455--59111617 Score: 222
Period size: 81 Copynumber: 2.0 Consensus size: 80
59111445 TTTTAAATTA
*
59111455 AAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAACTTAAAAATCGTAAACCCTTAAATTA
1 AAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAACTTAAAAATCGTAAACACTTAAATT-
59111520 AAAACCATAAA-CCTT
65 AAAACCATAAACCCTT
* * * * *
59111535 AAAACCCTAAACCTTTTACTTAAAAACCTTAAACCCTTAACTTAAAAATTGT-AACACTTAACTT
1 AAAACCCT-AACCCTTAACTTAAAAACCATAAACCCTTAACTTAAAAATCGTAAACACTTAA-AT
*
59111599 TAAAACCTTAAACCCTT
64 TAAAACCATAAACCCTT
59111616 AA
1 AA
59111618 CTTAAAAATT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
80 26 0.36
81 47 0.64
ACGTcount: A:0.47, C:0.25, G:0.01, T:0.27
Consensus pattern (80 bp):
AAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAACTTAAAAATCGTAAACACTTAAATTA
AAACCATAAACCCTT
Found at i:59111663 original size:64 final size:64
Alignment explanation
Indices: 59111447--59111774 Score: 355
Period size: 64 Copynumber: 5.2 Consensus size: 64
59111437 CCCTAAACTT
* * * *
59111447 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAACTTAAAAATCGTAAACCC
1 TTAAATTAAAAACACTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATTGT-AACCC
* * * * *
59111512 TTAAATTAAAAAC-C--A---TAAACCTTAAAACCCTAAACCTTTTACTTAAAAACCTT-AAACC
1 TTAAATTAAAAACACTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAA--TTGTAACC
59111570 C
64 C
* *** * *
59111571 TTAACTTAAAAATTGTAACACTTAACTTTAAAACCTTAAACCCTTAACTTAAAAATTGTAACCC
1 TTAAATTAAAAACACTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATTGTAACCC
* * *
59111635 TTAAATTAAAAGCACTAACCTTTAACTTTAAAACCCTAAACTCTTAACTTAAAAATTGTAACCC
1 TTAAATTAAAAACACTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATTGTAACCC
* * * * * *
59111699 TTAACTTAAAAGCCCTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAACTATAAACCG
1 TTAAATTAAAAACACTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATTGT-AACCC
59111764 TTAAATTAAAA
1 TTAAATTAAAA
59111775 CTCTAAAACC
Statistics
Matches: 219, Mismatches: 34, Indels: 20
0.80 0.12 0.07
Matches are distributed among these distances:
59 44 0.20
61 1 0.00
62 2 0.01
63 2 0.01
64 114 0.52
65 56 0.26
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (64 bp):
TTAAATTAAAAACACTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAATTGTAACCC
Found at i:59111776 original size:29 final size:29
Alignment explanation
Indices: 59111744--59111803 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
59111734 CTAAACCCTT
*
59111744 AACT-TAAAAACTATAAACCGTTAAATTAA
1 AACTCTAAAAACT-TAAACCCTTAAATTAA
* *
59111773 AACTCTAAAACCTTAAACCCTTAACTTAA
1 AACTCTAAAAACTTAAACCCTTAAATTAA
59111802 AA
1 AA
59111804 ACTATAACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.52, C:0.20, G:0.02, T:0.27
Consensus pattern (29 bp):
AACTCTAAAAACTTAAACCCTTAAATTAA
Found at i:59111790 original size:51 final size:50
Alignment explanation
Indices: 59111722--59111824 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 50
59111712 CCTAACCCTT
* *
59111722 AACTTTAAAACCCTAAACCCTTAACTTAAAAACTATAAACCGTTAAATTAA
1 AACTCTAAAACCCTAAACCCTTAACTTAAAAACTAT-AACCCTTAAATTAA
*
59111773 AACTCTAAAACCTTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAA
1 AACTCTAAAACCCTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAA
59111823 AA
1 AA
59111825 GCACTAACCC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 15 0.31
51 34 0.69
ACGTcount: A:0.50, C:0.22, G:0.01, T:0.27
Consensus pattern (50 bp):
AACTCTAAAACCCTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAA
Found at i:59111797 original size:115 final size:114
Alignment explanation
Indices: 59111658--59111888 Score: 354
Period size: 115 Copynumber: 2.0 Consensus size: 114
59111648 ACTAACCTTT
* * * * * *
59111658 AACTTTAAAACCCTAAACTCTTAACTTAAAAATTGTAACCCTTAACTTAAAAGCCCTAACCCTTA
1 AACTCTAAAACCCTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAAGCACTAACCCTTA
* *
59111723 ACTTTAAAACCCTAAACCCTTAACTTAAAAACTATAAACCGTTAAATTAA
66 ACTTAAAAACCCTAAACCCTTAACTTAAAAACTAT-AACCCTTAAATTAA
*
59111773 AACTCTAAAACCTTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAAGCACTAACCCTTA
1 AACTCTAAAACCCTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAAGCACTAACCCTTA
* *
59111838 ACTTAAAAACCCTAAACCCTTAACTTAAAAATTGTAACCCTTAAATTAA
66 ACTTAAAAACCCTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAA
59111887 AA
1 AA
59111889 GCCATAACCA
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
114 15 0.14
115 90 0.86
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.28
Consensus pattern (114 bp):
AACTCTAAAACCCTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAAGCACTAACCCTTA
ACTTAAAAACCCTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAA
Found at i:59111815 original size:29 final size:29
Alignment explanation
Indices: 59111744--59111818 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
59111734 CTAAACCCTT
* *
59111744 AACT-TAAAAACTATAAACCGTTAAATTAA
1 AACTATAAAACCT-TAAACCCTTAAATTAA
* *
59111773 AACTCTAAAACCTTAAACCCTTAACTTAAA
1 AACTATAAAACCTTAAACCCTTAAATT-AA
*
59111803 AACTAT-AACCCTTAAA
1 AACTATAAAACCTTAAA
59111819 TTAAAAGCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 25 0.64
30 14 0.36
ACGTcount: A:0.51, C:0.21, G:0.01, T:0.27
Consensus pattern (29 bp):
AACTATAAAACCTTAAACCCTTAAATTAA
Found at i:59111854 original size:64 final size:64
Alignment explanation
Indices: 59111773--59112157 Score: 362
Period size: 64 Copynumber: 6.1 Consensus size: 64
59111763 GTTAAATTAA
* * *
59111773 AACTCTAAAACCTTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAAGCACTAACCCTT
1 AACTTTAAAACCCTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAAACACTAACCCTT
* * * * *
59111837 AACTTAAAAACCCTAAACCCTTAACTTAAAAATTGTAACCCTTAAATTAAAAGC-CATAACCATT
1 AACTTTAAAACCCTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAAACAC-TAACCCTT
* * * *
59111901 AACTTTAAAACCCTAAACTCTTAACTTAAAAATTGTAAACCCTTAAATTAATAAC-CTTAA----
1 AACTTTAAAACCCTAAACCCTTAACTTAAAAACTAT-AACCCTTAAATTAAAAACAC-TAACCCT
59111961 -
64 T
* * * * *
59111961 AAC-CTAAAACCCTAAACCCTTATCTTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCCTT
1 AACTTTAAAACCCTAAACCCTTAACTTAAAAACTAT-AACCCTTAAATTAAAAACACTAACCCTT
* * *
59112025 AACTTTAAAACCATATACCCTTAACTTAAAAA-TCATAACCCTTAAATTAAATAC-CATAAACCC
1 AACTTTAAAACCCTAAACCCTTAACTTAAAAACT-ATAACCCTTAAATTAAAAACAC-T-AACCC
59112088 TT
63 TT
* * * ** * * *
59112090 AACTTTAAAATCAT-AACCCTTAA-ATAAAAACCCCTAACACTTAACTTAAAAACCCTAACCCTT
1 AACTTTAAAACCCTAAACCCTTAACTTAAAAA-CTATAACCCTTAAATTAAAAACACTAACCCTT
59112153 AACTT
1 AACTT
59112158 AAATATAATT
Statistics
Matches: 272, Mismatches: 34, Indels: 31
0.81 0.10 0.09
Matches are distributed among these distances:
59 46 0.17
60 4 0.01
63 20 0.07
64 135 0.50
65 67 0.25
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.27
Consensus pattern (64 bp):
AACTTTAAAACCCTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAAACACTAACCCTT
Found at i:59115767 original size:127 final size:125
Alignment explanation
Indices: 59115334--59115888 Score: 726
Period size: 126 Copynumber: 4.4 Consensus size: 125
59115324 CCCGAATATG
* *
59115334 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * * *
59115399 TAGAAGCA-ATTTTATACAATTTGCTCAGAAACGT---CTCAAAATTATTTTTCCAGGAC
66 TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * *
59115455 CTACTGTAGCAAAAGCGTGTCCATGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCTTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* *
59115519 CTT-ACAGCATTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
65 CTTGA-AGCATT-TTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * * *
59115581 CTACTGTAGCAAAAGCACGTCCATGTGGGTGCGATTTCACAAACTCTTCTCATAAAGCATCCCGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
59115646 TTGAAGCGATTTTTTAAACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAGGAC
66 TTGAAGC-ATTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* * * * *
59115708 CAACGGTAGCAAAAGTGCATCCACGAGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
59115773 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAGGAC
66 TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * * * *
59115833 CTACTGTAGCAAAAGCGCGTACACGTGAGCGCGACTTCAAAAATCCTTCTGATAAA
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAA
59115889 TCATACTACT
Statistics
Matches: 377, Mismatches: 46, Indels: 18
0.85 0.10 0.04
Matches are distributed among these distances:
120 2 0.01
121 63 0.17
123 24 0.06
125 53 0.14
126 160 0.42
127 75 0.20
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:59116036 original size:10 final size:9
Alignment explanation
Indices: 59116022--59116051 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
59116012 CCAAAAACCT
59116022 TAAAAATCC
1 TAAAAATCC
*
59116031 TAAAAACCC
1 TAAAAATCC
59116040 TAAAAATCC
1 TAAAAATCC
59116049 TAA
1 TAA
59116052 CCTGAGAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (9 bp):
TAAAAATCC
Found at i:59116037 original size:18 final size:18
Alignment explanation
Indices: 59116014--59116051 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
59116004 CTTTTTCCCC
*
59116014 AAAAACCTTAAAAATCCT
1 AAAAACCCTAAAAATCCT
59116032 AAAAACCCTAAAAATCCT
1 AAAAACCCTAAAAATCCT
59116050 AA
1 AA
59116052 CCTGAGAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAAACCCTAAAAATCCT
Found at i:59122566 original size:20 final size:20
Alignment explanation
Indices: 59122541--59122579 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
59122531 TAAATTTCTA
*
59122541 ATATAAAATATTCATCAATT
1 ATATAAAATACTCATCAATT
59122561 ATATAAAATACTCATCAAT
1 ATATAAAATACTCATCAAT
59122580 AAACTTCACA
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:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATAAAATACTCATCAATT
Found at i:59128025 original size:16 final size:16
Alignment explanation
Indices: 59128004--59128041 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
59127994 TGAGAATATG
59128004 ATTTACTCAAAAACTA
1 ATTTACTCAAAAACTA
59128020 ATTTACTCAAAAACTA
1 ATTTACTCAAAAACTA
59128036 ATTTAC
1 ATTTAC
59128042 GTGAAACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTTACTCAAAAACTA
Found at i:59139485 original size:5 final size:5
Alignment explanation
Indices: 59139475--59139502 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
59139465 AGTGCCAGTG
59139475 CCAGC CCAGC CCAGC CCAGC CCAGC CCA
1 CCAGC CCAGC CCAGC CCAGC CCAGC CCA
59139503 AGGTCCATAC
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:0.21, C:0.61, G:0.18, T:0.00
Consensus pattern (5 bp):
CCAGC
Found at i:59142040 original size:9 final size:9
Alignment explanation
Indices: 59142016--59142054 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
59142006 TGAATTTTAC
*
59142016 AATTCGAAT
1 AATTCAAAT
*
59142025 AACTCAAAT
1 AATTCAAAT
*
59142034 AGTTCAAAT
1 AATTCAAAT
59142043 AATTCAAAT
1 AATTCAAAT
59142052 AAT
1 AAT
59142055 ATGTTGTTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (9 bp):
AATTCAAAT
Found at i:59143313 original size:66 final size:66
Alignment explanation
Indices: 59143207--59143358 Score: 205
Period size: 66 Copynumber: 2.3 Consensus size: 66
59143197 TACACATCCT
* * *
59143207 ACCGTTGTTTTTAATCTCACTGTTATAGTATCCTATCTCATCGTTACAGTAATCAATCTCACCAT
1 ACCGTTGTTTTTAATCTCACTGTTACAGTATCCTATCTCATCGCTACAGTAACCAATCTCACCAT
59143272 C
66 C
* * * * *
59143273 ACCGTTGTTTTTAATCTCATTGTTCCAGTATTCTATCTCATCGCTACAGTAACCAATCTTACCGT
1 ACCGTTGTTTTTAATCTCACTGTTACAGTATCCTATCTCATCGCTACAGTAACCAATCTCACCAT
59143338 C
66 C
* * *
59143339 ACTGTTATTTTTAACCTCAC
1 ACCGTTGTTTTTAATCTCAC
59143359 CGAAGGCAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 74 1.00
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.40
Consensus pattern (66 bp):
ACCGTTGTTTTTAATCTCACTGTTACAGTATCCTATCTCATCGCTACAGTAACCAATCTCACCAT
C
Found at i:59143745 original size:16 final size:17
Alignment explanation
Indices: 59143717--59143762 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
59143707 ATTGTGGTAA
59143717 AAAAATACTTTTTGATT
1 AAAAATACTTTTTGATT
59143734 AAAAATACTTTTTGATT
1 AAAAATACTTTTTGATT
*
59143751 AAAAATGCTTTT
1 AAAAATACTTTT
59143763 CCACCGCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (17 bp):
AAAAATACTTTTTGATT
Found at i:59144979 original size:12 final size:13
Alignment explanation
Indices: 59144964--59144993 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
59144954 AAGTTCGCCA
59144964 AAAGAGTTT-AGT
1 AAAGAGTTTCAGT
59144976 AAAGAGTTTCAGT
1 AAAGAGTTTCAGT
59144989 AAAGA
1 AAAGA
59144994 TCAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.47, C:0.03, G:0.23, T:0.27
Consensus pattern (13 bp):
AAAGAGTTTCAGT
Found at i:59145140 original size:27 final size:27
Alignment explanation
Indices: 59145085--59145140 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
59145075 TTCGCTGGTT
** *
59145085 AAGTTGGGAAATGGGGGTTTGCCAGTC
1 AAGTTGGGAAATGGGGGTTCACCAATC
* *
59145112 AAGTTGTGAACTGGGGGTTCACCAATC
1 AAGTTGGGAAATGGGGGTTCACCAATC
59145139 AA
1 AA
59145141 ATTCAAAGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.25
Consensus pattern (27 bp):
AAGTTGGGAAATGGGGGTTCACCAATC
Found at i:59157178 original size:12 final size:12
Alignment explanation
Indices: 59157161--59157185 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59157151 TAAAAAGACC
59157161 TCACAATATTAA
1 TCACAATATTAA
59157173 TCACAATATTAA
1 TCACAATATTAA
59157185 T
1 T
59157186 GTTTTTTCGT
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (12 bp):
TCACAATATTAA
Found at i:59157285 original size:20 final size:22
Alignment explanation
Indices: 59157260--59157300 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
59157250 GCATTCTATC
59157260 AATTTAG-TCACGAT-TTAAAA
1 AATTTAGCTCACGATATTAAAA
*
59157280 AATTTAGCTTACGATATTAAA
1 AATTTAGCTCACGATATTAAA
59157301 TGTTAGGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (22 bp):
AATTTAGCTCACGATATTAAAA
Found at i:59173688 original size:3 final size:3
Alignment explanation
Indices: 59173675--59173715 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
59173665 GCGTATATAT
*
59173675 ATA AGTA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA A
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
59173716 AAGATGATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:59176993 original size:41 final size:41
Alignment explanation
Indices: 59176819--59176980 Score: 254
Period size: 41 Copynumber: 4.0 Consensus size: 41
59176809 TTATAGTTTA
* * * *
59176819 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTGTAG-CCTG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-G
*
59176860 ATTCAGTTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
*
59176901 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
59176942 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
59176981 TGGATAATTT
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
41 112 0.98
42 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
Found at i:59182363 original size:46 final size:46
Alignment explanation
Indices: 59182296--59182527 Score: 383
Period size: 46 Copynumber: 5.0 Consensus size: 46
59182286 ACAATGCTTT
* * *
59182296 AACTCAGTATGGTTTCCTTCACTAAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
59182342 AACTCAGTATGATTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
59182388 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
59182434 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCGC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* **
59182480 AACTCAGTATGGTTTTCTTCACCGAAGTACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
59182526 AA
1 AA
59182528 TTTACCATAG
Statistics
Matches: 174, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 174 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:59183295 original size:17 final size:17
Alignment explanation
Indices: 59183273--59183305 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
59183263 AATTCTTTTT
59183273 AAATCACAAAATTCACA
1 AAATCACAAAATTCACA
*
59183290 AAATCACAGAATTCAC
1 AAATCACAAAATTCAC
59183306 TAATTCAAAA
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:0.55, C:0.24, G:0.03, T:0.18
Consensus pattern (17 bp):
AAATCACAAAATTCACA
Found at i:59183702 original size:32 final size:32
Alignment explanation
Indices: 59183666--59183731 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
59183656 TTTTCTTGAA
* *
59183666 CTTTTCAGAGA-GAAAAAAAATGGTTGCAAGAC
1 CTTTTCAGACATG-AAAAAAATGATTGCAAGAC
* *
59183698 CTTTTGATACATGAAAAAAATGATTGCAAGAC
1 CTTTTCAGACATGAAAAAAATGATTGCAAGAC
59183730 CT
1 CT
59183732 AATACACTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (32 bp):
CTTTTCAGACATGAAAAAAATGATTGCAAGAC
Found at i:59183737 original size:29 final size:30
Alignment explanation
Indices: 59183679--59183737 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
59183669 TTCAGAGAGA
* *
59183679 AAAAAAATGGTTGCAAGACCTTTTGATACATG
1 AAAAAAATGATTGCAAGACC--TTAATACATG
59183711 AAAAAAATGATTGCAAGACC-TAATACA
1 AAAAAAATGATTGCAAGACCTTAATACA
59183738 CTAAGGGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
32 19 0.76
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.24
Consensus pattern (30 bp):
AAAAAAATGATTGCAAGACCTTAATACATG
Found at i:59188135 original size:14 final size:14
Alignment explanation
Indices: 59188116--59188155 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
59188106 TATCACATTT
59188116 TATATTAAAAAAAA
1 TATATTAAAAAAAA
* *
59188130 TATATTTATAAAAA
1 TATATTAAAAAAAA
59188144 TATATTAAAAAA
1 TATATTAAAAAA
59188156 GATTATTAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TATATTAAAAAAAA
Found at i:59188523 original size:44 final size:44
Alignment explanation
Indices: 59188451--59188538 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
59188441 TCGTAAATAA
* *
59188451 GTAATTGAGTTTGAAATTGGATAGGAGACTCAAAACTTACTTTT
1 GTAATTGAGTTTGAAATTGGATACGAGACTCAAAACTTAATTTT
59188495 GTAATTGAGTTTGAAATTAGG-TACGAGACTCAAAACTTAATTTT
1 GTAATTGAGTTTGAAATT-GGATACGAGACTCAAAACTTAATTTT
59188539 CACGAGGTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 39 0.95
45 2 0.05
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.36
Consensus pattern (44 bp):
GTAATTGAGTTTGAAATTGGATACGAGACTCAAAACTTAATTTT
Found at i:59190683 original size:17 final size:17
Alignment explanation
Indices: 59190661--59190724 Score: 76
Period size: 17 Copynumber: 3.6 Consensus size: 17
59190651 AATCTTAGAG
59190661 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
59190678 TTCTAATTGTAT-CTTAGAG
1 TTCTAATTGTATAC--AG-C
59190697 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
59190714 TTTTAATTGTA
1 TTCTAATTGTA
59190725 GCCCTTGATG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.03
17 22 0.55
18 4 0.10
19 12 0.30
20 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:59190699 original size:36 final size:36
Alignment explanation
Indices: 59190652--59190724 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
59190642 TGATTATGTA
59190652 ATCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
1 ATCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
*
59190688 ATCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 ATCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
59190724 A
1 A
59190725 GCCCTTGATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (36 bp):
ATCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
Found at i:59190702 original size:19 final size:19
Alignment explanation
Indices: 59190652--59190708 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
59190642 TGATTATGTA
59190652 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
*
59190671 ATAC--AG-CTTCTAATTGT
1 AT-CTTAGAGTTCTAATTGT
59190688 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
59190707 AT
1 AT
59190709 ACAGCTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.38
18 4 0.12
19 14 0.44
20 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (19 bp):
ATCTTAGAGTTCTAATTGT
Found at i:59195793 original size:17 final size:17
Alignment explanation
Indices: 59195771--59195831 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
59195761 AATCTTAGAG
59195771 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
59195788 TTCTAATTGTAT-CTTAGAG
1 TTCTAATTGTATAC--AG-C
59195807 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
59195824 TTTTAATT
1 TTCTAATT
59195832 ATAGCCCTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 1 0.03
17 19 0.51
18 4 0.11
19 12 0.32
20 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:59195809 original size:36 final size:36
Alignment explanation
Indices: 59195762--59195831 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
59195752 TGATTATGTA
59195762 ATCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
1 ATCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
*
59195798 ATCTTAGAGTTCTAATTGTATACAGCTTTTAATT
1 ATCTTAGAGTTCTAATTGTATACAGCTTCTAATT
59195832 ATAGCCCTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.46
Consensus pattern (36 bp):
ATCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
Found at i:59195812 original size:19 final size:19
Alignment explanation
Indices: 59195762--59195818 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
59195752 TGATTATGTA
59195762 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
*
59195781 ATAC--AG-CTTCTAATTGT
1 AT-CTTAGAGTTCTAATTGT
59195798 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
59195817 AT
1 AT
59195819 ACAGCTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.38
18 4 0.12
19 14 0.44
20 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (19 bp):
ATCTTAGAGTTCTAATTGT
Found at i:59196099 original size:49 final size:48
Alignment explanation
Indices: 59196027--59196123 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 48
59196017 TGAGGGAATT
* * *
59196027 CTGTTGAATCCTTTATCATTGCGAGATTAAGCTGACTTAGGTGTTTTTA
1 CTGTTGAATCCGTTATCATTGCGAG-TTAAGATGACTTAGGCGTTTTTA
*
59196076 CTGTTGAATCCGTTATCATTGCGAGTTAGGATGACTTAGGCGTTTTTA
1 CTGTTGAATCCGTTATCATTGCGAGTTAAGATGACTTAGGCGTTTTTA
59196124 AGCAAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 20 0.45
49 24 0.55
ACGTcount: A:0.22, C:0.14, G:0.23, T:0.41
Consensus pattern (48 bp):
CTGTTGAATCCGTTATCATTGCGAGTTAAGATGACTTAGGCGTTTTTA
Found at i:59200006 original size:41 final size:41
Alignment explanation
Indices: 59199961--59200056 Score: 140
Period size: 41 Copynumber: 2.4 Consensus size: 41
59199951 TTGATCTCGG
* * *
59199961 TTTCGCACACTTAGTGCCCGTTATTTAACATCATTATTTAA
1 TTTCGCACACTTAGTGCCCATTATTCAACATCATCATTTAA
* *
59200002 TTTCGCACACTTAGTGCTCATTATTCAACCTCATCATTTAA
1 TTTCGCACACTTAGTGCCCATTATTCAACATCATCATTTAA
59200043 -TTCGCACACTTAGT
1 TTTCGCACACTTAGT
59200057 TCTAATCATA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 14 0.28
41 36 0.72
ACGTcount: A:0.26, C:0.25, G:0.09, T:0.40
Consensus pattern (41 bp):
TTTCGCACACTTAGTGCCCATTATTCAACATCATCATTTAA
Found at i:59203094 original size:20 final size:19
Alignment explanation
Indices: 59203069--59203109 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
59203059 ATTCTGAAAA
**
59203069 TAATATTATTTTAATATATT
1 TAATATTAAATTAA-ATATT
59203089 TAATATTAAATTAAATATT
1 TAATATTAAATTAAATATT
59203108 TA
1 TA
59203110 TCTTTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATATTAAATTAAATATT
Found at i:59203216 original size:61 final size:58
Alignment explanation
Indices: 59203151--59203266 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 58
59203141 AGTGATTATC
* * *
59203151 TTAATTTTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAGAT
*
59203212 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
59203267 TTGAAGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 22 0.43
59 1 0.02
60 1 0.02
61 27 0.53
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (58 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAGAT
Found at i:59203279 original size:58 final size:60
Alignment explanation
Indices: 59203157--59203286 Score: 160
Period size: 58 Copynumber: 2.2 Consensus size: 60
59203147 TATCTTAATT
* * *
59203157 TTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATAGATTTAATA
1 TTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATA-ATTGAATA
*
59203218 TTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATATTAATTTAAT-ATTGAAGTGA
1 TTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAATTGAA-T-A
*
59203276 TTAAGTTTAAT
1 TTAAATTTAAT
59203287 TATAGTTGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 32 0.52
59 1 0.02
60 1 0.02
61 22 0.35
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (60 bp):
TTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAATTGAATA
Found at i:59203353 original size:14 final size:14
Alignment explanation
Indices: 59203334--59203363 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
59203324 GTCATGGAAT
59203334 TTGTAGAGAGAAAA
1 TTGTAGAGAGAAAA
59203348 TTGTAGAGAGAAAA
1 TTGTAGAGAGAAAA
59203362 TT
1 TT
59203364 TTCTAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (14 bp):
TTGTAGAGAGAAAA
Found at i:59203390 original size:26 final size:25
Alignment explanation
Indices: 59203356--59203407 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
59203346 AATTGTAGAG
59203356 AGAAAATTTTCTAAAGA-AATTATTTT
1 AGAAAA-TTTCTAAAGATAATT-TTTT
* *
59203382 AGAAGATTTCTAGAGATAATTTTTT
1 AGAAAATTTCTAAAGATAATTTTTT
59203407 A
1 A
59203408 TTTAAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (25 bp):
AGAAAATTTCTAAAGATAATTTTTT
Found at i:59206913 original size:19 final size:20
Alignment explanation
Indices: 59206871--59206917 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
59206861 AAAAATACTA
59206871 AAAATAAAAGAAATATAACT
1 AAAATAAAAGAAATATAACT
* *
59206891 -AAATGAAAGAAATA-AATT
1 AAAATAAAAGAAATATAACT
59206909 AAAATAAAA
1 AAAATAAAA
59206918 TTAATATCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.19
Consensus pattern (20 bp):
AAAATAAAAGAAATATAACT
Found at i:59206957 original size:4 final size:4
Alignment explanation
Indices: 59206948--59207036 Score: 64
Period size: 4 Copynumber: 22.8 Consensus size: 4
59206938 TAATAAAACA
* * * *
59206948 AAAT AAAT AAAT AAAT -CAT CAAAC AAAT CAGT AAA- ATAAT -AAT AAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT A-AAT AAAT AAAT
59206995 -AAT ATAAT AAAT -AAT AAAT AAAT AAAT AAAT -AAT AAAAT AAA
1 AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAA
59207037 GAAAAGGGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
3 15 0.22
4 44 0.66
5 8 0.12
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:59207003 original size:15 final size:15
Alignment explanation
Indices: 59206983--59207035 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
59206973 AATCAGTAAA
59206983 ATAATAATAAATAAT
1 ATAATAATAAATAAT
59206998 ATAATAA-ATAATAA-
1 ATAATAATA-AATAAT
59207012 ATAAATAAATAAATAAT
1 AT-AAT-AATAAATAAT
*
59207029 AAAATAA
1 ATAATAA
59207036 AGAAAAGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
14 3 0.09
15 17 0.53
16 10 0.31
17 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:59207007 original size:19 final size:19
Alignment explanation
Indices: 59206948--59207036 Score: 81
Period size: 20 Copynumber: 4.4 Consensus size: 19
59206938 TAATAAAACA
*
59206948 AAATAAATAAATAAATCAT
1 AAATAAATAAATAAATAAT
* *
59206967 CAAACAAATCAGTAAAATAATAAT
1 -AAATAAAT-A--AATA-AATAAT
59206991 AAAT-AATATAATAAATAAT
1 AAATAAATA-AATAAATAAT
59207010 AAATAAATAAATAAATAAT
1 AAATAAATAAATAAATAAT
59207029 AAAATAAA
1 -AAATAAA
59207037 GAAAAGGGTA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
19 20 0.34
20 22 0.38
21 2 0.03
22 3 0.05
23 6 0.10
24 5 0.09
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (19 bp):
AAATAAATAAATAAATAAT
Found at i:59210262 original size:102 final size:102
Alignment explanation
Indices: 59210086--59210284 Score: 362
Period size: 102 Copynumber: 2.0 Consensus size: 102
59210076 AACTGTAGGC
*
59210086 GAATGGTGTCGTCAGTGACGCCATTAATTTTGAAATTATCATAGATTTCTAAAAAATTAGCCAAA
1 GAATGGTGTCGTCAGTGACGCCATTAATTTTGAAAGTATCATAGATTTCTAAAAAATTAGCCAAA
*
59210151 TGAGTATTTGGATCTTCGTCTTGCAAACCATCAAACT
66 TGAGTATTTGGATATTCGTCTTGCAAACCATCAAACT
* *
59210188 GAATGGTGTCGTCAGTGACGCCATTAATTTTGAAAGTATCGTAGATTTCTAAATAATTAGCCAAA
1 GAATGGTGTCGTCAGTGACGCCATTAATTTTGAAAGTATCATAGATTTCTAAAAAATTAGCCAAA
59210253 TGAGTATTTGGATATTCGTCTTGCAAACCATC
66 TGAGTATTTGGATATTCGTCTTGCAAACCATC
59210285 GAATTGAACA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (102 bp):
GAATGGTGTCGTCAGTGACGCCATTAATTTTGAAAGTATCATAGATTTCTAAAAAATTAGCCAAA
TGAGTATTTGGATATTCGTCTTGCAAACCATCAAACT
Found at i:59221404 original size:13 final size:13
Alignment explanation
Indices: 59221382--59221417 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
59221372 TATCTTATTA
*
59221382 ATTTTAAAAATTT
1 ATTTTCAAAATTT
59221395 ATTTTCAAAATTT
1 ATTTTCAAAATTT
*
59221408 ATTGTCAAAA
1 ATTTTCAAAA
59221418 CATCCCCGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (13 bp):
ATTTTCAAAATTT
Found at i:59231688 original size:61 final size:61
Alignment explanation
Indices: 59231592--59231715 Score: 160
Period size: 61 Copynumber: 2.0 Consensus size: 61
59231582 CTCCACCTTA
* * ** * *
59231592 AAATTTTCTTTTACCAAATTTGGTTGGCTACCTTTAATACAATA-TGAAGTGTTCCGGTCGC
1 AAATTTTCTTTTACCAAAATTGGGTACCTACCTTTAATACAA-AGTGAAGTGGTCCGATCGC
* *
59231653 AAATTTTCTTTTACCAAAATTGGGTACCTAGCTTTAATATAAAGTGAAGTGGTCCGATCGC
1 AAATTTTCTTTTACCAAAATTGGGTACCTACCTTTAATACAAAGTGAAGTGGTCCGATCGC
59231714 AA
1 AA
59231716 GGTTCTTGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
60 1 0.02
61 53 0.98
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (61 bp):
AAATTTTCTTTTACCAAAATTGGGTACCTACCTTTAATACAAAGTGAAGTGGTCCGATCGC
Found at i:59242721 original size:23 final size:23
Alignment explanation
Indices: 59242695--59242744 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
59242685 ACAAATATGT
*
59242695 TAAATTT-AAATAATGATACATA
1 TAAATTTCAAATAATAATACATA
59242717 GTAAATTTCAAATAATAATACATA
1 -TAAATTTCAAATAATAATACATA
59242741 TAAA
1 TAAA
59242745 AACTTAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (23 bp):
TAAATTTCAAATAATAATACATA
Found at i:59244663 original size:18 final size:18
Alignment explanation
Indices: 59244640--59244676 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
59244630 GTATAAATAC
59244640 GTATATATAAAATAT-AAG
1 GTATATA-AAAATATGAAG
59244658 GTATATAAAAATATGAAG
1 GTATATAAAAATATGAAG
59244676 G
1 G
59244677 ATAAAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (18 bp):
GTATATAAAAATATGAAG
Found at i:59246559 original size:45 final size:45
Alignment explanation
Indices: 59246414--59246771 Score: 244
Period size: 44 Copynumber: 8.0 Consensus size: 45
59246404 ATAAGACTTG
* * * *
59246414 TATCTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTACT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT-GT
* * * *** * *
59246460 T-TCTTCGATCTACTTC-ACGCCAGTACATGAAGACAATACCTGCT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-T
* ** * *
59246504 T-TCTTCGATCTGTTTCGCCACCAGTATGGGAGGACCAGATCTGT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
* * *** *
59246548 TATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATTTGCTT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG--T
* * * *
59246594 TTTCCTTCGATC-AGCTTCGCCACCAGTATGGGAAGGCAAGATCTAT
1 TAT-CTTTGATCTA-CTTCGCCACCAGTATGGGAAGACAAGATCTGT
* * ***
59246640 TATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
* *
59246684 TTTCTTTTATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
* * * * * * *
59246728 TATATTCGATCCACTTCGCTACCAATATAGGAAGACATGATCTG
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
59246772 CTACTTTTCA
Statistics
Matches: 237, Mismatches: 65, Indels: 22
0.73 0.20 0.07
Matches are distributed among these distances:
44 123 0.52
45 76 0.32
46 9 0.04
47 11 0.05
48 18 0.08
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (45 bp):
TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
Found at i:59246643 original size:92 final size:90
Alignment explanation
Indices: 59246416--59246726 Score: 432
Period size: 89 Copynumber: 3.5 Consensus size: 90
59246406 AAGACTTGTA
* * *
59246416 TCTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTACTT-TCTTCGATCTACTTCACGC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTA-TTATCTTTGATCTACTTCACGC
* *
59246480 CAGTACATGAAGACAATACCTGC-TT
65 CAGTACATGAAGACAAGATCTGCTTT
** * * *
59246505 TCTTCGATCTGTTTCGCCACCAGTATGGGAGGACCAGATCTGTTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCC
*
59246570 AGTACATGAAGACAAGATTTGCTTTT
66 AGTACATGAAGACAAGATCTGC-TTT
*
59246596 TCCTTCGATC-AGCTTCGCCACCAGTATGGGAAGGCAAGATCTATTATCTTTGATCTACTTCACG
1 T-CTTCGATCTA-CTTCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACG
59246660 CCAGTACATGAAGACAAGATCTG-TTT
64 CCAGTACATGAAGACAAGATCTGCTTT
**
59246686 TCTTTTATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
59246727 GTATATTCGA
Statistics
Matches: 195, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
88 2 0.01
89 108 0.55
90 5 0.03
91 3 0.02
92 77 0.39
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (90 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCC
AGTACATGAAGACAAGATCTGCTTT
Found at i:59246764 original size:181 final size:181
Alignment explanation
Indices: 59246417--59246773 Score: 459
Period size: 181 Copynumber: 2.0 Consensus size: 181
59246407 AGACTTGTAT
59246417 CTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCA
1 CTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCA
* ** * *
59246482 GTACATGAAGACAATACCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGGAGGACCAGATCTG
66 GTACATGAAGACAAGACCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
* * * * * * *
59246547 TTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGCTTTTTC
131 TTATATTCGATCCACTTCACACCAATACAGGAAGACAAGATCTGCTTTTTC
* * * *
59246598 CTTCGATC-AGCTTCGCCACCAGTATGGGAAGGCAAGATCTA-TTATCTTTGATCTACTTCACGC
1 CTTCGATCTA-CTTCACCACCAGTAGGGGAAGACAAGATCTACTT-TCTTCGATCTACTTCACGC
* * **
59246661 CAGTACATGAAGACAAGATCTGTTTTCTTTTATCTACTTCGCCACCAGTATGGGAAGACAAGATC
64 CAGTACATGAAGACAAGACCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATC
* * *
59246726 TG-TATATTCGATCCACTTCGCTACCAATATAGGAAGACATGATCTGCT
129 TGTTATATTCGATCCACTTCAC-ACCAATACAGGAAGACAAGATCTGCT
59246774 ACTTTTCAAC
Statistics
Matches: 150, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
180 18 0.12
181 132 0.88
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (181 bp):
CTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCA
GTACATGAAGACAAGACCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
TTATATTCGATCCACTTCACACCAATACAGGAAGACAAGATCTGCTTTTTC
Found at i:59258029 original size:17 final size:17
Alignment explanation
Indices: 59257975--59258325 Score: 171
Period size: 17 Copynumber: 19.9 Consensus size: 17
59257965 TTTTTAAAAA
59257975 AAACACGAAAA-TTTTG
1 AAACACGAAAATTTTTG
* *
59257991 AAACACGAGATTTCTTTG
1 AAACACGAAAATT-TTTG
*
59258009 AAACACGAAAATTTATG
1 AAACACGAAAATTTTTG
** *
59258026 AAACACGGTCAATTTCTTA
1 AAACAC-GAAAATTT-TTG
* *
59258045 AAACGCGAAAGTTTTTGG
1 AAACACGAAAATTTTT-G
**
59258063 AAA-ACGGGAATTTTTTTTTG
1 AAACAC--GAA--AATTTTTG
*
59258083 AAACACGAAAAATTTTG
1 AAACACGAAAATTTTTG
*
59258100 AAACACTG-GAA-TTTTG
1 AAACAC-GAAAATTTTTG
** *
59258116 AAAACACGAGGATTTTTT
1 -AAACACGAAAATTTTTG
* *
59258134 AAATACGAAAA-ATTTG
1 AAACACGAAAATTTTTG
*
59258150 AAAACAAGAAAATTTTTG
1 -AAACACGAAAATTTTTG
* *
59258168 AAATACGAAAATTTTAG
1 AAACACGAAAATTTTTG
59258185 AAACACGAAAATTTTTG
1 AAACACGAAAATTTTTG
* *
59258202 AAACAC-AGAAGTTTTCAG
1 AAACACGA-AAATTTT-TG
*
59258220 AAAACACGAAAAATTTTG
1 -AAACACGAAAATTTTTG
* **
59258238 AAA-ATTGGAATTTTTTTTG
1 AAACA--CGAA-AATTTTTG
*
59258257 AAAACACGAGAATTTTTG
1 -AAACACGAAAATTTTTG
*
59258275 AAAAACATGAAAATTTTTG
1 --AAACACGAAAATTTTTG
* *
59258294 CAACACG-GAA-TTTTG
1 AAACACGAAAATTTTTG
59258309 AAAACACGAAAAATTTT
1 -AAACACG-AAAATTTT
59258326 CCGATTTTTA
Statistics
Matches: 249, Mismatches: 56, Indels: 57
0.69 0.15 0.16
Matches are distributed among these distances:
15 5 0.02
16 28 0.11
17 100 0.40
18 51 0.20
19 49 0.20
20 8 0.03
21 8 0.03
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.30
Consensus pattern (17 bp):
AAACACGAAAATTTTTG
Found at i:59258322 original size:34 final size:36
Alignment explanation
Indices: 59258259--59258325 Score: 95
Period size: 33 Copynumber: 1.9 Consensus size: 36
59258249 TTTTTTTGAA
*
59258259 AACACGAGAATTTTTGAAAAACATGAAAATTTTTGC
1 AACACGAGAATTTTTGAAAAACACGAAAATTTTTGC
*
59258295 AACACG-GAA-TTTTG-AAAACACGAAAAATTTT
1 AACACGAGAATTTTTGAAAAACACGAAAATTTTT
59258326 CCGATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 15 0.52
34 5 0.17
35 3 0.10
36 6 0.21
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.28
Consensus pattern (36 bp):
AACACGAGAATTTTTGAAAAACACGAAAATTTTTGC
Found at i:59258455 original size:21 final size:20
Alignment explanation
Indices: 59258429--59258470 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
59258419 TGTTACCTTA
59258429 TTTTTGAAAACACGAGAAATT
1 TTTTTGAAAACACGA-AAATT
*
59258450 TTTTTGAAGACACGAAAATT
1 TTTTTGAAAACACGAAAATT
59258470 T
1 T
59258471 CGAAACCCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTTTTGAAAACACGAAAATT
Found at i:59258905 original size:7 final size:7
Alignment explanation
Indices: 59258897--59258945 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
59258887 TAAATTTTTT
59258897 TTCTTT-
1 TTCTTTC
*
59258903 TTTTTTC
1 TTCTTTC
59258910 TT-TCTTC
1 TTCT-TTC
59258917 TTCTTTC
1 TTCTTTC
59258924 TTCTTTC
1 TTCTTTC
59258931 TTC-TTC
1 TTCTTTC
59258937 TTCTCTTC
1 TTCT-TTC
59258945 T
1 T
59258946 CCTCCTACAC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
6 12 0.32
7 20 0.54
8 5 0.14
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (7 bp):
TTCTTTC
Found at i:59258927 original size:17 final size:17
Alignment explanation
Indices: 59258897--59258945 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
59258887 TAAATTTTTT
* *
59258897 TTCTTTTTTTTTCTTTC
1 TTCTTCTTTCTTCTTTC
59258914 TTCTTCTTTCTTCTTTC
1 TTCTTCTTTCTTCTTTC
59258931 TTCTTCTTCTCTTCT
1 TTCTTCTT-TCTTCT
59258946 CCTCCTACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 23 0.79
18 6 0.21
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (17 bp):
TTCTTCTTTCTTCTTTC
Found at i:59258934 original size:10 final size:10
Alignment explanation
Indices: 59258897--59258945 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
59258887 TAAATTTTTT
* *
59258897 TTCTTTTTTT
1 TTCTTTCTTC
59258907 TTCTTTCTTC
1 TTCTTTCTTC
59258917 TTCTTTCTTC
1 TTCTTTCTTC
59258927 TT-TCTTCTTC
1 TTCT-TTCTTC
59258937 TTCTCTTCT
1 TTCT-TTCT
59258946 CCTCCTACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
9 1 0.03
10 28 0.80
11 6 0.17
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (10 bp):
TTCTTTCTTC
Done.