Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_pilon, whole genome shotgun sequence
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: 4138222
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 22
Found at i:1420569 original size:3 final size:3
Alignment explanation
Indices: 1420561--1420617 Score: 89
Period size: 3 Copynumber: 19.3 Consensus size: 3
1420551 TCCCAGCACC
*
1420561 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AAT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
1420608 ATT TTT ATT A
1 ATT ATT ATT A
1420618 ATTTGTTGCA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 1 0.02
3 48 0.98
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1421369 original size:7 final size:7
Alignment explanation
Indices: 1421357--1421405 Score: 98
Period size: 7 Copynumber: 7.0 Consensus size: 7
1421347 CACTACTAAA
1421357 GCATTTC
1 GCATTTC
1421364 GCATTTC
1 GCATTTC
1421371 GCATTTC
1 GCATTTC
1421378 GCATTTC
1 GCATTTC
1421385 GCATTTC
1 GCATTTC
1421392 GCATTTC
1 GCATTTC
1421399 GCATTTC
1 GCATTTC
1421406 TAATGTTCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (7 bp):
GCATTTC
Found at i:1422363 original size:30 final size:29
Alignment explanation
Indices: 1422329--1422404 Score: 82
Period size: 32 Copynumber: 2.5 Consensus size: 29
1422319 TAAGGTACTT
**
1422329 AAATAATAAAAATAGATAGTTTAA-AGACTA
1 AAATAATAAAAATAGA-AAATTAAGA-ACTA
1422359 AAATAATAAAAAAATAGAAAATTAAGTAACTA
1 AAATAAT--AAAAATAGAAAATTAAG-AACTA
1422391 AAATAATAAAAATA
1 AAATAATAAAAATA
1422405 TATAATAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
30 14 0.35
31 5 0.12
32 20 0.50
33 1 0.03
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.24
Consensus pattern (29 bp):
AAATAATAAAAATAGAAAATTAAGAACTA
Found at i:1424073 original size:22 final size:22
Alignment explanation
Indices: 1424030--1424095 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
1424020 ATGTAGCATT
*
1424030 ATTATTAATAATAACA-ACAATA
1 ATTATTAATAATAA-ATATAATA
*
1424052 CTTATTAATAATAAATATAATA
1 ATTATTAATAATAAATATAATA
* *
1424074 ATAAATAATAATAAATATAATA
1 ATTATTAATAATAAATATAATA
1424096 TAATATGATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
21 1 0.03
22 37 0.97
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.35
Consensus pattern (22 bp):
ATTATTAATAATAAATATAATA
Found at i:1424074 original size:12 final size:12
Alignment explanation
Indices: 1424057--1424095 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
1424047 CAATACTTAT
1424057 TAATAATAAATA
1 TAATAATAAATA
1424069 TAATAAT-AA-A
1 TAATAATAAATA
1424079 TAATAATAAATA
1 TAATAATAAATA
1424091 TAATA
1 TAATA
1424096 TAATATGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 8 0.32
11 4 0.16
12 13 0.52
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAATAATAAATA
Found at i:1424101 original size:10 final size:10
Alignment explanation
Indices: 1424059--1424119 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 10
1424049 ATACTTATTA
1424059 ATAATA-AAT
1 ATAATATAAT
1424068 ATAATAATAA-
1 ATAAT-ATAAT
1424078 ATAATAATAAAT
1 ATAAT-AT-AAT
1424090 ATAATATAAT
1 ATAATATAAT
*
1424100 ATGATATATAT
1 ATAATATA-AT
1424111 ATATATATA
1 ATA-ATATA
1424120 TTAGATCCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
9 5 0.11
10 19 0.43
11 10 0.23
12 10 0.23
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (10 bp):
ATAATATAAT
Found at i:1424597 original size:136 final size:135
Alignment explanation
Indices: 1424399--1424838 Score: 749
Period size: 136 Copynumber: 3.3 Consensus size: 135
1424389 CCATTAAGAC
* * ** **
1424399 GAGTTCTTCTCATTATGAACTCTTC--TAGAAATGTCAATTTCTCAAGCGAGGTGTCACTGATTC
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTC
1424462 GAAATGTCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTA
66 GAAATG-CGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTA
1424527 TCGGAT
130 TCGGAT
1424533 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTC
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTC
1424598 GAAATGCCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTA
66 GAAATG-CGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTA
*
1424663 TCAGAT
130 TCGGAT
1424669 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTC
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTC
*
1424734 GAAATGCTGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTG
66 GAAATGC-GTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTA
1424799 TCGGAT
130 TCGGAT
* *
1424805 GAGTTCTTCTCATTATGAACTCTCTATTGAAAAT
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
1424839 ATTGATGCAA
Statistics
Matches: 291, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
134 24 0.08
135 1 0.00
136 266 0.91
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (135 bp):
GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTC
GAAATGCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTAT
CGGAT
Found at i:1424925 original size:91 final size:92
Alignment explanation
Indices: 1424758--1424935 Score: 270
Period size: 91 Copynumber: 1.9 Consensus size: 92
1424748 CGAGTGATAG
*
1424758 GTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGA
1 GTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAATTCTTCTCATTATGA
*
1424823 ACTCTCTATTGAAAATATTGATGCAAA
66 ACTCTCCATTGAAAATATTGATGCAAA
* * * *
1424850 GTCGAACAAGTTCTTCTCATTATGAACTTTTTCTTCTTCAT-T-GGATGAATTCTTCTCATTATG
1 GTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTC-TGTCGGATGAATTCTTCTCATTATG
*
1424913 AACTCTCCATTGAAAATGTTGAT
65 AACTCTCCATTGAAAATATTGAT
1424936 CCACCTCCTT
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
91 41 0.53
92 36 0.46
93 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (92 bp):
GTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAATTCTTCTCATTATGA
ACTCTCCATTGAAAATATTGATGCAAA
Found at i:1437652 original size:30 final size:29
Alignment explanation
Indices: 1437618--1437692 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 29
1437608 TAAGGTACTT
**
1437618 AAATAATAAAAATAGATAGTTTAA-AGACTA
1 AAATAATAAAAATAGA-AAATTAAGA-ACTA
1437648 AAATAATAAAAAATAGAAAATTAAGTAACTA
1 AAATAAT-AAAAATAGAAAATTAAG-AACTA
1437679 AAATAATAAAAATA
1 AAATAATAAAAATA
1437693 TATAATAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
30 19 0.47
31 20 0.50
32 1 0.03
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.24
Consensus pattern (29 bp):
AAATAATAAAAATAGAAAATTAAGAACTA
Found at i:1437751 original size:17 final size:17
Alignment explanation
Indices: 1437721--1437755 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1437711 TTACAATAAT
*
1437721 AAAAACTAACATTTTAA
1 AAAAACTAAAATTTTAA
*
1437738 AAAAATTAAAATTTTAA
1 AAAAACTAAAATTTTAA
1437755 A
1 A
1437756 TTTTAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAACTAAAATTTTAA
Found at i:1439358 original size:19 final size:20
Alignment explanation
Indices: 1439317--1439371 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
1439307 ATGTAGCATT
1439317 ATTATTAATAATAACAACAATA
1 ATTATTAATAAT-A-AACAATA
*
1439339 ATTATTAATAATAAA-TATA
1 ATTATTAATAATAAACAATA
* *
1439358 ATAATAAATAATAA
1 ATTATTAATAATAA
1439372 TTAATATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.50
20 2 0.07
21 1 0.03
22 12 0.40
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (20 bp):
ATTATTAATAATAAACAATA
Found at i:1439359 original size:12 final size:12
Alignment explanation
Indices: 1439344--1439411 Score: 64
Period size: 14 Copynumber: 5.2 Consensus size: 12
1439334 CAATAATTAT
1439344 TAATAATAAATA
1 TAATAATAAATA
1439356 TAATAATAAATAA
1 TAATAATAAAT-A
1439369 TAATTAATATAATA
1 TAA-TAATA-AATA
*
1439383 TAATATATATATA
1 TAATA-ATAAATA
*
1439396 TATATATATATATA
1 TA-ATA-ATAAATA
1439410 TA
1 TA
1439412 TATATATTAG
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
12 11 0.22
13 11 0.22
14 25 0.50
15 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATAATAAATA
Found at i:1439360 original size:22 final size:22
Alignment explanation
Indices: 1439317--1439382 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
1439307 ATGTAGCATT
*
1439317 ATTATTAATAATAACA-ACAATA
1 ATTATTAATAATAA-ATATAATA
1439339 ATTATTAATAATAAATATAATA
1 ATTATTAATAATAAATATAATA
* * *
1439361 ATAAATAATAATTAATATAATA
1 ATTATTAATAATAAATATAATA
1439383 TAATATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 1 0.03
22 38 0.97
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (22 bp):
ATTATTAATAATAAATATAATA
Found at i:1439388 original size:10 final size:10
Alignment explanation
Indices: 1439346--1439417 Score: 60
Period size: 12 Copynumber: 6.8 Consensus size: 10
1439336 ATAATTATTA
1439346 ATAATA-AAT
1 ATAATATAAT
1439355 ATAATAATAA-
1 ATAAT-ATAAT
1439365 ATAATAATTAAT
1 ATAAT-A-TAAT
1439377 ATAATATAAT
1 ATAATATAAT
1439387 AT-ATATATAT
1 ATAATATA-AT
1439397 ATATATATATAT
1 ATA-ATATA-AT
1439409 ATATATATA
1 ATA-ATATA
1439418 TTAGATCCCA
Statistics
Matches: 56, Mismatches: 0, Indels: 11
0.84 0.00 0.16
Matches are distributed among these distances:
9 10 0.18
10 18 0.32
11 6 0.11
12 22 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATAATATAAT
Found at i:1439392 original size:2 final size:2
Alignment explanation
Indices: 1439375--1439418 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
1439365 ATAATAATTA
1439375 AT AT A- AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1439415 AT AT
1 AT AT
1439419 TAGATCCCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1440528 original size:3 final size:3
Alignment explanation
Indices: 1440520--1440577 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
1440510 ACCGAAACTT
1440520 TTA TTA 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
1440568 TTA TT- TTA TT
1 TTA TTA TTA TT
1440578 GCATGTAACT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1441529 original size:23 final size:22
Alignment explanation
Indices: 1441503--1441549 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
1441493 ATAAAGTACA
*
1441503 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAG-GCTTAT
**
1441526 ATAATGTAATAGGTAGGCTTAT
1 ATAACATAATAGGTAGGCTTAT
1441548 AT
1 AT
1441550 TTACCTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (22 bp):
ATAACATAATAGGTAGGCTTAT
Found at i:1442056 original size:23 final size:23
Alignment explanation
Indices: 1442026--1442088 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1442016 ACTTTACAAC
1442026 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1442049 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1442072 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1442089 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1442539 original size:23 final size:23
Alignment explanation
Indices: 1442509--1442571 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1442499 ACTTTACAAC
1442509 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1442532 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1442555 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1442572 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1442981 original size:482 final size:482
Alignment explanation
Indices: 1441623--1447138 Score: 10081
Period size: 482 Copynumber: 11.5 Consensus size: 482
1441613 TTATAATATG
* *
1441623 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
* * * *
1441688 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
1441753 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAATAT
1441818 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAAT-ATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
1441882 --CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCACT
* * *
1441945 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAAGTATGGACACTTTTATAAAAAGG
326 CAAACGATAACCTTAAATTAATGTTTTCCACAATG-AAAAAAGTATGGACACTTTTATAAAAAGG
*
1442010 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
390 ATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
1442075 CTATTACATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
1442103 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
* * *
1442168 TCAATTTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
66 TCAA-CTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
*
1442233 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAATA
* *
1442298 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAACATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
*
1442363 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCAC
260 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCAC
*
1442428 TCAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATAGACACTTTTATAAAAAGG
325 TCAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
1442493 ATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
390 ATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
1442558 CTATTACATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
*
1442586 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTT-AAAGTTATGTAATTTATGT
1442651 TTCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
* *
1442716 ACAAAAAAATATTTGATTGTTTTGATA-TTTATAAAATATTATTTAGTATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAATA
*
1442780 TTAACCAAAGATAATAATAAATATGTAATATATATTTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
*
1442845 TACCGTAACGTAAAAATTAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCAC
260 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCAC
1442910 TCAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
1442975 ATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
390 ATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
1443040 CTATTACATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
1443068 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
*
1443133 TCAATTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
1443198 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAATAT
*
1443263 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATATAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
** *
1443328 ATTGTAACGTAAAAATTAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCACT
261 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCACT
1443393 CAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
1443458 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
1443523 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
*
1443550 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTT-AAAGTTATGTAATTTATGT
1443615 TTCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
** *
1443680 ACAAAAAA--AAATGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAATA
*
1443743 TTAACCAAAGATAATAATAAATATGTAATATATATTTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
*
1443808 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCAC
* * *
1443873 ACAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
* *
1443938 ATAGATACTTTACAACTACCTATTACATTATATAAATGATACCTATTACATTATATAAGCGCTAC
390 ATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
1444003 CTATTACATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
1444031 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
* *
1444096 TCAA-TTTTTTTAATAGTGTTTCATATTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
1444160 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAATAT
*
1444225 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATATAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
**
1444290 ATTGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCACT
261 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCACT
* *
1444355 CAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGAACACTTTTATAAAAATGA
326 CAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
1444420 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
1444485 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
*
1444512 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTT-AAAGTTATGTAATTTATGT
*
1444577 TCCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
* *
1444642 ACAAAAAAATA-TTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAATA
1444706 TTAACCAAAGATAATAATAAATATGTAATATAT-T-TTTATTGTTTTTAATTTAATAAT-A-ATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
1444767 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCAC
260 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCAC
1444832 TCAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
1444897 ATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
390 ATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
1444962 CTATTACATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
1444990 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
* * *
1445055 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
1445120 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAATAT
*
1445185 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
1445250 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCACT
261 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCACT
*
1445315 CAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATAGACACTTTTATAAAAAGGA
326 CAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
1445380 TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
1445445 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
*
1445472 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTT-AAAGTTATGTAATTTATGT
1445537 TTCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
* *
1445602 ACAAAAAAAATATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAAT
130 AC-AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAAT
*
1445667 ATTAACCAAAGATAATAATAAATATGTAATATATATTTTTATTGTTTTTAATTTAATAATAATAT
194 ATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATAT
*
1445732 ATACCGTAACGTAAAAATTAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCA
259 ATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCA
*
1445797 CTCAAACGATAACCTTAAATTAATGTTTTTCACAATGAAAAAAGTATGGACACTTTTATAAAAAG
324 CTCAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAG
1445862 GATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTA
389 GATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTA
*
1445927 CCTATTACATCATTTTTTTACCTATTATA
454 CCTATTACATCATATTTTTACCTATTATA
*
1445956 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTAAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1446021 TCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
1446086 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAATAT
*
1446151 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATATAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
** *
1446216 ATTGTAACGTAAAAATTAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCACT
261 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCACT
1446281 CAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
1446346 TAGACACTTTACAACTACCTATTACATTATATAAACAATACCTATTACATTATATAAGCGCTACC
391 TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
1446411 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
1446438 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTT-AAAGTTATGTAATTTATGT
1446503 TTCAA-TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
* *
1446567 ACAAAAAAAATATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAAT
130 AC-AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAAT
*
1446632 ATTAACCAAAGATAATAATAAATATGTAATATATATTTTTATTGTTTTTAATTTAATAATAATAT
194 ATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATAT
1446697 ATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCA
259 ATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCA
1446762 CTCAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAG
324 CTCAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAG
*
1446827 GATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGAGCTA
389 GATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTA
1446892 CCTATTACATCATATTTTTACCTATTATA
454 CCTATTACATCATATTTTTACCTATTATA
* *
1446921 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
*
1446986 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* * *
1447050 CAAAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAATAT
1447114 TAACCAAAGATAATAATAAATATGT
196 TAACCAAAGATAATAATAAATATGT
1447139 TTTCCACAGT
Statistics
Matches: 4883, Mismatches: 133, Indels: 40
0.97 0.03 0.01
Matches are distributed among these distances:
477 90 0.02
478 349 0.07
479 67 0.01
480 205 0.04
481 1052 0.22
482 1635 0.33
483 983 0.20
484 502 0.10
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.41
Consensus pattern (482 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
TCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGTATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCACT
CAAACGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
TATTACATCATATTTTTACCTATTATA
Found at i:1443021 original size:23 final size:23
Alignment explanation
Indices: 1442991--1443053 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1442981 ACTTTACAAC
1442991 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1443014 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1443037 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1443054 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1443503 original size:23 final size:23
Alignment explanation
Indices: 1443473--1443535 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1443463 ACTTTACAAC
1443473 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1443496 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1443519 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1443536 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1443984 original size:23 final size:23
Alignment explanation
Indices: 1443954--1444016 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1443944 ACTTTACAAC
*
1443954 TACCTATTACATTATATAAATGA
1 TACCTATTACATTATATAAACGA
* *
1443977 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1444000 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1444017 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1444465 original size:23 final size:23
Alignment explanation
Indices: 1444435--1444497 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1444425 ACTTTACAAC
1444435 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1444458 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1444481 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1444498 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1444943 original size:23 final size:23
Alignment explanation
Indices: 1444913--1444975 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1444903 ACTTTACAAC
1444913 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1444936 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1444959 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1444976 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1445425 original size:23 final size:23
Alignment explanation
Indices: 1445395--1445457 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1445385 ACTTTACAAC
1445395 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1445418 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1445441 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1445458 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1445909 original size:23 final size:23
Alignment explanation
Indices: 1445879--1445936 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
1445869 ACTTTACAAC
1445879 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1445902 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
1445925 TACCTATTACAT
1 TACCTATTACAT
1445937 CATTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1446387 original size:23 final size:23
Alignment explanation
Indices: 1446356--1446423 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
1446346 TAGACACTTT
1446356 ACAACTACCTATTACATTATATAA
1 ACAA-TACCTATTACATTATATAA
1446380 ACAATACCTATTACATTATATAA
1 ACAATACCTATTACATTATATAA
* ** *
1446403 GCGCTACCTATTACATCATAT
1 ACAATACCTATTACATTATAT
1446424 TTTTACCTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 36 0.90
24 4 0.10
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.34
Consensus pattern (23 bp):
ACAATACCTATTACATTATATAA
Found at i:1446874 original size:23 final size:23
Alignment explanation
Indices: 1446844--1446906 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
1446834 ACTTTACAAC
1446844 TACCTATTACATTATATAA-ACGA
1 TACCTATTACATTATATAAGA-GA
*
1446867 TACCTATTACATTATATAAGAGC
1 TACCTATTACATTATATAAGAGA
*
1446890 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1446907 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 36 0.97
24 1 0.03
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAGAGA
Found at i:1447615 original size:229 final size:228
Alignment explanation
Indices: 1446938--1447646 Score: 1298
Period size: 228 Copynumber: 3.1 Consensus size: 228
1446928 TGTCCATACT
1446938 TTTTATAAAAA-GA-ATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
1 TTTTATAAAAATGATAT--ATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
1447001 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGAT
64 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGAT
*
1447066 TATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
129 TTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
1447131 AAATATGTTTTCCACAGTGAAATAAGTATGGACAC
194 AAATATGTTTTCCACAGTGAAATAAGTATGGACAC
1447166 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
1 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
1447231 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTT
66 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTT
1447296 TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
131 TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
*
1447361 ATATGTTTTCCACAGTGAAATAAGTATAGACAC
196 ATATGTTTTCCACAGTGAAATAAGTATGGACAC
1447394 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAG
1 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAG
* *
1447459 TGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAATTATTTGATT
65 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATT
1447524 GTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
130 -TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
*
1447589 AAATATATTTT-CACAGTGAAATAAGTATGGACAC
194 AAATATGTTTTCCACAGTGAAATAAGTATGGACAC
* *
1447623 TTTTATAAAAAGGATAGATACTTT
1 TTTTATAAAAATGATATATACTTT
1447647 ACAATATAAC
Statistics
Matches: 469, Mismatches: 8, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
228 272 0.58
229 121 0.26
230 76 0.16
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (228 bp):
TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTT
TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
ATATGTTTTCCACAGTGAAATAAGTATGGACAC
Found at i:1453527 original size:23 final size:22
Alignment explanation
Indices: 1453481--1453530 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
1453471 TGTTCTTTAA
1453481 CATTCTTTACATTCTTTTATTT
1 CATTCTTTACATTCTTTTATTT
*
1453503 CATT-TTTATCATTTTTATTATTT
1 CATTCTTTA-CATTCTT-TTATTT
1453526 CATTC
1 CATTC
1453531 ATTCCATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 4 0.17
22 10 0.42
23 10 0.42
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (22 bp):
CATTCTTTACATTCTTTTATTT
Found at i:1455079 original size:17 final size:17
Alignment explanation
Indices: 1455059--1455129 Score: 58
Period size: 16 Copynumber: 4.2 Consensus size: 17
1455049 ACACCTGAAG
1455059 AAAATGAAGAAAAAAAT
1 AAAATGAAGAAAAAAAT
*
1455076 AAAAAGAGAGAAAAAAAT
1 AAAATGA-AGAAAAAAAT
* *
1455094 CTAAA--AATAAAAAAAT
1 -AAAATGAAGAAAAAAAT
* *
1455110 AAATTGAA-TAAAAAAT
1 AAAATGAAGAAAAAAAT
1455126 AAAA
1 AAAA
1455130 AAAATAATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
15 2 0.05
16 19 0.44
17 9 0.21
18 10 0.23
19 3 0.07
ACGTcount: A:0.76, C:0.01, G:0.08, T:0.14
Consensus pattern (17 bp):
AAAATGAAGAAAAAAAT
Found at i:1457781 original size:20 final size:20
Alignment explanation
Indices: 1457719--1457782 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
1457709 CAATTGAAGG
1457719 GTTCATAATGAGAAGAACTCA
1 GTTCATAATGAGAAGAACT-A
* **
1457740 -TCCA-AA-GCAGAAGAAGAA
1 GTTCATAATG-AGAAGAACTA
*
1457758 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTA
1457778 GTTCA
1 GTTCA
1457783 CCCTTTTGCT
Statistics
Matches: 32, Mismatches: 7, Indels: 9
0.67 0.15 0.19
Matches are distributed among these distances:
18 2 0.06
19 12 0.38
20 17 0.53
21 1 0.03
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.22
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTA
Found at i:1463594 original size:31 final size:29
Alignment explanation
Indices: 1463526--1463595 Score: 70
Period size: 31 Copynumber: 2.2 Consensus size: 29
1463516 AATATTATTT
*
1463526 TTATAATTTTATTAATAAAAATATTAATAT
1 TTAT-ATTTTATTAATAAAAATATTAATAA
1463556 TGGTATATTTTATTGAAATAAAAATATT-ATAAA
1 T--TATATTTTATT--AATAAAAATATTAAT-AA
1463589 TTATATT
1 TTATATT
1463596 AATTATTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
30 1 0.03
31 14 0.41
32 5 0.15
33 14 0.41
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (29 bp):
TTATATTTTATTAATAAAAATATTAATAA
Found at i:1463732 original size:10 final size:11
Alignment explanation
Indices: 1463637--1463743 Score: 50
Period size: 11 Copynumber: 9.9 Consensus size: 11
1463627 TTTTTTAAAA
*
1463637 ATATTAATTAGT
1 ATATT-ATTAAT
1463649 ATATT-TTAAAT
1 ATATTATT-AAT
1463660 ATCATTATTAAT
1 AT-ATTATTAAT
1463672 A-A-T-TTAAT
1 ATATTATTAAT
*
1463680 AATATTATTTAT
1 -ATATTATTAAT
*
1463692 ATGA-AATTAAT
1 AT-ATTATTAAT
* *
1463703 AAATAATATAA-
1 ATATTAT-TAAT
*
1463714 ATTTTATTAAT
1 ATATTATTAAT
1463725 A-ATTATT-AT
1 ATATTATTAAT
1463734 ATATTATTAA
1 ATATTATTAA
1463744 AATAAAAATG
Statistics
Matches: 73, Mismatches: 9, Indels: 27
0.67 0.08 0.25
Matches are distributed among these distances:
8 5 0.07
9 5 0.07
10 19 0.26
11 22 0.30
12 20 0.27
13 2 0.03
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (11 bp):
ATATTATTAAT
Found at i:1463800 original size:8 final size:8
Alignment explanation
Indices: 1463761--1463824 Score: 55
Period size: 8 Copynumber: 8.4 Consensus size: 8
1463751 ATGCAATACC
1463761 TTATATTA
1 TTATATTA
*
1463769 TTATAATA
1 TTATATTA
1463777 -TA-ATTGA
1 TTATATT-A
*
1463784 TTATTTTA
1 TTATATTA
1463792 TTATATTA
1 TTATATTA
*
1463800 TTA-AATA
1 TTATATTA
*
1463807 -TATAATA
1 TTATATTA
1463814 TTATATTA
1 TTATATTA
1463822 TTA
1 TTA
1463825 GAAATATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
6 4 0.09
7 10 0.22
8 29 0.64
9 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (8 bp):
TTATATTA
Found at i:1463818 original size:22 final size:23
Alignment explanation
Indices: 1463790--1463868 Score: 83
Period size: 23 Copynumber: 3.4 Consensus size: 23
1463780 TTGATTATTT
1463790 TATTATATTATTAAATATA-TAA
1 TATTATATTATTAAATATATTAA
1463812 TATTATATTATTAGAA-ATATTAA
1 TATTATATTATTA-AATATATTAA
* *
1463835 TAAATATATT-TTAAATATTTTAA
1 T-ATTATATTATTAAATATATTAA
1463858 TAATTAATATT
1 T-ATT-ATATT
1463869 TTGATTAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
22 18 0.37
23 19 0.39
24 12 0.24
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
TATTATATTATTAAATATATTAA
Found at i:1463843 original size:12 final size:12
Alignment explanation
Indices: 1463793--1463860 Score: 54
Period size: 12 Copynumber: 5.9 Consensus size: 12
1463783 ATTATTTTAT
*
1463793 TATATTATTAAA
1 TATATTAATAAA
*
1463805 TATA-TAAT-AT
1 TATATTAATAAA
*
1463815 TATATTATTAGAA
1 TATATTAATA-AA
1463828 -ATATTAATAAA
1 TATATTAATAAA
*
1463839 TATATT-TTAAA
1 TATATTAATAAA
*
1463850 TATTTTAATAA
1 TATATTAATAA
1463861 TTAATATTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
10 5 0.12
11 17 0.40
12 20 0.47
13 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (12 bp):
TATATTAATAAA
Found at i:1463908 original size:24 final size:25
Alignment explanation
Indices: 1463863--1463909 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
1463853 TTTAATAATT
1463863 AATATTTTGATTAAAATGATATTAA
1 AATATTTTGATTAAAATGATATTAA
* *
1463888 AATATTTT-ATTAATATTATATT
1 AATATTTTGATTAAAATGATATT
1463910 CATAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
AATATTTTGATTAAAATGATATTAA
Found at i:1464617 original size:15 final size:15
Alignment explanation
Indices: 1464591--1464631 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1464581 TAATCGGTGG
*
1464591 ATTATAAATAAATTGA
1 ATTAT-AATAAATTCA
1464607 ATTATAATAAATTCA
1 ATTATAATAAATTCA
*
1464622 ACTATAATAA
1 ATTATAATAA
1464632 TAGCAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (15 bp):
ATTATAATAAATTCA
Found at i:1465852 original size:30 final size:31
Alignment explanation
Indices: 1465818--1465876 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
1465808 CTGGAAGTTG
* *
1465818 TTGATT-CTATAAT-CGATTATGTGTTACTGT
1 TTGATTAC-ATAATACGATTACGTATTACTGT
1465848 TTGATTACATAATACGATTACGTATTACT
1 TTGATTACATAATACGATTACGTATTACT
1465877 AACTCTTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.46
Consensus pattern (31 bp):
TTGATTACATAATACGATTACGTATTACTGT
Found at i:1468233 original size:3 final size:3
Alignment explanation
Indices: 1468225--1468270 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
1468215 TTGTCTGGGA
1468225 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1468271 TTGTTTTTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1469415 original size:29 final size:28
Alignment explanation
Indices: 1469390--1469456 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 28
1469380 GGACAAAAGG
*
1469390 TTTTATAAATTATAATGAAGTGC-AAAT
1 TTTTATAAATTATAATAAAGTGCAAAAT
1469417 TTGTGTATAAATTATAATAAAGTGCAAAACT
1 TT-T-TATAAATTATAATAAAGTGCAAAA-T
1469448 TTTTATAAA
1 TTTTATAAA
1469457 ATAATTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
27 2 0.06
28 1 0.03
29 25 0.71
30 4 0.11
31 3 0.09
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.40
Consensus pattern (28 bp):
TTTTATAAATTATAATAAAGTGCAAAAT
Found at i:1469778 original size:22 final size:22
Alignment explanation
Indices: 1469689--1469771 Score: 139
Period size: 22 Copynumber: 3.8 Consensus size: 22
1469679 GTACGGATGG
*
1469689 TGGAAGAAGGCTGCACGAATGC
1 TGGAAGTAGGCTGCACGAATGC
1469711 TGGAAGTAGGCTGCACGAATGC
1 TGGAAGTAGGCTGCACGAATGC
1469733 TGGAAGTAGGCTGCACGAATGC
1 TGGAAGTAGGCTGCACGAATGC
**
1469755 TGGAAGCGGGCTGCACG
1 TGGAAGTAGGCTGCACG
1469772 GGTGCTGATA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.27, C:0.19, G:0.39, T:0.16
Consensus pattern (22 bp):
TGGAAGTAGGCTGCACGAATGC
Found at i:1472586 original size:23 final size:21
Alignment explanation
Indices: 1472524--1472592 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
1472514 AAAGCTCATA
*
1472524 ATTTGCACCGAAGTGCCACAT
1 ATTTGCACCGAAGGGCCACAT
* * *
1472545 AATTGTC-CCGAATGACCACAT
1 ATTTG-CACCGAAGGGCCACAT
1472566 AGGTTTGCACCGAAGGGCCACAT
1 A--TTTGCACCGAAGGGCCACAT
1472589 ATTT
1 ATTT
1472593 ATCTAGAGGG
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
21 19 0.51
22 2 0.05
23 16 0.43
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (21 bp):
ATTTGCACCGAAGGGCCACAT
Found at i:1472606 original size:44 final size:44
Alignment explanation
Indices: 1472525--1472610 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
1472515 AAGCTCATAA
* * * *
1472525 TTTGCACCGAAGTGCCACATAATTGTCCCGAATGACCACATAGG
1 TTTGCACCGAAGGGCCACATAATTATCCAGAAGGACCACATAGG
* * *
1472569 TTTGCACCGAAGGGCCACATATTTATCTAGAGGGACCACATA
1 TTTGCACCGAAGGGCCACATAATTATCCAGAAGGACCACATA
1472611 AAACCCTCGA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (44 bp):
TTTGCACCGAAGGGCCACATAATTATCCAGAAGGACCACATAGG
Found at i:1478572 original size:19 final size:22
Alignment explanation
Indices: 1478524--1478574 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
1478514 TATCCATCTA
*
1478524 GTACCGATACTTCTCTTCAAGG
1 GTACCGATACCTCTCTTCAAGG
*
1478546 GTATCGATACCTC-CTT-AA-G
1 GTACCGATACCTCTCTTCAAGG
1478565 GTACCGATAC
1 GTACCGATAC
1478575 AATCTGGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 10 0.38
20 2 0.08
21 3 0.12
22 11 0.42
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (22 bp):
GTACCGATACCTCTCTTCAAGG
Found at i:1478644 original size:20 final size:20
Alignment explanation
Indices: 1478618--1478688 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
1478608 CCATCATTCG
1478618 GTATCGATACTACCCTTACA
1 GTATCGATACTACCCTTACA
* *
1478638 ATATCGATAC--CTCTTCAACA
1 GTATCGATACTACCCTT--ACA
1478658 GGTATCGATACTACCCTTACA
1 -GTATCGATACTACCCTTACA
1478679 GTATCGATAC
1 GTATCGATAC
1478689 CTCTTCAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 4 0.10
20 22 0.52
21 12 0.29
23 4 0.10
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (20 bp):
GTATCGATACTACCCTTACA
Found at i:1478699 original size:20 final size:21
Alignment explanation
Indices: 1478639--1478708 Score: 92
Period size: 21 Copynumber: 3.4 Consensus size: 21
1478629 ACCCTTACAA
1478639 TATCGATACCTCTTCAACAGG
1 TATCGATACCTCTTCAACAGG
*
1478660 TATCGATACTACCCTT--ACA-G
1 TATCGATAC--CTCTTCAACAGG
1478680 TATCGATACCTCTTCAACAGG
1 TATCGATACCTCTTCAACAGG
1478701 TATCGATA
1 TATCGATA
1478709 TTTACCTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
18 4 0.10
20 13 0.31
21 21 0.50
23 4 0.10
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (21 bp):
TATCGATACCTCTTCAACAGG
Found at i:1478717 original size:41 final size:41
Alignment explanation
Indices: 1478617--1478708 Score: 175
Period size: 41 Copynumber: 2.2 Consensus size: 41
1478607 ACCATCATTC
1478617 GGTATCGATACTACCCTTACAATATCGATACCTCTTCAACA
1 GGTATCGATACTACCCTTACAATATCGATACCTCTTCAACA
*
1478658 GGTATCGATACTACCCTTACAGTATCGATACCTCTTCAACA
1 GGTATCGATACTACCCTTACAATATCGATACCTCTTCAACA
1478699 GGTATCGATA
1 GGTATCGATA
1478709 TTTACCTTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (41 bp):
GGTATCGATACTACCCTTACAATATCGATACCTCTTCAACA
Found at i:1481564 original size:30 final size:30
Alignment explanation
Indices: 1481513--1481633 Score: 124
Period size: 30 Copynumber: 3.9 Consensus size: 30
1481503 AAATAAATTT
1481513 AAATAATTTA--ATAAGATAATTTATTTTA
1 AAATAATTTATTATAAGATAATTTATTTTA
1481541 AAATAATTTATTATGAA-ATAATTTATTTTA
1 AAATAATTTATTAT-AAGATAATTTATTTTA
*
1481571 AAATAATTTATTATAAAATATGGATTGATTTATTTTA
1 AAATAATTTATTAT---A-A--GA-TAATTTATTTTA
*
1481608 AAATAATTTATTTTAA-ATAATTTATT
1 AAATAATTTATTATAAGATAATTTATT
1481634 AGTATGGATT
Statistics
Matches: 79, Mismatches: 4, Indels: 19
0.77 0.04 0.19
Matches are distributed among these distances:
28 10 0.13
29 8 0.10
30 30 0.38
31 2 0.03
32 1 0.01
33 2 0.03
34 1 0.01
36 1 0.01
37 24 0.30
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (30 bp):
AAATAATTTATTATAAGATAATTTATTTTA
Found at i:1481627 original size:14 final size:15
Alignment explanation
Indices: 1481528--1481633 Score: 115
Period size: 15 Copynumber: 6.7 Consensus size: 15
1481518 ATTTAATAAG
1481528 ATAATTTATTTTAAA
1 ATAATTTATTTTAAA
* *
1481543 ATAATTTATTATGAA
1 ATAATTTATTTTAAA
1481558 ATAATTTATTTTAAA
1 ATAATTTATTTTAAA
*
1481573 ATAATTTATTATAAAA
1 ATAATTTATT-TTAAA
1481589 TATGGATTGATTTATTTTAAA
1 -AT--A---ATTTATTTTAAA
1481610 ATAATTTATTTT-AA
1 ATAATTTATTTTAAA
1481624 ATAATTTATT
1 ATAATTTATT
1481634 AGTATGGATT
Statistics
Matches: 78, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
14 12 0.15
15 45 0.58
16 4 0.05
17 2 0.03
18 1 0.01
19 1 0.01
20 2 0.03
21 4 0.05
22 7 0.09
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (15 bp):
ATAATTTATTTTAAA
Found at i:1481651 original size:32 final size:32
Alignment explanation
Indices: 1481613--1481819 Score: 175
Period size: 32 Copynumber: 7.4 Consensus size: 32
1481603 TTTTAAAATA
1481613 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1481645 ATTTATTTT--A-AA---A--A--ATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1481667 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1481699 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1481721 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* *
1481753 ATTTA--TT-ATTAA---A--A-TATGCATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
1481776 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
1481808 ATTGATTTTAAA
1 ATTTATTTTAAA
1481820 ATATGTATTG
Statistics
Matches: 140, Mismatches: 6, Indels: 58
0.69 0.03 0.28
Matches are distributed among these distances:
22 31 0.22
23 17 0.12
24 3 0.02
25 5 0.04
26 9 0.06
28 4 0.03
29 8 0.06
30 4 0.03
31 5 0.04
32 54 0.39
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:1481652 original size:22 final size:22
Alignment explanation
Indices: 1481637--1481678 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
1481627 ATTTATTAGT
1481637 ATGGATTGATTTATTTTAAAAA
1 ATGGATTGATTTATTTTAAAAA
1481659 ATGGATTGATTTATTTTAAA
1 ATGGATTGATTTATTTTAAA
1481679 TAATTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (22 bp):
ATGGATTGATTTATTTTAAAAA
Found at i:1481679 original size:54 final size:54
Alignment explanation
Indices: 1481613--1482209 Score: 560
Period size: 54 Copynumber: 11.1 Consensus size: 54
1481603 TTTTAAAATA
*
1481613 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAAATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1481667 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1481721 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTAAAATATGCATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT-TTAAAATATGGATTG
* *
1481776 ATTTATTTTAAATAATTTATTAGTATAGATTGATTGATTTTAAAATAT-G--T-
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
1481826 ATTGA-TTT-AAT-ATTGTAGTT-GTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATT-TA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * *** *
1481874 ATTAGTATGTATTGATTTATTT-TAAATATGGATTGATTTATTATTGTAGTTGTATAGATTG
1 ATT--TAT-T-TTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
1481935 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1481989 ATTTATTTTAAATAAGTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * * *
1482043 ATTTATTATT--GTAGTTGTA-T-GAATTGATTTATTTTAAGTAATTTATTAGTATGGATTG
1 ATTTATT-TTAAATAATT-TATTAGTATGGATTGA-TTT-A-T--TTTA-AAATATGGATTG
** *** *
1482101 ATTTATTTTAAA-ATATGGATT--TAT---TT-A-TTATTTTAGTTGTATGAATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTG
*
1482149 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1482203 ATTTATT
1 ATTTATT
1482210 ATTGTAGTTG
Statistics
Matches: 452, Mismatches: 48, Indels: 86
0.77 0.08 0.15
Matches are distributed among these distances:
47 9 0.02
48 56 0.12
49 6 0.01
50 9 0.02
51 2 0.00
52 12 0.03
53 25 0.06
54 193 0.43
55 71 0.16
56 3 0.01
57 15 0.03
58 40 0.09
59 5 0.01
61 6 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:1481715 original size:22 final size:22
Alignment explanation
Indices: 1481690--1481732 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1481680 AATTTATTAG
1481690 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1481712 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1481733 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1481775 original size:23 final size:22
Alignment explanation
Indices: 1481744--1481787 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
1481734 AATTTATTAG
*
1481744 TATGGATTGATTTATTATTAAAA
1 TATGCATTGATTTATT-TTAAAA
1481767 TATGCATTGATTTATTTTAAA
1 TATGCATTGATTTATTTTAAA
1481788 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.50
Consensus pattern (22 bp):
TATGCATTGATTTATTTTAAAA
Found at i:1481971 original size:32 final size:31
Alignment explanation
Indices: 1481925--1482032 Score: 126
Period size: 32 Copynumber: 3.7 Consensus size: 31
1481915 TATTGTAGTT
*
1481925 GTATAGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAA-TTATTA
1481957 GTATGGATTGATTTA-TTT---TAA--A--A
1 GTATGGATTGATTTATTTTAAATAATTATTA
1481980 -TATGGATTGATTTATTTTAAATAAGTTATTA
1 GTATGGATTGATTTATTTTAAATAA-TTATTA
1482011 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
1482033 ATATGGATTG
Statistics
Matches: 65, Mismatches: 1, Indels: 20
0.76 0.01 0.23
Matches are distributed among these distances:
22 14 0.22
23 4 0.06
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.06
32 35 0.54
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (31 bp):
GTATGGATTGATTTATTTTAAATAATTATTA
Found at i:1481983 original size:22 final size:22
Alignment explanation
Indices: 1481958--1482000 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1481948 AATTTATTAG
1481958 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1481980 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1482001 TAAGTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1482069 original size:80 final size:80
Alignment explanation
Indices: 1481980--1482289 Score: 539
Period size: 80 Copynumber: 3.9 Consensus size: 80
1481970 TATTTTAAAA
* *
1481980 TATGGATTGATTTATTTTAAATAAGTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1482045 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
* *
1482060 TATGAATTGATTTATTTTAAGTAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTTAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
1482125 TTATTATTTTAGTTG
66 TTATTATTGTAGTTG
*
1482140 TATGAATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1482205 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
* * *
1482220 TATGGATTGATTTATTTTAAATAATGTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1482285 TTATT
66 TTATT
1482290 TTAAATAATT
Statistics
Matches: 217, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 217 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (80 bp):
TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:1482188 original size:22 final size:22
Alignment explanation
Indices: 1482163--1482235 Score: 53
Period size: 22 Copynumber: 3.3 Consensus size: 22
1482153 ATTTTAAATA
1482163 ATTTATTAGTATGTATTGATTT
1 ATTTATTAGTATGTATTGATTT
* * *
1482185 ATTT-TAAAATATGGATTGATTT
1 ATTTAT-TAGTATGTATTGATTT
* *
1482207 A-TTATT-GTAGTTGTATGGATTG
1 ATTTATTAGTA--TGTATTGATTT
1482229 ATTTATT
1 ATTTATT
1482236 TTAAATAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 9
0.69 0.15 0.16
Matches are distributed among these distances:
20 2 0.05
21 3 0.08
22 28 0.74
23 5 0.13
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (22 bp):
ATTTATTAGTATGTATTGATTT
Found at i:1482209 original size:134 final size:130
Alignment explanation
Indices: 1481659--1482160 Score: 488
Period size: 134 Copynumber: 3.8 Consensus size: 130
1481649 ATTTTAAAAA
1481659 ATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
1 ATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
* * * *
1481724 TATTTTAAATAATTTATTAGTATGGATTGATTTATTATTAAAATATGCATTGATTTATTTTAAAT
66 TATTTT--ATAA-GT-TTAGTATGAATTGATTTATT-TTAAAATATGGATTGATGTA--TT--AT
*
1481789 AATTTA-TTAGT
122 --TGTAGTTA-T
* * * * * * ***
1481800 ATAGATTGATTGATTTT-AA-AA--TA-T-GTATTGATTTA-ATATTGTAGTTGTATGGATTGAT
1 ATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTGAT
* * *
1481858 TTATTTTAAATAATTTATTAGTATGTATTGATTTATTTT-AAATATGGATTGATTTATTATTGTA
65 TTATTTT--ATAA-GT-TTAGTATGAATTGATTTATTTTAAAATATGGATTGATGTATTATTGTA
*
1481922 GTTGT
126 GTTAT
*
1481927 ATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
1 ATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
* *
1481992 TATTTTAAATAAGTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAG
66 TATTTT--ATAAG-T-TTAGTATGAATTGATTTATTTTAAAATATGGATTGATGTATTATTGTAG
*
1482057 TTGT
127 TTAT
* * *
1482061 ATGAATTGATTTATTTTAAGTAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTTATT
1 ATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
*
1482126 TATTATT-TTAG-TT-GTATGAATTGATTTATTTTAAA
66 TATT-TTATAAGTTTAGTATGAATTGATTTATTTTAAA
1482161 TAATTTATTA
Statistics
Matches: 320, Mismatches: 29, Indels: 37
0.83 0.08 0.10
Matches are distributed among these distances:
127 20 0.06
128 25 0.08
129 6 0.02
131 4 0.01
132 4 0.01
133 72 0.22
134 109 0.34
135 58 0.18
136 1 0.00
137 2 0.01
139 2 0.01
140 2 0.01
141 15 0.05
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (130 bp):
ATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
TATTTTATAAGTTTAGTATGAATTGATTTATTTTAAAATATGGATTGATGTATTATTGTAGTTAT
Found at i:1482285 original size:214 final size:209
Alignment explanation
Indices: 1481589--1482304 Score: 725
Period size: 214 Copynumber: 3.4 Consensus size: 209
1481579 TATTATAAAA
* * *
1481589 TATGGATTGATTTATTTTAAAATAATTTATTTTA-AATAATTTA--TTAGTATGGATTGATTTAT
1 TATGGATTGATTTATTTTAAAAT-ATGTATTGTATAATTATTTATTTTAGTATGGATTGATTTAT
* ** * * * * * * * *
1481651 TTTAAAAAATGGATTGATTTAT--TTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-A
65 TTTAAATAATTTATT-A-GTATGGATTGATTTATTT-TAAATATGGATTGATTTATTATTGTAGT
** * *
1481710 AATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTAAAATATGCATT
127 TGTATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT-TTAAAATATGGATT
*
1481775 GATTTATT-TTAAATAATTTATTAG
191 GATTTATTATT--AT-A---GTTAG
* * * *
1481799 TATAGATTGATTGATTTTAAAATATGTATTGATTTAA-TATTGTA-GTT-GTATGGATTGATTTA
1 TATGGATTGATTTATTTTAAAATATGTATTG-TATAATTATT-TATTTTAGTATGGATTGATTTA
*
1481861 TTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAATATGGATTGATTTATTATTGTAGTTG
64 TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATATGGATTGATTTATTATTGTAGTTG
1481926 TAT-AGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
129 TATGA-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
1481990 TTTATT-TTAAATAAGTTATTAG
193 TTTATTATT--AT-AG---TTAG
* * * *
1482012 TATGGATTGATTTATTTTAAAATATGGATTG-ATTTATTATTGTA-GTT-GTATGAATTGATTTA
1 TATGGATTGATTTATTTTAAAATATGTATTGTA-TAATTATT-TATTTTAGTATGGATTGATTTA
* * *
1482074 TTTTAAGTAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTTATTTATTATTTTAGTT
64 TTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATATGGATTGATTTATTATTGTAGTT
*
1482139 GTATGAATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGA
128 GTATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
*
1482204 TTTATTATTGTAGTT-G
193 TTTATTATTATAGTTAG
*
1482220 TATGGATTGATTTATTTT-AAATAATGTATTAGTATAGATTGATTTATTTTAAAATATGGATTGA
1 TATGGATTGATTTATTTTAAAAT-ATGTATT-GTATA-ATT-ATTTATTTT--AGTATGGATTGA
1482284 TTTATTTTAAATAATTTATTA
60 TTTATTTTAAATAATTTATTA
1482305 TTGTAGTTGT
Statistics
Matches: 438, Mismatches: 40, Indels: 52
0.83 0.08 0.10
Matches are distributed among these distances:
207 4 0.01
208 25 0.06
209 13 0.03
210 48 0.11
211 46 0.11
212 8 0.02
213 122 0.28
214 169 0.39
215 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (209 bp):
TATGGATTGATTTATTTTAAAATATGTATTGTATAATTATTTATTTTAGTATGGATTGATTTATT
TTAAATAATTTATTAGTATGGATTGATTTATTTTAAATATGGATTGATTTATTATTGTAGTTGTA
TGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTT
ATTATTATAGTTAG
Found at i:1482354 original size:31 final size:31
Alignment explanation
Indices: 1482319--1482377 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
1482309 AGTTGTATGG
*
1482319 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATTTCAGTATTGCAAAACTAAA
1482350 ATTATTTAAATTTCAGTATTGCAAAACT
1 ATTATTTAAATTTCAGTATTGCAAAACT
1482378 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTATTGCAAAACTAAA
Found at i:1483203 original size:24 final size:24
Alignment explanation
Indices: 1483145--1483203 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
1483135 GTTTCTTTTC
*
1483145 CCAACTGC-TTTTTGGCTGAGAATT
1 CCAACT-CTTTTTTGGCTGAGAACT
** * *
1483169 CCAGTTGTTTTTTGGGTGAGAACT
1 CCAACTCTTTTTTGGCTGAGAACT
1483193 CCAACTCTTTT
1 CCAACTCTTTT
1483204 AAGCTTTTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (24 bp):
CCAACTCTTTTTTGGCTGAGAACT
Found at i:1488747 original size:51 final size:51
Alignment explanation
Indices: 1488686--1488787 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
1488676 GTTAGCACCC
* *
1488686 ACAACTCTTTAAAATTGGTACCTAGTCGATTATGTCGTTATCTTTGCAATA
1 ACAACGCTTTAAAATTAGTACCTAGTCGATTATGTCGTTATCTTTGCAATA
*
1488737 ACAACGCTTTAAAATTAGTACCTAGTTGATTATGTCGTTATCTTTGCAATA
1 ACAACGCTTTAAAATTAGTACCTAGTCGATTATGTCGTTATCTTTGCAATA
1488788 TAATTAACAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (51 bp):
ACAACGCTTTAAAATTAGTACCTAGTCGATTATGTCGTTATCTTTGCAATA
Found at i:1489467 original size:2 final size:2
Alignment explanation
Indices: 1489421--1489449 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1489411 ACTAAATTCC
1489421 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1489450 GCGAACAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1489881 original size:2 final size:2
Alignment explanation
Indices: 1489874--1489907 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1489864 AATAGGCATA
1489874 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1489908 GCAAGAGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1490817 original size:15 final size:15
Alignment explanation
Indices: 1490789--1490821 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1490779 CCCCACTTTC
*
1490789 TTTCTCTCTCTTTTT
1 TTTCTTTCTCTTTTT
1490804 TTTCTTTCT-TTTTT
1 TTTCTTTCTCTTTTT
1490818 TTTC
1 TTTC
1490822 CTTTTTCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTCTCTTTTT
Found at i:1493708 original size:20 final size:19
Alignment explanation
Indices: 1493670--1493708 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1493660 ATATTTATGT
* *
1493670 AAATATTATTTTTTAATTA
1 AAATAATATTTTATAATTA
1493689 AAATAATATTTATATAATTA
1 AAATAATATTT-TATAATTA
1493709 TTATTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATAATATTTTATAATTA
Found at i:1493881 original size:17 final size:17
Alignment explanation
Indices: 1493859--1493912 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
1493849 AATGTTAATA
1493859 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
1493876 TTTAAAGTTATGTTGAA
1 TTTAAATTTATTTTTAT
* *
1493893 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
1493910 TTT
1 TTT
1493913 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:1495346 original size:21 final size:21
Alignment explanation
Indices: 1495320--1495413 Score: 136
Period size: 21 Copynumber: 4.5 Consensus size: 21
1495310 TATGCCATCT
1495320 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
1495341 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
*
1495362 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCGAGC
* * *
1495383 CCGCCA-GGTTATATGCCTAGC
1 CCG-CAGGGTTACATTCCGAGC
1495404 CCGCAGGGTT
1 CCGCAGGGTT
1495414 TTATACCATA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
20 2 0.03
21 64 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCGAGC
Found at i:1501533 original size:14 final size:14
Alignment explanation
Indices: 1501514--1501542 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1501504 AAACATAAAT
1501514 GAACATAACCGAAC
1 GAACATAACCGAAC
1501528 GAACATAACCGAAC
1 GAACATAACCGAAC
1501542 G
1 G
1501543 TTCACGAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.28, G:0.17, T:0.07
Consensus pattern (14 bp):
GAACATAACCGAAC
Found at i:1506080 original size:37 final size:36
Alignment explanation
Indices: 1506021--1506140 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
1506011 ATCCCATTAT
* *
1506021 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
1506057 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1506093 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1506128 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
1506141 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:1506096 original size:21 final size:21
Alignment explanation
Indices: 1506072--1506132 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
1506062 TTCAAAGAAA
1506072 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
1506093 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
1506107 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
1506128 CATTT
1 CATTT
1506133 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:1506149 original size:35 final size:36
Alignment explanation
Indices: 1506023--1506167 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
1506013 CCCATTATCA
*
1506023 TTTTTCAACA-AACA-TCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
1506058 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
1506095 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
1506131 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
1506165 TTT
1 TTT
1506168 AATACTTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 14 0.14
35 45 0.46
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Found at i:1510722 original size:21 final size:20
Alignment explanation
Indices: 1510695--1510758 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
1510685 TTTTTCAAAG
1510695 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
*
1510715 AAATCATTT-TCAAA----G-
1 AAA-CATTTACCAAACTTTGA
1510730 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
1510750 AAACCATTT
1 AAA-CATTT
1510759 TTTCAAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 1 0.03
19 1 0.03
20 10 0.29
21 10 0.29
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (20 bp):
AAACATTTACCAAACTTTGA
Found at i:1510732 original size:35 final size:36
Alignment explanation
Indices: 1510645--1510766 Score: 176
Period size: 35 Copynumber: 3.4 Consensus size: 36
1510635 TTATCCCATT
* *
1510645 ATCATTTTTC-AACAAACATCTACCAAACTTTGAAA
1 ATCATTTTTCAAAGAAACATTTACCAAACTTTGAAA
*
1510680 AACTATTTTTCAAAGAAACATTTACCAAACTTTGAAA
1 ATC-ATTTTTCAAAGAAACATTTACCAAACTTTGAAA
1510717 ATCA-TTTTCAAAGAAACATTTACCAAACTTTGAAA
1 ATCATTTTTCAAAGAAACATTTACCAAACTTTGAAA
*
1510752 ACCATTTTTTCAAAG
1 ATCA-TTTTTCAAAG
1510767 TTGGTTACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
35 36 0.46
36 8 0.10
37 34 0.44
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (36 bp):
ATCATTTTTCAAAGAAACATTTACCAAACTTTGAAA
Found at i:1513446 original size:32 final size:32
Alignment explanation
Indices: 1513405--1513470 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
1513395 GTGATGCGTA
1513405 CTCGACAGCGTTAAAACTCACTCTCTAGTCCT
1 CTCGACAGCGTTAAAACTCACTCTCTAGTCCT
1513437 CTCGACAGCGTTAAAACTCACTCTCTAGTCCT
1 CTCGACAGCGTTAAAACTCACTCTCTAGTCCT
1513469 CT
1 CT
1513471 GAATTGCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.24, C:0.35, G:0.12, T:0.29
Consensus pattern (32 bp):
CTCGACAGCGTTAAAACTCACTCTCTAGTCCT
Found at i:1517268 original size:125 final size:120
Alignment explanation
Indices: 1517009--1517260 Score: 303
Period size: 121 Copynumber: 2.1 Consensus size: 120
1516999 ATATATATAT
* * * * *
1517009 ATATATATATAATATAATACAAAACATGCTTAATATATGTAACAAATTGAAAAAAAAAATATTGT
1 ATATATATTTAATATAATACAAAACATACTTAACATAGGTAACAAATTGAAAAAAAAAATACTGT
* *
1517074 ACGTACATAATATATGCATATTTAATGGAAGCAACTATTTATAAGGGATAGGTTAT
66 ACGTACATAATATATACATATTTAATGGAAGCAACTATTTATAAGGGA-AGGTTAC
*
1517130 ATATATATTTAATATAATACAAAACATACTTTAACATAGGTAACAAATT-AAAAAAAAGGTATAC
1 ATATATATTTAATATAATACAAAACATAC-TTAACATAGGTAACAAATTGAAAAAAAA--AATAC
* ** * *
1517194 TGTACGTACATAATATATATATATATTTAATAGG-AGTGACTATTTATGAGGG-AGTTTAC
63 TGTACGTACAT-A-ATATATACATATTTAAT-GGAAGCAACTATTTATAAGGGAAGGTTAC
1517253 ATATATAT
1 ATATATAT
1517261 GTCTAATAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
121 35 0.31
122 17 0.15
123 27 0.24
124 1 0.01
125 30 0.27
126 2 0.02
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.34
Consensus pattern (120 bp):
ATATATATTTAATATAATACAAAACATACTTAACATAGGTAACAAATTGAAAAAAAAAATACTGT
ACGTACATAATATATACATATTTAATGGAAGCAACTATTTATAAGGGAAGGTTAC
Found at i:1519088 original size:16 final size:16
Alignment explanation
Indices: 1519067--1519102 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1519057 AACAAGATTA
1519067 TTAATAATAATAATAT
1 TTAATAATAATAATAT
*
1519083 TTAATAATAATAATTT
1 TTAATAATAATAATAT
1519099 TTAA
1 TTAA
1519103 ATGCTCGGAC
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAATAATAATAATAT
Found at i:1519519 original size:46 final size:45
Alignment explanation
Indices: 1519462--1519656 Score: 136
Period size: 46 Copynumber: 4.4 Consensus size: 45
1519452 TCGGGTGATG
1519462 ACACGACTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTAATA
1 ACACGACTCATACGTGATGAAGAGTTCTGGCCATC-AAAGGTAATA
* * * ** * *
1519508 ACACGATTCATACGTGATGAGGA-TGGCTGGTTATCAAA-G-ATTG
1 ACACGACTCATACGTGATGAAGAGT-TCTGGCCATCAAAGGTAATA
* * * * * * * *
1519551 ACACGGCTCCTATGTGATGAAGAGATCAGG---TC--GGGTGATG
1 ACACGACTCATACGTGATGAAGAGTTCTGGCCATCAAAGGTAATA
* *
1519591 ACACGACTCATACGTGATGAAGAGTTTTGGCCATCTAAAGGTGATA
1 ACACGACTCATACGTGATGAAGAGTTCTGGCCATC-AAAGGTAATA
* *
1519637 ACACGATTCCTACGTGATGA
1 ACACGACTCATACGTGATGA
1519657 GGACGACTGG
Statistics
Matches: 111, Mismatches: 28, Indels: 20
0.70 0.18 0.13
Matches are distributed among these distances:
39 1 0.01
40 28 0.25
43 25 0.23
44 1 0.01
45 4 0.04
46 52 0.47
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (45 bp):
ACACGACTCATACGTGATGAAGAGTTCTGGCCATCAAAGGTAATA
Found at i:1519599 original size:129 final size:129
Alignment explanation
Indices: 1519324--1519705 Score: 430
Period size: 129 Copynumber: 2.9 Consensus size: 129
1519314 CTAGTCAAAG
* * * *
1519324 GATGACACTG-CTCATACGTGATGAAGAGTTCTTGGCCATCTTTAGGACAAGTGATAACTCGGTT
1 GATGACAC-GACTCATACGTGATGAAGAGTTC-TGGCCATC--TA--A-AGGTAATAACACGATT
* * * * * * ** * * *
1519388 CCTTCGTGATGAGGACGACTGGTTATCTAAG-CTAACA-TAGCTCCTACATAATGAGGAAATCTA
59 CATACGTGATGAGGACGACTGGTTATCAAAGATTGACACGA-CTCCTATGTGATGAAGAGATC-A
1519451 -GTCGGGT
122 GGTCGGGT
1519458 GATGACACGACTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTAATAACACGATTCATACGT
1 GATGACACGACTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTAATAACACGATTCATACGT
* * *
1519523 GATGAGGATGGCTGGTTATCAAAGATTGACACGGCTCCTATGTGATGAAGAGATCAGGTCGGGT
66 GATGAGGACGACTGGTTATCAAAGATTGACACGACTCCTATGTGATGAAGAGATCAGGTCGGGT
* * *
1519587 GATGACACGACTCATACGTGATGAAGAGTTTTGGCCATCTAAAGGTGATAACACGATTCCTACGT
1 GATGACACGACTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTAATAACACGATTCATACGT
* ** *
1519652 GATGAGGACGACTGGTTATCAAAGGTTGATTCGACTCCTATGTGATGAGGAGAT
66 GATGAGGACGACTGGTTATCAAAGATTGACACGACTCCTATGTGATGAAGAGAT
1519706 ATGGTCATAG
Statistics
Matches: 216, Mismatches: 28, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
128 39 0.18
129 137 0.63
131 2 0.01
133 9 0.04
134 29 0.13
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (129 bp):
GATGACACGACTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTAATAACACGATTCATACGT
GATGAGGACGACTGGTTATCAAAGATTGACACGACTCCTATGTGATGAAGAGATCAGGTCGGGT
Found at i:1531308 original size:165 final size:164
Alignment explanation
Indices: 1530985--1531352 Score: 385
Period size: 165 Copynumber: 2.2 Consensus size: 164
1530975 TCTTCGAATG
* * * *
1530985 ACGGGTCTGCTCCCTATCCCTTCAGGGAGTATAAGACTTGACCAATCTTCAACAAACGTGTCTGC
1 ACGGGTCTGCTCCCTATTCCTTCAGGGAGTATAAGACTTGAACAATCTTCAACAAACGGGTCCGC
* * * * *
1531050 TCCCTATTCATTCAGGGAGTATAAGACTCGATCAATCTTCAACAAGCGTATCTGCTCCCTATTCA
66 TCCCTATTCATCCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTATCCGCTCCCTATTCA
** *
1531115 TTTAGGGAGTATAAGACTCAATCAATCTTCAATAA
131 CATA-GGAGTATAAGACTCAATCAATCTTCAACAA
** *
1531150 ACGGGTCCACTCCCTATTCGTTCAGGGAGTAT-AGAACTTGAACAATCTTCATA-AAACGGGTCC
1 ACGGGTCTGCTCCCTATTCCTTCAGGGAGTATAAG-ACTTGAACAATCTTCA-ACAAACGGGTCC
*
1531213 GCTCTCTATTC-TACCAGAGAGTAT-AGAACTCGAACAATCTTCAACAAACG-AGTCCGCTCCCT
64 GCTCCCTATTCAT-CCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAACGTA-TCCGCTCCCT
* *
1531275 ATTCTACCATA-GAGTAT-CGAACTCGAA-CAATCTTCACCAA
126 ATTC-A-CATAGGAGTATAAG-ACTC-AATCAATCTTCAACAA
* * *
1531315 ACGAGTCTGCTCCCTATT-CTACCAGAGAGTATAAGACT
1 ACGGGTCTGCTCCCTATTCCT-TCAGGGAGTATAAGACT
1531353 CGATCTTCAT
Statistics
Matches: 168, Mismatches: 24, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
164 8 0.05
165 152 0.90
166 6 0.04
167 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (164 bp):
ACGGGTCTGCTCCCTATTCCTTCAGGGAGTATAAGACTTGAACAATCTTCAACAAACGGGTCCGC
TCCCTATTCATCCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTATCCGCTCCCTATTCA
CATAGGAGTATAAGACTCAATCAATCTTCAACAA
Found at i:1531354 original size:55 final size:55
Alignment explanation
Indices: 1530989--1531355 Score: 349
Period size: 55 Copynumber: 6.7 Consensus size: 55
1530979 CGAATGACGG
* * * *
1530989 GTCTGCTCCCTATCCCT-TCAGGGAGTATAAGACTTGACCAATCTTCAACAAACGT
1 GTCTGCTCCCTAT-TCTATCAGGGAGTATAAGACTCGAACAATCTTCAACAAACGA
* *
1531044 GTCTGCTCCCTATTC-ATTCAGGGAGTATAAGACTCGATCAATCTTCAACAAGCGTA
1 GTCTGCTCCCTATTCTA-TCAGGGAGTATAAGACTCGAACAATCTTCAACAAACG-A
* * *
1531100 -TCTGCTCCCTATTC-ATTTAGGGAGTATAAGACTC-AATCAATCTTCAATAAACGG
1 GTCTGCTCCCTATTCTA-TCAGGGAGTATAAGACTCGAA-CAATCTTCAACAAACGA
** * *
1531154 GTCCACTCCCTATTCGT-TCAGGGAGTAT-AGAACTTGAACAATCTTCATA-AAACGG
1 GTCTGCTCCCTATTC-TATCAGGGAGTATAAG-ACTCGAACAATCTTCA-ACAAACGA
* * * *
1531209 GTCCGCTCTCTATTCTACCAGAGAGTAT-AGAACTCGAACAATCTTCAACAAACGA
1 GTCTGCTCCCTATTCTATCAGGGAGTATAAG-ACTCGAACAATCTTCAACAAACGA
* * ** * *
1531264 GTCCGCTCCCTATTCTACCATAGAGTAT-CGAACTCGAACAATCTTCACCAAACGA
1 GTCTGCTCCCTATTCTATCAGGGAGTATAAG-ACTCGAACAATCTTCAACAAACGA
* *
1531319 GTCTGCTCCCTATTCTACCAGAGAGTATAAGACTCGA
1 GTCTGCTCCCTATTCTATCAGGGAGTATAAGACTCGA
1531356 TCTTCATAAA
Statistics
Matches: 272, Mismatches: 27, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
54 6 0.02
55 262 0.96
56 4 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (55 bp):
GTCTGCTCCCTATTCTATCAGGGAGTATAAGACTCGAACAATCTTCAACAAACGA
Found at i:1532754 original size:18 final size:17
Alignment explanation
Indices: 1532689--1532876 Score: 101
Period size: 18 Copynumber: 10.8 Consensus size: 17
1532679 TTTATTTCTC
1532689 TTTTT-TTCATTTTTC-T
1 TTTTTCTTC-TTTTTCAT
*
1532705 CTTTT-TTCATTTTTCAT
1 TTTTTCTTC-TTTTTCAT
*
1532722 TTTTTCTTCCATTTTCCAT
1 TTTTTCTT-C-TTTTTCAT
1532741 TTTTTCTTCTTTTT--T
1 TTTTTCTTCTTTTTCAT
* *
1532756 TCTTTTCGT-TTTTCCAT
1 T-TTTTCTTCTTTTTCAT
1532773 CATTTTTCTT-TTTTCTCATT
1 --TTTTTCTTCTTTT-TCA-T
*
1532793 TTTTTCTTCTTTTTCTT
1 TTTTTCTTCTTTTTCAT
*
1532810 TTTCTTCTTCTCATTTTTAT
1 TTT-TTCTTCT--TTTTCAT
1532830 TATTATT-TT-TTTTTCAT
1 T-TT-TTCTTCTTTTTCAT
1532847 TTTTT-TTCATTTTTTCAT
1 TTTTTCTTC--TTTTTCAT
1532865 TTTTTC-TCTTTT
1 TTTTTCTTCTTTT
1532877 ATTTCTTCTT
Statistics
Matches: 140, Mismatches: 13, Indels: 38
0.73 0.07 0.20
Matches are distributed among these distances:
15 10 0.07
16 26 0.19
17 21 0.15
18 45 0.32
19 25 0.18
20 9 0.06
21 4 0.03
ACGTcount: A:0.08, C:0.17, G:0.01, T:0.74
Consensus pattern (17 bp):
TTTTTCTTCTTTTTCAT
Found at i:1532760 original size:52 final size:51
Alignment explanation
Indices: 1532683--1532813 Score: 132
Period size: 50 Copynumber: 2.6 Consensus size: 51
1532673 CCTCCTTTTA
* *
1532683 TTTCTC-TTTTTTTCATT-TTTCTCTTTTTTCATTTTT-CAT-TTTTTCTTCCAT
1 TTTCTCATTTTTTTC-TTCTTTTTCTCTTTTCATTTTTCCATATTTTTCTT---T
* *
1532734 TTTC-CA-TTTTTTCTTCTTTTTTTCTTTTCGTTTTTCCATCATTTTTCTTT
1 TTTCTCATTTTTTTCTTCTTTTTCTCTTTTCATTTTTCCAT-ATTTTTCTTT
1532784 TTTCTCATTTTTTTCTTCTTTTTCT-TTTTC
1 TTTCTCATTTTTTTCTTCTTTTTCTCTTTTC
1532814 TTCTTCTCAT
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
49 2 0.03
50 28 0.41
51 14 0.21
52 16 0.24
53 8 0.12
ACGTcount: A:0.06, C:0.20, G:0.01, T:0.73
Consensus pattern (51 bp):
TTTCTCATTTTTTTCTTCTTTTTCTCTTTTCATTTTTCCATATTTTTCTTT
Found at i:1532762 original size:43 final size:41
Alignment explanation
Indices: 1532691--1532888 Score: 160
Period size: 41 Copynumber: 4.7 Consensus size: 41
1532681 TATTTCTCTT
1532691 TTTTTCA-TTTTTCTC-TTTTTTCATTTTTCATTTTTTCTTCCA
1 TTTTTCATTTTTTCTCTTTTTTTC--TTTTCATTTTTTCTT-CA
* * * *
1532733 TTTTCCATTTTTTCTTCTTTTTTTCTTTTCGTTTTTCCATCA
1 TTTTTCATTTTTTC-TCTTTTTTTCTTTTCATTTTTTCTTCA
**
1532775 TTTTTC-TTTTTTCTCATTTTTTTCTTCTTTTTCTTTTTCTTC-
1 TTTTTCATTTTTTCTC-TTTTTTTCTT-TTCAT-TTTTTCTTCA
* *
1532817 -TTCTCATTTTTAT-TATTATTTTT-TTTTCATTTTTT-TTCA
1 TTTTTCATTTTT-TCTCTT-TTTTTCTTTTCATTTTTTCTTCA
1532856 TTTTTTCATTTTTTCTCTTTTATTTCTTCTTCA
1 -TTTTTCATTTTTTCTCTTTT-TTTCTT-TTCA
1532889 AGCGAAAATA
Statistics
Matches: 125, Mismatches: 15, Indels: 31
0.73 0.09 0.18
Matches are distributed among these distances:
38 3 0.02
39 5 0.04
40 8 0.06
41 41 0.33
42 29 0.23
43 30 0.24
44 2 0.02
45 7 0.06
ACGTcount: A:0.09, C:0.18, G:0.01, T:0.73
Consensus pattern (41 bp):
TTTTTCATTTTTTCTCTTTTTTTCTTTTCATTTTTTCTTCA
Found at i:1532883 original size:9 final size:8
Alignment explanation
Indices: 1532687--1532883 Score: 71
Period size: 9 Copynumber: 22.5 Consensus size: 8
1532677 CTTTTATTTC
1532687 TCTTTTTT
1 TCTTTTTT
*
1532695 TC-ATTTT
1 TCTTTTTT
1532702 TCTCTTTTT
1 TCT-TTTTT
*
1532711 TC-ATTTT
1 TCTTTTTT
*
1532718 TCATTTTT
1 TCTTTTTT
1532726 TCTTCCATTTT
1 TCTT---TTTT
* *
1532737 CCATTTTT
1 TCTTTTTT
1532745 TCTTCTTTT
1 TCTT-TTTT
*
1532754 T-TTCTTT
1 TCTTTTTT
*
1532761 TCGTTTTT
1 TCTTTTTT
* *
1532769 CCATCATTTT
1 TC-T-TTTTT
1532779 TCTTTTTT
1 TCTTTTTT
1532787 CTCATTTTTT
1 -TC-TTTTTT
1532797 TCTTCTTTT
1 TCTT-TTTT
1532806 TCTTTTTCT
1 TCTTTTT-T
1532815 TCTTCTCATTT
1 TCTT-T--TTT
1532826 T-TATTATTAT
1 TCT-TT-TT-T
1532836 T-TTTTTT
1 TCTTTTTT
1532843 TCATTTTTTT
1 TC--TTTTTT
*
1532853 TCATTTTT
1 TCTTTTTT
1532861 TCATTTTTT
1 TC-TTTTTT
1532870 CTCTTTTATT
1 -TCTTTT-TT
1532880 TCTT
1 TCTT
1532884 CTTCAAGCGA
Statistics
Matches: 145, Mismatches: 19, Indels: 49
0.68 0.09 0.23
Matches are distributed among these distances:
7 18 0.12
8 40 0.28
9 47 0.32
10 29 0.20
11 9 0.06
12 2 0.01
ACGTcount: A:0.08, C:0.17, G:0.01, T:0.74
Consensus pattern (8 bp):
TCTTTTTT
Found at i:1542602 original size:45 final size:47
Alignment explanation
Indices: 1542512--1542603 Score: 143
Period size: 45 Copynumber: 2.0 Consensus size: 47
1542502 CCATGCTTTG
*
1542512 TTATTCACAAAAATAAATCCTAACCGCATGATATTTAATTCGCATGC
1 TTATTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGC
* *
1542559 TTATTCA-AAAAATAAA-CCTAACCGCATGATATCTAGTTTGCATGC
1 TTATTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGC
1542604 ATTTACTCGA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
45 26 0.62
46 9 0.21
47 7 0.17
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.32
Consensus pattern (47 bp):
TTATTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGC
Found at i:1544916 original size:23 final size:23
Alignment explanation
Indices: 1544890--1544935 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1544880 ACGTCTCCCC
1544890 AGCGTCGTTCTCCTCCTCTCATA
1 AGCGTCGTTCTCCTCCTCTCATA
1544913 AGCGTCGTTCTCCTCCTCTCATA
1 AGCGTCGTTCTCCTCCTCTCATA
1544936 CTCTTCCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.39, G:0.13, T:0.35
Consensus pattern (23 bp):
AGCGTCGTTCTCCTCCTCTCATA
Found at i:1545880 original size:17 final size:16
Alignment explanation
Indices: 1545864--1545912 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1545854 TCCTTATTCT
1545864 TTCGATCTTTTTCTTC
1 TTCGATCTTTTTCTTC
* * **
1545880 TTCGAACTCTATAATTC
1 TTCGATCT-TTTTCTTC
1545897 TTCGATCTTTTTCTTC
1 TTCGATCTTTTTCTTC
1545913 GAAGTCCTCA
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.14, C:0.24, G:0.06, T:0.55
Consensus pattern (16 bp):
TTCGATCTTTTTCTTC
Found at i:1545930 original size:33 final size:33
Alignment explanation
Indices: 1545857--1545930 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 33
1545847 CCACATCTCC
*** *
1545857 TTATTCTTTCGATCTTTTTCTTCTTCGAACTCTA
1 TTATTC-TTCGATCTTTTTCTTCGAAGAACTCAA
* **
1545891 TAATTCTTCGATCTTTTTCTTCGAAGTCCTCAA
1 TTATTCTTCGATCTTTTTCTTCGAAGAACTCAA
1545924 TTATTCT
1 TTATTCT
1545931 ATTTATCTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.18, C:0.23, G:0.07, T:0.53
Consensus pattern (33 bp):
TTATTCTTCGATCTTTTTCTTCGAAGAACTCAA
Found at i:1549211 original size:119 final size:122
Alignment explanation
Indices: 1549076--1549313 Score: 340
Period size: 124 Copynumber: 2.0 Consensus size: 122
1549066 AATACAAATA
* * * *
1549076 TATATATATATATAATATAATACAAAACATGC-TTAATATATGTAACAAATTGAAAAAAAA-TAT
1 TATATATATATATAATATAATACAAAACATACTTTAACATAGGTAACAAATTAAAAAAAAAGTAT
*
1549139 -TGTACGTACATAATATATGCATATTTAAT-GGAAGCAACTATTTATAAGGGATAGGT
66 ATGTACGTACATAATATATACATATTTAATAGG-AGCAACTATTTATAAGGGATAGGT
*
1549195 TATATATATATTTAATATAATACAAAACATACTTTAACATAGGTAACAAATTAAAAAAAAAGGTA
1 TATATATATATATAATATAATACAAAACATACTTTAACATAGGTAACAAATTAAAAAAAAA-GTA
** *
1549260 TACTGTACGTACATAATATATACATATTTAATAGGAGTGACTATTTATGAGGGA
65 TA-TGTACGTACATAATATATACATATTTAATAGGAGCAACTATTTATAAGGGA
1549314 GTTTACATAT
Statistics
Matches: 104, Mismatches: 9, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
119 30 0.29
120 25 0.24
122 3 0.03
124 44 0.42
125 2 0.02
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (122 bp):
TATATATATATATAATATAATACAAAACATACTTTAACATAGGTAACAAATTAAAAAAAAAGTAT
ATGTACGTACATAATATATACATATTTAATAGGAGCAACTATTTATAAGGGATAGGT
Found at i:1551154 original size:16 final size:16
Alignment explanation
Indices: 1551133--1551167 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
1551123 AGATTAATAA
1551133 TAATAATAATAATTTT
1 TAATAATAATAATTTT
1551149 TAATAATAATAATTTT
1 TAATAATAATAATTTT
1551165 TAA
1 TAA
1551168 ATGCTCGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATAATAATAATTTT
Found at i:1551295 original size:19 final size:18
Alignment explanation
Indices: 1551260--1551322 Score: 53
Period size: 19 Copynumber: 3.6 Consensus size: 18
1551250 TTGGATGTTG
1551260 AGTATCGATACTCAAGTCA
1 AGTATCGATACTCAAGT-A
*
1551279 AGTATTGATA-TCAAAGTA
1 AGTATCGATACTC-AAGTA
*
1551297 AGTTTCGATA-T-AAG-A
1 AGTATCGATACTCAAGTA
1551312 GAGTATCGATA
1 -AGTATCGATA
1551323 TTTAGGTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 1 0.03
16 12 0.32
18 12 0.32
19 13 0.34
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (18 bp):
AGTATCGATACTCAAGTA
Found at i:1553356 original size:26 final size:26
Alignment explanation
Indices: 1553320--1553372 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
1553310 TACGTCATTT
1553320 TTCTCTCATGGTCAACAATCCACATG
1 TTCTCTCATGGTCAACAATCCACATG
1553346 TTCTCTCATGGTCAACAATCCACATG
1 TTCTCTCATGGTCAACAATCCACATG
1553372 T
1 T
1553373 CATGTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.32
Consensus pattern (26 bp):
TTCTCTCATGGTCAACAATCCACATG
Found at i:1555369 original size:22 final size:23
Alignment explanation
Indices: 1555317--1555369 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1555307 TAATTATGCA
* * *
1555317 TTTATATCATATTTTCTTTTGTC
1 TTTATAACACATTTTCTTTTATC
*
1555340 TTTATAACACATTTTTTTTTATC
1 TTTATAACACATTTTCTTTTATC
1555363 TTT-TAAC
1 TTTATAAC
1555370 CCTTTTCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.23, C:0.13, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTATAACACATTTTCTTTTATC
Found at i:1556306 original size:32 final size:30
Alignment explanation
Indices: 1556269--1556426 Score: 181
Period size: 32 Copynumber: 5.0 Consensus size: 30
1556259 ACCTAAGGGA
* *
1556269 ATATCTTGGGGTCTGAGAGCCTACCCAAAGG
1 ATATCTTGGGGCCTAAGAGCCTACCC-AAGG
*
1556300 AGTATCTTAGGGCCTAAGAGCCTACCCAAGG
1 A-TATCTTGGGGCCTAAGAGCCTACCCAAGG
*
1556331 AAGTATCTTGGGGCCTTAGAGCCTACCCAAGG
1 -A-TATCTTGGGGCCTAAGAGCCTACCCAAGG
* *
1556363 AAATGCCTTGGGGCCTAAGAGTCTACCCAAGG
1 ATAT--CTTGGGGCCTAAGAGCCTACCCAAGG
*
1556395 AAATGCCTTGGGGCCTAAGAGCCTACCCAAGG
1 ATAT--CTTGGGGCCTAAGAGCCTACCCAAGG
1556427 TCACCTTAGG
Statistics
Matches: 114, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
30 2 0.02
31 6 0.05
32 106 0.93
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (30 bp):
ATATCTTGGGGCCTAAGAGCCTACCCAAGG
Found at i:1556377 original size:64 final size:62
Alignment explanation
Indices: 1556266--1556426 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 62
1556256 CCAACCTAAG
* * *
1556266 GGAATATCTTGGGGTCTGAGAGCCTACCCAAAGGAGTATCTTAGGGCCTAAGAGCCTACCCAA
1 GGAATATCTTGGGGCCTAAGAGCCTACCC-AAGGAGAATCTTAGGGCCTAAGAGCCTACCCAA
* * *
1556329 GGAAGTATCTTGGGGCCTTAGAGCCTACCCAAGGA-AATGCCTTGGGGCCTAAGAGTCTACCCAA
1 GGAA-TATCTTGGGGCCTAAGAGCCTACCCAAGGAGAAT--CTTAGGGCCTAAGAGCCTACCCAA
1556393 GGAA-ATGCCTTGGGGCCTAAGAGCCTACCCAAGG
1 GGAATAT--CTTGGGGCCTAAGAGCCTACCCAAGG
1556427 TCACCTTAGG
Statistics
Matches: 87, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
62 4 0.05
63 9 0.10
64 74 0.85
ACGTcount: A:0.27, C:0.25, G:0.29, T:0.19
Consensus pattern (62 bp):
GGAATATCTTGGGGCCTAAGAGCCTACCCAAGGAGAATCTTAGGGCCTAAGAGCCTACCCAA
Found at i:1559535 original size:18 final size:18
Alignment explanation
Indices: 1559512--1559565 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
1559502 ACTTTAAAAT
1559512 AAAAATAATAAATTATTA
1 AAAAATAATAAATTATTA
*
1559530 AAAAATAACAAAATT-TTA
1 AAAAATAA-TAAATTATTA
*
1559548 AAAATATATTAAATTATT
1 AAAA-ATAATAAATTATT
1559566 TTAAACACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATAATAAATTATTA
Found at i:1562301 original size:2 final size:2
Alignment explanation
Indices: 1562294--1562329 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1562284 TTTTTACCTA
1562294 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1562330 GCGAACTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1565935 original size:32 final size:32
Alignment explanation
Indices: 1565897--1565959 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
1565887 CCAGGGCATC
1565897 CGAGCGAGCTATGTAATGCATGAGCCATGAAT
1 CGAGCGAGCTATGTAATGCATGAGCCATGAAT
1565929 CGAGCGAGCTATGTAATGCATGAGCCATGAA
1 CGAGCGAGCTATGTAATGCATGAGCCATGAA
1565960 CGTGGGGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.21
Consensus pattern (32 bp):
CGAGCGAGCTATGTAATGCATGAGCCATGAAT
Found at i:1565953 original size:16 final size:16
Alignment explanation
Indices: 1565902--1565953 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
1565892 GCATCCGAGC
1565902 GAGCTATGTAATGCAT
1 GAGCTATGTAATGCAT
* *
1565918 GAGCCATG-AAT-CGAGC
1 GAGCTATGTAATGC-A-T
1565934 GAGCTATGTAATGCAT
1 GAGCTATGTAATGCAT
1565950 GAGC
1 GAGC
1565954 CATGAACGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
14 1 0.04
15 4 0.14
16 18 0.64
17 4 0.14
18 1 0.04
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (16 bp):
GAGCTATGTAATGCAT
Found at i:1566466 original size:21 final size:21
Alignment explanation
Indices: 1566441--1566484 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1566431 AATTTAGTTA
1566441 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
1566462 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
1566483 AT
1 AT
1566485 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:1566485 original size:28 final size:28
Alignment explanation
Indices: 1566454--1566519 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
1566444 AGTTTGTTAG
1566454 TATAAATTATTAGTTTGTTAGTTTAAGT
1 TATAAATTATTAGTTTGTTAGTTTAAGT
*
1566482 TAT-ATTATATTAGTTTGTTAGTTTAAGT
1 TATAAAT-TATTAGTTTGTTAGTTTAAGT
*
1566510 TATATATTAT
1 TATAAATTAT
1566520 ATTATATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.91
29 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (28 bp):
TATAAATTATTAGTTTGTTAGTTTAAGT
Found at i:1566998 original size:22 final size:23
Alignment explanation
Indices: 1566959--1567004 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1566949 CAGTTTAAGA
1566959 TAATATTGTGTTT-AAAAATATT
1 TAATATTGTGTTTAAAAAATATT
*
1566981 TAATGTTGT-TTTAAAAAAATATT
1 TAATATTGTGTTT-AAAAAATATT
1567004 T
1 T
1567005 TGTTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 8 0.38
23 10 0.48
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
TAATATTGTGTTTAAAAAATATT
Found at i:1570346 original size:21 final size:20
Alignment explanation
Indices: 1570289--1570348 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 20
1570279 CATTATTTAA
1570289 TAATGATTTTATATTTAA-ATT
1 TAATGA-TTTATA-TTAATATT
1570310 TAATGATTTATTATTAATATT
1 TAATGATTTA-TATTAATATT
1570331 TAATGATTTGATATTAAT
1 TAATGATTT-ATATTAAT
1570349 GATTAAGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.22
21 27 0.75
22 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TAATGATTTATATTAATATT
Found at i:1570480 original size:22 final size:22
Alignment explanation
Indices: 1570455--1570504 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
1570445 GGACTACTCG
1570455 AATTTAAATTTATAAATAGTCA
1 AATTTAAATTTATAAATAGTCA
*
1570477 AATTTAAATTTATAAATAGTCG
1 AATTTAAATTTATAAATAGTCA
1570499 AATTTA
1 AATTTA
1570505 TTAATGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (22 bp):
AATTTAAATTTATAAATAGTCA
Found at i:1570749 original size:34 final size:34
Alignment explanation
Indices: 1570658--1570764 Score: 135
Period size: 34 Copynumber: 3.1 Consensus size: 34
1570648 AGTAATGATT
* *
1570658 TGATAATAATGATTTAATAATGATTTTAATATTTAA
1 TGATAATAATGATTTAATAATGA-TTTGATA-ATAA
* * *
1570694 TGAT-TTGATGATTTAGTAATGATTTGATAATAA
1 TGATAATAATGATTTAATAATGATTTGATAATAA
*
1570727 TGATAATAATGATTTAACAATGATTTGATAATAA
1 TGATAATAATGATTTAATAATGATTTGATAATAA
1570761 TGAT
1 TGAT
1570765 TTAGTAATGA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
33 7 0.11
34 35 0.57
35 15 0.25
36 4 0.07
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.44
Consensus pattern (34 bp):
TGATAATAATGATTTAATAATGATTTGATAATAA
Found at i:1570772 original size:14 final size:14
Alignment explanation
Indices: 1570650--1570766 Score: 69
Period size: 14 Copynumber: 7.6 Consensus size: 14
1570640 TACGATTTAG
1570650 TAATGATTTGATAA
1 TAATGATTTGATAA
1570664 TAATGA-TT--TAA
1 TAATGATTTGATAA
* *
1570675 TAATGATTTTAATATT
1 TAATGA-TTTGATA-A
1570691 TAATGATTTGATGATTTA
1 TAATGATTTGAT-A---A
1570709 GTAATGATTTGATAA
1 -TAATGATTTGATAA
1570724 TAATGATAATAATGATTTAA
1 TAATGAT--T--TGA--TAA
*
1570744 CAATGATTTGATAA
1 TAATGATTTGATAA
1570758 TAATGATTT
1 TAATGATTT
1570767 AGTAATGATC
Statistics
Matches: 83, Mismatches: 5, Indels: 30
0.70 0.04 0.25
Matches are distributed among these distances:
11 9 0.11
13 4 0.05
14 24 0.29
15 8 0.10
16 11 0.13
18 6 0.07
19 12 0.14
20 9 0.11
ACGTcount: A:0.41, C:0.01, G:0.13, T:0.45
Consensus pattern (14 bp):
TAATGATTTGATAA
Found at i:1570774 original size:11 final size:11
Alignment explanation
Indices: 1570661--1570775 Score: 74
Period size: 11 Copynumber: 9.9 Consensus size: 11
1570651 AATGATTTGA
1570661 TAATAATGATT
1 TAATAATGATT
1570672 TAATAATGATT
1 TAATAATGATT
1570683 T--TAAT-ATT
1 TAATAATGATT
1570691 TAATGATTTGATGATT
1 TAAT-A----ATGATT
*
1570707 TAGTAATGATT
1 TAATAATGATT
* * *
1570718 TGATAATAATGA
1 TAATAATGAT-T
1570730 TAATAATGATT
1 TAATAATGATT
*
1570741 TAACAATGATTT
1 TAATAATGA-TT
1570753 GATAATAATGATT
1 --TAATAATGATT
*
1570766 TAGTAATGAT
1 TAATAATGAT
1570776 CAAATGCGTG
Statistics
Matches: 81, Mismatches: 11, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
8 4 0.05
9 4 0.05
10 1 0.01
11 43 0.53
12 10 0.12
13 2 0.02
14 8 0.10
15 3 0.04
16 6 0.07
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.44
Consensus pattern (11 bp):
TAATAATGATT
Found at i:1571459 original size:23 final size:22
Alignment explanation
Indices: 1571395--1571460 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
1571385 TAAATTCTAA
* *
1571395 AATTAAAATAACAATAA-AATT
1 AATTTAAATAATAATAATAATT
*
1571416 GATTTAAATCAAATAAT-ATAATT
1 AATTTAAAT--AATAATAATAATT
1571439 AATTTAAATAATAATTAATAAT
1 AATTTAAATAATAA-TAATAAT
1571461 AACATATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
21 12 0.33
22 2 0.06
23 22 0.61
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (22 bp):
AATTTAAATAATAATAATAATT
Found at i:1572190 original size:23 final size:23
Alignment explanation
Indices: 1572160--1572233 Score: 139
Period size: 23 Copynumber: 3.2 Consensus size: 23
1572150 TTTGGACCTC
1572160 GAGTTGCATTGTCACATCCTCCA
1 GAGTTGCATTGTCACATCCTCCA
1572183 GAGTTGCATTGTCACATCCTCCA
1 GAGTTGCATTGTCACATCCTCCA
*
1572206 GAGTTGCATTGTCATATCCTCCA
1 GAGTTGCATTGTCACATCCTCCA
1572229 GAGTT
1 GAGTT
1572234 ATCGTACATT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (23 bp):
GAGTTGCATTGTCACATCCTCCA
Found at i:1572741 original size:16 final size:16
Alignment explanation
Indices: 1572708--1572754 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1572698 CAAAAAAATT
*
1572708 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
1572723 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
1572739 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
1572755 ACTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:1572829 original size:30 final size:30
Alignment explanation
Indices: 1572795--1572878 Score: 134
Period size: 30 Copynumber: 2.8 Consensus size: 30
1572785 TTCTCTTAAA
1572795 CAACTAATAAACTATTCTTTAATATAACTT
1 CAACTAATAAACTATTCTTTAATATAACTT
1572825 CAACTAATAAACTATTCTTTAATATAACTT
1 CAACTAATAAACTATTCTTTAATATAACTT
* *
1572855 AAACTAATAAA-TGATTTTTTAATA
1 CAACTAATAAACT-ATTCTTTAATA
1572879 ATAATTTACT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.40
Consensus pattern (30 bp):
CAACTAATAAACTATTCTTTAATATAACTT
Found at i:1572847 original size:15 final size:16
Alignment explanation
Indices: 1572799--1572853 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
1572789 CTTAAACAAC
1572799 TAATA-AACTATTCTT
1 TAATATAACTATTCTT
**
1572814 TAATATAAC--TTCAAC
1 TAATATAACTATTC-TT
1572829 TAATA-AACTATTCTT
1 TAATATAACTATTCTT
1572844 TAATATAACT
1 TAATATAACT
1572854 TAAACTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 6 0.19
15 15 0.48
16 10 0.32
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATATAACTATTCTT
Found at i:1573011 original size:41 final size:37
Alignment explanation
Indices: 1572956--1573069 Score: 106
Period size: 41 Copynumber: 2.9 Consensus size: 37
1572946 CTTAACTATT
1572956 TAACTAAC--ACAAACTAATTACATATTTTTTTATATA
1 TAACTAACAAACAAACTAATTA-ATATTTTTTTATATA
*
1572992 TAACTAACGACTAACAAACTAACTAATTATTTTTATTAATATA
1 TAACTAAC-A--AACAAACTAATTAA-TATTTTT-TT-ATATA
* * *
1573035 TAACTATCAAACATACTAATTAAATAATTTTTTAT
1 TAACTAACAAACAAACTAATT-AATATTTTTTTAT
1573070 TTCTATATGA
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
36 8 0.12
38 2 0.03
39 2 0.03
40 17 0.27
41 20 0.31
42 3 0.05
43 12 0.19
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (37 bp):
TAACTAACAAACAAACTAATTAATATTTTTTTATATA
Found at i:1573103 original size:21 final size:21
Alignment explanation
Indices: 1573079--1573118 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1573069 TTTCTATATG
1573079 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
1573100 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
1573119 ACTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:1573360 original size:373 final size:367
Alignment explanation
Indices: 1572837--1573575 Score: 1175
Period size: 376 Copynumber: 2.0 Consensus size: 367
1572827 ACTAATAAAC
* * *
1572837 TATTCTTTAATATAACTTAAACTAATAAATGATTTTTTAATAATAATTTACTACTAAAAATTAAT
1 TATTCTTTAATATAACTTAAACTAATAAATGATTTTTTAATAATAATTAACTAATAAAAACTAAT
* *
1572902 TAACTAAATTTTTTATATAATATAAATTCAACAAACAAATATAACTTAACTATTTAACTAACACA
66 TAACTAAATTTTTTATATAATATAAATTAAACAAAAAAATATAACTTAACTATTTAACTAACACA
*
1572967 AACTAATTACATATTTTTTTATATATAACTAACGACTAACAAACTAACTAATT-A-T-TTTTATT
131 AACTAATTACATATTTTTTTATATATAACTAACGACTAACAAACAAACTAATTAATTATTTTATT
* * *
1573029 AATATATAACTATCAAACATACTAATTAAATAATTTTTTATTTCTATATGATATAACTTAAACTA
196 AATATATAACTATCAAACAAACTAATTAAATAATTTTTTATTTATATATGATAGAACTTAAACTA
1573094 ACAATAATATAACTTAAACTAACAAACTAATTAACTAATTTTTTGTTTTACCCTAAACCCTAAAC
261 ACAATAATATAACTTAAACTAACAAACTAATTAACTAATTTTTTGTTTTACCCTAAACCCTAAAC
*
1573159 TAACAAACTAATAATTTATAATAATAAACTAATTTAAATAAT
326 TAACAAACTAATAATTTAAAATAATAAACTAATTTAAATAAT
*
1573201 TATTCTTTTTATATAACTTAAACTAATAAACT-ATTTTTTATTATAATAAAACTTAAACTAATGA
1 TATTC-TTTAATATAACTTAAACTAATAAA-TGATTTTTTA--ATAAT--AA-TT-AACTAAT-A
* * * *
1573265 TAAACTAATTAACTAATTTTTTTTATATAATATAAATTAAACAAAAAAATATAACTTAATTTTTT
57 AAAACTAATTAACTAA-ATTTTTTATATAATATAAATTAAACAAAAAAATATAACTTAACTATTT
1573330 AACTAACTACAAACTAATTA-ACTA-TTTTTTATATATAACTAACGACTAACAAACAAACTAATT
121 AACTAAC-ACAAACTAATTACA-TATTTTTTTATATATAACTAACGACTAACAAACAAACTAATT
* *
1573393 AATTATTTTTTTAATATATAACTATCAAACAAACTAATTAAATAATTTTTTATTTATGTATGATA
184 AATTATTTTATTAATATATAACTATCAAACAAACTAATTAAATAATTTTTTATTTATATATGATA
1573458 GAACTTAAACTAACAATAATATAACTTAAACTAACAAACTAATTAACTAATTTTTTGTTTTACCC
249 GAACTTAAACTAACAATAATATAACTTAAACTAACAAACTAATTAACTAATTTTTTGTTTTACCC
1573523 TAAACCCTAAACTAACAAACTAATAATTTAAAATAATAAACTAATTTAAATAA
314 TAAACCCTAAACTAACAAACTAATAATTTAAAATAATAAACTAATTTAAATAA
1573576 AATGAAAATT
Statistics
Matches: 343, Mismatches: 17, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
364 5 0.01
365 31 0.09
366 1 0.00
367 5 0.01
369 2 0.01
370 2 0.01
371 5 0.01
372 15 0.04
373 89 0.26
374 15 0.04
375 1 0.00
376 172 0.50
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.39
Consensus pattern (367 bp):
TATTCTTTAATATAACTTAAACTAATAAATGATTTTTTAATAATAATTAACTAATAAAAACTAAT
TAACTAAATTTTTTATATAATATAAATTAAACAAAAAAATATAACTTAACTATTTAACTAACACA
AACTAATTACATATTTTTTTATATATAACTAACGACTAACAAACAAACTAATTAATTATTTTATT
AATATATAACTATCAAACAAACTAATTAAATAATTTTTTATTTATATATGATAGAACTTAAACTA
ACAATAATATAACTTAAACTAACAAACTAATTAACTAATTTTTTGTTTTACCCTAAACCCTAAAC
TAACAAACTAATAATTTAAAATAATAAACTAATTTAAATAAT
Done.