Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 62 of 135
Found at i:20748643 original size:158 final size:158
Alignment explanation
Indices: 20748354--20748721 Score: 574
Period size: 158 Copynumber: 2.3 Consensus size: 158
20748344 TACAACCCCG
* * *
20748354 AATCTTTTACCCCGATCATGGGGTAGATTGAAGAAATCTAATCTTTTACCTTAACTAGAGGGCAG
1 AATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAGAGGGCAG
* * *
20748419 ATTGGAGACCATCCGATCTCTTACCTCGATCATAGGGCAGATTGAAGGAATCCAATCTTTTACCC
66 ATTGGAGACCATCCGATCTCTTACCCCGACCATAGGGCAGATTGAAGCAATCCAATCTTTTACCC
*
20748484 TAATCAGAGGGTAGAATGAAGATCATCC
131 TAATCAGAGGGTAGAATGAAGACCATCC
* * * * * *
20748512 GATCTTTTACCCCGATCATGAGGCGGATTAAAGAAATCCAACCTTTTACCCTAACTAGAGGTCAG
1 AATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAGAGGGCAG
*
20748577 ATTGGAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCC
66 ATTGGAGACCATCCGATCTCTTACCCCGACCATAGGGCAGATTGAAGCAATCCAATCTTTTACCC
*
20748642 TAATCAGAGGGTAGATTGAAGACCATCC
131 TAATCAGAGGGTAGAATGAAGACCATCC
* * *
20748670 AATCTCTTACCCCGATCATGGGGCAGATTGAAGCAATTCAATCTTTTACCCT
1 AATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCT
20748722 TAAAGCTATA
Statistics
Matches: 187, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
158 187 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (158 bp):
AATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAGAGGGCAG
ATTGGAGACCATCCGATCTCTTACCCCGACCATAGGGCAGATTGAAGCAATCCAATCTTTTACCC
TAATCAGAGGGTAGAATGAAGACCATCC
Found at i:20750400 original size:30 final size:30
Alignment explanation
Indices: 20750366--20750552 Score: 100
Period size: 30 Copynumber: 6.3 Consensus size: 30
20750356 CATAAACTTC
* *
20750366 CCAAAAATTTGAATTTGAACCACGAGTTTT
1 CCAAAAATTTGAATTTGAACCACAAATTTT
** * *
20750396 CCAAAAATTCAAATTTGACCCCCAAATTTT
1 CCAAAAATTTGAATTTGAACCACAAATTTT
* * *
20750426 TCAAAAATTTGAATTGGATCC-CAAATTTT
1 CCAAAAATTTGAATTTGAACCACAAATTTT
* * ** *
20750455 CTAACAATTCAAATTTG-A-CACTTAATTTTT
1 CCAAAAATTTGAATTTGAACCAC--AAATTTT
** *
20750485 CCAAAAATTCCAATTT-AACC-CTAAACTTT
1 CCAAAAATTTGAATTTGAACCAC-AAATTTT
* * *
20750514 CCAAAAAATCT-AATTTG-ACCCCTAAACTTT
1 CC-AAAAATTTGAATTTGAACCAC-AAATTTT
20750544 CCAAAAATT
1 CCAAAAATT
20750553 CTGATTTAAC
Statistics
Matches: 122, Mismatches: 27, Indels: 17
0.73 0.16 0.10
Matches are distributed among these distances:
27 1 0.01
28 1 0.01
29 41 0.34
30 78 0.64
31 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (30 bp):
CCAAAAATTTGAATTTGAACCACAAATTTT
Found at i:20750469 original size:29 final size:30
Alignment explanation
Indices: 20750392--20750469 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
20750382 GAACCACGAG
* *
20750392 TTTTCCAAAAATTCAAATTTGACCCCCAAA
1 TTTTCTAAAAATTCAAATTGGACCCCCAAA
** *
20750422 TTTT-TCAAAAATTTGAATTGGA-TCCCAAA
1 TTTTCT-AAAAATTCAAATTGGACCCCCAAA
*
20750451 TTTTCTAACAATTCAAATT
1 TTTTCTAAAAATTCAAATT
20750470 TGACACTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
29 20 0.53
30 18 0.47
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.37
Consensus pattern (30 bp):
TTTTCTAAAAATTCAAATTGGACCCCCAAA
Found at i:20750490 original size:59 final size:61
Alignment explanation
Indices: 20750366--20750593 Score: 163
Period size: 59 Copynumber: 3.8 Consensus size: 61
20750356 CATAAACTTC
* * * *
20750366 CCAAAAATTTGAATTTGAACCACGAGTTTTCCAAAAATTCAAATTTGACCCCCAAATTTTT
1 CCAAAAATTTGAATTGGAACCACAAATTTTCCAAAAATTCAAATTTGACCACCAAATTTTT
* * * **
20750427 -CAAAAATTTGAATTGGATCC-CAAATTTTCTAACAATTCAAATTTGA-CACTTAATTTTT
1 CCAAAAATTTGAATTGGAACCACAAATTTTCCAAAAATTCAAATTTGACCACCAAATTTTT
** * * * * *
20750485 CCAAAAATTCCAATT-TAACC-CTAAACTTTCCAAAAAATCTAATTTGACC-CCTAAA-CTTT
1 CCAAAAATTTGAATTGGAACCAC-AAATTTTCCAAAAATTCAAATTTGACCACC-AAATTTTT
* *
20750544 CCAAAAATTCTG-ATT-TAACC-CTTAAAGTTTT-CAAAAATTCAAGTTTGACC
1 CCAAAAATT-TGAATTGGAACCAC--AAA-TTTTCCAAAAATTCAAATTTGACC
20750594 TGGTTTGAAT
Statistics
Matches: 133, Mismatches: 27, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
58 13 0.10
59 76 0.57
60 41 0.31
61 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.34
Consensus pattern (61 bp):
CCAAAAATTTGAATTGGAACCACAAATTTTCCAAAAATTCAAATTTGACCACCAAATTTTT
Found at i:20750568 original size:89 final size:90
Alignment explanation
Indices: 20750349--20750591 Score: 212
Period size: 89 Copynumber: 2.7 Consensus size: 90
20750339 AAATTTATTT
* * *
20750349 TTTGACCCATAAACTTCCCAAAAATT-TGAATTTGAACCAC--GAGTTTTCCAAAAATTCAAATT
1 TTTGACCCCTAAACTTTCCAAAAATTCTG-ATTT-AACC-CTTAAGTTTTCCAAAAATTCAAATT
* * * *
20750411 TGACCCCCAAATTTTTCAAAAATTTGAA
63 TGAACCCCAAACTTTCCAAAAATCTGAA
* * * * * ** * * * *
20750439 TTGGATCCC-AAATTTTCTAACAATTCAAATTTGACACTTAATTTTTCCAAAAATTCCAATTT-A
1 TTTGACCCCTAAACTTTCCAAAAATTCTGATTTAACCCTTAAGTTTTCCAAAAATTCAAATTTGA
*
20750502 ACCCTAAACTTTCCAAAAAATCT-AA
66 ACCCCAAACTTTCC-AAAAATCTGAA
*
20750527 TTTGACCCCTAAACTTTCCAAAAATTCTGATTTAACCCTTAAAGTTTT-CAAAAATTCAAGTTTG
1 TTTGACCCCTAAACTTTCCAAAAATTCTGATTTAACCCTT-AAGTTTTCCAAAAATTCAAATTTG
20750591 A
65 A
20750592 CCTGGTTTGA
Statistics
Matches: 115, Mismatches: 31, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
87 1 0.01
88 22 0.19
89 79 0.69
90 13 0.11
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (90 bp):
TTTGACCCCTAAACTTTCCAAAAATTCTGATTTAACCCTTAAGTTTTCCAAAAATTCAAATTTGA
ACCCCAAACTTTCCAAAAATCTGAA
Found at i:20750579 original size:30 final size:29
Alignment explanation
Indices: 20750482--20750583 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 29
20750472 ACACTTAATT
*
20750482 TTTCCAAAAATTCCAATTTAACCCTAAAC
1 TTTCCAAAAATTCTAATTTAACCCTAAAC
* *
20750511 TTTCCAAAAAATCTAATTTGACCCCTAAAC
1 TTTCCAAAAATTCTAATTT-AACCCTAAAC
* *
20750541 TTTCCAAAAATTCTGATTTAACCCTTAAAG
1 TTTCCAAAAATTCTAATTTAACCC-TAAAC
*
20750571 TTTTCAAAAATTC
1 TTTCCAAAAATTC
20750584 AAGTTTGACC
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
29 21 0.33
30 42 0.67
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (29 bp):
TTTCCAAAAATTCTAATTTAACCCTAAAC
Found at i:20762451 original size:79 final size:79
Alignment explanation
Indices: 20762345--20762789 Score: 586
Period size: 79 Copynumber: 5.6 Consensus size: 79
20762335 ACAACCTTGA
* * * * *
20762345 ATCTTTTACCTCGATCATGGGGCAGATTTAAGAAATCTAATCTTTTACCCTAACCAGAGGGCAGA
1 ATCTCTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAAA
20762410 TTGGAGACCATCTG
66 TTGGAGACCATCTG
* * * * * *
20762424 ATCTCTTACCCAGATCATGAGGTAGATTTAAGAAATCTAATCTTTTACCCTAACCAGAGGGTAAA
1 ATCTCTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAAA
20762489 TTGGAGACCATCTG
66 TTGGAGACCATCTG
* *
20762503 ATCTCTTACCCCGATCATGGGGCAGATTGAAGGAATCCAATCTTTTACCCAAACCAGAGGGCAAA
1 ATCTCTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAAA
** * *
20762568 TTAAAGATCATCTA
66 TTGGAGACCATCTG
* * ** * *
20762582 ATCTTTTACCCTGATCATGAAGTAGATTGAAGAAATCCAATCTTTTACCCTAACTAGAGGGCAAA
1 ATCTCTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAAA
20762647 TTGGAGACCAT-TCG
66 TTGGAGACCATCT-G
* * * * *
20762661 ATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAATCAGAGGGTAGA
1 ATCTCTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAAA
* *
20762726 TTGAAGACCATCCG
66 TTGGAGACCATCTG
* *
20762740 ATCTCTTACCCCGATCATGGGGCAGATTGAAGCAATCTAATCTTTTACCC
1 ATCTCTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCC
20762790 CTAAAGCTAT
Statistics
Matches: 318, Mismatches: 46, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
78 1 0.00
79 317 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (79 bp):
ATCTCTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAAA
TTGGAGACCATCTG
Found at i:20762759 original size:237 final size:237
Alignment explanation
Indices: 20762344--20762789 Score: 680
Period size: 237 Copynumber: 1.9 Consensus size: 237
20762334 TACAACCTTG
** * * *
20762344 AATCTTTTACCTCGATCATGGGGCAGATTTAAGAAATCTAATCTTTTACCCTAACCAGAGGGCAG
1 AATCTTTTACCTCGATCATGAAGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
* * * *
20762409 ATTGGAGACCATCTGATCTCTTACCCAGATCATGAGGTAGATTTAAGAAATCTAATCTTTTACCC
66 ATTGGAGACCATCTGATCTCTTACCCAGACCATGAGGCAGATTGAAGAAATCCAATCTTTTACCC
* * *
20762474 TAACCAGAGGGTAAATTGGAGACCATCTGATCTCTTACCCCGATCATGGGGCAGATTGAAGGAAT
131 TAACCAGAGGGTAAATTGAAGACCATCCGATCTCTTACCCCGATCATGGGGCAGATTGAAGCAAT
20762539 CCAATCTTTTACCCAAACCAGAGGGCAAATTAAAGATCATCT
196 CCAATCTTTTACCCAAACCAGAGGGCAAATTAAAGATCATCT
* *
20762581 AATCTTTTACC-CTGATCATGAAGTAGATTGAAGAAATCCAATCTTTTACCCTAACTAGAGGGCA
1 AATCTTTTACCTC-GATCATGAAGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCA
* * *
20762645 AATTGGAGACCAT-TCGATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTAC
65 AATTGGAGACCATCT-GATCTCTTACCCAGACCATGAGGCAGATTGAAGAAATCCAATCTTTTAC
* *
20762709 CCTAATCAGAGGGTAGATTGAAGACCATCCGATCTCTTACCCCGATCATGGGGCAGATTGAAGCA
129 CCTAACCAGAGGGTAAATTGAAGACCATCCGATCTCTTACCCCGATCATGGGGCAGATTGAAGCA
*
20762774 ATCTAATCTTTTACCC
194 ATCCAATCTTTTACCC
20762790 CTAAAGCTAT
Statistics
Matches: 187, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
236 2 0.01
237 185 0.99
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (237 bp):
AATCTTTTACCTCGATCATGAAGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
ATTGGAGACCATCTGATCTCTTACCCAGACCATGAGGCAGATTGAAGAAATCCAATCTTTTACCC
TAACCAGAGGGTAAATTGAAGACCATCCGATCTCTTACCCCGATCATGGGGCAGATTGAAGCAAT
CCAATCTTTTACCCAAACCAGAGGGCAAATTAAAGATCATCT
Found at i:20764521 original size:30 final size:30
Alignment explanation
Indices: 20764482--20764594 Score: 165
Period size: 30 Copynumber: 3.8 Consensus size: 30
20764472 AACCCCGAGT
20764482 TTTCCAAAAATTCTAATTTGACCCCTAAAC
1 TTTCCAAAAATTCTAATTTGACCCCTAAAC
* *
20764512 TTTCTAAAAATTCCAATTTGACCCCTAAAC
1 TTTCCAAAAATTCTAATTTGACCCCTAAAC
*
20764542 TTTCCAAAAATTCCT-ATTTGACCCCTAAAG
1 TTTCCAAAAATT-CTAATTTGACCCCTAAAC
* *
20764572 TTTTCAAAAATTCAAATTTGACC
1 TTTCCAAAAATTCTAATTTGACC
20764595 TGGTTTTAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
29 1 0.01
30 72 0.97
31 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (30 bp):
TTTCCAAAAATTCTAATTTGACCCCTAAAC
Found at i:20764521 original size:60 final size:61
Alignment explanation
Indices: 20764438--20764594 Score: 162
Period size: 60 Copynumber: 2.6 Consensus size: 61
20764428 AAAATTATTT
* * ** * **
20764438 TTTGATCCTTAAAC-TTCTCAAAAATTTGAATTCGAACCCC-GAGTTTTCCAAAAATT-CTAA
1 TTTGACCCCTAAACTTTCTCAAAAATTCCAATTCG-ACCCCTAAACTTTCCAAAAATTCCT-A
*
20764498 TTTGACCCCTAAACTTTCT-AAAAATTCCAATTTGACCCCTAAACTTTCCAAAAATTCCTA
1 TTTGACCCCTAAACTTTCTCAAAAATTCCAATTCGACCCCTAAACTTTCCAAAAATTCCTA
* * *
20764558 TTTGACCCCTAAAGTTT-TCAAAAATTCAAATTTGACC
1 TTTGACCCCTAAACTTTCTCAAAAATTCCAATTCGACC
20764595 TGGTTTTAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
59 6 0.07
60 71 0.86
61 6 0.07
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.34
Consensus pattern (61 bp):
TTTGACCCCTAAACTTTCTCAAAAATTCCAATTCGACCCCTAAACTTTCCAAAAATTCCTA
Found at i:20771024 original size:52 final size:52
Alignment explanation
Indices: 20770942--20771235 Score: 462
Period size: 52 Copynumber: 5.7 Consensus size: 52
20770932 GTAAATAAAG
*
20770942 AAAAGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * *
20770994 AAATGGTCTGATGACTATGTGTCATTGTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* *
20771046 AAAAGGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTATGGAAT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * *
20771098 AAAAGGGCCGATGACTATGTGTCATCGTGAGAATATGATTCCTTTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* *
20771150 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGATTCCTTCATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * *
20771202 AAGAGATCCAATGACTATGTGTCATCGTGAGTAT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTAT
20771236 TAAATGGAAT
Statistics
Matches: 224, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 224 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.35
Consensus pattern (52 bp):
AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
Found at i:20771267 original size:17 final size:17
Alignment explanation
Indices: 20771241--20771282 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
20771231 AGTATTAAAT
*
20771241 GGAATGAATTCCATTAC
1 GGAATAAATTCCATTAC
20771258 GGAATAAATTCCATTAC
1 GGAATAAATTCCATTAC
20771275 GGAATAAA
1 GGAATAAA
20771283 GGTTCGATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (17 bp):
GGAATAAATTCCATTAC
Found at i:20774175 original size:15 final size:15
Alignment explanation
Indices: 20774155--20774186 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20774145 ATCACGATGC
*
20774155 ATTTTTTTTTACAAA
1 ATTTTTTTTTAAAAA
20774170 ATTTTTTTTTAAAAA
1 ATTTTTTTTTAAAAA
20774185 AT
1 AT
20774187 AAAATAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTTTTTTAAAAA
Found at i:20776718 original size:10 final size:10
Alignment explanation
Indices: 20776693--20776740 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
20776683 AAAATACATG
20776693 AATAGAATA-A
1 AATA-AATACA
20776703 AATAAATACA
1 AATAAATACA
*
20776713 ATTAAATACA
1 AATAAATACA
* *
20776723 ACTAAACACA
1 AATAAATACA
20776733 AATAAATA
1 AATAAATA
20776741 AAAAAGTAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
9 4 0.12
10 28 0.88
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.21
Consensus pattern (10 bp):
AATAAATACA
Found at i:20776781 original size:3 final size:3
Alignment explanation
Indices: 20776773--20776815 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
20776763 ACATAACAGT
20776773 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
20776816 ACATTGATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20776920 original size:30 final size:32
Alignment explanation
Indices: 20776871--20776929 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 32
20776861 AAATTAAACA
* *
20776871 TAATTGAATCAAAGAT-AAAATA-AAAATATG
1 TAATTAAATAAAAGATAAAAATATAAAATATG
*
20776901 TAATTAAATAAAAGGTAAAAATATAAAAT
1 TAATTAAATAAAAGATAAAAATATAAAAT
20776930 GACATAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.54
31 6 0.25
32 5 0.21
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (32 bp):
TAATTAAATAAAAGATAAAAATATAAAATATG
Found at i:20777045 original size:14 final size:14
Alignment explanation
Indices: 20776935--20777038 Score: 72
Period size: 15 Copynumber: 7.4 Consensus size: 14
20776925 AAAATGACAT
20776935 AATAAATAAATAACA
1 AATAAATAAATAA-A
*
20776950 AATAAATGAATAAA
1 AATAAATAAATAAA
* *
20776964 AACAAA-ATA-AAA
1 AATAAATAAATAAA
* *
20776976 AATGAATATAT-AA
1 AATAAATAAATAAA
* *
20776989 AAGAAAT-GATAAA
1 AATAAATAAATAAA
*
20777002 ATATGAATTAAATAAA
1 A-AT-AAATAAATAAA
20777018 AATAAATAAATAAA
1 AATAAATAAATAAA
20777032 CAATAAA
1 -AATAAA
20777039 CAATAAAAGG
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
12 9 0.13
13 14 0.20
14 17 0.25
15 23 0.33
16 6 0.09
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (14 bp):
AATAAATAAATAAA
Found at i:20777172 original size:24 final size:25
Alignment explanation
Indices: 20777135--20777195 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
20777125 AAAGGACTTA
* *
20777135 ATTAAAACT-AAAAACAAATTAAATG
1 ATTAAAA-TAAAAAACAAAATAAAGG
*
20777160 -TTAAAATAAAAAATAAAATAAAGG
1 ATTAAAATAAAAAACAAAATAAAGG
*
20777184 ATTAAATTAAAA
1 ATTAAAATAAAA
20777196 TAATATACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 19 0.63
25 10 0.33
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (25 bp):
ATTAAAATAAAAAACAAAATAAAGG
Found at i:20778133 original size:21 final size:21
Alignment explanation
Indices: 20778107--20778147 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
20778097 GAAAATACAT
*
20778107 TTTTTTATATTTTTTTCTATA
1 TTTTTTATACTTTTTTCTATA
* *
20778128 TTTTTTGTCCTTTTTTCTAT
1 TTTTTTATACTTTTTTCTAT
20778148 TTTACAGGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTTATACTTTTTTCTATA
Found at i:20778429 original size:22 final size:22
Alignment explanation
Indices: 20778404--20778448 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
20778394 TTTTTGGACT
*
20778404 TTTAGATT-TTGGTTTTTATTTA
1 TTTA-ATTATTGGATTTTATTTA
*
20778426 TTTATTTATTGGATTTTATTTA
1 TTTAATTATTGGATTTTATTTA
20778448 T
1 T
20778449 AAATGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (22 bp):
TTTAATTATTGGATTTTATTTA
Found at i:20779255 original size:98 final size:98
Alignment explanation
Indices: 20778737--20779248 Score: 340
Period size: 101 Copynumber: 5.1 Consensus size: 98
20778727 CTTCAGGGAC
* * ** * * * *
20778737 ATAGGATTTGATGTTGTAACTTCATTTTGCTTCGTTGTATCTTTAGGGGGATAAGATTTGCTGCT
1 ATAGGATTTGATGTTGT-AC-TCATCTTGCTCCACTGTAACTTTAGAGAGATAAGATTTGCT-TT
* * * * * *
20778802 ATAGC-TCCAATCTGA-CTCACTGCAACTTCAGGGGT
63 GTAACTTTCAATCTGATC-CACTACAACTTAAGAGGT
* * * * *
20778837 ATAGGATTTGATATGGTAGCTTCATCTTGCTCTACTGTAACTTCAGAGAGATAAAAATTTGCTAT
1 ATAGGATTTGATGTTGTA-C-TCATCTTGCTCCACTGTAACTTTAGAGAGAT-AAGATTTGCT-T
* * * **
20778902 TGTAA-TTTTAATCTGATCC-TTGCAACTTTCG-GGAT
62 TGTAACTTTCAATCTGATCCACTACAACTTAAGAGG-T
* * *
20778937 ATAAGATTT-ATACGTCGTAGCCTCATCTTGCTCCACTGTAACTTTAGGGAGATAAAGATTTGCT
1 ATAGGATTTGAT--GTTGTA--CTCATCTTGCTCCACTGTAACTTTAGAGAGAT-AAGATTTGC-
* * * * *
20779001 TTTGTAATTTTAAATCTGACCCACTATAACTTTAGAGGT
60 TTTGTAACTTTCAATCTGATCCACTACAACTTAAGAGGT
* * * * *
20779040 ATAGAATTTGATGTTGTAGCCTCATCTTGCTCTACTGCAACTTTAGAGAGATAAGATCTGGTTTC
1 ATAGGATTTGATGTTGTA--CTCATCTTGCTCCACTGTAACTTTAGAGAGATAAGATTTGCTTT-
* * * * *
20779105 GTAACTTTCGATCTAATCTACTACAACTTCAGAGAT
63 GTAACTTTCAATCTGATCCACTACAACTTAAGAGGT
* *
20779141 ATAGG-TCTTGATGTTGT-TTCATCTTGCTCCACTGTAACTTTAAAGAGATCAAGATTTGCTTCT
1 ATAGGAT-TTGATGTTGTACTCATCTTGCTCCACTGTAACTTTAGAGAGAT-AAGATTTGCTT-T
* * * *
20779204 GT-AGTTTCAATCCGATCCACTACAACCTAAGGGGT
63 GTAACTTTCAATCTGATCCACTACAACTTAAGAGGT
20779239 ATAGGATTTG
1 ATAGGATTTG
20779249 GCGTTGTAAC
Statistics
Matches: 326, Mismatches: 68, Indels: 38
0.75 0.16 0.09
Matches are distributed among these distances:
98 60 0.18
99 17 0.05
100 62 0.19
101 116 0.36
102 51 0.16
103 16 0.05
104 4 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (98 bp):
ATAGGATTTGATGTTGTACTCATCTTGCTCCACTGTAACTTTAGAGAGATAAGATTTGCTTTGTA
ACTTTCAATCTGATCCACTACAACTTAAGAGGT
Found at i:20779465 original size:102 final size:102
Alignment explanation
Indices: 20779176--20779466 Score: 302
Period size: 102 Copynumber: 2.9 Consensus size: 102
20779166 GCTCCACTGT
** * * *
20779176 AACTTTAAAGAGATCAAGATTTGCTTCTG-TAGTTTCAATCCGATCCACTACAAC-CTAAGGGGT
1 AACTTTAGGGAGATTAAGATTTGCTACTGTTAGTTTCAATCCGATCCACTACAACTTTAA-GGGT
* * * * *
20779239 ATAGGATTTGGCGTTGTAACTTCACTCCATTTCGCTGC
65 ATAGGATTTGGTGTTGTAGCTTCACTCCATTCCACTAC
* * * * * ** *
20779277 AACTTTTGGGAGATTGAGATTTGCTATTATTAGTTTTAATTTGATCCACTACAA-TTTTAGGGAT
1 AACTTTAGGGAGATTAAGATTTGCTACTGTTAGTTTCAATCCGATCCACTACAACTTTAAGGG-T
* *
20779341 ATAGGATTTGGTGTTGTGGCTTCACTCTATTCCACTAC
65 ATAGGATTTGGTGTTGTAGCTTCACTCCATTCCACTAC
* * *
20779379 AACTTTAGGGAGATTAAGATCTGCTACTGTTGGTTTCAGTCCGA-CCTACTACAACTTTAAGGGT
1 AACTTTAGGGAGATTAAGATTTGCTACTGTTAGTTTCAATCCGATCC-ACTACAACTTTAAGGGT
* *
20779443 ATAAGATTTGGTGTTGCAGCTTCA
65 ATAGGATTTGGTGTTGTAGCTTCA
20779467 TCCTACTCTA
Statistics
Matches: 151, Mismatches: 34, Indels: 9
0.78 0.18 0.05
Matches are distributed among these distances:
101 26 0.17
102 118 0.78
103 7 0.05
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (102 bp):
AACTTTAGGGAGATTAAGATTTGCTACTGTTAGTTTCAATCCGATCCACTACAACTTTAAGGGTA
TAGGATTTGGTGTTGTAGCTTCACTCCATTCCACTAC
Found at i:20780459 original size:6 final size:6
Alignment explanation
Indices: 20780404--20780480 Score: 56
Period size: 6 Copynumber: 13.2 Consensus size: 6
20780394 TCTCGACCTC
* * *
20780404 TCCTTT TTCTTT TTCTTT T--TTT TCCTTT TCTCTTT TCTTTT TCCTTTTT
1 TCCTTT TCCTTT TCCTTT TCCTTT TCCTTT TC-CTTT TCCTTT TCC--TTT
*
20780453 TCCTTT T-ATTT TCC--T TCCTTT TCCTTT T
1 TCCTTT TCCTTT TCCTTT TCCTTT TCCTTT T
20780481 TTAGGTGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
4 8 0.14
5 4 0.07
6 34 0.59
7 6 0.10
8 6 0.10
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.74
Consensus pattern (6 bp):
TCCTTT
Found at i:20780474 original size:21 final size:22
Alignment explanation
Indices: 20780408--20780480 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 22
20780398 GACCTCTCCT
* **
20780408 TTTTCTTTTTC-TTTTTTTTCC
1 TTTTCCTTTTCATTTTCCTTCC
*
20780429 TTTTCTCTTTTCTTTTTCCTT--
1 TTTTC-CTTTTCATTTTCCTTCC
20780450 TTTTCCTTTT-ATTTTCCTTCC
1 TTTTCCTTTTCATTTTCCTTCC
20780471 TTTTCCTTTT
1 TTTTCCTTTT
20780481 TTAGGTGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
19 8 0.18
20 5 0.11
21 20 0.45
22 5 0.11
23 6 0.14
ACGTcount: A:0.01, C:0.23, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTCCTTTTCATTTTCCTTCC
Found at i:20781751 original size:13 final size:14
Alignment explanation
Indices: 20781729--20781761 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
20781719 TCTCAATCTC
*
20781729 TTTTTCTTTT-CTT
1 TTTTTTTTTTGCTT
20781742 TTTTTTTTTTGCTT
1 TTTTTTTTTTGCTT
20781756 TTTTTT
1 TTTTTT
20781762 GGTTTCAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTTGCTT
Found at i:20785397 original size:13 final size:13
Alignment explanation
Indices: 20785379--20785408 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
20785369 ATAAATAAAT
20785379 AAATAATAAACCC
1 AAATAATAAACCC
20785392 AAATAATAAACCC
1 AAATAATAAACCC
20785405 AAAT
1 AAAT
20785409 TACAAGCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.63, C:0.20, G:0.00, T:0.17
Consensus pattern (13 bp):
AAATAATAAACCC
Found at i:20791953 original size:13 final size:14
Alignment explanation
Indices: 20791930--20791959 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
20791920 TGTCGGCCTT
20791930 CTTTTTACCTTTTC
1 CTTTTTACCTTTTC
20791944 CTTTTT-CCTTTTC
1 CTTTTTACCTTTTC
20791957 CTT
1 CTT
20791960 AGAGGCCACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (14 bp):
CTTTTTACCTTTTC
Found at i:20808444 original size:23 final size:23
Alignment explanation
Indices: 20808398--20808445 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
20808388 ACAAACTAGC
* *
20808398 CTCTTTTTTTTATACTTTTGAAA
1 CTCTTTTTTTTATAATTTTCAAA
20808421 CTCTTTTTTTT-TAATATTTCAAA
1 CTCTTTTTTTTATAAT-TTTCAAA
20808444 CT
1 CT
20808446 TTACACTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.23, C:0.15, G:0.02, T:0.60
Consensus pattern (23 bp):
CTCTTTTTTTTATAATTTTCAAA
Found at i:20812837 original size:31 final size:30
Alignment explanation
Indices: 20812800--20812874 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 30
20812790 TCTATATCTT
**
20812800 TTTCTTCCTTTTCATCTTTTTCTTTTCTCTC-
1 TTTCTTCCTTTTC-T-TTGCTCTTTTCTCTCA
20812831 TTTCTTCAC-TTTCTTTGCTCTTTTCTCTCA
1 TTTCTTC-CTTTTCTTTGCTCTTTTCTCTCA
20812861 TTT-TTCC-TTTCTTT
1 TTTCTTCCTTTTCTTT
20812875 TTTTCAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 8 0.20
29 16 0.40
30 4 0.10
31 11 0.28
32 1 0.03
ACGTcount: A:0.04, C:0.28, G:0.01, T:0.67
Consensus pattern (30 bp):
TTTCTTCCTTTTCTTTGCTCTTTTCTCTCA
Found at i:20812855 original size:29 final size:28
Alignment explanation
Indices: 20812820--20812874 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 28
20812810 TTCATCTTTT
20812820 TCTTTTCTCTC-TTTCTTCACTTTCTTTGC
1 TCTTTTCTCTCATTT-TTC-CTTTCTTTGC
20812849 TCTTTTCTCTCATTTTTCCTTTCTTT
1 TCTTTTCTCTCATTTTTCCTTTCTTT
20812875 TTTTCAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 8 0.32
29 14 0.56
30 3 0.12
ACGTcount: A:0.04, C:0.29, G:0.02, T:0.65
Consensus pattern (28 bp):
TCTTTTCTCTCATTTTTCCTTTCTTTGC
Found at i:20812891 original size:20 final size:20
Alignment explanation
Indices: 20812817--20812896 Score: 63
Period size: 20 Copynumber: 3.8 Consensus size: 20
20812807 CTTTTCATCT
20812817 TTTTCTTTTCTCTCTTTCTTC-A
1 TTTTCTTTTCT-T-TTT-TTCAA
* * *
20812839 CTTTCTTTGCTCTTTTCTCTCAT
1 TTTTCTTT--TCTTTT-TTTCAA
*
20812862 TTTTCCTTTCTTTTTTTCAA
1 TTTTCTTTTCTTTTTTTCAA
20812882 TTTTCTTTTCTTTTT
1 TTTTCTTTTCTTTTT
20812897 CATTATCACT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
20 18 0.39
21 6 0.13
22 11 0.24
23 8 0.17
24 3 0.07
ACGTcount: A:0.05, C:0.24, G:0.01, T:0.70
Consensus pattern (20 bp):
TTTTCTTTTCTTTTTTTCAA
Found at i:20820907 original size:39 final size:40
Alignment explanation
Indices: 20820813--20820907 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
20820803 AAGTCACCTC
* * * *
20820813 ATCCAAT-TTCTTACCCCGACCATGTGGCAGATTGAAAACC
1 ATCCAATCTT-TTACCCCAACCATGAGGCAAATTGAAAACA
*
20820853 ATCCAATCTTTTACCCCAACCATGAGGCAAATTG-AAGCA
1 ATCCAATCTTTTACCCCAACCATGAGGCAAATTGAAAACA
20820892 ATCCAATCTTTTACCC
1 ATCCAATCTTTTACCC
20820908 TAATCAAAGG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 19 0.39
40 28 0.57
41 2 0.04
ACGTcount: A:0.32, C:0.31, G:0.12, T:0.26
Consensus pattern (40 bp):
ATCCAATCTTTTACCCCAACCATGAGGCAAATTGAAAACA
Found at i:20826009 original size:40 final size:39
Alignment explanation
Indices: 20825898--20826031 Score: 162
Period size: 39 Copynumber: 3.4 Consensus size: 39
20825888 CATGTAGACC
*
20825898 ATCCAATCTTTTACCCCGATCATGGGGTAGATTGAAGCA
1 ATCCAATCTTTTACCCCGACCATGGGGTAGATTGAAGCA
** * *
20825937 ATCCAATCTTTTACCCTAACCA-GAGAGTAGATTGAAGACC
1 ATCCAATCTTTTACCCCGACCATG-GGGTAGATTGAAG-CA
* * * *
20825977 ATCCGATCTCTTACCCCGACCATGGGGCAGATTAAAGCA
1 ATCCAATCTTTTACCCCGACCATGGGGTAGATTGAAGCA
20826016 ATCCAATCTTTTACCC
1 ATCCAATCTTTTACCC
20826032 TTAAAGCTAT
Statistics
Matches: 77, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
38 1 0.01
39 46 0.60
40 29 0.38
41 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (39 bp):
ATCCAATCTTTTACCCCGACCATGGGGTAGATTGAAGCA
Found at i:20826072 original size:19 final size:21
Alignment explanation
Indices: 20826032--20826072 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
20826022 TCTTTTACCC
20826032 TTAAAGCTATAGAGAGGCAAA
1 TTAAAGCTATAGAGAGGCAAA
20826053 TTAAAGCTATAGA-A-GCAAA
1 TTAAAGCTATAGAGAGGCAAA
20826072 T
1 T
20826073 CCTGTACCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.30
20 1 0.05
21 13 0.65
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.22
Consensus pattern (21 bp):
TTAAAGCTATAGAGAGGCAAA
Found at i:20826613 original size:4 final size:4
Alignment explanation
Indices: 20826604--20826636 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
20826594 TCCACTTTTC
20826604 TTAT TTAT TTAT TTAT TTAT TTAT TTA- TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
20826637 TATGAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:20826755 original size:55 final size:55
Alignment explanation
Indices: 20826648--20826755 Score: 164
Period size: 55 Copynumber: 2.0 Consensus size: 55
20826638 ATGAATATAA
* *
20826648 ATAAATAAATAAATATAAAATAATATTAATTTTGTTTATTTATTATTGTATTAAT
1 ATAAATAAATAAATATAAAATAAAATTAATTTTGTTTATTTATTAGTGTATTAAT
* *
20826703 ATAAATAAATAAATGTAAAATAAAATTAATTTTGTTTTATTTTTTAGT-TATTA
1 ATAAATAAATAAATATAAAATAAAATTAATTTTG-TTTATTTATTAGTGTATTA
20826756 TTTTATGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
55 37 0.77
56 11 0.23
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (55 bp):
ATAAATAAATAAATATAAAATAAAATTAATTTTGTTTATTTATTAGTGTATTAAT
Found at i:20826788 original size:63 final size:61
Alignment explanation
Indices: 20826612--20826789 Score: 218
Period size: 63 Copynumber: 2.9 Consensus size: 61
20826602 TCTTATTTAT
20826612 TTATTTATTTATTTATTTATTATTTTATGAATATAAATAAATAAATAAAT-ATAAAATAATA
1 TTATTTATTT-TTTATTTATTATTTTATGAATATAAATAAATAAATAAATAATAAAATAATA
* * * * * *
20826673 TTAATT-TTGTTTATTTATTATTGTATTAATATAAATAAATAAATGTAA-AATAAAATTAATT
1 TTATTTATTTTTTATTTATTATTTTATGAATATAAATAAATAAAT-AAATAATAAAA-TAATA
* * *
20826734 TTGTTTTATTTTTTAGTTATTATTTTATGAATATAGATAAATAAATAAATAATAAA
1 TT-ATTTATTTTTTATTTATTATTTTATGAATATAAATAAATAAATAAATAATAAA
20826790 CTCAAATTAC
Statistics
Matches: 97, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
59 33 0.34
60 10 0.10
61 11 0.11
62 4 0.04
63 39 0.40
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (61 bp):
TTATTTATTTTTTATTTATTATTTTATGAATATAAATAAATAAATAAATAATAAAATAATA
Found at i:20839799 original size:11 final size:12
Alignment explanation
Indices: 20839779--20839818 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
20839769 AATATTGCTC
20839779 AAAACAAAAAAA
1 AAAACAAAAAAA
20839791 AAAACAAAAAAA
1 AAAACAAAAAAA
*
20839803 ATAAAGAGAAAAAA
1 A-AAACA-AAAAAA
20839817 AA
1 AA
20839819 TTATATCTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 13 0.52
13 5 0.20
14 7 0.28
ACGTcount: A:0.88, C:0.05, G:0.05, T:0.03
Consensus pattern (12 bp):
AAAACAAAAAAA
Found at i:20839814 original size:15 final size:14
Alignment explanation
Indices: 20839779--20839819 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
20839769 AATATTGCTC
20839779 AAAAC-AAAAAAA-
1 AAAACAAAAAAAAT
20839791 AAAACAAAAAAAAT
1 AAAACAAAAAAAAT
*
20839805 AAAGAGAAAAAAAAT
1 AAA-ACAAAAAAAAT
20839820 TATATCTGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 5 0.20
13 7 0.28
14 3 0.12
15 10 0.40
ACGTcount: A:0.85, C:0.05, G:0.05, T:0.05
Consensus pattern (14 bp):
AAAACAAAAAAAAT
Found at i:20840065 original size:21 final size:21
Alignment explanation
Indices: 20840049--20840098 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
20840039 TTTTTTTTGT
20840049 TGTTTTGGTGCTGTTTTTTAC
1 TGTTTTGGTGCTGTTTTTTAC
*
20840070 TGTTTTGGTGTTGTTTTTTTAC
1 TGTTTTGGTGCTG-TTTTTTAC
*
20840092 TGATTTG
1 TGTTTTG
20840099 ATGTTACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.06, C:0.06, G:0.24, T:0.64
Consensus pattern (21 bp):
TGTTTTGGTGCTGTTTTTTAC
Found at i:20840087 original size:22 final size:22
Alignment explanation
Indices: 20840040--20840103 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 22
20840030 ATATTGCTAT
** *
20840040 TTTTTTTGTTGTTTTGGTGCTG
1 TTTTTTTACTGTTTTGGTGTTG
20840062 -TTTTTTACTGTTTTGGTGTTG
1 TTTTTTTACTGTTTTGGTGTTG
* *
20840083 TTTTTTTACTGATTTGATGTT
1 TTTTTTTACTGTTTTGGTGTT
20840104 ACTTTTGTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.06, C:0.05, G:0.22, T:0.67
Consensus pattern (22 bp):
TTTTTTTACTGTTTTGGTGTTG
Found at i:20840109 original size:22 final size:22
Alignment explanation
Indices: 20840062--20840109 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
20840052 TTTGGTGCTG
* * **
20840062 TTTTTTACTGTTTTGGTGTTGT
1 TTTTTTACTGATTTGATGTTAC
20840084 TTTTTTACTGATTTGATGTTAC
1 TTTTTTACTGATTTGATGTTAC
20840106 TTTT
1 TTTT
20840110 GTTGTTGGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.10, C:0.06, G:0.17, T:0.67
Consensus pattern (22 bp):
TTTTTTACTGATTTGATGTTAC
Found at i:20840180 original size:19 final size:18
Alignment explanation
Indices: 20840129--20840181 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
20840119 TTTATTGCTA
20840129 TTTTTGTTGTTGTTTTGT
1 TTTTTGTTGTTGTTTTGT
** *
20840147 TATTTTGCAGCTGTTTTGGT
1 T-TTTTGTTGTTGTTTT-GT
20840167 TTTTTGTTGTTGTTT
1 TTTTTGTTGTTGTTT
20840182 GGATGTTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
18 1 0.04
19 23 0.85
20 3 0.11
ACGTcount: A:0.04, C:0.04, G:0.23, T:0.70
Consensus pattern (18 bp):
TTTTTGTTGTTGTTTTGT
Found at i:20844166 original size:23 final size:21
Alignment explanation
Indices: 20844136--20844304 Score: 133
Period size: 23 Copynumber: 7.4 Consensus size: 21
20844126 ACACTAGCGC
* *
20844136 GCTCTCTGTTTAGCACGTCTCGT
1 GCTCTCTGATTAGCAC-T-TTGT
20844159 GCTCTCTGATTAGCACTATGTGT
1 GCTCTCTGATTAGCACT-T-TGT
20844182 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCAC-TT-TGT
*
20844205 GCTCTCTGATTAGTACTTTGT
1 GCTCTCTGATTAGCACTTTGT
*
20844226 GTACTCTCTGTTTAGCACTGTGTGT
1 G--CTCTCTGATTAGCACT-T-TGT
*
20844251 GCTCTCTGTTGCCTAGCACTTATGT
1 GCTCTCTGAT---TAGCACTT-TGT
*
20844276 GCTCTCTG-TTAGTACTTTGAT
1 GCTCTCTGATTAGCACTTTG-T
*
20844297 ACTCTCTG
1 GCTCTCTG
20844305 TTTGTTCCAT
Statistics
Matches: 127, Mismatches: 9, Indels: 22
0.80 0.06 0.14
Matches are distributed among these distances:
20 2 0.02
21 19 0.15
22 4 0.03
23 76 0.60
24 3 0.02
25 16 0.13
26 7 0.06
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.43
Consensus pattern (21 bp):
GCTCTCTGATTAGCACTTTGT
Found at i:20844195 original size:46 final size:45
Alignment explanation
Indices: 20844136--20844285 Score: 158
Period size: 46 Copynumber: 3.2 Consensus size: 45
20844126 ACACTAGCGC
20844136 GCTCTCTGTTTAGCACGTCTCGTGCTCTCTGATTAGCACTATGTGT
1 GCTCTCTGTTTAGCACGTCT-GTGCTCTCTGATTAGCACTATGTGT
* * * * *
20844182 GCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGTTTAGCAC-GTCTGTGCTCTCTGATTAGCACTATGTGT
* * * *
20844228 ACTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTGCCTAGCACT-TATGT
1 GCTCTCTGTTTAGCAC-GTCTGTGCTCTCTGAT---TAGCACTATGTGT
20844276 GCTCTCTGTT
1 GCTCTCTGTT
20844286 AGTACTTTGA
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
46 67 0.76
47 2 0.02
48 13 0.15
49 6 0.07
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (45 bp):
GCTCTCTGTTTAGCACGTCTGTGCTCTCTGATTAGCACTATGTGT
Found at i:20844250 original size:69 final size:67
Alignment explanation
Indices: 20844160--20844307 Score: 199
Period size: 69 Copynumber: 2.1 Consensus size: 67
20844150 ACGTCTCGTG
* *
20844160 CTCTCTGATTAGCACTATGTGTGCTCTCTGAT-TAGCACTTTGTGTGCTCTCTGATTAGTACTTT
1 CTCTCTGTTTAGCACTATGTGTGCTCTCTGATCTAGCAC-TTATGTGCTCTCTG-TTAGTACTTT
*
20844224 GTGTA
64 G-ATA
* *
20844229 CTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTGCCTAGCACTTATGTGCTCTCTGTTAGTACTTT
1 CTCTCTGTTTAGCACTATGTGTGCTCTCTGAT--CTAGCACTTATGTGCTCTCTGTTAGTACTTT
20844294 GATA
64 GATA
20844298 CTCTCTGTTT
1 CTCTCTGTTT
20844308 GTTCCATATA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
69 41 0.58
70 11 0.15
71 13 0.18
72 6 0.08
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.45
Consensus pattern (67 bp):
CTCTCTGTTTAGCACTATGTGTGCTCTCTGATCTAGCACTTATGTGCTCTCTGTTAGTACTTTGA
TA
Found at i:20845860 original size:21 final size:21
Alignment explanation
Indices: 20845834--20845877 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
20845824 ACTTTGGTCC
* *
20845834 TTCAACTTTTCAACTTTTTAA
1 TTCAACTCTTCAACTTTTGAA
20845855 TTCAACTCTTCAACTTTTGAA
1 TTCAACTCTTCAACTTTTGAA
20845876 TT
1 TT
20845878 TTTATAATTT
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:0.27, C:0.20, G:0.02, T:0.50
Consensus pattern (21 bp):
TTCAACTCTTCAACTTTTGAA
Found at i:20850929 original size:26 final size:27
Alignment explanation
Indices: 20850869--20850929 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
20850859 TAAAATGTGT
20850869 TTTTAAATTCATATATTTTTTTGTATA
1 TTTTAAATTCATATATTTTTTTGTATA
* * *
20850896 TTTGAAATTTA-ATCATTTTTTT-TATG
1 TTTTAAATTCATAT-ATTTTTTTGTATA
20850922 TTTTAAAT
1 TTTTAAAT
20850930 GTACCATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 12 0.41
27 17 0.59
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (27 bp):
TTTTAAATTCATATATTTTTTTGTATA
Found at i:20852248 original size:20 final size:18
Alignment explanation
Indices: 20852201--20852249 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
20852191 ACAAGATAAC
20852201 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
20852218 ATTAAGA-TAATTACTTTAAT
1 ATTAA-ATTAA-TA-TTTAAT
20852238 ATTAAATTAATA
1 ATTAAATTAATA
20852250 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 4 0.15
20 14 0.52
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:20852283 original size:35 final size:35
Alignment explanation
Indices: 20852237--20852305 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
20852227 ATTACTTTAA
*
20852237 TATTAAATTAATA-AAATACTATTAAAATAGTATTC
1 TATTAAATTAATATAAA-ACTATTAAAATAATATTC
* *
20852272 TATTAATTTAATATTAAACTATTAAAATAATATT
1 TATTAAATTAATATAAAACTATTAAAATAATATT
20852306 ATTTTTGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 28 0.93
36 2 0.07
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (35 bp):
TATTAAATTAATATAAAACTATTAAAATAATATTC
Found at i:20859728 original size:20 final size:18
Alignment explanation
Indices: 20859681--20859759 Score: 74
Period size: 17 Copynumber: 4.3 Consensus size: 18
20859671 GTAGGAAAAC
20859681 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
20859698 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
20859718 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
20859737 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
20859754 ATTAAA
1 ATTAAA
20859760 CTATTAAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
17 18 0.36
18 1 0.02
19 15 0.30
20 16 0.32
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:20859762 original size:25 final size:26
Alignment explanation
Indices: 20859681--20859767 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 26
20859671 GTAGGAAAAC
*
20859681 ATTAAATTAAATTTAATATTAAGATAAT
1 ATTAAATTAAATTTAATATT-A-ATACT
*
20859709 CACTTTAATATTAAA-TTAATA-AAATACT
1 -A--TTAA-ATTAAATTTAATATTAATACT
20859737 ATTAAATTAAATTTAATATTAA-ACT
1 ATTAAATTAAATTTAATATTAATACT
20859762 ATTAAA
1 ATTAAA
20859768 ATAATATTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
24 6 0.12
25 19 0.38
26 2 0.04
27 1 0.02
28 4 0.08
29 2 0.04
31 10 0.20
32 6 0.12
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (26 bp):
ATTAAATTAAATTTAATATTAATACT
Found at i:20859765 original size:20 final size:19
Alignment explanation
Indices: 20859686--20859776 Score: 64
Period size: 20 Copynumber: 4.8 Consensus size: 19
20859676 AAAACATTAA
20859686 ATTAAATTTAATATTAAGAT
1 ATTAAATTTAATATTAA-AT
* * *
20859706 AATCACTTTAATATTAAATT
1 ATTAAATTTAATATTAAA-T
* * *
20859726 AATAAA-ATACTATT-AA-
1 ATTAAATTTAATATTAAAT
20859742 ATTAAATTTAATATTAAACT
1 ATTAAATTTAATATTAAA-T
*
20859762 ATTAAA-ATAATATTA
1 ATTAAATTTAATATTA
20859777 TTTTTGGAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
16 5 0.09
17 6 0.11
18 4 0.07
19 15 0.27
20 25 0.45
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (19 bp):
ATTAAATTTAATATTAAAT
Found at i:20859774 original size:19 final size:18
Alignment explanation
Indices: 20859714--20859776 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
20859704 ATAATCACTT
*
20859714 TAATATTAAATTAATAAAA
1 TAATATTAAA-TATTAAAA
* *
20859733 TACTATT-AA-ATTAAATT
1 TAATATTAAATATTAAA-A
20859750 TAATATTAAACTATTAAAA
1 TAATATTAAA-TATTAAAA
20859769 TAATATTA
1 TAATATTA
20859777 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 5 0.14
17 6 0.17
18 4 0.11
19 14 0.40
20 6 0.17
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
TAATATTAAATATTAAAA
Found at i:20872461 original size:20 final size:21
Alignment explanation
Indices: 20872423--20872462 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20872413 TAAACCAAGC
*
20872423 ATCACTGAGTTAGAAAATGCA
1 ATCACTAAGTTAGAAAATGCA
20872444 ATCACTAAGTTA-AAAATGC
1 ATCACTAAGTTAGAAAATGC
20872463 TAAAAATGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (21 bp):
ATCACTAAGTTAGAAAATGCA
Found at i:20874855 original size:5 final size:5
Alignment explanation
Indices: 20874847--20874877 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
20874837 TCTGTGCTAT
20874847 TTTTG TTTT- TTTTG TTTTG TTTTG TTTTG TT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TT
20874878 GTACCACCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (5 bp):
TTTTG
Found at i:20880423 original size:28 final size:28
Alignment explanation
Indices: 20880391--20880581 Score: 138
Period size: 28 Copynumber: 6.8 Consensus size: 28
20880381 CATTTCCGAA
* * *
20880391 AAAGTGAGCCTTTGTGGTTGATTTTTTT
1 AAAGTGAGCCTTTGTGGCTAATTTTATT
* * ** * *
20880419 AAAGTTAGTCTTTGTGATTGATTCTATT
1 AAAGTGAGCCTTTGTGGCTAATTTTATT
* * * *
20880447 AAA-TGAAGACTTTGTGACTAATTCTGTT
1 AAAGTG-AGCCTTTGTGGCTAATTTTATT
* *
20880475 AAAGTGAGCTTTTGTAGCTAATTTTGA-T
1 AAAGTGAGCCTTTGTGGCTAATTTT-ATT
*
20880503 AAA-TGAAGTCTTTGTGGCTAATTTTATT
1 AAAGTG-AGCCTTTGTGGCTAATTTTATT
* *
20880531 AAAGTGAGCCTTTGTGGCTAATTATGTT
1 AAAGTGAGCCTTTGTGGCTAATTTTATT
* *
20880559 AAA-TGGAGCCTTTATGTCTAATT
1 AAAGT-GAGCCTTTGTGGCTAATT
20880582 CTAATAATAG
Statistics
Matches: 132, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
27 5 0.04
28 123 0.93
29 4 0.03
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (28 bp):
AAAGTGAGCCTTTGTGGCTAATTTTATT
Found at i:20880489 original size:56 final size:57
Alignment explanation
Indices: 20880446--20880584 Score: 156
Period size: 56 Copynumber: 2.5 Consensus size: 57
20880436 TTGATTCTAT
* * *
20880446 TAAATGAAGACTTTGTGACTAATTCTGTTAAAGTGAGCTTTTGT-AGCTAATTTTGA
1 TAAATGAAGACTTTGTGACTAATTCTATTAAAGTGAGCCTTTGTGAGCTAATTCTGA
* * * * *
20880502 TAAATGAAGTCTTTGTGGCTAATTTTATTAAAGTGAGCCTTTGTG-GCTAATTATGT
1 TAAATGAAGACTTTGTGACTAATTCTATTAAAGTGAGCCTTTGTGAGCTAATTCTGA
* * * *
20880558 TAAATGGAGCCTTTATGTCTAATTCTA
1 TAAATGAAGACTTTGTGACTAATTCTA
20880585 ATAATAGAGC
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
56 70 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (57 bp):
TAAATGAAGACTTTGTGACTAATTCTATTAAAGTGAGCCTTTGTGAGCTAATTCTGA
Found at i:20880709 original size:28 final size:27
Alignment explanation
Indices: 20880661--20880779 Score: 80
Period size: 28 Copynumber: 4.3 Consensus size: 27
20880651 TGGAAAATTT
* *
20880661 GATGCCTTTGT-GACTAGCTTTGTTTGAG
1 GATGCCTTTATGGA-TATCTTTG-TTGAG
20880689 GATGCCTTTATGGATATCTTTGCTT-ATG
1 GATGCCTTTATGGATATCTTTG-TTGA-G
* ** * *
20880717 AACACCTCTATGGCTATCTTTGTTGAG
1 GATGCCTTTATGGATATCTTTGTTGAG
* * * * *
20880744 GACGCCTTTGTGGTTATCTTTGCTAAG
1 GATGCCTTTATGGATATCTTTGTTGAG
20880771 GATGCCTTT
1 GATGCCTTT
20880780 GTAGCTATCT
Statistics
Matches: 72, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
27 32 0.44
28 38 0.53
29 2 0.03
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.42
Consensus pattern (27 bp):
GATGCCTTTATGGATATCTTTGTTGAG
Found at i:20880765 original size:27 final size:28
Alignment explanation
Indices: 20880664--20880789 Score: 96
Period size: 27 Copynumber: 4.6 Consensus size: 28
20880654 AAAATTTGAT
* * * *
20880664 GCCTTTGTGACTAGCTTTGTTTGAGGAT
1 GCCTTTGTGGCTATCTTTGCTTGAGGAC
* * *
20880692 GCCTTTATGGATATCTTTGCTT-ATGAAC
1 GCCTTTGTGGCTATCTTTGCTTGA-GGAC
* * *
20880720 ACCTCTATGGCTATCTTTG-TTGAGGAC
1 GCCTTTGTGGCTATCTTTGCTTGAGGAC
* * *
20880747 GCCTTTGTGGTTATCTTTGC-TAAGGAT
1 GCCTTTGTGGCTATCTTTGCTTGAGGAC
*
20880774 GCCTTTGTAGCTATCT
1 GCCTTTGTGGCTATCT
20880790 ATGTTAAAAG
Statistics
Matches: 76, Mismatches: 19, Indels: 7
0.75 0.19 0.07
Matches are distributed among these distances:
27 40 0.53
28 36 0.47
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (28 bp):
GCCTTTGTGGCTATCTTTGCTTGAGGAC
Found at i:20880837 original size:29 final size:28
Alignment explanation
Indices: 20880748--20880835 Score: 72
Period size: 29 Copynumber: 3.1 Consensus size: 28
20880738 GTTGAGGACG
* * *
20880748 CCTTTGTGGTTATCTTTGCTAAGGA-TG
1 CCTTTGTGGCTATCTTTGCTAAGAAGTA
* * * *
20880775 CCTTTGTAGCTATCTATGTTAA-AAGAAA
1 CCTTTGTGGCTATCTTTGCTAAGAAG-TA
*
20880803 ACTTCTGTGGCTATCTTTGCTAAGAAGTA
1 CCTT-TGTGGCTATCTTTGCTAAGAAGTA
20880832 CCTT
1 CCTT
20880836 CTTGGTGAAA
Statistics
Matches: 44, Mismatches: 13, Indels: 6
0.70 0.21 0.10
Matches are distributed among these distances:
26 1 0.02
27 18 0.41
28 3 0.07
29 19 0.43
30 3 0.07
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (28 bp):
CCTTTGTGGCTATCTTTGCTAAGAAGTA
Found at i:20882458 original size:13 final size:14
Alignment explanation
Indices: 20882429--20882458 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20882419 TTAAGTATAT
20882429 TGACATTTAACCTC
1 TGACATTTAACCTC
20882443 TGACATTTAA-CTC
1 TGACATTTAACCTC
20882456 TGA
1 TGA
20882459 TTGCATTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (14 bp):
TGACATTTAACCTC
Found at i:20888478 original size:28 final size:28
Alignment explanation
Indices: 20888438--20888494 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
20888428 TACAATTTGC
20888438 AGCTTGCTAATTAATGACTGCAGACACA
1 AGCTTGCTAATTAATGACTGCAGACACA
20888466 AGCTTGCTAATTAATGACTGCAGACACA
1 AGCTTGCTAATTAATGACTGCAGACACA
20888494 A
1 A
20888495 TGTTTCCCCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (28 bp):
AGCTTGCTAATTAATGACTGCAGACACA
Found at i:20901446 original size:3 final size:3
Alignment explanation
Indices: 20901438--20901466 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
20901428 AAGGAAGATG
20901438 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
20901467 AGGTTTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:20902188 original size:19 final size:18
Alignment explanation
Indices: 20902139--20902191 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
20902129 TAAAAATAAT
*
20902139 TATTTAAATTTCAAAA-A
1 TATTTAAATTTTAAAATA
**
20902156 TATTTAAAAATTAAAATA
1 TATTTAAATTTTAAAATA
20902174 TCATTTAAATTTTAAAAT
1 T-ATTTAAATTTTAAAAT
20902192 TATAAAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 13 0.45
18 2 0.07
19 14 0.48
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (18 bp):
TATTTAAATTTTAAAATA
Found at i:20910978 original size:31 final size:30
Alignment explanation
Indices: 20910941--20911020 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
20910931 TTTTTTGATC
*
20910941 TAATTTGGTACTCAAACTTAACACTTTTTCT
1 TAATTTGATACTCAAACTTAACACTTTTT-T
*
20910972 TAATTTGATAC-CTAAACTTGACACTTTTTT
1 TAATTTGATACTC-AAACTTAACACTTTTTT
* *
20911002 TAAGTTGATACTTAAACTT
1 TAATTTGATACTCAAACTT
20911021 TTTGGATCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
30 18 0.42
31 25 0.58
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.45
Consensus pattern (30 bp):
TAATTTGATACTCAAACTTAACACTTTTTT
Found at i:20911012 original size:30 final size:31
Alignment explanation
Indices: 20910954--20911020 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
20910944 TTTGGTACTC
*
20910954 AAACTTAACACTTTTTCTTAATTTGATACCT
1 AAACTTAACACTTTTTCTTAAGTTGATACCT
* *
20910985 AAACTTGACACTTTTT-TTAAGTTGATACTT
1 AAACTTAACACTTTTTCTTAAGTTGATACCT
20911015 AAACTT
1 AAACTT
20911021 TTTGGATCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 18 0.55
31 15 0.45
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (31 bp):
AAACTTAACACTTTTTCTTAAGTTGATACCT
Found at i:20911064 original size:88 final size:90
Alignment explanation
Indices: 20910899--20911074 Score: 214
Period size: 88 Copynumber: 2.0 Consensus size: 90
20910889 GTATCTGAAT
* * * *
20910899 TTGACACATTTTCTTAATTTGATACCTAAACTTTTTTTGATCTAATTTGGTACTCAAACTTAACA
1 TTGACACATTTTCTTAAGTTGATACCTAAACTTTTTTGGATCCAATTTGATACTCAAACTTAACA
* *
20910964 CTTTTTCTTAATTTGATACCTAAAC
66 CTATTTCCTAATTTGATACCTAAAC
* * * *
20910989 TTGACAC-TTTTTTTAAGTTGATACTTAAAC-TTTTTGGATCCAATTTGATAC-CTGAACTTGAC
1 TTGACACATTTTCTTAAGTTGATACCTAAACTTTTTTGGATCCAATTTGATACTC-AAACTTAAC
* *
20911051 TCTATTTCCTAATTTGGTACCTAA
65 ACTATTTCCTAATTTGATACCTAA
20911075 TCTTTTTTTA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
87 1 0.01
88 45 0.62
89 20 0.27
90 7 0.10
ACGTcount: A:0.28, C:0.18, G:0.09, T:0.45
Consensus pattern (90 bp):
TTGACACATTTTCTTAAGTTGATACCTAAACTTTTTTGGATCCAATTTGATACTCAAACTTAACA
CTATTTCCTAATTTGATACCTAAAC
Found at i:20911401 original size:58 final size:59
Alignment explanation
Indices: 20911217--20911406 Score: 197
Period size: 59 Copynumber: 3.2 Consensus size: 59
20911207 AATATTTAAT
* * *
20911217 AAATTT-AGTACCAAATTGAATCTAAAAAAAAGTTTAGGTACCAAATTAGGAAAAAA-TGTC
1 AAATTTAAGTACCAAATTG-GTTTAAAAAAAA-TTTAGGTACCAAATTA-GAAAAAATTATC
* * * ** * *
20911277 AAGTTCAAGTACCAAATTGGGTCCAAAAAAGTTTAGGTACCAAATTAGAAGAAATTATC
1 AAATTTAAGTACCAAATTGGTTTAAAAAAAATTTAGGTACCAAATTAGAAAAAATTATC
* * * *
20911336 AAGTTTAAGCACCAAATTGGTTTAAAAAAAAATTAGATACCAAATTA-AAAAAATTATC
1 AAATTTAAGTACCAAATTGGTTTAAAAAAAATTTAGGTACCAAATTAGAAAAAATTATC
*
20911394 AAATTTAAATACC
1 AAATTTAAGTACC
20911407 GAATATTATA
Statistics
Matches: 106, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
58 26 0.25
59 58 0.55
60 10 0.09
61 12 0.11
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (59 bp):
AAATTTAAGTACCAAATTGGTTTAAAAAAAATTTAGGTACCAAATTAGAAAAAATTATC
Found at i:20913498 original size:7 final size:8
Alignment explanation
Indices: 20913480--20913505 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
20913470 AGATACCCTT
20913480 AAAAGCCA
1 AAAAGCCA
20913488 AAAAGCCA
1 AAAAGCCA
20913496 AAAAGCCA
1 AAAAGCCA
20913504 AA
1 AA
20913506 GAACTGTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.23, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAGCCA
Found at i:20916455 original size:61 final size:60
Alignment explanation
Indices: 20916382--20916525 Score: 168
Period size: 61 Copynumber: 2.4 Consensus size: 60
20916372 AACTTGATAG
* * * * * *
20916382 TTTTTTTTAATTTGGTACCTAAATATTTTTTGGACCTAATTT-AGTAC-TTAATCTT-GACACT
1 TTTTTTTTAATTTGGTACCTAAAAACTTTTTAGACCCAATTTGA-CACGTGAA-CTTCG-CA-T
20916443 TTTTTTTTAATTTGGTACCTAAAAACTTTTTAGACCCAATTTGACACGTGAACTTCGCAT
1 TTTTTTTTAATTTGGTACCTAAAAACTTTTTAGACCCAATTTGACACGTGAACTTCGCAT
20916503 TTTTTTCTTAATTTGGTACCTAA
1 TTTTTT-TTAATTTGGTACCTAA
20916526 GCTTTTTTTA
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
60 7 0.10
61 61 0.84
62 5 0.07
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.48
Consensus pattern (60 bp):
TTTTTTTTAATTTGGTACCTAAAAACTTTTTAGACCCAATTTGACACGTGAACTTCGCAT
Found at i:20916792 original size:31 final size:31
Alignment explanation
Indices: 20916755--20916834 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
20916745 GGATCCCACA
*
20916755 AAGTTTAAGTACCAACTTAAAAAA-AGGTGTC
1 AAGTTTAAGTACCAAATTAAAAAAGA-GTGTC
* **
20916786 AAGTTTAGGTACCAAATTAGGAAAGAGTGTC
1 AAGTTTAAGTACCAAATTAAAAAAGAGTGTC
* *
20916817 AAGTTTGAGTATCAAATT
1 AAGTTTAAGTACCAAATT
20916835 GGATAAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 40 0.98
32 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAAAAAAGAGTGTC
Found at i:20919290 original size:14 final size:14
Alignment explanation
Indices: 20919271--20919304 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
20919261 GTTTCTTAAA
20919271 TATTTGTTTTTACT
1 TATTTGTTTTTACT
20919285 TATTTGTTTTTACT
1 TATTTGTTTTTACT
*
20919299 TGTTTG
1 TATTTG
20919305 GATATGTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.71
Consensus pattern (14 bp):
TATTTGTTTTTACT
Found at i:20923184 original size:18 final size:18
Alignment explanation
Indices: 20923161--20923203 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
20923151 GAATAAATTT
20923161 TTAATTAAATAA-ATTAAA
1 TTAATTAAA-AATATTAAA
*
20923179 TTAATTAAAAATTTTAAA
1 TTAATTAAAAATATTAAA
20923197 TTAATTA
1 TTAATTA
20923204 CAACTGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTAAAAATATTAAA
Found at i:20926453 original size:64 final size:64
Alignment explanation
Indices: 20926352--20926482 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 64
20926342 CATGTAGCAA
*
20926352 TTGTTTACACTAAAAGGATGTTTGATACCATGGGAAGTTTCAACTTTTCAATATATTTAATTGG
1 TTGTTTACACTAAAAGGATATTTGATACCATGGGAAGTTTCAACTTTTCAATATATTTAATTGG
* * **
20926416 TTGTTTACATTAAGAGGATATTTGATAGTATGGGAAGTTTCAACTTTTCAATATATTTAATTGG
1 TTGTTTACACTAAAAGGATATTTGATACCATGGGAAGTTTCAACTTTTCAATATATTTAATTGG
20926480 TTG
1 TTG
20926483 AAATGTGATT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (64 bp):
TTGTTTACACTAAAAGGATATTTGATACCATGGGAAGTTTCAACTTTTCAATATATTTAATTGG
Found at i:20927729 original size:31 final size:30
Alignment explanation
Indices: 20927694--20927770 Score: 73
Period size: 31 Copynumber: 2.5 Consensus size: 30
20927684 TATGTTAATA
20927694 TTATTTTAGAGTAATTATACATATGAAAAAT
1 TTATTTTAGAGTAATTATACATAT-AAAAAT
* ** * * * *
20927725 TTATTGTAGTTTAAATGTATATATAAAATT
1 TTATTTTAGAGTAATTATACATATAAAAAT
20927755 TTGATTTTAGAGTAAT
1 TT-ATTTTAGAGTAAT
20927771 ACATCAATTT
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
30 7 0.21
31 27 0.79
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (30 bp):
TTATTTTAGAGTAATTATACATATAAAAAT
Found at i:20928112 original size:6 final size:6
Alignment explanation
Indices: 20928101--20928208 Score: 96
Period size: 6 Copynumber: 17.3 Consensus size: 6
20928091 AATTAAATTG
*
20928101 ATTTAA ATTTAA ATTT-- TTCTTAA ATTTAA ATTTAAA TATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTT-AA -ATTTAA ATTTAA
**
20928150 GGATTTAA ATTTAAA TATTTAA ATTT-A CCTTAA ATTTAA ATTTAA ATTTAA
1 --ATTTAA ATTT-AA -ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
*
20928201 ATTAAA AT
1 ATTTAA AT
20928209 ACTAAATTCA
Statistics
Matches: 85, Mismatches: 7, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
4 1 0.01
5 5 0.06
6 56 0.66
7 9 0.11
8 14 0.16
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (6 bp):
ATTTAA
Found at i:20928129 original size:23 final size:22
Alignment explanation
Indices: 20928101--20928203 Score: 90
Period size: 23 Copynumber: 4.7 Consensus size: 22
20928091 AATTAAATTG
*
20928101 ATTTAAATTTAAATTTTTCTTAA
1 ATTTAAATTTAAATTTAT-TTAA
20928124 ATTTAAATTTAAA--TATTTAA
1 ATTTAAATTTAAATTTATTTAA
20928144 ATTTAAGGATTTAAATTTA---AA
1 ATTTAA--ATTTAAATTTATTTAA
** *
20928165 TATTTAAATTTACCTTAAATTTAA
1 -ATTTAAATTTAAATT-TATTTAA
20928189 ATTTAAATTTAAATT
1 ATTTAAATTTAAATT
20928204 AAAATACTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
20 17 0.26
21 5 0.08
22 13 0.20
23 26 0.40
24 4 0.06
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTTAAATTTAAATTTATTTAA
Found at i:20928143 original size:14 final size:14
Alignment explanation
Indices: 20928124--20928176 Score: 88
Period size: 14 Copynumber: 3.8 Consensus size: 14
20928114 TTTTTCTTAA
20928124 ATTTAAATTTAAAT
1 ATTTAAATTTAAAT
**
20928138 ATTTAAATTTAAGG
1 ATTTAAATTTAAAT
20928152 ATTTAAATTTAAAT
1 ATTTAAATTTAAAT
20928166 ATTTAAATTTA
1 ATTTAAATTTA
20928177 CCTTAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (14 bp):
ATTTAAATTTAAAT
Found at i:20928983 original size:22 final size:19
Alignment explanation
Indices: 20928953--20928996 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
20928943 AAATGCTTTG
20928953 ATATCAATATTCAATATTAATA
1 ATATCAATATT---TATTAATA
*
20928975 ATATTAATATTTATTAATA
1 ATATCAATATTTATTAATA
20928994 ATA
1 ATA
20928997 AATTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 11 0.52
22 10 0.48
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATCAATATTTATTAATA
Found at i:20930337 original size:29 final size:29
Alignment explanation
Indices: 20930267--20930397 Score: 90
Period size: 29 Copynumber: 4.5 Consensus size: 29
20930257 AAATTTTAGG
* * *
20930267 AAATTACATTCTGA-CCCCGAAACTTCCAA
1 AAATTACATTTTTACCCCCG-AACTTCCCA
20930296 AAATTACCA-TTTTACCCCCGAACTTCCCA
1 AAATTA-CATTTTTACCCCCGAACTTCCCA
* * * *
20930325 AAATTGCATTTTTAACCCTG-ATTTCACCTA
1 AAATTACATTTTTACCCCCGAACTTC-CC-A
**
20930355 AAATTAC-TATTTTACCCTTGAACTTCCCA
1 AAATTACAT-TTTTACCCCCGAACTTCCCA
**
20930384 AAATTTTATTTTTA
1 AAATTACATTTTTA
20930398 ACCAAAATTA
Statistics
Matches: 81, Mismatches: 13, Indels: 16
0.74 0.12 0.15
Matches are distributed among these distances:
28 6 0.07
29 45 0.56
30 26 0.32
31 4 0.05
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.36
Consensus pattern (29 bp):
AAATTACATTTTTACCCCCGAACTTCCCA
Found at i:20942659 original size:76 final size:76
Alignment explanation
Indices: 20942533--20943300 Score: 1137
Period size: 76 Copynumber: 10.1 Consensus size: 76
20942523 ATCAGACCGC
* * *
20942533 AGCAAGATCATTTCATATCCTCTTGAAGTTGAAGTAGAGTTGGATAACGAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
20942598 ATTGAAGTAAG
66 ATTGAAGTAAG
* * *
20942609 AGCAAGATCA-TGCCATATCCTCTTGAAATTGAAGTAGAGTTGGATAACGAGTCGTTATCTCTGA
1 AGCAAGATCATTTCC-TATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
*
20942673 AATTTAAGTAAG
65 AATTGAAGTAAG
* * * *
20942685 AGCAATATCATTTCCTATCCTCTTGAAAGTGAAGTAGAGATGGATAACAAGTCTTTATCTCCGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
20942750 ATTGAAGTAAG
66 ATTGAAGTAAG
* *
20942761 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGATGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
20942826 ATTGAAGTAAG
66 ATTGAAGTAAG
* *
20942837 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
20942902 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * * *
20942913 AGCAAGATCATTCCCTATCCTCTTGAAATTGAAGTAGAGTTGGACAGCAAGTCGTTATCTCTAAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
20942978 ATTGAAGTAAG
66 ATTGAAGTAAG
* * *
20942989 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTAAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
*
20943054 ATTGGAGTAAG
66 ATTGAAGTAAG
* * * * *
20943065 AGCAAGATCATTCCCTATCCGCTTGAAATTGAAGTAGAGTTGGACAGCAAGTCGTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
20943130 ATTGAAGTAAG
66 ATTGAAGTAAG
* *
20943141 AGCAACATCGTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
*
20943206 AATGAAGTAAG
66 ATTGAAGTAAG
* * ** * *
20943217 AGCAAGATCATTTCTTTAT-CTCTTGAAATTGAAGTAAAGCCGGGA-ATCAAGCCTTTATCTCTG
1 AGCAAGATCATTTC-CTATCCTCTTGAAATTGAAGTAGAG-TTGGATAACAAGTCTTTATCTCTG
*
20943280 AAATTGAAATAAG
64 AAATTGAAGTAAG
20943293 AGCAAGAT
1 AGCAAGAT
20943301 GAAGCCTCGA
Statistics
Matches: 629, Mismatches: 59, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
75 2 0.00
76 618 0.98
77 9 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (76 bp):
AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
ATTGAAGTAAG
Found at i:20943593 original size:6 final size:6
Alignment explanation
Indices: 20943582--20943669 Score: 74
Period size: 6 Copynumber: 14.5 Consensus size: 6
20943572 AATTAAATTG
*
20943582 ATTTAA ATTTAA ATTT-- ATCTTAA ATTTAA GTTTAA TTATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA --ATTTAA ATTTAA
** * *
20943630 CCTTAA ATTTAA ATTTAA ATTAAA ATTAAA ATATTAA ATT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT-TTAA ATT
20943670 CAAACATTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
4 2 0.03
5 5 0.07
6 48 0.72
7 7 0.10
8 5 0.07
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (6 bp):
ATTTAA
Found at i:20943606 original size:17 final size:17
Alignment explanation
Indices: 20943574--20943646 Score: 82
Period size: 17 Copynumber: 4.5 Consensus size: 17
20943564 TAATTTAGAA
*
20943574 TTAAATTGAT-TTAAAT
1 TTAAATTTATCTTAAAT
20943590 TTAAATTTATCTTAAAT
1 TTAAATTTATCTTAAAT
* *
20943607 TTAAGTTTA-ATT--AT
1 TTAAATTTATCTTAAAT
*
20943621 TTAAATTTACCTTAAAT
1 TTAAATTTATCTTAAAT
20943638 TTAAATTTA
1 TTAAATTTA
20943647 AATTAAAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
14 10 0.21
15 2 0.04
16 11 0.23
17 25 0.52
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (17 bp):
TTAAATTTATCTTAAAT
Found at i:20943626 original size:31 final size:31
Alignment explanation
Indices: 20943588--20943647 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
20943578 ATTGATTTAA
* *
20943588 ATTTAAATTTATCTTAAATTTAAGTTTAATT
1 ATTTAAATTTACCTTAAATTTAAATTTAATT
20943619 ATTTAAATTTACCTTAAATTTAAATTTAA
1 ATTTAAATTTACCTTAAATTTAAATTTAA
20943648 ATTAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (31 bp):
ATTTAAATTTACCTTAAATTTAAATTTAATT
Found at i:20943652 original size:11 final size:11
Alignment explanation
Indices: 20943582--20943669 Score: 54
Period size: 11 Copynumber: 7.8 Consensus size: 11
20943572 AATTAAATTG
20943582 ATTTAAATTTAA
1 ATTTAAA-TTAA
**
20943594 ATTTATCTTAA
1 ATTTAAATTAA
* *
20943605 ATTTAAGTTTA
1 ATTTAAATTAA
*
20943616 A-TT-ATTTAA
1 ATTTAAATTAA
**
20943625 ATTTACCTTAA
1 ATTTAAATTAA
20943636 ATTTAAATTTAA
1 ATTTAAA-TTAA
*
20943648 ATTAAAATTAAA
1 ATTTAAATT-AA
20943660 ATATTAAATT
1 AT-TTAAATT
20943670 CAAACATTAA
Statistics
Matches: 58, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
9 5 0.09
10 4 0.07
11 24 0.41
12 19 0.33
13 6 0.10
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (11 bp):
ATTTAAATTAA
Found at i:20944429 original size:16 final size:16
Alignment explanation
Indices: 20944408--20944443 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
20944398 TTTTGATATC
20944408 AATATTCAATA-TTAAT
1 AATATT-AATATTTAAT
20944424 AATATTAATATTTAAT
1 AATATTAATATTTAAT
20944440 AATA
1 AATA
20944444 ATAAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
AATATTAATATTTAAT
Found at i:20944433 original size:22 final size:22
Alignment explanation
Indices: 20944403--20944452 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
20944393 AAATGTTTTG
* *
20944403 ATATCAATATTCAATATTAATA
1 ATATTAATATTCAATAATAATA
*
20944425 ATATTAATATTTAATAATAATA
1 ATATTAATATTCAATAATAATA
20944447 A-ATTAA
1 ATATTAA
20944453 AAAAGCACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATTAATATTCAATAATAATA
Found at i:20945794 original size:59 final size:58
Alignment explanation
Indices: 20945741--20946120 Score: 548
Period size: 59 Copynumber: 6.5 Consensus size: 58
20945731 ACCCCGAAAC
20945741 TTCA-AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGAT
1 TTCACAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGAT
* * * *
20945798 TTCACCTAAAATTACCATTTTACCCTCGAACTTCCCAAAATTCAATTTTTAACCCC-AGT
1 TTCA-CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGA-T
* * * * *
20945857 TTCACCAAAAATTACCAATTTACCCTCAAACTTCCCAAAATTCCATTTTTAACCCCTAT
1 TTCA-CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGAT
* *
20945916 TGCACAAAAATTTACCATTTTACCCCTCGAACTTTCCAAAATTCTATTTTTAACCCCGAT
1 TTCACAAAAA-TTACCATTTTACCCC-CGAACTTTCCAAAATTCCATTTTTAACCCCGAT
*
20945976 TTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGAT
1 TTCA-CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGAT
* *
20946035 TTCATCAAAAATTACTATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGAT
1 TTCA-CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGAT
*
20946094 TTCACCAAAATTACCATTTTACCCCCG
1 TTCACAAAAATTACCATTTTACCCCCG
20946121 GGTATCCAAA
Statistics
Matches: 291, Mismatches: 25, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
57 4 0.01
58 27 0.09
59 206 0.71
60 48 0.16
61 6 0.02
ACGTcount: A:0.33, C:0.31, G:0.03, T:0.34
Consensus pattern (58 bp):
TTCACAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGAT
Found at i:20945989 original size:178 final size:176
Alignment explanation
Indices: 20945745--20946120 Score: 592
Period size: 178 Copynumber: 2.1 Consensus size: 176
20945735 CGAAACTTCA
*
20945745 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCTAAAAT
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
* *
20945810 TACCATTTTACCCTCGAACTTCCCAAAATTCAATTTTTAACCCC-AGTTTCACCAAAAATTACCA
66 TACCATTTTACCCCCAAACTTCCCAAAATTCAATTTTTAACCCCGA-TTTCACCAAAAATTACCA
*
20945874 ATTTACCCTCAAACTTCCCAAAATTCCATTTTTAACCCCTATTGCAC
130 ATTTACCCTCAAACTTCCCAAAATTCCATTTTTAACCCCGATTGCAC
*
20945921 AAAAATTTACCATTTTACCCCTCGAACTTTCCAAAATTCTATTTTTAACCCCGATTTCACCAAAA
1 AAAAA-TTACCATTTTACCCC-CGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
* * * *
20945986 ATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAATTACT
64 ATTACCATTTTACCCCCAAACTTCCCAAAATTCAATTTTTAACCCCGATTTCACCAAAAATTACC
* * * *
20946051 ATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
129 AATTTACCCTCAAACTTCCCAAAATTCCATTTTTAACCCCGATTGCAC
*
20946099 CAAAATTACCATTTTACCCCCG
1 AAAAATTACCATTTTACCCCCG
20946121 GGTATCCAAA
Statistics
Matches: 183, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
176 7 0.04
177 30 0.16
178 145 0.79
179 1 0.01
ACGTcount: A:0.33, C:0.31, G:0.03, T:0.34
Consensus pattern (176 bp):
AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
TACCATTTTACCCCCAAACTTCCCAAAATTCAATTTTTAACCCCGATTTCACCAAAAATTACCAA
TTTACCCTCAAACTTCCCAAAATTCCATTTTTAACCCCGATTGCAC
Found at i:20954803 original size:49 final size:49
Alignment explanation
Indices: 20954743--20954839 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 49
20954733 GACCAAGAGC
* ** * *
20954743 TAGCACGACAATATCATCTTGTGTCGATAATTTAATCTTGGTCAGTTAA
1 TAGCACAACAATATCATCTTGCATCAATAATTTAATCTTGATCAGTTAA
*
20954792 TAGCACAACAATATCATCTTGCATTAATAATTTAATCTTGATCAGTTA
1 TAGCACAACAATATCATCTTGCATCAATAATTTAATCTTGATCAGTTA
20954840 GTACTTTTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.37
Consensus pattern (49 bp):
TAGCACAACAATATCATCTTGCATCAATAATTTAATCTTGATCAGTTAA
Found at i:20955103 original size:14 final size:14
Alignment explanation
Indices: 20955080--20955117 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
20955070 CATTTTTTCA
20955080 TTTCCTTTTATCT-
1 TTTCCTTTTATCTG
*
20955093 TTTCACTTTTATTTG
1 TTTC-CTTTTATCTG
20955108 TTTCCTTTTA
1 TTTCCTTTTA
20955118 AATTCTATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.11, C:0.18, G:0.03, T:0.68
Consensus pattern (14 bp):
TTTCCTTTTATCTG
Found at i:20955954 original size:16 final size:17
Alignment explanation
Indices: 20955933--20955964 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
20955923 ATTTTTGGAA
20955933 GAGCTGACTA-ATGATT
1 GAGCTGACTAGATGATT
20955949 GAGCTGACTAGATGAT
1 GAGCTGACTAGATGAT
20955965 GAGAGACCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (17 bp):
GAGCTGACTAGATGATT
Found at i:20957492 original size:17 final size:18
Alignment explanation
Indices: 20957458--20957496 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
20957448 TTTTATTTTG
20957458 TTGTCATTGCATTTTCAT
1 TTGTCATTGCATTTTCAT
*
20957476 TTGTCATTGTA-TTTCAT
1 TTGTCATTGCATTTTCAT
20957493 TTGT
1 TTGT
20957497 TAGTACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.59
Consensus pattern (18 bp):
TTGTCATTGCATTTTCAT
Found at i:20958094 original size:10 final size:10
Alignment explanation
Indices: 20958081--20958127 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
20958071 AAAAATTCAC
20958081 AAAAAGAAAG
1 AAAAAGAAAG
20958091 AAAAAGAAAG
1 AAAAAGAAAG
*
20958101 AAGAAGAAA-
1 AAAAAGAAAG
20958110 AGAAAA-AAAG
1 A-AAAAGAAAG
20958120 -AAAAGAAA
1 AAAAAGAAA
20958128 TATATTGCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
8 4 0.12
9 7 0.22
10 21 0.66
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:20958111 original size:21 final size:18
Alignment explanation
Indices: 20958082--20958127 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
20958072 AAAATTCACA
20958082 AAAAG-AAAGAAAAAGAAAG
1 AAAAGAAAAG-AAAA-AAAG
20958101 AAGAAGAAAAGAAAAAAAG
1 AA-AAGAAAAGAAAAAAAG
20958120 AAAAGAAA
1 AAAAGAAA
20958128 TATATTGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.24
19 8 0.32
20 7 0.28
21 4 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAGAAAAAAAG
Found at i:20958120 original size:13 final size:13
Alignment explanation
Indices: 20958082--20958127 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 13
20958072 AAAATTCACA
20958082 AAAAGAAAGAAAAAG
1 AAAA-AAAG-AAAAG
20958097 AAAGAAGAAGAAAAG
1 AAA-AA-AAGAAAAG
20958112 AAAAAAAGAAAAG
1 AAAAAAAGAAAAG
20958125 AAA
1 AAA
20958128 TATATTGCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 11 0.38
14 2 0.07
15 12 0.41
16 4 0.14
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:20965342 original size:30 final size:31
Alignment explanation
Indices: 20965293--20965351 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
20965283 ACTTTGCTAT
*
20965293 AGTTTGGTTTATGTCTATAACTTGTAAAATA
1 AGTTTGGTTTATGTCTATAACTTGAAAAATA
20965324 AGTTTGAGTTTA-G-CTATAACTTGAAAAA
1 AGTTTG-GTTTATGTCTATAACTTGAAAAA
20965352 AGGGTCATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 14 0.54
31 7 0.27
32 5 0.19
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.41
Consensus pattern (31 bp):
AGTTTGGTTTATGTCTATAACTTGAAAAATA
Found at i:20975656 original size:40 final size:40
Alignment explanation
Indices: 20975505--20975656 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 40
20975495 TTGTTCGAAT
* * *
20975505 AAATTCAAGCTACGGCTTAACAGGCTACAAGTCGGTGTTA
1 AAATTCAAGCTACAGCTTAACAGGCTACGAGCCGGTGTTA
* * * * * *
20975545 AAATCCAAGCTACAGTTTAGCAGGCTATGAGACGGTATTA
1 AAATTCAAGCTACAGCTTAACAGGCTACGAGCCGGTGTTA
* * * *
20975585 AAA-TCTATGCTACATCCTAGCAGGCTACGAGCCGGTGTTA
1 AAATTC-AAGCTACAGCTTAACAGGCTACGAGCCGGTGTTA
**
20975625 AAATTCAAGCTATGGCTTAACAGGCTACGAGC
1 AAATTCAAGCTACAGCTTAACAGGCTACGAGC
20975657 TAGTGGGTAG
Statistics
Matches: 88, Mismatches: 22, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
39 1 0.01
40 85 0.97
41 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24
Consensus pattern (40 bp):
AAATTCAAGCTACAGCTTAACAGGCTACGAGCCGGTGTTA
Found at i:20976433 original size:30 final size:31
Alignment explanation
Indices: 20976384--20976442 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
20976374 ACTTTGCTAT
*
20976384 AGTTTGGTTTATGTCTATAACTTGTAAAATA
1 AGTTTGGTTTATGTCTATAACTTGAAAAATA
20976415 AGTTTGAGTTTA-G-CTATAACTTGAAAAA
1 AGTTTG-GTTTATGTCTATAACTTGAAAAA
20976443 GGGGTCATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 14 0.54
31 7 0.27
32 5 0.19
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.41
Consensus pattern (31 bp):
AGTTTGGTTTATGTCTATAACTTGAAAAATA
Found at i:20978367 original size:30 final size:28
Alignment explanation
Indices: 20978331--20978603 Score: 231
Period size: 29 Copynumber: 9.2 Consensus size: 28
20978321 TCCGATAGCT
20978331 CCCTAAACTTTCCAAAAATCACATTTTAA
1 CCCTAAACTTTCC-AAAATCACATTTTAA
*
20978360 CCCCTAAACTTTTCTAAAATCACATTTTAA
1 -CCCTAAAC-TTTCCAAAATCACATTTTAA
* *
20978390 CCCCAAAAACTTCTCCAAAATTACATTTTAA
1 -CCC-TAAACTT-TCCAAAATCACATTTTAA
*
20978421 CCCTAAAACTTTTCCAAAATTACATTTTAA
1 CCCT-AAAC-TTTCCAAAATCACATTTTAA
* *
20978451 CCTTAAATTTCTCCAAAATCACATTTTAA
1 CCCTAAACTT-TCCAAAATCACATTTTAA
* * ** *
20978480 CCTTAAACCTTCCCAAAATCATGTTTTGA
1 CCCTAAA-CTTTCCAAAATCACATTTTAA
* * *
20978509 CCCCAAACTTCACCAAAATCACATTTTGA
1 CCCTAAACTT-TCCAAAATCACATTTTAA
* *
20978538 CCCTAAACCTTTCCAAAATTACATTTTTA
1 CCCTAAA-CTTTCCAAAATCACATTTTAA
* ** * *
20978567 CCCTTAAATTTTTTTAAAATTATATTTTAA
1 CCC-TAAA-CTTTCCAAAATCACATTTTAA
20978597 CCCTAAA
1 CCCTAAA
20978604 TTCTCTGAAA
Statistics
Matches: 205, Mismatches: 28, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
28 5 0.02
29 89 0.43
30 85 0.41
31 26 0.13
ACGTcount: A:0.38, C:0.26, G:0.01, T:0.35
Consensus pattern (28 bp):
CCCTAAACTTTCCAAAATCACATTTTAA
Found at i:20986888 original size:50 final size:50
Alignment explanation
Indices: 20986806--20987518 Score: 543
Period size: 50 Copynumber: 14.4 Consensus size: 50
20986796 ATATGAAGGG
** * * *
20986806 AAGGATTGAGGCCGTGACGGCAAATCCAGTACCTTAGAAGATGTGATGGGA
1 AAGG-TTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGA
* * * * * *** *
20986857 AAGGTTGAGACCGAAATGACGAACCCGGTACCAT-GAAGATACAAAGGGA
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGA
** * * * *
20986906 AAGGTTGAGGCCGCAACGGCGAACCCAATACC--ACGGAGATATAAAGGGA
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA-GAAGATGTGATGGGA
* * ** *
20986955 TAGGTTGAGGCCGCAATGATGAACCTGGTACCTTAGAAGATGTGATGGGA
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGA
* * * * *
20987005 AAAGTTGAGGCCGCAACGGCGAACCCAGTACCAT-GAAGATTTGAAGGG-
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGA
** * ** *
20987053 AAGGATTGAGGCCGTGACGGTGAATTCGGTACCTTAGAAGATGTGATAGGA
1 AAGG-TTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGA
* * * * ** *
20987104 AAGGTT-ACGGCCACAACGACGAACCCAGTACCATA-AAGATACGAAGGGA
1 AAGGTTGA-GGCCGCAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGA
* * * * *
20987153 AAGGTTGAGGTCGTAACGACGAACCCGGTACCTAAGAAGATGAGATGGGA
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGA
* * * *
20987203 AAGGTTGAGGCCGTAACGGTGAACCCGGTACCTAAGAAGATGCGATGGGA
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGA
* * * * *
20987253 AAGGTTGAGACTGCAACAGCGAACCCGGTACCTAAGAAGATGTGATAGGA
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGA
* * * *
20987303 AAGGTTGAGGCTGCAACGGTGAACCCGGTACCAT-GAAGA-GATGAAGGG-
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATG-TGATGGGA
* * ** * * * * *
20987351 AAGGATTGAGGTCGCGACGGCGAATTCTGTACCTTAGAAAATTTAATAGGA
1 AAGG-TTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGA
* ** *
20987402 AAGGTTGAGGCCGTAACGGCGAACCCGGTACC--ACGAAGATACGAAGGGA
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA-GAAGATGTGATGGGA
* * ** * *
20987451 AAGGTTGAGGTCGCAATGATGAACCCGGTA-CTAAGAAGATTTGATGGGA
1 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGA
*
20987500 ATGGTTGAGGCCGCAACGG
1 AAGGTTGAGGCCGCAACGG
20987519 TAAACCTAGC
Statistics
Matches: 514, Mismatches: 130, Indels: 38
0.75 0.19 0.06
Matches are distributed among these distances:
48 10 0.02
49 241 0.47
50 250 0.49
51 13 0.03
ACGTcount: A:0.33, C:0.18, G:0.32, T:0.17
Consensus pattern (50 bp):
AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGA
Found at i:20986994 original size:99 final size:99
Alignment explanation
Indices: 20986801--20987518 Score: 558
Period size: 99 Copynumber: 7.3 Consensus size: 99
20986791 TGGAGATATG
** * * * ** *
20986801 AAGGG-AAGGATTGAGGCCGTGACGGCAAATCCAGTACCTTAGAAGATGTGATGGGAAAGGTTGA
1 AAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCAGTACCAT-GAAGATACGAAGGGAAAGGTTGA
* * * * **
20986865 GACCGAAATGACGAACCCGGTACCAT-GAAGATACA
64 GGCCGCAACGACGAACCCGGTACCTTAGAAGATTTA
* * * ** *
20986900 AAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCACGGAGATATAAAGGGATAGGTTGAGG
1 AAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCATGAAGATACGAAGGGAAAGGTTGAGG
* * * * *
20986965 CCGCAATGATGAACCTGGTACCTTAGAAGATGTG
66 CCGCAACGACGAACCCGGTACCTTAGAAGATTTA
* * **
20986999 ATGGGAAAAGTTGAGGCCGCAACGGCGAACCCAGTACCATGAAGATTTGAAGGG-AAGGATTGAG
1 AAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCATGAAGATACGAAGGGAAAGG-TTGAG
** ** ** *
20987063 GCCGTGACGGTGAATTCGGTACCTTAGAAGATGTGA
65 GCCGCAACGACGAACCCGGTACCTTAGAAGAT-TTA
* * * *
20987099 TA-GGAAAGGTT-ACGGCCACAACGACGAACCCAGTACCATAAAGATACGAAGGGAAAGGTTGAG
1 AAGGGAAAGGTTGA-GGCCGCAACGGCGAACCCAGTACCATGAAGATACGAAGGGAAAGGTTGAG
* * * *
20987162 GTCGTAACGACGAACCCGGTACCTAAGAAGA-TGA
65 GCCGCAACGACGAACCCGGTACCTTAGAAGATTTA
* * * * * * *
20987196 GATGGGAAAGGTTGAGGCCGTAACGGTGAACCCGGTACCTAAGAAGATGCGATGGGAAAGGTTGA
1 -AAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACC-ATGAAGATACGAAGGGAAAGGTTGA
* * * *
20987261 GACTGCAAC-AGCGAACCCGGTACCTAAGAAGATGTGA
64 GGCCGCAACGA-CGAACCCGGTACCTTAGAAGAT-TTA
* * * * * *
20987298 TA-GGAAAGGTTGAGGCTGCAACGGTGAACCCGGTACCATGAAGAGATGAAGGG-AAGGATTGAG
1 AAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCATGAAGATACGAAGGGAAAGG-TTGAG
* * * ** * *
20987361 GTCGCGACGGCGAATTCTGTACCTTAGAAAATTTA
65 GCCGCAACGACGAACCCGGTACCTTAGAAGATTTA
* * *
20987396 ATA-GGAAAGGTTGAGGCCGTAACGGCGAACCCGGTACCACGAAGATACGAAGGGAAAGGTTGAG
1 A-AGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCATGAAGATACGAAGGGAAAGGTTGAG
* * * * *
20987460 GTCGCAATGATGAACCCGGTA-CTAAGAAGATTTG
65 GCCGCAACGACGAACCCGGTACCTTAGAAGATTTA
* *
20987494 ATGGGAATGGTTGAGGCCGCAACGG
1 AAGGGAAAGGTTGAGGCCGCAACGG
20987519 TAAACCTAGC
Statistics
Matches: 493, Mismatches: 108, Indels: 37
0.77 0.17 0.06
Matches are distributed among these distances:
97 3 0.01
98 80 0.16
99 314 0.64
100 93 0.19
102 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (99 bp):
AAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCATGAAGATACGAAGGGAAAGGTTGAGG
CCGCAACGACGAACCCGGTACCTTAGAAGATTTA
Found at i:20987500 original size:49 final size:49
Alignment explanation
Indices: 20986841--20987518 Score: 484
Period size: 49 Copynumber: 13.7 Consensus size: 49
20986831 CCAGTACCTT
* * * * *
20986841 AGAAGATGTGATGGGAAAGGTTGAGACCGAAATGACGAACCCGGTACCA
1 AGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACTA
* *** * ** *
20986890 TGAAGATACAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCA
1 AGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACTA
* * * * * * * ** * *
20986939 CGGAGATATAAAGGGATAGGTTGAGGCCGCAATGATGAACCTGGTACCTT
1 AGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTA-CTA
* * *
20986989 AGAAGATGTGATGGGAAAAGTTGAGGCCGCAACGGCGAACCCAGTACCA
1 AGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACTA
* * * ** * ** *
20987038 TGAAGATTTGAAGGG-AAGGATTGAGGCCGTGACGGTGAATTCGGTACCTT
1 AGAAGATGTGATGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTA-CTA
* * * * *
20987088 AGAAGATGTGATAGGAAAGGTT-ACGGCCACAACGACGAACCCAGTACCA
1 AGAAGATGTGATGGGAAAGGTTGA-GGCCGCAACGGCGAACCCGGTACTA
** * * * *
20987137 TA-AAGATACGAAGGGAAAGGTTGAGGTCGTAACGACGAACCCGGTACCTA
1 -AGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTA-CTA
* * *
20987187 AGAAGATGAGATGGGAAAGGTTGAGGCCGTAACGGTGAACCCGGTACCTA
1 AGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTA-CTA
* * * *
20987237 AGAAGATGCGATGGGAAAGGTTGAGACTGCAACAGCGAACCCGGTACCTA
1 AGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTA-CTA
* * * *
20987287 AGAAGATGTGATAGGAAAGGTTGAGGCTGCAACGGTGAACCCGGTACCA
1 AGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACTA
* * * * ** * *
20987336 TGAAGA-GATGAAGGG-AAGGATTGAGGTCGCGACGGCGAATTCTGTACCTT
1 AGAAGATG-TGATGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTA-CTA
* * * * * *
20987386 AGAAAATTTAATAGGAAAGGTTGAGGCCGTAACGGCGAACCCGGTACCA
1 AGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACTA
* ** * * * **
20987435 CGAAGATACGAAGGGAAAGGTTGAGGTCGCAATGATGAACCCGGTACTA
1 AGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACTA
* *
20987484 AGAAGATTTGATGGGAATGGTTGAGGCCGCAACGG
1 AGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGG
20987519 TAAACCTAGC
Statistics
Matches: 478, Mismatches: 137, Indels: 28
0.74 0.21 0.04
Matches are distributed among these distances:
48 8 0.02
49 239 0.50
50 223 0.47
51 8 0.02
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (49 bp):
AGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACTA
Found at i:20988497 original size:23 final size:24
Alignment explanation
Indices: 20988457--20988503 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
20988447 TATTTGAAAC
20988457 ATTTATTAAATATATATCA-ACAT
1 ATTTATTAAATATATATCATACAT
* * *
20988480 ATTTATTTAGTATTTATCATACAT
1 ATTTATTAAATATATATCATACAT
20988504 TAATATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (24 bp):
ATTTATTAAATATATATCATACAT
Found at i:20989734 original size:30 final size:30
Alignment explanation
Indices: 20989695--20989811 Score: 98
Period size: 30 Copynumber: 3.9 Consensus size: 30
20989685 GTCTAATAGG
*
20989695 TCCCTAAACTTTT-AAGAAATCACATTTTGA
1 TCCCAAAACTTTTCAA-AAATCACATTTTGA
* * *
20989725 -CCTTAAAACTTTTCCAAAATTACATTTTGA
1 TCC-CAAAACTTTTCAAAAATCACATTTTGA
* *
20989755 TCCCAAAACTTTTCCAAAATTACATTTT-A
1 TCCCAAAACTTTTCAAAAATCACATTTTGA
* * *
20989784 ACCCCAAA-TTTCTCCAAAATCACATTTT
1 TCCCAAAACTTT-TCAAAAATCACATTTT
20989812 AATCGTAAAC
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
28 3 0.04
29 24 0.32
30 45 0.60
31 3 0.04
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (30 bp):
TCCCAAAACTTTTCAAAAATCACATTTTGA
Found at i:20989844 original size:58 final size:58
Alignment explanation
Indices: 20989737--20989933 Score: 187
Period size: 58 Copynumber: 3.4 Consensus size: 58
20989727 TTAAAACTTT
* * * * * *
20989737 TCCAAAATTACATTTTGATCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAATTTC
1 TCCAAAATCACATTTT-AACCCCAAACCTTCCCAAAATGACATTTTAACCCCAAATTTC
* ** ** * *
20989796 TCCAAAATCACATTTTAATCGTAAACCTTCCCAAAATGATGTTTTAACCCTAAACTTC
1 TCCAAAATCACATTTTAACCCCAAACCTTCCCAAAATGACATTTTAACCCCAAATTTC
* * * * * *
20989854 ACCAAAATCACATTTTGACCCCAAATCTTCCCAAAATTACATTTTTACCCCTAAATTTT
1 TCCAAAATCACATTTTAACCCCAAACCTTCCCAAAATGACATTTTAACCCC-AAATTTC
* *
20989913 TCTAAAATTACATTTTAACCC
1 TCCAAAATCACATTTTAACCC
20989934 TAAATTCTCT
Statistics
Matches: 108, Mismatches: 29, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
58 71 0.66
59 37 0.34
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.35
Consensus pattern (58 bp):
TCCAAAATCACATTTTAACCCCAAACCTTCCCAAAATGACATTTTAACCCCAAATTTC
Found at i:20989922 original size:30 final size:30
Alignment explanation
Indices: 20989696--20989937 Score: 162
Period size: 29 Copynumber: 8.2 Consensus size: 30
20989686 TCTAATAGGT
* * *
20989696 CCCTAAACTTTT-AAGAAATCACA-TTTTGA
1 CCCTAAACTTTTCCA-AAATTACATTTTTAA
* * *
20989725 CCTTAAAACTTTTCCAAAATTACATTTTGAT
1 CCCT-AAACTTTTCCAAAATTACATTTTTAA
*
20989756 CCCAAAACTTTTCCAAAATTACA-TTTTAA
1 CCCTAAACTTTTCCAAAATTACATTTTTAA
* *
20989785 CCCCAAA-TTTCTCCAAAATCACA-TTTTAA
1 CCCTAAACTTT-TCCAAAATTACATTTTTAA
* * * * *
20989814 TCGTAAACCTTCCCAAAA-T-GATGTTTTAA
1 CCCTAAACTTTTCCAAAATTACAT-TTTTAA
** * *
20989843 CCCTAAACTTCACCAAAATCACA-TTTTGA
1 CCCTAAACTTTTCCAAAATTACATTTTTAA
* * *
20989872 CCCCAAA-TCTTCCCAAAATTACATTTTTAC
1 CCCTAAACT-TTTCCAAAATTACATTTTTAA
* *
20989902 CCCTAAATTTTTCTAAAATTACA-TTTTAA
1 CCCTAAACTTTTCCAAAATTACATTTTTAA
20989931 CCCTAAA
1 CCCTAAA
20989938 TTCTCTAAAA
Statistics
Matches: 164, Mismatches: 37, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
27 1 0.01
28 4 0.02
29 93 0.57
30 58 0.35
31 8 0.05
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (30 bp):
CCCTAAACTTTTCCAAAATTACATTTTTAA
Found at i:20989962 original size:29 final size:29
Alignment explanation
Indices: 20989770--20989956 Score: 98
Period size: 29 Copynumber: 6.4 Consensus size: 29
20989760 AAACTTTTCC
* * *
20989770 AAAATTACATTTTAACCCCAAATTTCTCC
1 AAAACTACATTTTAACCCTAAATTTCTCT
* * * *
20989799 AAAA-TCACATTTTAATCGTAAACCTTC-CC
1 AAAACT-ACATTTTAACCCTAAA-TTTCTCT
** * * *
20989828 AAAA-TGATGTTTTAACCCTAAACTTCACC
1 AAAACT-ACATTTTAACCCTAAATTTCTCT
* * *
20989857 AAAA-TCACATTTTGACCCCAAATCTTC-CC
1 AAAACT-ACATTTTAACCCTAAAT-TTCTCT
* * *
20989886 AAAATTACATTTTTACCCCTAAATTTTTCT
1 AAAACTACA-TTTTAACCCTAAATTTCTCT
*
20989916 AAAATTACATTTTAACCCTAAA-TTCTCT
1 AAAACTACATTTTAACCCTAAATTTCTCT
*
20989944 AAAACTCCATTTT
1 AAAACTACATTTT
20989957 CGACCCCATT
Statistics
Matches: 127, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
28 21 0.17
29 78 0.61
30 28 0.22
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAACTACATTTTAACCCTAAATTTCTCT
Found at i:20992980 original size:24 final size:24
Alignment explanation
Indices: 20992921--20992981 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
20992911 GAGTAATAAG
* * *
20992921 AGTTTGACTCAAACAAATAAACAG
1 AGTTTAACTGAAACAAATAAACAA
*
20992945 AGTTTAATTGAAACAAATAAACAA
1 AGTTTAACTGAAACAAATAAACAA
20992969 AGTTTAACTGAAA
1 AGTTTAACTGAAA
20992982 GATTATTTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.25
Consensus pattern (24 bp):
AGTTTAACTGAAACAAATAAACAA
Found at i:20994973 original size:24 final size:24
Alignment explanation
Indices: 20994912--20994974 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
20994902 TAGAGTAATA
* *
20994912 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
20994936 AGAGTTTAATTGAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAC
20994960 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
20994975 GATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:20997845 original size:25 final size:26
Alignment explanation
Indices: 20997817--20997873 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
20997807 TTGAATTACT
**
20997817 TTTTTATTTTAAA-CATGAGAACATA
1 TTTTTATGGTAAATCATGAGAACATA
*
20997842 TTTTT-TGGTAAATCATGAGAATATA
1 TTTTTATGGTAAATCATGAGAACATA
20997867 TTTTTAT
1 TTTTTAT
20997874 CATTCTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 5 0.19
25 21 0.78
26 1 0.04
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (26 bp):
TTTTTATGGTAAATCATGAGAACATA
Found at i:20998345 original size:30 final size:30
Alignment explanation
Indices: 20998309--20998373 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
20998299 CAACTTAACA
* *
20998309 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAAAAACAAAATT
*
20998339 AACAAATACTTCTAAAATAAAAACAAAATT
1 AACAAATACCTCTAAAATAAAAACAAAATT
20998369 AACAA
1 AACAA
20998374 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.62, C:0.15, G:0.02, T:0.22
Consensus pattern (30 bp):
AACAAATACCTCTAAAATAAAAACAAAATT
Found at i:20998598 original size:14 final size:15
Alignment explanation
Indices: 20998581--20998614 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
20998571 AACGAGCCTT
*
20998581 TTTTTCGAAGCT-TA
1 TTTTTCGAACCTATA
20998595 TTTTTCGAACCTATA
1 TTTTTCGAACCTATA
20998610 TTTTT
1 TTTTT
20998615 ACCCAAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.56
Consensus pattern (15 bp):
TTTTTCGAACCTATA
Found at i:20998880 original size:10 final size:10
Alignment explanation
Indices: 20998865--20998889 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
20998855 GAACTTGAGT
20998865 ATGATATTAA
1 ATGATATTAA
20998875 ATGATATTAA
1 ATGATATTAA
20998885 ATGAT
1 ATGAT
20998890 TTATTTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (10 bp):
ATGATATTAA
Found at i:21000693 original size:82 final size:78
Alignment explanation
Indices: 21000542--21000699 Score: 253
Period size: 82 Copynumber: 2.0 Consensus size: 78
21000532 TTTCAAATCC
21000542 ATGGTTATCTTCTTTTATTTCTGTGGGTTTTTTTCATATTTAGAACAAGTTTTCATCTCTGTTTT
1 ATGGTTATCTTCTTTTATTTCTGTGGGTTTTTTTCATATTTAGAACAAGTTTTCATCTCTGTTTT
21000607 AGTTTTCAGATAT
66 AGTTTTCAGATAT
* **
21000620 ATGGTTATCTTCTTTTATTTTTGTGGGTTTTTTGTTTTTACCTTTAGAACAAGTTTTCATCTCTG
1 ATGGTTATCTTCTTTTATTTCTGTGGG-TTTTT-TTCATA--TTTAGAACAAGTTTTCATCTCTG
21000685 TTTTAGTTTTCAGAT
62 TTTTAGTTTTCAGAT
21000700 CTCCATTCAC
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
78 26 0.36
79 5 0.07
80 4 0.05
82 38 0.52
ACGTcount: A:0.18, C:0.11, G:0.15, T:0.56
Consensus pattern (78 bp):
ATGGTTATCTTCTTTTATTTCTGTGGGTTTTTTTCATATTTAGAACAAGTTTTCATCTCTGTTTT
AGTTTTCAGATAT
Found at i:21002268 original size:19 final size:18
Alignment explanation
Indices: 21002226--21002291 Score: 87
Period size: 19 Copynumber: 3.6 Consensus size: 18
21002216 AGTTTAAGGT
* *
21002226 TTAGGGTTTAGGTTAGGG
1 TTAGGTTTTAGGTTTGGG
21002244 TTAGGTTTTAGGTTTGGG
1 TTAGGTTTTAGGTTTGGG
*
21002262 ATTAGGTTTTAGGTTTAGG
1 -TTAGGTTTTAGGTTTGGG
21002281 TTAGGGTTTTA
1 TTA-GGTTTTA
21002292 AAGTTTATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
18 19 0.44
19 24 0.56
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.47
Consensus pattern (18 bp):
TTAGGTTTTAGGTTTGGG
Found at i:21002393 original size:14 final size:14
Alignment explanation
Indices: 21002370--21002421 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
21002360 GTCTCGGGTC
21002370 TAAGGTCTTAGGGCT
1 TAAGG-CTTAGGGCT
*
21002385 T-AGAGCTTAGGGTT
1 TAAG-GCTTAGGGCT
*
21002399 TAAGGATTAGGGCT
1 TAAGGCTTAGGGCT
21002413 TAAGG-TTAG
1 TAAGGCTTAG
21002422 AGATTAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
13 4 0.12
14 24 0.75
15 4 0.12
ACGTcount: A:0.25, C:0.08, G:0.35, T:0.33
Consensus pattern (14 bp):
TAAGGCTTAGGGCT
Found at i:21003927 original size:14 final size:14
Alignment explanation
Indices: 21003910--21003939 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21003900 TTTAAACTTT
*
21003910 AAAAGATAAATCTA
1 AAAAGATAAATATA
21003924 AAAAGATAAATATA
1 AAAAGATAAATATA
21003938 AA
1 AA
21003940 TTAAATACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAAGATAAATATA
Found at i:21003938 original size:6 final size:6
Alignment explanation
Indices: 21003929--21003974 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
21003919 ATCTAAAAAG
* *
21003929 ATAAAT ATAAAT -TAAAT ACAAAT -TAAAT ACAAAT -TAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
21003974 A
1 A
21003975 ATATCCTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 13 0.39
6 20 0.61
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (6 bp):
ATAAAT
Done.