Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007733.1 Hibiscus syriacus cultivar Beakdansim tig00109987_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1979160
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 9
Found at i:575182 original size:22 final size:24
Alignment explanation
Indices: 575132--575186 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 24
575122 TTATTGTAAC
575132 ATTTAAAAAACATTGGTTTTAATAT
1 ATTTAAAAAACATT-GTTTTAATAT
575157 ATTTAAATAAACATT-TTTT-ATA-
1 ATTTAAA-AAACATTGTTTTAATAT
575179 ATTTAAAA
1 ATTTAAAA
575187 TTTTAAAGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 1 0.03
22 7 0.24
23 3 0.10
24 4 0.14
25 7 0.24
26 7 0.24
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (24 bp):
ATTTAAAAAACATTGTTTTAATAT
Found at i:581828 original size:498 final size:500
Alignment explanation
Indices: 581044--582045 Score: 1981
Period size: 498 Copynumber: 2.0 Consensus size: 500
581034 GTCTCCATTG
581044 TGATTTTAATTACAAATGCAATTTTTTTCACATAAATCAAATATACAAAGCACCCATCCCCGATC
1 TGATTTTAATTACAAATGCAATTTTTTTCACATAAATCAAATATACAAAGCACCCATCCCCGATC
581109 TCTTCAACGCCAGCTGAGGAAGAGCCAAGCCTGGCTTTTTGCATAGCCTTGTAGGCTTGGTTTTC
66 TCTTCAACGCCAGCTGAGGAAGAGCCAAGCCTGGCTTTTTGCATAGCCTTGTAGGCTTGGTTTTC
581174 CCCATTTTCAGAAAAGATCTAGAAAAATTGAAATTAGAGAGGGGGAAGACAATTTACTTCTCTAA
131 CCCATTTTCAGAAAAGATCTAGAAAAATTGAAATTAGAGAGGGGGAAGACAATTTACTTCTCTAA
581239 TTTACAGATAAACCACCCACAAGCTAAAACAACACAAAATATCCACACATGAAAACTAGAGAACG
196 TTTACAGATAAACCACCCACAAGCTAAAACAACACAAAATATCCACACATGAAAACTAGAGAACG
581304 AAAAAATCAAAATGTTCAGTATTCAGAGAAGGGAACAAACCAGAAAAACAAAGTGAGAGATGCTA
261 AAAAAATCAAAATGTTCAGTATTCAGAGAAGGGAACAAACCAGAAAAACAAAGTGAGAGATGCTA
581369 AGCCGGTGAAGAGAAAAAGAAAGAAACAATTTCTCGTCGGTGAGAGACCTGATCTGGTCACCGAG
326 AGCCGGTGAAGAGAAAAAGAAAGAAACAATTTCTCGTCGGTGAGAGACCTGATCTGGTCACCGAG
581434 AGAGACAGATAACGACGTCGCTAGTGAGATACTACGCCTGAAGACAAAACCAGAAAATGAATGGG
391 AGAGACAGATAACGACGTCGCTAGTGAGATACTACGCCTGAAGACAAAACCAGAAAATGAATGGG
581499 GAATGAAGTGAGGGATGAAGATGAGAG-AAA-AAATATATATGAA
456 GAATGAAGTGAGGGATGAAGATGAGAGAAAAGAAATATATATGAA
581542 TGATTTTAATTACAAATGCAATTTTTTTCACATAAATCAAATATACAAAGCACCCATCCCCGATC
1 TGATTTTAATTACAAATGCAATTTTTTTCACATAAATCAAATATACAAAGCACCCATCCCCGATC
581607 TCTTCAACGCCAGCTGAGGAAGAGCCAAGCCTGGCTTTTTGCATAGCCTTGTAGGCTTGGTTTTC
66 TCTTCAACGCCAGCTGAGGAAGAGCCAAGCCTGGCTTTTTGCATAGCCTTGTAGGCTTGGTTTTC
581672 CCCATTTTCAGAAAAGATCTAGAAAAATTGAAATTAGAGAGGGGGAAGACAATTTACTTCTCTAA
131 CCCATTTTCAGAAAAGATCTAGAAAAATTGAAATTAGAGAGGGGGAAGACAATTTACTTCTCTAA
581737 TTTACAGATAAACCACCCACAAGCTAAAACAACACAAAATATCCACACATGAAAACTAGAGAACG
196 TTTACAGATAAACCACCCACAAGCTAAAACAACACAAAATATCCACACATGAAAACTAGAGAACG
581802 AAAAAATCAAAATGTTCAGTATTCAGAGAAGGGAACAAACCAGAAAAACAAAGTGAGAGATGCTA
261 AAAAAATCAAAATGTTCAGTATTCAGAGAAGGGAACAAACCAGAAAAACAAAGTGAGAGATGCTA
581867 AGCCGGTGAAGAGAAAAAGAAAGAAACAATTTCTCGTCGGTGAGAGACCTGATCTGGTCACCGAG
326 AGCCGGTGAAGAGAAAAAGAAAGAAACAATTTCTCGTCGGTGAGAGACCTGATCTGGTCACCGAG
581932 AGAGACAGATAACGACGTCGCTAGTGAGATACTACGCCTGAAGACAAAACCAGAAAATGAATGGG
391 AGAGACAGATAACGACGTCGCTAGTGAGATACTACGCCTGAAGACAAAACCAGAAAATGAATGGG
581997 GAATGAAGTGAGGGATGAAGATGAGAGAAAAGGAAATATATATGAA
456 GAATGAAGTGAGGGATGAAGATGAGAGAAAA-GAAATATATATGAA
582043 TGA
1 TGA
582046 GGAGGAATGA
Statistics
Matches: 501, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
498 482 0.96
499 3 0.01
501 16 0.03
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (500 bp):
TGATTTTAATTACAAATGCAATTTTTTTCACATAAATCAAATATACAAAGCACCCATCCCCGATC
TCTTCAACGCCAGCTGAGGAAGAGCCAAGCCTGGCTTTTTGCATAGCCTTGTAGGCTTGGTTTTC
CCCATTTTCAGAAAAGATCTAGAAAAATTGAAATTAGAGAGGGGGAAGACAATTTACTTCTCTAA
TTTACAGATAAACCACCCACAAGCTAAAACAACACAAAATATCCACACATGAAAACTAGAGAACG
AAAAAATCAAAATGTTCAGTATTCAGAGAAGGGAACAAACCAGAAAAACAAAGTGAGAGATGCTA
AGCCGGTGAAGAGAAAAAGAAAGAAACAATTTCTCGTCGGTGAGAGACCTGATCTGGTCACCGAG
AGAGACAGATAACGACGTCGCTAGTGAGATACTACGCCTGAAGACAAAACCAGAAAATGAATGGG
GAATGAAGTGAGGGATGAAGATGAGAGAAAAGAAATATATATGAA
Found at i:582491 original size:83 final size:82
Alignment explanation
Indices: 582382--582590 Score: 276
Period size: 83 Copynumber: 2.5 Consensus size: 82
582372 ATTTCAACAC
* * *
582382 AAATGCCACTAAATTATGCATTTTTAGCGGCGATTTCACAAAACGACACTATAAATATGGCTATG
1 AAATGCCACTAAAGTATGCGTTTTTAGCGGCGATTTCACAAAACGACACTATAAATATGGCTATA
*
582447 GCTGCTTTTTTCTTACAT
66 GCTGCGTTTTT-TTACAT
* * * * * *
582465 AAATGCCACTAAAGTAGGCGTTTTTAGCGGTGCTTTCACAAAAACGTCACTATATATCTGGCTAT
1 AAATGCCACTAAAGTATGCGTTTTTAGCGGCGATTTCAC-AAAACGACACTATAAATATGGCTAT
*
582530 AGCTGCGTTTTTTTGCAT
65 AGCTGCGTTTTTTTACAT
*
582548 AAACGCCACTAAAGTATGCGTTTTTAGCGGC-ATTTTCACAAAA
1 AAATGCCACTAAAGTATGCGTTTTTAGCGGCGA-TTTCACAAAA
582591 ATACCACTAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
82 4 0.04
83 73 0.67
84 32 0.29
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (82 bp):
AAATGCCACTAAAGTATGCGTTTTTAGCGGCGATTTCACAAAACGACACTATAAATATGGCTATA
GCTGCGTTTTTTTACAT
Found at i:582599 original size:83 final size:82
Alignment explanation
Indices: 582386--582622 Score: 255
Period size: 83 Copynumber: 2.8 Consensus size: 82
582376 CAACACAAAT
* * * *
582386 GCCACTAAATTATGCATTTTTAGCGGCGATTTCAC-AAAACGACACTATAAATATGGCTATGGCT
1 GCCACTAAAGTATGCGTTTTTAGCGGC-ATTTCACAAAAAC-ACACTATATATATGGCTATAGCT
* *
582450 GCTTTTTTCTTACATAAAT
64 GCGTTTTTCTTACATAAAC
* * *
582469 GCCACTAAAGTAGGCGTTTTTAGCGGTGC-TTTCACAAAAACGTCACTATATATCTGGCTATAGC
1 GCCACTAAAGTATGCGTTTTTAGC-G-GCATTTCACAAAAAC-ACACTATATATATGGCTATAGC
*
582533 TGCGTTTTT-TTGCATAAAC
63 TGCGTTTTTCTTACATAAAC
* * * * *
582552 GCCACTAAAGTATGCGTTTTTAGCGGCATTTTCACAAAAATACCACTATATATTTGGATATCGAT
1 GCCACTAAAGTATGCGTTTTTAGCGGCA-TTTCACAAAAACA-CACTATATATATGGCTATAGCT
582617 GCGTTT
64 GCGTTT
582623 GTCTAAAATC
Statistics
Matches: 131, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
81 2 0.02
82 1 0.01
83 93 0.71
84 33 0.25
85 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (82 bp):
GCCACTAAAGTATGCGTTTTTAGCGGCATTTCACAAAAACACACTATATATATGGCTATAGCTGC
GTTTTTCTTACATAAAC
Found at i:585389 original size:15 final size:15
Alignment explanation
Indices: 585366--585407 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
585356 TAATATATTT
*
585366 ATAAGTATAAATTAA
1 ATAAATATAAATTAA
585381 ATAAATATAAATTAA
1 ATAAATATAAATTAA
585396 ATTAAAATATAA
1 A-T-AAATATAA
585408 CTTTTACACG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 15 0.62
16 1 0.04
17 8 0.33
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
ATAAATATAAATTAA
Found at i:593048 original size:67 final size:67
Alignment explanation
Indices: 592974--593156 Score: 215
Period size: 67 Copynumber: 2.7 Consensus size: 67
592964 TTGATTCATG
* * * *
592974 CTCATTAA-AAAATTTTGTTACTTGATTCATTGCTCATTAAGCTCATTAAAATTTTGTTCGACTC
1 CTCATTAAGAAAA-TTTGTTGCTCGATTCATTGCTCGTTAAGCTCATTAAAATTTTGCTCGACTC
593038 GTA
65 GTA
* ** * *
593041 CTCATTAAGAAAATTTGTTGCCCGATTTGTTGGTCGTTAAACTCATTAAAATTTTGCTCGACTCG
1 CTCATTAAGAAAATTTGTTGCTCGATTCATTGCTCGTTAAGCTCATTAAAATTTTGCTCGACTCG
*
593106 TG
66 TA
* * * * *
593108 TTCGTTAAGAAAATTTGTTGCTCGACTCTTTTCTCGTTAAGCTCATTAA
1 CTCATTAAGAAAATTTGTTGCTCGATTCATTGCTCGTTAAGCTCATTAA
593157 GCTCGTTGCT
Statistics
Matches: 96, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
67 92 0.96
68 4 0.04
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (67 bp):
CTCATTAAGAAAATTTGTTGCTCGATTCATTGCTCGTTAAGCTCATTAAAATTTTGCTCGACTCG
TA
Found at i:594843 original size:16 final size:16
Alignment explanation
Indices: 594822--594853 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
594812 ATCGAGCTGC
594822 ACCACAAACTCACTGT
1 ACCACAAACTCACTGT
594838 ACCACAAACTCACTGT
1 ACCACAAACTCACTGT
594854 GGGATTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.38, G:0.06, T:0.19
Consensus pattern (16 bp):
ACCACAAACTCACTGT
Found at i:596053 original size:31 final size:31
Alignment explanation
Indices: 596015--596083 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
596005 TTGATAAAAT
596015 TTTAATGACA-ATTCCGTAA-CAATTCAATAAA
1 TTTAATGA-ATATTCCGTAAGC-ATTCAATAAA
** *
596046 TTTAATGAATATTTTGTAAGCTTTCAATAAA
1 TTTAATGAATATTCCGTAAGCATTCAATAAA
596077 TTTAATG
1 TTTAATG
596084 GTCGTTTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 1 0.03
31 31 0.94
32 1 0.03
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.41
Consensus pattern (31 bp):
TTTAATGAATATTCCGTAAGCATTCAATAAA
Found at i:607539 original size:21 final size:21
Alignment explanation
Indices: 607517--607562 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
607507 TCGAGTTACA
*
607517 AAAT-ACAACTCGAATAACTC
1 AAATAACAACTCAAATAACTC
*
607537 AAATAATAACTCAAATAACTC
1 AAATAACAACTCAAATAACTC
607558 GAAAT
1 -AAAT
607563 TTTAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 14 0.64
22 4 0.18
ACGTcount: A:0.54, C:0.20, G:0.04, T:0.22
Consensus pattern (21 bp):
AAATAACAACTCAAATAACTC
Found at i:607546 original size:12 final size:12
Alignment explanation
Indices: 607529--607554 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
607519 ATACAACTCG
607529 AATAACTCAAAT
1 AATAACTCAAAT
607541 AATAACTCAAAT
1 AATAACTCAAAT
607553 AA
1 AA
607555 CTCGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAACTCAAAT
Found at i:613236 original size:32 final size:32
Alignment explanation
Indices: 613165--613237 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
613155 GTAAACTAAC
*
613165 CACTAAATTTTATTACATTATTATGAAATCGT
1 CACTAAATTTTATTACATTATTATGAAATCGA
* * *
613197 CATTAAATTTTATCT-GATTATTATGAAATGGA
1 CACTAAATTTTAT-TACATTATTATGAAATCGA
613229 CACTAAATT
1 CACTAAATT
613238 AATCAAATTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 34 0.97
33 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.42
Consensus pattern (32 bp):
CACTAAATTTTATTACATTATTATGAAATCGA
Found at i:638288 original size:73 final size:74
Alignment explanation
Indices: 638201--638361 Score: 261
Period size: 73 Copynumber: 2.2 Consensus size: 74
638191 CCTAAGTCAT
* * *
638201 AGGTACCAATACCCTTGTGTTATTTTTGGCTCCAAGAAAAACAAAATGCCCAATGGGTACCGATA
1 AGGTACCGATACCCTTATGTTAATTTTGGCTCCAAGAAAAACAAAATGCCCAATGGGTACCGATA
638266 C-CCCCTAG
66 CTCCCCTAG
*
638274 AGGTACCGATACCCTTATGTTAATTTTGGCTCCAAGAAAAACAGAATGCCCAATGGGTACCGATA
1 AGGTACCGATACCCTTATGTTAATTTTGGCTCCAAGAAAAACAAAATGCCCAATGGGTACCGATA
*
638339 CTCCCTTAG
66 CTCCCCTAG
*
638348 AGGTATCGATACCC
1 AGGTACCGATACCC
638362 CTGGTCATTT
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 62 0.77
74 19 0.23
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (74 bp):
AGGTACCGATACCCTTATGTTAATTTTGGCTCCAAGAAAAACAAAATGCCCAATGGGTACCGATA
CTCCCCTAG
Found at i:644037 original size:21 final size:21
Alignment explanation
Indices: 644011--644065 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
644001 TGTGCATAGT
644011 GTATCGATACCCCTAAAACAG
1 GTATCGATACCCCTAAAACAG
644032 GTATCGATACCCCTAAAACAG
1 GTATCGATACCCCTAAAACAG
644053 GTATCGATACCCC
1 GTATCGATACCCC
644066 CTACTAGGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.35, C:0.31, G:0.15, T:0.20
Consensus pattern (21 bp):
GTATCGATACCCCTAAAACAG
Found at i:644076 original size:20 final size:19
Alignment explanation
Indices: 644011--644079 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 19
644001 TGTGCATAGT
644011 GTATCGATACCCCTAAAACAG
1 GTATCGATACCCCT--AACAG
644032 GTATCGATACCCCTAAAACAG
1 GTATCGATACCCCT--AACAG
644053 GTATCGATACCCCCT-ACTAG
1 GTATCGATA-CCCCTAAC-AG
644073 GTATCGA
1 GTATCGA
644080 GGTATCGATA
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.04
20 9 0.20
21 30 0.65
22 5 0.11
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (19 bp):
GTATCGATACCCCTAACAG
Found at i:649136 original size:23 final size:22
Alignment explanation
Indices: 649080--649136 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 22
649070 ACAAATGAAA
*
649080 AAATATTTATGTAATGTTTATTT
1 AAATAATTAT-TAATGTTTATTT
649103 AAATAA-T-TTAAT-TATTATTAT
1 AAATAATTATTAATGT-TTATT-T
649124 AAATAATTATTAA
1 AAATAATTATTAA
649137 AATATTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
19 1 0.03
20 9 0.31
21 8 0.28
22 2 0.07
23 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (22 bp):
AAATAATTATTAATGTTTATTT
Found at i:649796 original size:24 final size:23
Alignment explanation
Indices: 649757--649804 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
649747 TAAATGTTAA
**
649757 TGAACATGTTTGTTTAAATATTTG
1 TGAACATGTTCATTT-AATATTTG
*
649781 TGAACATGTTCATTTAGTATTTG
1 TGAACATGTTCATTTAATATTTG
649804 T
1 T
649805 TTAACATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.27, C:0.06, G:0.17, T:0.50
Consensus pattern (23 bp):
TGAACATGTTCATTTAATATTTG
Found at i:649831 original size:34 final size:35
Alignment explanation
Indices: 649765--649831 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
649755 AATGAACATG
* *
649765 TTTGTTTAAATATTTGTGAACATGTTCATTTAGTA
1 TTTGTTTAAACATTTATGAACATGTTCATTTAGTA
* *
649800 TTTGTTT-AACATTTATGAATATGTTCGTTTAG
1 TTTGTTTAAACATTTATGAACATGTTCATTTAG
649832 CGTCTCAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 21 0.75
35 7 0.25
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (35 bp):
TTTGTTTAAACATTTATGAACATGTTCATTTAGTA
Found at i:650113 original size:38 final size:38
Alignment explanation
Indices: 650065--650138 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
650055 CGAGTTTCTA
* *
650065 AACAAGCTTATAAACAAGTTTGTTCGTGAACATAAACG
1 AACAAACTTATAAACAAGTTTATTCGTGAACATAAACG
* * *
650103 AACAAACTTATAAACGAGTTTATTTGTGAGCATAAA
1 AACAAACTTATAAACAAGTTTATTCGTGAACATAAA
650139 TTAACCAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (38 bp):
AACAAACTTATAAACAAGTTTATTCGTGAACATAAACG
Found at i:650518 original size:12 final size:13
Alignment explanation
Indices: 650482--650525 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
650472 GCCCCGATTA
*
650482 CCCGATTACCCAC
1 CCCGATTACCCGC
650495 CCCGATTACCCGC
1 CCCGATTACCCGC
*
650508 CCCGA-TACCCGA
1 CCCGATTACCCGC
650520 CCCGAT
1 CCCGAT
650526 AAATATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.20, C:0.52, G:0.14, T:0.14
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:650588 original size:24 final size:26
Alignment explanation
Indices: 650561--650621 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 26
650551 ATATATATAT
*
650561 ATAATATTAATA-A-ATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
650585 ATAA-A-AAATATATATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
*
650609 AT-ATATATATATA
1 ATAATATAAATATA
650622 CCCGACCCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 4 0.13
23 3 0.10
24 18 0.58
25 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAATATAAATATATATTTAATTTAA
Found at i:650603 original size:19 final size:19
Alignment explanation
Indices: 650579--650618 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
650569 AATAAATTTA
650579 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
650598 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
650617 AT
1 AT
650619 ATACCCGACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:650665 original size:12 final size:12
Alignment explanation
Indices: 650639--650682 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
650629 CGATTCCCAG
650639 CCCAATACC-GA
1 CCCAATACCTGA
650650 CCCAATACCTGA
1 CCCAATACCTGA
*
650662 CCCAATACCTGG
1 CCCAATACCTGA
650674 CCCAATACC
1 CCCAATACC
650683 CGTTTAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 9 0.29
12 22 0.71
ACGTcount: A:0.32, C:0.45, G:0.09, T:0.14
Consensus pattern (12 bp):
CCCAATACCTGA
Found at i:653480 original size:134 final size:133
Alignment explanation
Indices: 653241--653516 Score: 507
Period size: 134 Copynumber: 2.1 Consensus size: 133
653231 TTCGTCTCTC
653241 AATTAAAATATTATAAATATGCCAGTCTTATTAAATATGAGATGGAAGTTTAAGTGGCTTGGTAG
1 AATTAAAATATTATAAATATGCCAGTCTTATTAAATATGAGATGGAAGTTTAAGTGGCTTGGTAG
653306 AATAATAATTTTAGTACCTAAAACTTATGCATTCTTTCAATTTGGTCATAACTCAAAATAATTCG
66 AATAATAATTTTAGTACCTAAAACTTATGCATTCTTTCAATTTGGTCATAACTCAAAATAATTCG
653371 ACA
131 ACA
*
653374 AATTAAAATATTATAAATATGTCAGTCTTATTAAATATGAGATGGAAGTTTAAAGTGGCTTGGTA
1 AATTAAAATATTATAAATATGCCAGTCTTATTAAATATGAGATGGAAGTTT-AAGTGGCTTGGTA
* *
653439 GAATAATAATTTTAGTATCTAAAATTTATGCATTCTTTCAATTTGGTCATAACTCAAAATAATTC
65 GAATAATAATTTTAGTACCTAAAACTTATGCATTCTTTCAATTTGGTCATAACTCAAAATAATTC
653504 GACA
130 GACA
*
653508 AATTCAAAT
1 AATTAAAAT
653517 TATATTTAAA
Statistics
Matches: 138, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
133 50 0.36
134 88 0.64
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (133 bp):
AATTAAAATATTATAAATATGCCAGTCTTATTAAATATGAGATGGAAGTTTAAGTGGCTTGGTAG
AATAATAATTTTAGTACCTAAAACTTATGCATTCTTTCAATTTGGTCATAACTCAAAATAATTCG
ACA
Found at i:668566 original size:55 final size:55
Alignment explanation
Indices: 668497--668615 Score: 211
Period size: 55 Copynumber: 2.2 Consensus size: 55
668487 ATTGTAAAGA
* *
668497 CAAAGACGACTAAATAAATATTTTAATTGATTACGTTAGAAATAATAATTTTATT
1 CAAATACGACTAAATAAATATTTTAATTGATTACGTTAGAAATAATAATTTTAAT
668552 CAAATACGACTAAATAAATATTTTAATTGATTACGTTAGAAATAATAATTTTAAT
1 CAAATACGACTAAATAAATATTTTAATTGATTACGTTAGAAATAATAATTTTAAT
*
668607 CGAATACGA
1 CAAATACGA
668616 TGAATTTCGG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 61 1.00
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.36
Consensus pattern (55 bp):
CAAATACGACTAAATAAATATTTTAATTGATTACGTTAGAAATAATAATTTTAAT
Found at i:668586 original size:27 final size:27
Alignment explanation
Indices: 668502--668586 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
668492 AAAGACAAAG
668502 ACGACTAAATAAATATTTTAATTGATT
1 ACGACTAAATAAATATTTTAATTGATT
* * *
668529 ACG-TTAGAA-ATAATAATTTT-ATTCAAAT
1 ACGACTA-AATA-AAT-ATTTTAATT-GATT
668557 ACGACTAAATAAATATTTTAATTGATT
1 ACGACTAAATAAATATTTTAATTGATT
668584 ACG
1 ACG
668587 TTAGAAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
26 3 0.07
27 21 0.47
28 18 0.40
29 3 0.07
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (27 bp):
ACGACTAAATAAATATTTTAATTGATT
Found at i:668598 original size:27 final size:29
Alignment explanation
Indices: 668508--668606 Score: 104
Period size: 28 Copynumber: 3.6 Consensus size: 29
668498 AAAGACGACT
668508 AAATAAAT-ATTTTAATTGATTACGTTAG
1 AAATAAATAATTTTAATTGATTACGTTAG
* * *
668536 AAAT-AATAATTTT-ATTCAAATACG--ACT
1 AAATAAATAATTTTAATT-GATTACGTTA-G
668563 AAATAAAT-ATTTTAATTGATTACGTTAG
1 AAATAAATAATTTTAATTGATTACGTTAG
668591 AAAT-AATAATTTTAAT
1 AAATAAATAATTTTAAT
668607 CGAATACGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
26 1 0.02
27 23 0.40
28 32 0.56
29 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (29 bp):
AAATAAATAATTTTAATTGATTACGTTAG
Found at i:674588 original size:156 final size:156
Alignment explanation
Indices: 674304--674616 Score: 617
Period size: 156 Copynumber: 2.0 Consensus size: 156
674294 CTCATTCACT
674304 GGATGACCAGAAGAAATCATATATCCATCTTTGAACTTCATAGATTTGGCACGCTGTGCCCTTAG
1 GGATGACCAGAAGAAATCATATATCCATCTTTGAACTTCATAGATTTGGCACGCTGTGCCCTTAG
674369 CTTTCCACTAACAATAACCTGTAGCAAAAGAAAGTGATGGTACAATTCTTAGCATAATCAAAACC
66 CTTTCCACTAACAATAACCTGTAGCAAAAGAAAGTGATGGTACAATTCTTAGCATAATCAAAACC
*
674434 TATAAAACCCTGAATGTTATAATGCC
131 TATAAAACCATGAATGTTATAATGCC
674460 GGATGACCAGAAGAAATCATATATCCATCTTTGAACTTCATAGATTTGGCACGCTGTGCCCTTAG
1 GGATGACCAGAAGAAATCATATATCCATCTTTGAACTTCATAGATTTGGCACGCTGTGCCCTTAG
674525 CTTTCCACTAACAATAACCTGTAGCAAAAGAAAGTGATGGTACAATTCTTAGCATAATCAAAACC
66 CTTTCCACTAACAATAACCTGTAGCAAAAGAAAGTGATGGTACAATTCTTAGCATAATCAAAACC
674590 TATAAAACCATGAATGTTATAATGCC
131 TATAAAACCATGAATGTTATAATGCC
674616 G
1 G
674617 ACATCCACTG
Statistics
Matches: 156, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
156 156 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (156 bp):
GGATGACCAGAAGAAATCATATATCCATCTTTGAACTTCATAGATTTGGCACGCTGTGCCCTTAG
CTTTCCACTAACAATAACCTGTAGCAAAAGAAAGTGATGGTACAATTCTTAGCATAATCAAAACC
TATAAAACCATGAATGTTATAATGCC
Found at i:677223 original size:75 final size:76
Alignment explanation
Indices: 677134--677284 Score: 295
Period size: 75 Copynumber: 2.0 Consensus size: 76
677124 AACATGAAAA
677134 ATAATGGAAATTCAATAAAACGAATTGGAGAAACATGGAAGAAATGGAAG-AGAAGAAGAAGAAG
1 ATAATGGAAATTCAATAAAACGAATTGGAGAAACATGGAAGAAATGGAAGAAGAAGAAGAAGAAG
677198 AAGAAAGGAAG
66 AAGAAAGGAAG
677209 ATAATGGAAATTCAATAAAACGAATTGGAGAAACATGGAAGAAATGGAAGAAGAAGAAGAAGAAG
1 ATAATGGAAATTCAATAAAACGAATTGGAGAAACATGGAAGAAATGGAAGAAGAAGAAGAAGAAG
677274 AAGAAAGGAAG
66 AAGAAAGGAAG
677285 GAAGGTAGAA
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 50 0.67
76 25 0.33
ACGTcount: A:0.56, C:0.04, G:0.28, T:0.12
Consensus pattern (76 bp):
ATAATGGAAATTCAATAAAACGAATTGGAGAAACATGGAAGAAATGGAAGAAGAAGAAGAAGAAG
AAGAAAGGAAG
Found at i:677715 original size:36 final size:36
Alignment explanation
Indices: 677675--677762 Score: 124
Period size: 36 Copynumber: 2.5 Consensus size: 36
677665 TTTATTGCTT
* *
677675 GACTCGTAGCTTGTTAAGTTTGTTAAAATGTTACTC
1 GACTCGTAGCTCGTTAAGATTGTTAAAATGTTACTC
**
677711 GACTCGTAGCTCGTTAAGATTGTTAAAATGTTGTTC
1 GACTCGTAGCTCGTTAAGATTGTTAAAATGTTACTC
*
677747 GACTCGTA-CTCTTTAA
1 GACTCGTAGCTCGTTAA
677763 AAAATTGTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 7 0.15
36 40 0.85
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (36 bp):
GACTCGTAGCTCGTTAAGATTGTTAAAATGTTACTC
Found at i:683716 original size:20 final size:20
Alignment explanation
Indices: 683691--683742 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
683681 TATTAATTTT
683691 TTTTTATTTTTTA-TAGTATA
1 TTTTTATTTTTTATTAG-ATA
683711 TTTTTATATTTTTATTAGATA
1 TTTTTAT-TTTTTATTAGATA
683732 TTTTTAATTTT
1 TTTTT-ATTTT
683743 GAATAAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.24
21 17 0.59
22 5 0.17
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTTATTTTTTATTAGATA
Found at i:683720 original size:22 final size:22
Alignment explanation
Indices: 683681--683742 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
683671 CGTCATATAA
* *
683681 TATTA-ATTTTTTTTTATTTTT
1 TATTAGATATTTTTATATTTTT
683702 TA-TAGTATATTTTTATA-TTTT
1 TATTAG-ATATTTTTATATTTTT
683723 TATTAGATATTTTTA-ATTTT
1 TATTAGATATTTTTATATTTT
683743 GAATAAGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
20 3 0.09
21 20 0.57
22 12 0.34
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (22 bp):
TATTAGATATTTTTATATTTTT
Found at i:684413 original size:2 final size:2
Alignment explanation
Indices: 684406--684439 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
684396 CTTTATTTAG
684406 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
684440 CGTGTAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:684677 original size:16 final size:17
Alignment explanation
Indices: 684639--684684 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
684629 TATTTATGAG
*
684639 GGAATTGGAATATGTGAA
1 GGAATTGGAATCTGT-AA
684657 GGAATTGGAATCTGT-A
1 GGAATTGGAATCTGTAA
*
684673 GGAATTGAAATC
1 GGAATTGGAATC
684685 CAATTCCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.37, C:0.04, G:0.30, T:0.28
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:685490 original size:32 final size:33
Alignment explanation
Indices: 685430--685491 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
685420 CGAACACGAG
*
685430 CCGAATATCACACTTAAAAAAACTCGACCCAAC
1 CCGAATATCACACTTAAAAAAACCCGACCCAAC
685463 CCGAATATCACACTT-AAAAAACCCGACCC
1 CCGAATATCACACTTAAAAAAACCCGACCC
685492 GAACAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.44, C:0.35, G:0.06, T:0.15
Consensus pattern (33 bp):
CCGAATATCACACTTAAAAAAACCCGACCCAAC
Found at i:685511 original size:238 final size:244
Alignment explanation
Indices: 685221--685720 Score: 751
Period size: 248 Copynumber: 2.0 Consensus size: 244
685211 ACCTGACTCG
*
685221 ACCCGAATATCACACTTAAAACCGACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCG
1 ACCCGAATATCACACTTAAAA-CAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCG
*
685286 AATATATGAATTAGAAAT-CTGACCCGACCCGAAATAATAAAAAATCATTTTTATTTAATAAAAA
65 AATATATGAATTAGAAATCCCGACCCGACCCGAAATAATAAAAAATCATTTTTATTTAATAAAAA
* * *
685350 CAGTGACTTAATCCGAACCTACCCGAATTATATATATTTTCGGGTCGGTCCGG-TTTTTTCACCC
130 CAGTGACTTAATCCGAACCGACCCGAATTATATATAATTTCGGGTCGGTCCGGTTTTTTTCACCA
*
685414 TAAACCCGAA-C-A-CGAGCCGAATATCACACTTAAAAAAACTCGACCCA
195 TAAACCCGAACCGACCGACCCGAATATCACACTTAAAAAAACTCGACCCA
685461 ACCCGAATATCACACTTAAAA-AACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGA
1 ACCCGAATATCACACTTAAAACAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGA
*
685525 ATATATGAATTAGAAATCCGACCCGACCCGACCCGACCCGAAATAATAAAAAATTATTTTTATTT
66 ATATATGAATTAGAAAT---------CCCGACCCGACCCGAAATAATAAAAAATCATTTTTATTT
* *
685590 AATAAAAACAGTGACTTAATCCGACCCGACTCGAATTATATATAATTTCGGGTCGGTCCGGTTTT
122 AATAAAAACAGTGACTTAATCCGAACCGACCCGAATTATATATAATTTCGGGTCGGTCCGGTTTT
* *
685655 TTTCACCATAAACCCGAACCCGACCCGACCCGAATATCACACTTAAAAAAACTCGATCCG
187 TTTCACCATAAACCCGAA-CCGA-CCGACCCGAATATCACACTTAAAAAAACTCGACCCA
685715 ACCCGA
1 ACCCGA
685721 CTAAAATAAA
Statistics
Matches: 233, Mismatches: 11, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
238 59 0.25
240 21 0.09
248 93 0.40
249 20 0.09
251 1 0.00
252 1 0.00
254 38 0.16
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.23
Consensus pattern (244 bp):
ACCCGAATATCACACTTAAAACAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGA
ATATATGAATTAGAAATCCCGACCCGACCCGAAATAATAAAAAATCATTTTTATTTAATAAAAAC
AGTGACTTAATCCGAACCGACCCGAATTATATATAATTTCGGGTCGGTCCGGTTTTTTTCACCAT
AAACCCGAACCGACCGACCCGAATATCACACTTAAAAAAACTCGACCCA
Found at i:686366 original size:12 final size:11
Alignment explanation
Indices: 686341--686376 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
686331 ACGCAACTCT
686341 TCTTCTTTTTC
1 TCTTCTTTTTC
686352 TCTTCTTTCTTC
1 TCTTCTTT-TTC
686364 TCTATCTTTTTC
1 TCT-TCTTTTTC
686376 T
1 T
686377 TCTTTCACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.35
12 10 0.43
13 5 0.22
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (11 bp):
TCTTCTTTTTC
Found at i:687448 original size:51 final size:51
Alignment explanation
Indices: 687391--687533 Score: 277
Period size: 51 Copynumber: 2.8 Consensus size: 51
687381 CAGCATTTTC
687391 TTTTAGTATTGTTTTATATGCAATTGGTATTCTGTTTAGGGATGGATATTT
1 TTTTAGTATTGTTTTATATGCAATTGGTATTCTGTTTAGGGATGGATATTT
687442 TTTTAGTATTGTTTTATATGCAATTGGTATTCTGTTTAGGGATGGATATTT
1 TTTTAGTATTGTTTTATATGCAATTGGTATTCTGTTTAGGGATGGATATTT
*
687493 TTTTAGTATTGTTTTATATGCAATTGGTATTTTGTTTAGGG
1 TTTTAGTATTGTTTTATATGCAATTGGTATTCTGTTTAGGG
687534 GTAGACATGG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
51 91 1.00
ACGTcount: A:0.21, C:0.03, G:0.22, T:0.54
Consensus pattern (51 bp):
TTTTAGTATTGTTTTATATGCAATTGGTATTCTGTTTAGGGATGGATATTT
Found at i:688240 original size:20 final size:21
Alignment explanation
Indices: 688215--688266 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
688205 TTTTCCCAAT
*
688215 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
688235 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
688256 TCGCAATGCGA
1 TCGCAATGCGA
688267 TACTTACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:688345 original size:20 final size:20
Alignment explanation
Indices: 688297--688349 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
688287 TAATACAAAA
* *
688297 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
*
688317 TTGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
688337 TCGCAACGCGATT
1 TCGCAACGCGATT
688350 TACATAGGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:688908 original size:19 final size:19
Alignment explanation
Indices: 688886--688927 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
688876 AAATAACTAT
* *
688886 CGCAACGTGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
*
688905 CGCAACGCGAAACAAAAAT
1 CGCAACGCGAAACAAAAAA
688924 CGCA
1 CGCA
688928 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.52, C:0.24, G:0.17, T:0.07
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:688962 original size:20 final size:19
Alignment explanation
Indices: 688923--689089 Score: 120
Period size: 20 Copynumber: 9.1 Consensus size: 19
688913 GAAACAAAAA
*
688923 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
688942 TCGCGTTGCGATTTTTTATT
1 TCGCGTTGCGA-TTTTCATT
688962 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
* *
688982 TCGCGTTGTGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
688998 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
689015 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
689029 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
689048 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
689068 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
689088 TC
1 TC
689090 AACCAAAACA
Statistics
Matches: 117, Mismatches: 17, Indels: 28
0.72 0.10 0.17
Matches are distributed among these distances:
14 19 0.16
15 1 0.01
16 3 0.03
17 3 0.03
18 1 0.01
19 29 0.25
20 53 0.45
21 8 0.07
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:689014 original size:33 final size:33
Alignment explanation
Indices: 688977--689064 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 33
688967 GTTGCGATTT
* * *
688977 TCATTTCGCGTTGTGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
689010 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
689043 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
689065 ATTATCTCGT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 35 0.70
34 15 0.30
ACGTcount: A:0.11, C:0.24, G:0.25, T:0.40
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:691111 original size:21 final size:21
Alignment explanation
Indices: 691087--691153 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
691077 TCATTCCTCG
691087 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
691108 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
691129 AGATGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
691150 AGAG
1 AGAG
691154 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.19, T:0.21
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:691113 original size:42 final size:42
Alignment explanation
Indices: 691065--691153 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
691055 TCCTATCGTG
* *
691065 AAGAGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCACCGTTC
1 AAGAGGCCACTATCA-TCCTCGAAGATGT-CCCTCCCACCATTC
* * *
691107 AAGAGGCCACTGTCATCGTTGAAGATGTCCCTCCCACCATTC
1 AAGAGGCCACTATCATCCTCGAAGATGTCCCTCCCACCATTC
691149 AAGAG
1 AAGAG
691154 CCCGATTCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 4 0.10
42 34 0.85
43 2 0.05
ACGTcount: A:0.24, C:0.36, G:0.19, T:0.21
Consensus pattern (42 bp):
AAGAGGCCACTATCATCCTCGAAGATGTCCCTCCCACCATTC
Found at i:692687 original size:19 final size:19
Alignment explanation
Indices: 692659--692789 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
692649 GCGAATTAAA
*
692659 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
692678 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
692694 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
692711 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
692725 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
692744 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
692760 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
692777 TTCGCATTGCGAT
1 TTCGCATTGCGAT
692790 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 23 0.27
16 13 0.15
17 13 0.15
19 35 0.42
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:692700 original size:33 final size:32
Alignment explanation
Indices: 692663--692789 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
692653 ATTAAATTCG
692663 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
692696 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
692729 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
692762 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
692790 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:692740 original size:66 final size:66
Alignment explanation
Indices: 692656--692788 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
692646 AACGCGAATT
*
692656 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
692721 G
66 G
*
692722 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
692787 G
66 G
692788 A
1 A
692789 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:695071 original size:12 final size:12
Alignment explanation
Indices: 695054--695078 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
695044 TCTTCGGGGA
695054 CTTTTTCTTCTT
1 CTTTTTCTTCTT
695066 CTTTTTCTTCTT
1 CTTTTTCTTCTT
695078 C
1 C
695079 AGAATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:696388 original size:20 final size:20
Alignment explanation
Indices: 696363--696420 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
696353 ATTCATTTGA
696363 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
696383 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
696403 CTATCGTAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
696421 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:696463 original size:14 final size:14
Alignment explanation
Indices: 696444--696497 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
696434 GAAAATCGCA
696444 TTGCGATTTTTTCG
1 TTGCGATTTTTTCG
696458 TTGCGATTTTCATTTCG
1 TTGCGA-TTT--TTTCG
*
696475 CATTGCGATTTTCTCG
1 --TTGCGATTTTTTCG
696491 TTGCGAT
1 TTGCGAT
696498 AGCCATTTCG
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 13 0.38
15 3 0.09
16 4 0.12
17 5 0.15
18 3 0.09
19 6 0.18
ACGTcount: A:0.11, C:0.19, G:0.20, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTTTCG
Found at i:696463 original size:33 final size:33
Alignment explanation
Indices: 696426--696496 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
696416 AAAATCGCAA
*
696426 TGCGAAATGAAAATCGCATTGCGATTTTTTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
696459 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
696492 TGCGA
1 TGCGA
696497 TAGCCATTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:696482 original size:19 final size:18
Alignment explanation
Indices: 696439--696488 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
696429 GAAATGAAAA
696439 TCGCATTGCGA-TTT-TT
1 TCGCATTGCGATTTTCTT
696455 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTC-TT
696472 TCGCATTGCGATTTTCT
1 TCGCATTGCGATTTTCT
696489 CGTTGCGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 6 0.21
15 3 0.10
16 3 0.10
17 5 0.17
18 1 0.03
19 11 0.38
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.50
Consensus pattern (18 bp):
TCGCATTGCGATTTTCTT
Found at i:696497 original size:33 final size:33
Alignment explanation
Indices: 696439--696516 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
696429 GAAATGAAAA
* ***
696439 TCGCATTGCGATTTTTTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
696472 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
696505 TCGCGTTGCGAT
1 TCGCATTGCGAT
696517 AGTCTGTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.44
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:696623 original size:14 final size:14
Alignment explanation
Indices: 696604--696640 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
696594 CATCAATTAA
696604 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
696618 ACAAATCATCTTTT
1 ACAAATCAACATTT
696632 ACAAATCAA
1 ACAAATCAA
696641 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:698531 original size:20 final size:20
Alignment explanation
Indices: 698508--698575 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
698498 GAAACTTAAA
698508 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
698528 ATCGCAACGC-AGAAATGGCT
1 ATCGCAACGCGA-AAATGACT
* **
698548 ATCGCAATGCG-AAATGAAA
1 ATCGCAACGCGAAAATGACT
698567 ATCGCAACG
1 ATCGCAACG
698576 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 14 0.35
20 26 0.65
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:698583 original size:14 final size:14
Alignment explanation
Indices: 698564--698621 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
698554 ATGCGAAATG
698564 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
698578 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
698594 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
698610 AAAATCGCAACG
1 AAAATCGCAACG
698622 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:698606 original size:32 final size:33
Alignment explanation
Indices: 698548--698626 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
698538 AGAAATGGCT
*
698548 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
698581 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
698613 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
698627 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:698655 original size:19 final size:19
Alignment explanation
Indices: 698633--698714 Score: 86
Period size: 18 Copynumber: 4.6 Consensus size: 19
698623 GAAACACAAA
698633 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
698652 TCGCGTTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
* *
698670 TCGCATTGCTA-TTT--TG
1 TCGCATTGCGATTTTCATT
698686 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
698703 TCGTATTGCGAT
1 TCGCATTGCGAT
698715 AGCCATTTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
14 5 0.10
15 3 0.06
16 4 0.08
17 4 0.08
18 19 0.37
19 17 0.33
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:698733 original size:20 final size:20
Alignment explanation
Indices: 698708--698753 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
698698 TCATTTCGTA
698708 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
698728 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
698748 TTGCGA
1 TTGCGA
698754 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:699255 original size:18 final size:18
Alignment explanation
Indices: 699229--699273 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
699219 GTCGATCAGA
*
699229 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
699247 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
699265 TGATGGCTC
1 TGATGGCTC
699274 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:700617 original size:20 final size:20
Alignment explanation
Indices: 700592--700645 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
700582 AATAGTTTCT
700592 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
** *
700612 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACAC
*
700632 GAAACT-AAAATCGC
1 GAAAATGAAAATCGC
700646 GTTGCGATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:700906 original size:22 final size:22
Alignment explanation
Indices: 700879--700922 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
700869 GATGGAGATA
700879 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
700901 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
700923 TGAGAGAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:701196 original size:20 final size:20
Alignment explanation
Indices: 701110--701204 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
701100 GATTATGTAT
*
701110 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
701130 AATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGATAGTCAG
* * *
701150 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
*
701171 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
701191 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
701205 TTTCCCAATT
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.72
21 12 0.20
22 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:701223 original size:41 final size:41
Alignment explanation
Indices: 701131--701225 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
701121 GAAAGTCAGA
* * * ** *
701131 ATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
* *
701172 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAAT
701214 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
701226 TTACTTATTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 42 0.95
42 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
Found at i:701693 original size:16 final size:16
Alignment explanation
Indices: 701672--701709 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
701662 TGTGATGTTT
701672 GGGTTTGATCGGGTTC
1 GGGTTTGATCGGGTTC
* *
701688 GGGTTTTATCTGGTTC
1 GGGTTTGATCGGGTTC
701704 GGGTTT
1 GGGTTT
701710 ATGGTGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.05, C:0.11, G:0.39, T:0.45
Consensus pattern (16 bp):
GGGTTTGATCGGGTTC
Found at i:703068 original size:28 final size:27
Alignment explanation
Indices: 703036--703098 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
703026 TTTTTAATAG
*
703036 ATATTATTTTACCGTGAGTTTAAAAAAA
1 ATATTATTTTACCGTAAG-TTAAAAAAA
* * *
703064 ATATTTTTTTACTGTAAGTTAAAAAAT
1 ATATTATTTTACCGTAAGTTAAAAAAA
703091 AT-TTATTT
1 ATATTATTT
703099 ATAAGTTATC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.17
27 10 0.33
28 15 0.50
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.48
Consensus pattern (27 bp):
ATATTATTTTACCGTAAGTTAAAAAAA
Found at i:703106 original size:22 final size:23
Alignment explanation
Indices: 703059--703106 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
703049 GTGAGTTTAA
*
703059 AAAAAATATTTTTTTACTGTAAGTT
1 AAAAAATATTTATTTAC--TAAGTT
703084 AAAAAATATTTATTTA-TAAGTT
1 AAAAAATATTTATTTACTAAGTT
703106 A
1 A
703107 TCAATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
25 15 0.68
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (23 bp):
AAAAAATATTTATTTACTAAGTT
Found at i:703462 original size:24 final size:24
Alignment explanation
Indices: 703423--703468 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
703413 ATAAACATTA
*
703423 AATACAATGAATAATATTATTTATT
1 AATAAAATGAATAATATT-TTTATT
703448 AATAAAAT-AATAATATTTTTA
1 AATAAAATGAATAATATTTTTA
703469 AATATCAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 9 0.45
25 7 0.35
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
AATAAAATGAATAATATTTTTATT
Found at i:703472 original size:21 final size:23
Alignment explanation
Indices: 703420--703472 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
703410 ACTATAAACA
*
703420 TTAAATACAATGAATAATATTAT
1 TTAAATAAAATGAATAATATTAT
703443 TTATTAATAAAAT-AATAATATT-T
1 TTA--AATAAAATGAATAATATTAT
703466 TTAAATA
1 TTAAATA
703473 TCAGAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 4 0.15
23 7 0.26
24 9 0.33
25 7 0.26
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
TTAAATAAAATGAATAATATTAT
Found at i:703650 original size:22 final size:20
Alignment explanation
Indices: 703617--703695 Score: 74
Period size: 22 Copynumber: 3.9 Consensus size: 20
703607 CTAAAATAGT
703617 AATAT-TATTAAAATATTAAA
1 AATATATATT-AAATATTAAA
703637 AATATAATATTAAA-A-TAAA
1 AATAT-ATATTAAATATTAAA
* *
703656 AATATTATATTATATTTTTAAA
1 AATA-TATATTA-AATATTAAA
703678 GAATATATATTAAATATT
1 -AATATATATTAAATATT
703696 CAACAATTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
19 14 0.29
20 8 0.17
21 7 0.15
22 15 0.31
23 4 0.08
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (20 bp):
AATATATATTAAATATTAAA
Found at i:703659 original size:14 final size:14
Alignment explanation
Indices: 703625--703662 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
703615 GTAATATTAT
703625 TAAAATATTAAAAA
1 TAAAATATTAAAAA
*
703639 TATAATATT-AAAA
1 TAAAATATTAAAAA
703652 TAAAAATATTA
1 T-AAAATATTA
703663 TATTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAAATATTAAAAA
Found at i:703791 original size:47 final size:42
Alignment explanation
Indices: 703733--703838 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 42
703723 AAATTAATAA
* *
703733 ATAATATTATTTTTTAATAATTTATTATATATTATTAA-AATAAAACT
1 ATAATATTATTTATT-AT-A-TTAATATA-ATTA-TAACAATAAAA-T
703780 ATAATATTATTTATTATATTAATATAATTATAACAATAAAAT
1 ATAATATTATTTATTATATTAATATAATTATAACAATAAAAT
*
703822 ATTATATTATATTATTA
1 ATAATATTAT-TTATTA
703839 AAATTATCAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
42 13 0.24
43 17 0.31
44 7 0.13
45 1 0.02
46 2 0.04
47 14 0.26
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (42 bp):
ATAATATTATTTATTATATTAATATAATTATAACAATAAAAT
Found at i:703834 original size:35 final size:32
Alignment explanation
Indices: 703787--703861 Score: 87
Period size: 35 Copynumber: 2.2 Consensus size: 32
703777 ACTATAATAT
*
703787 TATTTATTATATTAATATAATTATAACAATAAAA
1 TATTTATTATATTAATAAAATTAT--CAATAAAA
*
703821 TATTATATTATATTATTAAAATTATCAATAAATA
1 TATT-TATTATATTAATAAAATTATCAATAAA-A
703855 TAATTTA
1 T-ATTTA
703862 ATAACTAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
33 7 0.19
34 8 0.22
35 21 0.58
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (32 bp):
TATTTATTATATTAATAAAATTATCAATAAAA
Found at i:707199 original size:2 final size:2
Alignment explanation
Indices: 707192--707221 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
707182 CCTAATTGAA
707192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
707222 GGGGTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:708353 original size:17 final size:17
Alignment explanation
Indices: 708331--708371 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
708321 AGGTAACACC
708331 TTTGGTCAAATTACGAT
1 TTTGGTCAAATTACGAT
*
708348 TTTGGTCAAATTACGGT
1 TTTGGTCAAATTACGAT
708365 TTTGGTC
1 TTTGGTC
708372 CTTGATCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.44
Consensus pattern (17 bp):
TTTGGTCAAATTACGAT
Found at i:710064 original size:20 final size:18
Alignment explanation
Indices: 710031--710076 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
710021 GGTTATTTCA
*
710031 AAATGTTTATTTTTTAATAT
1 AAAT-TTTAATTTTTAA-AT
710051 ATAATTTTAATTTTTAAAT
1 A-AATTTTAATTTTTAAAT
710070 AAATTTT
1 AAATTTT
710077 TTAAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.25
19 3 0.12
20 12 0.50
21 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
AAATTTTAATTTTTAAAT
Found at i:711926 original size:2 final size:2
Alignment explanation
Indices: 711919--711948 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
711909 TCTATAACCA
711919 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
711949 TTCTTCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:724925 original size:548 final size:547
Alignment explanation
Indices: 723882--724976 Score: 1917
Period size: 548 Copynumber: 2.0 Consensus size: 547
723872 TCCATAGATG
723882 AGTATTTGCATGGATAGATTAAACAATATCTTTACCATAGAAGATCTGTTGAATTCCTGCTGCAT
1 AGTATTTGCATGGATAGATTAAACAATATCTTTACCATAGAAGATCTGTTGAATTCCTGCTGCAT
*
723947 ATCTGTCCAGTTGTGAAGTCATGAATGATAGAGCAAGATTTTCTGTTCTTTTTTCTTAAGTTCTA
66 ATCTGTCCAGTTGTGAAGTCATGAATGATAGAGCAAGATTTTCTGTTCTTTTCTCTTAAGTTCTA
* ** *
724012 ATGTTTTCACTATGCTAACTGGTTCTATGCTCTCCAGCGCACTTTTCCTTGTTTTAAAATGAATA
131 ATGTGTTCACTACACTAACTGGTTCCATGCTCTCCAGCGCACTTTTCCTTGTTTTAAAATGAATA
*
724077 TTATGAGGATCTTGCCGCAGCCAGTTTCTTCTGTTTACACTTGTAGTATTTTTGGGGTTCCCATT
196 TTATGAGGATCTTGCCGCAGCCAGTTTCTTCTGTTTACACTTGAAGTATTTTTGGGGTTCCCATT
*
724142 GTAATTTGTTATGATAGTGCAGAAGAGGAAGCAACAAAACACAAAGGCAGTCCCAAAAGAGAGAA
261 GTAATTTGATATGATAGTGCAGAAGAGGAAGCAACAAAACACAAAGGCAGTCCCAAAAGAGAGAA
* * *
724207 AACTGGTTCTATTGAAAGTGGATCAGCCTCAACACAGATAGAGGAAGCACACAATGTAATTTTAA
326 AACTGGTTCTATTAAAAGTGGATCAACCTCAACACAGATAGAGGAAACACACAATGTAATTTTAA
*
724272 GAGGAAGAACTTCAGAACAAGAAGAAAAAACGGTGGAGCATCAAGGTAGAATATTGCCTATGCCT
391 GAGGAAGAACTTCAGAACAAGAAGAAAAAACGATGGAGCATCAAGGTAGAATATTGCCTATGCCT
724337 GATATGAATTCTTCTTGTTTTGCACGTTTCCGTCCCTGTATACAAGTTTACATTTGGAAATTGCA
456 GATATGAATTCTTCTTGTTTTGCACGTTTCCGTCCCTGTATACAAGTTTACATTTGGAAATTGCA
* *
724402 GATCAGAAATTCTGCCGATAGTTCTGT
521 GATAAGAAATTCTGCCGATAATTCTGT
*
724429 AGTATTCT-CATGGATAGATTAAACAATTTCTTTACCATAGAAGATCTGTTGAATTCCTGCTGCA
1 AGTATT-TGCATGGATAGATTAAACAATATCTTTACCATAGAAGATCTGTTGAATTCCTGCTGCA
* **
724493 TATCTGTCCAGTTGTGAAGTCATGAATGATTAGAGCATGATTTTCTGTTCTTTTCTCTTTTGTTC
65 TATCTGTCCAGTTGTGAAGTCATGAATGA-TAGAGCAAGATTTTCTGTTCTTTTCTCTTAAGTTC
*
724558 TAATGTGTTCACTACACTAACTGGTTCCATGCTCTCCAGCGCACTTTTCCTTGTTTTACAATGAA
129 TAATGTGTTCACTACACTAACTGGTTCCATGCTCTCCAGCGCACTTTTCCTTGTTTTAAAATGAA
* *
724623 TATTATTAGGGTCTTGCCGCAGCCAGTTTCTTCTGTTTACACTT-AAGGTATTTTTGGGGTTCCC
194 TATTATGAGGATCTTGCCGCAGCCAGTTTCTTCTGTTTACACTTGAA-GTATTTTTGGGGTTCCC
* *
724687 ATTGTAATTTGATATTATGGTGCAGAAGAGGAAGCAACAAAACACAAAGGCAGTCCCAAAAGAGA
258 ATTGTAATTTGATATGATAGTGCAGAAGAGGAAGCAACAAAACACAAAGGCAGTCCCAAAAGAGA
724752 GAAAACTGGTTCTATTAAAAGTGGATCAACCTCAACACAGATAGAGGAAACACACAATGTAATTT
323 GAAAACTGGTTCTATTAAAAGTGGATCAACCTCAACACAGATAGAGGAAACACACAATGTAATTT
*
724817 TAAGAGGAAGTACTTCAGAACAAGAAGAAAAAACGATGGAGCATCAAGGTAGAATATTGCCTATG
388 TAAGAGGAAGAACTTCAGAACAAGAAGAAAAAACGATGGAGCATCAAGGTAGAATATTGCCTATG
*
724882 CCTGATATGAATTCTTCTTGTTTTGCATGATTT-CGTCCCTGTATACAAGTTTACATTTGGAAAT
453 CCTGATATGAATTCTTCTTGTTTTGCACG-TTTCCGTCCCTGTATACAAGTTTACATTTGGAAAT
724946 TGCAGATAAGAAATTCTGCCGATAATTCTGT
517 TGCAGATAAGAAATTCTGCCGATAATTCTGT
724977 TGTTATATAA
Statistics
Matches: 520, Mismatches: 24, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
547 91 0.17
548 426 0.82
549 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (547 bp):
AGTATTTGCATGGATAGATTAAACAATATCTTTACCATAGAAGATCTGTTGAATTCCTGCTGCAT
ATCTGTCCAGTTGTGAAGTCATGAATGATAGAGCAAGATTTTCTGTTCTTTTCTCTTAAGTTCTA
ATGTGTTCACTACACTAACTGGTTCCATGCTCTCCAGCGCACTTTTCCTTGTTTTAAAATGAATA
TTATGAGGATCTTGCCGCAGCCAGTTTCTTCTGTTTACACTTGAAGTATTTTTGGGGTTCCCATT
GTAATTTGATATGATAGTGCAGAAGAGGAAGCAACAAAACACAAAGGCAGTCCCAAAAGAGAGAA
AACTGGTTCTATTAAAAGTGGATCAACCTCAACACAGATAGAGGAAACACACAATGTAATTTTAA
GAGGAAGAACTTCAGAACAAGAAGAAAAAACGATGGAGCATCAAGGTAGAATATTGCCTATGCCT
GATATGAATTCTTCTTGTTTTGCACGTTTCCGTCCCTGTATACAAGTTTACATTTGGAAATTGCA
GATAAGAAATTCTGCCGATAATTCTGT
Found at i:727254 original size:29 final size:29
Alignment explanation
Indices: 727164--727255 Score: 107
Period size: 30 Copynumber: 3.2 Consensus size: 29
727154 GTTTGACTAG
* *
727164 TTTAGGTATTTATTTT-AGC-ATAAAATAC
1 TTTAGGTACTTATTTTGA-CAAAAAAATAC
* *
727192 TTTATGTACTTATTTTGACAAAAAAATAAT
1 TTTAGGTACTTATTTTGACAAAAAAAT-AC
*
727222 TTTAGGTACTTATTTTGATAAAAAAATAC
1 TTTAGGTACTTATTTTGACAAAAAAATAC
727251 TTTAG
1 TTTAG
727256 ATATTTAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
28 15 0.28
29 13 0.24
30 26 0.48
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.45
Consensus pattern (29 bp):
TTTAGGTACTTATTTTGACAAAAAAATAC
Found at i:727786 original size:29 final size:30
Alignment explanation
Indices: 727754--727822 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
727744 ATTATCTTTA
727754 TTTTGTTTTAACTTATTAAATAT-TTTAT-T
1 TTTTGTTTTAACTTATTAAATATATTT-TGT
* *
727783 TTTTGTCTTAATTTATTAAATATATTTTGT
1 TTTTGTTTTAACTTATTAAATATATTTTGT
*
727813 TTTTATTTTA
1 TTTTGTTTTA
727823 TTGTAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.65
30 12 0.35
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.67
Consensus pattern (30 bp):
TTTTGTTTTAACTTATTAAATATATTTTGT
Found at i:727951 original size:31 final size:31
Alignment explanation
Indices: 727901--727967 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
727891 ATATATTTAA
*
727901 ATATTTTACTATTAATTT-AATATAAAAATAT
1 ATATATTACTATTAATTTAAAT-TAAAAATAT
* * *
727932 ATATATTACTCTTATTTTAAATTAAAAGTAT
1 ATATATTACTATTAATTTAAATTAAAAATAT
727963 ATATA
1 ATATA
727968 ATATTTTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 28 0.90
32 3 0.10
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (31 bp):
ATATATTACTATTAATTTAAATTAAAAATAT
Found at i:732831 original size:21 final size:22
Alignment explanation
Indices: 732807--732850 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
732797 ATTAAAATAA
*
732807 TTTGTAAA-TTAATTTAATAGT
1 TTTGGAAAGTTAATTTAATAGT
* *
732828 TTTGGAAAGTTATTTTAGTAGT
1 TTTGGAAAGTTAATTTAATAGT
732850 T
1 T
732851 CCAAAGTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (22 bp):
TTTGGAAAGTTAATTTAATAGT
Found at i:732990 original size:60 final size:60
Alignment explanation
Indices: 732916--733073 Score: 192
Period size: 60 Copynumber: 2.6 Consensus size: 60
732906 CTCTTATTTC
*** *
732916 AAATTAG-CCTTTAAACTTTTAAATATTTCAATTTCATCTTTAAACTATGACTCTCATTCT
1 AAATTAGTCC-TTAAACTTTTAAATATTTCAATTTCATCCCCAAACTATGAATCTCATTCT
* * * *
732976 ATATTAGTCCTTAAACTTTTGAACATTTGAATTTCATCCCCAAACTATGAATCTCATTCT
1 AAATTAGTCCTTAAACTTTTAAATATTTCAATTTCATCCCCAAACTATGAATCTCATTCT
* * * *
733036 AAATTGGTCCCTAAACTTTTAGATATTTTAATTTCATC
1 AAATTAGTCCTTAAACTTTTAAATATTTCAATTTCATC
733074 GTCAAATTCA
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
60 80 0.98
61 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (60 bp):
AAATTAGTCCTTAAACTTTTAAATATTTCAATTTCATCCCCAAACTATGAATCTCATTCT
Found at i:734210 original size:14 final size:14
Alignment explanation
Indices: 734191--734222 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
734181 ACTTTCTCCA
734191 TAACATTAAAAAAT
1 TAACATTAAAAAAT
*
734205 TAACATTAAAAGAT
1 TAACATTAAAAAAT
734219 TAAC
1 TAAC
734223 GTATTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.28
Consensus pattern (14 bp):
TAACATTAAAAAAT
Found at i:749606 original size:42 final size:42
Alignment explanation
Indices: 749526--749662 Score: 183
Period size: 42 Copynumber: 3.3 Consensus size: 42
749516 TGTTGCAACC
* * *
749526 GCTGCTGCTGCAGCGGCTGCTT-TGGCTGTTGTC--T-TTGCT
1 GCTGCTGCTGCTGCGAC-GGTTGTGGCTGTTGTCTTTGTTGCT
749565 GCTGCTGCTGCTGCGACGGTTGTGGCTGTTGTCTTTGTTGCT
1 GCTGCTGCTGCTGCGACGGTTGTGGCTGTTGTCTTTGTTGCT
* *
749607 GCTGCTGCTGCTGCAACGGTTGTGGCTGTTGTCTTTGTTGTT
1 GCTGCTGCTGCTGCGACGGTTGTGGCTGTTGTCTTTGTTGCT
*
749649 GTTGCTGCTGCTGC
1 GCTGCTGCTGCTGC
749663 TGTAGGGATG
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
38 3 0.03
39 26 0.30
41 1 0.01
42 58 0.66
ACGTcount: A:0.03, C:0.23, G:0.34, T:0.40
Consensus pattern (42 bp):
GCTGCTGCTGCTGCGACGGTTGTGGCTGTTGTCTTTGTTGCT
Found at i:759805 original size:16 final size:16
Alignment explanation
Indices: 759786--759817 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
759776 TTATTTGTAC
*
759786 TCTTCGTAATTTCTAT
1 TCTTCATAATTTCTAT
759802 TCTTCATAATTTCTAT
1 TCTTCATAATTTCTAT
759818 ATTTATTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.19, G:0.03, T:0.56
Consensus pattern (16 bp):
TCTTCATAATTTCTAT
Found at i:761465 original size:4 final size:4
Alignment explanation
Indices: 761456--761521 Score: 87
Period size: 4 Copynumber: 16.5 Consensus size: 4
761446 TATGGTAATT
* * *
761456 TGTA TGTA TGTA CGTA TGTA TATA CGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* *
761504 TGTA CGTA TATA TGTA TG
1 TGTA TGTA TGTA TGTA TG
761522 AAGATGCATG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.27, C:0.05, G:0.23, T:0.45
Consensus pattern (4 bp):
TGTA
Found at i:763018 original size:2 final size:2
Alignment explanation
Indices: 763011--763035 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
763001 AACCTGATTA
763011 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
763036 AAATACTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:763083 original size:20 final size:17
Alignment explanation
Indices: 763060--763139 Score: 74
Period size: 17 Copynumber: 4.5 Consensus size: 17
763050 TTTATTTTTA
763060 TATTATTAAAAATAT-T
1 TATTATTAAAAATATAT
763076 ATATTATTAAAAATATAATT
1 -TATTATTAAAAATAT-A-T
763096 TAATTATTAAAAATATAT
1 T-ATTATTAAAAATATAT
* * *
763114 AAATATTATAAAATACAT
1 TATTATTA-AAAATATAT
763132 TATT-TTAA
1 TATTATTAA
763140 CCGTTTAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
16 1 0.02
17 24 0.45
18 11 0.21
19 2 0.04
20 15 0.28
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTATTAAAAATATAT
Found at i:763103 original size:37 final size:39
Alignment explanation
Indices: 763056--763128 Score: 107
Period size: 37 Copynumber: 1.9 Consensus size: 39
763046 GAATTTTATT
*
763056 TTTATATTATTAAAAATAT-TATATTATTA-AAAATATAA
1 TTTATATTATTAAAAATATATA-AATATTATAAAATATAA
763094 TTTA-ATTATTAAAAATATATAAATATTATAAAATA
1 TTTATATTATTAAAAATATATAAATATTATAAAATA
763129 CATTATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 20 0.62
38 12 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (39 bp):
TTTATATTATTAAAAATATATAAATATTATAAAATATAA
Found at i:763120 original size:17 final size:17
Alignment explanation
Indices: 763061--763128 Score: 75
Period size: 17 Copynumber: 3.8 Consensus size: 17
763051 TTATTTTTAT
763061 ATTATTAAAAATAT-TA
1 ATTATTAAAAATATATA
763077 TATTATTAAAAATATAATTTA
1 -ATTATTAAAAATAT-A--TA
763098 ATTATTAAAAATATATA
1 ATTATTAAAAATATATA
*
763115 AATATTATAAAATA
1 ATTATTA-AAAATA
763129 CATTATTTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
17 22 0.49
18 6 0.13
19 1 0.02
20 14 0.31
21 2 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTATTAAAAATATATA
Found at i:763173 original size:15 final size:15
Alignment explanation
Indices: 763153--763193 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
763143 TTTAAAATAT
763153 AATAAATTATTATAA
1 AATAAATTATTATAA
763168 AATAAATTATTATAA
1 AATAAATTATTATAA
763183 AATAAATTATT
1 AATAAATTATT
763194 TAATTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATAAATTATTATAA
Found at i:763742 original size:3 final size:3
Alignment explanation
Indices: 763734--763781 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
763724 TTTCCTTCAT
763734 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
763782 GATAACATAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:763832 original size:3 final size:3
Alignment explanation
Indices: 763824--763942 Score: 231
Period size: 3 Copynumber: 40.0 Consensus size: 3
763814 CTGCGATTGC
763824 ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
763871 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
763919 ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
763943 TCGAGTAATT
Statistics
Matches: 115, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 113 0.98
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:766534 original size:13 final size:14
Alignment explanation
Indices: 766516--766551 Score: 65
Period size: 13 Copynumber: 2.6 Consensus size: 14
766506 ATTTTTTGGA
766516 CAAAGTCAACG-GT
1 CAAAGTCAACGAGT
766529 CAAAGTCAACGAGT
1 CAAAGTCAACGAGT
766543 CAAAGTCAA
1 CAAAGTCAA
766552 TAGGTTGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.14
Consensus pattern (14 bp):
CAAAGTCAACGAGT
Found at i:770914 original size:22 final size:22
Alignment explanation
Indices: 770886--770930 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
770876 ATACATCCTT
770886 AACCTGCTTAAAGAAGCCATAC
1 AACCTGCTTAAAGAAGCCATAC
770908 AACCTGCTTAAAGAAGCCATAC
1 AACCTGCTTAAAGAAGCCATAC
770930 A
1 A
770931 CCAATGAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.27, G:0.13, T:0.18
Consensus pattern (22 bp):
AACCTGCTTAAAGAAGCCATAC
Found at i:772873 original size:20 final size:20
Alignment explanation
Indices: 772848--772895 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
772838 TAATCTAGAG
772848 CATTTTAATCTTTAATGTTT
1 CATTTTAATCTTTAATGTTT
772868 CATTTTAATCTTTAATGTTT
1 CATTTTAATCTTTAATGTTT
772888 CATTTTAA
1 CATTTTAA
772896 GGTAAAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.27, C:0.10, G:0.04, T:0.58
Consensus pattern (20 bp):
CATTTTAATCTTTAATGTTT
Found at i:773618 original size:21 final size:21
Alignment explanation
Indices: 773569--773612 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
773559 AGAATCGTGT
773569 GGGATTGCGATTTTCATCCTA
1 GGGATTGCGATTTTCATCCTA
773590 GGGATTGCGATTTTCATCCTA
1 GGGATTGCGATTTTCATCCTA
773611 GG
1 GG
773613 ATTTGCAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.36
Consensus pattern (21 bp):
GGGATTGCGATTTTCATCCTA
Found at i:775678 original size:21 final size:21
Alignment explanation
Indices: 775654--775698 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
775644 TGTGATTTAA
* *
775654 AAAAATGAAAGTTTAGGTACT
1 AAAAAGGAAAGTTTAAGTACT
* *
775675 AAAACGGATAGTTTAAGTACT
1 AAAAAGGAAAGTTTAAGTACT
775696 AAA
1 AAA
775699 TGCATAGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.27
Consensus pattern (21 bp):
AAAAAGGAAAGTTTAAGTACT
Found at i:775707 original size:20 final size:21
Alignment explanation
Indices: 775663--775709 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
775653 AAAAAATGAA
* *
775663 AGTTTAGGTACTAAAACGGAT
1 AGTTTAAGTACTAAAACGCAT
*
775684 AGTTTAAGTACT-AAATGCAT
1 AGTTTAAGTACTAAAACGCAT
775704 AGTTTA
1 AGTTTA
775710 CCCTGTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (21 bp):
AGTTTAAGTACTAAAACGCAT
Found at i:777279 original size:40 final size:40
Alignment explanation
Indices: 777235--777395 Score: 304
Period size: 40 Copynumber: 4.0 Consensus size: 40
777225 AACATGGAGC
777235 TCGAATCCTCTACTAGTTTTTAAGTATTCTCGCACTCGGT
1 TCGAATCCTCTACTAGTTTTTAAGTATTCTCGCACTCGGT
777275 TCGAATCCTCTACTAGTTTTTAAGTATTCTCGCACTCGGT
1 TCGAATCCTCTACTAGTTTTTAAGTATTCTCGCACTCGGT
* *
777315 TCGAATCCTCTACTAGTTTTTAAGTATTCTAGCACTCAGT
1 TCGAATCCTCTACTAGTTTTTAAGTATTCTCGCACTCGGT
777355 TCGAATCCTCTACTAGTTTTTAAGTATTCTCGCACTCGGT
1 TCGAATCCTCTACTAGTTTTTAAGTATTCTCGCACTCGGT
777395 T
1 T
777396 TGCCAAATAG
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 117 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (40 bp):
TCGAATCCTCTACTAGTTTTTAAGTATTCTCGCACTCGGT
Found at i:779355 original size:60 final size:59
Alignment explanation
Indices: 779291--779441 Score: 162
Period size: 60 Copynumber: 2.5 Consensus size: 59
779281 TTGCATTATA
* **
779291 TATCCTCAAACTATGACCTTCATTCTATATTGG-ACCTTAAAATTTTAAACATTTTAAATT
1 TATCC-CAAACTATGACCTTCATTCTAAATTGGTA-CTTAAAATTTTAAACATTCCAAATT
* * *
779351 TATCCCTAAACTATGA-ATATCATTTTAAATTGGTACTTAAACTTTTAAACATTCCAAATT
1 TATCCC-AAACTATGACCT-TCATTCTAAATTGGTACTTAAAATTTTAAACATTCCAAATT
* * *
779411 CATTCCCAAACTATGACCCTCATTTTAAATT
1 TA-TCCCAAACTATGACCTTCATTCTAAATT
779442 ATTCCCCAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
59 2 0.03
60 70 0.91
61 5 0.06
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.40
Consensus pattern (59 bp):
TATCCCAAACTATGACCTTCATTCTAAATTGGTACTTAAAATTTTAAACATTCCAAATT
Found at i:779617 original size:60 final size:60
Alignment explanation
Indices: 779538--779681 Score: 150
Period size: 60 Copynumber: 2.4 Consensus size: 60
779528 GGGATCAATA
* * * *
779538 TAGAATTAGGGTCATAGTTTGAGGATG-GATTCAGAATGTTAAAAAATTT-GGAGACTAATT
1 TAGAATGAGAGTCATAGTTTGAGGATGAAAAT-AGAATGTTAAAAAATTTAGGA-ACTAATT
* * *
779598 TAGGATGAGAGTCATAGTTT-AGGGATGAAAATAGAATGTTCAAAAGTTTAGGAACTAATT
1 TAGAATGAGAGTCATAGTTTGA-GGATGAAAATAGAATGTTAAAAAATTTAGGAACTAATT
* * *
779658 TAGAATGATAATCGTAGTTTGAGG
1 TAGAATGAGAGTCATAGTTTGAGG
779682 CTGTATAGTG
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
59 1 0.01
60 62 0.90
61 6 0.09
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.32
Consensus pattern (60 bp):
TAGAATGAGAGTCATAGTTTGAGGATGAAAATAGAATGTTAAAAAATTTAGGAACTAATT
Found at i:781108 original size:2 final size:2
Alignment explanation
Indices: 781101--781131 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
781091 AAATTTTGTA
781101 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
781132 AATTTTATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:781345 original size:20 final size:20
Alignment explanation
Indices: 781317--781369 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
781307 TATTCTTTGG
*
781317 TAATTTTATATTCTCACTGA
1 TAATCTTATATTCTCACTGA
*
781337 TAATCTTATATTCTCATTGA
1 TAATCTTATATTCTCACTGA
781357 TAATCTTATATTC
1 TAATCTTATATTC
781370 GGTTAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (20 bp):
TAATCTTATATTCTCACTGA
Found at i:781673 original size:159 final size:159
Alignment explanation
Indices: 781384--781696 Score: 626
Period size: 159 Copynumber: 2.0 Consensus size: 159
781374 AATTAAACCA
781384 CCTTAAAAAGAAAGAAAAGCTAAAGGAGCGGTTTTTCTACGTCAAAAAGCTAAACATCTTTTCAT
1 CCTTAAAAAGAAAGAAAAGCTAAAGGAGCGGTTTTTCTACGTCAAAAAGCTAAACATCTTTTCAT
781449 TCACATCTTGTAGTACAGCTGCGACACTTTCTTTTTGGATGCCGAGAAAAGGAAAGAAAGAAAAT
66 TCACATCTTGTAGTACAGCTGCGACACTTTCTTTTTGGATGCCGAGAAAAGGAAAGAAAGAAAAT
781514 CGTCTTCTCTTCCTTTTTCTACTGACACT
131 CGTCTTCTCTTCCTTTTTCTACTGACACT
781543 CCTTAAAAAGAAAGAAAAGCTAAAGGAGCGGTTTTTCTACGTCAAAAAGCTAAACATCTTTTCAT
1 CCTTAAAAAGAAAGAAAAGCTAAAGGAGCGGTTTTTCTACGTCAAAAAGCTAAACATCTTTTCAT
781608 TCACATCTTGTAGTACAGCTGCGACACTTTCTTTTTGGATGCCGAGAAAAGGAAAGAAAGAAAAT
66 TCACATCTTGTAGTACAGCTGCGACACTTTCTTTTTGGATGCCGAGAAAAGGAAAGAAAGAAAAT
781673 CGTCTTCTCTTCCTTTTTCTACTG
131 CGTCTTCTCTTCCTTTTTCTACTG
781697 CTGACACTCA
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
159 154 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (159 bp):
CCTTAAAAAGAAAGAAAAGCTAAAGGAGCGGTTTTTCTACGTCAAAAAGCTAAACATCTTTTCAT
TCACATCTTGTAGTACAGCTGCGACACTTTCTTTTTGGATGCCGAGAAAAGGAAAGAAAGAAAAT
CGTCTTCTCTTCCTTTTTCTACTGACACT
Found at i:782688 original size:92 final size:92
Alignment explanation
Indices: 782531--782715 Score: 370
Period size: 92 Copynumber: 2.0 Consensus size: 92
782521 TGATGAAAAT
782531 CGCACCTCGACGCAGATAGTAGACGGAAGCTTGGGATTTGGAGATCTGGGCCTGCAGTTTAATGT
1 CGCACCTCGACGCAGATAGTAGACGGAAGCTTGGGATTTGGAGATCTGGGCCTGCAGTTTAATGT
782596 GGATGTTCATTCCTCTGGCTCGGTGAG
66 GGATGTTCATTCCTCTGGCTCGGTGAG
782623 CGCACCTCGACGCAGATAGTAGACGGAAGCTTGGGATTTGGAGATCTGGGCCTGCAGTTTAATGT
1 CGCACCTCGACGCAGATAGTAGACGGAAGCTTGGGATTTGGAGATCTGGGCCTGCAGTTTAATGT
782688 GGATGTTCATTCCTCTGGCTCGGTGAG
66 GGATGTTCATTCCTCTGGCTCGGTGAG
782715 C
1 C
782716 CATCAAGTTG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.19, C:0.21, G:0.32, T:0.27
Consensus pattern (92 bp):
CGCACCTCGACGCAGATAGTAGACGGAAGCTTGGGATTTGGAGATCTGGGCCTGCAGTTTAATGT
GGATGTTCATTCCTCTGGCTCGGTGAG
Found at i:789781 original size:6 final size:6
Alignment explanation
Indices: 789772--789796 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
789762 AATAAAAACC
789772 CAAAAT CAAAAT CAAAAT CAAAAT C
1 CAAAAT CAAAAT CAAAAT CAAAAT C
789797 CGATAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.20, G:0.00, T:0.16
Consensus pattern (6 bp):
CAAAAT
Found at i:800336 original size:10 final size:9
Alignment explanation
Indices: 800313--800337 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
800303 AAATGTGCTT
800313 CAAAAAGTG
1 CAAAAAGTG
800322 CAAAAAGTG
1 CAAAAAGTG
800331 CAAAAAG
1 CAAAAAG
800338 AAAAGGGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.12, G:0.20, T:0.08
Consensus pattern (9 bp):
CAAAAAGTG
Found at i:800501 original size:30 final size:29
Alignment explanation
Indices: 800442--800510 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
800432 CTTTTTCATT
* *
800442 TAAATATTTAAAGTAATTTTTTATTAAAA
1 TAAATACTTAAAGTAATTTTTTATCAAAA
*
800471 TAAATACTTAAAGTTATTTTTTGGA-CAAAA
1 TAAATACTTAAAGTAATTTTTT--ATCAAAA
*
800501 TAGATACTTA
1 TAAATACTTA
800511 TATTTAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 20 0.59
30 13 0.38
31 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (29 bp):
TAAATACTTAAAGTAATTTTTTATCAAAA
Found at i:800664 original size:30 final size:29
Alignment explanation
Indices: 800596--800685 Score: 101
Period size: 30 Copynumber: 3.1 Consensus size: 29
800586 GAAAAAGTTT
* * *
800596 AAATAGTTTATGTACCTATTTTGA-TATA
1 AAATACTTTAGGTACCTATTTTGACTAAA
*
800624 AAATACTTTAGGTACCCATTTTGACTAAA
1 AAATACTTTAGGTACCTATTTTGACTAAA
** *
800653 AAATAACTTTAGGTATTTATTTTGACCAAA
1 AAAT-ACTTTAGGTACCTATTTTGACTAAA
800683 AAA
1 AAA
800686 ATGCTTTAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 21 0.40
29 7 0.13
30 24 0.46
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (29 bp):
AAATACTTTAGGTACCTATTTTGACTAAA
Found at i:800693 original size:30 final size:29
Alignment explanation
Indices: 800596--800698 Score: 82
Period size: 30 Copynumber: 3.5 Consensus size: 29
800586 GAAAAAGTTT
* * * * *
800596 AAATAGTTTATGTACCTATTTTGA-TATA
1 AAATACTTTAGGTACCCATTTTGACAAAA
*
800624 AAATACTTTAGGTACCCATTTTGACTAAA
1 AAATACTTTAGGTACCCATTTTGACAAAA
***
800653 AAATAACTTTAGGTATTTATTTTGACCAAAA
1 AAAT-ACTTTAGGTACCCATTTTGA-CAAAA
* *
800684 AAATGCTTTAAGTAC
1 AAATACTTTAGGTAC
800699 TTAAATGAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 21 0.34
29 7 0.11
30 25 0.41
31 8 0.13
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.39
Consensus pattern (29 bp):
AAATACTTTAGGTACCCATTTTGACAAAA
Found at i:806170 original size:60 final size:60
Alignment explanation
Indices: 806040--806177 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 60
806030 ATAGTCGGGT
* * *
806040 GACCAATTTGTAACTTTTAATAGTCAAGGAACTCAATAAAGCAACATTCTACAGTCAAAT
1 GACCAATTTGTAACTTTTAATAGTCAAGGAACTCAACAAAGCAACATCCTACAGTCAAAG
* * * * * * * **
806100 GATCATTTTGTAACTTTTAATAGTCAATGAACTTAACAAAGTAATATCCTATAGTCATGG
1 GACCAATTTGTAACTTTTAATAGTCAAGGAACTCAACAAAGCAACATCCTACAGTCAAAG
806160 GACCAATTTGTATACTTT
1 GACCAATTTGTA-ACTTT
806178 ATCCCTTTTT
Statistics
Matches: 63, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
60 58 0.92
61 5 0.08
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (60 bp):
GACCAATTTGTAACTTTTAATAGTCAAGGAACTCAACAAAGCAACATCCTACAGTCAAAG
Found at i:807029 original size:39 final size:39
Alignment explanation
Indices: 806981--807091 Score: 156
Period size: 39 Copynumber: 2.8 Consensus size: 39
806971 TTATTTATAA
*
806981 TTCTCAAATTATTTCACTCTAACATTCTAAATTCTTAAT
1 TTCTTAAATTATTTCACTCTAACATTCTAAATTCTTAAT
*
807020 TTCTTAAATT-TTGCCAC-CATAACATTCTAAATTCTTAAT
1 TTCTTAAATTATT-TCACTC-TAACATTCTAAATTCTTAAT
807059 TTCTTAAATTATTTCACAT-TAACATTCTAAATT
1 TTCTTAAATTATTTCAC-TCTAACATTCTAAATT
807092 ATTTTTTAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
38 3 0.05
39 59 0.92
40 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.01, T:0.46
Consensus pattern (39 bp):
TTCTTAAATTATTTCACTCTAACATTCTAAATTCTTAAT
Found at i:814162 original size:167 final size:167
Alignment explanation
Indices: 813886--814203 Score: 564
Period size: 167 Copynumber: 1.9 Consensus size: 167
813876 ACTTAAACGT
* ** *
813886 CACATGAACATGGTTCTTTGGTACATAGGAACTCCAGTCATTTGTTGTGAAGTTCATTTTCCTTT
1 CACATGAACATGGTTCTCTGGTACATAAAAACTCCAGTCATTTGTTGTGAAGTACATTTTCCTTT
* * *
813951 CGACATTTCGGATTTCTTCGTTTTGTGCTAGTCGGAGAAGTGTATTAGGTAAGGCAATTGAAAGG
66 CGACATTTCCGATTTCTTCGGTTTGTGCTAGTCGGAGAAGTGTATTAGGCAAGGCAATTGAAAGG
814016 GATGTGCAACGATCAGTGTTTTCTAGAGCTTAACTAC
131 GATGTGCAACGATCAGTGTTTTCTAGAGCTTAACTAC
814053 CACATGAACATGGTTCTCTGGTACATAAAAACTCCAGTCATTTGTTGTGAAGTACATTTTCCTTT
1 CACATGAACATGGTTCTCTGGTACATAAAAACTCCAGTCATTTGTTGTGAAGTACATTTTCCTTT
*
814118 CGACATTTCCGATTTCTTCGGTTTGTGCTAGTCGGAGAAGTGTATTAGGCAAGGGAATTGAAAGG
66 CGACATTTCCGATTTCTTCGGTTTGTGCTAGTCGGAGAAGTGTATTAGGCAAGGCAATTGAAAGG
814183 GATGTGCAACGATCAGTGTTT
131 GATGTGCAACGATCAGTGTTT
814204 ATATCTCATT
Statistics
Matches: 143, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
167 143 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (167 bp):
CACATGAACATGGTTCTCTGGTACATAAAAACTCCAGTCATTTGTTGTGAAGTACATTTTCCTTT
CGACATTTCCGATTTCTTCGGTTTGTGCTAGTCGGAGAAGTGTATTAGGCAAGGCAATTGAAAGG
GATGTGCAACGATCAGTGTTTTCTAGAGCTTAACTAC
Found at i:819736 original size:14 final size:14
Alignment explanation
Indices: 819717--819764 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
819707 TAATCTAAAA
819717 AATTAATCATTTAT
1 AATTAATCATTTAT
**
819731 AATTAAAAATTTAT
1 AATTAATCATTTAT
819745 AGACTTAATCTATTTAT
1 A-A-TTAATC-ATTTAT
819762 AAT
1 AAT
819765 ATTATCAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
14 13 0.48
15 2 0.07
16 5 0.19
17 7 0.26
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (14 bp):
AATTAATCATTTAT
Found at i:830100 original size:22 final size:22
Alignment explanation
Indices: 830058--830102 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
830048 TAAATGTAAA
* * *
830058 CGAACATAAACGAATAGATTAT
1 CGAACATAAACAAACAAATTAT
830080 CGAACATAAACAAACAAATTAT
1 CGAACATAAACAAACAAATTAT
830102 C
1 C
830103 AAATGTTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.18, G:0.09, T:0.20
Consensus pattern (22 bp):
CGAACATAAACAAACAAATTAT
Found at i:833285 original size:3 final size:3
Alignment explanation
Indices: 833277--833308 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
833267 TATTTATTTT
833277 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
833309 TTACATGCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:834259 original size:11 final size:12
Alignment explanation
Indices: 834223--834268 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
834213 CGATTATATA
*
834223 TATATATATAAA
1 TATATATATAAT
* *
834235 TAT-TTTATATT
1 TATATATATAAT
834246 TATATAT-TAAT
1 TATATATATAAT
834257 TATATATATAAT
1 TATATATATAAT
834269 ATTTTCAGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TATATATATAAT
Found at i:837314 original size:21 final size:20
Alignment explanation
Indices: 837290--837328 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
837280 TCAATTAGAA
837290 TAAAA-TAATATTATAAATATT
1 TAAAATTAA-ATT-TAAATATT
837311 TAAAATTAAATTTAAATA
1 TAAAATTAAATTTAAATA
837329 AAAACTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 8 0.47
22 3 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAATTAAATTTAAATATT
Done.