Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008338.1 Hibiscus syriacus cultivar Beakdansim tig00111059_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: 2210178
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 12
Found at i:773691 original size:22 final size:22
Alignment explanation
Indices: 773664--773708 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
773654 AACGGTCAAC
773664 GGTCAACAGTCGGGTCGGGTCG
1 GGTCAACAGTCGGGTCGGGTCG
*
773686 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACAGTCGGGTCGGGTCG
773708 G
1 G
773709 ACCGGTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.11, C:0.22, G:0.49, T:0.18
Consensus pattern (22 bp):
GGTCAACAGTCGGGTCGGGTCG
Found at i:773750 original size:19 final size:19
Alignment explanation
Indices: 773709--773772 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
773699 GTCGGGTCGG
*
773709 ACCGGTCAAACCGATTC-A
1 ACCGGTCAAACCGGTTCGA
773727 GACCGGTCAAACCGGTTCGA
1 -ACCGGTCAAACCGGTTCGA
*
773747 ACCGGTTGAAACCGG-TCAGA
1 ACCGG-TCAAACCGGTTC-GA
773767 ACCGGT
1 ACCGGT
773773 TGAAAACCGG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
19 24 0.60
20 16 0.40
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCGA
Found at i:773760 original size:20 final size:21
Alignment explanation
Indices: 773735--773793 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
773725 CAGACCGGTC
773735 AAACCGGTTCGAACCGGTTG-
1 AAACCGGTTCGAACCGGTTGA
773755 AAACCGG-TCAGAACCGGTTGA
1 AAACCGGTTC-GAACCGGTTGA
*
773776 AAACCGGTT-AAACCGGTT
1 AAACCGGTTCGAACCGGTT
773794 TTCAGCAGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 2 0.06
20 25 0.71
21 7 0.20
22 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.19
Consensus pattern (21 bp):
AAACCGGTTCGAACCGGTTGA
Found at i:773772 original size:30 final size:28
Alignment explanation
Indices: 773728--773792 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 28
773718 ACCGATTCAG
773728 ACCGGTCAAACCGGTTCG-AACCGGTTGAA
1 ACCGGTCAAACCGGTT-GAAACCGGTT-AA
773757 ACCGGTCAGAACCGGTTGAAAACCGGTTAA
1 ACCGGTCA-AACCGGTTG-AAACCGGTTAA
773787 ACCGGT
1 ACCGGT
773793 TTTCAGCAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
29 9 0.27
30 16 0.48
31 8 0.24
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.17
Consensus pattern (28 bp):
ACCGGTCAAACCGGTTGAAACCGGTTAA
Found at i:780964 original size:7 final size:7
Alignment explanation
Indices: 780948--780978 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
780938 GTCAAAGAAA
*
780948 GTCAATG
1 GTCAACG
780955 GTCAACG
1 GTCAACG
780962 GTCAACG
1 GTCAACG
780969 GTCAACG
1 GTCAACG
780976 GTC
1 GTC
780979 GGGTCGGGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:780985 original size:5 final size:5
Alignment explanation
Indices: 780975--781015 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
780965 AACGGTCAAC
*
780975 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC
781016 AACGGTTGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 28 0.88
7 4 0.12
ACGTcount: A:0.05, C:0.22, G:0.54, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:781027 original size:27 final size:22
Alignment explanation
Indices: 780968--781034 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
780958 AACGGTCAAC
780968 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
780990 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
* *
781012 GGTCAACGGTTGGGTCTGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
781034 G
1 G
781035 ACCGGTCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.09, C:0.21, G:0.49, T:0.21
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:781047 original size:9 final size:9
Alignment explanation
Indices: 781035--781127 Score: 60
Period size: 9 Copynumber: 9.7 Consensus size: 9
781025 GTCTGGTCGG
781035 ACCGGTCAA
1 ACCGGTCAA
* *
781044 ACCGATTCAG
1 ACCG-GTCAA
781054 ACCGGTCAA
1 ACCGGTCAA
*
781063 ACCGGTTCGA
1 ACCGG-TCAA
*
781073 ACCGGTTGAA
1 ACCGG-TCAA
*
781083 ACTGGTCAA
1 ACCGGTCAA
781092 ACCGGTCAGA
1 ACCGGTCA-A
* *
781102 ATCGGTTGAAA
1 ACCGG-T-CAA
*
781113 ACCGGTTAA
1 ACCGGTCAA
781122 ACCGGT
1 ACCGGT
781128 TTTCAGCAGC
Statistics
Matches: 65, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
9 30 0.46
10 28 0.43
11 6 0.09
12 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (9 bp):
ACCGGTCAA
Found at i:781076 original size:19 final size:19
Alignment explanation
Indices: 781035--781128 Score: 68
Period size: 19 Copynumber: 4.8 Consensus size: 19
781025 GTCTGGTCGG
*
781035 ACCGGTCAAACCGATTC-A
1 ACCGGTCAAACCGGTTCGA
781053 GACCGGTCAAACCGGTTCGA
1 -ACCGGTCAAACCGGTTCGA
* * *
781073 ACCGGTTGAAACTGG-TCAA
1 ACCGG-TCAAACCGGTTCGA
*
781092 ACCGGTCAGAATCGGTT-GAAA
1 ACCGGTCA-AACCGGTTCG--A
*
781113 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
781129 TTCAGCAGCC
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
18 2 0.03
19 33 0.56
20 16 0.27
21 8 0.14
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.19
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCGA
Found at i:781089 original size:29 final size:31
Alignment explanation
Indices: 781054--781128 Score: 102
Period size: 29 Copynumber: 2.5 Consensus size: 31
781044 ACCGATTCAG
781054 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
* *
781083 ACTGGTCAAACCGG-TCAGAATCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
781113 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
781129 TTCAGCAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 2 0.05
29 22 0.56
30 14 0.36
31 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:782542 original size:14 final size:14
Alignment explanation
Indices: 782523--782558 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
782513 CTAGCATGAT
782523 ATAATAAAGACATA
1 ATAATAAAGACATA
* *
782537 ATAATAATGAGATA
1 ATAATAAAGACATA
782551 ATAATAAA
1 ATAATAAA
782559 ACCAAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.25
Consensus pattern (14 bp):
ATAATAAAGACATA
Found at i:783527 original size:14 final size:13
Alignment explanation
Indices: 783453--783529 Score: 55
Period size: 13 Copynumber: 5.8 Consensus size: 13
783443 ATAGAAAAAA
*
783453 TCAACGATCAAAG
1 TCAATGATCAAAG
* *
783466 TCAATGTTCAACG
1 TCAATGATCAAAG
* *
783479 ATCAATGGTTAAAG
1 -TCAATGATCAAAG
* * *
783493 TAAATGGTTAAAG
1 TCAATGATCAAAG
*
783506 TTAATGATCAACAG
1 TCAATGATCAA-AG
783520 TCAATGATCA
1 TCAATGATCA
783530 TTGGTCAACA
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
13 30 0.59
14 21 0.41
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (13 bp):
TCAATGATCAAAG
Found at i:784994 original size:28 final size:28
Alignment explanation
Indices: 784962--785018 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
784952 CATAAACCCC
784962 ATATCTCATTTAAAAATAATAAATAAGA
1 ATATCTCATTTAAAAATAATAAATAAGA
784990 ATATCTCATTTAAAAATAATAAATAAGA
1 ATATCTCATTTAAAAATAATAAATAAGA
785018 A
1 A
785019 AACCCCATAA
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:0.58, C:0.07, G:0.04, T:0.32
Consensus pattern (28 bp):
ATATCTCATTTAAAAATAATAAATAAGA
Found at i:786532 original size:6 final size:6
Alignment explanation
Indices: 786514--786572 Score: 64
Period size: 6 Copynumber: 9.8 Consensus size: 6
786504 GTGTCGAAGA
* * * * *
786514 CACGAC CATGAC CACGAC CACAAC CTCGAC CTCGAC CTCGAC CACGAC
1 CACGAC CACGAC CACGAC CACGAC CACGAC CACGAC CACGAC CACGAC
*
786562 CATGAC CACGA
1 CACGAC CACGA
786573 GCTGAGCCGT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.31, C:0.46, G:0.15, T:0.08
Consensus pattern (6 bp):
CACGAC
Found at i:786586 original size:5 final size:5
Alignment explanation
Indices: 786578--786611 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
786568 CACGAGCTGA
* *
786578 GCCGT GCCGT GCCGT GCCGT GCTGT GCCGA GCCG
1 GCCGT GCCGT GCCGT GCCGT GCCGT GCCGT GCCG
786612 AGACGAGACG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.03, C:0.38, G:0.41, T:0.18
Consensus pattern (5 bp):
GCCGT
Found at i:790676 original size:26 final size:26
Alignment explanation
Indices: 790656--790717 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
790646 ATCTGTGGCT
790656 TGTTGTCATTCTGGCGGTCTGAGCGG
1 TGTTGTCATTCTGGCGGTCTGAGCGG
790682 TGTTGTCATTCTGGCGGTCTGAGCGG
1 TGTTGTCATTCTGGCGGTCTGAGCGG
790708 TGTTGTCATT
1 TGTTGTCATT
790718 AGTAAGCTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.08, C:0.18, G:0.35, T:0.39
Consensus pattern (26 bp):
TGTTGTCATTCTGGCGGTCTGAGCGG
Found at i:792453 original size:6 final size:6
Alignment explanation
Indices: 792401--792449 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
792391 GTGTCGAAGA
* *
792401 CACGGC CACGAC CACGAC CACGAC CACGAC CACGAC CACGAC CTCGAC
1 CACGAC CACGAC CACGAC CACGAC CACGAC CACGAC CACGAC CACGAC
792449 C
1 C
792450 TCGAGCCGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.29, C:0.51, G:0.18, T:0.02
Consensus pattern (6 bp):
CACGAC
Found at i:793356 original size:28 final size:28
Alignment explanation
Indices: 793325--793391 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
793315 TGGTGCATGA
*
793325 TTTTTCATAAATAAGTTTCCATGTAACT
1 TTTTTCACAAATAAGTTTCCATGTAACT
793353 TTTTTCACAAATAAGTTTCCATGTAAC-
1 TTTTTCACAAATAAGTTTCCATGTAACT
793380 TTTTTCACAAAT
1 TTTTTCACAAAT
793392 TTATTTAAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 12 0.32
28 26 0.68
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (28 bp):
TTTTTCACAAATAAGTTTCCATGTAACT
Found at i:795403 original size:19 final size:20
Alignment explanation
Indices: 795379--795425 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
795369 CTCATGGGAA
*
795379 TATCGATATT-GGGGTATAG
1 TATCGATATTGGGGGTAAAG
795398 TATCGATATTGGGGGTAAAG
1 TATCGATATTGGGGGTAAAG
*
795418 TATTGATA
1 TATCGATA
795426 CTCCCAGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.36
Consensus pattern (20 bp):
TATCGATATTGGGGGTAAAG
Found at i:795546 original size:20 final size:20
Alignment explanation
Indices: 795521--795563 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
795511 ACAGAACAGA
795521 AGTATCGATACTTAAACTAG
1 AGTATCGATACTTAAACTAG
795541 AGTATCGATACTTAAACTAG
1 AGTATCGATACTTAAACTAG
795561 AGT
1 AGT
795564 GTCAATACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (20 bp):
AGTATCGATACTTAAACTAG
Found at i:795571 original size:20 final size:20
Alignment explanation
Indices: 795521--795571 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
795511 ACAGAACAGA
*
795521 AGTATCGATACTTAAACTAG
1 AGTATCAATACTTAAACTAG
*
795541 AGTATCGATACTTAAACTAG
1 AGTATCAATACTTAAACTAG
*
795561 AGTGTCAATAC
1 AGTATCAATAC
795572 AAGACCTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (20 bp):
AGTATCAATACTTAAACTAG
Found at i:798910 original size:9 final size:9
Alignment explanation
Indices: 798896--798928 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
798886 AATGAAATTC
*
798896 TTATTTTGT
1 TTATTTTGA
798905 TTATTTT-A
1 TTATTTTGA
798913 TTATTTTGA
1 TTATTTTGA
798922 TTATTTT
1 TTATTTT
798929 AATTTAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (9 bp):
TTATTTTGA
Found at i:798918 original size:17 final size:17
Alignment explanation
Indices: 798896--798929 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
798886 AATGAAATTC
*
798896 TTATTTTGTTTATTTTA
1 TTATTTTGATTATTTTA
798913 TTATTTTGATTATTTTA
1 TTATTTTGATTATTTTA
798930 ATTTAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
TTATTTTGATTATTTTA
Found at i:805526 original size:37 final size:37
Alignment explanation
Indices: 805476--805546 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
805466 GGAGGCACTG
805476 TGTTGTATTAAACTAATACTAGCTTAGTAGAAGATAA
1 TGTTGTATTAAACTAATACTAGCTTAGTAGAAGATAA
*
805513 TGTTGTATTAAACTAATACTAGTTTAGTAGAAGA
1 TGTTGTATTAAACTAATACTAGCTTAGTAGAAGA
805547 AGATAAACAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (37 bp):
TGTTGTATTAAACTAATACTAGCTTAGTAGAAGATAA
Found at i:805985 original size:22 final size:24
Alignment explanation
Indices: 805966--806018 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 24
805956 ATCATAAAAC
*
805966 TTAAAATTA-TTATTTTTAAAATA
1 TTAAAATAATTTATTTTTAAAATA
805989 TTAAAATAATTTATTTATTATTAAATA
1 TTAAAATAATTTATTT-TTA--AAATA
806016 TTA
1 TTA
806019 TTTTTATAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 8 0.32
24 6 0.24
25 3 0.12
27 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAAAATAATTTATTTTTAAAATA
Found at i:806217 original size:27 final size:28
Alignment explanation
Indices: 806165--806233 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
806155 ATCTCTATTA
* *
806165 AAATATTATTATATTATTATTAAAT-ATAT
1 AAATAATATTAT-TCATTATTAAATAAT-T
806194 AAATAATATTATTCATTATT-AATAATT
1 AAATAATATTATTCATTATTAAATAATT
*
806221 TAATAATATTATT
1 AAATAATATTATT
806234 TCTATGAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 16 0.44
28 9 0.25
29 11 0.31
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
AAATAATATTATTCATTATTAAATAATT
Found at i:806364 original size:22 final size:23
Alignment explanation
Indices: 806336--806382 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
806326 TTGATTATTT
806336 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
806358 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
806381 TA
1 TA
806383 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:806387 original size:22 final size:22
Alignment explanation
Indices: 806344--806387 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
806334 TTTATTATAA
*
806344 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
806366 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
806388 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:808027 original size:18 final size:19
Alignment explanation
Indices: 807992--808028 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
807982 CACGGAATGT
807992 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
808012 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
808029 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:819318 original size:16 final size:16
Alignment explanation
Indices: 819297--819334 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
819287 GTATTACCCA
*
819297 ACCTGTTTTCAACCTG
1 ACCTGTTATCAACCTG
*
819313 ACCTGTTATGAACCTG
1 ACCTGTTATCAACCTG
819329 ACCTGT
1 ACCTGT
819335 AATTGACTTA
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:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (16 bp):
ACCTGTTATCAACCTG
Found at i:820806 original size:52 final size:52
Alignment explanation
Indices: 820744--820852 Score: 184
Period size: 52 Copynumber: 2.1 Consensus size: 52
820734 GGGTGTCAAC
*
820744 ATATAGTATATAAATATAAACTATAGTATATATATATAGGTCATATGT-AACT
1 ATATAATATATAAATATAAACTATA-TATATATATATAGGTCATATGTAAACT
*
820796 ATATAATATATAAATATCAACTATATATATATATATAGGTCATATGTAAACT
1 ATATAATATATAAATATAAACTATATATATATATATAGGTCATATGTAAACT
820848 ATATA
1 ATATA
820853 GTTTAATATA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
51 22 0.41
52 32 0.59
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (52 bp):
ATATAATATATAAATATAAACTATATATATATATATAGGTCATATGTAAACT
Found at i:820885 original size:32 final size:33
Alignment explanation
Indices: 820824--820887 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
820814 AACTATATAT
*
820824 ATATATATAGGTCATATGTAAACTATATAGTTTA
1 ATATATATAGGTCATACGTAAAC-ATATAGTTTA
* *
820858 ATATATGTAGTTCATACGTAAAC-TATAGTT
1 ATATATATAGGTCATACGTAAACATATAGTT
820888 CATATATTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 7 0.26
34 20 0.74
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (33 bp):
ATATATATAGGTCATACGTAAACATATAGTTTA
Found at i:820912 original size:32 final size:31
Alignment explanation
Indices: 820876--820940 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 31
820866 AGTTCATACG
* *
820876 TAAACTATAGTTCATATATTAGTATATAAATA
1 TAAACTATAGTTCATAAAATAGTATA-AAATA
*
820908 TAAACTATAGTTTATAAAATAGTATAAAATA
1 TAAACTATAGTTCATAAAATAGTATAAAATA
820939 TA
1 TA
820941 GTATATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 7 0.23
32 23 0.77
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (31 bp):
TAAACTATAGTTCATAAAATAGTATAAAATA
Found at i:820923 original size:20 final size:20
Alignment explanation
Indices: 820895--820964 Score: 77
Period size: 20 Copynumber: 3.3 Consensus size: 20
820885 GTTCATATAT
*
820895 TAGTATATAAATATAAACTA
1 TAGTATATAAATATAAAATA
*
820915 TAGTTTATAAAATAGTATAAAATA
1 TAG--TATATAA-A-TATAAAATA
*
820939 TAGTATATAAATATAAATTA
1 TAGTATATAAATATAAAATA
820959 TAGTAT
1 TAGTAT
820965 GTAGTTTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
20 17 0.40
21 1 0.02
22 12 0.29
23 1 0.02
24 11 0.26
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (20 bp):
TAGTATATAAATATAAAATA
Found at i:820941 original size:12 final size:13
Alignment explanation
Indices: 820905--820953 Score: 66
Period size: 12 Copynumber: 3.8 Consensus size: 13
820895 TAGTATATAA
820905 ATATAAACTATAGT
1 ATATAAA-TATAGT
*
820919 TTATAAA-ATAGT
1 ATATAAATATAGT
820931 ATA-AAATATAGT
1 ATATAAATATAGT
820943 ATATAAATATA
1 ATATAAATATA
820954 AATTATAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 3 0.10
12 15 0.48
13 7 0.23
14 6 0.19
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (13 bp):
ATATAAATATAGT
Found at i:821004 original size:7 final size:7
Alignment explanation
Indices: 820974--821032 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
820964 TGTAGTTTAT
820974 ATAAAT-
1 ATAAATC
820980 ATAAAT-
1 ATAAATC
*
820986 ATAAACC
1 ATAAATC
*
820993 CTAAATC
1 ATAAATC
*
821000 TTAAATC
1 ATAAATC
*
821007 ATAAACC
1 ATAAATC
*
821014 CTAAATC
1 ATAAATC
*
821021 ATAAACC
1 ATAAATC
821028 ATAAA
1 ATAAA
821033 ACTTTGATCC
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
6 11 0.26
7 31 0.74
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (7 bp):
ATAAATC
Found at i:821011 original size:21 final size:21
Alignment explanation
Indices: 820975--821032 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
820965 GTAGTTTATA
820975 TAAAT-ATAAAT-ATAAACCC
1 TAAATCATAAATCATAAACCC
*
820994 TAAATCTTAAATCATAAACCC
1 TAAATCATAAATCATAAACCC
*
821015 TAAATCATAAACCATAAA
1 TAAATCATAAATCATAAA
821033 ACTTTGATCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 5 0.15
20 5 0.15
21 24 0.71
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAATCATAAATCATAAACCC
Found at i:821166 original size:11 final size:12
Alignment explanation
Indices: 821155--821214 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 12
821145 ATAGTTCATA
821155 TATATAATATA-
1 TATATAATATAG
*
821166 TAAATAAACTATAG
1 TATAT-AA-TATAG
821180 TTATATAA-ATAG
1 -TATATAATATAG
821192 TATA-AATATAG
1 TATATAATATAG
821203 TATATAAATATA
1 TATAT-AATATA
821215 AATTATAGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
10 2 0.05
11 16 0.40
12 6 0.15
13 10 0.25
14 2 0.05
15 4 0.10
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (12 bp):
TATATAATATAG
Found at i:821206 original size:28 final size:28
Alignment explanation
Indices: 821139--821199 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
821129 AGTTCATACG
821139 TAAACTATAGTTCATATATATAATATATAAA
1 TAAACTATAG-T--TATATATAATATATAAA
821170 TAAACTATAGTTATATA-AATAGTATAAA
1 TAAACTATAGTTATATATAATA-TATAAA
821198 TA
1 TA
821200 TAGTATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
27 4 0.14
28 14 0.48
30 1 0.03
31 10 0.34
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (28 bp):
TAAACTATAGTTATATATAATATATAAA
Found at i:821221 original size:13 final size:14
Alignment explanation
Indices: 821154--821221 Score: 54
Period size: 13 Copynumber: 4.9 Consensus size: 14
821144 TATAGTTCAT
821154 ATATATAATATATAA
1 ATATA-AATATATAA
* *
821169 ATA-AACTATAGT-T
1 ATATAAATATA-TAA
821182 ATATAAATAGTATAA
1 ATATAAATA-TATAA
*
821197 ATAT-AGTATATAA
1 ATATAAATATATAA
821210 ATATAAAT-TATA
1 ATATAAATATATA
821222 GTATGTAGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
13 21 0.50
14 12 0.29
15 9 0.21
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.38
Consensus pattern (14 bp):
ATATAAATATATAA
Found at i:821272 original size:21 final size:21
Alignment explanation
Indices: 821242--821320 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 21
821232 TATATAAACA
*
821242 TAAAT-ATAAACCCTAAACCC
1 TAAATCATAAACCATAAACCC
* *
821262 TAAATCATAAACGATAAAACC
1 TAAATCATAAACCATAAACCC
** *
821283 TTGATCACTAAACTATAAACCC
1 TAAATCA-TAAACCATAAACCC
*
821305 TAAACCATAAACCATA
1 TAAATCATAAACCATA
821321 TATACTATAT
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
20 5 0.11
21 25 0.54
22 16 0.35
ACGTcount: A:0.51, C:0.25, G:0.03, T:0.22
Consensus pattern (21 bp):
TAAATCATAAACCATAAACCC
Found at i:821364 original size:22 final size:24
Alignment explanation
Indices: 821330--821462 Score: 87
Period size: 26 Copynumber: 5.3 Consensus size: 24
821320 ATATACTATA
*
821330 TATATATATATAAACTATATAGTT
1 TATATATATATAAACTATATAATT
821354 TATAT-TA-ATAAACTATATAATT
1 TATATATATATAAACTATATAATT
* * *
821376 TATACAATATATATTA-TTTATAATT
1 TATA-TATATATA-AACTATATAATT
*
821401 GTACATAATATATAAA-TATA-AATT
1 -TATAT-ATATATAAACTATATAATT
*
821425 GTATGGTTTATATATAATACATATATAATT
1 -TA---TATATATATAA-AC-TATATAATT
821455 TATATATA
1 TATATATA
821463 AACTATGTAG
Statistics
Matches: 85, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
22 18 0.21
23 2 0.02
24 14 0.16
25 15 0.18
26 24 0.28
27 2 0.02
29 6 0.07
30 4 0.05
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (24 bp):
TATATATATATAAACTATATAATT
Found at i:821521 original size:6 final size:6
Alignment explanation
Indices: 821510--821534 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
821500 TTTGTAGTTT
821510 ATATAA ATATAA ATATAA ATATAA A
1 ATATAA ATATAA ATATAA ATATAA A
821535 CTCTAAATCC
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:821548 original size:20 final size:20
Alignment explanation
Indices: 821525--821582 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
821515 AATATAAATA
821525 TAAAT-ATAAACTCTAAATCC
1 TAAATCATAAAC-CTAAATCC
821545 TAAATCATAAACCTAAATCC
1 TAAATCATAAACCTAAATCC
* *
821565 TAAACCATGAACCCTAAA
1 TAAATCAT-AAACCTAAA
821583 CCATAAACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 20 0.59
21 14 0.41
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (20 bp):
TAAATCATAAACCTAAATCC
Found at i:821837 original size:71 final size:71
Alignment explanation
Indices: 821735--821876 Score: 266
Period size: 71 Copynumber: 2.0 Consensus size: 71
821725 TTGACCCATA
821735 ACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTAATAATTTCAACATCACAATTTAAAAATAT
1 ACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTAATAATTTCAACATCACAATTTAAAAATAT
821800 TTCGAT
66 TTCGAT
* *
821806 ACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTAT
1 ACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTAATAATTTCAACATCACAATTTAAAAATAT
821871 TTCGAT
66 TTCGAT
821877 TTGATCCCTC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (71 bp):
ACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTAATAATTTCAACATCACAATTTAAAAATAT
TTCGAT
Found at i:827279 original size:136 final size:135
Alignment explanation
Indices: 827036--827304 Score: 477
Period size: 136 Copynumber: 2.0 Consensus size: 135
827026 TGGATTGGAG
*
827036 AAACTATTTGGGTATTCAACGGGCTACGACCTCGAATTTTCCCCCTAGGGTTTGCGACGGAGTCA
1 AAACTATTTGGGTATTCAACGGGCTACGACCTCGAATTTTCCCCCTAGGGTTTACGACGGAGTCA
827101 AAACTGTTCAACCCCACAAGAAAGTGCTCGAAGCAGGGATTCAGGAATGGAACCTGTCGCTTGTG
66 AAACTGTTCAACCCCACAAGAAAGTGCTCGAAGCAGGGATTCAGGAATGGAACCTGTCGCTTGTG
827166 AGAGA
131 AGAGA
* * *
827171 AAACTATTTGGGTGTTCAGCGGGGTACGACCTCGAATTTTCCCCCCTAGGGTTTACGACGGAGTC
1 AAACTATTTGGGTATTCAACGGGCTACGACCTCGAATTTT-CCCCCTAGGGTTTACGACGGAGTC
827236 AAAACTGTTCAACCCCCACAAG-AAGTGCTCGAAGCAGGGATTCAGGAATGGAACCTGTCGCTTG
65 AAAACTGTTCAA-CCCCACAAGAAAGTGCTCGAAGCAGGGATTCAGGAATGGAACCTGTCGCTTG
827300 TGAGA
129 TGAGA
827305 CAAATTCTTG
Statistics
Matches: 128, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
135 37 0.29
136 82 0.64
137 9 0.07
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (135 bp):
AAACTATTTGGGTATTCAACGGGCTACGACCTCGAATTTTCCCCCTAGGGTTTACGACGGAGTCA
AAACTGTTCAACCCCACAAGAAAGTGCTCGAAGCAGGGATTCAGGAATGGAACCTGTCGCTTGTG
AGAGA
Found at i:828021 original size:17 final size:17
Alignment explanation
Indices: 827999--828033 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
827989 ACTATTGTTA
827999 AATATGACTCTAGTACT
1 AATATGACTCTAGTACT
828016 AATATGACTCTAGTACT
1 AATATGACTCTAGTACT
828033 A
1 A
828034 TAGTAGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (17 bp):
AATATGACTCTAGTACT
Found at i:831350 original size:12 final size:12
Alignment explanation
Indices: 831333--831357 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
831323 AATCTGCTTT
831333 TACTCTTTCTGG
1 TACTCTTTCTGG
831345 TACTCTTTCTGG
1 TACTCTTTCTGG
831357 T
1 T
831358 CTGCAGTTCA
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:0.08, C:0.24, G:0.16, T:0.52
Consensus pattern (12 bp):
TACTCTTTCTGG
Found at i:832057 original size:32 final size:32
Alignment explanation
Indices: 832021--832084 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
832011 CTTTTTGTAT
832021 GGACAATGCTATAGCCTGTAGCTTAGCTAAAA
1 GGACAATGCTATAGCCTGTAGCTTAGCTAAAA
832053 GGACAATGCTATAGCCTGTAGCTTAGCTAAAA
1 GGACAATGCTATAGCCTGTAGCTTAGCTAAAA
832085 CAAATTGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (32 bp):
GGACAATGCTATAGCCTGTAGCTTAGCTAAAA
Found at i:832604 original size:60 final size:59
Alignment explanation
Indices: 832497--832611 Score: 135
Period size: 60 Copynumber: 1.9 Consensus size: 59
832487 AAATTGCGAG
* **
832497 TTTGAAACTTTTGATAGTCGAGGGACTCAACAAAATAATACTCTATAGTCGGAGGATCAT
1 TTTGAAACTTTTAATAGTCGAGCAACTCAACAAAATAATACTCTATAGTC-GAGGATCAT
* * *
832557 TTTGTAACTTTTAATAGTCGAGCAACTTAATAAAA-AAGTAC-CTTATAGTCGAGGA
1 TTTGAAACTTTTAATAGTCGAGCAACTCAACAAAATAA-TACTC-TATAGTCGAGGA
832612 CCAATTGTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
59 8 0.17
60 39 0.83
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (59 bp):
TTTGAAACTTTTAATAGTCGAGCAACTCAACAAAATAATACTCTATAGTCGAGGATCAT
Found at i:833731 original size:16 final size:17
Alignment explanation
Indices: 833710--833746 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
833700 GTTATGCTTT
*
833710 TTTCATCT-CGCTTTTC
1 TTTCATCTCCACTTTTC
833726 TTTCATCTCCACTTTTC
1 TTTCATCTCCACTTTTC
833743 TTTC
1 TTTC
833747 TTTTTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.08, C:0.32, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTCATCTCCACTTTTC
Found at i:833754 original size:13 final size:15
Alignment explanation
Indices: 833738--833769 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
833728 TCATCTCCAC
833738 TTTTCTTTC-TT-TT
1 TTTTCTTTCATTATT
833751 TTTTCTTTCATTATT
1 TTTTCTTTCATTATT
833766 TTTT
1 TTTT
833770 TTTACAATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 2 0.12
15 6 0.35
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTCTTTCATTATT
Found at i:834375 original size:13 final size:13
Alignment explanation
Indices: 834351--834423 Score: 51
Period size: 13 Copynumber: 5.3 Consensus size: 13
834341 CTATTAAATT
834351 CTTTACTTTATTTA
1 CTTTA-TTTATTTA
*
834365 CTTTATTTATTTT
1 CTTTATTTATTTA
834378 CTCCTTATTT-TTTA
1 CT--TTATTTATTTA
*
834392 TTCATTATTTATTT-
1 --CTTTATTTATTTA
*
834406 TTATTATTTATTTA
1 CT-TTATTTATTTA
834420 CTTT
1 CTTT
834424 CATTAATTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
13 21 0.46
14 15 0.33
15 9 0.20
16 1 0.02
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (13 bp):
CTTTATTTATTTA
Found at i:834408 original size:17 final size:17
Alignment explanation
Indices: 834386--834419 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
834376 TTCTCCTTAT
834386 TTTTTATTCA-TTATTTA
1 TTTTTATT-ATTTATTTA
834403 TTTTTATTATTTATTTA
1 TTTTTATTATTTATTTA
834420 CTTTCATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTATTATTTATTTA
Found at i:837190 original size:46 final size:45
Alignment explanation
Indices: 837124--837214 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 45
837114 GAAGTATCTC
837124 TAACAAACCTGTAGTCTAATCAGATCATCGAGCTAACGATATTAA
1 TAACAAACCTGTAGTCTAATCAGATCATCGAGCTAACGATATTAA
837169 TAACAAAACCTGTAGTCTAATCAGATCATCGAGCTAACGATATTAA
1 TAAC-AAACCTGTAGTCTAATCAGATCATCGAGCTAACGATATTAA
837215 ACAAAAGTGC
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 4 0.09
46 41 0.91
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (45 bp):
TAACAAACCTGTAGTCTAATCAGATCATCGAGCTAACGATATTAA
Found at i:838597 original size:29 final size:30
Alignment explanation
Indices: 838472--838594 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
838462 AAGGAACATA
*
838472 TGGACAGTTACCAAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
838502 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
838532 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * *
838562 TGGATAGTTACCG-GGGTCTTTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
838591 TGGA
1 TGGA
838595 TAGGTCTTTC
Statistics
Matches: 89, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
29 18 0.20
30 71 0.80
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:839992 original size:94 final size:93
Alignment explanation
Indices: 839828--840012 Score: 345
Period size: 94 Copynumber: 2.0 Consensus size: 93
839818 ATGAATGTAT
839828 AAATAGTTAAAGAGTTTATGAGCACCGATCTCAAGGGTGATTTGAGGAAGGCTCTGTTGTTACAG
1 AAATAGTTAAAGAGTTTATGAGCACCGATCTCAAGGGTGATTTGAGGAAGGCTCTGTTGTTACAG
839893 ACCTTTGGATAAATGATATGAAGATACG
66 ACCTTTGGATAAATGATATGAAGATACG
839921 AAATAGTTAAAGAG-TTATGAGCACCCGATCTCAAGGGTGAATTTGAGGAAGGCTCTGTTGTTAC
1 AAATAGTTAAAGAGTTTATGAGCA-CCGATCTCAAGGGTG-ATTTGAGGAAGGCTCTGTTGTTAC
839985 AGACCTTTGGATAAATGATATGAAGATA
64 AGACCTTTGGATAAATGATATGAAGATA
840013 ATGCTAGAAG
Statistics
Matches: 90, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
92 9 0.10
93 29 0.32
94 52 0.58
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (93 bp):
AAATAGTTAAAGAGTTTATGAGCACCGATCTCAAGGGTGATTTGAGGAAGGCTCTGTTGTTACAG
ACCTTTGGATAAATGATATGAAGATACG
Found at i:842918 original size:30 final size:30
Alignment explanation
Indices: 842884--843006 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
842874 AAGGAACATA
842884 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
842914 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
842944 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * *
842974 TGGATAGTTACCG-GGGTCTTTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
843003 TGGA
1 TGGA
843007 GGTCCTTCGG
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 18 0.20
30 72 0.80
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:847177 original size:13 final size:13
Alignment explanation
Indices: 847161--847207 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
847151 TTCATCTCCA
847161 ATTTTCTTTCTTT
1 ATTTTCTTTCTTT
*
847174 ATTTTCTATC-TT
1 ATTTTCTTTCTTT
847186 ATTTTCTTT-TATT
1 ATTTTCTTTCT-TT
*
847199 GTTTTCTTT
1 ATTTTCTTT
847208 TCACAATGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.11, C:0.13, G:0.02, T:0.74
Consensus pattern (13 bp):
ATTTTCTTTCTTT
Found at i:849324 original size:8 final size:8
Alignment explanation
Indices: 849309--849337 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
849299 ATTAAATCAC
849309 AAAA-TTT
1 AAAATTTT
849316 AAAATTTT
1 AAAATTTT
849324 AAAATTTT
1 AAAATTTT
849332 AAAATT
1 AAAATT
849338 AATTTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
AAAATTTT
Found at i:851585 original size:9 final size:9
Alignment explanation
Indices: 851573--851619 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
851563 AAATTTAAAA
851573 AAAATATTT
1 AAAATATTT
851582 AAAATATTT
1 AAAATATTT
*
851591 AAAATATAT
1 AAAATATTT
* *
851600 GATA-ATTT
1 AAAATATTT
851608 AAAAT-TTT
1 AAAATATTT
851616 AAAA
1 AAAA
851620 GAGGGATCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
8 12 0.39
9 19 0.61
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
AAAATATTT
Found at i:856137 original size:23 final size:23
Alignment explanation
Indices: 856111--856179 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
856101 CACCACAGCT
* *
856111 CGTATAAATACACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * **
856134 CGTAGCATTGCACCGAAGTGCTG
1 CGTAGAAATGCACCGAAGTGCCA
856157 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
856180 TATAAAATGT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:858964 original size:18 final size:18
Alignment explanation
Indices: 858941--858983 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
858931 CATGGATCGT
858941 CTTGTTATCCTTCTCATA
1 CTTGTTATCCTTCTCATA
858959 CTTGTTATCCTTCTCATA
1 CTTGTTATCCTTCTCATA
858977 CTTGTTA
1 CTTGTTA
858984 ATGGACACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.26, G:0.07, T:0.51
Consensus pattern (18 bp):
CTTGTTATCCTTCTCATA
Found at i:860730 original size:30 final size:30
Alignment explanation
Indices: 860689--860753 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
860679 TTTCTACAGT
* * *
860689 GACCACTATAGGTCTCCAGGAGCACATGGC
1 GACCTCTATAGGTCTCCAGGAGCACACGAC
860719 GACCTCTATAGGTCTCCAGGAGCACACGAC
1 GACCTCTATAGGTCTCCAGGAGCACACGAC
860749 GACCT
1 GACCT
860754 ATGGAGCACT
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:0.26, C:0.32, G:0.25, T:0.17
Consensus pattern (30 bp):
GACCTCTATAGGTCTCCAGGAGCACACGAC
Found at i:860772 original size:19 final size:19
Alignment explanation
Indices: 860750--860793 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
860740 GCACACGACG
*
860750 ACCTATGGAGCACTTGGCA
1 ACCTATGGAACACTTGGCA
860769 ACCTATGGAACACTTGGCA
1 ACCTATGGAACACTTGGCA
860788 ACCTAT
1 ACCTAT
860794 AGAGTTACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (19 bp):
ACCTATGGAACACTTGGCA
Found at i:861801 original size:22 final size:22
Alignment explanation
Indices: 861773--861816 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
861763 CACTCTCTCA
861773 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
861795 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
861817 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:863284 original size:18 final size:18
Alignment explanation
Indices: 863263--863307 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
863253 TCCACTTCGG
*
863263 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
863281 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
863299 GAGCCATCA
1 GAGCCATCA
863308 TCTGATCGAC
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:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:865092 original size:20 final size:19
Alignment explanation
Indices: 865061--865182 Score: 84
Period size: 20 Copynumber: 6.8 Consensus size: 19
865051 TCTTTTGGTT
865061 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
865080 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
865101 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
865120 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
865134 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
865153 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
865167 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
865183 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 11, Indels: 24
0.70 0.10 0.21
Matches are distributed among these distances:
14 20 0.25
16 4 0.05
17 4 0.05
19 21 0.26
20 29 0.36
21 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:865129 original size:14 final size:14
Alignment explanation
Indices: 865110--865165 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
865100 GGAAATGACT
865110 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
865124 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
865141 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
865157 ATCGCAACG
1 ATCGCAACG
865166 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 6 0.17
19 7 0.20
ACGTcount: A:0.39, C:0.25, G:0.25, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:865143 original size:33 final size:33
Alignment explanation
Indices: 865086--865182 Score: 167
Period size: 33 Copynumber: 2.9 Consensus size: 33
865076 ACGAGATAAT
865086 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
865120 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
865153 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA
865183 TGCGATTTTG
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 47 0.77
34 14 0.23
ACGTcount: A:0.41, C:0.23, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:865815 original size:20 final size:20
Alignment explanation
Indices: 865772--865845 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
865762 CGATAGTAAG
* *
865772 ATTCGCATTGCGATTTTCCTA
1 ATTCGCATTACGA-TTTACTA
865793 ATTCGCATTACGATTTACTA
1 ATTCGCATTACGATTTACTA
* *
865813 ATTCGCGTTGCGATTTACGT-
1 ATTCGCATTACGATTTAC-TA
865833 ATTCGCATTACGA
1 ATTCGCATTACGA
865846 ATTATGAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
20 33 0.72
21 13 0.28
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (20 bp):
ATTCGCATTACGATTTACTA
Found at i:865867 original size:21 final size:21
Alignment explanation
Indices: 865843--865898 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
865833 ATTCGCATTA
*
865843 CGAATTATGAAAATCGCAACG
1 CGAATTACGAAAATCGCAACG
* *
865864 CGAA-TACGTAAATCGCAATG
1 CGAATTACGAAAATCGCAACG
* *
865884 TGAATTAGGAAAATC
1 CGAATTACGAAAATC
865899 ACATTGCGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (21 bp):
CGAATTACGAAAATCGCAACG
Found at i:865961 original size:20 final size:21
Alignment explanation
Indices: 865917--865968 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
865907 ATAGTCAGTA
*
865917 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
865938 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
865958 TCGCATTGCGA
1 TCGCATTGCGA
865969 ATTGAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:865983 original size:41 final size:40
Alignment explanation
Indices: 865774--865983 Score: 113
Period size: 41 Copynumber: 5.1 Consensus size: 40
865764 ATAGTAAGAT
* * * ** *
865774 TCGCATTGCGATTTTCCTAATTCGCATTACGATTTACTAAT
1 TCGCATTGCGA-TTTACTAATTCGCATTGCGAATTAGAAAA
* *
865815 TCGCGTTGCGATTTACGT-ATTCGCATTACGAATTATGAAAA
1 TCGCATTGCGATTTAC-TAATTCGCATTGCGAATTA-GAAAA
** * * * *
865856 TCGCAACGCGA-ATACGTAAATCGCAATGTGAATTAGGAAAA
1 TCGCATTGCGATTTAC-TAATTCGCATTGCGAATTA-GAAAA
* * * * ** *
865897 TCACATTGCGA--TAGTCAGTATCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTACT-AAT-TCGCATTGCGA-ATTAGAAAA
*
865938 TCGCATTGCGATTTACTTATTCGCATTGCGAATTGAGAAAA
1 TCGCATTGCGATTTACTAATTCGCATTGCGAATT-AGAAAA
865979 TCGCA
1 TCGCA
865984 ACGACACTGT
Statistics
Matches: 125, Mismatches: 35, Indels: 18
0.70 0.20 0.10
Matches are distributed among these distances:
39 1 0.01
40 30 0.24
41 88 0.70
42 3 0.02
43 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (40 bp):
TCGCATTGCGATTTACTAATTCGCATTGCGAATTAGAAAA
Found at i:874078 original size:28 final size:31
Alignment explanation
Indices: 874033--874106 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 31
874023 TTTACTTTAA
874033 TAAAATATTCAATATGATATCTA-ATTTTTT
1 TAAAATATTCAATATGATATCTATATTTTTT
* *
874063 TAAAAT-TT-AATATGATATTTATATTTTAT
1 TAAAATATTCAATATGATATCTATATTTTTT
* *
874092 CAAAATATCCAATAT
1 TAAAATATTCAATAT
874107 ATTACCTAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 12 0.32
29 13 0.35
30 7 0.19
31 5 0.14
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (31 bp):
TAAAATATTCAATATGATATCTATATTTTTT
Found at i:884358 original size:26 final size:27
Alignment explanation
Indices: 884327--884384 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
884317 TAGTCTTTCA
*
884327 GGACATATGT-TATATGTGGTCCTTTG
1 GGACATATGTGTATATGTGGTCCTTAG
884353 GGACATATGTGTATATGTGGTCCTTAG
1 GGACATATGTGTATATGTGGTCCTTAG
884380 GGACA
1 GGACA
884385 AATCCTATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.22, C:0.12, G:0.29, T:0.36
Consensus pattern (27 bp):
GGACATATGTGTATATGTGGTCCTTAG
Found at i:885074 original size:117 final size:119
Alignment explanation
Indices: 884921--885161 Score: 468
Period size: 118 Copynumber: 2.0 Consensus size: 119
884911 GTGATGAATA
884921 TAGTACAAGGATCTAGGAAATCATATGAGAAAATCATGGGAATTAGATAATAATAAGTTATGAAA
1 TAGTACAAGGATCTAGGAAATCATATGAGAAAATCATGGGAATTAGATAATAATAAGTTATGAAA
884986 -ATATGTTATGTAACAAAATTATGTGAAAAATGAACTAATAGAATATAAGAAAT
66 TATATGTTATGTAACAAAATTATGTGAAAAATGAACTAATAGAATATAAGAAAT
885039 TAGTACAAGGATCTAGG-AATCATATGAGAAAATCATGGGAATTAGATAATAATAAGTTATGAAA
1 TAGTACAAGGATCTAGGAAATCATATGAGAAAATCATGGGAATTAGATAATAATAAGTTATGAAA
885103 TATATGTTATGTAACAAAATTATGTGAAAAATGAACTAATAGAATATAAGAAAT
66 TATATGTTATGTAACAAAATTATGTGAAAAATGAACTAATAGAATATAAGAAAT
885157 TAGTA
1 TAGTA
885162 TACAAGAATA
Statistics
Matches: 122, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
117 47 0.39
118 75 0.61
ACGTcount: A:0.49, C:0.05, G:0.17, T:0.29
Consensus pattern (119 bp):
TAGTACAAGGATCTAGGAAATCATATGAGAAAATCATGGGAATTAGATAATAATAAGTTATGAAA
TATATGTTATGTAACAAAATTATGTGAAAAATGAACTAATAGAATATAAGAAAT
Found at i:886426 original size:51 final size:50
Alignment explanation
Indices: 886350--886450 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 50
886340 GAAGCTCGAG
886350 GACATTTAAGTAATTCCTTTAAATTCAATCATTTTCAGTTTCTCAGATAAT
1 GACATTTAAGTAATTCCTTTAAATTCAATCATTTTCAGTTTCT-AGATAAT
886401 GACATTTAAGTAATTCCTTTAAATTCAATCATTTTCAGTTTCTAGATAAT
1 GACATTTAAGTAATTCCTTTAAATTCAATCATTTTCAGTTTCTAGATAAT
886451 TGTCATATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 7 0.14
51 43 0.86
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.44
Consensus pattern (50 bp):
GACATTTAAGTAATTCCTTTAAATTCAATCATTTTCAGTTTCTAGATAAT
Found at i:891440 original size:74 final size:74
Alignment explanation
Indices: 891251--891580 Score: 459
Period size: 74 Copynumber: 4.5 Consensus size: 74
891241 CCGGAAATAT
** * *
891251 AAAATAGGCGCTACCTATTACATTAAAATACCTACC-AATTTTTT-AAGGTTTCTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATATAA
891314 ACGGTAAAA
66 ACGGTAAAA
** * * * *
891323 AAAATAGGCGCTATATATTACATTAAAATATCTACTGGTTTTTTTGAAGATTGCTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATATAA
*
891388 ACAGTAAAA
66 ACGGTAAAA
*
891397 TAAAATAGGCGCTACCTATTACATTAAAATACTTACCGGTTTTTTTGAAGGTTGCTAATAATATA
1 -AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATATA
891462 AACGGTAAAA
65 AACGGTAAAA
* * * * *
891472 AAAATAGGCGATACCTATTACATTACAATACCTGCCTGTTTTTTTTAAGGTTGCTAATAATATAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATATAA
891537 ACGGT-AAA
66 ACGGTAAAA
* *
891545 AAAATAGGTGCTACCTATTACATTAAACTACCTACC
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACC
891581 ATATGTTGAA
Statistics
Matches: 227, Mismatches: 28, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
72 32 0.14
73 40 0.18
74 89 0.39
75 66 0.29
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (74 bp):
AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATATAA
ACGGTAAAA
Found at i:891515 original size:149 final size:146
Alignment explanation
Indices: 891249--891581 Score: 463
Period size: 149 Copynumber: 2.3 Consensus size: 146
891239 AACCGGAAAT
* *
891249 ATAAAATAGGCGCTACCTATTACATTAAAATACCTACCAATTTTTTAAGGTTTCTAATAATGTAA
1 ATAAAATAGGCGCTACCTATTACATTAAAATACCTACCAATTTTTTAAGGTTGCTAATAATATAA
* * *
891314 ACGGTAAAAAAAATAGGCGCTATATATTACATTAAAATATCTACTGGTTTTTTTGAAGATTGCTA
66 ACGGTAAAAAAAATAGGCGATACATATTACATTAAAATACCTACTGGTTTTTTTGAAGATTGCTA
*
891379 ATAATGTAAACAGTAAA
131 ATAATATAAACAGT-AA
* **
891396 ATAAAATAGGCGCTACCTATTACATTAAAATACTTACCGGTTTTTTTGAAGGTTGCTAATAATAT
1 ATAAAATAGGCGCTACCTATTACATTAAAATACCTACC-AATTTTTT-AAGGTTGCTAATAATAT
* * * * *
891461 AAACGGTAAAAAAAATAGGCGATACCTATTACATTACAATACCTGCCT-GTTTTTTTTAAGGTTG
64 AAACGGTAAAAAAAATAGGCGATACATATTACATTAAAATACCT-ACTGGTTTTTTTGAAGATTG
*
891525 CTAATAATATAAACGGTAA
128 CTAATAATATAAACAGTAA
* *
891544 A-AAAATAGGTGCTACCTATTACATTAAACTACCTACCA
1 ATAAAATAGGCGCTACCTATTACATTAAAATACCTACCA
891582 TATGTTGAAA
Statistics
Matches: 164, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
147 70 0.43
148 9 0.05
149 83 0.51
150 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (146 bp):
ATAAAATAGGCGCTACCTATTACATTAAAATACCTACCAATTTTTTAAGGTTGCTAATAATATAA
ACGGTAAAAAAAATAGGCGATACATATTACATTAAAATACCTACTGGTTTTTTTGAAGATTGCTA
ATAATATAAACAGTAA
Found at i:892019 original size:110 final size:111
Alignment explanation
Indices: 891660--892130 Score: 717
Period size: 109 Copynumber: 4.3 Consensus size: 111
891650 TAGCGCCTAT
*
891660 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACATGTAAAAATATAACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACA-GTAAAAATATGACAAA
* *
891725 ATCAGTTTCATTATGATAAAACCGGTAAAGAGCTACCAGATATGTTA
65 ATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCGGATATGTTA
* *
891772 AAAGTATTGATACTTTATAAAAATATATCGATACATAACAATATAACAGCT--AAA-ATGACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACAG-TAAAAATATGACAAA
*
891834 ACCAGTTTCATTATGA-AAAACCGGTAAAGAG--A-CGGATATGTTA
65 ATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCGGATATGTTA
* *
891877 AAAGTATCGATACTTTATAAAAATATATCGATACATAATAATATAACAGTAAAAATATGACAAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACAGTAAAAATATGACAAAA
* *
891942 TCAGTTTCATTATGACAAAATCGGTAAAGAGATACCGGATATGTT-
66 TCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCGGATATGTTA
891987 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACA-TAAAAATATGACAAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACAGTAAAAATATGACAAAA
* *
892051 TCAGTTTCATTATGACAAAAACGGTAAAGATCTACCGGATATGTTA
66 TCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCGGATATGTTA
* ** *
892097 AAAGTATCGATACTTTTTCTACATGTATCGATAC
1 AAAGTATCGATACTTTATAAAAATGTATCGATAC
892131 TTTGTTGAAA
Statistics
Matches: 332, Mismatches: 18, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
104 1 0.00
105 57 0.17
106 4 0.01
107 23 0.07
108 29 0.09
109 80 0.24
110 80 0.24
111 11 0.03
112 47 0.14
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (111 bp):
AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACAGTAAAAATATGACAAAA
TCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCGGATATGTTA
Found at i:892048 original size:216 final size:220
Alignment explanation
Indices: 891660--892112 Score: 718
Period size: 216 Copynumber: 2.1 Consensus size: 220
891650 TAGCGCCTAT
*
891660 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACATGTAAAAATATAACAAA
1 AAAGTATCGATACTTTATAAAAATATATCGATACATAACAATATAACATGTAAAAATATAACAAA
* * *
891725 ATCAGTTTCATTATGATAAAACCGGTAAAGAGCTACCAGATATGTTAAAAGTATTGATACTTTAT
66 ATCAGTTTCATTATGACAAAACCGGTAAAGAGATACCAGATATGTTAAAAGTATCGATACTTTAT
**
891790 AAAAATATATCGATACATAACAATATAACAGCTAAAATGACAAAACCAGTTTCATTATGA-AAAA
131 AAAAATATATCGATACATAACAATATAACAGAAAAAATGACAAAACCAGTTTCATTATGACAAAA
*
891854 CCGGTAAAGA-GA-CGGATATGTTA
196 ACGGTAAAGACGACCGGATATGTTA
* *
891877 AAAGTATCGATACTTTATAAAAATATATCGATACATAATAATATAACA-GTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATATATCGATACATAACAATATAACATGTAAAAATATAACAAA
* *
891941 ATCAGTTTCATTATGACAAAATCGGTAAAGAGATACCGGATATGTT-AAAGTATCGATACTTTAT
66 ATCAGTTTCATTATGACAAAACCGGTAAAGAGATACCAGATATGTTAAAAGTATCGATACTTTAT
* * *
892005 AAAAATGTATCGATACATAACAATATAACATAAAAATATGACAAAATCAGTTTCATTATGACAAA
131 AAAAATATATCGATACATAACAATATAACAGAAAAA-ATGACAAAACCAGTTTCATTATGACAAA
*
892070 AACGGTAAAGATCTACCGGATATGTTA
195 AACGGTAAAGA-CGACCGGATATGTTA
892097 AAAGTATCGATACTTT
1 AAAGTATCGATACTTT
892113 TTCTACATGT
Statistics
Matches: 216, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
215 49 0.23
216 80 0.37
217 59 0.27
219 1 0.00
220 27 0.12
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (220 bp):
AAAGTATCGATACTTTATAAAAATATATCGATACATAACAATATAACATGTAAAAATATAACAAA
ATCAGTTTCATTATGACAAAACCGGTAAAGAGATACCAGATATGTTAAAAGTATCGATACTTTAT
AAAAATATATCGATACATAACAATATAACAGAAAAAATGACAAAACCAGTTTCATTATGACAAAA
ACGGTAAAGACGACCGGATATGTTA
Found at i:892499 original size:17 final size:17
Alignment explanation
Indices: 892477--892512 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
892467 TATCGATACC
892477 TACCGATAATCAAAGTT
1 TACCGATAATCAAAGTT
* *
892494 TACCGATTATCAAATTT
1 TACCGATAATCAAAGTT
892511 TA
1 TA
892513 ATAATTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (17 bp):
TACCGATAATCAAAGTT
Found at i:894825 original size:239 final size:242
Alignment explanation
Indices: 894310--895531 Score: 1944
Period size: 237 Copynumber: 5.1 Consensus size: 242
894300 CCATGAGATT
* * *
894310 TTATTTAAAGCAACCTTATAATTTATAAATATTAACATGTATTTACTCCAAATTAATAAAAAAAA
1 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAAT-AAAAATA
* ** *
894375 CTTTATAATCTATAAATTTTTTTGTATGATAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGTT
65 CTTTACAATCTATAAAAATTTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGTT
*
894440 CGAACATTATAGATAGGTTTAAAAATTATCTTTAAAC-AATACTACTTTATAC-TACCCTAGATT
130 CGAACATTATAGATAGGTTTAAAAGTTATCTTTAAACAAATACTACTTTATACTTACCCTAGATT
894503 AATTAAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
195 AATT-AAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
894552 TTATTTAAAGCAACCTTA-AATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAATAC
1 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAATAC
*
894616 TTTACAATCTATAAAAAATTTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAATT
66 TTTACAATCTAT-AAAAATTTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGTT
*
894681 CGAACATTATA-ATAGG-TTAAAAGTTATCTTTAAACAAATACTACTTTATA-TTCCCCTAGATT
130 CGAACATTATAGATAGGTTTAAAAGTTATCTTTAAACAAATACTACTTTATACTTACCCTAGATT
894743 AATTAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
195 AATTAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
*
894791 TTATTTAAAGCAACC-TATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAAAC
1 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAATAC
*
894855 TTTACAATCTAT-AAAATTTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAATTC
66 TTTACAATCTATAAAAATTTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGTTC
*
894919 GAACATTATA-ATAGG-TTAAAAGTTATCTTTAAACAAATACTACTTTATACTTCCCCTAGATTA
131 GAACATTATAGATAGGTTTAAAAGTTATCTTTAAACAAATACTACTTTATACTTACCCTAGATTA
894982 ATTAAAAAAC-ACCTTAC-ATTTACAAACCTTTTTGTATCATTAAAA
196 ATTAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
895027 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCC-AATTAATAAAAAATA
1 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAAT-AAAAATA
*** *
895091 CTTTACAATCTATAAAAAAAATT-TA-GGTAAAGGAATTGTTGTTTACTCCTTTAGGACTTGAGT
65 CTTTACAATCTATAAAAATTTTTGTATGGTAAAGGAATTGTTG-TTACTCCTTTAGGACTCGAGT
** *
895154 TCGAACATTATAGATAGGTTTAAAAGTTATCTTTAAACATGTACTGCTTT-TACTTACCCTAGAT
129 TCGAACATTATAGATAGGTTTAAAAGTTATCTTTAAACAAATACTACTTTATACTTACCCTAGAT
895218 TAATT-AAAAA-AACCTTACAATTTAC-AACCTTTTTGTATCATTAAAA
194 TAATTAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
895264 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGT-TTTACTCC-AATTAATAAAAATTA
1 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAA-TA
* * *
895327 -ATTACAATCTATAAAAA-TTTTGTATGGTAAATGAATTGTTTTTACTCCTTTAGGACTCGAGTT
65 CTTTACAATCTATAAAAATTTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGTT
*
895390 CGAACATTATAGATAGGTTTAAAA---ATCTTTAAAC--ATAC-GCTTTATACTTACCCTAGATT
130 CGAACATTATAGATAGGTTTAAAAGTTATCTTTAAACAAATACTACTTTATACTTACCCTAGATT
*
895449 AATTAAAAAAACAACCTTATAATTTACAAAACCTTTTTGTATCATTAAAA
195 AATT-AAAAAACAACCTTACAATTTAC-AAACCTTTTTGTATCATTAAAA
895499 TTATTTAAAGCAACCTTATAATTTATAAATATT
1 TTATTTAAAGCAACCTTATAATTTATAAATATT
895532 GTAGGATTTA
Statistics
Matches: 929, Mismatches: 29, Indels: 51
0.92 0.03 0.05
Matches are distributed among these distances:
229 5 0.01
230 22 0.02
232 15 0.02
233 14 0.02
234 2 0.00
235 122 0.13
236 97 0.10
237 266 0.29
238 60 0.06
239 162 0.17
240 51 0.05
241 95 0.10
242 18 0.02
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (242 bp):
TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAATAC
TTTACAATCTATAAAAATTTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGTTC
GAACATTATAGATAGGTTTAAAAGTTATCTTTAAACAAATACTACTTTATACTTACCCTAGATTA
ATTAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
Found at i:895492 original size:472 final size:477
Alignment explanation
Indices: 894310--895531 Score: 1946
Period size: 472 Copynumber: 2.6 Consensus size: 477
894300 CCATGAGATT
* *
894310 TTATTTAAAGCAACCTTATAATTTATAAATATTAACATGTATTTACTCCAAATTAATAAAAAAAA
1 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAAT-AAAAAAA
* * *
894375 CTTTATAATCTATAAATTTTTTTGTATGATAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGTT
65 C-TTACAATCTATAAA-ATTTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGTT
894440 CGAACATTATAGATAGGTTTAAAAATTATCTTTAAACAATACTACTTTATAC-TACCCTAGATTA
128 CGAACATTATAGATAGGTTT-AAAA-TATCTTTAAACAATACTACTTTATACTTACCCTAGATTA
894504 ATTAAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAATTATTTAAAGCAACCTT
191 ATTAAAAAAACAACCTTA-AATTTACAAACCTTTTTGTATCATTAAAATTATTTAAAGCAACCTT
894569 A-AATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAATACTTTACAATCTATAAAAA
255 ATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAATACTTTACAATCTATAAAAA
**
894633 ATTTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAATTCGAACATTATAATAGGT
320 ATAATTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAATTCGAACATTATAATAGGT
*
894698 TAAAAGTTATCTTTAAACAAATACTACTTTATATTCCCCTAGATTAATTAAAAAACAACCTTACA
385 TAAAAGTTATCTTTAAACAAATACTACTTTATATTACCCTAGATTAATTAAAAAACAACCTTACA
894763 ATTTACAAACCTTTTTGTATCATTAAAA
450 ATTTACAAACCTTTTTGTATCATTAAAA
894791 TTATTTAAAGCAACC-TATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAAAC
1 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAAAC
*
894855 TTTACAATCTATAAAATTTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAATTCG
66 -TTACAATCTATAAAATTTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGTTCG
*
894920 AACATTATA-ATAGG-TTAAAAGTTATCTTTAAACAAATACTACTTTATACTTCCCCTAGATTAA
130 AACATTATAGATAGGTTTAAAA--TATCTTTAAAC-AATACTACTTTATACTTACCCTAGATTAA
*
894983 TT-AAAAAAC-ACCTTACATTTACAAACCTTTTTGTATCATTAAAATTATTTAAAGCAACCTTAT
192 TTAAAAAAACAACCTTAAATTTACAAACCTTTTTGTATCATTAAAATTATTTAAAGCAACCTTAT
895046 AATTTATAAATATTATCTTGTATTTACTCC-AATTAATAAAAAATACTTTACAATCTATAAAAAA
257 AATTTATAAATATTATCTTGTATTTACTCCAAATTAAT-AAAAATACTTTACAATCTATAAAAAA
* *
895110 -AATT-TA-GGTAAAGGAATTGTTGTTTACTCCTTTAGGACTTGAGTTCGAACATTATAGATAGG
321 TAATTGTATGGTAAAGGAATTGTTG-TTACTCCTTTAGGACTCGAATTCGAACATTATA-ATAGG
** *
895172 TTTAAAAGTTATCTTTAAACATGTACTGCTTT-TACTTACCCTAGATTAATT-AAAAA-AACCTT
384 -TTAAAAGTTATCTTTAAACAAATACTACTTTATA-TTACCCTAGATTAATTAAAAAACAACCTT
895234 ACAATTTAC-AACCTTTTTGTATCATTAAAA
447 ACAATTTACAAACCTTTTTGTATCATTAAAA
895264 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGT-TTTACTCC-AATTAATAAAAATTA
1 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAA--A
* * *
895327 A-TTACAATCTATAAAAATTTTGTATGGTAAATGAATTGTTTTTACTCCTTTAGGACTCGAGTTC
64 ACTTACAATCTATAAAATTTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGTTC
*
895391 GAACATTATAGATAGGTTTAAAA-ATCTTTAAAC-ATAC-GCTTTATACTTACCCTAGATTAATT
129 GAACATTATAGATAGGTTTAAAATATCTTTAAACAATACTACTTTATACTTACCCTAGATTAATT
895453 AAAAAAACAACCTTATAATTTACAAAACCTTTTTGTATCATTAAAATTATTTAAAGCAACCTTAT
194 AAAAAAACAACCTTA-AATTTAC-AAACCTTTTTGTATCATTAAAATTATTTAAAGCAACCTTAT
895518 AATTTATAAATATT
257 AATTTATAAATATT
895532 GTAGGATTTA
Statistics
Matches: 700, Mismatches: 23, Indels: 45
0.91 0.03 0.06
Matches are distributed among these distances:
468 23 0.03
469 11 0.02
470 6 0.01
471 16 0.02
472 136 0.19
473 65 0.09
474 80 0.11
475 71 0.10
476 119 0.17
477 27 0.04
478 70 0.10
479 22 0.03
480 39 0.06
481 15 0.02
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (477 bp):
TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAAAC
TTACAATCTATAAAATTTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGTTCGA
ACATTATAGATAGGTTTAAAATATCTTTAAACAATACTACTTTATACTTACCCTAGATTAATTAA
AAAAACAACCTTAAATTTACAAACCTTTTTGTATCATTAAAATTATTTAAAGCAACCTTATAATT
TATAAATATTATCTTGTATTTACTCCAAATTAATAAAAATACTTTACAATCTATAAAAAATAATT
GTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAATTCGAACATTATAATAGGTTAAAAG
TTATCTTTAAACAAATACTACTTTATATTACCCTAGATTAATTAAAAAACAACCTTACAATTTAC
AAACCTTTTTGTATCATTAAAA
Found at i:897767 original size:18 final size:17
Alignment explanation
Indices: 897713--897761 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
897703 TTGGACACTT
* *
897713 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
897731 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
897749 AGTGCATTCGATG
1 AGTGCA-TCGATG
897762 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:897866 original size:65 final size:65
Alignment explanation
Indices: 897733--897892 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
897723 TGCACTAAGA
* *
897733 GTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
* * * *
897797 GTGCATCGATGCATCAAATGTATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGGCT
*
897860 AT
65 -G
*
897862 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
897893 CAATTTAATT
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 28 0.33
65 53 0.63
66 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
Found at i:904334 original size:22 final size:21
Alignment explanation
Indices: 904292--904331 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
904282 GAGTTTATTT
*
904292 TCATTTTTCAATTTTTAAACA
1 TCATTTTTCAATTTTAAAACA
904313 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
904332 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:906287 original size:18 final size:17
Alignment explanation
Indices: 906233--906281 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
906223 TTGGACCCTT
* *
906233 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
906251 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
906269 AGTGCATTCGATG
1 AGTGCA-TCGATG
906282 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:906451 original size:65 final size:65
Alignment explanation
Indices: 906253--906462 Score: 216
Period size: 65 Copynumber: 3.2 Consensus size: 65
906243 TGCACTAAGA
* * ** *
906253 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGCCA-GAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCATG-GTGCATCGATGCATGGTT
906316 G
65 G
* * * *
906317 GTGCATCGATGCATCAAATGTATTCGATGTTTTC-ATAAAATTC-TCAGTGCATCGGTGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAATATAATTCAT-GGTGCATCGATGCATGGT
906380 AT-
64 -TG
* * *
906382 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCAATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCATGGTGCATCGATGCATGG-TT
906446 G
65 G
*
906447 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
906463 CTCTGAAAAA
Statistics
Matches: 119, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
63 3 0.03
64 51 0.43
65 64 0.54
66 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCATGGTGCATCGATGCATGGTTG
Found at i:908300 original size:16 final size:17
Alignment explanation
Indices: 908279--908311 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
908269 TCAAAGATAC
*
908279 AGAGTTTTAGA-ATTGA
1 AGAGTTTAAGATATTGA
908295 AGAGTTTAAGATATTGA
1 AGAGTTTAAGATATTGA
908312 GGATCGGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.36
Consensus pattern (17 bp):
AGAGTTTAAGATATTGA
Found at i:908595 original size:84 final size:83
Alignment explanation
Indices: 908353--908603 Score: 215
Period size: 82 Copynumber: 3.0 Consensus size: 83
908343 AAATGACAGT
* * * * ** * * * **
908353 GATTCTCTAAATAATAATG-GAACGCTTCCCCTAGAATACACCTTTCATTTCAGAT-GGAATAAA
1 GATTCTCTGAATAATAATGAAAATGATTCCCCTAGAACGCGCCTTTAATTTCGGATAGG-ATTGA
* *
908416 ACACTATGACATGAC-AAA
65 ACACTATGACATGGCTAGA
* * * * * * *
908434 GATTCTTTGAATAATAATGAAAATGCTTCCCTTGGAATGCGCCTTTAATTTCGTATGGGATTGAA
1 GATTCTCTGAATAATAATGAAAATGATTCCCCTAGAACGCGCCTTTAATTTCGGATAGGATTGAA
*
908499 TACTATGACATGG-TAGA
66 CACTATGACATGGCTAGA
* *
908516 GATTCTCTGAATAATAATGGAAAAATGATTCCCCTAGAACGCGTCTTTCATTTCGGATAGGATT-
1 GATTCTCTGAATAATAAT-G-AAAATGATTCCCCTAGAACGCGCCTTTAATTTCGGATAGGATTG
*
908580 ACACACTATGCCATGGCTAGA
64 A-ACACTATGACATGGCTAGA
908601 GAT
1 GAT
908604 GTAAATCGGT
Statistics
Matches: 136, Mismatches: 27, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
81 17 0.12
82 61 0.45
83 4 0.03
84 47 0.35
85 7 0.05
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (83 bp):
GATTCTCTGAATAATAATGAAAATGATTCCCCTAGAACGCGCCTTTAATTTCGGATAGGATTGAA
CACTATGACATGGCTAGA
Found at i:910063 original size:19 final size:20
Alignment explanation
Indices: 910039--910109 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 20
910029 TAAATTCAAA
910039 TAAATAA-ATTATAAT-AATT
1 TAAATAATA-TATAATCAATT
910058 TAAATAATATATAATCAATT
1 TAAATAATATATAATCAATT
* * *
910078 T-CATAATAT-TCATAAATT
1 TAAATAATATATAATCAATT
*
910096 TAAAAAAATATATA
1 T-AAATAATATATA
910110 GTTTTGTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
18 8 0.20
19 20 0.49
20 12 0.29
21 1 0.02
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAATAATATATAATCAATT
Found at i:910267 original size:21 final size:23
Alignment explanation
Indices: 910241--910293 Score: 74
Period size: 21 Copynumber: 2.3 Consensus size: 23
910231 TTAAATAATC
910241 AAATAAAATAA-TAAATAC-TAA
1 AAATAAAATAATTAAATACTTAA
*
910262 AAATAAAATAATTAATTACTTAA
1 AAATAAAATAATTAAATACTTAA
910285 AGAATAAAA
1 A-AATAAAA
910294 ATTCTAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 11 0.39
22 6 0.21
23 4 0.14
24 7 0.25
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (23 bp):
AAATAAAATAATTAAATACTTAA
Found at i:917325 original size:16 final size:16
Alignment explanation
Indices: 917304--917342 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
917294 GGTATTATCC
*
917304 GACCTGTTTTCAACCT
1 GACCTGTTATCAACCT
*
917320 GACCTGTTATGAACCT
1 GACCTGTTATCAACCT
917336 GACCTGT
1 GACCTGT
917343 AATTGACTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (16 bp):
GACCTGTTATCAACCT
Found at i:917482 original size:17 final size:17
Alignment explanation
Indices: 917460--917507 Score: 96
Period size: 17 Copynumber: 2.8 Consensus size: 17
917450 AATAAACTTA
917460 TGATAATTAAATTATTT
1 TGATAATTAAATTATTT
917477 TGATAATTAAATTATTT
1 TGATAATTAAATTATTT
917494 TGATAATTAAATTA
1 TGATAATTAAATTA
917508 ATATGATTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
TGATAATTAAATTATTT
Found at i:917514 original size:17 final size:17
Alignment explanation
Indices: 917457--917514 Score: 89
Period size: 17 Copynumber: 3.4 Consensus size: 17
917447 TATAATAAAC
917457 TTATGATAATTAAATTA
1 TTATGATAATTAAATTA
*
917474 TTTTGATAATTAAATTA
1 TTATGATAATTAAATTA
*
917491 TTTTGATAATTAAATTA
1 TTATGATAATTAAATTA
*
917508 ATATGAT
1 TTATGAT
917515 TACTTTTTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (17 bp):
TTATGATAATTAAATTA
Found at i:918448 original size:4 final size:4
Alignment explanation
Indices: 918439--918488 Score: 59
Period size: 4 Copynumber: 12.8 Consensus size: 4
918429 AATGTTAGAC
**
918439 AATA AATA AATA AATA AATA AAT- GTTA AATA AATAA AATA AAT- AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AAT-A AATA AATA AATA
918486 AAT
1 AAT
918489 GAAAAGGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 4 0.10
4 31 0.79
5 4 0.10
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:918503 original size:27 final size:27
Alignment explanation
Indices: 918446--918512 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
918436 GACAATAAAT
* * *
918446 AAATAAATAAATAAATGTTAAATAAATA
1 AAATAAAT-AATAAATGTAAAAGAAAAA
918474 AAATAAATAATAAATG-AAAAGGAAAAA
1 AAATAAATAATAAATGTAAAA-GAAAAA
918501 AAAT-AATAATAA
1 AAATAAATAATAA
918513 TTTAAAAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.31
27 16 0.46
28 8 0.23
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (27 bp):
AAATAAATAATAAATGTAAAAGAAAAA
Found at i:920428 original size:65 final size:66
Alignment explanation
Indices: 920301--920460 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 66
920291 AGGCCAATAT
* * * * *
920301 CCTTCGCTGTGAAGTTGAAATTG-AC--TCTGAAACTGGGAAGTTGTTTGTTGACAGCCAGCGGC
1 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGAAGTTGTTTGTTGACAACCAGCGGC
920363 C
66 C
*
920364 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGGAA-TT-TTTGTTGACAATCAGCGG
1 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACT-GGGAAGTTGTTTGTTGACAACCAGCGG
920427 CC
65 CC
*
920429 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
1 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTT
920461 GAGTCCAATA
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
63 21 0.24
64 1 0.01
65 49 0.57
66 10 0.12
67 5 0.06
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (66 bp):
CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGAAGTTGTTTGTTGACAACCAGCGGC
C
Found at i:920531 original size:106 final size:107
Alignment explanation
Indices: 920364--920566 Score: 304
Period size: 106 Copynumber: 1.9 Consensus size: 107
920354 GCCAGCGGCC
* * *
920364 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGGAATTTTTGTTGACAATCAGCGGCC
1 CCTTCGTTGTGAAGTTGAAATTGTGC-GTCTGAAACTGGGGAATTTTTGTTGACAACCAGCGGCC
*
920429 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATAT
65 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTGAGTCCAATAT
* *
920472 CCTTCGTTGTGAAGTTGAAATTG-GC-TCTGAAA-TTGGGAAGTTGTTTGTTGACAGCCAGCGGC
1 CCTTCGTTGTGAAGTTGAAATTGTGCGTCTGAAACTGGGGAA-TT-TTTGTTGACAACCAGCGGC
920534 CCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTT
64 CCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTT
920567 AAACTGGGAA
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
104 6 0.07
105 8 0.09
106 49 0.56
107 2 0.02
108 22 0.25
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.37
Consensus pattern (107 bp):
CCTTCGTTGTGAAGTTGAAATTGTGCGTCTGAAACTGGGGAATTTTTGTTGACAACCAGCGGCCC
CTTCGTTGTGAAGTTGAACTTGTGCTGTCTTGAGTCCAATAT
Found at i:920691 original size:65 final size:64
Alignment explanation
Indices: 920472--920688 Score: 305
Period size: 64 Copynumber: 3.4 Consensus size: 64
920462 AGTCCAATAT
* * * *
920472 CCTTCGTTGTGAAGTTGAAATTG-GCT-CTGAAATTGGGAAGTTGTTTGTTGACAGCCAGCGGCC
1 CCTTCGTTGTGAAGTTGAACTTGTGCTGCTGAAACTGGGAAATT-TTTGTTGACAACCAGCGGCC
*
920535 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGAAA-TTTTGTTGACAACCAGCGGCC
1 CCTTCGTTGTGAAGTTGAACTTGTGCTG-CTGAAACTGGGAAATTTTTGTTGACAACCAGCGGCC
* * *
920599 CCTTCGTTGTGAAGTTGAACTTGTGTTGCCTGATACTGGGAAATTTTTGTTAACAACCAGCGGCC
1 CCTTCGTTGTGAAGTTGAACTTGTGCTG-CTGAAACTGGGAAATTTTTGTTGACAACCAGCGGCC
*
920664 CTTTCGTTGTGAAGTTGAACTTGTG
1 CCTTCGTTGTGAAGTTGAACTTGTG
920689 TTGTCTTGAG
Statistics
Matches: 139, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
63 22 0.16
64 61 0.44
65 45 0.32
66 11 0.08
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (64 bp):
CCTTCGTTGTGAAGTTGAACTTGTGCTGCTGAAACTGGGAAATTTTTGTTGACAACCAGCGGCC
Found at i:921451 original size:84 final size:82
Alignment explanation
Indices: 921346--921929 Score: 626
Period size: 84 Copynumber: 7.1 Consensus size: 82
921336 CAAACTCGGG
*
921346 GGTCTTTGG--CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGA
1 GGTCTTTGGTACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGA
921409 GCGTAGTCGAACTCGAA
66 GCGTAGTCGAACTCGAA
* * * * * *
921426 GGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGC
1 GGTC-TTTGGT-ACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGC
* * **
921491 TGAGTGTAATCGAACTCGGG
63 TGAGCGTAGTCGAACTCGAA
* *
921511 GGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATGTGCCGTT-GAGC
1 GGTCTTTGG-T-ACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGC
*
921575 TGAGCGTAGTCGAACTCGAC
63 TGAGCGTAGTCGAACTCGAA
* * * * * * * * *
921595 GGTCTTGTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTCGAAGC
1 GGTCTT-TGGT-ACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGC
* *
921660 TGAACGTAGTCGAACTCGAG
63 TGAGCGTAGTCGAACTCGAA
* *
921680 GGTCTTTGG--CAGATAGCCCTTCTCGACTTAAGTTATTCTGCAAATGATGTGCCTTGGAGCTGA
1 GGTCTTTGGTACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGA
*
921743 GCGTAGTCGAACTCAAA
66 GCGTAGTCGAACTCGAA
* * * * * * * *
921760 GGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCT
1 GGTCTTTGGT-ACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCT
* * *
921825 GAGTGTAATCGAACT-TAA
64 GAGCGTAGTCGAACTCGAA
* * *
921843 GGGTCTTTGG--CAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTG
1 -GGTCTTTGGTACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTG
921906 AGCGTAGTCGAACTCGAA
65 AGCGTAGTCGAACTCGAA
921924 GGTCTT
1 GGTCTT
921930 GGTGGCAGGT
Statistics
Matches: 410, Mismatches: 78, Indels: 32
0.79 0.15 0.06
Matches are distributed among these distances:
80 64 0.16
81 74 0.18
83 36 0.09
84 139 0.34
85 97 0.24
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (82 bp):
GGTCTTTGGTACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGA
GCGTAGTCGAACTCGAA
Found at i:921577 original size:169 final size:165
Alignment explanation
Indices: 921277--921929 Score: 950
Period size: 164 Copynumber: 3.9 Consensus size: 165
921267 TTATTGACAA
* * * * * * * *
921277 ATAACCCTTCTTGCCTTGGGCTATGTTGTAAACGATATGACCTCGAAGTTGAGTGTAATCAAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACT
*
921342 CGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCT
66 CGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCT
* *
921407 GAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAG
131 GAGCGTAGTCGAACTCGAAGGTCTTTTGCTAACAG
*
921442 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACT
* * *
921507 CGGGGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATGTGCCGTT-
66 CGAGGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTG
* * * *
921571 GAGCTGAGCGTAGTCGAACTCGACGGTCTTGTGTTGACAG
126 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGCTAACAG
* ** *
921611 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTCGAAGCTGAACGTAGTCGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACT
* * *
921676 CGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATTCTGCAAATGATGTGCCTTGGAGCT
66 CGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCT
*
921741 GAGCGTAGTCGAACTCAAAGGTC-TTTGCTAACAG
131 GAGCGTAGTCGAACTCGAAGGTCTTTTGCTAACAG
* *
921775 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACT
** * *
921840 TAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCT
66 CGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCT
921905 GAGCGTAGTCGAACTCGAAGGTCTT
131 GAGCGTAGTCGAACTCGAAGGTCTT
921930 GGTGGCAGGT
Statistics
Matches: 444, Mismatches: 37, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
164 155 0.35
165 136 0.31
167 2 0.00
169 149 0.34
170 2 0.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (165 bp):
ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACT
CGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCT
GAGCGTAGTCGAACTCGAAGGTCTTTTGCTAACAG
Found at i:921735 original size:334 final size:328
Alignment explanation
Indices: 921270--921965 Score: 991
Period size: 334 Copynumber: 2.1 Consensus size: 328
921260 GACAATTTTA
* * * * * **
921270 TTGACAAATAACCCTTCTTGCCTTGGGCTATGTTGTAAACGATATGACCTCGAAGTTGAGTGTAA
1 TTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAACGATATGACCTCGAAGCTGAACGTAA
*
921335 TCAAACTCGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
66 TCAAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
* * *
921400 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTA
131 TGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTGCTAACAGATAACCCTTCTAGCCTTGAGTTA
* **
921465 TGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGTTGGCAGATA
195 TGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTC--T--TTGGCAGATA
*
921530 ACCCTTCTCGACTTAAGTTATGCTACAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCGA
256 ACCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGA
*
921594 CGGTCTTGTG
320 AGGTCTTG-G
* * * * *
921604 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTCGAAGCTGAACGTAG
1 TTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAACGATATGACCTCGAAGCTGAACGTAA
* * * *
921669 TCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATTCTGCAAATGATGTGCCT
66 TCAAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
921734 TGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTAT
131 TGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTAT
* * * *
921799 GCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCCCT
196 GCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATAACCCT
* *
921864 TCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT
261 TCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT
921929 TGG
326 TGG
* * * * *
921932 -TGGCAGGTAGCCCTTCTGGCCTTGAGCTAAGCTG
1 TTGACAGATAACCCTTCTAGCCTTGAGCTATGCTG
921966 CAAATAGTTT
Statistics
Matches: 324, Mismatches: 37, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
327 28 0.09
328 3 0.01
329 74 0.23
331 1 0.00
333 76 0.23
334 142 0.44
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (328 bp):
TTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAACGATATGACCTCGAAGCTGAACGTAA
TCAAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
TGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTAT
GCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATAACCCT
TCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT
TGG
Found at i:924159 original size:27 final size:26
Alignment explanation
Indices: 924108--924160 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
924098 TGAGACACGT
* *
924108 GAATGTAAAAAAAGGAAAAATAATGC
1 GAATGTAAAAAAAGAAAAAAAAATGC
924134 GAATGTAAAAAAA-AAATAACAAAATGC
1 GAATGTAAAAAAAGAAA-AA-AAAATGC
924161 ACAATATGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 2 0.09
26 15 0.65
27 6 0.26
ACGTcount: A:0.64, C:0.06, G:0.15, T:0.15
Consensus pattern (26 bp):
GAATGTAAAAAAAGAAAAAAAAATGC
Found at i:925841 original size:4 final size:4
Alignment explanation
Indices: 925832--925881 Score: 59
Period size: 4 Copynumber: 12.8 Consensus size: 4
925822 AATGTTAGAC
**
925832 AATA AATA AATA AATA AATA AAT- GTTA AATA AATAA AATA AAT- AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AAT-A AATA AATA AATA
925879 AAT
1 AAT
925882 GAAAAGGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 4 0.10
4 31 0.79
5 4 0.10
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:925904 original size:32 final size:32
Alignment explanation
Indices: 925835--925904 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
925825 GTTAGACAAT
* * *
925835 AAATAAATAAATAAATAAATGTTAAATAAATA
1 AAATAAATAAATAAATAAAAGTGAAAAAAATA
925867 AAATAAAT-AATAAATGAAAAG-GAAAAAAATA
1 AAATAAATAAATAAAT-AAAAGTGAAAAAAATA
925898 ATAATAA
1 A-AATAA
925905 TTTAAAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 16 0.48
32 17 0.52
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (32 bp):
AAATAAATAAATAAATAAAAGTGAAAAAAATA
Found at i:925994 original size:16 final size:17
Alignment explanation
Indices: 925973--926009 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
925963 GAAAGAAGAA
*
925973 AAAATAATAATTAAAG-
1 AAAATAATAAATAAAGT
925989 AAAATAATAAATAAAGT
1 AAAATAATAAATAAAGT
926006 AAAA
1 AAAA
926010 CTTAGAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (17 bp):
AAAATAATAAATAAAGT
Found at i:926972 original size:12 final size:12
Alignment explanation
Indices: 926955--926983 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
926945 TGGGGTCGTT
926955 GCGTGAGAAACG
1 GCGTGAGAAACG
926967 GCGTGAGAAACG
1 GCGTGAGAAACG
926979 GCGTG
1 GCGTG
926984 CCAAGGGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.45, T:0.10
Consensus pattern (12 bp):
GCGTGAGAAACG
Found at i:929188 original size:13 final size:13
Alignment explanation
Indices: 929170--929273 Score: 50
Period size: 13 Copynumber: 7.5 Consensus size: 13
929160 GTATGTAAAC
929170 TATATAGTTTATA
1 TATATAGTTTATA
*
929183 TATATAGTTCATATG
1 TATATAGTT--TATA
929198 TAACTATAGTTTATA
1 T-A-TATAGTTTATA
*
929213 TATAGTA-TATAAATA
1 TATA-TAGT-T-TATA
929228 TAATTATAGTTTATA
1 T-A-TATAGTTTATA
* *
929243 TAAATAGTATA-A
1 TATATAGTTTATA
* *
929255 AATATAGTATATA
1 TATATAGTTTATA
*
929268 AATATA
1 TATATA
929274 ACTATAGTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 22
0.71 0.08 0.22
Matches are distributed among these distances:
12 10 0.14
13 26 0.36
14 5 0.07
15 16 0.22
16 5 0.07
17 10 0.14
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:929208 original size:30 final size:30
Alignment explanation
Indices: 929146--929250 Score: 106
Period size: 30 Copynumber: 3.4 Consensus size: 30
929136 TCAACTTTAG
*
929146 TATATATATAGTTCGTATGTAAACTATATAGTT
1 TATATATATAGTTCATATGT-AAC--TATAGTT
929179 TATATATATAGTTCATATGTAACTATAGTT
1 TATATATATAGTTCATATGTAACTATAGTT
* * *
929209 TATATATAGTA-TAT-AAATATAATTATAGTT
1 TATATATA-TAGT-TCATATGTAACTATAGTT
*
929239 TATATAAATAGT
1 TATATATATAGT
929251 ATAAAATATA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
29 2 0.03
30 37 0.58
31 3 0.05
32 3 0.05
33 19 0.30
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.46
Consensus pattern (30 bp):
TATATATATAGTTCATATGTAACTATAGTT
Found at i:929254 original size:30 final size:31
Alignment explanation
Indices: 929172--929260 Score: 103
Period size: 30 Copynumber: 2.9 Consensus size: 31
929162 ATGTAAACTA
* * * *
929172 TATAGTTTATATATATAGT-TCATATGTAAC
1 TATAGTTTATATAAATAGTATAAAATATAAC
*
929202 TATAGTTTATAT--ATAGTATATAAATATAAT
1 TATAGTTTATATAAATAGTATA-AAATATAAC
929232 TATAGTTTATATAAATAGTATAAAATATA
1 TATAGTTTATATAAATAGTATAAAATATA
929261 GTATATAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
28 5 0.10
29 1 0.02
30 30 0.59
31 7 0.14
32 8 0.16
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (31 bp):
TATAGTTTATATAAATAGTATAAAATATAAC
Found at i:929263 original size:12 final size:13
Alignment explanation
Indices: 929225--929314 Score: 60
Period size: 13 Copynumber: 6.8 Consensus size: 13
929215 TAGTATATAA
*
929225 ATATAATTATAGT
1 ATATAAATATAGT
*
929238 TTATATAA-ATAGT
1 ATATA-AATATAGT
929251 ATA-AAATATAGT
1 ATATAAATATAGT
*
929263 ATATAAATATAACT
1 ATATAAATAT-AGT
** *
929277 ATAGTTTATATAAAT
1 ATA-TAAATAT-AGT
*
929292 AGATAAA-ATAGT
1 ATATAAATATAGT
929304 ATATAAATATA
1 ATATAAATATA
929315 AACTATACTT
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
11 2 0.03
12 17 0.29
13 22 0.37
14 8 0.14
15 10 0.17
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (13 bp):
ATATAAATATAGT
Found at i:929265 original size:44 final size:43
Alignment explanation
Indices: 929203--929353 Score: 213
Period size: 44 Copynumber: 3.6 Consensus size: 43
929193 ATATGTAACT
* * *
929203 ATAGTTTATATATAGTATATAAATATAATTATAGTTTATATAA
1 ATAGTATAAATATAGTATATAAATATAACTATAGTTTATATAA
929246 ATAGTATAAAATATAGTATATAAATATAACTATAGTTTATATAA
1 ATAGTAT-AAATATAGTATATAAATATAACTATAGTTTATATAA
*
929290 ATAG-ATAAA-ATAGTATATAAATATAAACTATACTTTATAT-A
1 ATAGTATAAATATAGTATATAAATAT-AACTATAGTTTATATAA
929331 ATAGTAT-AATATAG-ATATAAATA
1 ATAGTATAAATATAGTATATAAATA
929354 ATAAATTAGT
Statistics
Matches: 100, Mismatches: 4, Indels: 10
0.88 0.04 0.09
Matches are distributed among these distances:
41 31 0.31
42 23 0.23
43 8 0.08
44 38 0.38
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.40
Consensus pattern (43 bp):
ATAGTATAAATATAGTATATAAATATAACTATAGTTTATATAA
Found at i:929408 original size:6 final size:7
Alignment explanation
Indices: 929387--929454 Score: 52
Period size: 7 Copynumber: 9.9 Consensus size: 7
929377 AATATAAATA
929387 TAAACCC
1 TAAACCC
*
929394 TAAATCC
1 TAAACCC
929401 TAAA-CC
1 TAAACCC
929407 TAAACCC
1 TAAACCC
*
929414 --GACCTAC
1 TAAACC--C
*
929421 TAAACCA
1 TAAACCC
* *
929428 TGACCCC
1 TAAACCC
929435 TAAACCC
1 TAAACCC
929442 TAAACCC
1 TAAACCC
929449 TAAACC
1 TAAACC
929455 ATATATACTA
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
5 3 0.06
6 6 0.13
7 35 0.74
9 3 0.06
ACGTcount: A:0.41, C:0.40, G:0.03, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:929579 original size:28 final size:30
Alignment explanation
Indices: 929534--929746 Score: 102
Period size: 33 Copynumber: 6.7 Consensus size: 30
929524 TAATTATACA
* * *
929534 TTATACATAATATATATATAATTGTATAGT
1 TTATATATAATATATATATAACTATATAGT
*
929564 TTATATATAAT-T-TATATAACTATGTAGTT
1 TTATATATAATATATATATAACTATATAG-T
929593 TCTATATAGTTCAATAGTTCATATATAAACTATATAGT
1 T-TATATA--T-AATA--T-ATATAT-AACTATATAGT
* *
929631 ATTATAGT-T--TATACATGGT-A-TATATAGT
1 -TTATA-TATAATATATAT-ATAACTATATAGT
929659 TTATATATAATATAGATATATAAACTATATAGT
1 TTATATATAATAT--ATATAT-AACTATATAGT
*
929692 TCTATGTA-AATTATACTATATAGTA-TATATAGTT
1 T-TATATATAA-TATA-TATATA--ACTATATAG-T
929726 TTATATATAATATATAGTATA
1 TTATATATAATATATA-TATA
929747 TAAATATAAC
Statistics
Matches: 142, Mismatches: 11, Indels: 57
0.68 0.05 0.27
Matches are distributed among these distances:
26 1 0.01
27 6 0.04
28 20 0.14
29 7 0.05
30 20 0.14
31 5 0.04
32 6 0.04
33 41 0.29
34 13 0.09
36 2 0.01
38 10 0.07
39 11 0.08
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (30 bp):
TTATATATAATATATATATAACTATATAGT
Found at i:929663 original size:9 final size:9
Alignment explanation
Indices: 929623--929748 Score: 65
Period size: 9 Copynumber: 14.4 Consensus size: 9
929613 ATATATAAAC
929623 TATATAGTA
1 TATATAGTA
929632 T-TATAGTTTA
1 TATATAG--TA
* *
929642 TACATGGTA
1 TATATAGTA
*
929651 TATATAGTT
1 TATATAGTA
929660 TATATA-TA
1 TATATAGTA
929668 -ATATAG-A
1 TATATAGTA
*
929675 TATATA-AA
1 TATATAGTA
929683 CTATATAGT-
1 -TATATAGTA
*
929692 TCTAT-GTA
1 TATATAGTA
*
929700 AAT-TA-TA
1 TATATAGTA
929707 CTATATAGTA
1 -TATATAGTA
*
929717 TATATAGTTT
1 TATATAG-TA
929727 TATATA-TAA
1 TATATAGT-A
929736 TATATAGTA
1 TATATAGTA
929745 TATA
1 TATA
929749 AATATAACTA
Statistics
Matches: 88, Mismatches: 13, Indels: 32
0.66 0.10 0.24
Matches are distributed among these distances:
7 11 0.12
8 20 0.23
9 41 0.47
10 13 0.15
11 3 0.03
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (9 bp):
TATATAGTA
Found at i:929672 original size:20 final size:20
Alignment explanation
Indices: 929623--929741 Score: 71
Period size: 21 Copynumber: 5.7 Consensus size: 20
929613 ATATATAAAC
929623 TATATAGTAT-TATAGTTTA
1 TATATAGTATATATAGTTTA
* *
929642 TACATGGTATATATAGTTTA
1 TATATAGTATATATAGTTTA
* **
929662 TATATAATATAGATATA-TAAA
1 TATATAGTAT--ATATAGTTTA
* * *
929683 CTATATAGTTCTATGTAAATTATA
1 -TATATAG-TATATAT-AGTT-TA
929707 CTATATAGTATATATAGTTTTA
1 -TATATAGTATATATAG-TTTA
*
929729 TATATAATATATA
1 TATATAGTATATA
929742 GTATATAAAT
Statistics
Matches: 75, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
19 8 0.11
20 16 0.21
21 17 0.23
22 15 0.20
23 10 0.13
24 9 0.12
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.46
Consensus pattern (20 bp):
TATATAGTATATATAGTTTA
Found at i:929712 original size:33 final size:34
Alignment explanation
Indices: 929650--929754 Score: 119
Period size: 33 Copynumber: 3.1 Consensus size: 34
929640 TATACATGGT
*
929650 ATATATAGTT-TATATATAATATAGA-TATATAA
1 ATATATAGTTCTATATATAATATATACTATATAA
* *
929682 ACTATATAGTTCTATGTA-AAT-TATACTATATAGT
1 A-TATATAGTTCTATATATAATATATACTATATA-A
* *
929716 ATATATAGTTTTATATATAATATATAGTATATAA
1 ATATATAGTTCTATATATAATATATACTATATAA
929750 ATATA
1 ATATA
929755 ACTATAGCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
32 4 0.07
33 32 0.53
34 14 0.23
35 10 0.17
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.45
Consensus pattern (34 bp):
ATATATAGTTCTATATATAATATATACTATATAA
Done.