Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 94 of 100
Found at i:18626664 original size:17 final size:18
Alignment explanation
Indices: 18626636--18626669 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18626626 AAATAAACTA
*
18626636 ATATTATTTAATTTAATT
1 ATATTATTTAATATAATT
18626654 ATATT-TTTAATATAAT
1 ATATTATTTAATATAAT
18626670 CTTATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTATTTAATATAATT
Found at i:18626675 original size:32 final size:33
Alignment explanation
Indices: 18626634--18626699 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
18626624 CAAAATAAAC
*
18626634 TAATATTATTTAAT-TTAATTATATTTTTA-ATA
1 TAATATTATTTAATCTT-ATTATAATTTTATATA
* *
18626666 TAATCTTATTTTATCTTATTATAATTTTATATA
1 TAATATTATTTAATCTTATTATAATTTTATATA
18626699 T
1 T
18626700 TAAACGCACT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 23 0.79
33 6 0.21
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (33 bp):
TAATATTATTTAATCTTATTATAATTTTATATA
Found at i:18627657 original size:12 final size:12
Alignment explanation
Indices: 18627640--18627679 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
18627630 TACATTAACT
18627640 TATTTCATAGAA
1 TATTTCATAGAA
*
18627652 TATTTCGTAGAA
1 TATTTCATAGAA
*
18627664 TATTTCTTAGAA
1 TATTTCATAGAA
18627676 -ATTT
1 TATTT
18627680 ATTTAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 4 0.15
12 22 0.85
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (12 bp):
TATTTCATAGAA
Found at i:18631401 original size:15 final size:16
Alignment explanation
Indices: 18631369--18631404 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
18631359 GGATTGGGCG
18631369 GGGTGGGGAAGGGATT
1 GGGTGGGGAAGGGATT
*
18631385 GGGTGGGG-AGTGATT
1 GGGTGGGGAAGGGATT
18631400 GGGTG
1 GGGTG
18631405 TGGTGGGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.14, C:0.00, G:0.64, T:0.22
Consensus pattern (16 bp):
GGGTGGGGAAGGGATT
Found at i:18631694 original size:19 final size:19
Alignment explanation
Indices: 18631672--18631710 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
18631662 TGTATCTGAA
* *
18631672 TTTTAATTTTTTTTTGTTG
1 TTTTAATATTTTATTGTTG
*
18631691 TTTTGATATTTTATTGTTG
1 TTTTAATATTTTATTGTTG
18631710 T
1 T
18631711 CACATATTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (19 bp):
TTTTAATATTTTATTGTTG
Found at i:18636767 original size:2 final size:2
Alignment explanation
Indices: 18636760--18636787 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18636750 TTATTGGTGT
18636760 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18636788 ATTGCACTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18639105 original size:12 final size:13
Alignment explanation
Indices: 18639088--18639116 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
18639078 AAGTTTAGTT
18639088 AAATTTTA-TTTA
1 AAATTTTATTTTA
18639100 AAATTTTATTTTA
1 AAATTTTATTTTA
18639113 AAAT
1 AAAT
18639117 ATTAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AAATTTTATTTTA
Found at i:18639414 original size:1 final size:1
Alignment explanation
Indices: 18639408--18639434 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
18639398 ATGGATGAGG
18639408 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
18639435 AATATAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:18640386 original size:21 final size:21
Alignment explanation
Indices: 18640342--18640391 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
18640332 AGTAAGGGAG
* *
18640342 GTGAAATTTATTATTGTAATA
1 GTGAAATTGATTATTGTAACA
* *
18640363 GTGAGATTGATTATTGTAGCA
1 GTGAAATTGATTATTGTAACA
18640384 GTGAAATT
1 GTGAAATT
18640392 AAAATCGATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.02, G:0.22, T:0.42
Consensus pattern (21 bp):
GTGAAATTGATTATTGTAACA
Found at i:18640613 original size:50 final size:54
Alignment explanation
Indices: 18640535--18640637 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 54
18640525 GATATTTGTG
* *
18640535 AAATTAATAAATAATTAAAAATTATTTTATATCAAGTAATA-TTT-TTATTAAT
1 AAATTAATAAATAATTAAAAATTATTTTATATAAAATAATACTTTATTATTAAT
*
18640587 AAATTAA-AAAT-ATT-AAAATTGTTTTTATATAAAATAATACTTTATTATTAA
1 AAATTAATAAATAATTAAAAATT-ATTTTATATAAAATAATACTTTATTATTAA
18640638 ATATCTACAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
49 6 0.13
50 18 0.40
51 7 0.16
52 14 0.31
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (54 bp):
AAATTAATAAATAATTAAAAATTATTTTATATAAAATAATACTTTATTATTAAT
Found at i:18640639 original size:49 final size:52
Alignment explanation
Indices: 18640535--18640639 Score: 128
Period size: 49 Copynumber: 2.1 Consensus size: 52
18640525 GATATTTGTG
* * *
18640535 AAATTAATAAATAATTAAAAATTATTTTATATCAAGTAATATTTTTATTAAT
1 AAATTAATAAATAATTAAAAATTATTTTATATAAAATAATATCTTTATTAAT
* *
18640587 AAATTAA-AAAT-ATT-AAAATTGTTTTTATATAAAATAATA-CTTTATTATT
1 AAATTAATAAATAATTAAAAATT-ATTTTATATAAAATAATATCTTTATTAAT
18640636 AAAT
1 AAAT
18640640 ATCTACAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
49 18 0.38
50 18 0.38
51 4 0.09
52 7 0.15
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (52 bp):
AAATTAATAAATAATTAAAAATTATTTTATATAAAATAATATCTTTATTAAT
Found at i:18640687 original size:8 final size:8
Alignment explanation
Indices: 18640674--18640719 Score: 65
Period size: 8 Copynumber: 5.6 Consensus size: 8
18640664 TTATTTTTGT
18640674 ATAAAATA
1 ATAAAATA
18640682 ATAAAATA
1 ATAAAATA
18640690 ATAAAATA
1 ATAAAATA
*
18640698 ATAAAAAAA
1 AT-AAAATA
*
18640707 ATAAAAAA
1 ATAAAATA
18640715 ATAAA
1 ATAAA
18640720 GCTAAAAGCT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
8 29 0.81
9 7 0.19
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (8 bp):
ATAAAATA
Found at i:18640695 original size:16 final size:16
Alignment explanation
Indices: 18640674--18640719 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
18640664 TTATTTTTGT
*
18640674 ATAAAATAATAAAATA
1 ATAAAATAATAAAAAA
18640690 ATAAAATAATAAAAAAA
1 ATAAAATAAT-AAAAAA
*
18640707 ATAAAAAAATAAA
1 ATAAAATAATAAA
18640720 GCTAAAAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
ATAAAATAATAAAAAA
Found at i:18643352 original size:16 final size:16
Alignment explanation
Indices: 18643312--18643356 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
18643302 AATAAGGAAG
*
18643312 CATGGAAATTGAATAA
1 CATGGAAATTAAATAA
* *
18643328 CTTGAAAATTAAATAA
1 CATGGAAATTAAATAA
18643344 CATGGAAATTAAA
1 CATGGAAATTAAA
18643357 AATGCATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (16 bp):
CATGGAAATTAAATAA
Found at i:18650384 original size:20 final size:19
Alignment explanation
Indices: 18650344--18650381 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18650334 TGTTTGATCT
*
18650344 GATTGATTTAAGTGAGTAA
1 GATTGATTTAAGTGAGAAA
18650363 GATTGCATTTAA-TGAGAAA
1 GATTG-ATTTAAGTGAGAAA
18650382 AGAGATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (19 bp):
GATTGATTTAAGTGAGAAA
Found at i:18650641 original size:23 final size:23
Alignment explanation
Indices: 18650598--18650641 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
18650588 AATCTTAAAG
*
18650598 TCTTTTCTTTTTTCCTACTGTTT
1 TCTTTTCTTTTTTACTACTGTTT
*
18650621 TCTTTT-TTTCTTTACTTCTGT
1 TCTTTTCTTT-TTTACTACTGT
18650642 ACATATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.05, C:0.20, G:0.05, T:0.70
Consensus pattern (23 bp):
TCTTTTCTTTTTTACTACTGTTT
Found at i:18668485 original size:8 final size:8
Alignment explanation
Indices: 18668474--18668499 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
18668464 CAATTTTAAG
18668474 TTTTTTAT
1 TTTTTTAT
18668482 TTTTTTAT
1 TTTTTTAT
18668490 TTTTTTAT
1 TTTTTTAT
18668498 TT
1 TT
18668500 AACAAGCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTAT
Found at i:18670793 original size:40 final size:40
Alignment explanation
Indices: 18670743--18670835 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
18670733 TTGAAGAATC
* * *
18670743 TTGAAAGTTCTTAATCAATCTTGGGTGATTCTTGATATAT
1 TTGAATGTTCTTAACCAATCTTGGATGATTCTTGATATAT
* ** * *
18670783 TTGAATGTTCTTGACCTGTTTTTGATGATTCTTGATATAT
1 TTGAATGTTCTTAACCAATCTTGGATGATTCTTGATATAT
18670823 TTGAATGATTCTT
1 TTGAATG-TTCTT
18670836 GAACTATTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 39 0.89
41 5 0.11
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.49
Consensus pattern (40 bp):
TTGAATGTTCTTAACCAATCTTGGATGATTCTTGATATAT
Found at i:18670843 original size:20 final size:20
Alignment explanation
Indices: 18670768--18670837 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
18670758 CAATCTTGGG
18670768 TGATTCTTGATATATTTGAA
1 TGATTCTTGATATATTTGAA
* *
18670788 TG-TTCTTGACCTGTTTTTG-A
1 TGATTCTTGA--TATATTTGAA
18670808 TGATTCTTGATATATTTGAA
1 TGATTCTTGATATATTTGAA
18670828 TGATTCTTGA
1 TGATTCTTGA
18670838 ACTATTCTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 13 0.31
20 16 0.38
21 13 0.31
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.51
Consensus pattern (20 bp):
TGATTCTTGATATATTTGAA
Found at i:18671938 original size:58 final size:58
Alignment explanation
Indices: 18671812--18672092 Score: 325
Period size: 58 Copynumber: 4.8 Consensus size: 58
18671802 CACTTTTGTA
* * * * *
18671812 CAAGAAAAAGTGATACTTTCAACTTCTCC-CCAAAATATTTTTTTAGAAAACTTTAATTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTT-GGAAACTTTAATTT
* *
18671871 CGAGGAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTGGAAACTTTAATTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTAATTT
* * * * *
18671929 CAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAACCTTTTTT-GAAAATTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCT---CAAAAATA--TTTTTTGGAAACTTTAATTT
* * * *
18671991 TAAGGAAAATTGATACATTCAACTTTTCCCCAAAAATATTTTTTGGAAAGC-TTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAA-CTTTAATTT
18672049 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
18672093 TTGAATTTTT
Statistics
Matches: 190, Mismatches: 24, Indels: 17
0.82 0.10 0.07
Matches are distributed among these distances:
57 6 0.03
58 92 0.48
59 36 0.19
60 7 0.04
61 6 0.03
62 37 0.19
63 6 0.03
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTAATTT
Found at i:18672012 original size:120 final size:122
Alignment explanation
Indices: 18671850--18672084 Score: 359
Period size: 120 Copynumber: 1.9 Consensus size: 122
18671840 CCCAAAATAT
* * * *
18671850 TTTTTTAGAAAACTTTAATTTCGAGGAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTT
1 TTTTTTAGAAAACTTTAATTTCAAGGAAAATTGATACATTCAACTTTTCCCCAAAAATATTTTTT
18671915 GGAAA-CTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAACC
66 GGAAAGC-TTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAACC
* *
18671972 TTTTTT-GAAAA-TTTATTTTTAAGGAAAATTGATACATTCAACTTTTCCCCAAAAATATTTTTT
1 TTTTTTAGAAAACTTTAATTTCAAGGAAAATTGATACATTCAACTTTTCCCCAAAAATATTTTTT
* * *
18672035 GGAAAGCTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA
66 GGAAAGCTTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAA
18672085 TATTTTTTTT
Statistics
Matches: 103, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
120 91 0.88
121 6 0.06
122 6 0.06
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (122 bp):
TTTTTTAGAAAACTTTAATTTCAAGGAAAATTGATACATTCAACTTTTCCCCAAAAATATTTTTT
GGAAAGCTTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAACC
Found at i:18673892 original size:13 final size:13
Alignment explanation
Indices: 18673871--18673900 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18673861 TAAAAATGAT
18673871 AAATATGAAATAA
1 AAATATGAAATAA
*
18673884 AAATTTGAAATAA
1 AAATATGAAATAA
18673897 AAAT
1 AAAT
18673901 GAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (13 bp):
AAATATGAAATAA
Found at i:18674188 original size:105 final size:105
Alignment explanation
Indices: 18674065--18674258 Score: 345
Period size: 105 Copynumber: 1.8 Consensus size: 105
18674055 TTTTTTGGTT
18674065 TTTTTATTTTTTAAATTTTGATCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATA
1 TTTTTATTTTTTAAATTTTGATCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATA
18674130 AACAAAGCTCCTCTAATTAGAGGTATTTTTTTTTGTTTTTG
66 AACAAAGCTCCTCTAATT-GAGGTATTTTTTTTTGTTTTTG
* * *
18674171 TTTTTGTTTTTT-AATTTTGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACATA
1 TTTTTATTTTTTAAATTTTGATCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATA
18674235 AACAAAGCTCCTCTAATTGAGGTA
66 AACAAAGCTCCTCTAATTGAGGTA
18674259 AAATTTTTTT
Statistics
Matches: 85, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
104 6 0.07
105 68 0.80
106 11 0.13
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (105 bp):
TTTTTATTTTTTAAATTTTGATCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATA
AACAAAGCTCCTCTAATTGAGGTATTTTTTTTTGTTTTTG
Found at i:18674266 original size:105 final size:103
Alignment explanation
Indices: 18674053--18674268 Score: 335
Period size: 105 Copynumber: 2.1 Consensus size: 103
18674043 ACTCAACTGG
18674053 ATTTTTTTGGTTTTTTTATTTTTTAAATTTTGATCAAAGCTCCTCTAAACAGAGGCTCAACGACT
1 ATTTTTTTGGTTTTTTTATTTTTTAAATTTTGATCAAAGCTCCTCTAAACAGAGGCTCAACGACT
*
18674118 TTGAGAAACATAAACAAAGCTCCTCTAATTAGAGGTAT
66 TTGAGAAACATAAACAAAGCTCCTCTAATTAGAGGTAA
* * * * * *
18674156 TTTTTTTTGTTTTTGTTTTTGTTTTTTAATTTTGATCAAAGCTCCTCTAAGCAGAGGCTCAATGA
1 ATTTTTTTGGTTTT-TTTAT-TTTTTAAATTTTGATCAAAGCTCCTCTAAACAGAGGCTCAACGA
18674221 CTTTGAGAAACATAAACAAAGCTCCTCTAATT-GAGGTAAA
64 CTTTGAGAAACATAAACAAAGCTCCTCTAATTAGAGGT-AA
18674261 ATTTTTTT
1 ATTTTTTT
18674269 TTTATTAAAG
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
103 12 0.12
104 9 0.09
105 81 0.79
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (103 bp):
ATTTTTTTGGTTTTTTTATTTTTTAAATTTTGATCAAAGCTCCTCTAAACAGAGGCTCAACGACT
TTGAGAAACATAAACAAAGCTCCTCTAATTAGAGGTAA
Found at i:18674348 original size:82 final size:82
Alignment explanation
Indices: 18674193--18674351 Score: 241
Period size: 82 Copynumber: 2.0 Consensus size: 82
18674183 AATTTTGATC
* * **
18674193 AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAATTGAGGT
1 AAAGCTACTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAACAGAGGT
18674258 AAAATTTTTTTTTTATT
66 AAAATTTTTTTTTTATT
* *
18674275 AAAGCTACTCTAAGTAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTTTAAACAGAGG
1 AAAGCTACTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCT-AACAGAGG
18674340 T--AATTTTTTTTT
65 TAAAATTTTTTTTT
18674352 GTTTTTTGTT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
81 11 0.16
82 52 0.74
83 7 0.10
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.31
Consensus pattern (82 bp):
AAAGCTACTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAACAGAGGT
AAAATTTTTTTTTTATT
Found at i:18674364 original size:97 final size:96
Alignment explanation
Indices: 18674262--18674639 Score: 438
Period size: 99 Copynumber: 3.8 Consensus size: 96
18674252 TGAGGTAAAA
* * *
18674262 TTTTTTTTTTATTAAAGCTACTCTAAGTAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTC
1 TTTTTTTTTTATCAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTC
*
18674327 CTTTAAACAGAGGTAATTTTTTTTTGTTTTTTGTTTTT
66 CTCTAAACAGAGGTAA------TTT-TTTTTTGTTTTT
* *
18674365 TTTTTTAATTTTGATCAAAGCTCCTTTAAGCAGAGGCTCAACAACTTTGAGAAACATAAACAAAG
1 TTTTTT--TTTT-ATCAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAG
18674430 CTCCTCTAAACAGAGGTAA-TTTTTTTTGTTTTT
63 CTCCTCTAAACAGAGGTAATTTTTTTTTGTTTTT
* *
18674463 TTTTTAATTTTAATCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGC
1 TTTTT--TTTTTATCAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGC
**
18674528 TCCTCTAAACAGAGACAATTTTTTGTTT-TATTTT
64 TCCTCTAAACAGAGGTAATTTTTT-TTTGT-TTTT
* * * * *
18674562 TTTTTTAAATTGATCAAAGCTCCTCTAAGTA-ATGGCTTAATGACTTTGAGAAACATAAACAAAG
1 TTTTTT--TTTTATCAAAGCTCCTCTAAGCAGA-GGCTCAACGACTTTGAGAAACATAAACAAAG
*
18674626 CTCCTCTAATCAGA
63 CTCCTCTAAACAGA
18674640 AGCTCAACAA
Statistics
Matches: 245, Mismatches: 19, Indels: 26
0.84 0.07 0.09
Matches are distributed among these distances:
97 67 0.27
98 27 0.11
99 75 0.31
100 1 0.00
103 6 0.02
105 4 0.02
106 65 0.27
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (96 bp):
TTTTTTTTTTATCAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTC
CTCTAAACAGAGGTAATTTTTTTTTGTTTTT
Found at i:18674403 original size:188 final size:192
Alignment explanation
Indices: 18674085--18674635 Score: 723
Period size: 188 Copynumber: 2.9 Consensus size: 192
18674075 TTAAATTTTG
**
18674085 ATCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAATTAG
1 ATCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACAG
18674150 AGGT-ATTTTTTTTTGTTTTTGTTTTTGTTTTTTAATTTTGATCAAAGCTCCTCTAAGCAGAGGC
66 AGGTAATTTTTTTTTGTTTTTGTTTTT-TTTTTTAATTTTGATCAAAGCTCCTCTAAGCAGAGGC
*
18674214 TCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAATTGAGGTAA-AATTTTTTTTTT-A-T
130 TCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAATAGAGGTAATAATTTTTTTTTTAATT
* ** *
18674274 -T-AAAGCTACTCTAAGTAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTTTAAACAG
1 ATCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACAG
*
18674337 AGGTAATTTTTTTTTGTTTTTTGTTTTTTTTTTTAATTTTGATCAAAGCTCCTTTAAGCAGAGGC
66 AGGTAATTTTTTTTTG-TTTTTGTTTTTTTTTTTAATTTTGATCAAAGCTCCTCTAAGCAGAGGC
** * **
18674402 TCAACAACTTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGGTAATTTTTTTTGTTTTTTTTT
130 TCAATGACTTTGAGAAACATAAACAAAGCTCCTCT-AATAGAGGTAA------TAATTTTTTTTT
18674467 TAATTTT
188 TAA--TT
18674474 AATCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACA
1 -ATCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACA
** * * *
18674539 GAGACAA---TTTTTTG-TTTT-ATTTTTTTTTTAA-ATTGATCAAAGCTCCTCTAAGTA-ATGG
65 GAGGTAATTTTTTTTTGTTTTTGTTTTTTTTTTTAATTTTGATCAAAGCTCCTCTAAGCAGA-GG
*
18674597 CTTAATGACTTTGAGAAACATAAACAAAGCTCCTCTAAT
129 CTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAAT
18674636 CAGAAGCTCA
Statistics
Matches: 317, Mismatches: 27, Indels: 30
0.85 0.07 0.08
Matches are distributed among these distances:
187 60 0.19
188 81 0.26
189 20 0.06
195 3 0.01
196 65 0.21
197 13 0.04
198 4 0.01
200 8 0.03
202 1 0.00
203 62 0.20
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (192 bp):
ATCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACAG
AGGTAATTTTTTTTTGTTTTTGTTTTTTTTTTTAATTTTGATCAAAGCTCCTCTAAGCAGAGGCT
CAATGACTTTGAGAAACATAAACAAAGCTCCTCTAATAGAGGTAATAATTTTTTTTTTAATT
Found at i:18674629 original size:99 final size:100
Alignment explanation
Indices: 18674275--18674639 Score: 488
Period size: 97 Copynumber: 3.6 Consensus size: 100
18674265 TTTTTTTATT
* * *
18674275 AAAGCTACTCTAAGTAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTTTAAACAGAGG
1 AAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGG
*
18674340 TAATTTTTTTTTGTTTTTTGTTTTTTTTTTTAATTTTGATC
66 TAA---TTTTTTG--TTTT-ATTTTTTTTTTAATTTTGATC
* *
18674381 AAAGCTCCTTTAAGCAGAGGCTCAACAACTTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGG
1 AAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGG
* *
18674446 TAA--TTTT-TTTTGTTTTTTTTTTAATTTTAATC
66 TAATTTTTTGTTTTATTTTTTTTTTAATTTTGATC
* *
18674478 AAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGA
1 AAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGG
* *
18674543 CAATTTTTTGTTTTATTTTTTTTTTAA-ATTGATC
66 TAATTTTTTGTTTTATTTTTTTTTTAATTTTGATC
* * * *
18674577 AAAGCTCCTCTAAGTA-ATGGCTTAATGACTTTGAGAAACATAAACAAAGCTCCTCTAATCAGA
1 AAAGCTCCTCTAAGCAGA-GGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACAGA
18674640 AGCTCAACAA
Statistics
Matches: 235, Mismatches: 20, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
97 82 0.35
98 5 0.02
99 65 0.28
100 16 0.07
101 4 0.02
106 63 0.27
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (100 bp):
AAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGG
TAATTTTTTGTTTTATTTTTTTTTTAATTTTGATC
Found at i:18674680 original size:44 final size:42
Alignment explanation
Indices: 18674625--18674922 Score: 186
Period size: 41 Copynumber: 7.1 Consensus size: 42
18674615 CATAAACAAA
* *
18674625 GCTCCTCTAATCAGAAGCTCAACAACTTTTGAAAAATAAATAAG
1 GCTCTTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAAT--G
* * *
18674669 GCTCTTTTAATCAGAGGCTTAACGA-TTTTGAAAAAATAAATG
1 GCTCTTCTAATCAGAGGCTCAACAACTTTTG-AAAAATAAATG
* * **
18674711 GCTCATCTGATC-GAGGCTCAACAAC-TTT-AAAAATAACTAAA
1 GCTCTTCTAATCAGAGGCTCAACAACTTTTGAAAAATAA--ATG
* * *
18674752 GCTCCTCTAATCAAAGGCTCAACGAC-TTTGAAAAATAAATG
1 GCTCTTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAATG
* * *
18674793 GCT-TCTCTAATAAGAGGCTCAACAAC--TTGAAAAGTAAAATT
1 GCTCT-TCTAATCAGAGGCTCAACAACTTTTGAAAAAT-AAATG
* * * * * *
18674834 GCTCCTCTAAACAGAGGC-CATCTCAACTTTTGGAAAGTAAATT
1 GCTCTTCTAATCAGAGGCTCA--ACAACTTTTGAAAAATAAATG
* * * * *
18674877 GCTCCTCTAATATAGAGG-TACCACAAC-TTTGAAAAGTAAATT
1 GCTCTTCTAAT-CAGAGGCT-CAACAACTTTTGAAAAATAAATG
18674919 GCTC
1 GCTC
18674923 ATTGACAACA
Statistics
Matches: 204, Mismatches: 34, Indels: 34
0.75 0.12 0.12
Matches are distributed among these distances:
39 8 0.04
40 10 0.05
41 64 0.31
42 46 0.23
43 32 0.16
44 43 0.21
45 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (42 bp):
GCTCTTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAATG
Found at i:18674681 original size:203 final size:200
Alignment explanation
Indices: 18674275--18674667 Score: 454
Period size: 203 Copynumber: 2.0 Consensus size: 200
18674265 TTTTTTTATT
** * *
18674275 AAAGCTACTCTAAGTAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTTTAAACAGAGG
1 AAAGCTACTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGA
* * * *
18674340 TAATTTTTTTTTGTTTTTTGTTTTTTTTTTTAATTTTGATCAAAGCTCCTTTAAGCAGAGGCTCA
66 CAA--TTTTTTTG-TTTTTGATTTTTTTTTTAATATTGATCAAAGCTCCTCTAAGCAGAGGCTCA
* **** ***** ***
18674405 ACAACTTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGGTAATTTTTTTTGTTTTTTTTTTAA
128 ACAACTTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGCTAACAACTTTTGAAAAATAAATAA
18674470 TTTTAATC
193 TTTTAATC
*
18674478 AAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGA
1 AAAGCTACTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGA
* * *
18674543 CAA-TTTTTTG-TTTT-ATTTTTTTTTTAA-ATTGATCAAAGCTCCTCTAAGTA-ATGGCTTAAT
66 CAATTTTTTTGTTTTTGATTTTTTTTTTAATATTGATCAAAGCTCCTCTAAGCAGA-GGCTCAAC
* *
18674603 GACTTTGAGAAACATAAACAAAGCTCCTCTAATCAGAAGCTCAACAACTTTTGAAAAATAAATAA
130 AACTTTGAGAAACATAAACAAAGCTCCTCTAAACAG-AGCT-AACAACTTTTGAAAAATAAATAA
18674668 GGCTCTTTTA
Statistics
Matches: 160, Mismatches: 27, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
195 1 0.01
196 60 0.38
197 15 0.09
198 15 0.09
200 7 0.04
203 62 0.39
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.35
Consensus pattern (200 bp):
AAAGCTACTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGA
CAATTTTTTTGTTTTTGATTTTTTTTTTAATATTGATCAAAGCTCCTCTAAGCAGAGGCTCAACA
ACTTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGCTAACAACTTTTGAAAAATAAATAATTT
TAATC
Found at i:18674763 original size:83 final size:82
Alignment explanation
Indices: 18674629--18674851 Score: 236
Period size: 83 Copynumber: 2.7 Consensus size: 82
18674619 AACAAAGCTC
* * * * * *
18674629 CTCTAATCAGAAGCTCAACAACTTTTGAAAAATAAATAAGGCTCTTTTAATCAGAGGCTTAACGA
1 CTCTAATAAGAGGCTCAACAAC-TTT-AAAAAT-AATAAAGCTCCTCTAATCAGAGGCTCAACGA
*
18674694 TTTTGAAAAAATAAATGGC-T
63 CTTTG-AAAAATAAATGGCTT
* * *
18674714 CATCTGAT-CGAGGCTCAACAACTTTAAAAATAACTAAAGCTCCTCTAATCAAAGGCTCAACGAC
1 C-TCTAATAAGAGGCTCAACAACTTTAAAAATAA-TAAAGCTCCTCTAATCAGAGGCTCAACGAC
18674778 TTTGAAAAATAAATGGCTT
64 TTTGAAAAATAAATGGCTT
* * * *
18674797 CTCTAATAAGAGGCTCAACAACTTGAAAAGTAA-AATTGCTCCTCTAAACAGAGGC
1 CTCTAATAAGAGGCTCAACAACTTTAAAAATAATAA-AGCTCCTCTAATCAGAGGC
18674852 CATCTCAACT
Statistics
Matches: 117, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
81 2 0.02
82 36 0.31
83 58 0.50
84 3 0.03
85 13 0.11
86 5 0.04
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.26
Consensus pattern (82 bp):
CTCTAATAAGAGGCTCAACAACTTTAAAAATAATAAAGCTCCTCTAATCAGAGGCTCAACGACTT
TGAAAAATAAATGGCTT
Found at i:18683803 original size:17 final size:17
Alignment explanation
Indices: 18683781--18683814 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18683771 TAACAAGCGA
18683781 TGTGTGGTACAATGAGG
1 TGTGTGGTACAATGAGG
*
18683798 TGTGTGGTATAATGAGG
1 TGTGTGGTACAATGAGG
18683815 AGTATGCTAT
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:0.24, C:0.03, G:0.41, T:0.32
Consensus pattern (17 bp):
TGTGTGGTACAATGAGG
Found at i:18686114 original size:20 final size:20
Alignment explanation
Indices: 18686038--18686108 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
18686028 CAATCTTGGG
18686038 TGATTCTTGATATATTTGAA
1 TGATTCTTGATATATTTGAA
* * *
18686058 TGTTTCTTGACCTGTTTTTG-A
1 TGATTCTTGA--TATATTTGAA
18686079 TGATTCTTGATATATTTGAA
1 TGATTCTTGATATATTTGAA
18686099 TGATTCTTGA
1 TGATTCTTGA
18686109 ACTATTCTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.14
20 20 0.48
21 10 0.24
22 6 0.14
ACGTcount: A:0.23, C:0.08, G:0.17, T:0.52
Consensus pattern (20 bp):
TGATTCTTGATATATTTGAA
Found at i:18686120 original size:41 final size:41
Alignment explanation
Indices: 18686038--18686121 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
18686028 CAATCTTGGG
* * * *
18686038 TGATTCTTGATATATTTGAATGTTTCTTGACCTGTTTTTGA
1 TGATTCTTGATATATTTGAATGATTCTTGAACTATTCTTGA
18686079 TGATTCTTGATATATTTGAATGATTCTTGAACTATTCTTGA
1 TGATTCTTGATATATTTGAATGATTCTTGAACTATTCTTGA
18686120 TG
1 TG
18686122 TGTTATTGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.51
Consensus pattern (41 bp):
TGATTCTTGATATATTTGAATGATTCTTGAACTATTCTTGA
Found at i:18687211 original size:58 final size:58
Alignment explanation
Indices: 18687085--18687365 Score: 325
Period size: 58 Copynumber: 4.8 Consensus size: 58
18687075 CACTTTTGTA
* * * * *
18687085 CAAGAAAAAGTGATACTTTCAACTTCTCC-CCAAAATATTTTTTTAGAAAACTTTAATTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTT-GGAAACTTTAATTT
* *
18687144 CGAGGAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTGGAAACTTTAATTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTAATTT
* * * * *
18687202 CAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAACCTTTTTT-GAAAATTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCT---CAAAAATA--TTTTTTGGAAACTTTAATTT
* * * *
18687264 TAAGGAAAATTGATACATTCAACTTTTCCCCAAAAATATTTTTTGGAAAGC-TTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAA-CTTTAATTT
18687322 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
18687366 TTGAATTTTT
Statistics
Matches: 190, Mismatches: 24, Indels: 17
0.82 0.10 0.07
Matches are distributed among these distances:
57 6 0.03
58 92 0.48
59 36 0.19
60 7 0.04
61 6 0.03
62 37 0.19
63 6 0.03
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTAATTT
Found at i:18687285 original size:120 final size:122
Alignment explanation
Indices: 18687123--18687357 Score: 359
Period size: 120 Copynumber: 1.9 Consensus size: 122
18687113 CCCAAAATAT
* * * *
18687123 TTTTTTAGAAAACTTTAATTTCGAGGAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTT
1 TTTTTTAGAAAACTTTAATTTCAAGGAAAATTGATACATTCAACTTTTCCCCAAAAATATTTTTT
18687188 GGAAA-CTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAACC
66 GGAAAGC-TTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAACC
* *
18687245 TTTTTT-GAAAA-TTTATTTTTAAGGAAAATTGATACATTCAACTTTTCCCCAAAAATATTTTTT
1 TTTTTTAGAAAACTTTAATTTCAAGGAAAATTGATACATTCAACTTTTCCCCAAAAATATTTTTT
* * *
18687308 GGAAAGCTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA
66 GGAAAGCTTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAA
18687358 TATTTTTTTT
Statistics
Matches: 103, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
120 91 0.88
121 6 0.06
122 6 0.06
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (122 bp):
TTTTTTAGAAAACTTTAATTTCAAGGAAAATTGATACATTCAACTTTTCCCCAAAAATATTTTTT
GGAAAGCTTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAACC
Found at i:18689164 original size:12 final size:12
Alignment explanation
Indices: 18689144--18689180 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
18689134 AAAAAATGAT
18689144 AAATATGAAATA
1 AAATATGAAATA
*
18689156 AAATTTGAAATA
1 AAATATGAAATA
18689168 AAA-ATGAAA-A
1 AAATATGAAATA
18689178 AAA
1 AAA
18689181 AATTTTTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 4 0.17
11 5 0.22
12 14 0.61
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (12 bp):
AAATATGAAATA
Found at i:18689461 original size:103 final size:100
Alignment explanation
Indices: 18689324--18689904 Score: 351
Period size: 97 Copynumber: 5.9 Consensus size: 100
18689314 ACTTAACTGG
18689324 ATTTTTTTTGTTTTTTTATTTTTTAAATTTTGATCAAAGCTCCTCTAAACAGAGGCTCAACGACT
1 ATTTTTTTTGTTTTTTTATTTTTTAAATTTTGATCAAAGCTCCTCTAAACAGAGGCTCAACGACT
18689389 TTGAGAAACATAAACAAAGCTCCTCTAATTAGAGGT
66 TTGAGAAACATAAACAAAGCTCCTCTAATT-GAGGT
* * * *
18689425 ATTTTTTTTGTTTTTGTTTTTGTTTTTAATTTTGATCAAAGCTCCTCTAAGCAGAGGCTCAATGA
1 ATTTTTTTTGTTTTT-TTATT-TTTTAAATTTTGATCAAAGCTCCTCTAAACAGAGGCTCAACGA
18689490 CTTTGAGAAACATAAACAAAGCTCCTCTAATTGAGGT
64 CTTTGAGAAACATAAACAAAGCTCCTCTAATTGAGGT
*** * ** *** *** *
18689527 A--AAATTT-TTTTTTGA----TTAAA-GCT-ACTCTAAGTAGAGGCTC--AAC-GACTTTGAGA
1 ATTTTTTTTGTTTTTTTATTTTTTAAATTTTGA-TC-AA--AGCTCCTCTAAACAGAGGCTCA-A
* * ** * *** ***** ***
18689580 -AACATAAACAAAGC-TCCTCTAAA-CAGAGGTAATT-TTTT
61 CGACTTTGAGAAA-CATAAAC-AAAGCTCCTCTAATTGAGGT
* * * *
18689618 TTTGTTTTTTG-TTTT---TTTTTT-AATTTTGATCAAAGCTCCTTTAAGCAGAGGCTCAACAAC
1 ATT-TTTTTTGTTTTTTTATTTTTTAAATTTTGATCAAAGCTCCTCTAAACAGAGGCTCAACGAC
**
18689678 TTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGGT
65 TTTGAGAAACATAAACAAAGCTCCTCT-AATTGAGGT
*
18689715 AATTTTTTTTG---TTTT-TTTTTT-AATTTTAATCAAAGCTCCTCTAAACAGAGGCTCAACGAC
1 -ATTTTTTTTGTTTTTTTATTTTTTAAATTTTGATCAAAGCTCCTCTAAACAGAGGCTCAACGAC
** **
18689775 TTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGACA
65 TTTGAGAAACATAAACAAAGCTCCTCT-AATTGAG-GT
** * *
18689813 ATTTTTTGTT-TTTATTTT-TTTTTTAAA--TTGATCAAAGCTCCTCTAAGTA-ATGGCTTAATG
1 ATTTTTT-TTGTTT-TTTTATTTTTTAAATTTTGATCAAAGCTCCTCTAAACAGA-GGCTCAACG
18689873 ACTTTGAGAAACATAAACAAAGCTCCTCTAAT
63 ACTTTGAGAAACATAAACAAAGCTCCTCTAAT
18689905 CAGAAGCTCA
Statistics
Matches: 361, Mismatches: 81, Indels: 78
0.69 0.16 0.15
Matches are distributed among these distances:
91 2 0.01
92 26 0.07
93 13 0.04
94 18 0.05
95 28 0.08
96 3 0.01
97 91 0.25
98 5 0.01
99 8 0.02
100 58 0.16
101 25 0.07
102 12 0.03
103 72 0.20
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (100 bp):
ATTTTTTTTGTTTTTTTATTTTTTAAATTTTGATCAAAGCTCCTCTAAACAGAGGCTCAACGACT
TTGAGAAACATAAACAAAGCTCCTCTAATTGAGGT
Found at i:18689617 original size:82 final size:82
Alignment explanation
Indices: 18689454--18689621 Score: 259
Period size: 82 Copynumber: 2.1 Consensus size: 82
18689444 TTGTTTTTAA
* *
18689454 TTTTGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTA
1 TTTTGATCAAAGCTACTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTA
**
18689519 ATTGAGGTAAAATTTTT
66 ACAGAGGTAAAATTTTT
* *
18689536 TTTTGATTAAAGCTACTCTAAGTAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTA
1 TTTTGATCAAAGCTACTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCT-
18689601 AACAGAGGT--AATTTTT
65 AACAGAGGTAAAATTTTT
18689617 TTTTG
1 TTTTG
18689622 TTTTTTGTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
81 12 0.15
82 60 0.76
83 7 0.09
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (82 bp):
TTTTGATCAAAGCTACTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTA
ACAGAGGTAAAATTTTT
Found at i:18689680 original size:105 final size:102
Alignment explanation
Indices: 18689536--18689908 Score: 519
Period size: 97 Copynumber: 3.7 Consensus size: 102
18689526 TAAAATTTTT
* * *
18689536 TTTTGATTAAAGCTACTCTAAGTAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTA
1 TTTTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTA
18689601 AACAGAGGTAATTTTTTTTTGTTTTTTGTTTTTTTTTTAA
66 AACAGAGGTAA---TTTTTTGTTTTTTGTTTTTTTTTTAA
* *
18689641 TTTTGATCAAAGCTCCTTTAAGCAGAGGCTCAACAACTTTGAGAAACATAAACAAAGCTCCTCTA
1 TTTTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTA
18689706 AACAGAGGTAA----TT-TTTTTTGTTTTTTTTTTAA
66 AACAGAGGTAATTTTTTGTTTTTTGTTTTTTTTTTAA
* *
18689738 TTTTAATCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTA
1 TTTTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTA
** *
18689803 AACAGAGACAATTTTTTG-TTTTTATTTTTTTTTTAA
66 AACAGAGGTAATTTTTTGTTTTTTGTTTTTTTTTTAA
* * * *
18689839 -ATTGATCAAAGCTCCTCTAAGTA-ATGGCTTAATGACTTTGAGAAACATAAACAAAGCTCCTCT
1 TTTTGATCAAAGCTCCTCTAAGCAGA-GGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCT
*
18689902 AATCAGA
65 AAACAGA
18689909 AGCTCAACAA
Statistics
Matches: 243, Mismatches: 19, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
97 89 0.37
98 2 0.01
99 1 0.00
100 61 0.25
101 19 0.08
105 71 0.29
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (102 bp):
TTTTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTA
AACAGAGGTAATTTTTTGTTTTTTGTTTTTTTTTTAA
Found at i:18689686 original size:187 final size:186
Alignment explanation
Indices: 18689351--18689904 Score: 724
Period size: 187 Copynumber: 2.9 Consensus size: 186
18689341 ATTTTTTAAA
*
18689351 TTTTGATCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTA
1 TTTTGATTAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTA
**
18689416 ATTAGAGGT-ATTTTTTTTGTTTTTGTTTTTGTTTTTAATTTTGATCAAAGCTCCTCTAAGCAGA
66 AACAGAGGTAATTTTTTTTGTTTTTGTTTTT-TTTTTAATTTTGATCAAAGCTCCTCTAAGCAGA
*
18689480 GGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAATTGAGGTAA-AATTTTT
130 GGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAATAGAGGTAATAATTTTT
* **
18689536 TTTTGATTAAAGCTACTCTAAGTAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTA
1 TTTTGATTAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTA
*
18689601 AACAGAGGTAATTTTTTTTTGTTTTTTGTTTTTTTTTTAATTTTGATCAAAGCTCCTTTAAGCAG
66 AACAGAGGTAA-TTTTTTTTG-TTTTTGTTTTTTTTTTAATTTTGATCAAAGCTCCTCTAAGCAG
** * **
18689666 AGGCTCAACAACTTTGAGAAACATAAACAAAGCTCCTCTAAACAGAGGTAATTTTTTTTGTTTTT
129 AGGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCT-AATAGAGGTAA-------TAATTTT
18689731 T
186 T
*
18689732 TTTTAATTTTAATCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCT
1 TTTTGA---T--T-AAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCT
** * *
18689797 CCTCTAAACAGAGACAA--TTTTTTGTTTTTATTTTTTTTTTAA-ATTGATCAAAGCTCCTCTAA
60 CCTCTAAACAGAGGTAATTTTTTTTGTTTTTGTTTTTTTTTTAATTTTGATCAAAGCTCCTCTAA
* *
18689859 GTA-ATGGCTTAATGACTTTGAGAAACATAAACAAAGCTCCTCTAAT
125 GCAGA-GGCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAAT
18689905 CAGAAGCTCA
Statistics
Matches: 323, Mismatches: 27, Indels: 27
0.86 0.07 0.07
Matches are distributed among these distances:
185 68 0.21
186 1 0.00
187 77 0.24
188 20 0.06
196 13 0.04
197 55 0.17
198 17 0.05
199 8 0.02
201 1 0.00
202 63 0.20
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.37
Consensus pattern (186 bp):
TTTTGATTAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTCCTCTA
AACAGAGGTAATTTTTTTTGTTTTTGTTTTTTTTTTAATTTTGATCAAAGCTCCTCTAAGCAGAG
GCTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTAATAGAGGTAATAATTTTT
Found at i:18690032 original size:83 final size:84
Alignment explanation
Indices: 18689898--18690121 Score: 258
Period size: 83 Copynumber: 2.7 Consensus size: 84
18689888 AACAAAGCTC
* * * * * *
18689898 CTCTAATCAGAAGCTCAACAACTTTTGAAAAATAAATAAGGCTCTTTTAATCAGAGGCTTAACGA
1 CTCTAATAAGAGGCTCAACAAC-TTTGAAAAAT-AATAAAGCTCCTCTAATCAGAGGCTCAACGA
*
18689963 TTTTGAAAAAATAAATGGC-T
64 CTTTGAAAAAATAAATGGCTT
* * *
18689983 CATCTGAT-CGAGGCTCAACAACTTT-AAAAATAACTAAAGCTCCTCTAATCAAAGGCTCAACGA
1 C-TCTAATAAGAGGCTCAACAACTTTGAAAAATAA-TAAAGCTCCTCTAATCAGAGGCTCAACGA
18690046 CTTTGAAAAAATAAATGGCTT
64 CTTTGAAAAAATAAATGGCTT
* ** *
18690067 CTCTAATAAGAGGCTCAACAACTTTGAAAAGTAA-ATTGCTCCTCTAAACAGAGGC
1 CTCTAATAAGAGGCTCAACAACTTTGAAAAATAATAAAGCTCCTCTAATCAGAGGC
18690122 ATCTCAACTT
Statistics
Matches: 118, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
82 2 0.02
83 70 0.59
84 21 0.18
85 20 0.17
86 5 0.04
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.26
Consensus pattern (84 bp):
CTCTAATAAGAGGCTCAACAACTTTGAAAAATAATAAAGCTCCTCTAATCAGAGGCTCAACGACT
TTGAAAAAATAAATGGCTT
Found at i:18690120 original size:41 final size:41
Alignment explanation
Indices: 18689894--18690190 Score: 244
Period size: 42 Copynumber: 7.1 Consensus size: 41
18689884 CATAAACAAA
*
18689894 GCTCCTCTAATCAGAAGCTCAACAACTTTTGAAAAATAAATAAG
1 GCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAATAAAT--G
* * * * *
18689938 GCTCTTTTAATCAGAGGCTTAACGATTTTGAAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTG-AAAAATAAATG
* * **
18689980 GCTCATCTGATC-GAGGCTCAACAACTTT-AAAAATAACTAAA
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAA--ATG
* *
18690021 GCTCCTCTAATCAAAGGCTCAACGACTTTGAAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTG-AAAAATAAATG
* * * *
18690063 GCTTCTCTAATAAGAGGCTCAACAACTTTGAAAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAATG
* * * * *
18690104 GCTCCTCTAAACAGAGGCATC-TCAACTTTTGGAAAGTAAATT
1 GCTCCTCTAATCAGAGGC-TCAACAAC-TTTGAAAAATAAATG
* * *
18690146 GCTCCTCTAAAT-AGAGG-TACCACAACTTTGAAAAGTAAATT
1 GCTCCTCT-AATCAGAGGCT-CAACAACTTTGAAAAATAAATG
18690187 GCTC
1 GCTC
18690191 ATTGACAACA
Statistics
Matches: 208, Mismatches: 34, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
39 8 0.04
40 1 0.00
41 71 0.34
42 84 0.40
43 6 0.03
44 38 0.18
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (41 bp):
GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAATG
Found at i:18690132 original size:83 final size:84
Alignment explanation
Indices: 18689898--18690190 Score: 226
Period size: 83 Copynumber: 3.5 Consensus size: 84
18689888 AACAAAGCTC
* * * * * * * * * *
18689898 CTCTAATCAGAAGCTCAACAACTTTTGAAAAATAAATAAGGCTCTTTTAATCAGAGGCTTAACGA
1 CTCTAATAAGAGGCTCAACAAC-TTTGAAAAGTAAAT--TGCTCCTCTAAACAAAGGCTCAACAA
18689963 -TTTTGAAAAAATAAATGGC-T
63 CTTTTGAAAAAATAAATGGCTT
* * * ** * *
18689983 CATCTGAT-CGAGGCTCAACAACTTT-AAAAATAACTAAAGCTCCTCTAATCAAAGGCTCAACGA
1 C-TCTAATAAGAGGCTCAACAACTTTGAAAAGTAA--ATTGCTCCTCTAAACAAAGGCTCAACAA
18690046 C-TTTGAAAAAATAAATGGCTT
63 CTTTTGAAAAAATAAATGGCTT
* *
18690067 CTCTAATAAGAGGCTCAACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCATC-TCAACT
1 CTCTAATAAGAGGCTCAACAACTTTGAAAAGTAAATTGCTCCTCTAAACAAAGGC-TCAACAACT
* * * *
18690131 TTTG-GAAAGTAAATTGCTC
65 TTTGAAAAAATAAATGGCTT
*
18690150 CTCTAA-ATAGAGG-TACCACAACTTTGAAAAGTAAATTGCTC
1 CTCTAATA-AGAGGCT-CAACAACTTTGAAAAGTAAATTGCTC
18690191 ATTGACAACA
Statistics
Matches: 174, Mismatches: 23, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
82 2 0.01
83 119 0.68
84 27 0.16
85 21 0.12
86 5 0.03
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.27
Consensus pattern (84 bp):
CTCTAATAAGAGGCTCAACAACTTTGAAAAGTAAATTGCTCCTCTAAACAAAGGCTCAACAACTT
TTGAAAAAATAAATGGCTT
Found at i:18696666 original size:18 final size:18
Alignment explanation
Indices: 18696639--18696674 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18696629 AAGTCTAGAA
*
18696639 AAAGATAAGATCATGTTG
1 AAAGAGAAGATCATGTTG
18696657 AAAGAGAAGATCATGTTG
1 AAAGAGAAGATCATGTTG
18696675 CCAACCTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (18 bp):
AAAGAGAAGATCATGTTG
Found at i:18700348 original size:86 final size:86
Alignment explanation
Indices: 18700147--18700598 Score: 369
Period size: 86 Copynumber: 5.2 Consensus size: 86
18700137 ATTATTGTAT
** * **
18700147 TTCGACTTAGTCCAAATTA-TCTACTTTTAGACTTCGGTTCAATCTAAGTCATTTTATTTTTTGG
1 TTCGACTTAGTCCAAGCTATTC-A-TTTTAGACTTCGGTTCAATCTAAGTCATTTT-GTTTTCAG
** *
18700211 ATTTCAACTTATGCCAAATCCTTC
63 ATTTTGACTTATGCCAAATTCTTC
* * * *
18700235 TTCGACTTAATCCAACCTATTCATTTTAGACTTTGGTTCAATCTAAGTCATGTTGTTTTCAGATT
1 TTCGACTTAGTCCAAGCTATTCATTTTAGACTTCGGTTCAATCTAAGTCATTTTGTTTTCAGATT
* *
18700300 TTGACTTATGCCAAATTTTTT
66 TTGACTTATGCCAAATTCTTC
* * ** * * * ** *
18700321 TTTGGCTTAGTATAAGCTGTTCATTTTAGACTTCGATTCAATCCAAGTCATGCTGTTTTCAAATT
1 TTCGACTTAGTCCAAGCTATTCATTTTAGACTTCGGTTCAATCTAAGTCATTTTGTTTTCAGATT
* *
18700386 TT-AGCTTATACCAAATTATTC
66 TTGA-CTTATGCCAAATTCTTC
* * * * * * *
18700407 TTCGGCTTACTCCAAGCTATTCATTTTAGACTTCAGTTTAATCTAGGTTATTTTGTTTTTTAGAT
1 TTCGACTTAGTCCAAGCTATTCATTTTAGACTTCGGTTCAATCTAAGTCATTTTG-TTTTCAGAT
* *
18700472 TTTGGCTTATGCCAAATCCTT-
65 TTTGACTTATGCCAAATTCTTC
* ** * * * *
18700493 TTTGACTTAGTTTAAGCTGTTCATTTTAGACTTTGGTTCAA-CTCAGATCATTTTGTTTGT-GGA
1 TTCGACTTAGTCCAAGCTATTCATTTTAGACTTCGGTTCAATCTAAG-TCATTTTGTTT-TCAGA
* * *
18700556 -TTTCAGCTTACGCCAAATCCTT-
64 TTTTGA-CTTATGCCAAATTCTTC
*
18700578 TTCGACTTAGTCCAAGTTATT
1 TTCGACTTAGTCCAAGCTATT
18700599 TATTCTCAAA
Statistics
Matches: 289, Mismatches: 68, Indels: 17
0.77 0.18 0.05
Matches are distributed among these distances:
84 3 0.01
85 40 0.14
86 175 0.61
87 52 0.18
88 17 0.06
89 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (86 bp):
TTCGACTTAGTCCAAGCTATTCATTTTAGACTTCGGTTCAATCTAAGTCATTTTGTTTTCAGATT
TTGACTTATGCCAAATTCTTC
Found at i:18701310 original size:13 final size:13
Alignment explanation
Indices: 18701281--18701315 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
18701271 GGTTGACTTG
*
18701281 GGAATTTTTGCTA
1 GGAATTTTTTCTA
18701294 -GAATTTTTTCTA
1 GGAATTTTTTCTA
18701306 GGAATTTTTT
1 GGAATTTTTT
18701316 GGAAATTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.23, C:0.06, G:0.17, T:0.54
Consensus pattern (13 bp):
GGAATTTTTTCTA
Found at i:18701508 original size:17 final size:17
Alignment explanation
Indices: 18701486--18701521 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
18701476 CATTCAATTC
*
18701486 AACATCTTTTAAAGAGA
1 AACATCTTCTAAAGAGA
18701503 AACATCTTCTAAAGAGA
1 AACATCTTCTAAAGAGA
18701520 AA
1 AA
18701522 GATAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (17 bp):
AACATCTTCTAAAGAGA
Found at i:18701820 original size:4 final size:4
Alignment explanation
Indices: 18701807--18701852 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
18701797 GAGCTAAGGT
* * *
18701807 TTTA -TTA TTTA TTTG CTCA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
18701853 TGTGAATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 3 0.09
4 32 0.91
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:18702046 original size:60 final size:57
Alignment explanation
Indices: 18701919--18702375 Score: 383
Period size: 60 Copynumber: 7.8 Consensus size: 57
18701909 CACAAAAGAT
18701919 ATATTTTTTTAAGAAAAAGTTGAAGTATCAATTTTCCTTAAAAAT-AAAATTTTCAAAAA
1 ATATTTTTTTAAG-AAAAGTTGAAGTATCAATTTTCCTTAAAAATGAAAATTTT--AAAA
* *
18701978 ATATTTTTTTTAAGGAAATA-TTAAAAGTATCAATTTTCCTTAAAGAT-AAAATTCTTAAAA
1 ATA-TTTTTTTAA-GAAA-AGTT-GAAGTATCAATTTTCCTTAAAAATGAAAATT-TTAAAA
* * *
18702038 AGTATTTTTTTGAAGAAAAGTTGAAGTATCATTTTTTCTTACAAAATGAAAATTTCAGAAA
1 A-TATTTTTTT-AAGAAAAGTTGAAGTATCAATTTTCCTTA-AAAATGAAAATTTTA-AAA
* * * * * *
18702099 ATGA--TTTTTATGAAAAGTTAAAAGTATCCATTTTCCTTTAAGATAAAAATATTTAAAA
1 AT-ATTTTTTTAAGAAAAGTT-GAAGTATCAATTTTCCTTAAAAATGAAAAT-TTTAAAA
* * *
18702157 TATATTTTTTTGAGAAAAATTTGAAGTATCAATTTTCCTTAAAAATGAAAATTTCATAAA
1 -ATATTTTTTTAAG-AAAAGTTGAAGTATCAATTTTCCTTAAAAATGAAAATTTTA-AAA
* * * * *
18702217 ATCTTTCTTTTAAAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAATATTTAAAAA
1 ATATTT-TTTTAAGAAAAGTTG-AAGTATCAATTTTCCTTAAAAATGAAA-ATTTTAAAA
* *** *
18702276 AAAGGATTTAAAG-AAAGTTGAAGTATCAATTTTCCTTAAAAA-GAAAAACTTTTAAAA
1 ATATTTTTTTAAGAAAAGTTGAAGTATCAATTTTCCTTAAAAATG-AAAA-TTTTAAAA
* * * *
18702333 ATA-TTTTTGAAGAAAAGTTAAAAGTGTCAATTTTCCTCAAAAA
1 ATATTTTTTTAAGAAAAGTT-GAAGTATCAATTTTCCTTAAAAA
18702376 AATTTTTCCA
Statistics
Matches: 322, Mismatches: 49, Indels: 55
0.76 0.12 0.13
Matches are distributed among these distances:
56 27 0.08
57 25 0.08
58 47 0.15
59 66 0.20
60 104 0.32
61 51 0.16
62 2 0.01
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (57 bp):
ATATTTTTTTAAGAAAAGTTGAAGTATCAATTTTCCTTAAAAATGAAAATTTTAAAA
Found at i:18702333 original size:57 final size:57
Alignment explanation
Indices: 18702225--18702375 Score: 153
Period size: 57 Copynumber: 2.6 Consensus size: 57
18702215 AAATCTTTCT
* * * *
18702225 TTTAAAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAATATTTAAAAAAAAGGA
1 TTTAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAGAAAAATTTAAAAAAAAGGA
* * * **
18702282 TTTAAAGAAAGTTG-AAGTATCAATTTTCCTTAAAAAGAAAAACTTTTAAAAATA-TT
1 TTTAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAGAAAAA-TTTAAAAAAAAGGA
* * * *
18702338 TTTGAAGAAAAGTTAAAAGTGTCAATTTTCCTCAAAAA
1 TTT-AAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
18702376 AATTTTTCCA
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
56 27 0.35
57 30 0.39
58 20 0.26
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.34
Consensus pattern (57 bp):
TTTAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAGAAAAATTTAAAAAAAAGGA
Found at i:18702391 original size:116 final size:116
Alignment explanation
Indices: 18701934--18702392 Score: 318
Period size: 118 Copynumber: 3.9 Consensus size: 116
18701924 TTTTTAAGAA
* * * *
18701934 AAAGTTGAAGTATCAATTTTCCTTAAAAAT-AAAATTTTCAAAAAAT-ATTTTTTTTAAGGAAAT
1 AAAGTTGAAGTATCAATTTTCCTTAAAAATGAAAA-TTTCATAAAATCA-TTCTTTGAA--AAAA
* * **** *
18701997 A-TTAAAAGTATCAA-TTTTCCTTAAAGATAAA-ATTCTTAAAAAGTATTTTTTTGAAG
62 AGTTAAAAGTATCAATTTTTCCTCAAA-ATAAATA-T-TTAAAAA-AAAGGATTTAAAG
* * * * **
18702053 AAAAGTTGAAGTATCATTTTTTCTTACAAAATGAAAATTTCAGAAAATGATT-TTT-ATGAAAAG
1 -AAAGTTGAAGTATCAATTTTCCTTA-AAAATGAAAATTTCATAAAATCATTCTTTGAAAAAAAG
* * * * ****
18702116 TTAAAAGTATCCA-TTTTCCTTTAAGATAAAAATATTTAAAATATATTTTTTTGAGAA-
64 TTAAAAGTATCAATTTTTCC-TCAA-A-ATAAATATTTAAAA-AAAAGGATTT-A-AAG
* * *
18702173 AAATTTGAAGTATCAATTTTCCTTAAAAATGAAAATTTCATAAAATCTTTCTTTTAAAAAAAGTT
1 AAAGTTGAAGTATCAATTTTCCTTAAAAATGAAAATTTCATAAAATCATTCTTTGAAAAAAAGTT
* * *
18702238 GAAAGTATCAATTTTTCTTGAAAATAAATATTTAAAAAAAAGGATTTAAAG
66 AAAAGTATCAATTTTTCCTCAAAATAAATATTTAAAAAAAAGGATTTAAAG
* *
18702289 AAAGTTGAAGTATCAATTTTCCTTAAAAA-GAAAAACTTTTA-AAAAT-ATT-TTTGAAGAAAAG
1 AAAGTTGAAGTATCAATTTTCCTTAAAAATG-AAAA-TTTCATAAAATCATTCTTTGAAAAAAAG
* *
18702350 TTAAAAGTGTCAA-TTTTCCTCAAAA-AAATTTTTCCAAAAAAAA
64 TTAAAAGTATCAATTTTTCCTCAAAATAAATATTT--AAAAAAAA
18702393 TATATTTCAA
Statistics
Matches: 283, Mismatches: 38, Indels: 42
0.78 0.10 0.12
Matches are distributed among these distances:
112 7 0.02
113 10 0.04
114 29 0.10
115 5 0.02
116 38 0.13
117 12 0.04
118 53 0.19
119 46 0.16
120 53 0.19
121 25 0.09
122 5 0.02
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (116 bp):
AAAGTTGAAGTATCAATTTTCCTTAAAAATGAAAATTTCATAAAATCATTCTTTGAAAAAAAGTT
AAAAGTATCAATTTTTCCTCAAAATAAATATTTAAAAAAAAGGATTTAAAG
Found at i:18703833 original size:18 final size:18
Alignment explanation
Indices: 18703788--18703922 Score: 71
Period size: 19 Copynumber: 7.3 Consensus size: 18
18703778 TTTGGTTATT
* * *
18703788 TTTAGGTTTGATTTAGGG
1 TTTAGGGTTGGTTTAAGG
18703806 TTTGAGGGTTGGTTTAAGG
1 TTT-AGGGTTGGTTTAAGG
*
18703825 TTTAGGGTTTGAGCATT--GG
1 TTTAGGG-TTG-G-TTTAAGG
* * *
18703844 TTTACGGCTTGG-TTATGC
1 TTTA-GGGTTGGTTTAAGG
*
18703862 TTTATGGGTTGGTTTAGGG
1 TTTA-GGGTTGGTTTAAGG
* * *
18703881 TGTAGGTTTAGTTTAAGG
1 TTTAGGGTTGGTTTAAGG
18703899 TTT-GGGCTTGGTTTAGAGG
1 TTTAGGG-TTGGTTTA-AGG
18703918 TTTAG
1 TTTAG
18703923 TTTAAGGTTT
Statistics
Matches: 89, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
16 2 0.02
17 2 0.02
18 39 0.44
19 40 0.45
20 4 0.04
21 2 0.02
ACGTcount: A:0.15, C:0.04, G:0.36, T:0.45
Consensus pattern (18 bp):
TTTAGGGTTGGTTTAAGG
Found at i:18703950 original size:39 final size:37
Alignment explanation
Indices: 18703866--18703959 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 37
18703856 TTATGCTTTA
*
18703866 TGGG-TTGGTTTAG-GGTGTAGGTTTAGTTTAAGGTT
1 TGGGCTTGGTTTAGAGGTTTAGGTTTAGTTTAAGGTT
18703901 TGGGCTTGGTTTAGAGGTTTA-GTTTAAGGTTTAAGGGTT
1 TGGGCTTGGTTTAGAGGTTTAGGTTT-A-GTTTAA-GGTT
*
18703940 TGGTCTTGGTTTTA-AGGTTT
1 TGGGCTTGG-TTTAGAGGTTT
18703960 GTATGACTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
35 4 0.08
36 13 0.25
37 6 0.12
38 6 0.12
39 18 0.35
40 4 0.08
ACGTcount: A:0.15, C:0.02, G:0.36, T:0.47
Consensus pattern (37 bp):
TGGGCTTGGTTTAGAGGTTTAGGTTTAGTTTAAGGTT
Found at i:18703958 original size:19 final size:18
Alignment explanation
Indices: 18703891--18703960 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 18
18703881 TGTAGGTTTA
*
18703891 GTTTAAGGTTTGGGCTTG
1 GTTTAAGGTTTGGTCTTG
*
18703909 GTTTAGAGGTTTAGT-TTAAG
1 GTTTA-AGGTTTGGTCTT--G
18703929 GTTTAAGGGTTTGGTCTTG
1 GTTTAA-GGTTTGGTCTTG
18703948 GTTTTAAGGTTTG
1 G-TTTAAGGTTTG
18703961 TATGACTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
18 7 0.16
19 16 0.37
20 18 0.42
21 2 0.05
ACGTcount: A:0.16, C:0.03, G:0.34, T:0.47
Consensus pattern (18 bp):
GTTTAAGGTTTGGTCTTG
Found at i:18709001 original size:20 final size:20
Alignment explanation
Indices: 18708976--18709017 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
18708966 ATTGATTCAA
18708976 GTTAGGCAAATTTTTGTTTT
1 GTTAGGCAAATTTTTGTTTT
18708996 GTTAGGCAAATTTTTGTTTT
1 GTTAGGCAAATTTTTGTTTT
18709016 GT
1 GT
18709018 GAAATCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.05, G:0.21, T:0.55
Consensus pattern (20 bp):
GTTAGGCAAATTTTTGTTTT
Found at i:18711965 original size:144 final size:142
Alignment explanation
Indices: 18711662--18712352 Score: 453
Period size: 144 Copynumber: 4.8 Consensus size: 142
18711652 TTTTTTATGA
* * *
18711662 TTTTAATGCA-CTAAAAATCATAAAATAATACTT-AATCATGATCTAGAA-CTTTTTACT-AAAA
1 TTTTAATGCATC-AAAAATCATGAAATAATA-TTAAAACATGATCT-GAAGCTTTTCA-TGAAAA
* ** * * * **
18711723 A-CAACATGGAAAAGGTCAAATTACAAAAATATTCCT-AAAGGATATTTTGATAATTTCACATTT
62 ATCAACCTTAAAAAGGTCAAATTATAAAAATA--CCTCAAAGGGTATTTTGGTAATTT-ACACCT
* * *** * *
18711786 TTTGAGGTACAATTACA-GC
124 TATGAAGTGTGACTA-AGGT
*
18711805 TTTTAATGCATCAAAAATCATGAAATAATGTTAAAACATGATCTGAAGCTTTTCATGAAAAATCA
1 TTTTAATGCATCAAAAATCATGAAATAATATTAAAACATGATCTGAAGCTTTTCATGAAAAATCA
* * *
18711870 A-CTTAAGAAAGGTCAAATTATAAAAATACCTCAAAGGGCATTTTACGTAATTTCACACCTTTTG
66 ACCTTAA-AAAGGTCAAATTATAAAAATACCTCAAAGGGTATTTT-GGTAATTT-ACACCTTATG
*
18711934 AAGTGTAACTAAGGT
128 AAGTGTGACTAAGGT
* * * * * * * *
18711949 TTTTAATGTATAAAAAATCATTAAATAATATGAAAATATTATCT-AGAGCTTTTCGTG-AAAAGC
1 TTTTAATGCATCAAAAATCATGAAATAATATTAAAACATGATCTGA-AGCTTTTCATGAAAAATC
* * * ** *
18712012 GACCTTGAGAAA-GTCAAATTAAAAAAATATATATCTAAAAGGTATTTTGGTAATTTATCACCTT
65 AACCTT-AAAAAGGTCAAATT-ATAAAA-ATACCTC-AAAGGGTATTTTGGTAATTTA-CACCTT
* * * *
18712076 CT-AAGGTGCGACCAAAGT
125 ATGAA-GTGTGACTAAGGT
* * * * * * * *
18712094 ATTTAATGTATCAAAAATCACGAAAAAATATTGAAACATGATTTGGAGCTTTTTATGAAAAATCA
1 TTTTAATGCATCAAAAATCATGAAATAATATTAAAACATGATCTGAAGCTTTTCATGAAAAATCA
* * *
18712159 ACCTTAAAAAAGTCAAATTATAAAAATATCCAT-AAAGGGTATTTTGGTAATTTTATATCTTATG
66 ACCTTAAAAAGGTCAAATTATAAAAATA-CC-TCAAAGGGTATTTTGGTAA-TTTACACCTTATG
*
18712223 AGGTGTGA-TCAAGGT
128 AAGTGTGACT-AAGGT
* * * * * * * * *
18712238 TTTTAATGCATTAATAATTAT-AAATTTATATCAAAACATGATATGGAGGTTTTCATGAAAAATA
1 TTTTAATGCATCAAAAATCATGAAA-TAATATTAAAACATGATCTGAAGCTTTTCATGAAAAATC
* * * * *
18712302 AACCTCAAAAAGGTCAAATTA-CAAAATATC-CAAAGGTTATTTTAGTAATTT
65 AACCTTAAAAAGGTCAAATTATAAAAATACCTCAAAGGGTATTTTGGTAATTT
18712353 TACCCCTTCT
Statistics
Matches: 433, Mismatches: 88, Indels: 57
0.75 0.15 0.10
Matches are distributed among these distances:
140 3 0.01
141 15 0.03
142 10 0.02
143 84 0.19
144 206 0.48
145 86 0.20
146 29 0.07
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.33
Consensus pattern (142 bp):
TTTTAATGCATCAAAAATCATGAAATAATATTAAAACATGATCTGAAGCTTTTCATGAAAAATCA
ACCTTAAAAAGGTCAAATTATAAAAATACCTCAAAGGGTATTTTGGTAATTTACACCTTATGAAG
TGTGACTAAGGT
Found at i:18712214 original size:145 final size:143
Alignment explanation
Indices: 18711805--18712362 Score: 502
Period size: 144 Copynumber: 3.9 Consensus size: 143
18711795 CAATTACAGC
* *
18711805 TTTTAATGCATCAAAAATCATGAAATAATGTTAAAACATGATCTGAAGCTTTTCATGAAAAATCA
1 TTTTAATGCATCAAAAATCATGAAATAATATTAAAACATGATCTGGAGCTTTTCATGAAAAATCA
* * * * *
18711870 A-CTTAAGAAAGGTCAAATTATAAAAATA-CCTCAAAGGGCATTTTACGTAATTTCACACCTTTT
66 ACCTTAA-AAAAGTCAAATTATAAAAATATCCT-AAAGGGTATTTT-GGTAATTTTACACCTTCT
* *
18711933 GAA-GTGTAACTAAGGT
128 -AAGGTGTGACCAAGGT
* * * * * * * * * *
18711949 TTTTAATGTATAAAAAATCATTAAATAATATGAAAATATTATCTAGAGCTTTTCGTG-AAAAGCG
1 TTTTAATGCATCAAAAATCATGAAATAATATTAAAACATGATCTGGAGCTTTTCATGAAAAATCA
* * * * *
18712013 ACCTTGAGAAAGTCAAATTAAAAAAATATATATCTAAAAGGTATTTTGGTAA-TTTATCACCTTC
66 ACCTTAAAAAAGTCAAATT-ATAAAA-ATAT-CCTAAAGGGTATTTTGGTAATTTTA-CACCTTC
* *
18712077 TAAGGTGCGACCAAAGT
127 TAAGGTGTGACCAAGGT
* * * * * * *
18712094 ATTTAATGTATCAAAAATCACGAAAAAATATTGAAACATGATTTGGAGCTTTTTATGAAAAATCA
1 TTTTAATGCATCAAAAATCATGAAATAATATTAAAACATGATCTGGAGCTTTTCATGAAAAATCA
* * * *
18712159 ACCTTAAAAAAGTCAAATTATAAAAATATCCATAAAGGGTATTTTGGTAATTTTATATCTTATGA
66 ACCTTAAAAAAGTCAAATTATAAAAATATCC-TAAAGGGTATTTTGGTAATTTTACACCTTCTAA
*
18712224 GGTGTGATCAAGGT
130 GGTGTGACCAAGGT
* * * * * * * *
18712238 TTTTAATGCATTAATAATTAT-AAATTTATATCAAAACATGATATGGAGGTTTTCATGAAAAATA
1 TTTTAATGCATCAAAAATCATGAAA-TAATATTAAAACATGATCTGGAGCTTTTCATGAAAAATC
* * * * * *
18712302 AACCTCAAAAAGGTCAAATTA-CAAAATATCC-AAAGGTTATTTTAGTAATTTTACCCCTTCT
65 AACCTTAAAAAAGTCAAATTATAAAAATATCCTAAAGGGTATTTTGGTAATTTTACACCTTCT
18712363 CATGTGCAAT
Statistics
Matches: 327, Mismatches: 76, Indels: 25
0.76 0.18 0.06
Matches are distributed among these distances:
141 24 0.07
143 29 0.09
144 164 0.50
145 76 0.23
146 32 0.10
147 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (143 bp):
TTTTAATGCATCAAAAATCATGAAATAATATTAAAACATGATCTGGAGCTTTTCATGAAAAATCA
ACCTTAAAAAAGTCAAATTATAAAAATATCCTAAAGGGTATTTTGGTAATTTTACACCTTCTAAG
GTGTGACCAAGGT
Found at i:18712330 original size:289 final size:289
Alignment explanation
Indices: 18711806--18712327 Score: 624
Period size: 289 Copynumber: 1.8 Consensus size: 289
18711796 AATTACAGCT
* * *
18711806 TTTAATGCATCAAAAATCATGAAATAATGTTAAAACATGATCTGAAGCTTTTCATGAAAAATCAA
1 TTTAATGCATCAAAAATCACGAAAAAATATTAAAACATGATCTGAAGCTTTTCATGAAAAATCAA
* *
18711871 CTTAAGAAAGGTCAAATTATAAAAATACCTCAAAGGGCATTTTACGTAATTTCACACCTTTTGAA
66 CTTAAGAAAAGTCAAATTATAAAAATACCTCAAAGGGCATTTTACGTAATTTCACACCTTATGAA
* * * * *
18711936 GTGTAACTAAGGTTTTTAATGTATAAAAAATCATTAAATAATATGAAAATATTATCTAGAGCTTT
131 GTGTAACTAAGGTTTTTAATGCATAAAAAATCATTAAATAATATCAAAACATGATATAGAGCTTT
* ** * *
18712001 TCGTGAAAAGCGACCTTGAGAAAGTCAAATTAAAAAAATATATATCTAAAAGGTATTTTGGTAAT
196 TCATGAAAAGAAACCTTCAAAAAGTCAAATTAAAAAAATATATATCTAAAAGGTATTTTGGTAAT
18712066 TTATCACCTTCTAAGGTGCGACCAAAGTA
261 TTATCACCTTCTAAGGTGCGACCAAAGTA
* * * * *
18712095 TTTAATGTATCAAAAATCACGAAAAAATATTGAAACATGATTTGGAGCTTTTTATGAAAAATCAA
1 TTTAATGCATCAAAAATCACGAAAAAATATTAAAACATGATCTGAAGCTTTTCATGAAAAATCAA
* * * * *
18712160 CCTTAA-AAAAGTCAAATTATAAAAATATCCAT-AAAGGGTATTTT-GGTAATTTTATATCTTAT
66 -CTTAAGAAAAGTCAAATTATAAAAATA-CC-TCAAAGGGCATTTTACGTAATTTCACACCTTAT
* * * * * * *
18712222 GAGGTGTGA-TCAAGGTTTTTAATGCATTAATAATTA-TAAATTTATATCAAAACATGATATGGA
128 GAAGTGTAACT-AAGGTTTTTAATGCATAAAAAATCATTAAA-TAATATCAAAACATGATATAGA
* * *
18712285 GGTTTTCATGAAAAATAAACC-TCAAAAAGGTCAAATTACAAAA
191 GCTTTTCATG-AAAAGAAACCTTCAAAAA-GTCAAATTAAAAAA
18712328 TATCCAAAGG
Statistics
Matches: 191, Mismatches: 35, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
288 5 0.03
289 147 0.77
290 38 0.20
291 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (289 bp):
TTTAATGCATCAAAAATCACGAAAAAATATTAAAACATGATCTGAAGCTTTTCATGAAAAATCAA
CTTAAGAAAAGTCAAATTATAAAAATACCTCAAAGGGCATTTTACGTAATTTCACACCTTATGAA
GTGTAACTAAGGTTTTTAATGCATAAAAAATCATTAAATAATATCAAAACATGATATAGAGCTTT
TCATGAAAAGAAACCTTCAAAAAGTCAAATTAAAAAAATATATATCTAAAAGGTATTTTGGTAAT
TTATCACCTTCTAAGGTGCGACCAAAGTA
Found at i:18713027 original size:2 final size:2
Alignment explanation
Indices: 18713020--18713047 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18713010 TTATACACTG
18713020 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
18713048 TAGTAAGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18715126 original size:159 final size:160
Alignment explanation
Indices: 18714807--18715128 Score: 513
Period size: 159 Copynumber: 2.0 Consensus size: 160
18714797 GATGGTTGTA
*
18714807 ATGTATTTCTCATGTTGCCACAATAAAAAAAAAAATTAATAATGAGTGAACAGTTGATTTTACAT
1 ATGTATTTCTCATGTTGCCACAATAAAAAAAAAAATTAATAATGAGTGAACAGTTAATTTTACAT
* * * * *
18714872 TTGCACGAATGTGTTTAAGTATATGTAAGTATGTTGCTAATATGCTCTTAGTACCTTACACCTTT
66 GTCCACAAATGTGTTTAAGCATATGTAAGTATGTTGCTAATATGCTCTTAGTACCTAACACCTTT
18714937 GTAAAGTTTAGCCCTCATAAGCTCATGATT
131 GTAAAGTTTAGCCCTCATAAGCTCATGATT
* * * *
18714967 ATGTATTTCTCATGTTGTCACAAT-CAAAGAAAAATTAATAATGAGTGAATAGTTAATTTTACAT
1 ATGTATTTCTCATGTTGCCACAATAAAAAAAAAAATTAATAATGAGTGAACAGTTAATTTTACAT
*
18715031 GTCCACAAATGTGTTTAAGCATATGTAAGTATGTTGGTAATATGCT-TTCAGTACCTAACACCTT
66 GTCCACAAATGTGTTTAAGCATATGTAAGTATGTTGCTAATATGCTCTT-AGTACCTAACACCTT
*
18715095 TGTAAAGTTTAGCCCTCATAAGCTCGTGATT
130 TGTAAAGTTTAGCCCTCATAAGCTCATGATT
18715126 ATG
1 ATG
18715129 CCTTATGTAA
Statistics
Matches: 149, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
158 2 0.01
159 124 0.83
160 23 0.15
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.37
Consensus pattern (160 bp):
ATGTATTTCTCATGTTGCCACAATAAAAAAAAAAATTAATAATGAGTGAACAGTTAATTTTACAT
GTCCACAAATGTGTTTAAGCATATGTAAGTATGTTGCTAATATGCTCTTAGTACCTAACACCTTT
GTAAAGTTTAGCCCTCATAAGCTCATGATT
Found at i:18715192 original size:66 final size:66
Alignment explanation
Indices: 18715115--18715242 Score: 204
Period size: 66 Copynumber: 1.9 Consensus size: 66
18715105 AGCCCTCATA
18715115 AGCTCGTGATTATGCCTTATGTAATCAAGTCTT-TCACTTTCAACATCGACAAATGCATCAACTA
1 AGCTCGTGATTATGCCTTATGTAATCAAGTCTTAT-ACTTTCAACATCGACAAATGCATCAACTA
18715179 AT
65 AT
* * * *
18715181 AGCTCTTGATTATTCCTTATGTAATCAAGTCTTATATTTTCAACATTGACAAATGCATCAAC
1 AGCTCGTGATTATGCCTTATGTAATCAAGTCTTATACTTTCAACATCGACAAATGCATCAAC
18715243 CAAATATTGA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
66 56 0.98
67 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (66 bp):
AGCTCGTGATTATGCCTTATGTAATCAAGTCTTATACTTTCAACATCGACAAATGCATCAACTAA
T
Found at i:18718710 original size:17 final size:17
Alignment explanation
Indices: 18718687--18718725 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
18718677 ACTCATGAAT
18718687 TTATTTTTTAAA-AAAA
1 TTATTTTTTAAATAAAA
18718703 TTATTTTTTAAATAAAA
1 TTATTTTTTAAATAAAA
18718720 TTATTT
1 TTATTT
18718726 ATTATTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATTTTTTAAATAAAA
Found at i:18718770 original size:15 final size:14
Alignment explanation
Indices: 18718736--18718778 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
18718726 ATTATTTTTG
* * *
18718736 GAAAAAAATCAATT
1 GAAATAAATAAATA
18718750 GAAATAAATAGAATA
1 GAAATAAATA-AATA
18718765 GAAATAAATAAATA
1 GAAATAAATAAATA
18718779 AATATACCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.21
Consensus pattern (14 bp):
GAAATAAATAAATA
Found at i:18720300 original size:2 final size:2
Alignment explanation
Indices: 18720288--18720332 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
18720278 ATTCCTCCCT
* * *
18720288 TA TA GA TA TA TA TA TA TA TA TA GA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18720330 TA T
1 TA T
18720333 TGGCTATTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:18720845 original size:28 final size:27
Alignment explanation
Indices: 18720780--18720846 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 27
18720770 AGCTACAGTA
*
18720780 AAATATTTAATATAATATTTAAATTTT
1 AAATATTTAATATAATATTTAAATTAT
* *
18720807 ATAATTTTTAATATGATATTTAAATTAT
1 A-AATATTTAATATAATATTTAAATTAT
18720835 AAATATATTAAT
1 AAATAT-TTAAT
18720847 TAAAAATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.15
28 29 0.85
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
AAATATTTAATATAATATTTAAATTAT
Found at i:18720855 original size:13 final size:15
Alignment explanation
Indices: 18720829--18720878 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
18720819 ATGATATTTA
18720829 AATTATAAATATATT
1 AATTATAAATATATT
*
18720844 AATTAAAAATATATT
1 AATTATAAATATATT
* *
18720859 AATTCTTAATATAATT
1 AATTATAAATAT-ATT
18720875 AATT
1 AATT
18720879 TCAAATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 23 0.77
16 7 0.23
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTATAAATATATT
Found at i:18721572 original size:18 final size:18
Alignment explanation
Indices: 18721551--18721596 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
18721541 AAAATAAATT
*
18721551 TTAAAAAATTAAAATGAA
1 TTAAAAAATTAAAACGAA
*
18721569 TTAAAATATTAAAACGAA
1 TTAAAAAATTAAAACGAA
18721587 --AAAAAATTAA
1 TTAAAAAATTAA
18721597 TTGTAAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 9 0.36
18 16 0.64
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (18 bp):
TTAAAAAATTAAAACGAA
Found at i:18722139 original size:30 final size:31
Alignment explanation
Indices: 18722091--18722164 Score: 102
Period size: 30 Copynumber: 2.5 Consensus size: 31
18722081 ATTTGCCTCT
18722091 AAATAAAC-TTTT-ATCTTTAATTCATA-TC
1 AAATAAACTTTTTAATCTTTAATTCATACTC
* *
18722119 AAATAAACTTTTTAATCTTTAATTTATACTT
1 AAATAAACTTTTTAATCTTTAATTCATACTC
18722150 AAATAAA-TTTTTAAT
1 AAATAAACTTTTTAAT
18722165 ATGTCTTCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 8 0.20
29 4 0.10
30 21 0.51
31 8 0.20
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (31 bp):
AAATAAACTTTTTAATCTTTAATTCATACTC
Found at i:18722326 original size:17 final size:18
Alignment explanation
Indices: 18722304--18722338 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18722294 ATAACTTTAT
*
18722304 ATTTT-ATTTGAAATAAA
1 ATTTTAATTAGAAATAAA
18722321 ATTTTAATTAGAAATAAA
1 ATTTTAATTAGAAATAAA
18722339 TAAAAGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (18 bp):
ATTTTAATTAGAAATAAA
Found at i:18730115 original size:18 final size:19
Alignment explanation
Indices: 18730082--18730117 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18730072 TTAATAGATT
*
18730082 ATTATTCATAAAAGTCATG
1 ATTATACATAAAAGTCATG
18730101 ATTATACAT-AAAGTCAT
1 ATTATACATAAAAGTCAT
18730118 AACTATTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (19 bp):
ATTATACATAAAAGTCATG
Found at i:18731625 original size:146 final size:144
Alignment explanation
Indices: 18731390--18731789 Score: 374
Period size: 146 Copynumber: 2.7 Consensus size: 144
18731380 GGAAAAATAC
* * * * * * * **
18731390 AAAATTACTAAAATACCCCTGTAAAGGATATTTTTATAGTTTGACCTTCCTG-AGCTCAAATTTT
1 AAAATTAC-AAAATACCCATATAAA-GACATTTTCATAATTT-AACTTCTTGAAGCTTGAATTTT
* * * * * * *
18731454 TATAAAATTTTTTATATTTTAATTTCATAATCTTTCATAATTTTTAGTGCATTTAAAATTACAGT
63 CATAAAATTTTTCATATATTAATTTCATAATATTTCATGATTTTTAGTGCATTTAAAATCACAAT
* * * **
18731519 TGTATCCTGAGAAGTATG
128 AGTA-CCTCAAAAAAATG
* * *
18731537 -AAATTAACAAAATACCTATATAAAAGACATTTTCATAATTTGACCTTCTTGAA-CTTGGATTTT
1 AAAATT-ACAAAATACCCATAT-AAAGACATTTTCATAATTT-AACTTCTTGAAGCTTGAATTTT
* * * *
18731600 CATAAAATTTTTCATATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCATAAT
63 CATAAAATTTTTCATATATTAATTTCATAATATTTCATGATTTTTAGTGCATTTAAAATCACAAT
18731665 AGTACCTCAAAAAAATG
128 AGTACCTCAAAAAAATG
* * * * *
18731682 AAAAATTACAAAATACCCCTATAAGGATATTTTCATAATTTAACTTTTTTAAGCTTGAATTTTCA
1 -AAAATTACAAAATACCCATATAAAGACATTTTCATAATTTAACTTCTTGAAGCTTGAATTTTCA
* * * *
18731747 TGAAACTTTTCAGATATTAATTTAATAATATTTCATGATTTTT
65 TAAAATTTTTCATATATTAATTTCATAATATTTCATGATTTTT
18731790 GGTGTTTGAA
Statistics
Matches: 209, Mismatches: 38, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
144 8 0.04
145 75 0.36
146 115 0.55
147 11 0.05
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (144 bp):
AAAATTACAAAATACCCATATAAAGACATTTTCATAATTTAACTTCTTGAAGCTTGAATTTTCAT
AAAATTTTTCATATATTAATTTCATAATATTTCATGATTTTTAGTGCATTTAAAATCACAATAGT
ACCTCAAAAAAATG
Found at i:18731776 original size:145 final size:145
Alignment explanation
Indices: 18731537--18731800 Score: 363
Period size: 145 Copynumber: 1.8 Consensus size: 145
18731527 GAGAAGTATG
* * *
18731537 AAATTAACAAAATACCTATATAAAAGACATTTTCATAATTTGACCTTCTTGAACTTGGATTTTCA
1 AAATTAACAAAATACCCATATAAAAGACATTTTCATAATTTGAACTTCTTGAACTTGAATTTTCA
* * * *
18731602 TAAAATTTTTCATATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCATAATAG
66 TAAAACTTTTCAGATATTAATTTAATAATATTTCATGATTTTTGGTG--TTTGAAATCATAATAG
18731667 TACCTCAAAAAAATGAA
129 TACCTCAAAAAAATGAA
* * * * *
18731684 AAATT-ACAAAATACCCCTAT-AAGGATATTTTCATAATTT-AACTTTTTTAAGCTTGAATTTTC
1 AAATTAACAAAATACCCATATAAAAGACATTTTCATAATTTGAACTTCTTGAA-CTTGAATTTTC
*
18731746 ATGAAACTTTTCAGATATTAATTTAATAATATTTCATGATTTTTGGTGTTTGAAA
65 ATAAAACTTTTCAGATATTAATTTAATAATATTTCATGATTTTTGGTGTTTGAAA
18731801 ATCTAAAAAA
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
143 7 0.07
144 8 0.08
145 70 0.68
146 13 0.13
147 5 0.05
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.42
Consensus pattern (145 bp):
AAATTAACAAAATACCCATATAAAAGACATTTTCATAATTTGAACTTCTTGAACTTGAATTTTCA
TAAAACTTTTCAGATATTAATTTAATAATATTTCATGATTTTTGGTGTTTGAAATCATAATAGTA
CCTCAAAAAAATGAA
Found at i:18743019 original size:41 final size:40
Alignment explanation
Indices: 18742966--18743270 Score: 240
Period size: 41 Copynumber: 7.5 Consensus size: 40
18742956 TTGTATCATG
* *
18742966 AAAAAGATATTTGTATTTGCATCACTTGCATTTACATAAA
1 AAAAAGACATTTGCATTTGCATCACTTGCATTTACATAAA
* *
18743006 AAAAATGACATTTGCATTTGCATCACTTGCATATGCATCAAA
1 AAAAA-GACATTTGCATTTGCATCACTTGCATTTACAT-AAA
* * * *
18743048 ACAAA-ACATTTGCACTTGCATTCACATCTGCA-TCACA-AGA
1 AAAAAGACATTTGCATTTGCA-TCAC-T-TGCATTTACATAAA
* * *
18743088 AAAAAGACATTTGAATTTGCATCACTTGTATCTACATCAAGA
1 AAAAAGACATTTGCATTTGCATCACTTGCATTTACAT-AA-A
* * * ** *
18743130 AAAAAGATATCTACATTTGCATCACTTGCATTTGTATTAAG
1 AAAAAGACATTTGCATTTGCATCACTTGCATTTACA-TAAA
* * *
18743171 ACAAA-ACATTTTCATTTGCATCACTTGCATCTACATTAAGA
1 AAAAAGACATTTGCATTTGCATCACTTGCATTTACA-TAA-A
** * * ** *
18743212 AAAAAGACATTCACATTTGCATTACTTGCATCTGTATCACA
1 AAAAAGACATTTGCATTTGCATCACTTGCATTTACAT-AAA
18743253 AAAAAGACATTTGCATTT
1 AAAAAGACATTTGCATTT
18743271 ACACTTGTAT
Statistics
Matches: 208, Mismatches: 43, Indels: 27
0.75 0.15 0.10
Matches are distributed among these distances:
38 3 0.01
39 4 0.02
40 57 0.27
41 72 0.35
42 67 0.32
43 5 0.02
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.32
Consensus pattern (40 bp):
AAAAAGACATTTGCATTTGCATCACTTGCATTTACATAAA
Found at i:18743148 original size:42 final size:42
Alignment explanation
Indices: 18742980--18743263 Score: 207
Period size: 42 Copynumber: 6.9 Consensus size: 42
18742970 AGATATTTGT
* **
18742980 ATTTGCATCACTTGCATTTACAT-AA-AAAAAATGACATTTGC
1 ATTTGCATCACTTGCATCTACATCAAGAAAAAA-GACATTCAC
* * * **
18743021 ATTTGCATCACTTGCATATGCATCAA-AACAAA-ACATTTGC
1 ATTTGCATCACTTGCATCTACATCAAGAAAAAAGACATTCAC
* *
18743061 ACTTGCATTCACATCTGCA--T-CA-CAAGAAAAAAGACATTTGA-
1 ATTTGCA-TCAC-T-TGCATCTACATCAAGAAAAAAGACA-TTCAC
* *
18743102 ATTTGCATCACTTGTATCTACATCAAGAAAAAAGATA-TCTAC
1 ATTTGCATCACTTGCATCTACATCAAGAAAAAAGACATTC-AC
* ** * * **
18743144 ATTTGCATCACTTGCATTTGTATTAAG-ACAAA-ACATTTTC
1 ATTTGCATCACTTGCATCTACATCAAGAAAAAAGACATTCAC
*
18743184 ATTTGCATCACTTGCATCTACATTAAGAAAAAAGACATTCAC
1 ATTTGCATCACTTGCATCTACATCAAGAAAAAAGACATTCAC
* ** *
18743226 ATTTGCATTACTTGCATCTGTATC-ACAAAAAAGACATT
1 ATTTGCATCACTTGCATCTACATCAAGAAAAAAGACATT
18743264 TGCATTTACA
Statistics
Matches: 196, Mismatches: 31, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
38 3 0.02
39 4 0.02
40 54 0.28
41 60 0.31
42 71 0.36
43 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (42 bp):
ATTTGCATCACTTGCATCTACATCAAGAAAAAAGACATTCAC
Found at i:18743270 original size:123 final size:123
Alignment explanation
Indices: 18742966--18743270 Score: 336
Period size: 123 Copynumber: 2.5 Consensus size: 123
18742956 TTGTATCATG
* ** *
18742966 AAAAAGATATTTGTATTTGCATCACTTGCATTTACAT-AA-AAAAAATGACATTTGCATTTGCAT
1 AAAAAGACATTTCAATTTGCATCACTTGCATCTACATCAACAAAAAA-GACATTTGCATTTGCAT
18743029 CACTTGCATATGCATCAAAACAAAACATTTGCACTTGCATTCACATCTGCATCACAAGA
65 CACTTGCATATGCATCAAAACAAAACATTTGCACTTGCATTCACATCTGCATCACAAGA
* * * * * *
18743088 AAAAAGACATTTGAATTTGCATCACTTGTATCTACATCAAGAAAAAAGATATCTACATTTGCATC
1 AAAAAGACATTTCAATTTGCATCACTTGCATCTACATCAACAAAAAAGACATTTGCATTTGCATC
* * * * * *
18743153 ACTTGCATTTGTATTAAGACAAAACATTTTCATTTGCA-TCAC-T-TGCATCTACATTAAGA
66 ACTTGCATATGCATCAAAACAAAACATTTGCACTTGCATTCACATCTGCATC-AC---AAGA
* **
18743212 AAAAAGACA-TTCACATTTGCATTACTTGCATCTGTATC-ACAAAAAAGACATTTGCATTT
1 AAAAAGACATTTCA-ATTTGCATCACTTGCATCTACATCAACAAAAAAGACATTTGCATTT
18743271 ACACTTGTAT
Statistics
Matches: 154, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
120 6 0.04
121 3 0.02
122 37 0.24
123 69 0.45
124 39 0.25
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.32
Consensus pattern (123 bp):
AAAAAGACATTTCAATTTGCATCACTTGCATCTACATCAACAAAAAAGACATTTGCATTTGCATC
ACTTGCATATGCATCAAAACAAAACATTTGCACTTGCATTCACATCTGCATCACAAGA
Found at i:18744084 original size:52 final size:52
Alignment explanation
Indices: 18744024--18744190 Score: 207
Period size: 51 Copynumber: 3.3 Consensus size: 52
18744014 AAAAACAAGA
*
18744024 TTTTAAAGTTTCAAAATCTCTGATTAGGGGGAAACCAGTTTCAAATTAAAAT
1 TTTTAAAGTTTCAAAATCTCTGATTAGGGGGAAACCATTTTCAAATTAAAAT
* ** * *
18744076 TTTTAAAGTTTC-AAATCCTCT-ATTTGGGATAAACCATTTTCAAA-CAAGAT
1 TTTTAAAGTTTCAAAAT-CTCTGATTAGGGGGAAACCATTTTCAAATTAAAAT
* * * *
18744126 TTTT-TAGTTTCAAAACCTCTGATTAAGGGGAAGCCATTTTCAAATTAAAAT
1 TTTTAAAGTTTCAAAATCTCTGATTAGGGGGAAACCATTTTCAAATTAAAAT
18744177 TTTTAAAGTTTCAA
1 TTTTAAAGTTTCAA
18744191 GGCCTCTAAT
Statistics
Matches: 94, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
49 10 0.11
50 29 0.31
51 31 0.33
52 24 0.26
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (52 bp):
TTTTAAAGTTTCAAAATCTCTGATTAGGGGGAAACCATTTTCAAATTAAAAT
Found at i:18744197 original size:101 final size:101
Alignment explanation
Indices: 18744016--18744198 Score: 294
Period size: 101 Copynumber: 1.8 Consensus size: 101
18744006 GAGAAAATAA
* *
18744016 AAACAAGATTTTAAAGTTTCAAAATCTCTGATTAGGGGGAAACCAGTTTCAAATTAAAATTTTTA
1 AAACAAGATTTTAAAGTTTCAAAACCTCTGATTAAGGGGAAACCAGTTTCAAATTAAAATTTTTA
*
18744081 AAGTTTCAAATCCTCTATTTGGGATAAACCATTTTC
66 AAGTTTCAAAGCCTCTATTTGGGATAAACCATTTTC
** * *
18744117 AAACAAGATTTTTTAGTTTCAAAACCTCTGATTAAGGGGAAGCCATTTTCAAATTAAAATTTTTA
1 AAACAAGATTTTAAAGTTTCAAAACCTCTGATTAAGGGGAAACCAGTTTCAAATTAAAATTTTTA
*
18744182 AAGTTTCAAGGCCTCTA
66 AAGTTTCAAAGCCTCTA
18744199 ATTAGAAAAG
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (101 bp):
AAACAAGATTTTAAAGTTTCAAAACCTCTGATTAAGGGGAAACCAGTTTCAAATTAAAATTTTTA
AAGTTTCAAAGCCTCTATTTGGGATAAACCATTTTC
Found at i:18744483 original size:102 final size:104
Alignment explanation
Indices: 18744173--18744617 Score: 500
Period size: 102 Copynumber: 4.3 Consensus size: 104
18744163 TTTCAAATTA
* * *
18744173 AAATTTTTAAAGTTTCAAGGCCTCTAATTAGAAAAGCATTCAAAGATTTTGAGATTTGTAAGGCT
1 AAATTTTTAAAGTTTCAAGGCCTCTAATTAGAGAAGCATTCAAAGATTTTGAGATTTGTAAGACC
*** *
18744238 TTTGAGTATAATCTCTAAAACTTTCGAGCAAAACATTTT
66 TCCAAGCATAATCTCTAAAACTTTCGAGCAAAACATTTT
* *
18744277 AAA-TTTTAAAGTTTCAAAGCCTCTAATTAAAGGAA-CATTCAAAGATTTTGAGATTTGTAAGAC
1 AAATTTTTAAAGTTTCAAGGCCTCTAATTAGA-GAAGCATTCAAAGATTTTGAGATTTGTAAGAC
* * *
18744340 CTCCAGGCATAATCTCTAAAACCTAC-AGGCAAAACATTTT
65 CTCCAAGCATAATCTCTAAAACTTTCGA-GCAAAACATTTT
* * * * *
18744380 AAATTTTTAAAGTTTTAACGCCTTTGATTAGAGAAGCATTCAAAGATTTTAAGATTTGT-A-ACC
1 AAATTTTTAAAGTTTCAAGGCCTCTAATTAGAGAAGCATTCAAAGATTTTGAGATTTGTAAGACC
*
18744443 TCCAAGCATAATCTCTAAAACTTTCGAGTAAAACATTTT
66 TCCAAGCATAATCTCTAAAACTTTCGAGCAAAACATTTT
* * *
18744482 AAATTTTTAAAGTTTTAAGGCCTCTGATT-GAAGGAGCATTCAAAGATTTTGAGATTTGTAAGAC
1 AAATTTTTAAAGTTTCAAGGCCTCTAATTAG-AGAAGCATTCAAAGATTTTGAGATTTGTAAGAC
* *
18744546 CTCCGAA-CATAATCAT-TAAAAAC-TTCGGGCAAAAGATATTT
65 CTCC-AAGCATAATC-TCT-AAAACTTTCGAGCAAAACAT-TTT
* ** *
18744587 ---TTTTTTAAGTTTCAAAACCTCTATTTAGAGA
1 AAATTTTTAAAGTTTCAAGGCCTCTAATTAGAGA
18744618 GAGCCATTTT
Statistics
Matches: 292, Mismatches: 36, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
101 1 0.00
102 112 0.38
103 93 0.32
104 75 0.26
105 11 0.04
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (104 bp):
AAATTTTTAAAGTTTCAAGGCCTCTAATTAGAGAAGCATTCAAAGATTTTGAGATTTGTAAGACC
TCCAAGCATAATCTCTAAAACTTTCGAGCAAAACATTTT
Found at i:18744548 original size:206 final size:206
Alignment explanation
Indices: 18744173--18744549 Score: 576
Period size: 206 Copynumber: 1.8 Consensus size: 206
18744163 TTTCAAATTA
* * *
18744173 AAATTTTTAAAGTTTCAAGGCCTCTAATTAGAAAAGCATTCAAAGATTTTGAGATTTGTAAGGCT
1 AAATTTTTAAAGTTTCAACGCCTCTAATTAGAAAAGCATTCAAAGATTTTAAGATTTGTAA-GCC
*** *
18744238 TTTGAGTATAATCTCTAAAACTTTCGAGCAAAACATTTTAAATTTTAAAGTTTCAAAGCCTCTAA
65 TCCAAGCATAATCTCTAAAACTTTCGAGCAAAACATTTTAAATTTTAAAGTTTCAAAGCCTCTAA
18744303 TTAAAGGAACATTCAAAGATTTTGAGATTTGTAAGACCTCCAGGCATAATCTCTAAAACCTACAG
130 TTAAAGGAACATTCAAAGATTTTGAGATTTGTAAGACCTCCAGGCATAATCTCTAAAACCTACAG
18744368 GCAAAACATTTT
195 GCAAAACATTTT
* * * *
18744380 AAATTTTTAAAGTTTTAACGCCTTTGATTAGAGAAGCATTCAAAGATTTTAAGATTTGTAA-CCT
1 AAATTTTTAAAGTTTCAACGCCTCTAATTAGAAAAGCATTCAAAGATTTTAAGATTTGTAAGCCT
* * * *
18744444 CCAAGCATAATCTCTAAAACTTTCGAGTAAAACATTTTAAATTTTTAAAGTTTTAAGGCCTCTGA
66 CCAAGCATAATCTCTAAAACTTTCGAGCAAAACATTTTAAA-TTTTAAAGTTTCAAAGCCTCTAA
* *
18744509 TTGAAGGAGCATTCAAAGATTTTGAGATTTGTAAGACCTCC
130 TTAAAGGAACATTCAAAGATTTTGAGATTTGTAAGACCTCC
18744550 GAACATAATC
Statistics
Matches: 152, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
205 38 0.25
206 59 0.39
207 55 0.36
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (206 bp):
AAATTTTTAAAGTTTCAACGCCTCTAATTAGAAAAGCATTCAAAGATTTTAAGATTTGTAAGCCT
CCAAGCATAATCTCTAAAACTTTCGAGCAAAACATTTTAAATTTTAAAGTTTCAAAGCCTCTAAT
TAAAGGAACATTCAAAGATTTTGAGATTTGTAAGACCTCCAGGCATAATCTCTAAAACCTACAGG
CAAAACATTTT
Found at i:18744636 original size:37 final size:37
Alignment explanation
Indices: 18744587--18744664 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
18744577 AAAGATATTT
* *
18744587 TTTTTTAAGTTTCAAAACCTCTATTTAGAGAGAGCCA
1 TTTTTAAAGTTTCAAAACCTCTATTTAGAGAGAGCAA
* *
18744624 TTTTTAAAGTTTCAAAGCCTCTATTTAGAGGGAGCAA
1 TTTTTAAAGTTTCAAAACCTCTATTTAGAGAGAGCAA
18744661 TTTT
1 TTTT
18744665 CAAACAAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (37 bp):
TTTTTAAAGTTTCAAAACCTCTATTTAGAGAGAGCAA
Found at i:18745394 original size:145 final size:139
Alignment explanation
Indices: 18745157--18745542 Score: 354
Period size: 141 Copynumber: 2.7 Consensus size: 139
18745147 GAAAATTACA
* * **
18745157 AAATTACCAAAATACTCCTATAAAGAATATTTTAGCAATTTGACCTTC-CCAAGCTTGAATTTTC
1 AAATTACCAAAATACTCCTAT-AAGGATATTTT-GAAATTTGACCTTCTTGAA-CTTG-ATTTTC
* * *
18745221 ATGAAA-TTTTT-CATATTTAATTTCATAATATTTCATTATTTTTAGTGCATTTAAAATCACAGT
62 ATAAAACTTTTTACAT-CTTAATTTTATAATATTTCATTATTTTTAGTGCATTTAAAATCACAG-
18745284 CATACG-C-CAAACAATGTG
125 -A-A-GTCTC-AA-AATGTG
* *
18745302 AAATTATCAAAATACTCTTATGAAGGATATTTTGAAATTTGACCTTCTTGAACTTAGATTTTCAT
1 AAATTACCAAAATACTCCTAT-AAGGATATTTTGAAATTTGACCTTCTTGAACTT-GATTTTCAT
* ** * * *
18745367 AAAACTTTTTAGATCTTAATTTTATAATATTTTTTTATTTTTTGTGCATTTGAAATCATAGAAGT
64 AAAACTTTTTACATCTTAATTTTATAATATTTCATTATTTTTAGTGCATTTAAAATCACAGAAGT
*
18745432 CTCTAAATGTG
129 CTCAAAATGTG
* * * * *
18745443 AAATTACCAAAATACCCCTATAA-GAGTATTTTTAGAATTTTATCTT-TTCGAACTCGGATTTTC
1 AAATTACCAAAATACTCCTATAAGGA-TATTTTGA-AATTTGACCTTCTT-GAACT-TGATTTTC
* * *
18745506 ATAAAACTTTTCACATCTCAATTATATAATATTTCAT
62 ATAAAACTTTTTACATCTTAATTTTATAATATTTCAT
18745543 GACTTAAAAT
Statistics
Matches: 201, Mismatches: 30, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
139 2 0.01
140 11 0.05
141 77 0.38
142 3 0.01
143 2 0.01
144 27 0.13
145 77 0.38
146 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (139 bp):
AAATTACCAAAATACTCCTATAAGGATATTTTGAAATTTGACCTTCTTGAACTTGATTTTCATAA
AACTTTTTACATCTTAATTTTATAATATTTCATTATTTTTAGTGCATTTAAAATCACAGAAGTCT
CAAAATGTG
Found at i:18751448 original size:13 final size:13
Alignment explanation
Indices: 18751420--18751471 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
18751410 TGTTAAATTA
*
18751420 TAATAAAATA-TT
1 TAATATAATATTT
18751432 TAATATAATATTT
1 TAATATAATATTT
*
18751445 TAATTATAAAATTT
1 TAA-TATAATATTT
*
18751459 TAGTATAATATTT
1 TAATATAATATTT
18751472 AAATTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
12 9 0.26
13 14 0.41
14 11 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (13 bp):
TAATATAATATTT
Found at i:18751465 original size:27 final size:28
Alignment explanation
Indices: 18751422--18751487 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
18751412 TTAAATTATA
*
18751422 ATAAAATATTTAATATAATATTTTAATT
1 ATAAAATATTTAATATAATATTTAAATT
*
18751450 ATAAAAT-TTTAGTATAATATTTAAATT
1 ATAAAATATTTAATATAATATTTAAATT
*
18751477 TTAAATATATT
1 ATAAA-ATATT
18751488 AATTAGCGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 22 0.67
28 9 0.27
29 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (28 bp):
ATAAAATATTTAATATAATATTTAAATT
Found at i:18751614 original size:29 final size:29
Alignment explanation
Indices: 18751548--18751654 Score: 99
Period size: 29 Copynumber: 3.5 Consensus size: 29
18751538 TTAGTTAAAT
* *
18751548 TAATTTAGATATTATATTAATTAATTAATTTA
1 TAATTTAAATATTATATTAA--AATT-TTTTA
18751580 TAATTTAAATATTATATTTAAAATTTTTTA
1 TAATTTAAATATTATA-TTAAAATTTTTTA
* * *
18751610 -AATTTAAATATCATATTAAATATTTGATTG
1 TAATTTAAATATTATATTAAA-ATTT-TTTA
*
18751640 TAATTTAAAAATTAT
1 TAATTTAAATATTAT
18751655 TGTAAACATT
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
28 5 0.08
29 18 0.28
30 6 0.09
31 16 0.25
32 15 0.23
33 4 0.06
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (29 bp):
TAATTTAAATATTATATTAAAATTTTTTA
Found at i:18756205 original size:3 final size:3
Alignment explanation
Indices: 18756197--18756238 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
18756187 AGTTGTAATC
18756197 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18756239 AAGTTAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18757919 original size:27 final size:27
Alignment explanation
Indices: 18757851--18757911 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
18757841 AATTTTAACC
* **
18757851 AATTATGATATGA-GGATATTTTC-AT
1 AATTATGATAAGATGGGCATTTTCAAT
*
18757876 AACTATGATAAGATGGGCATTTTCAAT
1 AATTATGATAAGATGGGCATTTTCAAT
18757903 AATTATGAT
1 AATTATGAT
18757912 GGGATGGGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 11 0.38
26 8 0.28
27 10 0.34
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (27 bp):
AATTATGATAAGATGGGCATTTTCAAT
Found at i:18758097 original size:11 final size:11
Alignment explanation
Indices: 18758081--18758113 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
18758071 TGATAATTTA
18758081 TATATTTATAT
1 TATATTTATAT
18758092 TATATTTAT-T
1 TATATTTATAT
18758102 TAATATTTATAT
1 T-ATATTTATAT
18758114 ATAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 2 0.10
11 17 0.85
12 1 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTTATAT
Found at i:18759349 original size:16 final size:18
Alignment explanation
Indices: 18759328--18759370 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 18
18759318 TTTAGTTTAG
18759328 AAAAAAAAATGTA-AA-A
1 AAAAAAAAATGTACAATA
*
18759344 AAAAAAAAATTTACAATA
1 AAAAAAAAATGTACAATA
18759362 AAAAAAAAA
1 AAAAAAAAA
18759371 GAGAAATCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 12 0.50
17 2 0.08
18 10 0.42
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (18 bp):
AAAAAAAAATGTACAATA
Found at i:18760200 original size:16 final size:17
Alignment explanation
Indices: 18760158--18760222 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 17
18760148 TTTTTATGTT
* *
18760158 TTTTAAGTTTCAAGC-A
1 TTTTAAGTTTCATGCGC
* *
18760174 TTTAAATTTTCATGCGC
1 TTTTAAGTTTCATGCGC
* *
18760191 TTTTAA-TTTCACGCTC
1 TTTTAAGTTTCATGCGC
18760207 TTTTAAGTTTCCATGC
1 TTTTAAGTTT-CATGC
18760223 TATTTACATT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
16 26 0.68
17 8 0.21
18 4 0.11
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.48
Consensus pattern (17 bp):
TTTTAAGTTTCATGCGC
Found at i:18764695 original size:15 final size:15
Alignment explanation
Indices: 18764677--18764728 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
18764667 TATAAAGCCT
18764677 ATAAAATTAAATTGC
1 ATAAAATTAAATTGC
* *
18764692 ATAAAAGTAAATTGT
1 ATAAAATTAAATTGC
*
18764707 ATGAAATTTAAATTGC
1 AT-AAAATTAAATTGC
18764723 ATAAAA
1 ATAAAA
18764729 GATAAATTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.33
Consensus pattern (15 bp):
ATAAAATTAAATTGC
Found at i:18764734 original size:16 final size:15
Alignment explanation
Indices: 18764677--18764737 Score: 68
Period size: 16 Copynumber: 3.9 Consensus size: 15
18764667 TATAAAGCCT
*
18764677 ATAAAATTAAATTGC
1 ATAAAAGTAAATTGC
*
18764692 ATAAAAGTAAATTGT
1 ATAAAAGTAAATTGC
**
18764707 ATGAAATTTAAATTGC
1 AT-AAAAGTAAATTGC
18764723 ATAAAAGATAAATTG
1 ATAAAAG-TAAATTG
18764738 TACGAACATG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
15 18 0.49
16 19 0.51
ACGTcount: A:0.52, C:0.03, G:0.11, T:0.33
Consensus pattern (15 bp):
ATAAAAGTAAATTGC
Found at i:18767612 original size:61 final size:58
Alignment explanation
Indices: 18767515--18767648 Score: 171
Period size: 61 Copynumber: 2.2 Consensus size: 58
18767505 TAAATAAAGA
* *
18767515 AAAATATTTAAAAAATATATTTTAAGGAAAAGTTGAAAGTATCAATTTT-TCTTGAAAAT
1 AAAAT-TTTAAAAAATATATTTTAAGAAAAAATTGAAAGTATCAATTTTCT-TTGAAAAT
* * *
18767574 AGAAAGTTTTTAAAAATATTTTTTTGAGAAAAAATTGAAAGTATCAATTTTCTTTGAAAAT
1 A-AAA-TTTTAAAAAATA-TATTTTAAGAAAAAATTGAAAGTATCAATTTTCTTTGAAAAT
18767635 AAAATTTTAAAAAA
1 AAAATTTTAAAAAA
18767649 AAAGCATTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
59 10 0.15
60 16 0.25
61 38 0.58
62 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (58 bp):
AAAATTTTAAAAAATATATTTTAAGAAAAAATTGAAAGTATCAATTTTCTTTGAAAAT
Found at i:18767650 original size:61 final size:61
Alignment explanation
Indices: 18767542--18767753 Score: 220
Period size: 62 Copynumber: 3.4 Consensus size: 61
18767532 TATTTTAAGG
* *
18767542 AAAAGTTGAAAGTATCAATTTT-TCTTGAAAATAGAAAGTTTT--TAAAAATATTTTTTTGAGA
1 AAAAGTTGAAAGTATCAATTTTCT-TTGAAAATA-AAA-TTTTAAAAAAAACATTTTTTTGAGA
* *
18767603 AAAAATTGAAAGTATCAATTTTCTTTGAAAATAAAATTTTAAAAAAAAAGCATTTTTTT-AGG
1 AAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAATTTT-AAAAAAAA-CATTTTTTTGAGA
* * * * *
18767665 AAAAGTT-AGAAGTAACGATTTTCCTTAAAAATAAAATTATCAAGAAAAAACATTTTTTTGA-A
1 AAAAGTTGA-AAGTATCAATTTTCTTTGAAAATAAAATT-TTAA-AAAAAACATTTTTTTGAGA
18767727 GAAAAGTTGAAAGTATCAATTTTCTTT
1 -AAAAGTTGAAAGTATCAATTTTCTTT
18767754 ATATAAAAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
59 4 0.03
60 3 0.02
61 31 0.25
62 50 0.40
63 37 0.29
64 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (61 bp):
AAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAATTTTAAAAAAAACATTTTTTTGAGA
Found at i:18771729 original size:16 final size:15
Alignment explanation
Indices: 18771710--18771766 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
18771700 TGAAGAAAAG
18771710 AAAGAAAAAAATGAAA
1 AAAGAAAAAAAT-AAA
*
18771726 AAAG-CAAAAAT-AA
1 AAAGAAAAAAATAAA
18771739 AAAGAATGAAAAATAAA
1 AAAGAA--AAAAATAAA
*
18771756 AAATAAAAAAA
1 AAAGAAAAAAA
18771767 ATGAGAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
13 6 0.18
15 11 0.32
16 10 0.29
17 7 0.21
ACGTcount: A:0.81, C:0.02, G:0.09, T:0.09
Consensus pattern (15 bp):
AAAGAAAAAAATAAA
Found at i:18771776 original size:24 final size:23
Alignment explanation
Indices: 18771714--18771777 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 23
18771704 GAAAAGAAAG
18771714 AAAAAAATGAAAAA-AGCAAAAATA
1 AAAAAAATGAAAAATA--AAAAATA
*
18771738 AAAAGAATGAAAAATAAAAAATA
1 AAAAAAATGAAAAATAAAAAATA
18771761 AAAAAAATGAGAAAATA
1 AAAAAAATGA-AAAATA
18771778 TAAATGAGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
23 16 0.44
24 19 0.53
25 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (23 bp):
AAAAAAATGAAAAATAAAAAATA
Found at i:18771782 original size:23 final size:22
Alignment explanation
Indices: 18771714--18771782 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
18771704 GAAAAGAAAG
*
18771714 AAAAAAATGAAAAAAGCAAAAATA
1 AAAAAAATG-AAAAA-TAAAAATA
*
18771738 AAAAGAATGAAAAATAAAAAATA
1 AAAAAAATGAAAAAT-AAAAATA
*
18771761 AAAAAAATGAGAAAATATAAAT
1 AAAAAAATGA-AAAATAAAAAT
18771783 GAGAGAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
23 26 0.67
24 13 0.33
ACGTcount: A:0.77, C:0.01, G:0.09, T:0.13
Consensus pattern (22 bp):
AAAAAAATGAAAAATAAAAATA
Found at i:18773679 original size:41 final size:42
Alignment explanation
Indices: 18773470--18773784 Score: 293
Period size: 41 Copynumber: 7.5 Consensus size: 42
18773460 GCTTGTCGAA
* * *
18773470 GAGCAATTTATTTTTTCAAAGTTGT-ATTACCTTTGTTTAAAT
1 GAGCAATTTATTTTTTCAAAGTTGTGA-TGCCTTTGTTTAGAG
*
18773512 GAGCAATTTATTTTTTTCAAAGTTGTGGTGCCTTTGTTTAGAG
1 GAGCAATTTA-TTTTTTCAAAGTTGTGATGCCTTTGTTTAGAG
* * * *
18773555 GAG-TATTTATTTTTTTCAAAATTGTGGTTGCCTTTATTTAGAG
1 GAGCAATTTA-TTTTTTCAAAGTTGT-GATGCCTTTGTTTAGAG
* * ** * * *
18773598 GAGTAATTTATTTTTTTAAAGTCATGATGCCTCTATTTAGAT
1 GAGCAATTTATTTTTTCAAAGTTGTGATGCCTTTGTTTAGAG
* *
18773640 GAGCAATTTA-TTTTCCAAAATTGTGATGCCTTTGTTTAGAG
1 GAGCAATTTATTTTTTCAAAGTTGTGATGCCTTTGTTTAGAG
* * ***
18773681 GAGCAATTTA-TTTTTCAAAGTTATGGTGCCTCAATTTAGAG
1 GAGCAATTTATTTTTTCAAAGTTGTGATGCCTTTGTTTAGAG
* * *
18773722 GAGCATTTTA-TTTTTCAAAGTTGT-AGTACCTATGTTTAGAG
1 GAGCAATTTATTTTTTCAAAGTTGTGA-TGCCTTTGTTTAGAG
*
18773763 AAGC-ATTTATTTTTCTCAAAGT
1 GAGCAATTTATTTTT-TCAAAGT
18773785 CGTTGAGCCT
Statistics
Matches: 225, Mismatches: 41, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
40 4 0.02
41 97 0.43
42 60 0.27
43 59 0.26
44 5 0.02
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (42 bp):
GAGCAATTTATTTTTTCAAAGTTGTGATGCCTTTGTTTAGAG
Found at i:18773732 original size:82 final size:83
Alignment explanation
Indices: 18773470--18773784 Score: 323
Period size: 82 Copynumber: 3.8 Consensus size: 83
18773460 GCTTGTCGAA
* * * * *
18773470 GAGCAATTTATTTTTTCAAAGTTGT-ATTACCTTTGTTTAAATGAGCAATTTATTTTTTTCAAAG
1 GAGCATTTTA-TTTTTCAAAATTGTGA-TGCCTTTGTTTAGAGGAGCAATTTA-TTTTTTCAAAG
* * *
18773534 TTGTGGTGCCTTTGTTTAGAG
63 TTATGGTGCCTCTATTTAGAG
* * * * * *
18773555 GAGTATTTATTTTTTTCAAAATTGTGGTTGCCTTTATTTAGAGGAGTAATTTATTTTTTTAAAGT
1 GAGCATTT-TATTTTTCAAAATTGT-GATGCCTTTGTTTAGAGGAGCAATTTATTTTTTCAAAGT
* * *
18773620 CATGATGCCTCTATTTAGAT
64 TATGGTGCCTCTATTTAGAG
* *
18773640 GAGCAATTTATTTTCCAAAATTGTGATGCCTTTGTTTAGAGGAGCAATTTA-TTTTTCAAAGTTA
1 GAGCATTTTATTTTTCAAAATTGTGATGCCTTTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTA
*
18773704 TGGTGCCTCAATTTAGAG
66 TGGTGCCTCTATTTAGAG
* * * *
18773722 GAGCATTTTATTTTTCAAAGTTGT-AGTACCTATGTTTAGAGAAGC-ATTTATTTTTCTCAAAGT
1 GAGCATTTTATTTTTCAAAATTGTGA-TGCCTTTGTTTAGAGGAGCAATTTATTTTT-TCAAAGT
18773785 CGTTGAGCCT
Statistics
Matches: 189, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
81 6 0.03
82 67 0.35
83 31 0.16
84 14 0.07
85 50 0.26
86 21 0.11
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (83 bp):
GAGCATTTTATTTTTCAAAATTGTGATGCCTTTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTA
TGGTGCCTCTATTTAGAG
Found at i:18775833 original size:60 final size:60
Alignment explanation
Indices: 18775768--18775993 Score: 253
Period size: 61 Copynumber: 3.7 Consensus size: 60
18775758 AAAATATTTC
* * *
18775768 AAAAAA-ATGTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAAGTT-TTA
1 AAAAAACATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAA-TTATAA
* * * * * *
18775828 AAAAAA-ATTTTTTGAGAAAAAATTAAAAGTATCAATTTTCCTTGAAAATAAAATTAAAA
1 AAAAAACATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTATAA
* *
18775887 AAAAAAGCATTTTTTGAGTAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAATTATCAA
1 AAAAAA-CATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTAT-AA
* *
18775949 GAAAAAATATTTTTTTTA-GAAAAGTTGAAAGTATCAATTTTTCTT
1 -AAAAAACA-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT
18775994 GTATAAAAGC
Statistics
Matches: 140, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
58 2 0.01
59 11 0.08
60 42 0.30
61 44 0.31
62 28 0.20
63 13 0.09
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (60 bp):
AAAAAACATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTATAA
Found at i:18776806 original size:369 final size:368
Alignment explanation
Indices: 18776123--18776806 Score: 890
Period size: 369 Copynumber: 1.9 Consensus size: 368
18776113 ATTTTGCTCA
* *
18776123 TTACTAACGAATTTTTAATACCGTCAGAATATATCATACTTATACCAACATTTTATTTAATCATT
1 TTACTAACGAATTTTTAATACCGTCAGAATATATCATACTTATACCAACACTTTATTTAATCATC
* ** * *
18776188 GGAATAAATAAATTTTTTTGATTGTATATGACTAGCTATCAGTATACATATGTTATATACTAACG
66 GGAATAAATAAATTTTTCTGACAGTATATGACTAGCCATCAGTATAAATATGTTATATACTAACG
* * * *
18776253 GTTATTAACTTAACCATCATTATAAGCTAAAAACAAAAAAACTATTTGCTTACAAAAAATTTGAA
131 GTTATTAACGTAACCATCAGTATAAGATAAAAACAAAAAAACTATTAGCTTACAAAAAATTTGAA
* * * *
18776318 AAGGATTATTGAAAGTATTTTTTGTCAAAAATGCCTTAAACAATCCAATCAAAAAATTTTGGAAA
196 AAGGATTATTGAAAGCATTTTTGGCCAAAAACGCCTTAAACAATCCAATCAAAAAATTTTGGAAA
* * ** *
18776383 GGGATTATTGAAGGCATTTTCGACCAAAAACGTCTTCAATAATCCATACAAAAAAATTTAATTAT
261 GAGAATATTGAAAACATTTTCGACCAAAAACGCCTTCAATAATCCATACAAAAAAATTTAATTAT
18776448 GGATTCTTTACTGATGGTCAAATTTTGTCAGTAAAAGAAATTT
326 GGATTCTTTACTGATGGTCAAATTTTGTCAGTAAAAGAAATTT
** * * **
18776491 TTACTAAC-AGATTTTTAATGTCGTCAGAATATA-CTGTACTTATACTAACACTTTATTTGGTCA
1 TTACTAACGA-ATTTTTAATACCGTCAGAATATATC-ATACTTATACCAACACTTTATTTAATCA
* * * *
18776554 TCGGTATAAATAAACTTTTTCTGACAGTATATGACTATCCGTCAGTATAAATATGTTATATACTG
64 TCGGAATAAATAAA-TTTTTCTGACAGTATATGACTAGCCATCAGTATAAATATGTTATATACTA
* * *
18776619 ACGGTTATTAACGTAACCGTCAGTATAGGATGAAAACAAAAAAAACTATTAG-TGTACAAAAAA-
128 ACGGTTATTAACGTAACCATCAGTATAAGATAAAAAC-AAAAAAACTATTAGCT-TACAAAAAAT
** * * * * *
18776682 TTGAATGGGATTATTGAAGGCATTTTTGGCCAAAAACGTCTTCAATAATCCATTCAAAAAATTTT
191 TTGAAAAGGATTATTGAAAGCATTTTTGGCCAAAAACGCCTTAAACAATCCAATCAAAAAATTTT
* * * * *
18776747 GGAGAGAGAATATTGAAAATATTTTCGATCAAAAATGCCTTCAATAATCCATGCAAAAAA
256 GGAAAGAGAATATTGAAAACATTTTCGACCAAAAACGCCTTCAATAATCCATACAAAAAA
18776807 TTTTGGAACG
Statistics
Matches: 266, Mismatches: 45, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
367 2 0.01
368 64 0.24
369 178 0.67
370 22 0.08
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (368 bp):
TTACTAACGAATTTTTAATACCGTCAGAATATATCATACTTATACCAACACTTTATTTAATCATC
GGAATAAATAAATTTTTCTGACAGTATATGACTAGCCATCAGTATAAATATGTTATATACTAACG
GTTATTAACGTAACCATCAGTATAAGATAAAAACAAAAAAACTATTAGCTTACAAAAAATTTGAA
AAGGATTATTGAAAGCATTTTTGGCCAAAAACGCCTTAAACAATCCAATCAAAAAATTTTGGAAA
GAGAATATTGAAAACATTTTCGACCAAAAACGCCTTCAATAATCCATACAAAAAAATTTAATTAT
GGATTCTTTACTGATGGTCAAATTTTGTCAGTAAAAGAAATTT
Found at i:18777215 original size:22 final size:22
Alignment explanation
Indices: 18777190--18777239 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
18777180 TATAGTAGTA
* *
18777190 TCTATATTCATATGAATATTTT
1 TCTATATTCATATAAATATATT
*
18777212 TCTATGTTCATATAAATATATT
1 TCTATATTCATATAAATATATT
*
18777234 TATATA
1 TCTATA
18777240 AATATTAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (22 bp):
TCTATATTCATATAAATATATT
Found at i:18780787 original size:64 final size:64
Alignment explanation
Indices: 18780707--18780934 Score: 325
Period size: 64 Copynumber: 3.6 Consensus size: 64
18780697 TTTTTTTATC
*
18780707 AAAAACGCTTTCAATAATCTCTTATAAAAATTTATTCA-GAGGATTATTGAAGGTGTATTTGGTG
1 AAAAACGCTTTCAATAATCTCTTATAAAAATTTATTGATG-GGATTATTGAAGGTGTATTTGGTG
* * *
18780771 AAAAGCGCTTTTAATAAT-TGTTTATAAAAATTTATTGATGGGATTATTGAAGGTGTATTTGGTG
1 AAAAACGCTTTCAATAATCT-CTTATAAAAATTTATTGATGGGATTATTGAAGGTGTATTTGGTG
* * **
18780835 AAAAATGCTTTCAATAATCTCTTATAAAAATTTATTGATGGGATTATTGAAGGTGTTTTTGGCC
1 AAAAACGCTTTCAATAATCTCTTATAAAAATTTATTGATGGGATTATTGAAGGTGTATTTGGTG
* * *
18780899 AAAAACACTTTCAATAATGTCTCATAAAAATTTATT
1 AAAAACGCTTTCAATAATCTCTTATAAAAATTTATT
18780935 TAGGTTATTG
Statistics
Matches: 146, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
63 1 0.01
64 143 0.98
65 2 0.01
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.39
Consensus pattern (64 bp):
AAAAACGCTTTCAATAATCTCTTATAAAAATTTATTGATGGGATTATTGAAGGTGTATTTGGTG
Found at i:18787149 original size:43 final size:43
Alignment explanation
Indices: 18787084--18787166 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
18787074 TACTAAAATG
18787084 TTTGTTTACAATTTTAGAAACTCATGAAACAACGTTTGAGCAA
1 TTTGTTTACAATTTTAGAAACTCATGAAACAACGTTTGAGCAA
* * *
18787127 TTTGTTTATAATTTTAGGAACTCATGAAACAATGTTTGAG
1 TTTGTTTACAATTTTAGAAACTCATGAAACAACGTTTGAG
18787167 AAAACTAGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.39
Consensus pattern (43 bp):
TTTGTTTACAATTTTAGAAACTCATGAAACAACGTTTGAGCAA
Found at i:18788919 original size:24 final size:24
Alignment explanation
Indices: 18788879--18788925 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
18788869 AAAACATATT
* *
18788879 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
18788902 ATATTAATAATTAAAAATATAATT
1 ATATT-ATAATTAAAAATATAATT
18788926 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:18789078 original size:55 final size:55
Alignment explanation
Indices: 18789016--18789138 Score: 140
Period size: 55 Copynumber: 2.2 Consensus size: 55
18789006 CAAAATATAA
* * *
18789016 TAAAAAAATTAATA-CATATAAGTTGATATTGACAATCTCAAACCGTTGGTAAAGG
1 TAAAAAAATTAA-AGCATATAAGTTGATACTGACAATCTCAAACCATCGGTAAAGG
* * * * * *
18789071 TAAAAAAATTAAAGCATATAATTTTATACTGATAGTCTCTAACCATCGGTATAGG
1 TAAAAAAATTAAAGCATATAAGTTGATACTGACAATCTCAAACCATCGGTAAAGG
*
18789126 TAAGAAAATTAAA
1 TAAAAAAATTAAA
18789139 AAATACAAGT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 1 0.02
55 56 0.98
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (55 bp):
TAAAAAAATTAAAGCATATAAGTTGATACTGACAATCTCAAACCATCGGTAAAGG
Found at i:18791011 original size:31 final size:29
Alignment explanation
Indices: 18790970--18791044 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 29
18790960 TAAAATTACC
* *
18790970 TATCATTTTAAAAAATAAGTAAAAATTTTTA
1 TATCA-TTTAAAAAATAAATAAAAA-CTTTA
*
18791001 TATCAGTTTAAGAAATTAAATAAAAACTTTA
1 TATCA-TTTAA-AAAATAAATAAAAACTTTA
18791032 TATCATATTAAAA
1 TATCAT-TTAAAA
18791045 TTTTGTAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
30 3 0.08
31 23 0.61
32 12 0.32
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (29 bp):
TATCATTTAAAAAATAAATAAAAACTTTA
Found at i:18793198 original size:31 final size:31
Alignment explanation
Indices: 18793153--18793211 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
18793143 ATCCCTACTC
18793153 TCTTTTTCTTTCCTC-TATTTCCGTTCCATT
1 TCTTTTTCTTTCCTCTTATTTCCGTTCCATT
* *
18793183 TCTTTCTTTTTTCCTCTTATTTTCGTTCC
1 TCTTT-TTCTTTCCTCTTATTTCCGTTCC
18793212 CCTTTTCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 5 0.20
31 9 0.36
32 11 0.44
ACGTcount: A:0.05, C:0.29, G:0.03, T:0.63
Consensus pattern (31 bp):
TCTTTTTCTTTCCTCTTATTTCCGTTCCATT
Found at i:18796268 original size:18 final size:17
Alignment explanation
Indices: 18796204--18796264 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
18796194 TTTTTGTTTT
*
18796204 TTTTTTTAAT-TTTGAA
1 TTTTTTTAATATTTTAA
* * *
18796220 TTTTACTTGAAAATTTTGA
1 TTTT--TTTAATATTTTAA
*
18796239 TTTTTTTTATATTTTAA
1 TTTTTTTAATATTTTAA
18796256 TTTTTTTAA
1 TTTTTTTAA
18796265 ATATATTTTT
Statistics
Matches: 33, Mismatches: 9, Indels: 5
0.70 0.19 0.11
Matches are distributed among these distances:
16 4 0.12
17 17 0.52
18 4 0.12
19 8 0.24
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTTTTTAATATTTTAA
Found at i:18798147 original size:22 final size:22
Alignment explanation
Indices: 18798104--18798148 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
18798094 CTTTTACAAG
* *
18798104 ATAATGCACTTGAGAGACCACA
1 ATAATGCACTTGAAAAACCACA
*
18798126 ATAATGCACTTGAAAAATCACA
1 ATAATGCACTTGAAAAACCACA
18798148 A
1 A
18798149 AACTCTTGTA
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:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (22 bp):
ATAATGCACTTGAAAAACCACA
Found at i:18799146 original size:27 final size:26
Alignment explanation
Indices: 18799111--18799165 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
18799101 TTGTTAACTT
18799111 ACCAATTTTCCAACCAGCCCTTTTAAA
1 ACCAATTTT-CAACCAGCCCTTTTAAA
* ** *
18799138 ACCAGTTTTCAATTAGCCTTTTTAAA
1 ACCAATTTTCAACCAGCCCTTTTAAA
18799164 AC
1 AC
18799166 TAGATTCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (26 bp):
ACCAATTTTCAACCAGCCCTTTTAAA
Found at i:18805158 original size:30 final size:30
Alignment explanation
Indices: 18805093--18805150 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
18805083 TATTACATCA
* * *
18805093 AAATAAATTTTTAATTTTTAATTTGTATCC
1 AAATAAATTATTAACTTTTAATTTATATCC
18805123 AAATAAATTATTAACTTTTAATTTATAT
1 AAATAAATTATTAACTTTTAATTTATAT
18805151 TTAAATAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (30 bp):
AAATAAATTATTAACTTTTAATTTATATCC
Found at i:18805655 original size:19 final size:20
Alignment explanation
Indices: 18805616--18805659 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
18805606 TTTAAAATTA
18805616 ATAAAATATTATTTTTAAAT
1 ATAAAATATTATTTTTAAAT
18805636 ATAAAATATTATTTTT-AAT
1 ATAAAATATTATTTTTAAAT
18805655 ATAAA
1 ATAAA
18805660 TATAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATAAAATATTATTTTTAAAT
Found at i:18805663 original size:6 final size:6
Alignment explanation
Indices: 18805652--18805700 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
18805642 TATTATTTTT
*
18805652 AATATA AATATA AAT-TA AATA-A ATATATA AATATA AA-ATT AA-ATA
1 AATATA AATATA AATATA AATATA A-ATATA AATATA AATATA AATATA
18805697 AATA
1 AATA
18805701 ATTAAAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 15 0.41
6 20 0.54
7 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:18805706 original size:24 final size:24
Alignment explanation
Indices: 18805651--18805706 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
18805641 ATATTATTTT
18805651 TAATATAAATATAAATTAAATAAA
1 TAATATAAATATAAATTAAATAAA
18805675 T-ATATAAATATAAAATTAAATAAA
1 TAATATAAATAT-AAATTAAATAAA
18805699 TAAT-TAAA
1 TAATATAAA
18805707 AAATAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.33
24 18 0.60
25 2 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (24 bp):
TAATATAAATATAAATTAAATAAA
Found at i:18805709 original size:20 final size:20
Alignment explanation
Indices: 18805671--18805710 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18805661 ATAAATTAAA
* *
18805671 TAAATATATAAATATAAAAT
1 TAAATAAATAAATAAAAAAT
*
18805691 TAAATAAATAATTAAAAAAT
1 TAAATAAATAAATAAAAAAT
18805711 AATTTTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATAAATAAATAAAAAAT
Found at i:18805712 original size:11 final size:12
Alignment explanation
Indices: 18805651--18805714 Score: 64
Period size: 12 Copynumber: 5.4 Consensus size: 12
18805641 ATATTATTTT
*
18805651 TAATATAAATATA
1 TAAT-TAAATAAA
18805664 -AATTAAATAAA
1 TAATTAAATAAA
18805675 T-ATATAAATATAA
1 TAAT-TAAATA-AA
18805688 -AATTAAATAAA
1 TAATTAAATAAA
18805699 TAATTAAA-AAA
1 TAATTAAATAAA
18805710 TAATT
1 TAATT
18805715 TTTTATATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
11 19 0.42
12 22 0.49
13 4 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TAATTAAATAAA
Found at i:18809246 original size:13 final size:13
Alignment explanation
Indices: 18809228--18809304 Score: 57
Period size: 13 Copynumber: 5.7 Consensus size: 13
18809218 TCAATCACAC
*
18809228 AATAAAAACAGAA
1 AATAAAAATAGAA
18809241 AATAAAAATATGAA
1 AATAAAAATA-GAA
* * *
18809255 AACACAAAGAAAAAA
1 AATA-AAA-ATAGAA
18809270 AAGTAAAAATAGAA
1 AA-TAAAAATAGAA
* *
18809284 GATAAAAA-ATAA
1 AATAAAAATAGAA
18809296 AATAAAAAT
1 AATAAAAAT
18809305 CAAAACAAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
12 10 0.20
13 15 0.31
14 11 0.22
15 10 0.20
16 3 0.06
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.13
Consensus pattern (13 bp):
AATAAAAATAGAA
Found at i:18809775 original size:18 final size:19
Alignment explanation
Indices: 18809732--18809774 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
18809722 CTGAATCTAA
18809732 AAAAAATCAAAATTAAAAT
1 AAAAAATCAAAATTAAAAT
* * *
18809751 AAAAAATCAAGATCAAATT
1 AAAAAATCAAAATTAAAAT
18809770 AAAAA
1 AAAAA
18809775 TTTTGAGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAAAATCAAAATTAAAAT
Found at i:18810485 original size:17 final size:17
Alignment explanation
Indices: 18810458--18810501 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
18810448 TTAAAGATTC
*
18810458 ACAAGATTTTCAAATTT
1 ACAAGAATTTCAAATTT
* **
18810475 ATAAGAATTTCAGGTTT
1 ACAAGAATTTCAAATTT
18810492 ACAAGAATTT
1 ACAAGAATTT
18810502 TTAGATTCGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (17 bp):
ACAAGAATTTCAAATTT
Done.