Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 100 of 211
Found at i:27827883 original size:23 final size:23
Alignment explanation
Indices: 27827857--27827928 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
27827847 ATTGTTATTA
27827857 ATTTTGAAAATTTTAAAATATAT
1 ATTTTGAAAATTTTAAAATATAT
** *
27827880 A-TTTGAACTTTTTTATAATATAT
1 ATTTTGAA-AATTTTAAAATATAT
*
27827903 ATTTTTAAAATTTT-AAATAT-T
1 ATTTTGAAAATTTTAAAATATAT
27827924 ATTTT
1 ATTTT
27827929 TAAATTATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
21 6 0.15
22 11 0.28
23 18 0.45
24 5 0.12
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (23 bp):
ATTTTGAAAATTTTAAAATATAT
Found at i:27827916 original size:25 final size:24
Alignment explanation
Indices: 27827867--27827945 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 24
27827857 ATTTTGAAAA
* * *
27827867 TTTTAAA-ATATATATTTGAACTT
1 TTTTAAATATATATTTTTAAAATT
27827890 TTTTATAATATATATTTTTAAAA--
1 TTTTA-AATATATATTTTTAAAATT
27827913 TTTTAAATAT-TATTTTTAAATTATT
1 TTTTAAATATATATTTTTAAA--ATT
27827938 TTTTAAAT
1 TTTTAAAT
27827946 TTTGAATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
21 10 0.21
22 5 0.11
23 11 0.23
24 2 0.04
25 19 0.40
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (24 bp):
TTTTAAATATATATTTTTAAAATT
Found at i:27827939 original size:32 final size:33
Alignment explanation
Indices: 27827901--27827970 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 33
27827891 TTTATAATAT
27827901 ATATTTTTAAAATTTTAAATATTAT-TTTTAAA
1 ATATTTTTAAAATTTTAAATATTATGTTTTAAA
* * *
27827933 TTATTTTTTAAATTTTGAATATTATGTTTTAAA
1 ATATTTTTAAAATTTTAAATATTATGTTTTAAA
27827966 ATATT
1 ATATT
27827971 AAATATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
32 22 0.67
33 11 0.33
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (33 bp):
ATATTTTTAAAATTTTAAATATTATGTTTTAAA
Found at i:27827967 original size:22 final size:21
Alignment explanation
Indices: 27827924--27828000 Score: 66
Period size: 22 Copynumber: 3.6 Consensus size: 21
27827914 TTTAAATATT
* *
27827924 ATTTTTAA-ATTATTTTTTAA
1 ATTTTAAATATTATTTTTAAA
*
27827944 ATTTTGAATATTATGTTTTAAA
1 ATTTTAAATATTAT-TTTTAAA
*
27827966 ATATTAAATATATATTTTTAATA
1 ATTTTAAATAT-TATTTTTAA-A
* *
27827989 ATATAAAATATT
1 ATTTTAAATATT
27828001 TAAATATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
20 7 0.15
21 5 0.10
22 22 0.46
23 14 0.29
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTAAA
Found at i:27827997 original size:23 final size:22
Alignment explanation
Indices: 27827950--27828000 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
27827940 TTAAATTTTG
*
27827950 AATATTATGTTTTAAAATATTA
1 AATATTATGTTTTAAAATATAA
27827972 AATATATAT-TTTTAATAATATAA
1 AATAT-TATGTTTTAA-AATATAA
27827995 AATATT
1 AATATT
27828001 TAAATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AATATTATGTTTTAAAATATAA
Found at i:27828068 original size:19 final size:21
Alignment explanation
Indices: 27828044--27828092 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
27828034 TTATTAGTTT
27828044 TTTAA-TATTTT-TAATATTA
1 TTTAATTATTTTATAATATTA
27828063 TTTAATTTATTTTATAATATT-
1 TTTAA-TTATTTTATAATATTA
*
27828084 TTAAATTAT
1 TTTAATTAT
27828093 GATTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 4 0.15
21 10 0.38
22 7 0.27
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTAATTATTTTATAATATTA
Found at i:27828086 original size:10 final size:9
Alignment explanation
Indices: 27828042--27828085 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 9
27828032 TATTATTAGT
27828042 TTTTTAATA
1 TTTTTAATA
27828051 TTTTTAATA
1 TTTTTAATA
27828060 TTATTTAATTTA
1 TT-TTTAA--TA
27828072 TTTTATAATA
1 TTTT-TAATA
27828082 TTTT
1 TTTT
27828086 AAATTATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 11 0.35
10 11 0.35
11 2 0.06
12 7 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTTAATA
Found at i:27828086 original size:20 final size:21
Alignment explanation
Indices: 27828049--27828092 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
27828039 AGTTTTTTAA
*
27828049 TATTTTTAATATTATTTAATT
1 TATTTTTAATATTATTTAAAT
27828070 TATTTTATAATA-T-TTTAAAT
1 TATTTT-TAATATTATTTAAAT
27828090 TAT
1 TAT
27828093 GATTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 7 0.33
22 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTTTAATATTATTTAAAT
Found at i:27828432 original size:16 final size:17
Alignment explanation
Indices: 27828394--27828435 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
27828384 AATATATTTG
*
27828394 TTAAAAA-AGATTTATT
1 TTAAAAATAAATTTATT
27828410 TTAAAAAATAAATTTA-T
1 TT-AAAAATAAATTTATT
27828427 TTAAAAATA
1 TTAAAAATA
27828436 TATATATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TTAAAAATAAATTTATT
Found at i:27828660 original size:9 final size:9
Alignment explanation
Indices: 27828646--27828677 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
27828636 CAAATTTTTA
27828646 AAAATAAAT
1 AAAATAAAT
27828655 AAAATAAAT
1 AAAATAAAT
27828664 AAAA-AAAT
1 AAAATAAAT
27828672 AAAATA
1 AAAATA
27828678 TGAAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAATAAAT
Found at i:27828684 original size:17 final size:17
Alignment explanation
Indices: 27828645--27828677 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27828635 TCAAATTTTT
27828645 AAAAATAAATAAAATAA
1 AAAAATAAATAAAATAA
27828662 ATAAAA-AAATAAAATA
1 A-AAAATAAATAAAATA
27828678 TGAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAATAAATAAAATAA
Found at i:27828719 original size:21 final size:21
Alignment explanation
Indices: 27828695--27828749 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
27828685 TATGAAACTT
* *
27828695 AAAAATTAAAAAAATTTAA-A
1 AAAAAATAAAAAAAGTTAATA
*
27828715 GAAAAAT-AAAAAAGTTAATA
1 AAAAAATAAAAAAAGTTAATA
27828735 AAAAAAGTAAAAAAA
1 AAAAAA-TAAAAAAA
27828750 AAAAAGTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 10 0.36
20 11 0.39
21 1 0.04
22 6 0.21
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (21 bp):
AAAAAATAAAAAAAGTTAATA
Found at i:27828738 original size:19 final size:19
Alignment explanation
Indices: 27828703--27828748 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
27828693 TTAAAAATTA
*
27828703 AAAAAATTTAAAGAAAAAT
1 AAAAAAGTTAAAGAAAAAT
*
27828722 AAAAAAGTTAATAAAAAAAGT
1 AAAAAAGTTAA-AGAAAAA-T
27828743 AAAAAA
1 AAAAAA
27828749 AAAAAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 6 0.26
21 7 0.30
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (19 bp):
AAAAAAGTTAAAGAAAAAT
Found at i:27828739 original size:14 final size:13
Alignment explanation
Indices: 27828712--27828760 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
27828702 AAAAAAATTT
27828712 AAAG-AAAAATAAA
1 AAAGTAAAAA-AAA
* *
27828725 AAAGTTAATAAAA
1 AAAGTAAAAAAAA
27828738 AAAGTAAAAAAAAA
1 AAAGT-AAAAAAAA
27828752 AAAGTAAAA
1 AAAGTAAAA
27828761 GAAGGGTGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 16 0.53
14 14 0.47
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AAAGTAAAAAAAA
Found at i:27829670 original size:7 final size:7
Alignment explanation
Indices: 27829658--27829682 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27829648 TGTTAGAGTT
27829658 TAAAGTA
1 TAAAGTA
27829665 TAAAGTA
1 TAAAGTA
27829672 TAAAGTA
1 TAAAGTA
27829679 TAAA
1 TAAA
27829683 TATTAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (7 bp):
TAAAGTA
Found at i:27836346 original size:7 final size:7
Alignment explanation
Indices: 27836330--27836411 Score: 75
Period size: 6 Copynumber: 12.0 Consensus size: 7
27836320 TTAATATCCA
*
27836330 AATAAGT
1 AATAAAT
27836337 AATAAAT
1 AATAAAT
27836344 AATAAA-
1 AATAAAT
27836350 AATAAAGT
1 AATAAA-T
27836358 AATAAAT
1 AATAAAT
27836365 AAAGTAAAT
1 -AA-TAAAT
27836374 AA-AAAT
1 AATAAAT
*
27836380 AATAAAA
1 AATAAAT
27836387 AAT-AAT
1 AATAAAT
*
27836393 AAAAAAT
1 AATAAAT
27836400 AA-AAAT
1 AATAAAT
27836406 AA-AAAT
1 AATAAAT
27836412 TGGGTTGCCT
Statistics
Matches: 65, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
6 26 0.40
7 24 0.37
8 10 0.15
9 5 0.08
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (7 bp):
AATAAAT
Found at i:27836355 original size:13 final size:13
Alignment explanation
Indices: 27836337--27836408 Score: 69
Period size: 13 Copynumber: 5.5 Consensus size: 13
27836327 CCAAATAAGT
27836337 AATAAATAATAAA
1 AATAAATAATAAA
27836350 AATAAAGTAAT--A
1 AATAAA-TAATAAA
27836362 AATAAAGTAAATAAA
1 AATAAA-T-AATAAA
*
27836377 AAT-AATAAAAAA
1 AATAAATAATAAA
*
27836389 TAATAAAAAATAAA
1 -AATAAATAATAAA
27836403 AATAAA
1 AATAAA
27836409 AATTGGGTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
12 14 0.28
13 19 0.38
14 13 0.26
15 4 0.08
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
AATAAATAATAAA
Found at i:27836359 original size:21 final size:19
Alignment explanation
Indices: 27836336--27836407 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 19
27836326 TCCAAATAAG
27836336 TAATAAATAATAAAAATAAA
1 TAATAAATAATAAAAA-AAA
27836356 GTAATAAATAAAGTAAATAAAAA
1 -TAATAAAT-AA-TAAA-AAAAA
*
27836379 TAATAAAAAATAATAAAAAA
1 TAATAAATAATAA-AAAAAA
27836399 TAA-AAATAA
1 TAATAAATAA
27836408 AAATTGGGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
19 5 0.11
20 11 0.24
21 11 0.24
22 9 0.20
23 7 0.16
24 2 0.04
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (19 bp):
TAATAAATAATAAAAAAAA
Found at i:27836389 original size:10 final size:10
Alignment explanation
Indices: 27836336--27836401 Score: 64
Period size: 10 Copynumber: 6.3 Consensus size: 10
27836326 TCCAAATAAG
*
27836336 TAATAAATAA
1 TAATAAAAAA
27836346 TAA-AAATAAA
1 TAATAAA-AAA
27836356 GTAATAAATAAA
1 -TAATAAA-AAA
27836368 GTAA-ATAAAAA
1 -TAATA-AAAAA
27836379 TAATAAAAAA
1 TAATAAAAAA
27836389 TAATAAAAAA
1 TAATAAAAAA
27836399 TAA
1 TAA
27836402 AAATAAAAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
9 3 0.06
10 26 0.52
11 8 0.16
12 13 0.26
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (10 bp):
TAATAAAAAA
Found at i:27842307 original size:32 final size:32
Alignment explanation
Indices: 27842266--27842338 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
27842256 CTAGCTAACA
*
27842266 ATCGCTTCTGTGGGATCGTCTTATGCTAGATC
1 ATCGCTTCTGTGGGATCATCTTATGCTAGATC
27842298 ATCGCTTCTGTGGGATCATCTTATGCTAGATC
1 ATCGCTTCTGTGGGATCATCTTATGCTAGATC
*
27842330 AACGCTTCT
1 ATCGCTTCT
27842339 CAATGGTGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (32 bp):
ATCGCTTCTGTGGGATCATCTTATGCTAGATC
Found at i:27845621 original size:21 final size:19
Alignment explanation
Indices: 27845593--27845632 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
27845583 AAAAAATAAA
*
27845593 AAATAATTTTTTATATTTTT
1 AAATAATTTTATA-ATTTTT
27845613 AAATAAATTTTATAATTTTT
1 AAAT-AATTTTATAATTTTT
27845633 TGAATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
AAATAATTTTATAATTTTT
Found at i:27846072 original size:17 final size:18
Alignment explanation
Indices: 27846031--27846073 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
27846021 AGTGCTAAAA
27846031 AAGAAAAACACTTTTGGC
1 AAGAAAAACACTTTTGGC
*
27846049 TCA-AAAAACACTTTTGG-
1 -AAGAAAAACACTTTTGGC
27846066 AAGAAAAA
1 AAGAAAAA
27846074 TTGTGCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 1 0.05
17 5 0.24
18 14 0.67
19 1 0.05
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (18 bp):
AAGAAAAACACTTTTGGC
Found at i:27846529 original size:13 final size:13
Alignment explanation
Indices: 27846513--27846575 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
27846503 TTTAAACCAA
*
27846513 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
27846526 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
*
27846539 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
*
27846552 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
27846565 ATTTTTCAAAA
1 ACTTTTCAAAA
27846576 ACATTGCTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 4 0.10
13 33 0.80
14 4 0.10
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:27848205 original size:25 final size:25
Alignment explanation
Indices: 27848099--27848205 Score: 108
Period size: 25 Copynumber: 4.3 Consensus size: 25
27848089 TATGCTCCTC
* * *
27848099 CGAGCTGTA-AACGGAAAGCTCCTC
1 CGAGCTGTATAACGGGAAGCTCATG
* ** *
27848123 CGAGCTGAATAATAGGAAGTTCATG
1 CGAGCTGTATAACGGGAAGCTCATG
* **
27848148 TGAGCTAAATAACGGGAAGCTCATG
1 CGAGCTGTATAACGGGAAGCTCATG
*
27848173 CGAGCTGTATAACGGGAAGCTCATA
1 CGAGCTGTATAACGGGAAGCTCATG
27848198 CGAGCTGT
1 CGAGCTGT
27848206 GGCGTGTCTG
Statistics
Matches: 66, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
24 8 0.12
25 58 0.88
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.21
Consensus pattern (25 bp):
CGAGCTGTATAACGGGAAGCTCATG
Found at i:27853390 original size:86 final size:86
Alignment explanation
Indices: 27853245--27853413 Score: 302
Period size: 86 Copynumber: 2.0 Consensus size: 86
27853235 ACATGTTTTA
* *
27853245 TATCGATGGTAGATGTTTCCTATAAAATGGAGATGATATGGAAAGATTTTTTGGAGTTAAGATAA
1 TATCGATGGTAGATGTTTCCTATAAAATGGAGATGATATGGAAAGATCTTTCGGAGTTAAGATAA
27853310 CCTTTGTGGAGAAAATTTACT
66 CCTTTGTGGAGAAAATTTACT
*
27853331 TATCGGTGGTAGATGTTTCCTATAAAATGGAGATGATATGGAAAGATCTTTCGGAGTTAAGATAA
1 TATCGATGGTAGATGTTTCCTATAAAATGGAGATGATATGGAAAGATCTTTCGGAGTTAAGATAA
*
27853396 CTTTTGTGGAGAAAATTT
66 CCTTTGTGGAGAAAATTT
27853414 TCATGTTGAG
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 79 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (86 bp):
TATCGATGGTAGATGTTTCCTATAAAATGGAGATGATATGGAAAGATCTTTCGGAGTTAAGATAA
CCTTTGTGGAGAAAATTTACT
Found at i:27860049 original size:29 final size:29
Alignment explanation
Indices: 27860002--27860077 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
27859992 AATGGTACAT
* * *
27860002 AGTACTTGATAAATATAACACCGGCATAG
1 AGTACTTGATAACTGTAACACCGGCATAA
* * *
27860031 AGT-GTCTGATAACTGTAACAGCGGTATAA
1 AGTACT-TGATAACTGTAACACCGGCATAA
27860060 AGTACTTGATAACTGTAA
1 AGTACTTGATAACTGTAA
27860078 TCACTGGCTC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
28 1 0.03
29 36 0.95
30 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (29 bp):
AGTACTTGATAACTGTAACACCGGCATAA
Found at i:27870804 original size:19 final size:19
Alignment explanation
Indices: 27870771--27870815 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
27870761 TGCATTCATT
* *
27870771 TTTCATTCATCAGCATTACA
1 TTTCA-TCATAAGCATTAAA
27870791 TTTCATCATAAGCATTAAA
1 TTTCATCATAAGCATTAAA
27870810 TTTCAT
1 TTTCAT
27870816 AAAAAATCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.42
Consensus pattern (19 bp):
TTTCATCATAAGCATTAAA
Found at i:27873135 original size:9 final size:9
Alignment explanation
Indices: 27873121--27873157 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
27873111 GAGGCTAAGG
27873121 AATTCTTGA
1 AATTCTTGA
*
27873130 AATTCTCGA
1 AATTCTTGA
27873139 AATTCTTGA
1 AATTCTTGA
27873148 AATTCTTGA
1 AATTCTTGA
27873157 A
1 A
27873158 GCATAGCGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (9 bp):
AATTCTTGA
Found at i:27878609 original size:44 final size:44
Alignment explanation
Indices: 27878540--27878788 Score: 238
Period size: 44 Copynumber: 5.7 Consensus size: 44
27878530 TTTAATATAG
* * * * *
27878540 CAAATCTTATCTCCCTGAAGATGCAGTGGAGAAAGA-TGAAGCTA
1 CAAATCCTATATCTCTGAAGTTGCAGTGGAG-CAGATTGAAGCTA
* * * *
27878584 CAAATCCTATATCTCTAAAGTTGCAGTGGATCGGATTAAAGCTA
1 CAAATCCTATATCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * *
27878628 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
1 CAAATCCTATATCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
*
27878672 CAAAT-CT-TATCTCCTTGAAGTTGCAGT-AATGCAGATTGAAGCTA
1 CAAATCCTATATCT-C-TGAAGTTGCAGTGGA-GCAGATTGAAGCTA
* * * * * *
27878716 CAAATCTTATCTCGCTAAAGTTGCAGTGGAGCAAATTGAAGCGA
1 CAAATCCTATATCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
*
27878760 CAAATCCTATA-CTTCTGAAGTTACAGTGG
1 CAAATCCTATATC-TCTGAAGTTGCAGTGG
27878789 GTCGGATTAA
Statistics
Matches: 165, Mismatches: 32, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
42 3 0.02
43 6 0.04
44 150 0.91
45 3 0.02
46 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
CAAATCCTATATCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
Found at i:27878668 original size:88 final size:88
Alignment explanation
Indices: 27878540--27878977 Score: 350
Period size: 88 Copynumber: 4.8 Consensus size: 88
27878530 TTTAATATAG
* * *
27878540 CAAATCTTATCTCCCTGAAGATGCAGTGGAGAAAGA-TGAAGCTACAAATCCTATATCTCTAAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGCTACAAATCCTATATCTCTGAAG
*
27878604 TTGCAGTGGATCGGATTAAAGCTA
65 TTGCAGTGGATCAGATTAAAGCTA
27878628 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT-CT-TATCTCCTTGAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCCTATATCT-C-TGAA
* *
27878691 GTTGCAGT-AATGCAGATTGAAGCTA
64 GTTGCAGTGGAT-CAGATTAAAGCTA
* * * *
27878716 CAAATCTTATCTCGCTAAAGTTGCAGTGGAGCAAATTGAAGCGACAAATCCTATA-CTTCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCCTATATC-TCTGAAG
* * * *
27878780 TTACAGTGGGTCGGATTAAATCTA
65 TTGCAGTGGATCAGATTAAAGCTA
* * * *
27878804 CCATAGCGAGTCTTATTTCCCTAAAGTTGCAGTGGAACAAATTAAAGCTACAAGCTACAAAT-CT
1 -CA-A---A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGCTACAAATCCT
* * * *
27878868 -TATCTCCTTGAAGTTGCAATAGAGCAGATTGAAGCTA
53 ATATCT-C-TGAAGTTGCAGTGGATCAGATTAAAGCTA
* ** * * * * * * *
27878905 CGAATCTTATCTCCCTGAAGTTGCAACGAAGTAGATTGAAACTACAATTCCTATACCCCTAAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCCTATATCTCTGAAGT
*
27878970 TGTAGTGG
66 TGCAGTGG
27878978 GTTAGAATGA
Statistics
Matches: 279, Mismatches: 45, Indels: 52
0.74 0.12 0.14
Matches are distributed among these distances:
86 5 0.02
87 8 0.03
88 150 0.54
89 10 0.04
90 7 0.03
92 1 0.00
93 1 0.00
94 30 0.11
95 25 0.09
96 1 0.00
97 1 0.00
99 4 0.01
100 5 0.02
101 31 0.11
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (88 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCCTATATCTCTGAAGT
TGCAGTGGATCAGATTAAAGCTA
Found at i:27878763 original size:132 final size:132
Alignment explanation
Indices: 27878540--27878788 Score: 315
Period size: 132 Copynumber: 1.9 Consensus size: 132
27878530 TTTAATATAG
* *
27878540 CAAATCTTATCTCCCTGAAGATGCAGTGGAGAAAGATGAAGCTACAAATCCTATATCTCTAAAGT
1 CAAATCTTATCTCCCTGAAGATGCAGTGAAGAAAGATGAAGCTACAAATCCTATATCGCTAAAGT
* ** * * *
27878605 TGCAGTGGATCGGATTAAAGCTACAAATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
66 TGCAGTGGAGCAAATTAAAGCGACAAATCCTATACT-CCTGAAGTTACAGTGGAGCAGATTGAAG
27878669 CTA
130 CTA
* * * * *
27878672 CAAATCTTATCTCCTTGAAGTTGCAGT-AATG-CAGATTGAAGCTACAAATCTTATCTCGCTAAA
1 CAAATCTTATCTCCCTGAAGATGCAGTGAA-GAAAGA-TGAAGCTACAAATCCTATATCGCTAAA
* *
27878735 GTTGCAGTGGAGCAAATTGAAGCGACAAATCCTATACTTCTGAAGTTACAGTGG
64 GTTGCAGTGGAGCAAATTAAAGCGACAAATCCTATACTCCTGAAGTTACAGTGG
27878789 GTCGGATTAA
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
131 4 0.04
132 93 0.94
133 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (132 bp):
CAAATCTTATCTCCCTGAAGATGCAGTGAAGAAAGATGAAGCTACAAATCCTATATCGCTAAAGT
TGCAGTGGAGCAAATTAAAGCGACAAATCCTATACTCCTGAAGTTACAGTGGAGCAGATTGAAGC
TA
Found at i:27878941 original size:44 final size:44
Alignment explanation
Indices: 27878855--27878951 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
27878845 TTAAAGCTAC
* *
27878855 AAGCTACAAATCTTATCTCCTTGAAGTTGCAATAGAGCAGATTG
1 AAGCTACAAATCTTATCTCCCTGAAGTTGCAAGAGAGCAGATTG
* *
27878899 AAGCTACGAATCTTATCTCCCTGAAGTTGCAACGA-AGTAGATTG
1 AAGCTACAAATCTTATCTCCCTGAAGTTGCAA-GAGAGCAGATTG
*
27878943 AAACTACAA
1 AAGCTACAA
27878952 TTCCTATACC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 45 0.98
45 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (44 bp):
AAGCTACAAATCTTATCTCCCTGAAGTTGCAAGAGAGCAGATTG
Found at i:27880900 original size:31 final size:31
Alignment explanation
Indices: 27880852--27880918 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
27880842 AATCGTGTTT
27880852 AAATATACTTATCTATTTTTGTACTACGCCC
1 AAATATACTTATCTATTTTTGTACTACGCCC
* * *
27880883 AAATGTACTTATTTATTTTTGTACTATGCCC
1 AAATATACTTATCTATTTTTGTACTACGCCC
27880914 AAATA
1 AAATA
27880919 AGTTAAATGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.43
Consensus pattern (31 bp):
AAATATACTTATCTATTTTTGTACTACGCCC
Found at i:27882443 original size:30 final size:31
Alignment explanation
Indices: 27882404--27882463 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
27882394 GGAGGTGGGA
*
27882404 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
27882435 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
27882464 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:27882689 original size:9 final size:9
Alignment explanation
Indices: 27882675--27882711 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
27882665 TATAGTTTGA
27882675 TATTCGAAT
1 TATTCGAAT
27882684 TATTCGAAT
1 TATTCGAAT
*
27882693 TATTCGAGT
1 TATTCGAAT
27882702 TATTCGAAT
1 TATTCGAAT
27882711 T
1 T
27882712 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:27895532 original size:266 final size:266
Alignment explanation
Indices: 27895019--27895548 Score: 704
Period size: 266 Copynumber: 2.0 Consensus size: 266
27895009 CTTAAAGGAT
* * * * * * * *
27895019 CTTTCCTGAAAGAAAGTATGTATTTATATTTTTAAAGAGGGAATTTGCCATAATAGTCTGTTAGT
1 CTTTCATGAAAGAAAGTATGCATTTATATTTCTAAAGAGGGAATCTGCCATAATAGCCTATCAAT
* * * * *
27895084 TTAGGATATTGGCTTATTCGAAGTTATGAAAAGTATAAGAGTTTATTGGTCTGAGTTGGTCTACG
66 ATAGGATATGGGCATATTCGAAGTTATGAAAAGTATAAGAGTTGATTGGTCTGAGTTGGTCTACA
* * *
27895149 CTATGTAAGGATAAAATCTGAGTTATCTGGCATTCACCATATCTGAATAGTTTTATGTCTAGTTC
131 CTATGTAAGGATAAAACCTGAGTTATCTGGCATCCACCATATCTGAATAGTTTCATGTCTAGTTC
* * * * * *
27895214 TGAAATTATCTAAAATTTGAGTCGTTTGTCAATTTAGGCGTTCTTTTGTTATGTAATATAGACGA
196 TGAAATTATCTAAAATCTAAGCCATTTGTCAATTTAGGCGTTATTGTGTTATGTAATATAGACGA
27895279 TTGGGC
261 TTGGGC
*
27895285 CTTTCATGAAAGAAAGTATGCATTTATATTTCTAAAGAGGGAATCTGCCATAGTAGCCTATCAAT
1 CTTTCATGAAAGAAAGTATGCATTTATATTTCTAAAGAGGGAATCTGCCATAATAGCCTATCAAT
*
27895350 ATAGGATATGGGCATATTTGAAGTTATGAAAAGTATAAGAGTTCGA-TGGTCTGAGTTGGTCTAC
66 ATAGGATATGGGCATATTCGAAGTTATGAAAAGTATAAGAGTT-GATTGGTCTGAGTTGGTCTAC
* * * *
27895414 ACTATGTAATGATGAAACCTGAGTTATCTGGCATCCGCCATATTTGAATAGTTTCATGTCTCA-T
130 ACTATGTAAGGATAAAACCTGAGTTATCTGGCATCCACCATATCTGAATAGTTTCATGTCT-AGT
* ** * * * *
27895478 TTTGAGGTTATCTAGAATCTAAGCCATTTGTTAATTTGGGTGTTATTGTGTTATGTAATATAGAC
194 TCTGAAATTATCTAAAATCTAAGCCATTTGTCAATTTAGGCGTTATTGTGTTATGTAATATAGAC
*
27895543 GCTTGG
259 GATTGG
27895549 AATTTTTCAA
Statistics
Matches: 226, Mismatches: 36, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
266 224 0.99
267 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (266 bp):
CTTTCATGAAAGAAAGTATGCATTTATATTTCTAAAGAGGGAATCTGCCATAATAGCCTATCAAT
ATAGGATATGGGCATATTCGAAGTTATGAAAAGTATAAGAGTTGATTGGTCTGAGTTGGTCTACA
CTATGTAAGGATAAAACCTGAGTTATCTGGCATCCACCATATCTGAATAGTTTCATGTCTAGTTC
TGAAATTATCTAAAATCTAAGCCATTTGTCAATTTAGGCGTTATTGTGTTATGTAATATAGACGA
TTGGGC
Found at i:27896911 original size:22 final size:22
Alignment explanation
Indices: 27896857--27896911 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
27896847 TGCCAGTAGT
*
27896857 CAGAATGGCTAAGAGCCGTAAA
1 CAGAATGGCTAAGAGCCATAAA
* * *
27896879 CAGGATAGCTATA-AGCTATAAA
1 CAGAATGGCTA-AGAGCCATAAA
27896901 CAGAATGGCTA
1 CAGAATGGCTA
27896912 CAAGTCATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (22 bp):
CAGAATGGCTAAGAGCCATAAA
Found at i:27896998 original size:32 final size:32
Alignment explanation
Indices: 27896927--27897117 Score: 229
Period size: 32 Copynumber: 6.0 Consensus size: 32
27896917 CATAAGTACA
* * * * *
27896927 GTAATATAATTGGCACAAAGCTATCAGTAGCA
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* * * *
27896959 GTGATATGATCGGCACACAGCCATCAATAATG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* **
27896991 GTAATATGATGGGCACAAAGCCATCAGTAATA
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* *
27897023 GTAATATAATCGGTACAAAGCCATCAGTAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
*
27897055 GTAATATGATCGGTACAAAGCCATCAGTAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* *
27897087 ATAATATGATCGGCACAAAGCCATTAGTAAC
1 GTAATATGATCGGCACAAAGCCATCAGTAAC
27897118 ATCGCAGCAA
Statistics
Matches: 136, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 136 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (32 bp):
GTAATATGATCGGCACAAAGCCATCAGTAACG
Found at i:27897092 original size:96 final size:96
Alignment explanation
Indices: 27896926--27897116 Score: 265
Period size: 96 Copynumber: 2.0 Consensus size: 96
27896916 TCATAAGTAC
* * * * * *
27896926 AGTAATATAATTGGCACAAAGCTATCAGTAGCAGTGATATGATCGGCACACAGCCATCAATAATG
1 AGTAATATAATCGGCACAAAGCCATCAGTAACAGTAATATGATCGGCACAAAGCCATCAATAACG
* *
27896991 GTAATATGATGGGCACAAAGCCATCAGTAAT
66 ATAATATGATCGGCACAAAGCCATCAGTAAT
* * * *
27897022 AGTAATATAATCGGTACAAAGCCATCAGTAACGGTAATATGATCGGTACAAAGCCATCAGTAACG
1 AGTAATATAATCGGCACAAAGCCATCAGTAACAGTAATATGATCGGCACAAAGCCATCAATAACG
*
27897087 ATAATATGATCGGCACAAAGCCATTAGTAA
66 ATAATATGATCGGCACAAAGCCATCAGTAA
27897117 CATCGCAGCA
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 82 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.23
Consensus pattern (96 bp):
AGTAATATAATCGGCACAAAGCCATCAGTAACAGTAATATGATCGGCACAAAGCCATCAATAACG
ATAATATGATCGGCACAAAGCCATCAGTAAT
Found at i:27897160 original size:26 final size:26
Alignment explanation
Indices: 27897118--27897171 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
27897108 CATTAGTAAC
**
27897118 ATCGCAGCAAATTTGCCAGCAACAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
* *
27897144 ATCGCAGCAAAGCTGCCAGTAATAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
27897170 AT
1 AT
27897172 ATGTGACCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGCAACAGT
Found at i:27897314 original size:24 final size:24
Alignment explanation
Indices: 27897287--27897339 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
27897277 TCATGCTCGG
27897287 AATCAGTCATACAAATCATAGACA
1 AATCAGTCATACAAATCATAGACA
** *
27897311 AATCAGTCATTTACATCATAGACA
1 AATCAGTCATACAAATCATAGACA
27897335 AATCA
1 AATCA
27897340 AACATTTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.25
Consensus pattern (24 bp):
AATCAGTCATACAAATCATAGACA
Found at i:27897345 original size:24 final size:24
Alignment explanation
Indices: 27897301--27897349 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
27897291 AGTCATACAA
**
27897301 ATCATAGACAAATCAGTCATTTAC
1 ATCATAGACAAATCAAACATTTAC
27897325 ATCATAGACAAATCAAACATTTAC
1 ATCATAGACAAATCAAACATTTAC
27897349 A
1 A
27897350 CTCGATGGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.20, G:0.06, T:0.27
Consensus pattern (24 bp):
ATCATAGACAAATCAAACATTTAC
Found at i:27897396 original size:26 final size:26
Alignment explanation
Indices: 27897367--27897432 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
27897357 GGCAAAATAG
* *
27897367 TCATTTATCCTCTAAGGGCATTACGA
1 TCATTTACCCTATAAGGGCATTACGA
* * *
27897393 TCATTTTACCCTATGAGGGTATTACGG
1 TCA-TTTACCCTATAAGGGCATTACGA
27897420 TCATTTTACCCTA
1 TCA-TTTACCCTA
27897433 CAGGGGTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 3 0.09
27 31 0.91
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (26 bp):
TCATTTACCCTATAAGGGCATTACGA
Found at i:27897439 original size:27 final size:27
Alignment explanation
Indices: 27897381--27897446 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
27897371 TTATCCTCTA
* * *
27897381 AGGGCATTACGATCATTTTACCCTATG
1 AGGGTATTACGGTCATTTTACCCTAAG
27897408 AGGGTATTACGGTCATTTTACCCTACAG
1 AGGGTATTACGGTCATTTTACCCTA-AG
27897436 -GGGTATTACGG
1 AGGGTATTACGG
27897447 ATGTAATACC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (27 bp):
AGGGTATTACGGTCATTTTACCCTAAG
Found at i:27898508 original size:3 final size:3
Alignment explanation
Indices: 27898502--27898557 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
27898492 TAATAAATTT
* * *
27898502 TTA TTA TTA TCA TTA TAA TTA TTA -TA TTA TTTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
*
27898547 CTA TTA TTA TT
1 TTA TTA TTA TT
27898558 TCTATATTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:27898607 original size:22 final size:22
Alignment explanation
Indices: 27898581--27898623 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
27898571 ACATACATGG
27898581 TTTTTATATAATATA-TATGCAT
1 TTTTTATAT-ATATAGTATGCAT
*
27898603 TTTTTTTATATATAGTATGCA
1 TTTTTATATATATAGTATGCA
27898624 CTAGACCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.56
Consensus pattern (22 bp):
TTTTTATATATATAGTATGCAT
Found at i:27898840 original size:23 final size:23
Alignment explanation
Indices: 27898804--27898847 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
27898794 GAAAAATATT
27898804 AAATATATA-TTTTTTATTTTTA
1 AAATATATATTTTTTTATTTTTA
27898826 AAATATAATATTTTTTTATTTT
1 AAATAT-ATATTTTTTTATTTT
27898848 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
AAATATATATTTTTTTATTTTTA
Found at i:27898958 original size:9 final size:9
Alignment explanation
Indices: 27898944--27898971 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
27898934 TTTTGTTACA
27898944 ACAATTAAT
1 ACAATTAAT
27898953 ACAATTAAT
1 ACAATTAAT
27898962 ACAATTAAT
1 ACAATTAAT
27898971 A
1 A
27898972 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:27898987 original size:68 final size:68
Alignment explanation
Indices: 27898914--27899123 Score: 388
Period size: 68 Copynumber: 3.1 Consensus size: 68
27898904 TCAAGTTTGT
*
27898914 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
27898979 AAA
66 AAA
27898982 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
27899047 AAA
66 AAA
27899050 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
27899113 AAT
66 AAA
27899116 TTTACTAA
1 TTTACTAA
27899124 CAATTAATTT
Statistics
Matches: 140, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
66 27 0.19
67 1 0.01
68 112 0.80
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:27899024 original size:9 final size:9
Alignment explanation
Indices: 27899012--27899039 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
27899002 TTTTATTACA
27899012 ACAATTAAT
1 ACAATTAAT
27899021 ACAATTAAT
1 ACAATTAAT
27899030 ACAATTAAT
1 ACAATTAAT
27899039 A
1 A
27899040 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:27899133 original size:16 final size:16
Alignment explanation
Indices: 27899112--27899153 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
27899102 AATAATTTGA
*
27899112 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
27899128 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
27899144 TAGTTTTAAT
1 TAATTTTAAT
27899154 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:27901780 original size:12 final size:12
Alignment explanation
Indices: 27901765--27901790 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27901755 AAAATTAAGC
27901765 AAAAAATGATGG
1 AAAAAATGATGG
27901777 AAAAAATGATGG
1 AAAAAATGATGG
27901789 AA
1 AA
27901791 CCTCAAGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (12 bp):
AAAAAATGATGG
Found at i:27905803 original size:44 final size:44
Alignment explanation
Indices: 27905755--27905897 Score: 137
Period size: 44 Copynumber: 3.2 Consensus size: 44
27905745 ATTACAGATA
*
27905755 TTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCC
1 TTGCCTCCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCC
** * * ** * * * *
27905799 TTGCCTCCCTG-AGTTG-TAGCGGAGCAGGTTAAAAATAGCAGATC
1 TTGCCTCCCTGCA-CCGATAGCGAAGCAGATCGAAGACACCAG-CC
* *
27905843 TTGCCTTCCTGCACCGATAGCGAAGTAGATCGAAGACACCAGCC
1 TTGCCTCCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCC
27905887 TTGCCTCCCTG
1 TTGCCTCCCTG
27905898 GGTTACAGCG
Statistics
Matches: 71, Mismatches: 24, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
43 19 0.27
44 34 0.48
45 18 0.25
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (44 bp):
TTGCCTCCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCC
Found at i:27905986 original size:88 final size:88
Alignment explanation
Indices: 27905657--27905963 Score: 463
Period size: 88 Copynumber: 3.5 Consensus size: 88
27905647 ATCAATGAAG
* * *
27905657 ATAGCAGATCTTGCCTTCCTGCACCGATAGCGAAGTAGATCGAATACACTAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
*
27905722 GGTTGTAGCAGAGCAGGTTAAAA
66 GGTTGTAGCGGAGCAGGTTAAAA
*
27905745 ATTA-CAGATATTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT
1 A-TAGCAGATCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT
*
27905809 GAGTTGTAGCGGAGCAGGTTAAAA
65 GGGTTGTAGCGGAGCAGGTTAAAA
*
27905833 ATAGCAGATCTTGCCTTCCTGCACCGATAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
**
27905898 GGTTACAGCGGAGCAGGTTAAAA
66 GGTTGTAGCGGAGCAGGTTAAAA
* * * * **
27905921 ATAGTAGATCTTACCTTCCTACACCGACAATGAAGCAGATCGA
1 ATAGCAGATCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGA
27905964 TGACCCTAGC
Statistics
Matches: 199, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
87 2 0.01
88 195 0.98
89 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
GGTTGTAGCGGAGCAGGTTAAAA
Found at i:27906004 original size:88 final size:88
Alignment explanation
Indices: 27905657--27906004 Score: 252
Period size: 88 Copynumber: 4.0 Consensus size: 88
27905647 ATCAATGAAG
* * * * * * * * *
27905657 ATAGCAGATCTTGCCTTCCTGCACCGATAGCGAAGTAGATCGAATACACTAGCCTTGCCTCCCTG
1 ATAGCAGATCTTACCTTCCTACACCGACAACGAAGCAGATCGAAGACACCAGCCCTACCTCCCTG
**** * *
27905722 GGTTGTAGCAGAGCAGGTTAAAA
66 GGACACAGCGGAACAGGTTAAAA
* * * * * * *
27905745 ATTA-CAGATATTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT
1 A-TAGCAGATCTTACCTTCCTACACCGACAACGAAGCAGATCGAAGACACCAGCCCTACCTCCCT
* **** *
27905809 GAGTTGTAGCGGAGCAGGTTAAAA
65 GGGACACAGCGGAACAGGTTAAAA
* * * * * * *
27905833 ATAGCAGATCTTGCCTTCCTGCACCGATAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTACCTTCCTACACCGACAACGAAGCAGATCGAAGACACCAGCCCTACCTCCCTG
** *
27905898 GGTTACAGCGGAGCAGGTTAAAA
66 GGACACAGCGGAACAGGTTAAAA
* * * *
27905921 ATAGTAGATCTTACCTTCCTACACCGACAATGAAGCAGATCGATGAC-CCTAGCCCTATCTCCCT
1 ATAGCAGATCTTACCTTCCTACACCGACAACGAAGCAGATCGAAGACACC-AGCCCTACCTCCCT
* *
27905985 -GGACAGCAGTGGAATAGGTT
65 GGGACA-CAGCGGAACAGGTT
27906005 GAAGATTGTA
Statistics
Matches: 229, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
87 7 0.03
88 220 0.96
89 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.22
Consensus pattern (88 bp):
ATAGCAGATCTTACCTTCCTACACCGACAACGAAGCAGATCGAAGACACCAGCCCTACCTCCCTG
GGACACAGCGGAACAGGTTAAAA
Found at i:27906040 original size:44 final size:44
Alignment explanation
Indices: 27905974--27906095 Score: 176
Period size: 44 Copynumber: 2.8 Consensus size: 44
27905964 TGACCCTAGC
* *
27905974 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGT-AAGT
1 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTGAA-T
27906018 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTGAAT
* *
27906062 CCTATCTCCCTGAGT-AATAGTGGAGTAGGTTGAA
1 CCTATCTCCCTG-GTCAGTAGTGGAATAGGTTGAA
27906096 AATAACAGAT
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
44 68 0.94
45 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:27906214 original size:50 final size:50
Alignment explanation
Indices: 27906160--27906261 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 50
27906150 CTTATCGTCT
** * *
27906160 TGACATTGCAATGGAAAAGATTGAAGCCACAACTGCGAATCTTATTTCCC
1 TGACATTGCAACAGAAAAGATTGAAGCCACAACGGCGAATCTTATCTCCC
* * ** *
27906210 TGACATTGTAGCAGAGCAGATTGAAGCCACGACGGCGAATCTTATCTCCC
1 TGACATTGCAACAGAAAAGATTGAAGCCACAACGGCGAATCTTATCTCCC
27906260 TG
1 TG
27906262 GTGTTAAGGC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.25
Consensus pattern (50 bp):
TGACATTGCAACAGAAAAGATTGAAGCCACAACGGCGAATCTTATCTCCC
Found at i:27906556 original size:44 final size:44
Alignment explanation
Indices: 27906461--27906787 Score: 114
Period size: 44 Copynumber: 7.5 Consensus size: 44
27906451 AGATGGCGAT
* * *
27906461 TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTAAAGCCAATAA
1 TCTTATCTCCCTGAAGTCGCAGTGGAGTAAATTAAAACCAAGAA
* * ** * * *
27906505 TCCTATCTCCCTGAAGTCGTAGTGGAGTGGATTAAAATCACGGA
1 TCTTATCTCCCTGAAGTCGCAGTGGAGTAAATTAAAACCAAGAA
* * * * * *** * *
27906549 TCTTATCTCTCTGAAGTTGCAG-AGAGCATA-TCGCATCTAG--
1 TCTTATCTCCCTGAAGTCGCAGTGGAGTAAATTAAAACCAAGAA
* * * * *
27906589 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG--
1 TCTTATCTCCCTGAAGTCGCAGTGGAGTAAATTAA--AACCAAGAA
* * * * * * ****
27906633 CCTTATC-CTCCTGAAGTTGTAGT-GAGGCAAACTGAAGATGGCGAA
1 TCTTATCTC-CCTGAAGTCGCAGTGGA-GTAAA-TTAAAACCAAGAA
* * * * *
27906678 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTAATAA
1 TCTTATCTCCCTGAAGTCGCAGTGGAGTAAATTAAAACCAAGAA
* * ** *
27906722 TCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAG-A
1 TCTTATCTCCCTGAAGTCGCAGTGGAGTAAATTAAAACCA-AGAA
* *
27906766 TCTTATCTCTCTGAAGTTGCAG
1 TCTTATCTCCCTGAAGTCGCAG
27906788 AGAGCATATC
Statistics
Matches: 210, Mismatches: 61, Indels: 24
0.71 0.21 0.08
Matches are distributed among these distances:
40 21 0.10
41 6 0.03
42 6 0.03
43 9 0.04
44 140 0.67
45 25 0.12
46 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTCGCAGTGGAGTAAATTAAAACCAAGAA
Found at i:27906821 original size:217 final size:218
Alignment explanation
Indices: 27906446--27906961 Score: 716
Period size: 217 Copynumber: 2.4 Consensus size: 218
27906436 AATTTAAAAT
* * *
27906446 ACTGAAGATGGCGATTCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTAAAGCCAATAATCCTAT
1 ACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCAAATAATCCTAT
* * *
27906511 CTCCCTGAAGTCGTAGTGGAGTGGATTAAAATCACGGATCTTATCTCTCTGAAGTTGCAGAGAGC
66 CTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGC
* * *
27906576 ATATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGTAAGCAAGCCTTATC
131 ATATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGCCTTATC
*
27906640 -CTCCTGAAGTTGTAGT-GAGGCAA
196 TC-CCTGAAGTTGCAGTGGA-GCAA
*
27906663 ACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTAATAATCCTAT
1 ACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCAAATAATCCTAT
27906728 CTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGC
66 CTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGC
* * * *
27906793 ATATCGCATCGGGTCTTATCTCCCTGAAGTTTCAGTGGAGCAGACCCAAGAAAGCGAGTCTTATC
131 ATATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGCCTTATC
*
27906858 TCCCTGAAGTTGCAGTGGAGCAG
196 TCCCTGAAGTTGCAGTGGAGCAA
* *** * * * * * ** *
27906881 ACTCAAGAAATC-AAGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTAAATAAAAAAATCCTA
1 ACTGAAGATGGCGAA-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCAAATAATCCTA
*
27906945 TCTCCCTAAAGTTGCAG
65 TCTCCCTGAAGTTGCAG
27906962 CAGATCAAGT
Statistics
Matches: 266, Mismatches: 29, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
217 167 0.63
218 96 0.36
219 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (218 bp):
ACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCAAATAATCCTAT
CTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGC
ATATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGCCTTATC
TCCCTGAAGTTGCAGTGGAGCAA
Found at i:27906928 original size:45 final size:45
Alignment explanation
Indices: 27906587--27906961 Score: 258
Period size: 45 Copynumber: 8.5 Consensus size: 45
27906577 TATCGCATCT
*
27906587 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
* * * * **
27906631 AGCCTTATC-CTCCTGAAGTTGTAGT-GAGGCAAACTGAAGATGGCGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTCAAGAAAGC-A
* * * * *
27906677 A-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTAA-TA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAG-AAAGCA
* ** * *
27906721 A-TCCTATCTCCCTGAAGTTGCAGTGGAGTGGA-T-TA-AAATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
* * * * * *
27906762 CAGATCTTATCTCTCTGAAGTTGCAG-AGAGCATA-TC--G-CATCG
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
* * * *
27906804 GGTCTTATCTCCCTGAAGTTTCAGTGGAGCAGACCCAAGAAAGCG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
*
27906849 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
* * * * * *
27906894 AGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTAAATAAA-AA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
* * *
27906938 AATCCTATCTCCCTAAAGTTGCAG
1 AGTCTTATCTCCCTGAAGTTGCAG
27906962 CAGATCAAGT
Statistics
Matches: 260, Mismatches: 53, Indels: 36
0.74 0.15 0.10
Matches are distributed among these distances:
40 22 0.08
41 8 0.03
42 6 0.02
43 9 0.03
44 99 0.38
45 111 0.43
46 5 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
Found at i:27908122 original size:18 final size:17
Alignment explanation
Indices: 27908091--27908124 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27908081 CTCATTTATT
*
27908091 GGTTTTTTTTTAAATTC
1 GGTTTTTTTATAAATTC
27908108 GGTTTTTTTAATAAATT
1 GGTTTTTTT-ATAAATT
27908125 GTTATTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.24, C:0.03, G:0.12, T:0.62
Consensus pattern (17 bp):
GGTTTTTTTATAAATTC
Found at i:27908132 original size:3 final size:3
Alignment explanation
Indices: 27908126--27908181 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
27908116 TAATAAATTG
* * * *
27908126 TTA TTA TTA TCA TTC TAA TTA TTA -TA TTA TTTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
*
27908171 CTA TTA TTA TT
1 TTA TTA TTA TT
27908182 TCTATATTCA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:27908235 original size:27 final size:27
Alignment explanation
Indices: 27908205--27908285 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
27908195 ACATACATGG
*
27908205 TTTTTATATAATATATATATGCA-TTT
1 TTTTTATATATTATATATATGCATTTT
* ** * *
27908231 TTTTTATATATTGTATGCACGCATTGT
1 TTTTTATATATTATATATATGCATTTT
27908258 TTTTTATATATTATATATATGCATTTT
1 TTTTTATATATTATATATATGCATTTT
27908285 T
1 T
27908286 AATAGTATAC
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 18 0.42
27 25 0.58
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.58
Consensus pattern (27 bp):
TTTTTATATATTATATATATGCATTTT
Found at i:27908294 original size:27 final size:26
Alignment explanation
Indices: 27908205--27908285 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 26
27908195 ACATACATGG
*
27908205 TTTTTATATAATATATATATGCATTT
1 TTTTTATATATTATATATATGCATTT
* ** *
27908231 TTTTTATATATTGTATGCACGCATTGT
1 TTTTTATATATTATATATATGCATT-T
27908258 TTTTTATATATTATATATATGCATTT
1 TTTTTATATATTATATATATGCATTT
27908284 TT
1 TT
27908286 AATAGTATAC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 23 0.51
27 22 0.49
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.58
Consensus pattern (26 bp):
TTTTTATATATTATATATATGCATTT
Found at i:27918543 original size:22 final size:22
Alignment explanation
Indices: 27918515--27918561 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
27918505 ACAAATCCTA
27918515 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
*
27918537 TCTCAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCCAAAATCC
27918559 TCT
1 TCT
27918562 TAAACTCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:27918593 original size:52 final size:52
Alignment explanation
Indices: 27918515--27918613 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
27918505 ACAAATCCTA
* *
27918515 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAATTCTCTTAAAC
1 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCATTCCAAAAATCTCTTAAAC
*
27918567 TCTCAATTTCCTTTCAAAATCCTCTCAATTTCATTCCAAAAATCTCT
1 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCATTCCAAAAATCTCT
27918614 CAAATCCATA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.39
Consensus pattern (52 bp):
TCTCAATTTCCTTCCAAAATCCTCTCAATTTCATTCCAAAAATCTCTTAAAC
Found at i:27918594 original size:22 final size:22
Alignment explanation
Indices: 27918566--27918616 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
27918556 TTCTCTTAAA
* *
27918566 CTCTCAATTTCCTTTC-AAAAT
1 CTCTCAATTTCATTCCAAAAAT
27918587 CCTCTCAATTTCATTCCAAAAAT
1 -CTCTCAATTTCATTCCAAAAAT
27918610 CTCTCAA
1 CTCTCAA
27918617 ATCCATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (22 bp):
CTCTCAATTTCATTCCAAAAAT
Found at i:27918686 original size:31 final size:30
Alignment explanation
Indices: 27918650--27918714 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
27918640 CCTCAATTTC
27918650 ATTTTTT-AAAATAATTTCAAATTTTTTTAT
1 ATTTTTTAAAAATAATTT-AAATTTTTTTAT
*
27918680 ATTTTTTAAAAATAATTTTAATTTTTTTAT
1 ATTTTTTAAAAATAATTTAAATTTTTTTAT
27918710 ATTTT
1 ATTTT
27918715 CATCAATGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 23 0.70
31 10 0.30
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (30 bp):
ATTTTTTAAAAATAATTTAAATTTTTTTAT
Found at i:27921526 original size:9 final size:9
Alignment explanation
Indices: 27921512--27921539 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
27921502 TTTTGTTACA
27921512 ACAATTAAT
1 ACAATTAAT
27921521 ACAATTAAT
1 ACAATTAAT
27921530 ACAATTAAT
1 ACAATTAAT
27921539 A
1 A
27921540 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:27921561 original size:68 final size:68
Alignment explanation
Indices: 27921482--27921691 Score: 388
Period size: 68 Copynumber: 3.1 Consensus size: 68
27921472 TCAAGTTTGT
*
27921482 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
27921547 AAA
66 AAA
27921550 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
27921615 AAA
66 AAA
27921618 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
27921681 AAT
66 AAA
27921684 TTTACTAA
1 TTTACTAA
27921692 CAATTAGTTT
Statistics
Matches: 140, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
66 27 0.19
67 1 0.01
68 112 0.80
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:27921592 original size:9 final size:9
Alignment explanation
Indices: 27921580--27921607 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
27921570 TTTTATTACA
27921580 ACAATTAAT
1 ACAATTAAT
27921589 ACAATTAAT
1 ACAATTAAT
27921598 ACAATTAAT
1 ACAATTAAT
27921607 A
1 A
27921608 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:27921705 original size:22 final size:23
Alignment explanation
Indices: 27921670--27921732 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
27921660 ATTAACAATT
*
27921670 AATAATTTGATAATTTTACT-AACA
1 AATAATTT--TAATTTTACTAAAAA
* * *
27921694 ATTAGTTTTAATTTTATTAAAAA
1 AATAATTTTAATTTTACTAAAAA
27921717 AATAATTTTAATTTTA
1 AATAATTTTAATTTTA
27921733 ATTAAAAACG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 9 0.28
23 17 0.53
24 6 0.19
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (23 bp):
AATAATTTTAATTTTACTAAAAA
Found at i:27924850 original size:19 final size:19
Alignment explanation
Indices: 27924826--27924870 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
27924816 GATGAGAAGG
*
27924826 GATATAGAACTTTCGATTA
1 GATATAGAACTTTCGAATA
*
27924845 GATATAAAACTTTCGAATA
1 GATATAGAACTTTCGAATA
27924864 G-TATAGA
1 GATATAGA
27924871 TAGTACAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (19 bp):
GATATAGAACTTTCGAATA
Found at i:27924965 original size:21 final size:21
Alignment explanation
Indices: 27924925--27924973 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
27924915 GTGACTTAAA
27924925 TAAAATT-TTTTAAATAA-TT
1 TAAAATTATTTTAAATAATTT
27924944 TAATAATTATTTTATAAT-ATTT
1 TAA-AATTATTTTA-AATAATTT
27924966 TAAAATTA
1 TAAAATTA
27924974 AAAAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.12
20 4 0.15
21 11 0.42
22 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAAAATTATTTTAAATAATTT
Found at i:27928394 original size:19 final size:19
Alignment explanation
Indices: 27928361--27928408 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
27928351 TAAACAATTC
27928361 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
27928378 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
27928397 AATAATATAAAT
1 AATAATATAAAT
27928409 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:27928923 original size:9 final size:9
Alignment explanation
Indices: 27928909--27928945 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
27928899 TATAGTTTGA
27928909 TATTCGAAT
1 TATTCGAAT
27928918 TATTCGAAT
1 TATTCGAAT
*
27928927 TATTCGAGT
1 TATTCGAAT
27928936 TATTCGAAT
1 TATTCGAAT
27928945 T
1 T
27928946 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:27929015 original size:9 final size:9
Alignment explanation
Indices: 27928998--27929028 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27928988 TCGAGTTGAT
27928998 TCGAATAAC
1 TCGAATAAC
*
27929007 TCGATTAAC
1 TCGAATAAC
27929016 TCGAATAAC
1 TCGAATAAC
27929025 TCGA
1 TCGA
27929029 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:27930433 original size:4 final size:4
Alignment explanation
Indices: 27930424--27930461 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
27930414 GAGAAGTTGT
*
27930424 TGTA TGTA TGTA TGTA TGTA TATA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
27930462 GTTGTGTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:27932135 original size:23 final size:23
Alignment explanation
Indices: 27932100--27932144 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
27932090 TGGAGTATAA
* *
27932100 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
27932123 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
27932145 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:27932890 original size:41 final size:42
Alignment explanation
Indices: 27932724--27932902 Score: 252
Period size: 42 Copynumber: 4.3 Consensus size: 42
27932714 CAGTGCCTAT
*
27932724 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACATCGAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACATCTAG
* * *
27932766 CAGGCTTAATGCTGGTGAAATAATTTCAGACTTTACATCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACATCTAG
* *
27932808 TAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACATCTAG
* * **
27932850 CAGGCTTAATGCCGGTGAAAC-ATTTCAGACTATATGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACATCTAG
*
27932891 CAGGCTAAATGC
1 CAGGCTTAATGC
27932903 TAGTGTACTG
Statistics
Matches: 123, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 28 0.23
42 95 0.77
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (42 bp):
CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACATCTAG
Found at i:27940219 original size:42 final size:42
Alignment explanation
Indices: 27940172--27940398 Score: 282
Period size: 42 Copynumber: 5.5 Consensus size: 42
27940162 CAGTGCCTAT
27940172 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* *
27940214 CAGGCTTAATGCCGGTGAAATAATTTCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
*
27940256 TAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * * *
27940298 CAGCCTTAATGCCGGTGAAAC-ATTTCAGACTATATGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * * * * *
27940339 CAGGCTAAATGCCAGTG-TACTGA-ATCAGGCTTTAAGTCTAG
1 CAGGCTTAATGCCGGTGAAAC-AATATCAGACTTTACGTCTAG
*
27940380 CAGGC-TAAGTGCCAGTGAA
1 CAGGCTTAA-TGCCGGTGAA
27940399 TCTGTTTAAA
Statistics
Matches: 161, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
40 4 0.02
41 58 0.36
42 99 0.61
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (42 bp):
CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
Found at i:27941663 original size:25 final size:25
Alignment explanation
Indices: 27941635--27941846 Score: 162
Period size: 25 Copynumber: 8.5 Consensus size: 25
27941625 TATAAGAAAT
27941635 GCCTTTGTGGCTAGTTATCTGTAAA
1 GCCTTTGTGGCTAGTTATCTGTAAA
* * * *
27941660 GCCTCTATGACAAGTTATCTGTAAA
1 GCCTTTGTGGCTAGTTATCTGTAAA
* * *
27941685 GCCTTTATGACATA-TTATCAT-AAAA
1 GCCTTTGTGGC-TAGTTATC-TGTAAA
* * *
27941710 GCCTTTATGACTAGTTATTTGTAAA
1 GCCTTTGTGGCTAGTTATCTGTAAA
* * * *
27941735 GCATTTGTGGCGAATTATCAT-AAAA
1 GCCTTTGTGGCTAGTTATC-TGTAAA
**
27941760 GATTTTGTGG-TGAGTTATCTGTAAA
1 GCCTTTGTGGCT-AGTTATCTGTAAA
*
27941785 GCCTTTGTGGCGAGTTATCTGTAAA
1 GCCTTTGTGGCTAGTTATCTGTAAA
* * * *
27941810 GCTTTTGTGGCGAATTATCTGAAAA
1 GCCTTTGTGGCTAGTTATCTGTAAA
*
27941835 GTCTTTGTGGCT
1 GCCTTTGTGGCT
27941847 TGTTGTATGG
Statistics
Matches: 149, Mismatches: 30, Indels: 16
0.76 0.15 0.08
Matches are distributed among these distances:
24 4 0.03
25 142 0.95
26 3 0.02
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (25 bp):
GCCTTTGTGGCTAGTTATCTGTAAA
Found at i:27941778 original size:75 final size:75
Alignment explanation
Indices: 27941706--27941844 Score: 192
Period size: 75 Copynumber: 1.9 Consensus size: 75
27941696 ATATTATCAT
* *
27941706 AAAAGCCTTTATGACTAGTTATTTGTAAAGCATTTGTGGCGAATTATCAT-AAAAGAT-TTTGTG
1 AAAAGCCTTTATGACGAGTTATCTGTAAAGCATTTGTGGCGAATTATC-TGAAAAG-TCTTTGTG
27941769 GTGAGTTATCTG
64 GTGAGTTATCTG
* * * *
27941781 TAAAGCCTTTGTGGCGAGTTATCTGTAAAGCTTTTGTGGCGAATTATCTGAAAAGTCTTTGTGG
1 AAAAGCCTTTATGACGAGTTATCTGTAAAGCATTTGTGGCGAATTATCTGAAAAGTCTTTGTGG
27941845 CTTGTTGTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
74 2 0.04
75 54 0.96
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (75 bp):
AAAAGCCTTTATGACGAGTTATCTGTAAAGCATTTGTGGCGAATTATCTGAAAAGTCTTTGTGGT
GAGTTATCTG
Found at i:27944293 original size:27 final size:28
Alignment explanation
Indices: 27944254--27944311 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
27944244 TCTTTTGGAA
** *
27944254 AACTCACTAGTTCGTTGAAGCACTGGCG
1 AACTCACTAGTTCGTCAAAACACTGGCG
27944282 AACTC-CTAGTTCGTCAAAACACTGGCG
1 AACTCACTAGTTCGTCAAAACACTGGCG
27944309 AAC
1 AAC
27944312 CCTTACTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (28 bp):
AACTCACTAGTTCGTCAAAACACTGGCG
Found at i:27944948 original size:29 final size:29
Alignment explanation
Indices: 27944915--27944973 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
27944905 CTTTAAAAGG
27944915 TAAAATTGGTTGAGACTCATTAAGTTCCA
1 TAAAATTGGTTGAGACTCATTAAGTTCCA
27944944 TAAAATTGGTTGAGACTCATTAAGTTCCA
1 TAAAATTGGTTGAGACTCATTAAGTTCCA
27944973 T
1 T
27944974 TGTACTTCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (29 bp):
TAAAATTGGTTGAGACTCATTAAGTTCCA
Found at i:27945526 original size:268 final size:266
Alignment explanation
Indices: 27944995--27945529 Score: 824
Period size: 268 Copynumber: 2.0 Consensus size: 266
27944985 GTGTTTATTT
* * * * * *
27944995 GTAATGTAGGTTCTTGAGTTGAACCAGTTCACCAGAAGGGACCAAGTCAGGAATGCGCAAGGGTG
1 GTAATGCAGCTTCTTGAGTTAAACCAGTTCACCAGAAGGGACCAAGCCAAGAATGCGCAAAGGTG
* *
27945060 GTTGATTATAGTGCGATGTTATGCATAAAGAGGGACAATTTGGGGAATATGTTTTCAAATGATGA
66 GTTGATCATAGTGCGATGTTATGCATAAAAAGGGACAATTTGGGGAATATGTTTTCAAATGATGA
* *
27945125 ATAGTATAATACGCCATGAATATACCTATCTTATTAAAGATTTAAGTTGTAATGCTTTATACTAC
131 ATAGTATAAGACGCCA--AATATACCTATCTTATCAAAGATTTAAGTTGTAATGCTTTATACTAC
* * *
27945190 TTTTAAGAGTCTGTTATAAATGATAAACGTTTCATTAAAATTTTTTGACTTAGAAAACATTTTAA
194 TTTTAAGAGTCTGTTATAAATGATAAACGTTTCATTAAAATCTTCTGACTCAGAAAACATTTTAA
27945255 ATAAATAA
259 ATAAATAA
27945263 GTAATGCAGCTTCTTGAGTTAAACCTA-TTCACCAGAAGGGACCAAGCCAAGAATGCGCAAAGGT
1 GTAATGCAGCTTCTTGAGTTAAACC-AGTTCACCAGAAGGGACCAAGCCAAGAATGCGCAAAGGT
*
27945327 GGTTGATCATAGTGCGATGTTATGCATAAAAAGGGACACTTTGGGGAATATGTTTTCAAATGATG
65 GGTTGATCATAGTGCGATGTTATGCATAAAAAGGGACAATTTGGGGAATATGTTTTCAAATGATG
* * * * *
27945392 AATAGTATAAGACG-C-AATATGCCTATTTTATCAAAGATTTAAGTTTTAATGCTTTATATTGCT
130 AATAGTATAAGACGCCAAATATACCTATCTTATCAAAGATTTAAGTTGTAATGCTTTATACTACT
* * *
27945455 TTTAAGAGTCTGTTATAAATGCTAAACGTTTCATTCAAATCTTCTGACTCAGAAAAGATTTTAAA
195 TTTAAGAGTCTGTTATAAATGATAAACGTTTCATTAAAATCTTCTGACTCAGAAAACATTTTAAA
27945520 TAAATAA
260 TAAATAA
27945527 GTA
1 GTA
27945530 CATCTTGTAT
Statistics
Matches: 244, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
264 111 0.45
267 1 0.00
268 131 0.54
269 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (266 bp):
GTAATGCAGCTTCTTGAGTTAAACCAGTTCACCAGAAGGGACCAAGCCAAGAATGCGCAAAGGTG
GTTGATCATAGTGCGATGTTATGCATAAAAAGGGACAATTTGGGGAATATGTTTTCAAATGATGA
ATAGTATAAGACGCCAAATATACCTATCTTATCAAAGATTTAAGTTGTAATGCTTTATACTACTT
TTAAGAGTCTGTTATAAATGATAAACGTTTCATTAAAATCTTCTGACTCAGAAAACATTTTAAAT
AAATAA
Found at i:27946117 original size:19 final size:18
Alignment explanation
Indices: 27946084--27946135 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
27946074 AAATTACAAA
*
27946084 AAAAATATTCA-AAAATT
1 AAAAATATTTATAAAATT
* *
27946101 CAAAATAATTTTTAAAATT
1 AAAAAT-ATTTATAAAATT
27946120 AAAAATATTTATAAAA
1 AAAAATATTTATAAAA
27946136 ATTTTCAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 5 0.18
18 12 0.43
19 11 0.39
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATATTTATAAAATT
Found at i:27946129 original size:18 final size:19
Alignment explanation
Indices: 27946095--27946135 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
27946085 AAAATATTCA
* *
27946095 AAAATTCAAAATAATTTTT
1 AAAATTAAAAATAATTTAT
27946114 AAAATTAAAAAT-ATTTAT
1 AAAATTAAAAATAATTTAT
27946132 AAAA
1 AAAA
27946136 ATTTTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTAAAAATAATTTAT
Found at i:27946195 original size:18 final size:18
Alignment explanation
Indices: 27946158--27946198 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
27946148 TATATTTTAC
*
27946158 AAAAATATAAAAATTCTA
1 AAAAATATAAAAAGTCTA
27946176 AAAAATATAAAAAAGT-TA
1 AAAAATAT-AAAAAGTCTA
27946194 AAAAA
1 AAAAA
27946199 AAGTTACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAAATATAAAAAGTCTA
Found at i:27947055 original size:11 final size:11
Alignment explanation
Indices: 27947041--27947100 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
27947031 AGATAAATAT
27947041 TATTTTATTAA
1 TATTTTATTAA
*
27947052 TATTTTAGTAA
1 TATTTTATTAA
* *
27947063 TATTTAATGAGA
1 TATTTTATTA-A
*
27947075 TATTTTATTAT
1 TATTTTATTAA
*
27947086 TA-TTTATTAT
1 TATTTTATTAA
27947096 TATTT
1 TATTT
27947101 ATTTAGTATA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 10 0.25
11 21 0.52
12 9 0.22
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:27947093 original size:10 final size:10
Alignment explanation
Indices: 27947078--27947103 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
27947068 AATGAGATAT
27947078 TTTATTATTA
1 TTTATTATTA
27947088 TTTATTATTA
1 TTTATTATTA
27947098 TTTATT
1 TTTATT
27947104 TAGTATATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTATTATTA
Found at i:27953344 original size:19 final size:20
Alignment explanation
Indices: 27953322--27953359 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
27953312 TATATATATT
*
27953322 TAATTTTTGAA-TATTTTTA
1 TAATTTTTAAAGTATTTTTA
27953341 TAATTTTTAAAGTATTTTT
1 TAATTTTTAAAGTATTTTT
27953360 TTGACATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TAATTTTTAAAGTATTTTTA
Found at i:27953731 original size:13 final size:14
Alignment explanation
Indices: 27953705--27953744 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
27953695 AGGGAAAATC
*
27953705 AAGAAACAAAAAAAA
1 AAGAAA-AAGAAAAA
27953720 AAG-AAAAGAAAAA
1 AAGAAAAAGAAAAA
27953733 AAGAAAAAGAAA
1 AAGAAAAAGAAA
27953745 TGACTTATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 10 0.43
14 10 0.43
15 3 0.13
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGAAAAA
Found at i:27953734 original size:19 final size:20
Alignment explanation
Indices: 27953705--27953744 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
27953695 AGGGAAAATC
27953705 AAGAAACAAAAAAAAAAGAA
1 AAGAAACAAAAAAAAAAGAA
*
27953725 AAGAAA-AAAAGAAAAAGAA
1 AAGAAACAAAAAAAAAAGAA
27953744 A
1 A
27953745 TGACTTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (20 bp):
AAGAAACAAAAAAAAAAGAA
Found at i:27954383 original size:22 final size:22
Alignment explanation
Indices: 27954354--27954406 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
27954344 TCAAAACTCA
27954354 AAGTATCAAAACTAGAGGGTTT
1 AAGTATCAAAACTAGAGGGTTT
*
27954376 GAGTATCAAAACTAGAGGGTTT
1 AAGTATCAAAACTAGAGGGTTT
*
27954398 AATTATCAA
1 AAGTATCAA
27954407 TACTTAGATC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (22 bp):
AAGTATCAAAACTAGAGGGTTT
Found at i:27957760 original size:43 final size:43
Alignment explanation
Indices: 27957667--27957753 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
27957657 TCAGAAAACA
27957667 AGATAAATATTTAAAAGAAAACAAGGTAAGTGACCAATGAAAT
1 AGATAAATATTTAAAAGAAAACAAGGTAAGTGACCAATGAAAT
27957710 AGATAAATATTTAAAAGAAAACAAGGTAAGTGACCAATGAAAT
1 AGATAAATATTTAAAAGAAAACAAGGTAAGTGACCAATGAAAT
27957753 A
1 A
27957754 AGTAAATTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.56, C:0.07, G:0.16, T:0.21
Consensus pattern (43 bp):
AGATAAATATTTAAAAGAAAACAAGGTAAGTGACCAATGAAAT
Found at i:27957928 original size:23 final size:24
Alignment explanation
Indices: 27957884--27957929 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
27957874 GATTGGTTAG
* **
27957884 AATATTTTAGTAATATTTTATTTT
1 AATATTTTAATAATATGATATTTT
27957908 AATATTTTAAT-ATATGATATTT
1 AATATTTTAATAATATGATATTT
27957930 GTATGGAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
AATATTTTAATAATATGATATTTT
Found at i:27958543 original size:34 final size:34
Alignment explanation
Indices: 27958505--27958575 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
27958495 ATAGTAATCA
*
27958505 AAAGTATAATTATTATATACCTCCAATTGAAAGT
1 AAAGTATAATTATTATATACATCCAATTGAAAGT
*
27958539 AAAGTATAATTGTTATATACATCCAATTGAAAGT
1 AAAGTATAATTATTATATACATCCAATTGAAAGT
27958573 AAA
1 AAA
27958576 TACAAAGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (34 bp):
AAAGTATAATTATTATATACATCCAATTGAAAGT
Found at i:27962988 original size:15 final size:17
Alignment explanation
Indices: 27962957--27962988 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
27962947 AACATATTCT
27962957 ATAATGTTTACATTATA
1 ATAATGTTTACATTATA
27962974 ATAA-GTTTA-ATTATA
1 ATAATGTTTACATTATA
27962989 GTTTTTGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (17 bp):
ATAATGTTTACATTATA
Found at i:27977242 original size:17 final size:17
Alignment explanation
Indices: 27977220--27977274 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
27977210 ATTGGGATAA
27977220 AAATAAATAATGAAAAT
1 AAATAAATAATGAAAAT
27977237 AAATAAATAA-GAAAAAT
1 AAATAAATAATG-AAAAT
* *
27977254 AAACAATAGAAT-AAAAT
1 AAATAA-ATAATGAAAAT
27977271 AAAT
1 AAAT
27977275 GAACCAATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 1 0.03
17 28 0.88
18 3 0.09
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (17 bp):
AAATAAATAATGAAAAT
Found at i:27977254 original size:30 final size:30
Alignment explanation
Indices: 27977218--27977274 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
27977208 TAATTGGGAT
*
27977218 AAAAATAAATAATGAAAAT-AAATAAATAAG
1 AAAAATAAACAAT-AAAATAAAATAAATAAG
*
27977248 AAAAATAAACAATAGAATAAAATAAAT
1 AAAAATAAACAATAAAATAAAATAAAT
27977275 GAACCAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (30 bp):
AAAAATAAACAATAAAATAAAATAAATAAG
Found at i:27980581 original size:13 final size:13
Alignment explanation
Indices: 27980563--27980620 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
27980553 TAGTTGGGAT
27980563 AAAAATAAATAAC
1 AAAAATAAATAAC
27980576 AAAAATAAAT-A-
1 AAAAATAAATAAC
* * *
27980587 AATAACAAA-AAT
1 AAAAATAAATAAC
*
27980599 AAATATAAATAAC
1 AAAAATAAATAAC
27980612 AAAAATAAA
1 AAAAATAAA
27980621 ACATGAAGGC
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
11 8 0.23
12 7 0.20
13 20 0.57
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAATAAATAAC
Found at i:27980583 original size:19 final size:19
Alignment explanation
Indices: 27980561--27980621 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
27980551 GATAGTTGGG
27980561 ATAAAAATAAATAACAAAA
1 ATAAAAATAAATAACAAAA
27980580 AT--AAATAAATAACAAAA
1 ATAAAAATAAATAACAAAA
*
27980597 ATAAATATAAATAACAAAA
1 ATAAAAATAAATAACAAAA
27980616 ATAAAA
1 ATAAAA
27980622 CATGAAGGCG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.45
19 21 0.55
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (19 bp):
ATAAAAATAAATAACAAAA
Found at i:27980587 original size:17 final size:17
Alignment explanation
Indices: 27980565--27980620 Score: 94
Period size: 17 Copynumber: 3.2 Consensus size: 17
27980555 GTTGGGATAA
27980565 AAATAAATAACAAAAAT
1 AAATAAATAACAAAAAT
27980582 AAATAAATAACAAAAAT
1 AAATAAATAACAAAAAT
27980599 AAATATAAATAACAAAAAT
1 -AA-ATAAATAACAAAAAT
27980618 AAA
1 AAA
27980621 ACATGAAGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
17 18 0.49
18 4 0.11
19 15 0.41
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (17 bp):
AAATAAATAACAAAAAT
Found at i:27982681 original size:30 final size:30
Alignment explanation
Indices: 27982647--27982705 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
27982637 GTGAACTCAG
*
27982647 GCCACTCGGCATCGCGACATGACTCACTAA
1 GCCACTCGACATCGCGACATGACTCACTAA
* **
27982677 GCCACTCGACGTCGCGATGTGACTCACTA
1 GCCACTCGACATCGCGACATGACTCACTA
27982706 TTTTGGTCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.36, G:0.22, T:0.19
Consensus pattern (30 bp):
GCCACTCGACATCGCGACATGACTCACTAA
Found at i:27984086 original size:46 final size:46
Alignment explanation
Indices: 27983915--27984588 Score: 460
Period size: 46 Copynumber: 14.8 Consensus size: 46
27983905 AAAGTGCTGC
* * * **
27983915 AAATTGAAATGTTTAAA-TGATGTAAATTGAAGTG-TTAAAGTGTTAC
1 AAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAA-TGTTGT
* * * **
27983961 CAATTGAAGTGTTTAAA-TGTTGCGAATTGAAGTG-TTAAAGTGTTAC
1 AAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAA-TGTTGT
* * ** *
27984007 AAATTGCAGTGTTTAAA-TGTTGTGAATTGAAGTGTTTAAATATTGT
1 AAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGT
* * * * ** * *
27984053 AAATTGAATTGTTTAAGTACTGCAAATTAAAGTGTTTAGTTGCTGG
1 AAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGT
* ** *** * *
27984099 AAATTG-AGATATTTTA-T-CATTTTAATTGAGGTGTATAAATGTTGT
1 AAATTGAAG-TGTTAAAGTGC-TGCAAATTGAAGTGTTTAAATGTTGT
* * * *
27984144 TAATTAAAATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGT
* * *
27984190 AAATTGAAGTGTTAAAGTGTTGCACATTGAAGTGTTTAAAGGTTGT
1 AAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGT
* * *
27984236 GAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGT
* *
27984282 AAATTAAAGTGTTAAAGTGTTGCAAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGT
* *
27984328 AAATTGAAGTGATAAAGTGCTGCAAGTTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGT
* * * * * ** * *
27984374 AAATTGAGGTGTTTTAAGTACTACAAATTGAATTGTTTAGTTGCTGA
1 AAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGT
** *
27984421 AAATTG-AGATGTTTTAGTG-T---AATTGAGGTGTTTAAATGTTGT
1 AAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGT
** * * * * * * * *
27984463 TTATTG-GGATGTTAAAGTGTTGTAAGTTGAGGTTTTTACATGCTGT
1 AAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGT
* * * * * * * *
27984509 AAATTGAAGTGTTTAATTACTACAAATTCAGGTGCTTAAATGATGT
1 AAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGT
* *
27984555 AAATTGAAGTGTTTAAGTGCTACAAATTG-AGTGT
1 AAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGT
27984589 ACAAATGAGT
Statistics
Matches: 494, Mismatches: 120, Indels: 29
0.77 0.19 0.05
Matches are distributed among these distances:
42 30 0.06
43 1 0.00
44 1 0.00
45 34 0.07
46 388 0.79
47 40 0.08
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.39
Consensus pattern (46 bp):
AAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGT
Found at i:27984177 original size:91 final size:91
Alignment explanation
Indices: 27984031--27984196 Score: 224
Period size: 91 Copynumber: 1.8 Consensus size: 91
27984021 AAATGTTGTG
* * * * **
27984031 AATTGAAGTGTTTAAATATTGTAAATTGAATTGTTTAAGTACTGCAAATTAAAGTGTTTAGTTGC
1 AATTGAAGTGTATAAATATTGTAAATTAAAATGTTAAAGTACTGCAAATTAAAGTGTTTAAATGC
27984096 TGGAAATTGAGATATTTTATCATTTT
66 TGGAAATTGAGATATTTTATCATTTT
* * * * *
27984122 AATTGAGGTGTATAAATGTTGTTAATTAAAATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGC
1 AATTGAAGTGTATAAATATTGTAAATTAAAATGTTAAAGTACTGCAAATTAAAGTGTTTAAATGC
*
27984187 TGTAAATTGA
66 TGGAAATTGA
27984197 AGTGTTAAAG
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
91 63 1.00
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (91 bp):
AATTGAAGTGTATAAATATTGTAAATTAAAATGTTAAAGTACTGCAAATTAAAGTGTTTAAATGC
TGGAAATTGAGATATTTTATCATTTT
Found at i:27984311 original size:252 final size:252
Alignment explanation
Indices: 27983851--27984320 Score: 728
Period size: 252 Copynumber: 1.9 Consensus size: 252
27983841 TGTTTCTGTC
* * * *
27983851 TGAGATGTTTTATCACTGTAAATGAGTTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCA
1 TGAGATATTTTATCACTGTAAATGAGGTGTATAAATGTTGTTAATTAAAATGTTAAAGTGCTGCA
*
27983916 AATTGAAATGTTTAAATGATGTAAATTGAAGTGTTAAAGTGTTACCAATTGAAGTGTTTAAATGT
66 AATTGAAATGTTTAAATGATGTAAATTGAAGTGTTAAAGTGTTACCAATTGAAGTGTTTAAAGGT
* * * * *
27983981 TGCGAATTGAAGTGTTAAAGTGTTACAAATTGCAGTGTTTAAATGTTGTGAATTGAAGTGTTTAA
131 TGCGAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTTAAATGCTGTAAATTAAAGTGTTTAA
* *
27984046 ATATTGTAAATTGAATTGTTTAAGTACTGCAAATTAAAGTGTTTAGTTGCTGGAAAT
196 ATATTGCAAATTGAAGTGTTTAAGTACTGCAAATTAAAGTGTTTAGTTGCTGGAAAT
* * *
27984103 TGAGATATTTTATCATTTTAATTGAGGTGTATAAATGTTGTTAATTAAAATGTTAAAGTGCTGCA
1 TGAGATATTTTATCACTGTAAATGAGGTGTATAAATGTTGTTAATTAAAATGTTAAAGTGCTGCA
* * *
27984168 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGTT-GCACATTGAAGTGTTTAAAGG
66 AATTGAAATGTTTAAATGATGTAAATTGAAGTGTTAAAGTGTTACCA-ATTGAAGTGTTTAAAGG
*
27984232 TTGTGAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTTAAATGCTGTAAATTAAAGTG-TTA
130 TTGCGAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTTAAATGCTGTAAATTAAAGTGTTTA
*
27984296 AAGTGTTGCAAATTGAAGTGTTTAA
195 AA-TATTGCAAATTGAAGTGTTTAA
27984321 ATGTTGTAAA
Statistics
Matches: 196, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
251 7 0.04
252 189 0.96
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (252 bp):
TGAGATATTTTATCACTGTAAATGAGGTGTATAAATGTTGTTAATTAAAATGTTAAAGTGCTGCA
AATTGAAATGTTTAAATGATGTAAATTGAAGTGTTAAAGTGTTACCAATTGAAGTGTTTAAAGGT
TGCGAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTTAAATGCTGTAAATTAAAGTGTTTAA
ATATTGCAAATTGAAGTGTTTAAGTACTGCAAATTAAAGTGTTTAGTTGCTGGAAAT
Found at i:27984387 original size:23 final size:23
Alignment explanation
Indices: 27983882--27984570 Score: 385
Period size: 23 Copynumber: 30.1 Consensus size: 23
27983872 ATGAGTTGTA
*
27983882 TAAATGTTGTTAATTG-AGATG-T
1 TAAATGTTGTAAATTGAAG-TGTT
* * *
27983904 TAAAGTGCTGCAAATTGAAATGTT
1 TAAA-TGTTGTAAATTGAAGTGTT
*
27983928 TAAATGATGTAAATTGAAGTG-T
1 TAAATGTTGTAAATTGAAGTGTT
***
27983950 TAAAGTGTTACCAATTGAAGTGTT
1 TAAA-TGTTGTAAATTGAAGTGTT
**
27983974 TAAATGTTGCGAATTGAAGTG-T
1 TAAATGTTGTAAATTGAAGTGTT
** *
27983996 TAAAGTGTTACAAATTGCAGTGTT
1 TAAA-TGTTGTAAATTGAAGTGTT
*
27984020 TAAATGTTGTGAATTGAAGTGTT
1 TAAATGTTGTAAATTGAAGTGTT
* *
27984043 TAAATATTGTAAATTGAATTGTT
1 TAAATGTTGTAAATTGAAGTGTT
* ** * *
27984066 TAAGTACTGCAAATTAAAGTGTT
1 TAAATGTTGTAAATTGAAGTGTT
** * * *
27984089 TAGTTGCTGGAAATTG-AGATATTT
1 TAAATGTTGTAAATTGAAG-T-GTT
* * *
27984113 TATCAT-TT-T-AATTGAGGTGTA
1 TA-AATGTTGTAAATTGAAGTGTT
* * *
27984134 TAAATGTTGTTAATTAAAATG-T
1 TAAATGTTGTAAATTGAAGTGTT
* *
27984156 TAAAGTGCTGCAAATTGAAGTGTT
1 TAAA-TGTTGTAAATTGAAGTGTT
*
27984180 TAAATGCTGTAAATTGAAGTG-T
1 TAAATGTTGTAAATTGAAGTGTT
* *
27984202 TAAAGTGTTGCACATTGAAGTGTT
1 TAAA-TGTTGTAAATTGAAGTGTT
* *
27984226 TAAAGGTTGTGAATTGAAGTG-T
1 TAAATGTTGTAAATTGAAGTGTT
* **
27984248 TAAAGTGCTACAAATTGAAGTGTT
1 TAAA-TGTTGTAAATTGAAGTGTT
* *
27984272 TAAATGCTGTAAATTAAAGTG-T
1 TAAATGTTGTAAATTGAAGTGTT
*
27984294 TAAAGTGTTGCAAATTGAAGTGTT
1 TAAA-TGTTGTAAATTGAAGTGTT
*
27984318 TAAATGTTGTAAATTGAAGTG-A
1 TAAATGTTGTAAATTGAAGTGTT
* * *
27984340 TAAAGTGCTGCAAGTTGAAGTGTT
1 TAAA-TGTTGTAAATTGAAGTGTT
*
27984364 TAAATGTTGTAAATTGAGGTGTT
1 TAAATGTTGTAAATTGAAGTGTT
* ** *
27984387 TTAA-GTACTACAAATTGAATTGTT
1 TAAATGT--TGTAAATTGAAGTGTT
** * *
27984411 TAGTTGCTGAAAATTG-AGATGTT
1 TAAATGTTGTAAATTGAAG-TGTT
* *
27984434 T-TA-G-TGT-AATTGAGGTGTT
1 TAAATGTTGTAAATTGAAGTGTT
** *
27984453 TAAATGTTGTTTATTG-GGATG-T
1 TAAATGTTGTAAATTGAAG-TGTT
* * *
27984475 TAAAGTGTTGTAAGTTGAGGTTTT
1 TAAA-TGTTGTAAATTGAAGTGTT
* *
27984499 TACATGCTGTAAATTGAAGTGTT
1 TAAATGTTGTAAATTGAAGTGTT
* ** ** * * *
27984522 TAATTACTACAAATTCAGGTGCT
1 TAAATGTTGTAAATTGAAGTGTT
*
27984545 TAAATGATGTAAATTGAAGTGTT
1 TAAATGTTGTAAATTGAAGTGTT
27984568 TAA
1 TAA
27984571 GTGCTACAAA
Statistics
Matches: 507, Mismatches: 123, Indels: 73
0.72 0.17 0.10
Matches are distributed among these distances:
19 10 0.02
20 6 0.01
21 7 0.01
22 59 0.12
23 359 0.71
24 64 0.13
25 2 0.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.39
Consensus pattern (23 bp):
TAAATGTTGTAAATTGAAGTGTT
Found at i:27984581 original size:23 final size:23
Alignment explanation
Indices: 27984509--27984588 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 23
27984499 TACATGCTGT
* *
27984509 AAATTGAAGTGTTTAATTACTAC
1 AAATTGAAGTGTTTAAATGCTAC
* * * * **
27984532 AAATTCAGGTGCTTAAATGATGT
1 AAATTGAAGTGTTTAAATGCTAC
*
27984555 AAATTGAAGTGTTTAAGTGCTAC
1 AAATTGAAGTGTTTAAATGCTAC
27984578 AAATTG-AGTGT
1 AAATTGAAGTGT
27984589 ACAAATGAGT
Statistics
Matches: 42, Mismatches: 15, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
22 5 0.12
23 37 0.88
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.36
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAATGCTAC
Found at i:27985159 original size:17 final size:17
Alignment explanation
Indices: 27985137--27985169 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27985127 TATCAGATTT
27985137 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
27985154 TGATACCTATATCTTT
1 TGATACCCATATCTTT
27985170 GACTTTCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.45
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:27991379 original size:45 final size:45
Alignment explanation
Indices: 27991323--27991666 Score: 263
Period size: 45 Copynumber: 7.6 Consensus size: 45
27991313 AGGAAATGAT
*
27991323 TAAGACCATAGTTGAAAGACACTATAGCACTATACCAGAAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAGAAATAAA
* * * *
27991368 TAAGACCATAGTTGAAAGACACTATAGCATTATACAAGAAAAAGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAGAAATA-AA
* *
27991414 TAAGACCATAGTTGAAAGACACTATGGCA-TCATACCAGAAATGAG
1 TAAGACCATAGTTGAAAGACACTATGGCACT-ATACCAGAAATAAA
* * * * * * *
27991459 TAAGACCATAGCTGAAAGACATTATGGCA-T-CACGATTCAAACAAG
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCA--GAAATAAA
* *** * ** ** *
27991504 TAAGACCATAGCTGAAAGATGTTATGGTATCACGAT-TTAGACGT--G
1 TAAGACCATAGTTGAAAGACACTATGG---CACTATACCAGAAATAAA
* *
27991549 TAAGACCATAGTTGAAAGACACTATGGCAAC-ATGACGAGAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGC-ACTAT-ACCAGAAATAAA
* * * *
27991595 TAAGACCATGGTTGAAATACACTATGGCAATATGA-CAGGAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTAT-ACCA-GAAATAAA
27991641 TAAGACCATAGTTGAAAGACACTATG
1 TAAGACCATAGTTGAAAGACACTATG
27991667 ACATTATGTC
Statistics
Matches: 243, Mismatches: 40, Indels: 31
0.77 0.13 0.10
Matches are distributed among these distances:
42 3 0.01
43 5 0.02
44 4 0.02
45 126 0.52
46 101 0.42
47 1 0.00
48 2 0.01
49 1 0.00
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCACTATACCAGAAATAAA
Found at i:27991690 original size:91 final size:91
Alignment explanation
Indices: 27991323--27991690 Score: 306
Period size: 91 Copynumber: 4.1 Consensus size: 91
27991313 AGGAAATGAT
* * *
27991323 TAAGACCATAGTTGAAAGACACTATAGCACT-ATACCAGAAATAAATAAGACCATAGTTGAAAGA
1 TAAGACCATAGTTGAAAGACACTATGGCAATCATACCAGAAATGAATAAGACCATAGTTGAAAGA
*
27991387 CACTAT-AGCATTAT-ACAAGAAAA-AGAA
66 CACTATGA-CATCATGAC--GAAAATA-AA
* *
27991414 TAAGACCATAGTTGAAAGACACTATGGC-ATCATACCAGAAATGAGTAAGACCATAGCTGAAAGA
1 TAAGACCATAGTTGAAAGACACTATGGCAATCATACCAGAAATGAATAAGACCATAGTTGAAAGA
* * * *** * *
27991478 CATTATGGCATCACGATTCAAACAAG
66 CACTATGACATCATGACGAAAATAAA
* *** * * ** **
27991504 TAAGACCATAGCTGAAAGATGTTATGG-TATCACGATTTAGACGTG--TAAGACCATAGTTGAAA
1 TAAGACCATAGTTGAAAGACACTATGGCAATCA-TA-CCAGAAATGAATAAGACCATAGTTGAAA
* * *
27991566 GACACTATGGCAACATGACGAGAAATGAA
64 GACACTATGACATCATGACGA-AAATAAA
* *
27991595 TAAGACCATGGTTGAAATACACTATGGCAAT-ATGA-CAGGAAATGAATAAGACCATAGTTGAAA
1 TAAGACCATAGTTGAAAGACACTATGGCAATCAT-ACCA-GAAATGAATAAGACCATAGTTGAAA
* *
27991658 GACACTATGACATTATGTCGAAAATAAA
64 GACACTATGACATCATGACGAAAATAAA
27991686 TAAGA
1 TAAGA
27991691 ATATGGATGG
Statistics
Matches: 216, Mismatches: 48, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
89 1 0.00
90 67 0.31
91 106 0.49
92 42 0.19
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (91 bp):
TAAGACCATAGTTGAAAGACACTATGGCAATCATACCAGAAATGAATAAGACCATAGTTGAAAGA
CACTATGACATCATGACGAAAATAAA
Found at i:27993369 original size:23 final size:23
Alignment explanation
Indices: 27993337--27993994 Score: 390
Period size: 23 Copynumber: 28.7 Consensus size: 23
27993327 ATGTTTTATC
*
27993337 GTTGT-AATTGAAGTGTATAAAT
1 GTTGTAAATTGAAGTGTTTAAAT
*
27993359 GTTGTTAATTG-AGATG-TTAAAGT
1 GTTGTAAATTGAAG-TGTTTAAA-T
* * *
27993382 GCTGCAAATTGAAATGTTTAAAT
1 GTTGTAAATTGAAGTGTTTAAAT
* *
27993405 GCTCTAAATTGAAGTG-TTAAAGT
1 GTTGTAAATTGAAGTGTTTAAA-T
**
27993428 GTTACAAATTGAAGTGTTTAAAT
1 GTTGTAAATTGAAGTGTTTAAAT
*
27993451 GTTGTGAATTGAAGTG-TTAAAGT
1 GTTGTAAATTGAAGTGTTTAAA-T
* * *
27993474 GCTGCAAATTGAAGTGTTTAAGT
1 GTTGTAAATTGAAGTGTTTAAAT
** ** * **
27993497 ACTACAAACTGAAGTGTTTAGTT
1 GTTGTAAATTGAAGTGTTTAAAT
** * *
27993520 GTTGGGAATT-AAGATGTTTTATT
1 GTTGTAAATTGAAG-TGTTTAAAT
* *
27993543 GTTGT-AATTGAGGTGTATAAAT
1 GTTGTAAATTGAAGTGTTTAAAT
* *
27993565 GTTGTTAATT-AA-TATGTTAAAGT
1 GTTGTAAATTGAAGTGT-TTAAA-T
* *
27993588 GCTGAAAATTGAAGTGTTTAAAT
1 GTTGTAAATTGAAGTGTTTAAAT
*
27993611 GTTGTGAATTGAAGTG-TTAAAGT
1 GTTGTAAATTGAAGTGTTTAAA-T
* *
27993634 GCTGCAAATTGAAGTGTTTAAAT
1 GTTGTAAATTGAAGTGTTTAAAT
* *
27993657 GTTGTAAATTGAACTGTTTTAA-
1 GTTGTAAATTGAAGTGTTTAAAT
* **
27993679 GTACTGCAAATTGAAGTGTTTAGTT
1 GT--TGTAAATTGAAGTGTTTAAAT
* * * *
27993704 ATTGGAAATTG-AGATGTTTTATT
1 GTTGTAAATTGAAG-TGTTTAAAT
* *
27993727 GTTGT-AATTGAGGTGTATAAAT
1 GTTGTAAATTGAAGTGTTTAAAT
*
27993749 GTTGTTAATT-AAGATG-TTAAA-
1 GTTGTAAATTGAAG-TGTTTAAAT
*
27993770 GTTCTTCAAATTGAAGTGTTTAAAT
1 GTT-GT-AAATTGAAGTGTTTAAAT
* *
27993795 GCTATAAATTGAAGTG-TTAAAGT
1 GTTGTAAATTGAAGTGTTTAAA-T
* *
27993818 GTTGCAAATTGAAGTGTTTAACT
1 GTTGTAAATTGAAGTGTTTAAAT
* *
27993841 GTTGTGAATTAAAGTG-TTAAAGT
1 GTTGTAAATTGAAGTGTTTAAA-T
* *
27993864 GCTGCAAATTGAAGTGTTT---T
1 GTTGTAAATTGAAGTGTTTAAAT
* * *
27993884 GTCGCTATAATTGAGGTGTATAAAT
1 GTTG-TA-AATTGAAGTGTTTAAAT
* *
27993909 GTTGTTAATTG-GGATG-TTAAAGT
1 GTTGTAAATTGAAG-TGTTTAAA-T
* *
27993932 GTTGTAAGTTGAGGTGTTTAAAT
1 GTTGTAAATTGAAGTGTTTAAAT
*
27993955 GTTGTAAATTGAAGTGTTTAATT
1 GTTGTAAATTGAAGTGTTTAAAT
* * *
27993978 ATTGAAAATTGAGGTGT
1 GTTGTAAATTGAAGTGT
27993995 ACAAATGAGT
Statistics
Matches: 491, Mismatches: 102, Indels: 85
0.72 0.15 0.13
Matches are distributed among these distances:
20 3 0.01
21 6 0.01
22 102 0.21
23 306 0.62
24 65 0.13
25 9 0.02
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (23 bp):
GTTGTAAATTGAAGTGTTTAAAT
Found at i:27993737 original size:184 final size:183
Alignment explanation
Indices: 27993410--27993882 Score: 673
Period size: 184 Copynumber: 2.6 Consensus size: 183
27993400 TAAATGCTCT
* **
27993410 AAATTGAAGTG-TTAAAGTGTTACAAATTGAAGTGTTTAAA-TGTTGTGAATTGAAGTG-TTAAA
1 AAATTGAAGTGTTTAAA-TGTTATAAATTGAAGTG-TTAAAGTGTTGCAAATTGAAGTGTTTAAA
* * * * * *
27993472 GTGCTGCAAATTGAAGTGTTTAAGTACTACAAACTGAAGTGTTTAGTTGTTGGGAATTAAGATGT
64 -TGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTATTGGAAATTAAGATGT
*
27993537 TTTATTGTTGTAATTGAGGTGTATAAATGTTGTTAATTAATATGTTAAAGTGCTGA
128 TTTATTGTTGTAATTGAGGTGTATAAATGTTGTTAATTAAGATGTTAAAGTGCTGA
* * *
27993593 AAATTGAAGTGTTTAAATGTTGTGAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG
1 AAATTGAAGTGTTTAAATGTTATAAATTGAAGTGTTAAAGTGTTGCAAATTGAAGTGTTTAAATG
* *
27993658 TTGTAAATTGAACTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTTATTGGAAATTGAGATGTTT
66 TTGTAAATTGAAGTG-TTTAAGTACTGCAAATTGAAGTGTTTAGTTATTGGAAATTAAGATGTTT
* **
27993723 TATTGTTGTAATTGAGGTGTATAAATGTTGTTAATTAAGATGTTAAAGTTCTTC
130 TATTGTTGTAATTGAGGTGTATAAATGTTGTTAATTAAGATGTTAAAGTGCTGA
* *
27993777 AAATTGAAGTGTTTAAATGCTATAAATTGAAGTGTTAAAGTGTTGCAAATTGAAGTGTTTAACTG
1 AAATTGAAGTGTTTAAATGTTATAAATTGAAGTGTTAAAGTGTTGCAAATTGAAGTGTTTAAATG
* * * *
27993842 TTGTGAATTAAAGTGTTAAAGTGCTGCAAATTGAAGTGTTT
66 TTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTT
27993883 TGTCGCTATA
Statistics
Matches: 258, Mismatches: 28, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
182 5 0.02
183 77 0.30
184 176 0.68
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (183 bp):
AAATTGAAGTGTTTAAATGTTATAAATTGAAGTGTTAAAGTGTTGCAAATTGAAGTGTTTAAATG
TTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTATTGGAAATTAAGATGTTTT
ATTGTTGTAATTGAGGTGTATAAATGTTGTTAATTAAGATGTTAAAGTGCTGA
Found at i:27999070 original size:20 final size:20
Alignment explanation
Indices: 27999034--27999076 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
27999024 TAATAAGACA
*
27999034 TTATGGACTATTTAATTGGT
1 TTATGGACTATTGAATTGGT
*
27999054 TTATGGGACT-TTGAATTGTT
1 TTAT-GGACTATTGAATTGGT
27999074 TTA
1 TTA
27999077 GAATGTCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.23, C:0.05, G:0.21, T:0.51
Consensus pattern (20 bp):
TTATGGACTATTGAATTGGT
Found at i:28006950 original size:15 final size:15
Alignment explanation
Indices: 28006917--28006947 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
28006907 GTCCCTTGTA
28006917 GATTTGGTTAAAATG
1 GATTTGGTTAAAATG
28006932 GATTTAGGTTAAAATG
1 GATTT-GGTTAAAATG
28006948 ATTAATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (15 bp):
GATTTGGTTAAAATG
Found at i:28010364 original size:29 final size:29
Alignment explanation
Indices: 28010313--28010378 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
28010303 TTTGGCCCTT
* * * *
28010313 AAATTTTTTGAAATTATATTTTA-CCTCA
1 AAATTTTTCGAAATTACACTTTAGCCCCA
28010341 AAATTTTCTCGAAATTACACTTTAGCCCCA
1 AAATTTT-TCGAAATTACACTTTAGCCCCA
*
28010371 AAAGTTTT
1 AAATTTTT
28010379 ACTGTGTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 7 0.23
29 14 0.45
30 10 0.32
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (29 bp):
AAATTTTTCGAAATTACACTTTAGCCCCA
Found at i:28010639 original size:20 final size:19
Alignment explanation
Indices: 28010608--28010651 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
28010598 GCAAAAAGAA
28010608 AGAGGAAAAAGAG-AGAATG
1 AGAGGAAAAAGAGAAG-ATG
28010627 AGAGGAGAAAAGAGAAGATG
1 AGAGGA-AAAAGAGAAGATG
28010647 AGAGG
1 AGAGG
28010652 GAGGAGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.26
20 15 0.65
21 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.41, T:0.05
Consensus pattern (19 bp):
AGAGGAAAAAGAGAAGATG
Found at i:28010752 original size:13 final size:13
Alignment explanation
Indices: 28010734--28010758 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28010724 CCTAGGGCTT
28010734 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
28010747 GAAGAAGAAGAA
1 GAAGAAGAAGAA
28010759 AAAATAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAG
Done.