Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 37 of 50
Found at i:16240470 original size:19 final size:20
Alignment explanation
Indices: 16240448--16240502 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 20
16240438 AGATCAATTG
*
16240448 GAAGAAAGGAGAAAG-GAAA
1 GAAGAAAGGAGAAAGAAAAA
16240467 GAAGAAAGGAGAAAGAAAAA
1 GAAGAAAGGAGAAAGAAAAA
16240487 GAGAGAAAGGAAGAAA
1 GA-AGAAAGG-AGAAA
16240503 AAGCTTGGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 15 0.47
20 5 0.16
21 7 0.22
22 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (20 bp):
GAAGAAAGGAGAAAGAAAAA
Found at i:16240490 original size:12 final size:13
Alignment explanation
Indices: 16240450--16240502 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
16240440 ATCAATTGGA
*
16240450 AGAAAGGAGAAAG
1 AGAAAGAAGAAAG
16240463 -GAAAGAAGAAAGG
1 AGAAAGAAGAAA-G
*
16240476 AGAAAGAAAAAGAG
1 AGAAAGAAGAA-AG
16240490 AGAAAGGAAGAAA
1 AGAAA-GAAGAAA
16240503 AAGCTTGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 10 0.30
13 1 0.03
14 16 0.48
15 6 0.18
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (13 bp):
AGAAAGAAGAAAG
Found at i:16243893 original size:2 final size:2
Alignment explanation
Indices: 16243886--16243926 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
16243876 TATGTTTATG
16243886 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16243927 GTTGTGCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16244029 original size:42 final size:42
Alignment explanation
Indices: 16243979--16244102 Score: 133
Period size: 42 Copynumber: 3.0 Consensus size: 42
16243969 GCTATGTATG
* * *
16243979 AGTAGGAGTGTTCATATGTCGATGATGACCCAACTATGTGCA
1 AGTAGGAGTGTACATAAGCCGATGATGACCCAACTATGTGCA
* ** *
16244021 AGTGGGAGTGTACATAAGCCGATGATGACCCGGCTATGTGCG
1 AGTAGGAGTGTACATAAGCCGATGATGACCCAACTATGTGCA
* * * * *
16244063 AGTAGGAGTGTGCATAATCCG-TGCTGACCCAGCCATGTGC
1 AGTAGGAGTGTACATAAGCCGATGATGACCCAACTATGTGC
16244103 TAGTGGGAAG
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
41 16 0.23
42 53 0.77
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (42 bp):
AGTAGGAGTGTACATAAGCCGATGATGACCCAACTATGTGCA
Found at i:16244943 original size:61 final size:61
Alignment explanation
Indices: 16244848--16244970 Score: 228
Period size: 61 Copynumber: 2.0 Consensus size: 61
16244838 CATGGGTTTG
16244848 TGAAACACTATAAGGGCATTAATCAAGGTTTGAAATGAAGGGTTTTTAGTAAGAAATTAAA
1 TGAAACACTATAAGGGCATTAATCAAGGTTTGAAATGAAGGGTTTTTAGTAAGAAATTAAA
* *
16244909 TGAAACACTATGAGGGCATTAATCAAGGTTTGAAATGAGGGGTTTTTAGTAAGAAATTAAA
1 TGAAACACTATAAGGGCATTAATCAAGGTTTGAAATGAAGGGTTTTTAGTAAGAAATTAAA
16244970 T
1 T
16244971 CAAGTGCATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.30
Consensus pattern (61 bp):
TGAAACACTATAAGGGCATTAATCAAGGTTTGAAATGAAGGGTTTTTAGTAAGAAATTAAA
Found at i:16254243 original size:54 final size:53
Alignment explanation
Indices: 16254145--16254265 Score: 161
Period size: 54 Copynumber: 2.3 Consensus size: 53
16254135 CTAGTGCAAA
* * *
16254145 GGTTATCGCTTAATTTCATTAAAAAGTAAGAACCCCTTTGTGGATTATGTAAG
1 GGTTATCGCTTGATCTCATTAAAAAGTAAGAACCCCTTTATGGATTATGTAAG
* * * *
16254198 GGTTATCGCTTGATCTCGTTAAAAAAGTGAGAATCCCTTTATGGATTGTGTAAG
1 GGTTATCGCTTGATCTCATT-AAAAAGTAAGAACCCCTTTATGGATTATGTAAG
*
16254252 GGTTATCACTTGAT
1 GGTTATCGCTTGAT
16254266 AAAAAAGCCA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 17 0.29
54 42 0.71
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.36
Consensus pattern (53 bp):
GGTTATCGCTTGATCTCATTAAAAAGTAAGAACCCCTTTATGGATTATGTAAG
Found at i:16257091 original size:73 final size:73
Alignment explanation
Indices: 16256943--16257092 Score: 167
Period size: 73 Copynumber: 2.1 Consensus size: 73
16256933 TGTATAATTT
* * * * * ***
16256943 CCCACTTCTTGTGATGTTAGTGTGGATAATATTTGCCCACCTCTTAAAATGGATACTATTGGATG
1 CCCACTTCTTATGATGTGAGTATGAATAATAATTGCCCACCTCTTAAAATGGATACTAGCAGATG
16257008 ATTGATTG
66 ATTGATTG
* * * * *
16257016 CCCACTTCTTATGATGTGAGTATGAATCATAATTGCCTACCTTTTAAAATGGATATTAGCAGTTG
1 CCCACTTCTTATGATGTGAGTATGAATAATAATTGCCCACCTCTTAAAATGGATACTAGCAGATG
16257081 TATTGA-TG
66 -ATTGATTG
16257089 CCCA
1 CCCA
16257093 TGCATAATTA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
73 58 0.92
74 5 0.08
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (73 bp):
CCCACTTCTTATGATGTGAGTATGAATAATAATTGCCCACCTCTTAAAATGGATACTAGCAGATG
ATTGATTG
Found at i:16260786 original size:10 final size:11
Alignment explanation
Indices: 16260759--16260793 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
16260749 TATGGCCGGC
*
16260759 CAAAGCAAGAA
1 CAAAGGAAGAA
16260770 CAAAGGAAGAA
1 CAAAGGAAGAA
16260781 -AAAGGAAGAA
1 CAAAGGAAGAA
16260791 CAA
1 CAA
16260794 GAACCCTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.66, C:0.11, G:0.23, T:0.00
Consensus pattern (11 bp):
CAAAGGAAGAA
Found at i:16264994 original size:2 final size:2
Alignment explanation
Indices: 16264987--16265044 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
16264977 NNNNNNNNTT
16264987 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16265029 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
16265045 CGAATAATAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16265125 original size:41 final size:42
Alignment explanation
Indices: 16265068--16265150 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
16265058 GTAATGATAT
*
16265068 TGACCCGGCTATGTGCG-GTAGGAGTGCGCATAAGCCGTTGC
1 TGACCCAGCTATGTGCGAGTAGGAGTGCGCATAAGCCGTTGC
* *
16265109 TGACCCAGTTATGTGCGAGTGGGAGTGCGCATAAGCCGTTGC
1 TGACCCAGCTATGTGCGAGTAGGAGTGCGCATAAGCCGTTGC
16265151 ATATGAGCTG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 15 0.39
42 23 0.61
ACGTcount: A:0.18, C:0.23, G:0.36, T:0.23
Consensus pattern (42 bp):
TGACCCAGCTATGTGCGAGTAGGAGTGCGCATAAGCCGTTGC
Found at i:16265442 original size:21 final size:22
Alignment explanation
Indices: 16265396--16265442 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
16265386 GGTGCCCTGC
16265396 TTCTAGCTGCAACGAGAAAGCA
1 TTCTAGCTGCAACGAGAAAGCA
* * *
16265418 TTCTCGCTGCAGCTAGAAA-CA
1 TTCTAGCTGCAACGAGAAAGCA
16265439 TTCT
1 TTCT
16265443 GTTTTGGCAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (22 bp):
TTCTAGCTGCAACGAGAAAGCA
Found at i:16266831 original size:43 final size:43
Alignment explanation
Indices: 16266773--16266891 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 43
16266763 ATCGTCATAT
* * * *
16266773 GCACTTCCTACTCGCACATAGCTAGGTCATCATCGGCTTATGC
1 GCACTCCCTACTCGCACATAGCTGGGTCATCATCAGCTCATGC
* * *
16266816 GCACTCCCTGCTCGCACATAGCCGGGTCATCATCAGCTCATGT
1 GCACTCCCTACTCGCACATAGCTGGGTCATCATCAGCTCATGC
16266859 GCACTCCC-ACATCGCACATAGCTGGGTCATCAT
1 GCACTCCCTAC-TCGCACATAGCTGGGTCATCAT
16266892 TATCACACAA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 65 0.98
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.24
Consensus pattern (43 bp):
GCACTCCCTACTCGCACATAGCTGGGTCATCATCAGCTCATGC
Found at i:16268020 original size:34 final size:35
Alignment explanation
Indices: 16267977--16268066 Score: 128
Period size: 34 Copynumber: 2.6 Consensus size: 35
16267967 CCAGCCCTTA
16267977 TTTTCTCTCTCAAAATTTGCAGCAAAACGCTTTC-
1 TTTTCTCTCTCAAAATTTGCAGCAAAACGCTTTCT
* *
16268011 TTTTCTCTCTCAAAATTTACAGCAAAACTCTTTCT
1 TTTTCTCTCTCAAAATTTGCAGCAAAACGCTTTCT
* * *
16268046 TTTTCCCTTTCAAAAATTGCA
1 TTTTCTCTCTCAAAATTTGCA
16268067 ACACAAAGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
34 32 0.65
35 17 0.35
ACGTcount: A:0.28, C:0.26, G:0.06, T:0.41
Consensus pattern (35 bp):
TTTTCTCTCTCAAAATTTGCAGCAAAACGCTTTCT
Found at i:16269821 original size:30 final size:30
Alignment explanation
Indices: 16269780--16269876 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
16269770 AACTTTGGGA
* *
16269780 AAAGGACTAAATTGAAAAGAAAAAAATGTT
1 AAAGGACTAAATTAAAAATAAAAAAATGTT
* * *
16269810 GAAGGATTAAATTAAAAATTAAAAAA-GTT
1 AAAGGACTAAATTAAAAATAAAAAAATGTT
*
16269839 AAAGGACTAAATTAAAAATAAAAGAAATATTT
1 AAAGGACTAAATTAAAAATAAAA-AAAT-GTT
16269871 AAAGGA
1 AAAGGA
16269877 TTGAATTGAA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
29 23 0.42
30 24 0.44
32 8 0.15
ACGTcount: A:0.61, C:0.02, G:0.14, T:0.23
Consensus pattern (30 bp):
AAAGGACTAAATTAAAAATAAAAAAATGTT
Found at i:16269843 original size:29 final size:29
Alignment explanation
Indices: 16269780--16269861 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
16269770 AACTTTGGGA
* *
16269780 AAAGGACTAAATTGAAAAGAAAAAAATGTT
1 AAAGGACTAAATTAAAAATAAAAAAA-GTT
* * *
16269810 GAAGGATTAAATTAAAAATTAAAAAAGTT
1 AAAGGACTAAATTAAAAATAAAAAAAGTT
16269839 AAAGGACTAAATTAAAAATAAAA
1 AAAGGACTAAATTAAAAATAAAA
16269862 GAAATATTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 23 0.52
30 21 0.48
ACGTcount: A:0.62, C:0.02, G:0.13, T:0.22
Consensus pattern (29 bp):
AAAGGACTAAATTAAAAATAAAAAAAGTT
Found at i:16269901 original size:59 final size:58
Alignment explanation
Indices: 16269780--16269902 Score: 142
Period size: 59 Copynumber: 2.1 Consensus size: 58
16269770 AACTTTGGGA
* *
16269780 AAAGGACTAAATTGAAAAGAAAAAAATGTTGAAGGATTAAATTAAAAATTAAAAAAGTT
1 AAAGGACTAAATTAAAAAGAAAAAAATGTTAAAGGATTAAATTAAAAA-TAAAAAAGTT
* * * *
16269839 AAAGGACTAAATTAAAAATAAAAGAAATATTTAAAGGATTGAATTGAAAAA-AATAAAG-T
1 AAAGGACTAAATTAAAAAGAAAA-AAAT-GTTAAAGGATTAAATT-AAAAATAAAAAAGTT
16269898 AAAGG
1 AAAGG
16269903 GTGAATTATG
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
59 27 0.49
60 10 0.18
61 13 0.24
62 5 0.09
ACGTcount: A:0.60, C:0.02, G:0.15, T:0.23
Consensus pattern (58 bp):
AAAGGACTAAATTAAAAAGAAAAAAATGTTAAAGGATTAAATTAAAAATAAAAAAGTT
Found at i:16273180 original size:25 final size:25
Alignment explanation
Indices: 16273151--16273210 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
16273141 GTGGTCACAA
*
16273151 CCACGTATAACAACTAGTGGCCTAG
1 CCACGTATAACAACCAGTGGCCTAG
*
16273176 CCACGTATAACAACCAGTGGCCTTG
1 CCACGTATAACAACCAGTGGCCTAG
*
16273201 CCACATATAA
1 CCACGTATAA
16273211 TCACAAACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (25 bp):
CCACGTATAACAACCAGTGGCCTAG
Found at i:16273407 original size:25 final size:25
Alignment explanation
Indices: 16273378--16273432 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
16273368 CGCAACTACA
*
16273378 TATATCAACTCATGACCTAGCCACG
1 TATATCAACCCATGACCTAGCCACG
*
16273403 TATATCAACCCATGACCTTGCCACG
1 TATATCAACCCATGACCTAGCCACG
16273428 TATAT
1 TATAT
16273433 ATGACAGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.27
Consensus pattern (25 bp):
TATATCAACCCATGACCTAGCCACG
Found at i:16275540 original size:2 final size:2
Alignment explanation
Indices: 16275533--16275573 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
16275523 AGTAGTTTCA
16275533 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
16275574 TCTTTACTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:16276819 original size:35 final size:34
Alignment explanation
Indices: 16276780--16276853 Score: 80
Period size: 35 Copynumber: 2.1 Consensus size: 34
16276770 GCTGAACTTC
16276780 CTTTT-AGCATATCTTCTTTTTTCTCTTTC-CTTTCT
1 CTTTTCAGC-TATC-TCTTTTTTC-CTTTCTCTTTCT
**
16276815 CTTTTCTTCTATCTCTTTTTTCCTTTCTTCTTTCT
1 CTTTTCAGCTATCTCTTTTTTCCTTTC-TCTTTCT
16276850 CTTT
1 CTTT
16276854 GTTTTCCTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
33 5 0.15
34 9 0.26
35 19 0.56
36 1 0.03
ACGTcount: A:0.05, C:0.27, G:0.01, T:0.66
Consensus pattern (34 bp):
CTTTTCAGCTATCTCTTTTTTCCTTTCTCTTTCT
Found at i:16284598 original size:35 final size:35
Alignment explanation
Indices: 16284558--16284639 Score: 110
Period size: 35 Copynumber: 2.3 Consensus size: 35
16284548 AGTGTCTTGA
*
16284558 TAGAGGTTATGCCGGATCCTACAAAAGGCATGTTG
1 TAGAGGTTACGCCGGATCCTACAAAAGGCATGTTG
** * *
16284593 TAGAGGTTACGCTTGATCCTAGAACAGGCATGTTG
1 TAGAGGTTACGCCGGATCCTACAAAAGGCATGTTG
*
16284628 TAAAGGTTACGC
1 TAGAGGTTACGC
16284640 TTGACCCTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (35 bp):
TAGAGGTTACGCCGGATCCTACAAAAGGCATGTTG
Found at i:16284640 original size:35 final size:35
Alignment explanation
Indices: 16284572--16284648 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
16284562 GGTTATGCCG
*
16284572 GATCCTACAAAAGGCATGTTGTAGAGGTTACGCTT
1 GATCCTACAAAAGGCATGTTGTAAAGGTTACGCTT
* *
16284607 GATCCTAGAACAGGCATGTTGTAAAGGTTACGCTT
1 GATCCTACAAAAGGCATGTTGTAAAGGTTACGCTT
*
16284642 GACCCTA
1 GATCCTA
16284649 TTGAAAAGGC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (35 bp):
GATCCTACAAAAGGCATGTTGTAAAGGTTACGCTT
Found at i:16294373 original size:26 final size:28
Alignment explanation
Indices: 16294321--16294379 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
16294311 TTAATTATCT
* *
16294321 ATAAGTAAAAGACTAACATTTTCTTTGG
1 ATAATTAAAAGACTAACATTATCTTTGG
*
16294349 ATAATTAAGAGACTAACA-TAT-TTTGG
1 ATAATTAAAAGACTAACATTATCTTTGG
*
16294375 TTAAT
1 ATAAT
16294380 GTCTTCTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 9 0.33
27 2 0.07
28 16 0.59
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (28 bp):
ATAATTAAAAGACTAACATTATCTTTGG
Found at i:16305564 original size:12 final size:12
Alignment explanation
Indices: 16305547--16305571 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16305537 AGGTAAATGC
16305547 TGAAACTGAAAT
1 TGAAACTGAAAT
16305559 TGAAACTGAAAT
1 TGAAACTGAAAT
16305571 T
1 T
16305572 TTTGGTGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (12 bp):
TGAAACTGAAAT
Found at i:16311498 original size:79 final size:79
Alignment explanation
Indices: 16311396--16311575 Score: 256
Period size: 79 Copynumber: 2.3 Consensus size: 79
16311386 TGTACGATGG
*
16311396 TTTTAAGTTAT-CAAGGATAATAGGCAGAATCCTTAATA-TGGTGGTTCCAAGGTTAATACCCAA
1 TTTTAAGTT-TCCAAGGATAATAGGCAGAATCCTTAATACT-GTGGTTCCAAGGTTAATAACCAA
*
16311459 TATCTTTGTGCTGTGA
64 TATCCTTGTGCTGTGA
** *
16311475 TTTTAAGTTTCCAAGGATAATAGGCAGAATCCTTGGTACTGTGGTTCTAAGGTTAATAACCAATA
1 TTTTAAGTTTCCAAGGATAATAGGCAGAATCCTTAATACTGTGGTTCCAAGGTTAATAACCAATA
*
16311540 TCCTTGTGCTGTGG
66 TCCTTGTGCTGTGA
* *
16311554 TTTTTAGTTACCAAGGATAATA
1 TTTTAAGTTTCCAAGGATAATA
16311576 TTCAATACCC
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 89 0.98
80 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (79 bp):
TTTTAAGTTTCCAAGGATAATAGGCAGAATCCTTAATACTGTGGTTCCAAGGTTAATAACCAATA
TCCTTGTGCTGTGA
Found at i:16311588 original size:79 final size:78
Alignment explanation
Indices: 16311396--16311651 Score: 241
Period size: 79 Copynumber: 3.2 Consensus size: 78
16311386 TGTACGATGG
* * * * *
16311396 TTTTAAGTTATCAAGGATAATAGGCAGAATCCTT-AATATGGTGGTTCCAAGGTTAATACCCAAT
1 TTTTAAGTTACCAAGGATAATAGGCAGAACCCTTGAGT-T-GTGGTTCTAAGGTTAATAACCAAT
*
16311460 ATCTTTGTGCTGTGA
64 ATCCTTGTGCTGTGA
* *
16311475 TTTTAAGTTTCCAAGGATAATAGGCAGAATCCTTG-GTACTGTGGTTCTAAGGTTAATAACCAAT
1 TTTTAAGTTACCAAGGATAATAGGCAGAACCCTTGAGT--TGTGGTTCTAAGGTTAATAACCAAT
*
16311539 ATCCTTGTGCTGTGG
64 ATCCTTGTGCTGTGA
* ** * * **
16311554 TTTTTAGTTACCAAGGATAATATTCA-ATACCCTTGAGTTGTAGCTTCTAAGGTTAAGATTCAAT
1 TTTTAAGTTACCAAGGATAATAGGCAGA-ACCCTTGAGTTGT-GGTTCTAAGGTTAATAACCAAT
** *
16311618 ATGTTTAGT-TTGTGA
64 ATCCTT-GTGCTGTGA
*
16311633 TTCTAAGTTACCAAGGATA
1 TTTTAAGTTACCAAGGATA
16311652 GTAAGTAATA
Statistics
Matches: 148, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
78 4 0.03
79 139 0.94
80 5 0.03
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (78 bp):
TTTTAAGTTACCAAGGATAATAGGCAGAACCCTTGAGTTGTGGTTCTAAGGTTAATAACCAATAT
CCTTGTGCTGTGA
Found at i:16311779 original size:30 final size:31
Alignment explanation
Indices: 16311701--16311812 Score: 90
Period size: 31 Copynumber: 3.7 Consensus size: 31
16311691 ACTTTGGGAG
* *
16311701 AAGGACTAAATTGAAAAGAAAGAAAATATTT
1 AAGGACTAAATTGAAAATAAAGAAAATAGTT
* *
16311732 AAGGATTAAATT-CAAATAAAG-AAA-AGTT
1 AAGGACTAAATTGAAAATAAAGAAAATAGTT
* *
16311760 AGAGGGCTAAATTGAAAATAAA-ATAGATA-TT
1 A-AGGACTAAATTGAAAATAAAGA-AAATAGTT
* *
16311791 CAGGAACTGAATTGAAAATAAA
1 AAGG-ACTAAATTGAAAATAAA
16311813 AATAAAGTAG
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
28 4 0.06
29 12 0.19
30 17 0.27
31 30 0.47
32 1 0.02
ACGTcount: A:0.55, C:0.04, G:0.17, T:0.23
Consensus pattern (31 bp):
AAGGACTAAATTGAAAATAAAGAAAATAGTT
Found at i:16313610 original size:13 final size:15
Alignment explanation
Indices: 16313582--16313610 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16313572 TTTAGTTCAT
16313582 AATATCTAATAAAAA
1 AATATCTAATAAAAA
16313597 AATATCTAA-AAAAA
1 AATATCTAATAAAAA
16313611 TTTCACCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (15 bp):
AATATCTAATAAAAA
Found at i:16325183 original size:16 final size:18
Alignment explanation
Indices: 16325152--16325185 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
16325142 AATTAAAGTC
16325152 TCAACTTTCATAGAAAAA
1 TCAACTTTCATAGAAAAA
16325170 TCAAC-TTC-TAGAAAAA
1 TCAACTTTCATAGAAAAA
16325186 AAAATTCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 3 0.19
18 5 0.31
ACGTcount: A:0.50, C:0.18, G:0.06, T:0.26
Consensus pattern (18 bp):
TCAACTTTCATAGAAAAA
Found at i:16327146 original size:12 final size:13
Alignment explanation
Indices: 16327127--16327160 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
16327117 TTAAAATTAG
16327127 TAAAATAAATAAA
1 TAAAATAAATAAA
16327140 T-AAATAAATAAA
1 TAAAATAAATAAA
16327152 TAAAATAAA
1 TAAAATAAA
16327161 AATAAATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:16327167 original size:4 final size:4
Alignment explanation
Indices: 16327129--16327160 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
16327119 AAAATTAGTA
16327129 AAAT AAAT AAAT AAAT AAAT AAAT AAAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAA
16327161 AATAAATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:16336238 original size:15 final size:14
Alignment explanation
Indices: 16336218--16336248 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
16336208 TTATTTTTAG
16336218 TTTTTTCTTTCTTTT
1 TTTTTTCTTT-TTTT
16336233 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
16336247 TT
1 TT
16336249 ATCCAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTTTCTTTTTTT
Found at i:16336246 original size:11 final size:11
Alignment explanation
Indices: 16336218--16336248 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
16336208 TTATTTTTAG
*
16336218 TTTTTTCTTTC
1 TTTTTTTTTTC
16336229 TTTTTTTTTTC
1 TTTTTTTTTTC
16336240 TTTTTTTTT
1 TTTTTTTTT
16336249 ATCCAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:16344890 original size:24 final size:24
Alignment explanation
Indices: 16344857--16344905 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
16344847 TAATTGGGTA
16344857 AACAGCAAATCAAACAAGCCTAGG
1 AACAGCAAATCAAACAAGCCTAGG
* *
16344881 AACAGTAAATCAAACGAGCCTAGG
1 AACAGCAAATCAAACAAGCCTAGG
16344905 A
1 A
16344906 TTACAATATC
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:0.49, C:0.22, G:0.18, T:0.10
Consensus pattern (24 bp):
AACAGCAAATCAAACAAGCCTAGG
Found at i:16347993 original size:20 final size:20
Alignment explanation
Indices: 16347968--16348005 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16347958 ATCCTGCCAA
* *
16347968 GAATGTATTGATATATTTGG
1 GAATGTATCGATACATTTGG
16347988 GAATGTATCGATACATTT
1 GAATGTATCGATACATTT
16348006 TCCACTGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (20 bp):
GAATGTATCGATACATTTGG
Found at i:16348963 original size:28 final size:27
Alignment explanation
Indices: 16348906--16349048 Score: 128
Period size: 28 Copynumber: 5.0 Consensus size: 27
16348896 ATTAAAACAA
* * *
16348906 AAATATTTTATCTTGTCTGAATTGATAC
1 AAATATTTT-TCTTGTCTAAATTAAGAC
*
16348934 AAATATGTTTTCTTGTCTACATTAAGAC
1 AAATAT-TTTTCTTGTCTAAATTAAGAC
*
16348962 AAAAAATATTTTTCTTGTCTTAAATTAAAAC
1 ---AAATATTTTTCTTGTC-TAAATTAAGAC
*
16348993 AAGCATA-TTTTCCTGTCTAAATTAAGAC
1 AA--ATATTTTTCTTGTCTAAATTAAGAC
16349021 AAGCATA-TTTTCTTGTCTAAATTAAGAC
1 AA--ATATTTTTCTTGTCTAAATTAAGAC
16349049 CAACGTGTTA
Statistics
Matches: 99, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
28 59 0.60
29 12 0.12
30 13 0.13
31 15 0.15
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.41
Consensus pattern (27 bp):
AAATATTTTTCTTGTCTAAATTAAGAC
Found at i:16349004 original size:59 final size:57
Alignment explanation
Indices: 16348895--16349045 Score: 169
Period size: 59 Copynumber: 2.6 Consensus size: 57
16348885 TCTTGTCTTT
* * * * * * *
16348895 AATTAAAACAAAAATATTTTATCTTGTCTGAATTGATACAAATATGTTTTCTTGTCTA
1 AATTAAGACAAAAATATTTT-TCTTGTCTAAATTAAAACAAACATATTTTCCTGTCTA
* *
16348953 CATTAAGACAAAAAATATTTTTCTTGTCTTAAATTAAAACAAGCATATTTTCCTGTCTA
1 AATTAAGAC-AAAAATATTTTTCTTGTC-TAAATTAAAACAAACATATTTTCCTGTCTA
**
16349012 AATTAAGACAAGCATA-TTTTCTTGTCTAAATTAA
1 AATTAAGACAAAAATATTTTTCTTGTCTAAATTAA
16349046 GACCAACGTG
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
56 8 0.10
57 10 0.13
58 19 0.24
59 42 0.53
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (57 bp):
AATTAAGACAAAAATATTTTTCTTGTCTAAATTAAAACAAACATATTTTCCTGTCTA
Found at i:16350908 original size:19 final size:19
Alignment explanation
Indices: 16350884--16350921 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16350874 CCATTTGACT
*
16350884 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
16350903 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
16350922 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:16354091 original size:21 final size:20
Alignment explanation
Indices: 16354057--16354095 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
16354047 CTAAAAAAAT
*
16354057 TGTATCAATGCATTATGAACA
1 TGTATCAATACATT-TGAACA
*
16354078 TGTATCATTACATTTGAA
1 TGTATCAATACATTTGAA
16354096 ATAGAATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (20 bp):
TGTATCAATACATTTGAACA
Found at i:16354285 original size:15 final size:15
Alignment explanation
Indices: 16354265--16354293 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16354255 ATTTGTCTCA
16354265 GAAGATACATGTTCT
1 GAAGATACATGTTCT
16354280 GAAGATACATGTTC
1 GAAGATACATGTTC
16354294 ATAATGTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (15 bp):
GAAGATACATGTTCT
Found at i:16360461 original size:18 final size:21
Alignment explanation
Indices: 16360434--16360478 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 21
16360424 TATAAATCTC
*
16360434 ATTTTTATTA-AAAA-A-AAT
1 ATTTTAATTAGAAAACATAAT
16360452 ATTTTAATTAGAAAACATAAT
1 ATTTTAATTAGAAAACATAAT
16360473 ATTTTA
1 ATTTTA
16360479 TCATTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
19 4 0.17
20 1 0.04
21 9 0.39
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTTTAATTAGAAAACATAAT
Found at i:16361577 original size:19 final size:19
Alignment explanation
Indices: 16361553--16361590 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
16361543 ACTTCTAAAC
16361553 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
16361572 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
16361591 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:16365184 original size:54 final size:54
Alignment explanation
Indices: 16365114--16365217 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 54
16365104 ATGTGATAGA
16365114 AATTACTTTTTGATTGTCTTTGATTTCAAAATAGTCTATATTCCTTTAAAANAGT
1 AATTACTTTTTGATTGTCTTTGATTTCAAAATAGTCTATATTCCTTTAAAA-AGT
*
16365169 AATTAC-TTTTGATTGTCTTTGATTTGAAAATAGTCTATATTCCTTTAAA
1 AATTACTTTTTGATTGTCTTTGATTTCAAAATAGTCTATATTCCTTTAAA
16365218 TTATGATATT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 42 0.88
55 6 0.12
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.48
Consensus pattern (54 bp):
AATTACTTTTTGATTGTCTTTGATTTCAAAATAGTCTATATTCCTTTAAAAAGT
Found at i:16369333 original size:23 final size:22
Alignment explanation
Indices: 16369282--16369380 Score: 77
Period size: 23 Copynumber: 4.5 Consensus size: 22
16369272 TGCCAAACCG
16369282 AGAAGAAA--AGAAAGAAAAAGAA
1 AGAAGAAAGGAGAAAG--AAAGAA
*
16369304 AGAAGAAAGGAGAAAGGAAAGGA
1 AGAAGAAAGGAGAAA-GAAAGAA
*
16369327 AGGAGAATGAGG-GAAAGAAAGAA
1 AGAAGAA--AGGAGAAAGAAAGAA
16369350 AGAAGAAA-G-GAAAG-AA-AA
1 AGAAGAAAGGAGAAAGAAAGAA
16369368 AGAGAGAAAGGAG
1 AGA-AGAAAGGAG
16369381 TTCGGCCAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 17
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.08
19 7 0.11
20 7 0.11
21 2 0.03
22 8 0.12
23 23 0.35
24 9 0.14
25 4 0.06
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (22 bp):
AGAAGAAAGGAGAAAGAAAGAA
Found at i:16369362 original size:12 final size:12
Alignment explanation
Indices: 16369282--16369369 Score: 57
Period size: 12 Copynumber: 7.8 Consensus size: 12
16369272 TGCCAAACCG
*
16369282 AGAAGAAAAGAA
1 AGAAGAAAGGAA
16369294 AGAA-AAA-GAA
1 AGAAGAAAGGAA
16369304 AGAAGAAAGGAGA
1 AGAAGAAAGGA-A
*
16369317 A-AGGAAAGG-A
1 AGAAGAAAGGAA
* *
16369327 AGGAGAATGAGG-G
1 AGAAGAA--AGGAA
16369340 A-AAGAAA-GAA
1 AGAAGAAAGGAA
16369350 AGAAGAAAGGAA
1 AGAAGAAAGGAA
16369362 AGAA-AAAG
1 AGAAGAAAG
16369370 AGAGAAAGGA
Statistics
Matches: 61, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
9 1 0.02
10 11 0.18
11 19 0.31
12 24 0.39
13 6 0.10
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (12 bp):
AGAAGAAAGGAA
Found at i:16369377 original size:34 final size:36
Alignment explanation
Indices: 16369282--16369377 Score: 101
Period size: 34 Copynumber: 2.8 Consensus size: 36
16369272 TGCCAAACCG
* *
16369282 AGAAGAAAAGAAAGAAAAAGAAAG-AAGAAAGGAGA
1 AGAAGAAAGGAAAGAAAAAGAGAGAAAGAAAGGAGA
* * * * *
16369317 A-AGGAAAGGAAGGAGAATGAGGGAAAGAAA-GA-A
1 AGAAGAAAGGAAAGAAAAAGAGAGAAAGAAAGGAGA
16369350 AGAAGAAAGGAAAGAAAAAGAGAGAAAG
1 AGAAGAAAGGAAAGAAAAAGAGAGAAAG
16369378 GAGTTCGGCC
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
33 2 0.04
34 38 0.81
35 7 0.15
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (36 bp):
AGAAGAAAGGAAAGAAAAAGAGAGAAAGAAAGGAGA
Found at i:16369419 original size:23 final size:22
Alignment explanation
Indices: 16369393--16369436 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
16369383 CGGCCAAACC
* *
16369393 AAGGAGAGAAAAGAGAAGGAAGA
1 AAGGAAAGAAAA-AGAAAGAAGA
16369416 AAGGAAAGAAAAAGAAAGAAG
1 AAGGAAAGAAAAAGAAAGAAG
16369437 GAAGTTCGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (22 bp):
AAGGAAAGAAAAAGAAAGAAGA
Found at i:16369424 original size:60 final size:60
Alignment explanation
Indices: 16369346--16369478 Score: 182
Period size: 60 Copynumber: 2.2 Consensus size: 60
16369336 AGGGAAAGAA
* *
16369346 AGAAAGAAGAAAGGAAAGAAAAAGAGAGAAAGG-AGTTCGGCCAAACCAAGGAGAGAAAAG
1 AGAAAGAAGAAAGGAAAGAAAAAGAAAG-AAGGAAGTTCGACCAAACCAAGGAGAGAAAAG
* * *
16369406 AGAAGGAAGAAAGGAAAGAAAAAGAAAGAAGGAAGTTCGACCGAACCAATGAGAGAAAAG
1 AGAAAGAAGAAAGGAAAGAAAAAGAAAGAAGGAAGTTCGACCAAACCAAGGAGAGAAAAG
16369466 A-AATA-AAGAAAGG
1 AGAA-AGAAGAAAGG
16369479 GAGGAAAAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
59 14 0.22
60 51 0.78
ACGTcount: A:0.58, C:0.08, G:0.30, T:0.05
Consensus pattern (60 bp):
AGAAAGAAGAAAGGAAAGAAAAAGAAAGAAGGAAGTTCGACCAAACCAAGGAGAGAAAAG
Found at i:16370697 original size:43 final size:42
Alignment explanation
Indices: 16370649--16370840 Score: 215
Period size: 43 Copynumber: 4.4 Consensus size: 42
16370639 TTGTGTGATA
** **
16370649 ATGATGACCTAGCTATGTGCGATGT-GGGAGTGCACATGAGTTG
1 ATGATGACCCGGCTATGTGCGA-GTAGGGAGTGCACAT-AGCCG
* * *
16370692 ATGATGACCTGGCTATGTGCGAGTAGGGAGTGCGCATACACCG
1 ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCACATA-GCCG
* *
16370735 ATAATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCG
1 ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCACAT-AGCCG
*
16370778 ATGATGACCCGGCTATGTGTGAGTAGGGAGTGCACATAAGCCAATG
1 ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCACAT-AGCC---G
16370824 ATGATGACCCGGCTATG
1 ATGATGACCCGGCTATG
16370841 ACGATGAATG
Statistics
Matches: 132, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
42 3 0.02
43 110 0.83
44 1 0.01
46 18 0.14
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (42 bp):
ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCACATAGCCG
Found at i:16372169 original size:12 final size:12
Alignment explanation
Indices: 16372139--16372169 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
16372129 ATAGCTATTC
16372139 AAATTAAATAAA
1 AAATTAAATAAA
16372151 AATATTAAATAAA
1 AA-ATTAAATAAA
16372164 AAATTA
1 AAATTA
16372170 CATTTTCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAATTAAATAAA
Found at i:16387364 original size:9 final size:9
Alignment explanation
Indices: 16387347--16387417 Score: 58
Period size: 9 Copynumber: 7.8 Consensus size: 9
16387337 GCCCATAACC
16387347 AAGAAAGAA
1 AAGAAAGAA
*
16387356 AAGAGAGAA
1 AAGAAAGAA
16387365 AGGAGAAAGGAA
1 A--AGAAA-GAA
*
16387377 AGGAAA-AA
1 AAGAAAGAA
16387385 AAGAAA-AA
1 AAGAAAGAA
16387393 AAGAAA-AA
1 AAGAAAGAA
16387401 AGAGAAAGAA
1 A-AGAAAGAA
*
16387411 AGGAAAG
1 AAGAAAG
16387418 GCACGGGTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
8 18 0.35
9 19 0.37
10 7 0.13
11 4 0.08
12 4 0.08
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (9 bp):
AAGAAAGAA
Found at i:16387388 original size:34 final size:34
Alignment explanation
Indices: 16387347--16387416 Score: 95
Period size: 34 Copynumber: 1.9 Consensus size: 34
16387337 GCCCATAACC
*
16387347 AAGAAAGAAAAGAGAGAAAGGAGAAAGGAAAGGAAAAA
1 AAGAAA-AAAAGA-A-AAAAGAGAAA-GAAAGGAAAAA
16387385 AAGAAAAAAAGAAAAAAGAGAAAGAAAGGAAA
1 AAGAAAAAAAGAAAAAAGAGAAAGAAAGGAAA
16387417 GGCACGGGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 9 0.29
35 9 0.29
36 1 0.03
37 6 0.19
38 6 0.19
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (34 bp):
AAGAAAAAAAGAAAAAAGAGAAAGAAAGGAAAAA
Found at i:16387392 original size:8 final size:8
Alignment explanation
Indices: 16387379--16387412 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
16387369 GAAAGGAAAG
16387379 GAAAAAAA
1 GAAAAAAA
16387387 GAAAAAAA
1 GAAAAAAA
16387395 GAAAAAAGA
1 GAAAAAA-A
*
16387404 GAAAGAAA
1 GAAAAAAA
16387412 G
1 G
16387413 GAAAGGCACG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:16387395 original size:17 final size:18
Alignment explanation
Indices: 16387375--16387416 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
16387365 AGGAGAAAGG
16387375 AAAGGAAAAAA-AGAAAA
1 AAAGGAAAAAAGAGAAAA
*
16387392 AAA-GAAAAAAGAGAAAG
1 AAAGGAAAAAAGAGAAAA
16387409 AAAGGAAA
1 AAAGGAAA
16387417 GGCACGGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 11 0.50
18 4 0.18
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAGGAAAAAAGAGAAAA
Found at i:16389290 original size:81 final size:80
Alignment explanation
Indices: 16389155--16389314 Score: 252
Period size: 81 Copynumber: 2.0 Consensus size: 80
16389145 TGTCTCACAA
16389155 GGGTATTTTGGTCATTTTTTTAAAAAATTCTGAAACCAGCTAAAAACGTAGTATATGAGAGAAAT
1 GGGTATTTTGGTCATTTTTTTAAAAAATTCTGAAACCAGCTAAAAACGTAGTATATGAGAGAAAT
16389220 TTACACATTTCATNAT
66 TTACACATTTCAT-AT
* * *
16389236 GGGTATTTTGGTCATTTTTTTCTAAAAATT-TCGAAACTAGCT-AAAATGTAGTATATGAGAGAA
1 GGGTATTTTGGTCATTTTTTT-AAAAAATTCT-GAAACCAGCTAAAAACGTAGTATATGAGAGAA
16389299 ATTTACACATTTCATA
64 ATTTACACATTTCATA
16389315 ATCAAAAATA
Statistics
Matches: 74, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
80 1 0.01
81 57 0.77
82 16 0.22
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (80 bp):
GGGTATTTTGGTCATTTTTTTAAAAAATTCTGAAACCAGCTAAAAACGTAGTATATGAGAGAAAT
TTACACATTTCATAT
Found at i:16402897 original size:10 final size:10
Alignment explanation
Indices: 16402876--16402905 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
16402866 ATTAAATTTC
16402876 TAAAAGGAAAA
1 TAAAA-GAAAA
16402887 TAAAAGAAAA
1 TAAAAGAAAA
16402897 TAAAAGAAA
1 TAAAAGAAA
16402906 TGGAGAGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (10 bp):
TAAAAGAAAA
Found at i:16403591 original size:32 final size:32
Alignment explanation
Indices: 16403554--16403633 Score: 79
Period size: 36 Copynumber: 2.3 Consensus size: 32
16403544 AACATGTGAG
* ** *
16403554 AAAAAGAAAAAAGAAAGAATTAAGAAAGGAAA
1 AAAAAGAAAAAAAAAAGAAGAAAAAAAGGAAA
16403586 AAAAAGGAAATGAAAAAAAAGAAGAAAAAAAGGAAA
1 AAAAA-G-AA--AAAAAAAAGAAGAAAAAAAGGAAA
16403622 AGAAAAGAAAAA
1 A-AAAAGAAAAA
16403634 CATAAACAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
32 5 0.13
33 4 0.10
34 2 0.05
35 2 0.05
36 22 0.56
37 4 0.10
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.04
Consensus pattern (32 bp):
AAAAAGAAAAAAAAAAGAAGAAAAAAAGGAAA
Found at i:16403603 original size:14 final size:13
Alignment explanation
Indices: 16403584--16403627 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
16403574 TAAGAAAGGA
16403584 AAAAAAAGGAAATG
1 AAAAAAAGGAAA-G
*
16403598 AAAAAAAAG-AAG
1 AAAAAAAGGAAAG
16403610 AAAAAAAGGAAAAG
1 AAAAAAAGG-AAAG
16403624 AAAA
1 AAAA
16403628 GAAAAACATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 9 0.35
13 2 0.08
14 15 0.58
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (13 bp):
AAAAAAAGGAAAG
Found at i:16404529 original size:2 final size:2
Alignment explanation
Indices: 16404522--16404547 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16404512 GCTTCCATAA
16404522 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
16404548 AGTTTCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:16404675 original size:2 final size:2
Alignment explanation
Indices: 16404668--16404702 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
16404658 TAGACATTTT
16404668 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
16404703 CTTTCCATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16406691 original size:31 final size:31
Alignment explanation
Indices: 16406653--16406712 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
16406643 GCTGTGACAT
* *
16406653 GAGGAGTGTTTTGAGTTAAGGAGTTGGAAAA
1 GAGGAGTGTTATGAGTTAAAGAGTTGGAAAA
16406684 GAGGAGTGTTATGAGTTAAAGAGTTGGAA
1 GAGGAGTGTTATGAGTTAAAGAGTTGGAA
16406713 TCGATGGCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.38, T:0.28
Consensus pattern (31 bp):
GAGGAGTGTTATGAGTTAAAGAGTTGGAAAA
Found at i:16409373 original size:9 final size:8
Alignment explanation
Indices: 16409351--16409375 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16409341 AATCAATTGA
16409351 ATAAAAAG
1 ATAAAAAG
16409359 ATAAAAAG
1 ATAAAAAG
16409367 ATAAAAAG
1 ATAAAAAG
16409375 A
1 A
16409376 GTTAGGTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
ATAAAAAG
Found at i:16411724 original size:20 final size:21
Alignment explanation
Indices: 16411686--16411725 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16411676 AAGAAGAACT
**
16411686 TGAAAAATTTTCAAGTGATGA
1 TGAAAAATTAGCAAGTGATGA
16411707 TGAAAAATTAGCAA-TGATG
1 TGAAAAATTAGCAAGTGATG
16411726 GCCAAAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (21 bp):
TGAAAAATTAGCAAGTGATGA
Found at i:16413225 original size:28 final size:28
Alignment explanation
Indices: 16413168--16413226 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
16413158 TTTGGAGCAT
* *
16413168 AGGGGCAAAATGATAATTTTATCACCCC
1 AGGGGCAAAAAGATAATTTTACCACCCC
16413196 AGGGGCAAAACAG-TAATTTT-CCACCACC
1 AGGGGCAAAA-AGATAATTTTACCACC-CC
16413224 AGG
1 AGG
16413227 ACACTTGTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.15
28 22 0.81
29 1 0.04
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (28 bp):
AGGGGCAAAAAGATAATTTTACCACCCC
Found at i:16414338 original size:15 final size:16
Alignment explanation
Indices: 16414301--16414341 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
16414291 TAAATTTTGA
*
16414301 GATTTTATAGTAAAAT
1 GATTTTATAATAAAAT
16414317 G-TGTTTA-AATAAAAT
1 GAT-TTTATAATAAAAT
16414332 GATTTTATAA
1 GATTTTATAA
16414342 ATTGTCTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (16 bp):
GATTTTATAATAAAAT
Found at i:16418526 original size:20 final size:20
Alignment explanation
Indices: 16418497--16418542 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
16418487 AGGCTCACTA
16418497 TAATCAGTTAAAACCCCTTG
1 TAATCAGTTAAAACCCCTTG
*
16418517 TAATCCGTTAAAACCCCTTG
1 TAATCAGTTAAAACCCCTTG
16418537 TAATCA
1 TAATCA
16418543 ATTAGAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (20 bp):
TAATCAGTTAAAACCCCTTG
Found at i:16423522 original size:2 final size:2
Alignment explanation
Indices: 16423515--16423555 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
16423505 CTAAAACCTC
* *
16423515 TA TA TA TA TA TA TA TA TA TA TCA TA TA TA AA CA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
16423556 ACCACTAGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:16423541 original size:21 final size:21
Alignment explanation
Indices: 16423516--16423555 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16423506 TAAAACCTCT
* *
16423516 ATATATATATATATATATATC
1 ATATATAAACATATATATATC
16423537 ATATATAAACATATATATA
1 ATATATAAACATATATATA
16423556 ACCACTAGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATATAAACATATATATATC
Found at i:16423542 original size:19 final size:19
Alignment explanation
Indices: 16423518--16423554 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16423508 AAACCTCTAT
* *
16423518 ATATATATATATATATATC
1 ATATATAAACATATATATC
16423537 ATATATAAACATATATAT
1 ATATATAAACATATATAT
16423555 AACCACTAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATATAAACATATATATC
Found at i:16423636 original size:42 final size:42
Alignment explanation
Indices: 16423584--16423788 Score: 295
Period size: 42 Copynumber: 4.9 Consensus size: 42
16423574 AACTTTGTCT
* * * * *
16423584 CAGCTTATGTGCACTACC-ACACGGTACATAGCCGGGTCAGCA
1 CAGCTCATGTGCACT-CCTACACCGCACATGGCTGGGTCAGCA
*
16423626 CAGCTCATGTGCACTCATACACCGCACATGGCTGGGTCAGCA
1 CAGCTCATGTGCACTCCTACACCGCACATGGCTGGGTCAGCA
*
16423668 CAGCTCATGTGCACTCCTACACCACACATGGCTGGGTCAGCA
1 CAGCTCATGTGCACTCCTACACCGCACATGGCTGGGTCAGCA
* * *
16423710 CAGCTCATATACACTCCTACACTGCACATGGCTGGGTCAGCA
1 CAGCTCATGTGCACTCCTACACCGCACATGGCTGGGTCAGCA
*
16423752 TAGCTCATGTGCACTCCTACACCGCACATGGCTGGGT
1 CAGCTCATGTGCACTCCTACACCGCACATGGCTGGGT
16423789 AATAATTATC
Statistics
Matches: 146, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
41 1 0.01
42 145 0.99
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.20
Consensus pattern (42 bp):
CAGCTCATGTGCACTCCTACACCGCACATGGCTGGGTCAGCA
Found at i:16430515 original size:63 final size:63
Alignment explanation
Indices: 16430433--16430568 Score: 155
Period size: 63 Copynumber: 2.2 Consensus size: 63
16430423 TCTATGGCTT
* * * *
16430433 AAGAATGCAAAGATTGATTCCTAAAAAACAGAAAGCTCTAAAGACACAAAGAATCAATTTCTC
1 AAGAATGCACAGATCGATTCCTAAAAAACAAAAAGCTCTAAAGACACAAAGAATCAACTTCTC
* *** * * * * *
16430496 AAGAATGCACCGATCGATTCCTTTGAAATAAAAAGTTCTAGAGACATAAAGAATCGACTTCTC
1 AAGAATGCACAGATCGATTCCTAAAAAACAAAAAGCTCTAAAGACACAAAGAATCAACTTCTC
16430559 AAGAATGCAC
1 AAGAATGCAC
16430569 TAATCAATTC
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (63 bp):
AAGAATGCACAGATCGATTCCTAAAAAACAAAAAGCTCTAAAGACACAAAGAATCAACTTCTC
Found at i:16430592 original size:63 final size:62
Alignment explanation
Indices: 16430458--16430626 Score: 180
Period size: 63 Copynumber: 2.7 Consensus size: 62
16430448 GATTCCTAAA
* * * * * *
16430458 AAACAGAAAGCTCTAAAGACACAAAGAATCAATTTCTCAAGAATGCACCGATCGATTCCTTTG
1 AAACAAAAAGCTCT-AAGACAAAAAGAATCGATTTCTCAAGAATGCACCAATCAATTCCTTTC
* * * * *
16430521 AAATAAAAAGTTCTAGAGACATAAAGAATCGACTTCTCAAGAATGCACTAATCAATT-CTTTC
1 AAACAAAAAGCTCTA-AGACAAAAAGAATCGATTTCTCAAGAATGCACCAATCAATTCCTTTC
16430583 AAGACAAAAAGCT-TAAGACCAAAAAGGAATCGATTTCTCAAGAA
1 AA-ACAAAAAGCTCTAAGA-CAAAAA-GAATCGATTTCTCAAGAA
16430627 AAAAAGGTTG
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
61 3 0.03
62 14 0.16
63 71 0.81
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (62 bp):
AAACAAAAAGCTCTAAGACAAAAAGAATCGATTTCTCAAGAATGCACCAATCAATTCCTTTC
Found at i:16431085 original size:36 final size:36
Alignment explanation
Indices: 16431045--16431114 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
16431035 TTTAAAACAT
16431045 AGTGTTGTAAAGGTAATGTCTAAACCTTGAAAAGGC
1 AGTGTTGTAAAGGTAATGTCTAAACCTTGAAAAGGC
* * * * *
16431081 AGTGTTGTCAAGGTTATGTTTGATCCTTGAAAAG
1 AGTGTTGTAAAGGTAATGTCTAAACCTTGAAAAG
16431115 TTAGAGAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (36 bp):
AGTGTTGTAAAGGTAATGTCTAAACCTTGAAAAGGC
Found at i:16431189 original size:28 final size:27
Alignment explanation
Indices: 16431150--16431229 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 27
16431140 AAAAGACCAA
* *
16431150 AAGGTTTTGCTTGATCCTTGAAAAAGTT
1 AAGGTTATGCTTGATCCATGAAAAAG-T
* *
16431178 AAGGTTATGCTTGATTCGTGAAAAAGT
1 AAGGTTATGCTTGATCCATGAAAAAGT
* *
16431205 AGGGGTTGTGCTTGATCCATGAAAA
1 A-AGGTTATGCTTGATCCATGAAAA
16431230 GAAATGATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 2 0.05
28 42 0.95
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (27 bp):
AAGGTTATGCTTGATCCATGAAAAAGT
Found at i:16439930 original size:21 final size:19
Alignment explanation
Indices: 16439904--16439944 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
16439894 AATTTAAAAC
16439904 AAAATAACATAAAATTTAACT
1 AAAATAAC-TAAAA-TTAACT
*
16439925 AAAATAACTTAAATTAACT
1 AAAATAACTAAAATTAACT
16439944 A
1 A
16439945 CTCAACATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATAACTAAAATTAACT
Found at i:16442797 original size:2 final size:2
Alignment explanation
Indices: 16442790--16442815 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16442780 CATTTGGCAT
16442790 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
16442816 TTGGATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16444490 original size:21 final size:20
Alignment explanation
Indices: 16444461--16444500 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
16444451 TGTTAGTTGA
*
16444461 TATTTTTACTATTTATTTTT
1 TATTTTTACCATTTATTTTT
*
16444481 TATTATTTACCATTTGTTTT
1 TATT-TTTACCATTTATTTT
16444501 ATCTTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (20 bp):
TATTTTTACCATTTATTTTT
Found at i:16444533 original size:32 final size:32
Alignment explanation
Indices: 16444463--16444532 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 32
16444453 TTAGTTGATA
16444463 TTTTTACTATTTATTTTTTATTATTTACCATT
1 TTTTTACTATTTATTTTTTATTATTTACCATT
* * *
16444495 TGTTTTA-TCTTTATTTTTTAATTTTTTATTCATT
1 T-TTTTACTATTTATTTTTT-ATTATTTA-CCATT
16444529 TTTT
1 TTTT
16444533 ACAAAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
32 12 0.38
33 15 0.47
34 5 0.16
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.73
Consensus pattern (32 bp):
TTTTTACTATTTATTTTTTATTATTTACCATT
Found at i:16449791 original size:19 final size:19
Alignment explanation
Indices: 16449697--16449794 Score: 56
Period size: 19 Copynumber: 5.1 Consensus size: 19
16449687 TCCCGGCTCA
16449697 TGTACATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
* * ** *
16449716 TGCACATAGCCGGCACCATCA
1 TGTACAT-CCCCCCA-CATCG
*
16449737 TGTGCAT-CCCCCACATCG
1 TGTACATCCCCCCACATCG
* ****
16449755 TGCACAATCAGTGC-CATCG
1 TGTAC-ATCCCCCCACATCG
16449774 TGTACATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
16449793 TG
1 TG
16449795 CACACGGGCA
Statistics
Matches: 53, Mismatches: 21, Indels: 10
0.63 0.25 0.12
Matches are distributed among these distances:
18 11 0.21
19 28 0.53
20 5 0.09
21 9 0.17
ACGTcount: A:0.22, C:0.41, G:0.16, T:0.20
Consensus pattern (19 bp):
TGTACATCCCCCCACATCG
Found at i:16452215 original size:2 final size:2
Alignment explanation
Indices: 16452203--16452234 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
16452193 CCAAGAATGC
*
16452203 CA CA CA AA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
16452235 TATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:16453724 original size:40 final size:41
Alignment explanation
Indices: 16453671--16453750 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 41
16453661 TTGTGAAAGA
16453671 CACCAATCATGGCAAGGTTA-AAAACCCCACTAAAGTGAAC
1 CACCAATCATGGCAAGGTTAGAAAACCCCACTAAAGTGAAC
* *
16453711 CACCAATCTTGGCAAGGTTAGAAAACCCCACTAAGGTGAA
1 CACCAATCATGGCAAGGTTAGAAAACCCCACTAAAGTGAA
16453751 GAACAGCTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
40 19 0.51
41 18 0.49
ACGTcount: A:0.40, C:0.26, G:0.17, T:0.16
Consensus pattern (41 bp):
CACCAATCATGGCAAGGTTAGAAAACCCCACTAAAGTGAAC
Found at i:16458489 original size:2 final size:2
Alignment explanation
Indices: 16458477--16458514 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
16458467 GTTATTTATG
16458477 TA TA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16458515 GTAAAGTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16458975 original size:25 final size:25
Alignment explanation
Indices: 16458924--16458976 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
16458914 TGTTATCATC
** * *
16458924 CGTGGCAAGGCCACGGGTTGTTGTA
1 CGTGGCAAGGCCACAAGTTGATATA
16458949 CGTGGCAAGGCCACAAGTTGATATA
1 CGTGGCAAGGCCACAAGTTGATATA
16458974 CGT
1 CGT
16458977 AGTTGCAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.34, T:0.23
Consensus pattern (25 bp):
CGTGGCAAGGCCACAAGTTGATATA
Found at i:16461627 original size:31 final size:29
Alignment explanation
Indices: 16461560--16461635 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
16461550 AAATATTTAT
*
16461560 AATATCCACAATAGCTAAACAAGATATAC
1 AATATCCACAATAACTAAACAAGATATAC
* * *
16461589 AATATCCACAGTAACTAAGCAAGATATATTG
1 AATATCCACAATAACTAAACAAGATATA--C
*
16461620 AATATCCATAATAACT
1 AATATCCACAATAACT
16461636 TACCAATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 25 0.64
31 14 0.36
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.25
Consensus pattern (29 bp):
AATATCCACAATAACTAAACAAGATATAC
Found at i:16474638 original size:58 final size:57
Alignment explanation
Indices: 16474549--16474668 Score: 213
Period size: 58 Copynumber: 2.1 Consensus size: 57
16474539 AGGGTCTCAT
*
16474549 CTTTGCATGCATAGCATTTATTAAATCGTATAAAATAAATCTATCACATGTATACTA
1 CTTTGCATGCATAGCATTTATTAAATCGTATAAAATAAATCTATCACATGCATACTA
*
16474606 CTTTGCATTGCATAGCATTTATTAAATTGTATAAAATAAATCTATCACATGCATACTA
1 CTTTGCA-TGCATAGCATTTATTAAATCGTATAAAATAAATCTATCACATGCATACTA
16474664 CTTTG
1 CTTTG
16474669 GATGATTATG
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
57 7 0.12
58 53 0.88
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (57 bp):
CTTTGCATGCATAGCATTTATTAAATCGTATAAAATAAATCTATCACATGCATACTA
Found at i:16476293 original size:180 final size:179
Alignment explanation
Indices: 16475921--16476358 Score: 603
Period size: 180 Copynumber: 2.4 Consensus size: 179
16475911 TGGTGTATAT
*
16475921 TTAGGAATTTAATTCC-AATAAAATTTATCCTGATAGATAACTCATGGAACTATTCCAGAATAAG
1 TTAGGAATTTAATTCCTAATAAAATTTATCCTGATAGATAACTCATGGAACTATTCCAGAATAAA
* * *
16475985 TTTTCAGGATTTTAGAAAGTGATTTGTCCATTCAAAAATTCAAAAACCGTGACCTTTATTTACAG
66 TTTTCAGGATTTTAGAAAGTGATTTGGCCATTCAAAAATTCAAAAACCGCGACCTTTATCTACAG
*** *
16476050 GTAGAAGAATTGGTTTTTTAGACATTTTGAAATTCTTTGTGACTAAAAA
131 GTAGAAGAATCAATTTTTAAGACATTTTGAAATTCTTTGTGACTAAAAA
* * **
16476099 TTAGGAATTTAATTCCTAATAAAATTTATCCTGATAGATAACTTATGGAAATATTTGAGAATAAA
1 TTAGGAATTTAATTCCTAATAAAATTTATCCTGATAGATAACTCATGGAACTATTCCAGAATAAA
* * * *
16476164 TTTTTAGGATTTTATG-AGGTGATTTGGCCATTCAAAAAATTCAAAAACGGCGACCTTTATCTGC
66 TTTTCAGGATTTTA-GAAAGTGATTTGGCCATTC-AAAAATTCAAAAACCGCGACCTTTATCTAC
* * *
16476228 AGGTGGCAGAATCAATTTTTAAGA-ACTTTTGAAATTCTTTGTGACTCAAAA
129 AGGTAGAAGAATCAATTTTTAAGACA-TTTTGAAATTCTTTGTGACTAAAAA
* * * **
16476279 TTAGAAATTTAATTCCTAATAAAATTTATCCTGATATATAACTCATGGAACTATTCCATAATATT
1 TTAGGAATTTAATTCCTAATAAAATTTATCCTGATAGATAACTCATGGAACTATTCCAGAATAAA
*
16476344 TTTTCAGGGTTTTAG
66 TTTTCAGGATTTTAG
16476359 GAGATGCATT
Statistics
Matches: 226, Mismatches: 30, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
178 16 0.07
179 73 0.32
180 137 0.61
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.37
Consensus pattern (179 bp):
TTAGGAATTTAATTCCTAATAAAATTTATCCTGATAGATAACTCATGGAACTATTCCAGAATAAA
TTTTCAGGATTTTAGAAAGTGATTTGGCCATTCAAAAATTCAAAAACCGCGACCTTTATCTACAG
GTAGAAGAATCAATTTTTAAGACATTTTGAAATTCTTTGTGACTAAAAA
Found at i:16476381 original size:180 final size:177
Alignment explanation
Indices: 16475921--16476409 Score: 576
Period size: 180 Copynumber: 2.7 Consensus size: 177
16475911 TGGTGTATAT
*
16475921 TTAGGAATTTAATTCC-AATAAAATTTATCCTGATAGATAACTCATGGAACTATTCCAGAATAAG
1 TTAGGAATTTAATTCCTAATAAAATTTATCCTGATAGATAACTCATGGAACTATTCCAGAATAAT
* * *
16475985 TTTTCAGGATTTTAGAAAGTGATTT-GTCCATTC-AAAAATTCAAAAACCGTGACCTTTATTTAC
66 TTTTCAGGATTTTAGAGA-TGATTTGGT---TTCAAAAAATTCAAAAACCGCGACCTTTATCTAC
*** *
16476048 AGGTAGAAGAATTGGTTTTTTAGACATTTTGAAATTCTTTGTGACTAAAAA
127 AGGTAGAAGAATCAATTTTTAAGACATTTTGAAATTCTTTGTGACTAAAAA
* * **
16476099 TTAGGAATTTAATTCCTAATAAAATTTATCCTGATAGATAACTTATGGAAATATTTGAGAATAAA
1 TTAGGAATTTAATTCCTAATAAAATTTATCCTGATAGATAACTCATGGAACTATTCCAGAAT-AA
* * * *
16476164 TTTTT-AGGATTTTATGAGGTGATTTGGCCATTCAAAAAATTCAAAAACGGCGACCTTTATCTGC
65 TTTTTCAGGATTTTA-GAGATGATTTGG--TTTCAAAAAATTCAAAAACCGCGACCTTTATCTAC
* * *
16476228 AGGTGGCAGAATCAATTTTTAAGA-ACTTTTGAAATTCTTTGTGACTCAAAA
127 AGGTAGAAGAATCAATTTTTAAGACA-TTTTGAAATTCTTTGTGACTAAAAA
* * * *
16476279 TTAGAAATTTAATTCCTAATAAAATTTATCCTGATATATAACTCATGGAACTATTCCATAATATT
1 TTAGGAATTTAATTCCTAATAAAATTTATCCTGATAGATAACTCATGGAACTATTCCAGAATAAT
* * **
16476344 TTTTCAGGGTTTTAGGAGATGCATTTGGTTGTCAAAAAAATT-AAAAGCCATGACCTTTATCTAC
66 TTTTCAGGATTTTA-GAGATG-ATTTGGTT-TC-AAAAAATTCAAAAACCGCGACCTTTATCTAC
16476408 AG
127 AG
16476410 AGGCAGTTTC
Statistics
Matches: 263, Mismatches: 36, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
178 16 0.06
179 67 0.25
180 166 0.63
181 14 0.05
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (177 bp):
TTAGGAATTTAATTCCTAATAAAATTTATCCTGATAGATAACTCATGGAACTATTCCAGAATAAT
TTTTCAGGATTTTAGAGATGATTTGGTTTCAAAAAATTCAAAAACCGCGACCTTTATCTACAGGT
AGAAGAATCAATTTTTAAGACATTTTGAAATTCTTTGTGACTAAAAA
Found at i:16481777 original size:10 final size:10
Alignment explanation
Indices: 16481762--16481787 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
16481752 TATATAATTC
16481762 TTATTATTTT
1 TTATTATTTT
16481772 TTATTATTTT
1 TTATTATTTT
16481782 TTATTA
1 TTATTA
16481788 AGTAAAAAAA
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTATTATTTT
Found at i:16482109 original size:2 final size:2
Alignment explanation
Indices: 16482102--16482159 Score: 93
Period size: 2 Copynumber: 29.5 Consensus size: 2
16482092 TTTAAAAATA
16482102 AT AT AT AT -T AT -T AT AT AT AT AT AT AT AT AT AT AT AT AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
16482143 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
16482160 AGTTTTACAT
Statistics
Matches: 53, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.04
2 49 0.92
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16494077 original size:2 final size:2
Alignment explanation
Indices: 16494070--16494095 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16494060 GAGGACATAA
16494070 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
16494096 GACTTGTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16498956 original size:15 final size:15
Alignment explanation
Indices: 16498916--16498957 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
16498906 TTTTATTTTC
*
16498916 TTTTCTTTTTACATT
1 TTTTCTTTTTTCATT
* *
16498931 TTTGCTATTTTCATT
1 TTTTCTTTTTTCATT
16498946 TTTTCTTTTTTC
1 TTTTCTTTTTTC
16498958 TCTTTTAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.10, C:0.14, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTTCTTTTTTCATT
Found at i:16498963 original size:22 final size:23
Alignment explanation
Indices: 16498914--16498968 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
16498904 ATTTTTATTT
16498914 TCTTTTC-TTTTTACATTTTTGC
1 TCTTTTCATTTTTACATTTTTGC
* * *
16498936 TATTTTCATTTTTTC-TTTTTTC
1 TCTTTTCATTTTTACATTTTTGC
*
16498958 TCTTTTAATTT
1 TCTTTTCATTT
16498969 CTTTTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.11, C:0.15, G:0.02, T:0.73
Consensus pattern (23 bp):
TCTTTTCATTTTTACATTTTTGC
Found at i:16509016 original size:26 final size:26
Alignment explanation
Indices: 16508965--16509016 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
16508955 ATAAGAATTT
* *
16508965 ACTTAATTTAAAATAAAAATATAAAA
1 ACTTAATTTAAAATAAAAAAAAAAAA
16508991 ACTTAA-TTAAACATAAAAAAAAAAAA
1 ACTTAATTTAAA-ATAAAAAAAAAAAA
16509017 TCTATAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (26 bp):
ACTTAATTTAAAATAAAAAAAAAAAA
Found at i:16510877 original size:26 final size:26
Alignment explanation
Indices: 16510841--16510894 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
16510831 ATAAATTCAT
16510841 ACCATTCTGCGCTATGCAAACACAAC
1 ACCATTCTGCGCTATGCAAACACAAC
16510867 ACCATTCTGCGCTATGCAAACACAAC
1 ACCATTCTGCGCTATGCAAACACAAC
16510893 AC
1 AC
16510895 ACTAGACTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.35, G:0.11, T:0.19
Consensus pattern (26 bp):
ACCATTCTGCGCTATGCAAACACAAC
Found at i:16512993 original size:2 final size:2
Alignment explanation
Indices: 16512986--16513029 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
16512976 NNNNNNNNNN
16512986 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
16513028 GA
1 GA
16513030 AGGAAAGAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16513328 original size:23 final size:23
Alignment explanation
Indices: 16513284--16513329 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
16513274 TTTAAAAAAA
*
16513284 TATTTTATAAAATACTATATTTT
1 TATTTTATAAAATACTAAATTTT
* *
16513307 TATTTTTTAAAATA-TAAAATTT
1 TATTTTATAAAATACTAAATTTT
16513329 T
1 T
16513330 CAATTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTTTATAAAATACTAAATTTT
Found at i:16513361 original size:27 final size:26
Alignment explanation
Indices: 16513310--16513361 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
16513300 ATATTTTTAT
* **
16513310 TTTTTAAAATATAAAATTTTCAATTA
1 TTTTTAAAAAATAAAATTTAAAATTA
16513336 TTTTTAAAAAATAAAAATTTAAAATT
1 TTTTTAAAAAAT-AAAATTTAAAATT
16513362 TTTAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
TTTTTAAAAAATAAAATTTAAAATTA
Found at i:16519378 original size:34 final size:35
Alignment explanation
Indices: 16519335--16519405 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
16519325 GGAAGTGTAG
16519335 ATGATGATATTG-CTTGTGCGA-GTAGGGAGTGCAC
1 ATGATGATATTGCCTTGTGC-ATGTAGGGAGTGCAC
16519369 ATGATGATATTGCCTTGTGCATGTAGGGAGTGCAC
1 ATGATGATATTGCCTTGTGCATGTAGGGAGTGCAC
16519404 AT
1 AT
16519406 TGGCTGAGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
34 13 0.37
35 22 0.63
ACGTcount: A:0.24, C:0.13, G:0.32, T:0.31
Consensus pattern (35 bp):
ATGATGATATTGCCTTGTGCATGTAGGGAGTGCAC
Found at i:16521300 original size:19 final size:20
Alignment explanation
Indices: 16521261--16521302 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
16521251 TCCCTTTTTT
*
16521261 TAATATTTTTTAAAATATAA
1 TAATAATTTTTAAAATATAA
16521281 TAATAATTTTTAAAAT-TAA
1 TAATAATTTTTAAAATATAA
16521300 TAA
1 TAA
16521303 AGAAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATAATTTTTAAAATATAA
Found at i:16531980 original size:3 final size:3
Alignment explanation
Indices: 16531972--16532005 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
16531962 AATATAAATG
16531972 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16532006 TAAATAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16532011 original size:9 final size:10
Alignment explanation
Indices: 16531972--16532011 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
16531962 AATATAAATG
16531972 AATAATA-AT
1 AATAATATAT
16531981 AATAATA-AT
1 AATAATATAT
16531990 AATAATA-AT
1 AATAATATAT
16531999 AATAATATA-
1 AATAATATAT
16532008 AATA
1 AATA
16532012 GAAAGAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 29 0.97
10 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AATAATATAT
Found at i:16533871 original size:6 final size:6
Alignment explanation
Indices: 16533856--16533891 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
16533846 TCCAAACATA
* *
16533856 CCCTTC CCCTTT CCCTTT CCCTTC CCCTTC CCCTTC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC
16533892 GCCTCTCTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (6 bp):
CCCTTC
Found at i:16533879 original size:18 final size:18
Alignment explanation
Indices: 16533856--16533890 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16533846 TCCAAACATA
*
16533856 CCCTTCCCCTTTCCCTTT
1 CCCTTCCCCTTCCCCTTT
16533874 CCCTTCCCCTTCCCCTT
1 CCCTTCCCCTTCCCCTT
16533891 CGCCTCTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (18 bp):
CCCTTCCCCTTCCCCTTT
Found at i:16536915 original size:98 final size:101
Alignment explanation
Indices: 16536717--16536916 Score: 266
Period size: 102 Copynumber: 2.0 Consensus size: 101
16536707 AGTATGTAAG
* * *
16536717 TTGTTTATTCCTGTTCATATAAATTCAATTTCAATGTTCTAAATTGCTGTATTTTTTTTATTTGT
1 TTGTTTATTCCTGTGCATATAAATTCAATCTCAATGTTCT-AATTACTGTATTTTTTTTATTTGT
16536782 ATTTTTAAGAACTTACAATGCAGTCATTAACTTTTTT
65 ATTTTTAAGAACTTACAATGCAGTCATTAACTTTTTT
* * * *
16536819 TTGTTTATTGCTGTGCATATCAATTTAATCTCAATGTTCT-ATTACTGTA-TTTTTTT-TTTGTC
1 TTGTTTATTCCTGTGCATATAAATTCAATCTCAATGTTCTAATTACTGTATTTTTTTTATTTGTA
* *
16536881 TGTTTTAA-AACTTACAATGTAGTCATTTA-TTTTTT
66 T-TTTTAAGAACTTACAATGCAGTCATTAACTTTTTT
16536916 T
1 T
16536917 GTGTGTCTAT
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
97 7 0.08
98 25 0.28
99 13 0.15
100 8 0.09
102 35 0.40
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.55
Consensus pattern (101 bp):
TTGTTTATTCCTGTGCATATAAATTCAATCTCAATGTTCTAATTACTGTATTTTTTTTATTTGTA
TTTTTAAGAACTTACAATGCAGTCATTAACTTTTTT
Found at i:16545980 original size:2 final size:2
Alignment explanation
Indices: 16545973--16546007 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
16545963 ATTTGGATAT
*
16545973 TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
16546008 TAACTCAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:16551197 original size:125 final size:124
Alignment explanation
Indices: 16551023--16551393 Score: 478
Period size: 125 Copynumber: 3.0 Consensus size: 124
16551013 ATGGTAAACC
* * * *
16551023 CCAGAAATGACAATATGGCTCTATTGAAAGGGAGCAATTATGGATTATGCACTGTACTCTTTTTT
1 CCAGAAGTGACAATATGGCTCAATTG-AGGGGAGCAATTATGGACTATGCACTGTACTCTTTTTT
* * *
16551088 CCTTTTGATCGATTTTTGTCCCATTGGGTTTCTCC-GACTTAAGGTTTTTAATGAGGCAAT
65 CCTTTTAATCGATTTTTGTCCCACTGGGTTTTTCCAG-CTTAAGGTTTTTAATGAGGCAAT
* *
16551148 CCAGAAGTGACAATATGACTCAATTGAGGGTGAGAAATTATGGACTATGCACTGTACTCTTTTTT
1 CCAGAAGTGACAATATGGCTCAATTGAGGG-GAGCAATTATGGACTATGCACTGTACTCTTTTTT
* *
16551213 CCTTATAATC-AGTTTTTGTCCCACTGGGTTTTTCCAGCTTAAGGTTTTTAATGAGGCATT
65 CCTTTTAATCGA-TTTTTGTCCCACTGGGTTTTTCCAGCTTAAGGTTTTTAATGAGGCAAT
* * * *
16551273 CCAAAAAGTGGCAATATGGCTCAATTGAGGAGGAGCAATTATGAACTATGCACTGTACTTTTTTT
1 CC-AGAAGTGACAATATGGCTCAATTGAGG-GGAGCAATTATGGACTATGCACTGTACTCTTTTT
* * * * *
16551338 TTCTTTTAACTTG-TTTTTATCCCACTGAGTTTTTTCAGCTTAAGGTTTTTAATGAG
64 TCCTTTTAA-TCGATTTTTGTCCCACTGGGTTTTTCCAGCTTAAGGTTTTTAATGAG
16551394 ACGGTACAAT
Statistics
Matches: 216, Mismatches: 23, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
124 4 0.02
125 108 0.50
126 102 0.47
127 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (124 bp):
CCAGAAGTGACAATATGGCTCAATTGAGGGGAGCAATTATGGACTATGCACTGTACTCTTTTTTC
CTTTTAATCGATTTTTGTCCCACTGGGTTTTTCCAGCTTAAGGTTTTTAATGAGGCAAT
Found at i:16551337 original size:126 final size:124
Alignment explanation
Indices: 16551030--16551393 Score: 473
Period size: 126 Copynumber: 2.9 Consensus size: 124
16551020 ACCCCAGAAA
* * *
16551030 TGACAATATGGCTCTATTGA-AAGGGAGCAATTATGGATTATGCACTGTACTCTTTTTTCCTTTT
1 TGACAATATGGCTCAATTGAGGA-GGAGCAATTATGGACTATGCACTGTACTCTTTTTTCCTTTT
* * * *
16551094 GATCGATTTTTGTCCCATTGGGTTTCTCC-GACTTAAGGTTTTTAATGAGGCAATCCAGAAG
65 AATCG-TTTTTGTCCCACTGGGTTTTTCCAG-CTTAAGGTTTTTAATGAGGCAATCCAAAAG
* * *
16551155 TGACAATATGACTCAATTGAGG-GTGAGAAATTATGGACTATGCACTGTACTCTTTTTTCCTTAT
1 TGACAATATGGCTCAATTGAGGAG-GAGCAATTATGGACTATGCACTGTACTCTTTTTTCCTTTT
*
16551219 AATCAGTTTTTGTCCCACTGGGTTTTTCCAGCTTAAGGTTTTTAATGAGGCATTCCAAAAAG
65 AATC-GTTTTTGTCCCACTGGGTTTTTCCAGCTTAAGGTTTTTAATGAGGCAATCC-AAAAG
* * * *
16551281 TGGCAATATGGCTCAATTGAGGAGGAGCAATTATGAACTATGCACTGTACTTTTTTTTTCTTTTA
1 TGACAATATGGCTCAATTGAGGAGGAGCAATTATGGACTATGCACTGTACTCTTTTTTCCTTTTA
* * * *
16551346 ACTTGTTTTTATCCCACTGAGTTTTTTCAGCTTAAGGTTTTTAATGAG
66 A-TCGTTTTTGTCCCACTGGGTTTTTCCAGCTTAAGGTTTTTAATGAG
16551394 ACGGTACAAT
Statistics
Matches: 210, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
124 1 0.00
125 103 0.49
126 104 0.50
127 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.40
Consensus pattern (124 bp):
TGACAATATGGCTCAATTGAGGAGGAGCAATTATGGACTATGCACTGTACTCTTTTTTCCTTTTA
ATCGTTTTTGTCCCACTGGGTTTTTCCAGCTTAAGGTTTTTAATGAGGCAATCCAAAAG
Found at i:16551594 original size:25 final size:23
Alignment explanation
Indices: 16551543--16551600 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 23
16551533 TATGTATATT
*
16551543 TCTATCTAT-TAAATTCATCCCT
1 TCTATCTATGTAAATTCATCCCC
*
16551565 TCTATTTATGTAAATTCATGTCCCC
1 TCTATCTATGTAAATTCA--TCCCC
16551590 TCTATCTATGT
1 TCTATCTATGT
16551601 GTGCCTATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.27
23 8 0.27
25 14 0.47
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.47
Consensus pattern (23 bp):
TCTATCTATGTAAATTCATCCCC
Found at i:16552047 original size:23 final size:23
Alignment explanation
Indices: 16552021--16552101 Score: 64
Period size: 21 Copynumber: 3.7 Consensus size: 23
16552011 TTATAAATTT
*
16552021 AATAATAAT-TTAATATTTTATTA
1 AATAA-AATATTAATAATTTATTA
16552044 AATAAAATATTAATAATTTA-T-
1 AATAAAATATTAATAATTTATTA
* *
16552065 AATCAACATATTAA-AATTTAGT-
1 AAT-AAAATATTAATAATTTATTA
* *
16552087 ATTAAAACATTAATA
1 AATAAAATATTAATA
16552102 TAATTTTTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
21 17 0.35
22 17 0.35
23 15 0.31
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (23 bp):
AATAAAATATTAATAATTTATTA
Found at i:16558192 original size:28 final size:28
Alignment explanation
Indices: 16558148--16558226 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
16558138 AGAAGTAAAT
* * *
16558148 AACCCATCAAAAATGGATAAATACTTGC
1 AACCCACCAAAAGTGGATGAATACTTGC
*
16558176 AACCCACCAAAAGTGGATGAATACTTTC
1 AACCCACCAAAAGTGGATGAATACTTGC
*
16558204 AACCCACCAGAAGTGGATGAATA
1 AACCCACCAAAAGTGGATGAATA
16558227 ATAAAAAGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (28 bp):
AACCCACCAAAAGTGGATGAATACTTGC
Found at i:16559891 original size:22 final size:22
Alignment explanation
Indices: 16559883--16560005 Score: 119
Period size: 22 Copynumber: 5.8 Consensus size: 22
16559873 ACACATATAT
** * *
16559883 ATACATATACATATACGTATAT
1 ATACATATACATATATATACAC
* * *
16559905 ATACATATACATATATGTATAT
1 ATACATATACATATATATACAC
* *
16559927 GTATATATACATATATAT--AC
1 ATACATATACATATATATACAC
*
16559947 ATACATATACATACATATACAC
1 ATACATATACATATATATACAC
*
16559969 ATACATAAACATATATAT--AC
1 ATACATATACATATATATACAC
16559989 ATACATATACATATATA
1 ATACATATACATATATA
16560006 CATATGTATA
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
20 34 0.39
22 54 0.61
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (22 bp):
ATACATATACATATATATACAC
Found at i:16560010 original size:6 final size:6
Alignment explanation
Indices: 16559869--16560003 Score: 93
Period size: 6 Copynumber: 22.8 Consensus size: 6
16559859 ATATATGTAT
* * *
16559869 ATATAC ACATAT ATATAC ATATAC ATATAC GTAT-- ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
* * * * *
16559915 ATAT-- ATGTAT ATGTAT ATATAC ATATAT ATACATAC ATATAC --ATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC AT--ATAC ATATAC ATATAC
* * *
16559961 ATATAC ACATAC ATAAAC ATATAT ATACATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC AT--ATAC ATATAC ATATA
16560004 TACATATGTA
Statistics
Matches: 102, Mismatches: 17, Indels: 20
0.73 0.12 0.14
Matches are distributed among these distances:
4 10 0.10
6 82 0.80
8 10 0.10
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (6 bp):
ATATAC
Found at i:16560015 original size:10 final size:10
Alignment explanation
Indices: 16559867--16560005 Score: 129
Period size: 10 Copynumber: 13.7 Consensus size: 10
16559857 CCATATATGT
*
16559867 ATATATACAC
1 ATATATATAC
16559877 ATATATATAC
1 ATATATATAC
16559887 ATATACATATAC
1 ATAT--ATATAC
*
16559899 GTATATATAC
1 ATATATATAC
*
16559909 ATATACAT--
1 ATATATATAC
* *
16559917 ATATGTATAT
1 ATATATATAC
*
16559927 GTATATATAC
1 ATATATATAC
16559937 ATATATATAC
1 ATATATATAC
*
16559947 ATACATATAC
1 ATATATATAC
*
16559957 ATACATATACAC
1 AT--ATATATAC
* *
16559969 ATACATAAAC
1 ATATATATAC
16559979 ATATATATAC
1 ATATATATAC
*
16559989 ATACATATAC
1 ATATATATAC
16559999 ATATATA
1 ATATATA
16560006 CATATGTATA
Statistics
Matches: 104, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
8 6 0.06
10 81 0.78
12 17 0.16
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (10 bp):
ATATATATAC
Found at i:16560057 original size:10 final size:10
Alignment explanation
Indices: 16559859--16560063 Score: 113
Period size: 10 Copynumber: 20.5 Consensus size: 10
16559849 ACCATATACC
*
16559859 ATATATGTAT
1 ATATATATAT
* *
16559869 ATATACACAT
1 ATATATATAT
*
16559879 ATATATACAT
1 ATATATATAT
* *
16559889 ATACATATAC
1 ATATATATAT
* *
16559899 GTATATATAC
1 ATATATATAT
*
16559909 ATATACATAT
1 ATATATATAT
* *
16559919 ATGTATATGT
1 ATATATATAT
*
16559929 ATATATACAT
1 ATATATATAT
*
16559939 ATATATACAT
1 ATATATATAT
* *
16559949 ACATATACAT
1 ATATATATAT
* * *
16559959 ACATATACAC
1 ATATATATAT
* * *
16559969 ATACATAAAC
1 ATATATATAT
*
16559979 ATATATATAC
1 ATATATATAT
* *
16559989 ATACATATAC
1 ATATATATAT
*
16559999 ATATATACAT
1 ATATATATAT
* *
16560009 ATGTATATGT
1 ATATATATAT
* *
16560019 ATGTATATGT
1 ATATATATAT
* * *
16560029 ATGTGTATGT
1 ATATATATAT
*
16560039 ATGTATATAT
1 ATATATATAT
16560049 ATATATATAT
1 ATATATATAT
16560059 ATATA
1 ATATA
16560064 AATCAATCAT
Statistics
Matches: 159, Mismatches: 36, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 159 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.40
Consensus pattern (10 bp):
ATATATATAT
Found at i:16560160 original size:42 final size:42
Alignment explanation
Indices: 16560108--16560191 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
16560098 ATCTCATATG
16560108 CAACGACTTATGCGCACTCCCACTCGCACATAGCCGGGTCAA
1 CAACGACTTATGCGCACTCCCACTCGCACATAGCCGGGTCAA
* * * *
16560150 CAACGGCTTATGTGCACTCCTACTCGCACATAGTCGGGTCAA
1 CAACGACTTATGCGCACTCCCACTCGCACATAGCCGGGTCAA
16560192 TATCATTACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.25, C:0.35, G:0.20, T:0.20
Consensus pattern (42 bp):
CAACGACTTATGCGCACTCCCACTCGCACATAGCCGGGTCAA
Found at i:16587096 original size:91 final size:91
Alignment explanation
Indices: 16586941--16587123 Score: 303
Period size: 91 Copynumber: 2.0 Consensus size: 91
16586931 AAATGACTGC
* *
16586941 TCAAGAACTAAACCCGCACTATCATGGTTAGCAATTTTACTCTATTATCACTGCAACGAGTATTG
1 TCAAGAACTAAACCCACACTATCATGGTTAGCAATTTTACTCTATTATCACTGCAACAAGTATTG
* * *
16587006 GCCCATTAGCAAATTAGTAAGATTCT
66 ACCCATTAGCAAATTAATAAGAATCT
* *
16587032 TCAAGATCTAAACCCACACTATCATGGTTAGCAATTTTACTCTATTATCATTGCAACAAGTATTG
1 TCAAGAACTAAACCCACACTATCATGGTTAGCAATTTTACTCTATTATCACTGCAACAAGTATTG
16587097 ACCCATTAGCAAATTAATAAGAATCT
66 ACCCATTAGCAAATTAATAAGAATCT
16587123 T
1 T
16587124 ATAAATTGAT
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 85 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (91 bp):
TCAAGAACTAAACCCACACTATCATGGTTAGCAATTTTACTCTATTATCACTGCAACAAGTATTG
ACCCATTAGCAAATTAATAAGAATCT
Found at i:16588285 original size:15 final size:15
Alignment explanation
Indices: 16588265--16588304 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
16588255 CTACCAAAGT
16588265 AAATAAAAATAAAAA
1 AAATAAAAATAAAAA
*
16588280 AAATAAAAATAAAAG
1 AAATAAAAATAAAAA
*
16588295 AAAGAAAAAT
1 AAATAAAAAT
16588305 GTATTTCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (15 bp):
AAATAAAAATAAAAA
Found at i:16590693 original size:26 final size:25
Alignment explanation
Indices: 16590648--16590900 Score: 86
Period size: 26 Copynumber: 9.5 Consensus size: 25
16590638 TACAACCCTC
* *
16590648 AAATATTAACGATTAAATTATAAATA
1 AAATATTAA-TATTTAATTATAAATA
16590674 AAATATTAATATTTAGATTATAAAT-
1 AAATATTAATATTTA-ATTATAAATA
** *
16590699 ---TATTAATATTTAAAAATTAATA
1 AAATATTAATATTTAATTATAAATA
* * *
16590721 ATCATAATAACATTTAACTTATAAATA
1 A-AATATTAATATTTAA-TTATAAATA
* *
16590748 AAATATTCATATTTTTAAATATTAATGAATA
1 AAATATT-A-ATATTT--A-ATT-ATAAATA
* *
16590779 AAATA-TAATAAATGTTAATATTTTAATTATC
1 AAATATTAAT--AT-TT-A-ATTATAA--ATA
* *
16590810 AATTATTAATATTTGAACTA-AATTATA
1 AAATATTAATATTT-AATTATAA--ATA
* * **
16590837 AATTATTAATAGTTAAAAATAAATA
1 AAATATTAATATTTAATTATAAATA
* *
16590862 ATCATAATAATATTTAAATTATAAATA
1 A-AATATTAATATTT-AATTATAAATA
16590889 AAATATTAATAT
1 AAATATTAATAT
16590901 GTTTAAATAT
Statistics
Matches: 170, Mismatches: 35, Indels: 44
0.68 0.14 0.18
Matches are distributed among these distances:
21 6 0.04
22 12 0.07
25 8 0.05
26 54 0.32
27 39 0.23
28 8 0.05
29 6 0.04
30 13 0.08
31 20 0.12
32 4 0.02
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (25 bp):
AAATATTAATATTTAATTATAAATA
Found at i:16590880 original size:48 final size:47
Alignment explanation
Indices: 16590828--16591029 Score: 152
Period size: 48 Copynumber: 4.3 Consensus size: 47
16590818 ATATTTGAAC
16590828 TAAATTATAAATTATTAATAGTTAAAAATAAATAATCATAATAATATT
1 TAAATTATAAATTATTAATAGTTAAAAATAAATAATCAT-ATAATATT
* * *
16590876 TAAATTATAAATAAAATATTAATATGTT-TAAAT-ATTAATGAT-TAA-ATT
1 TAAATTATAAAT----TATTAATA-GTTAAAAATAAATAATCATATAATATT
* * * * * *
16590924 GT-AA-TA-AAA-TATTAATATTTAAAGTATCAATTATTACTATAATGA-C
1 -TAAATTATAAATTATTAATAGTTAAA-AATAAATAATCA-TATAAT-ATT
*
16590970 TAAATTATAAATTATTAATATTTAAAAATAAATAATCATAATAATATT
1 TAAATTATAAATTATTAATAGTTAAAAATAAATAATCAT-ATAATATT
16591018 TAAATTATAAAT
1 TAAATTATAAAT
16591030 AAAATATTAA
Statistics
Matches: 120, Mismatches: 15, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
40 2 0.02
41 9 0.08
42 2 0.02
43 5 0.04
44 1 0.01
45 4 0.03
46 5 0.04
47 7 0.06
48 45 0.38
49 18 0.15
51 7 0.06
52 12 0.10
53 3 0.03
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (47 bp):
TAAATTATAAATTATTAATAGTTAAAAATAAATAATCATATAATATT
Found at i:16590909 original size:52 final size:51
Alignment explanation
Indices: 16590834--16591051 Score: 150
Period size: 52 Copynumber: 4.5 Consensus size: 51
16590824 GAACTAAATT
* *
16590834 ATAAATTATTAATA-GTTAAAAATAAATAATCATAATAATATTTAAATTATAA
1 ATAAAATATTAATATGTT-TAAATAAATAATCATAATAATA-TTAAATTATAA
* *
16590886 ATAAAATATTAATATG-TT---TAAAT-AT--TAAT--GATTAAATTGT-A
1 ATAAAATATTAATATGTTTAAATAAATAATCATAATAATATTAAATTATAA
* * *
16590927 ATAAAATATTAATA--TTTAAAGTATCAATTATTACT-ATAATGACTAAATTATAA
1 ATAAAATATTAATATGTTTAAA-TA--AATAATCA-TAATAAT-ATTAAATTATAA
*
16590980 AT----TATTAATAT-TTAAAAATAAATAATCATAATAATATTTAAATTATAA
1 ATAAAATATTAATATGTT-TAAATAAATAATCATAATAATA-TTAAATTATAA
16591028 ATAAAATATTAATATGTTTAAATA
1 ATAAAATATTAATATGTTTAAATA
16591052 TTAATGATTA
Statistics
Matches: 129, Mismatches: 12, Indels: 50
0.68 0.06 0.26
Matches are distributed among these distances:
40 2 0.02
41 15 0.12
42 8 0.06
43 1 0.01
44 2 0.02
45 4 0.03
46 3 0.02
47 6 0.05
48 28 0.22
49 10 0.08
50 5 0.04
51 3 0.02
52 36 0.28
53 6 0.05
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (51 bp):
ATAAAATATTAATATGTTTAAATAAATAATCATAATAATATTAAATTATAA
Done.