Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 163 of 218
Found at i:49321658 original size:54 final size:54
Alignment explanation
Indices: 49321586--49321765 Score: 256
Period size: 54 Copynumber: 3.3 Consensus size: 54
49321576 ACATATATAA
* * * * * * *
49321586 TACATAACTTACATAATAACTTACATAACTTATATAGAAACTTAT-ATATA-AACT
1 TACATAACTTACATAATAACATA-ACAACTTAGATA-ATACATATCCTACATAACT
*
49321640 TGCATAACTTACATAATAACATAACAACTTAGATAATACATATCCTACATAACT
1 TACATAACTTACATAATAACATAACAACTTAGATAATACATATCCTACATAACT
49321694 TACATAACTTACATAATAACATAACAACTTAGATAATACATATCCTACATAACT
1 TACATAACTTACATAATAACATAACAACTTAGATAATACATATCCTACATAACT
49321748 TACATAACTTACATAATA
1 TACATAACTTACATAATA
49321766 CACCACTTAC
Statistics
Matches: 115, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
52 6 0.05
53 13 0.11
54 96 0.83
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (54 bp):
TACATAACTTACATAATAACATAACAACTTAGATAATACATATCCTACATAACT
Found at i:49321670 original size:20 final size:19
Alignment explanation
Indices: 49321645--49321735 Score: 77
Period size: 20 Copynumber: 4.9 Consensus size: 19
49321635 AAACTTGCAT
49321645 AACTTACATAATAACATAAC
1 AACTTACATAAT-ACATAAC
* *
49321665 AACTTAGATAATACATATC
1 AACTTACATAATACATAAC
49321684 --C-TACATAACTTACAT---
1 AACTTACATAA--TACATAAC
49321699 AACTTACATAATAACATAAC
1 AACTTACATAAT-ACATAAC
*
49321719 AACTTAGATAATACATA
1 AACTTACATAATACATA
49321736 TCCTACATAA
Statistics
Matches: 58, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
16 7 0.12
17 6 0.10
18 12 0.21
19 11 0.19
20 22 0.38
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.29
Consensus pattern (19 bp):
AACTTACATAATACATAAC
Found at i:49321703 original size:63 final size:60
Alignment explanation
Indices: 49321636--49321815 Score: 189
Period size: 54 Copynumber: 3.0 Consensus size: 60
49321626 CTTATATATA
49321636 AACTTGCATAACTTACATAATAACATAACAACTTAGATAATACATATCCTACATAAC-T-T
1 AACTT-CATAACTTACATAATAACATAACAACTTAGATAATACATATCCTACATAACTTAT
49321695 -A---CATAACTTACATAATAACATAACAACTTAGATAATACATATCCTACATAACTTACAT
1 AACTTCATAACTTACATAATAACATAACAACTTAGATAATACATATCCTACATAACTT--AT
* * * * *
49321753 AACTTACATAA--TACACCACTTACATAAATAACTT-GCATAATACATAGCCTACATAACTTAT
1 AACTT-CATAACTTACA-TAATAACAT-AACAACTTAG-ATAATACATATCCTACATAACTTAT
49321814 AA
1 AA
49321816 AACTTACATG
Statistics
Matches: 104, Mismatches: 5, Indels: 22
0.79 0.04 0.17
Matches are distributed among these distances:
54 51 0.49
55 1 0.01
58 2 0.02
59 1 0.01
61 8 0.08
62 7 0.07
63 34 0.33
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (60 bp):
AACTTCATAACTTACATAATAACATAACAACTTAGATAATACATATCCTACATAACTTAT
Found at i:49321773 original size:16 final size:15
Alignment explanation
Indices: 49321754--49321858 Score: 61
Period size: 16 Copynumber: 6.7 Consensus size: 15
49321744 AACTTACATA
49321754 ACTTACATAATACACC
1 ACTTACATAATACA-C
*
49321770 ACTTACATAA-ATA-
1 ACTTACATAATACAC
* *
49321783 ACTTGCATAATACAT
1 ACTTACATAATACAC
* * *
49321798 AGCCTACATAACTTATAAA
1 A-CTTACATAA--TA-CAC
*
49321817 ACTTACATGATACACC
1 ACTTACATAATACA-C
*
49321833 ACTTACATAATACATT
1 ACTTACATAATACA-C
49321849 ACTTACATAA
1 ACTTACATAA
49321859 CTTACATTAT
Statistics
Matches: 68, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
13 9 0.13
14 2 0.03
15 4 0.06
16 42 0.62
18 9 0.13
19 2 0.03
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.30
Consensus pattern (15 bp):
ACTTACATAATACAC
Found at i:49321805 original size:29 final size:29
Alignment explanation
Indices: 49321751--49321842 Score: 78
Period size: 29 Copynumber: 3.0 Consensus size: 29
49321741 CATAACTTAC
*
49321751 ATAACTTACATAATACACCACTTACATAA
1 ATAACTTACATAATACACCACCTACATAA
* *
49321780 ATAACTTGCATAATACA-TAGCCTACATAA
1 ATAACTTACATAATACACCA-CCTACATAA
* *
49321809 CTTATAAAACTTACATGATACACCACTTACATAA
1 ---AT--AACTTACATAATACACCACCTACATAA
49321843 TACATTACTT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
28 1 0.02
29 24 0.49
32 2 0.04
34 21 0.43
35 1 0.02
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (29 bp):
ATAACTTACATAATACACCACCTACATAA
Found at i:49321853 original size:41 final size:41
Alignment explanation
Indices: 49321802--49321883 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
49321792 ATACATAGCC
* *
49321802 TACATAACTTATAAAACTTACATGATACACCACTTACATAA
1 TACATAACTTACAAAACTTACATGATACACAACTTACATAA
* * *
49321843 TACATTACTTACATAACTTACATTATACACAACTTACATAA
1 TACATAACTTACAAAACTTACATGATACACAACTTACATAA
49321884 CTTAATTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (41 bp):
TACATAACTTACAAAACTTACATGATACACAACTTACATAA
Found at i:49321870 original size:25 final size:25
Alignment explanation
Indices: 49321833--49321910 Score: 92
Period size: 25 Copynumber: 3.3 Consensus size: 25
49321823 ATGATACACC
*
49321833 ACTTACATAATACATTACTTACATA
1 ACTTACATTATACATTACTTACATA
**
49321858 ACTTACATTATACACAACTTACATA
1 ACTTACATTATACATTACTTACATA
*
49321883 ACTTA-ATTA-ATATTA--TACATA
1 ACTTACATTATACATTACTTACATA
49321904 ACTTACA
1 ACTTACA
49321911 GCCAGGATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
21 11 0.24
22 1 0.02
23 3 0.07
24 4 0.09
25 27 0.59
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (25 bp):
ACTTACATTATACATTACTTACATA
Found at i:49323676 original size:21 final size:21
Alignment explanation
Indices: 49323650--49323703 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
49323640 CAGCAACTTA
*
49323650 AAGCAGAGGCTGCAGCAAAAG
1 AAGCAGAGGCTGCAACAAAAG
*
49323671 AAGCAGAGGCTACAACAAAAG
1 AAGCAGAGGCTGCAACAAAAG
49323692 AAGCAGAGGCTG
1 AAGCAGAGGCTG
49323704 TAGCGAGGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.44, C:0.19, G:0.31, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGCAACAAAAG
Found at i:49324119 original size:43 final size:42
Alignment explanation
Indices: 49324047--49324172 Score: 113
Period size: 37 Copynumber: 3.1 Consensus size: 42
49324037 GTCACAACAA
* * *
49324047 TAGCGGCGTTTGTGGTAGAAG-AGCTGCTAAAGAACATGGCCTT
1 TAGCGGCGTTTGTGGGA-AAGCA-CCGCTAAAGAACATGACCTT
49324090 TAGCGGCGTTTGTGGGAAATGCACCGCT-----A-ATGACCTT
1 TAGCGGCGTTTGTGGGAAA-GCACCGCTAAAGAACATGACCTT
* ** *
49324127 TAGCGGCGTTTTTATGAAAGCACCGCTAAAGAACATCACCTT
1 TAGCGGCGTTTGTGGGAAAGCACCGCTAAAGAACATGACCTT
49324169 TAGC
1 TAGC
49324173 AGCGATGACA
Statistics
Matches: 68, Mismatches: 7, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
36 8 0.12
37 23 0.34
38 1 0.01
41 1 0.01
42 13 0.19
43 21 0.31
44 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGGAAAGCACCGCTAAAGAACATGACCTT
Found at i:49325436 original size:18 final size:17
Alignment explanation
Indices: 49325404--49325445 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
49325394 TAATAATTAT
49325404 TTAAAAATTATAAAAATA
1 TTAAAAATTATAAAAA-A
49325422 TTAAAAATT-TCAAAAAA
1 TTAAAAATTAT-AAAAAA
49325439 -TAAAAAT
1 TTAAAAAT
49325446 ATTGATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.30
17 2 0.09
18 14 0.61
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAAAATTATAAAAAA
Found at i:49325455 original size:25 final size:25
Alignment explanation
Indices: 49325387--49325464 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 25
49325377 ACACATAAGT
49325387 AAAATATTAATAATTATTTA-AAAATTATA
1 AAAATATTAA-AA--ATTTATAAAA--ATA
49325416 AAAATATTAAAAATTTCA-AAAAATA
1 AAAATATTAAAAATTT-ATAAAAATA
* *
49325441 AAAATATTGATAATTTATAAAAAT
1 AAAATATTAAAAATTTATAAAAAT
49325465 TATACATATG
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
24 1 0.02
25 23 0.51
26 4 0.09
27 5 0.11
28 2 0.04
29 10 0.22
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (25 bp):
AAAATATTAAAAATTTATAAAAATA
Found at i:49326606 original size:21 final size:21
Alignment explanation
Indices: 49326582--49326621 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
49326572 AAAATGATTT
49326582 AAATAATTTTTTAATTTTTAA
1 AAATAATTTTTTAATTTTTAA
49326603 AAATAATTTTTTAATTTTT
1 AAATAATTTTTTAATTTTT
49326622 TTAATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
AAATAATTTTTTAATTTTTAA
Found at i:49326617 original size:29 final size:31
Alignment explanation
Indices: 49326550--49326633 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 31
49326540 TTTTTTAAAA
* *
49326550 TTAAAT-ATATTTTTATATTTTT-AAAATGAT
1 TTAAATAATTTTTTTA-ATTTTTAAAAATAAT
49326580 TTAAATAA-TTTTTTAATTTTTAAAAATAAT
1 TTAAATAATTTTTTTAATTTTTAAAAATAAT
**
49326610 TT-TTTAATTTTTTTAATTTTTAAA
1 TTAAATAATTTTTTTAATTTTTAAA
49326634 TTTAAAAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
29 9 0.19
30 37 0.79
31 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (31 bp):
TTAAATAATTTTTTTAATTTTTAAAAATAAT
Found at i:49329964 original size:31 final size:32
Alignment explanation
Indices: 49329929--49329991 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
49329919 CTTTTCAGAC
* *
49329929 TTTGAGCAAACTTTTCTTTGCT-TTTTATTCT
1 TTTGAACAAACTTATCTTTGCTCTTTTATTCT
*
49329960 TTTGAACAAACTTATCTTTGTTCTTTTATTCT
1 TTTGAACAAACTTATCTTTGCTCTTTTATTCT
49329992 CTCTCTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 19 0.68
32 9 0.32
ACGTcount: A:0.19, C:0.16, G:0.08, T:0.57
Consensus pattern (32 bp):
TTTGAACAAACTTATCTTTGCTCTTTTATTCT
Found at i:49330746 original size:22 final size:22
Alignment explanation
Indices: 49330696--49330739 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49330686 AATTATTAAC
* *
49330696 ATATTGAATTTTAATTAATTTT
1 ATATTAAATTTTAATAAATTTT
*
49330718 ATATTAAATTTTCATAAATTTT
1 ATATTAAATTTTAATAAATTTT
49330740 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
ATATTAAATTTTAATAAATTTT
Found at i:49337273 original size:36 final size:36
Alignment explanation
Indices: 49337228--49337300 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
49337218 CTTCATTTGA
49337228 TGATGGAAATTCATGATATGAATTCTATGGTAGGTT
1 TGATGGAAATTCATGATATGAATTCTATGGTAGGTT
49337264 TGATGGAAATTCATGATATGAATTCTATGGTAGGTT
1 TGATGGAAATTCATGATATGAATTCTATGGTAGGTT
49337300 T
1 T
49337301 ATAAAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (36 bp):
TGATGGAAATTCATGATATGAATTCTATGGTAGGTT
Found at i:49350093 original size:21 final size:20
Alignment explanation
Indices: 49350056--49350098 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
49350046 TTATTCCTTA
49350056 TTATTTTTTATATTTTATCTG
1 TTATTTTTTATATTTTA-CTG
*
49350077 TTATTTTTT-TGTGTTTACTG
1 TTATTTTTTATAT-TTTACTG
49350097 TT
1 TT
49350099 GCTACTGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.14, C:0.05, G:0.09, T:0.72
Consensus pattern (20 bp):
TTATTTTTTATATTTTACTG
Found at i:49360145 original size:43 final size:43
Alignment explanation
Indices: 49360080--49360199 Score: 213
Period size: 43 Copynumber: 2.8 Consensus size: 43
49360070 ATCGACCGCA
*
49360080 GCATGAATACTTAGTTCAATGGAAGGGACTTCCTAACAGCGCG
1 GCATGAATACTTAGTTCGATGGAAGGGACTTCCTAACAGCGCG
* *
49360123 GTATGAATACTTAGTTCGATGGAAGGGACTTCCTAACAGTGCG
1 GCATGAATACTTAGTTCGATGGAAGGGACTTCCTAACAGCGCG
49360166 GCATGAATACTTAGTTCGATGGAAGGGACTTCCT
1 GCATGAATACTTAGTTCGATGGAAGGGACTTCCT
49360200 GACATCGAAG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (43 bp):
GCATGAATACTTAGTTCGATGGAAGGGACTTCCTAACAGCGCG
Found at i:49362218 original size:13 final size:13
Alignment explanation
Indices: 49362200--49362232 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
49362190 CACTTATTAC
49362200 TTTTATTTAATAA
1 TTTTATTTAATAA
49362213 TTTTATTTAATAA
1 TTTTATTTAATAA
49362226 TTTTATT
1 TTTTATT
49362233 ACTCTTGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTATTTAATAA
Found at i:49383035 original size:17 final size:17
Alignment explanation
Indices: 49383021--49383067 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
49383011 TTTTCATATG
49383021 AAATAACAGTTCATACC
1 AAATAACAGTTCATACC
* *
49383038 AAATGACAGTTCATTCC
1 AAATAACAGTTCATACC
*
49383055 AATTAACAGTTCA
1 AAATAACAGTTCA
49383068 GAACACATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.28
Consensus pattern (17 bp):
AAATAACAGTTCATACC
Found at i:49637343 original size:30 final size:29
Alignment explanation
Indices: 49637279--49637367 Score: 123
Period size: 25 Copynumber: 3.1 Consensus size: 29
49637269 TCCATATTTA
49637279 TGGAAAGTCAAAGATATGGGTATCAA-A-
1 TGGAAAGTCAAAGATATGGGTATCAATAT
49637306 T--AAAGTCAAAGATATGGGTATCATATAT
1 TGGAAAGTCAAAGATATGGGTATCA-ATAT
49637334 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-A-ATAT
49637365 TGG
1 TGG
49637368 CATAAGAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
25 22 0.40
26 1 0.02
27 2 0.04
28 1 0.02
30 21 0.38
31 8 0.15
ACGTcount: A:0.40, C:0.07, G:0.26, T:0.27
Consensus pattern (29 bp):
TGGAAAGTCAAAGATATGGGTATCAATAT
Found at i:49642004 original size:30 final size:29
Alignment explanation
Indices: 49641940--49642028 Score: 123
Period size: 25 Copynumber: 3.1 Consensus size: 29
49641930 TCCATATTTA
49641940 TGGAAAGTCAAAGATATGGGTATCAA-A-
1 TGGAAAGTCAAAGATATGGGTATCAATAT
49641967 T--AAAGTCAAAGATATGGGTATCATATAT
1 TGGAAAGTCAAAGATATGGGTATCA-ATAT
49641995 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-A-ATAT
49642026 TGG
1 TGG
49642029 CATAAGAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
25 22 0.40
26 1 0.02
27 2 0.04
28 1 0.02
30 21 0.38
31 8 0.15
ACGTcount: A:0.40, C:0.07, G:0.26, T:0.27
Consensus pattern (29 bp):
TGGAAAGTCAAAGATATGGGTATCAATAT
Found at i:49642180 original size:2 final size:2
Alignment explanation
Indices: 49642173--49642197 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
49642163 AAGGCATTGT
49642173 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 T
49642198 TTGTAAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:49656341 original size:26 final size:24
Alignment explanation
Indices: 49656286--49656340 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
49656276 CACGACCACG
49656286 ATCTCTCCCTCTTTGATTTTTAAA
1 ATCTCTCCCTCTTTGATTTTTAAA
49656310 ATCTCTCCCTCTTTGATTTTTAAA
1 ATCTCTCCCTCTTTGATTTTTAAA
49656334 ATCTCTC
1 ATCTCTC
49656341 TTATTCTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.20, C:0.27, G:0.04, T:0.49
Consensus pattern (24 bp):
ATCTCTCCCTCTTTGATTTTTAAA
Found at i:49657361 original size:23 final size:23
Alignment explanation
Indices: 49657335--49657401 Score: 125
Period size: 23 Copynumber: 2.9 Consensus size: 23
49657325 TGTGTAACTT
*
49657335 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
49657358 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
49657381 TTCATATTCAAGTCTCTTCAC
1 TTCATATTCAAGTCTCTTCAC
49657402 ATTTCTAACT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.21, C:0.31, G:0.04, T:0.43
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:49662294 original size:14 final size:15
Alignment explanation
Indices: 49662268--49662304 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
49662258 AAATAAAGAT
49662268 AAATATTT-G-ATAA
1 AAATATTTGGAATAA
49662281 AAA-ATTTGGAATAA
1 AAATATTTGGAATAA
49662295 AAATATTTGG
1 AAATATTTGG
49662305 GCTTCGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.19
13 4 0.19
14 7 0.33
15 6 0.29
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (15 bp):
AAATATTTGGAATAA
Found at i:49664461 original size:17 final size:17
Alignment explanation
Indices: 49664441--49664542 Score: 60
Period size: 17 Copynumber: 5.9 Consensus size: 17
49664431 TGTTCATATG
*
49664441 AAATAACAATTCATACC
1 AAATAACAGTTCATACC
* *
49664458 AAATGACAGTTCATTCC
1 AAATAACAGTTCATACC
* * *
49664475 AATTAACAGTTCAGAAC
1 AAATAACAGTTCATACC
* * *
49664492 ACATAATAGTTACATTCC
1 AAATAACAGTT-CATACC
* * * * *
49664510 ATATAATATTTCATGCA
1 AAATAACAGTTCATACC
*
49664527 AAATAATAGTTCATAC
1 AAATAACAGTTCATAC
49664543 TCTATAAGAA
Statistics
Matches: 63, Mismatches: 21, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
17 51 0.81
18 12 0.19
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (17 bp):
AAATAACAGTTCATACC
Found at i:49665230 original size:18 final size:18
Alignment explanation
Indices: 49665189--49665238 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
49665179 ATAGTTTTGC
*
49665189 AAATTAATACAGTTTACC
1 AAATTAATACAGTTTACA
*
49665207 ATATTAATACA-TATTACA
1 AAATTAATACAGT-TTACA
*
49665225 AAATTAACACAGTT
1 AAATTAATACAGTT
49665239 CACCAGAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (18 bp):
AAATTAATACAGTTTACA
Found at i:49669218 original size:50 final size:51
Alignment explanation
Indices: 49669120--49669242 Score: 126
Period size: 49 Copynumber: 2.4 Consensus size: 51
49669110 AAATGAGTGA
* *
49669120 AAAG-TTATAAAAAATAAAAAAAATAAAAAAATATATTAATAATTATTTA-
1 AAAGATTATAAAAAATAAAAAAAATAAAAAAATAAATTAATAATAATTTAT
* * * * * *
49669169 AAA-ATTCTAAAAAATTAAGAAATTAAAAAAATAAAGTTATTGATAATTTAT
1 AAAGATTATAAAAAATAAAAAAAATAAAAAAATAAA-TTAATAATAATTTAT
49669220 AAAGATTATAAAATTAATAAAAA
1 AAAGATTATAAAA--AATAAAAA
49669243 TGCACATTTA
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
49 29 0.51
50 11 0.19
51 3 0.05
52 8 0.14
54 6 0.11
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (51 bp):
AAAGATTATAAAAAATAAAAAAAATAAAAAAATAAATTAATAATAATTTAT
Found at i:49672654 original size:50 final size:50
Alignment explanation
Indices: 49672313--49672654 Score: 375
Period size: 50 Copynumber: 6.9 Consensus size: 50
49672303 GATAATAACA
* * * * *
49672313 TGCCAAAGCGATGTCCCAAACATGGTCTTACATGGGA--TGTT-TCCTCTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTAT-CTC-AG
* * * ** * * **
49672362 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
* * * * *** * *
49672412 TGCCCATGCAATGTCCCAAACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
49672462 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
* * *
49672512 TGCCAACGCCATGTCCCAAACATGGTATTATATGGGACCTCTTATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
***
49672562 TGCCAACGCCATGTCCCAGACATGGTCTTACATCAAACCTCTTATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
*
49672612 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
49672655 TACCCAAATG
Statistics
Matches: 246, Mismatches: 44, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
49 32 0.13
50 210 0.85
51 3 0.01
52 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
Found at i:49673984 original size:23 final size:24
Alignment explanation
Indices: 49673941--49673985 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
49673931 GTTCAACTTC
49673941 ATAAATACTATCTTAGTTCTCTCT
1 ATAAATACTATCTTAGTTCTCTCT
49673965 ATAAATACTATC-TAGTTCTCT
1 ATAAATACTATCTTAGTTCTCT
49673986 ATCTTCCCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.44
Consensus pattern (24 bp):
ATAAATACTATCTTAGTTCTCTCT
Found at i:49674690 original size:39 final size:40
Alignment explanation
Indices: 49674627--49674705 Score: 151
Period size: 39 Copynumber: 2.0 Consensus size: 40
49674617 TTTATTCTTT
49674627 GTTCTTAATTTTTTTTTCTTTTAGTTGTTTCAATGTTTTC
1 GTTCTTAATTTTTTTTTCTTTTAGTTGTTTCAATGTTTTC
49674667 GTTCTTAA-TTTTTTTTCTTTTAGTTGTTTCAATGTTTTC
1 GTTCTTAATTTTTTTTTCTTTTAGTTGTTTCAATGTTTTC
49674706 TCTTTATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
39 31 0.79
40 8 0.21
ACGTcount: A:0.13, C:0.10, G:0.10, T:0.67
Consensus pattern (40 bp):
GTTCTTAATTTTTTTTTCTTTTAGTTGTTTCAATGTTTTC
Found at i:49674719 original size:39 final size:39
Alignment explanation
Indices: 49674629--49674720 Score: 134
Period size: 39 Copynumber: 2.4 Consensus size: 39
49674619 TATTCTTTGT
*
49674629 TCTTAATTTTTTTTTCTTTTAGTTGTTTCAATGTTTTCG
1 TCTTTATTTTTTTTTCTTTTAGTTGTTTCAATGTTTTCG
*
49674668 T-TCTTAATTTTTTTTCTTTTAGTTGTTTCAATGTTTTC-
1 TCT-TTATTTTTTTTTCTTTTAGTTGTTTCAATGTTTTCG
*
49674706 TCTTTATTATTTTTT
1 TCTTTATTTTTTTTT
49674721 AAAAATTGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
38 12 0.26
39 35 0.74
ACGTcount: A:0.13, C:0.10, G:0.08, T:0.70
Consensus pattern (39 bp):
TCTTTATTTTTTTTTCTTTTAGTTGTTTCAATGTTTTCG
Found at i:49688064 original size:22 final size:22
Alignment explanation
Indices: 49688008--49688064 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
49687998 TTGCACTTTG
49688008 TTTTAGGTGTTTTCCAATTTCA
1 TTTTAGGTGTTTTCCAATTTCA
* *
49688030 TTGTT-GCTATTTTCCAATTTCA
1 TT-TTAGGTGTTTTCCAATTTCA
49688052 TTTTAGGTGTTTT
1 TTTTAGGTGTTTT
49688065 ATGACCCGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 2 0.07
22 25 0.86
23 2 0.07
ACGTcount: A:0.16, C:0.12, G:0.14, T:0.58
Consensus pattern (22 bp):
TTTTAGGTGTTTTCCAATTTCA
Found at i:49692527 original size:20 final size:20
Alignment explanation
Indices: 49692502--49692547 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
49692492 TAGTAAAGCT
*
49692502 TAACAACCTATTTAAATAAG
1 TAACAACCTATTTAAATAAA
*
49692522 TAACAACCTATTTGAATAAA
1 TAACAACCTATTTAAATAAA
49692542 TAACAA
1 TAACAA
49692548 TGTAACACCC
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:0.52, C:0.15, G:0.04, T:0.28
Consensus pattern (20 bp):
TAACAACCTATTTAAATAAA
Found at i:49693929 original size:50 final size:50
Alignment explanation
Indices: 49693813--49694061 Score: 273
Period size: 50 Copynumber: 4.8 Consensus size: 50
49693803 GGTAAAAACA
* * * * ** * **
49693813 TGCCAAAGCCATGTCCCAAACATGGCCTTACATGGGATGTTCTCATGTCTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
49693864 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
49693914 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
49693964 TGCCCATGCCATGTCCTAGACATAGTCTTACAGGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATCTC--GG
* *
49694019 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
49694062 TTACCCAAAT
Statistics
Matches: 167, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
50 92 0.55
51 31 0.19
53 5 0.03
55 2 0.01
56 37 0.22
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:49693993 original size:100 final size:103
Alignment explanation
Indices: 49693812--49694061 Score: 326
Period size: 100 Copynumber: 2.4 Consensus size: 103
49693802 TGGTAAAAAC
* * ** * *
49693812 ATGCCAAAGCCATGTCCCAAACATGGCCTTACATGGGATGTTCTCATGTCTATGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGATGCCCATGCCATG
* *
49693877 TCCCAGACATGGTCTTACGGGGGACCTCTC-ATCTC-GG
65 TCCCAGACATAGTCTTACAGGGGACCTCTCAATCTCAGG
* *
49693914 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCCATGCCATGT
*
49693978 CCTAGACATAGTCTTACAGGGGACCTCTCATGATCTCAAGG
66 CCCAGACATAGTCTTACAGGGGACCTCTCA--ATCTC-AGG
* *
49694019 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
49694062 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
100 48 0.37
101 34 0.26
103 5 0.04
105 2 0.02
106 40 0.31
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (103 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCCATGCCATGT
CCCAGACATAGTCTTACAGGGGACCTCTCAATCTCAGG
Found at i:49698372 original size:20 final size:20
Alignment explanation
Indices: 49698347--49698392 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
49698337 TAGTAAAGCT
*
49698347 TAACAACCTATTTAAATAAG
1 TAACAACCTATTTAAATAAA
*
49698367 TAACAACCTATTTGAATAAA
1 TAACAACCTATTTAAATAAA
49698387 TAACAA
1 TAACAA
49698393 AATATTAACA
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:0.52, C:0.15, G:0.04, T:0.28
Consensus pattern (20 bp):
TAACAACCTATTTAAATAAA
Found at i:49698398 original size:20 final size:20
Alignment explanation
Indices: 49698355--49698398 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
49698345 CTTAACAACC
* **
49698355 TATTTAAATAAGTAACAACC
1 TATTTAAATAAATAACAAAA
*
49698375 TATTTGAATAAATAACAAAA
1 TATTTAAATAAATAACAAAA
49698395 TATT
1 TATT
49698399 AACAGATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (20 bp):
TATTTAAATAAATAACAAAA
Found at i:49706333 original size:18 final size:18
Alignment explanation
Indices: 49706310--49706346 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
49706300 AACCCAATTT
*
49706310 TATTTTTAATTTTTTATA
1 TATTTTTAATTTTCTATA
*
49706328 TATTTTTTATTTTCTATA
1 TATTTTTAATTTTCTATA
49706346 T
1 T
49706347 TTTCTTGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (18 bp):
TATTTTTAATTTTCTATA
Found at i:49707322 original size:103 final size:103
Alignment explanation
Indices: 49707143--49707333 Score: 267
Period size: 103 Copynumber: 1.9 Consensus size: 103
49707133 AAATATTAAT
** * * *
49707143 AGTGTCTTGGGCTAAGTAACTGGGGTGGGGTGTTTGTGTTGTCATTCCACTTCGAGGCAAAAGTA
1 AGTGTCTTGGGCTAAGTAACTGAAGTGGGGTGCTTGGGTTGTCATTCCACTTCGAGGCAAAAGGA
*
49707208 CCAAAACATTCTTAAACAAAAAATAATAATACGTTAGG
66 CCAAAAAATTCTTAAACAAAAAATAATAATACGTTAGG
* * * *
49707246 AGTGTGTTGGGCTGAGTAACTGAAGTGGGGTGCTTGGGTTGTCATTCCACTTC-ATGTCGAAAGG
1 AGTGTCTTGGGCTAAGTAACTGAAGTGGGGTGCTTGGGTTGTCATTCCACTTCGA-GGCAAAAGG
*
49707310 GCCAAAAAATTCTTAAACAAAAAA
65 ACCAAAAAATTCTTAAACAAAAAA
49707334 ATATAAAATT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
102 1 0.01
103 75 0.99
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (103 bp):
AGTGTCTTGGGCTAAGTAACTGAAGTGGGGTGCTTGGGTTGTCATTCCACTTCGAGGCAAAAGGA
CCAAAAAATTCTTAAACAAAAAATAATAATACGTTAGG
Found at i:49712183 original size:23 final size:22
Alignment explanation
Indices: 49712138--49712195 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
49712128 AAAGGGTATC
* *
49712138 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
49712159 TACAAAATCATATCTTCTAATAT
1 TAC-AAATCATATCTTCTAAGAT
*
49712182 TACATATCATATCT
1 TACAAATCATATCT
49712196 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:49712206 original size:19 final size:19
Alignment explanation
Indices: 49712151--49712210 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
49712141 AAATTAAATC
*
49712151 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
49712171 TCTTCTAATATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
49712193 TCTAAGATTGCATATCAT
1 TCTAAGATTACATATCAT
49712211 CGAAGATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 16 0.48
22 7 0.21
23 10 0.30
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:49712472 original size:34 final size:33
Alignment explanation
Indices: 49712425--49712514 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 33
49712415 CCCAAATATG
*
49712425 CATATATAT-TATATATATAATCAAGAACC-ACA
1 CATATATATATATATATATAAACAA-AACCTACA
49712457 CATATATATCATATATATATATAACAAAACCTACA
1 CATATATAT-ATATATATATA-AACAAAACCTACA
*
49712492 CATATGTATTATATATAATATAA
1 CATATATA-TATATAT-ATATAA
49712515 CCCATATATA
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
32 9 0.18
34 14 0.28
35 21 0.42
36 6 0.12
ACGTcount: A:0.50, C:0.13, G:0.02, T:0.34
Consensus pattern (33 bp):
CATATATATATATATATATAAACAAAACCTACA
Found at i:49718431 original size:14 final size:14
Alignment explanation
Indices: 49718389--49718432 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
49718379 ATATTTTTTA
*
49718389 AAATAATAATAATT
1 AAATAATAATAAAT
*
49718403 AAAT-ATGATAAAT
1 AAATAATAATAAAT
*
49718416 AAATAATAAAAAAT
1 AAATAATAATAAAT
49718430 AAA
1 AAA
49718433 AAACTAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (14 bp):
AAATAATAATAAAT
Found at i:49719020 original size:19 final size:19
Alignment explanation
Indices: 49718988--49719041 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
49718978 AATCACATCT
* *
49718988 TCTAATATTACATATCATA
1 TCTAAGATTGCATATCATA
*
49719007 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
49719026 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
49719042 CTCGAAGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:49719534 original size:9 final size:9
Alignment explanation
Indices: 49719520--49719547 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
49719510 TTTTGTTACA
49719520 ACAATTAAT
1 ACAATTAAT
49719529 ACAATTAAT
1 ACAATTAAT
49719538 ACAATTAAT
1 ACAATTAAT
49719547 A
1 A
49719548 ATTTGATAAG
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:49719569 original size:68 final size:68
Alignment explanation
Indices: 49719490--49719758 Score: 434
Period size: 68 Copynumber: 4.1 Consensus size: 68
49719480 TCAAGTTTGT
*
49719490 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
49719555 AAG
66 AAA
49719558 TTTACTAATCAAATGTTAGATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
49719614 AAA
66 AAA
49719617 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
49719682 AAA
66 AAA
49719685 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
49719748 AAT
66 AAA
49719751 TTTACTAA
1 TTTACTAA
49719759 CAATTAATTT
Statistics
Matches: 189, Mismatches: 3, Indels: 20
0.89 0.01 0.09
Matches are distributed among these distances:
59 55 0.29
60 1 0.01
62 2 0.01
65 2 0.01
66 27 0.14
67 2 0.01
68 100 0.53
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:49719601 original size:59 final size:59
Alignment explanation
Indices: 49719529--49719736 Score: 317
Period size: 59 Copynumber: 3.4 Consensus size: 59
49719519 AACAATTAAT
*
49719529 ACAATTAATACAATTAATAATTTGATAAGTTTACTAATCAAATGTTAGATTTTATTACA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACA
49719588 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATT---AC----
49719653 AA
59 -A
49719655 TACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACA
1 -ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACA
*
49719715 ACAATTAATACAATTAACAATT
1 ACAATTAATACAATTAATAATT
49719737 AATAATTTGA
Statistics
Matches: 138, Mismatches: 2, Indels: 18
0.87 0.01 0.11
Matches are distributed among these distances:
59 76 0.55
60 1 0.01
62 2 0.01
65 2 0.01
67 1 0.01
68 56 0.41
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (59 bp):
ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACA
Found at i:49719633 original size:127 final size:127
Alignment explanation
Indices: 49719490--49719736 Score: 467
Period size: 127 Copynumber: 1.9 Consensus size: 127
49719480 TCAAGTTTGT
*
49719490 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
* *
49719555 AAGTTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
66 AAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTTGATAAA
49719617 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
49719682 AAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
66 AAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
49719737 AATAATTTGA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
127 117 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.40
Consensus pattern (127 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTTGATAAA
Found at i:49719659 original size:9 final size:9
Alignment explanation
Indices: 49719647--49719674 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
49719637 TTTTATTACA
49719647 ACAATTAAT
1 ACAATTAAT
49719656 ACAATTAAT
1 ACAATTAAT
49719665 ACAATTAAT
1 ACAATTAAT
49719674 A
1 A
49719675 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:49719768 original size:16 final size:16
Alignment explanation
Indices: 49719747--49719788 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
49719737 AATAATTTGA
*
49719747 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
49719763 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
49719779 TAGTTTTAAT
1 TAATTTTAAT
49719789 TTTATTAAAG
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:49719772 original size:22 final size:23
Alignment explanation
Indices: 49719762--49719817 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
49719752 TTACTAACAA
* *
49719762 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAACAACTAATT
* *
49719784 TTAATTTTATTAAAGAACTAATT
1 TTAATTTTAATAAACAACTAATT
49719807 TTAATTTTAAT
1 TTAATTTTAAT
49719818 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAACAACTAATT
Found at i:49719777 original size:59 final size:66
Alignment explanation
Indices: 49719588--49719780 Score: 283
Period size: 68 Copynumber: 3.0 Consensus size: 66
49719578 TTTTATTACA
49719588 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATTTTA-TACAACAATT
49719653 AAT
64 AAT
49719656 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATTTTA-TACAACAATT
49719721 AAT
64 AAT
* *
49719724 ACAATT-A-ACAATTAATAATTTGATAATTTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATTTTATACAACAATTA
49719781 GTTTTAATTT
Statistics
Matches: 123, Mismatches: 2, Indels: 9
0.92 0.01 0.07
Matches are distributed among these distances:
59 9 0.07
61 6 0.05
62 3 0.02
64 2 0.02
65 1 0.01
66 27 0.22
67 1 0.01
68 74 0.60
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.40
Consensus pattern (66 bp):
ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATTTTATACAACAATTAA
T
Found at i:49720103 original size:34 final size:33
Alignment explanation
Indices: 49720056--49720145 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 33
49720046 CCCAAATATG
*
49720056 CATATATAT-TATATATATAATCAAGAACC-ACA
1 CATATATATATATATATATAAACAA-AACCTACA
49720088 CATATATATCATATATATATATAACAAAACCTACA
1 CATATATAT-ATATATATATA-AACAAAACCTACA
*
49720123 CATATGTATTATATATAATATAA
1 CATATATA-TATATAT-ATATAA
49720146 CCCATATATA
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
32 9 0.18
34 14 0.28
35 21 0.42
36 6 0.12
ACGTcount: A:0.50, C:0.13, G:0.02, T:0.34
Consensus pattern (33 bp):
CATATATATATATATATATAAACAAAACCTACA
Found at i:49720990 original size:21 final size:21
Alignment explanation
Indices: 49720966--49721008 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
49720956 AAAACCTAAG
49720966 CATATCCAAGAAACATGAGAT
1 CATATCCAAGAAACATGAGAT
49720987 CATATCCAAGAAACATGAGAT
1 CATATCCAAGAAACATGAGAT
49721008 C
1 C
49721009 CACCATTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.21, G:0.14, T:0.19
Consensus pattern (21 bp):
CATATCCAAGAAACATGAGAT
Found at i:49725022 original size:11 final size:12
Alignment explanation
Indices: 49725008--49725044 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
49724998 TAAAATAGGG
49725008 ATTTAAGAG-AA
1 ATTTAAGAGCAA
49725019 ATTTAAGAGCAA
1 ATTTAAGAGCAA
*
49725031 A-TTGAGAGCAA
1 ATTTAAGAGCAA
49725042 ATT
1 ATT
49725045 GAGATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.27
Consensus pattern (12 bp):
ATTTAAGAGCAA
Found at i:49725054 original size:11 final size:11
Alignment explanation
Indices: 49725024--49725048 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49725014 GAGAAATTTA
49725024 AGAGCAAATTG
1 AGAGCAAATTG
49725035 AGAGCAAATTG
1 AGAGCAAATTG
49725046 AGA
1 AGA
49725049 TTAAATATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.28, T:0.16
Consensus pattern (11 bp):
AGAGCAAATTG
Found at i:49726806 original size:23 final size:24
Alignment explanation
Indices: 49726763--49726807 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
49726753 GTTCAACTTC
49726763 ATAAATACTATCTTAGTTCTCTCT
1 ATAAATACTATCTTAGTTCTCTCT
49726787 ATAAATACTATC-TAGTTCTCT
1 ATAAATACTATCTTAGTTCTCT
49726808 ATCTTCCCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.44
Consensus pattern (24 bp):
ATAAATACTATCTTAGTTCTCTCT
Found at i:49727434 original size:4 final size:4
Alignment explanation
Indices: 49727425--49727462 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
49727415 GAATTGCCAT
*
49727425 TTTA TTTA TTTA TTTA -TTA TTTTA ATTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TT
49727463 GCTCTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 3 0.10
4 24 0.80
5 3 0.10
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:49727448 original size:20 final size:20
Alignment explanation
Indices: 49727423--49727462 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
49727413 TTGAATTGCC
*
49727423 ATTTTATTTATTTATTTATT
1 ATTTTAATTATTTATTTATT
49727443 ATTTTAATTATTTATTTATT
1 ATTTTAATTATTTATTTATT
49727463 GCTCTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTAATTATTTATTTATT
Found at i:49728389 original size:26 final size:26
Alignment explanation
Indices: 49728356--49728414 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
49728346 TGAAACAAAT
*
49728356 AAAGAAATAAAGATAAATTTTTGATA
1 AAAGAAATAAAGATAAATATTTGATA
*
49728382 AAAGAAATATAGATAAATATTTGATA
1 AAAGAAATAAAGATAAATATTTGATA
49728408 AAAGAAA
1 AAAGAAA
49728415 CTAGAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (26 bp):
AAAGAAATAAAGATAAATATTTGATA
Found at i:49729989 original size:23 final size:23
Alignment explanation
Indices: 49729943--49730002 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
49729933 TTTCTTTTTA
*
49729943 TTTCTTCC-TTTTGTTTTATTCT
1 TTTCTTCCATTTTGTTTTATGCT
49729965 TTTCTTCCATTTTGATTTT-TGCT
1 TTTCTTCCATTTTG-TTTTATGCT
* *
49729988 TTACTGCCATTTTGT
1 TTTCTTCCATTTTGT
49730003 GTTTTAGTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 9 0.27
23 20 0.61
24 4 0.12
ACGTcount: A:0.08, C:0.18, G:0.08, T:0.65
Consensus pattern (23 bp):
TTTCTTCCATTTTGTTTTATGCT
Found at i:49731776 original size:6 final size:6
Alignment explanation
Indices: 49731767--49731793 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
49731757 TAAATTTAAA
49731767 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
49731794 TAATTTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:49735765 original size:477 final size:478
Alignment explanation
Indices: 49734870--49735788 Score: 1407
Period size: 477 Copynumber: 1.9 Consensus size: 478
49734860 TGCTTCTTTG
* *
49734870 CAAGATGCTTCTCAAGGTGGCCAGCCAAGAGAGAATTTTCTCAAGGATTTTCTAACTAAATGAAG
1 CAAGATGCTTCTCAAGGTGGCCAGCCAAGAGAGAATTTTCTCAAGGAATTGCTAACTAAATGAAG
* * * *
49734935 TGGAAAATGGAGGGTTCGTGAATGAGAGAAATGAGAGGTTCATGAATGATAAGAGGAAATGAAGG
66 GGGAAAATAGAGGGTTCATGAATGAGAGAAATGAGAGGTTCATGAATGATAAGAGAAAATGAAGG
* *
49735000 ATGAATGTTAGGTGAGGGATGATAGATGATTTAAAATGGGGAATGGAGGTGGGTATTTATAGTGA
131 ATGAATGTTAGGTGAGGGATGAGAGATGATTTAAAATGGGGAATGGAGGTGGGTATTTAGAGTGA
* * * * * * *
49735065 CGGTTGGCGGTTGAGTTTACTAAAAATAGTGTGAAAAATCCCTCTATTTACTCCTTTGCTTGGCC
196 AGGTTAGCGGATGAGTTTACTAAAAATAGTGTGAAAAATCCCCCCAGTTACTCATTTGCTTGGCC
49735130 AACCACATATTGTGGAAGAGGCAGTTGTTTGGTTGCTTGATTCATGCATGATATCATGCTTGAAT
261 AACCACATATTGTGGAAGAGGCAGTTGTTTGGTTGCTTGATTCATGCATGATATCATGCTTGAAT
49735195 CAAGCAAGGGGTGGACGGTTTATTGGCCAAAGTTGGTGAGCCATTTTCTAATTTATTTGCAAGTG
326 CAAGCAAGGGGTGGACGGTTTATTGGCCAAAGTTGGTGAGCCATTTTCTAATTTATTTGCAAGTG
*
49735260 AAAGGACCTCCAGTAAATCTCCCAAAAATAAATTTCTTAGTAGTCCAAATGCTTTTTCTCAAGGA
391 AAAGGACCTCCAGTAAATCTCCCAAAAATAAATTTCTAAGTAGTCCAAATGCTTTTTCTCAAGGA
49735325 ATTGCTAACTAATTTCTCCTTCA
456 ATTGCTAACTAATTTCTCCTTCA
49735348 CAAGATGCTTCTCAAGGTGGCCAGCCAAGAGAGAATTTTCTCAAGGAATTGCTAACTAAATGAAG
1 CAAGATGCTTCTCAAGGTGGCCAGCCAAGAGAGAATTTTCTCAAGGAATTGCTAACTAAATGAAG
49735413 GGGAAAATAGA-GGTGT-ATGAATGAGAGAAATGAGAGGTT-ACTGAATGATAAGAGAAAATTG-
66 GGGAAAATAGAGGGT-TCATGAATGAGAGAAATGAGAGGTTCA-TGAATGATAAGAGAAAA-TGA
* * * * * *
49735474 ATGATGAATGTTCGGTGAGGGTTGAGGGATGATTTGAAATGGGGAATGGAGGTGTGTATTTAGAG
128 AGGATGAATGTTAGGTGAGGGATGAGAGATGATTTAAAATGGGGAATGGAGGTGGGTATTTAGAG
* *
49735539 TGAAGGTTAGTGGATGAGTTTACTAAAGATAGTGTGAAAAATCCCCCCAGTTACTCATTTGCTTG
193 TGAAGGTTAGCGGATGAGTTTACTAAAAATAGTGTGAAAAATCCCCCCAGTTACTCATTTGCTTG
* * * ** *
49735604 GCCAGCCACATATAT-TGGAAGAGGGAGTTGTTTGGTTTCTTGATTTTTGTATGATATCATGCTT
258 GCCAACCACATAT-TGTGGAAGAGGCAGTTGTTTGGTTGCTTGATTCATGCATGATATCATGCTT
* * * * *
49735668 GAATCAAGCAAGGGGTGGACGGTTTCTTGGCCAAAGTTTGTGTGCCATTTTCTGATTTGTTTGCA
322 GAATCAAGCAAGGGGTGGACGGTTTATTGGCCAAAGTTGGTGAGCCATTTTCTAATTTATTTGCA
* * * * *
49735733 AGTGCAGGGACCTCTAGTAAATCTCCCAAAAATGAATTTCTAAGTAGTTCAAATGC
387 AGTGAAAGGACCTCCAGTAAATCTCCCAAAAATAAATTTCTAAGTAGTCCAAATGC
49735789 CTTTGCCGAA
Statistics
Matches: 397, Mismatches: 40, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
476 1 0.00
477 320 0.81
478 76 0.19
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (478 bp):
CAAGATGCTTCTCAAGGTGGCCAGCCAAGAGAGAATTTTCTCAAGGAATTGCTAACTAAATGAAG
GGGAAAATAGAGGGTTCATGAATGAGAGAAATGAGAGGTTCATGAATGATAAGAGAAAATGAAGG
ATGAATGTTAGGTGAGGGATGAGAGATGATTTAAAATGGGGAATGGAGGTGGGTATTTAGAGTGA
AGGTTAGCGGATGAGTTTACTAAAAATAGTGTGAAAAATCCCCCCAGTTACTCATTTGCTTGGCC
AACCACATATTGTGGAAGAGGCAGTTGTTTGGTTGCTTGATTCATGCATGATATCATGCTTGAAT
CAAGCAAGGGGTGGACGGTTTATTGGCCAAAGTTGGTGAGCCATTTTCTAATTTATTTGCAAGTG
AAAGGACCTCCAGTAAATCTCCCAAAAATAAATTTCTAAGTAGTCCAAATGCTTTTTCTCAAGGA
ATTGCTAACTAATTTCTCCTTCA
Found at i:49741129 original size:171 final size:171
Alignment explanation
Indices: 49740837--49741177 Score: 549
Period size: 171 Copynumber: 2.0 Consensus size: 171
49740827 ATTCCACTGA
49740837 ATTGGCCTATTGTTTGAAGCATCTGAAACATCACAGGCTTTAATTCAAACTGCAGTGCCTCAATC
1 ATTGGCCTATTGTTTGAAGCATCTGAAACATCACAGGCTTTAATTCAAACTGCAGTGCCTCAATC
* * * * * *
49740902 TTTATTCTCATAATTCTCAGATTTAGTTTGTTAAAAAGTGGCACGACATACTGTCTTATGGGTTG
66 TCTAGTCTCATAATTCTCAGATGTAGTTTGTTAAAAACTGGCACGAAATACTGTCTTATGGGTCG
* *
49740967 ATCCCTATCATCGATAGTAACGATTGGATTTTGAGCATTAT
131 ATCCCTATCATCGACAATAACGATTGGATTTTGAGCATTAT
* * *
49741008 ATTGGCCTATTGTTTTAAGCATCTGAAACATCACAGGCTTTAATTCAAACTGTAGTGCCTCGATC
1 ATTGGCCTATTGTTTGAAGCATCTGAAACATCACAGGCTTTAATTCAAACTGCAGTGCCTCAATC
*
49741073 TCTAGTCTTC-TAATTCTCAGATGTAGTTTGTTAAAAACTGGCACGAAATGCTGTCTTATGGGTC
66 TCTAGTC-TCATAATTCTCAGATGTAGTTTGTTAAAAACTGGCACGAAATACTGTCTTATGGGTC
*
49741137 GATCCCTATCATCGGCAATAACGATTGGATTTTGAGCATTA
130 GATCCCTATCATCGACAATAACGATTGGATTTTGAGCATTA
49741178 GCGGCTTTAT
Statistics
Matches: 156, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
171 154 0.99
172 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (171 bp):
ATTGGCCTATTGTTTGAAGCATCTGAAACATCACAGGCTTTAATTCAAACTGCAGTGCCTCAATC
TCTAGTCTCATAATTCTCAGATGTAGTTTGTTAAAAACTGGCACGAAATACTGTCTTATGGGTCG
ATCCCTATCATCGACAATAACGATTGGATTTTGAGCATTAT
Found at i:49745381 original size:23 final size:23
Alignment explanation
Indices: 49745355--49745422 Score: 100
Period size: 23 Copynumber: 2.9 Consensus size: 23
49745345 CAACTCATAT
* *
49745355 GAGCTTACCGTTTCAGCTCTATG
1 GAGCTTACCGTTTCAGCTCGATA
49745378 GAGCTTACCGTTTCAGCTCGATA
1 GAGCTTACCGTTTCAGCTCGATA
49745401 GAGCTTACCGTTTATCAGCTCG
1 GAGCTTACCG-TT-TCAGCTCG
49745423 GAATGAGCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
23 31 0.76
24 2 0.05
25 8 0.20
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.32
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCGATA
Found at i:49748516 original size:7 final size:7
Alignment explanation
Indices: 49748504--49748530 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
49748494 ATAAAAACTA
49748504 TTAAAAT
1 TTAAAAT
49748511 TTAAAAT
1 TTAAAAT
49748518 TTAAAAT
1 TTAAAAT
49748525 TTAAAA
1 TTAAAA
49748531 AAGTTATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TTAAAAT
Found at i:49748685 original size:23 final size:24
Alignment explanation
Indices: 49748641--49748686 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
49748631 AAAGAGGTGA
* **
49748641 ATATTAAAAATTAAATTTATAATT
1 ATATCAAAAATTAAATGCATAATT
49748665 ATATCAAAAA-TAAATGCATAAT
1 ATATCAAAAATTAAATGCATAAT
49748687 AAGAATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (24 bp):
ATATCAAAAATTAAATGCATAATT
Found at i:49752241 original size:23 final size:22
Alignment explanation
Indices: 49752199--49752252 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
49752189 TAAATTAGTA
49752199 TTTAAACTTTAATTCCGTTACAT
1 TTTAAACTTTAATT-CGTTACAT
49752222 TTTAATACTTTAAGTT-GTTACAAT
1 TTTAA-ACTTTAA-TTCGTTAC-AT
49752246 TGTTAAA
1 T-TTAAA
49752253 GTAACACCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
23 10 0.37
24 11 0.41
25 6 0.22
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.48
Consensus pattern (22 bp):
TTTAAACTTTAATTCGTTACAT
Found at i:49753558 original size:11 final size:10
Alignment explanation
Indices: 49753534--49753571 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
49753524 GATATATTAT
49753534 TAAAAAAAT-
1 TAAAAAAATA
49753543 TAAAAAAATA
1 TAAAAAAATA
49753553 TAAAAAAATA
1 TAAAAAAATA
49753563 CTAAAAAAA
1 -TAAAAAAA
49753572 GAATATTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.33
10 10 0.37
11 8 0.30
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (10 bp):
TAAAAAAATA
Found at i:49756280 original size:43 final size:43
Alignment explanation
Indices: 49756232--49756520 Score: 383
Period size: 43 Copynumber: 6.8 Consensus size: 43
49756222 TTATAGAAAT
* *
49756232 AAACGCCGCTAAAGATCATGTTCTATAGCGGCGCTTTTTCAAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAAC
* *** *
49756275 AAACGCCGCTAAAGGTCATATTCTTTAGCGGCGC--CACCATAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCA-AC
*
49756317 AAACGCCG-TAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAAC
*
49756359 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAAC
*
49756402 AAACGCTGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTT-ACAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCA-AC
** **
49756445 AAATACCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCCAA-
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAAC
49756487 AAACGGCC-CTAAAGGTCATGTTCTTTAGCGGCGC
1 AAAC-GCCGCTAAAGGTCATGTTCTTTAGCGGCGC
49756521 CGCTATTGTT
Statistics
Matches: 217, Mismatches: 22, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
41 26 0.12
42 47 0.22
43 143 0.66
44 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAAC
Found at i:49756378 original size:127 final size:128
Alignment explanation
Indices: 49756232--49756520 Score: 406
Period size: 127 Copynumber: 2.3 Consensus size: 128
49756222 TTATAGAAAT
* *
49756232 AAACGCCGCTAAAGATCATGTTCTATAGCGGCGCTTTTTCAACAAACGCCGCTAAAGGTCATATT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAACAAACGCCGCTAAAGGTCATATT
* * *
49756297 CTTTAGCGGCGCCACCATA-A-AAACGCCG-TAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCAC
66 CTTTAGCGGCG-CACCATACACAAACACCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTTCCCAA
* * *
49756359 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCACAAACGCTGCTAAAGGTCATGTT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAACAAACGCCGCTAAAGGTCATATT
**** *
49756424 CTTTAGCGGCGCTTTTTACACAAATACCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCCAA
66 CTTTAGCGGCGCACCATACACAAACACCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCCAA
49756487 AAACGGCC-CTAAAGGTCATGTTCTTTAGCGGCGC
1 AAAC-GCCGCTAAAGGTCATGTTCTTTAGCGGCGC
49756521 CGCTATTGTT
Statistics
Matches: 145, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
126 3 0.02
127 72 0.50
128 42 0.29
129 28 0.19
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (128 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCAACAAACGCCGCTAAAGGTCATATT
CTTTAGCGGCGCACCATACACAAACACCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCCAA
Found at i:49756897 original size:21 final size:21
Alignment explanation
Indices: 49756873--49756923 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
49756863 TTCTGCTTTG
49756873 CTCTGCTTTCCTCACTGCAGC
1 CTCTGCTTTCCTCACTGCAGC
* * *
49756894 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTTCCTCACTGCAGC
49756915 CTCTGCTTT
1 CTCTGCTTT
49756924 AAGTTGTAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.45, G:0.16, T:0.35
Consensus pattern (21 bp):
CTCTGCTTTCCTCACTGCAGC
Found at i:49759080 original size:13 final size:13
Alignment explanation
Indices: 49759064--49759104 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
49759054 CATTTACTAT
49759064 ATTCATTAAGAAA
1 ATTCATTAAGAAA
49759077 ATTCATTCAA-AAA
1 ATTCATT-AAGAAA
*
49759090 ATTCATTTAGAAA
1 ATTCATTAAGAAA
49759103 AT
1 AT
49759105 CTCTCAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.88
14 2 0.08
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (13 bp):
ATTCATTAAGAAA
Found at i:49759239 original size:60 final size:60
Alignment explanation
Indices: 49759145--49759268 Score: 198
Period size: 60 Copynumber: 2.1 Consensus size: 60
49759135 CACAAAATTC
* *
49759145 ATTC-GGGCAACTGCTAAATAAACAATTTAAACCTAAATCCCTCATACA-TCGTAACCAAA
1 ATTCAGGGCAACTGCTAAATAAACAAATTAAACCTAAATCCCTCACACACT-GTAACCAAA
*
49759204 ATTCAGGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTGTAACCAAA
1 ATTCAGGGCAACTGCTAAATAAACAAATTAAACCTAAATCCCTCACACACTGTAACCAAA
49759264 ATTCA
1 ATTCA
49759269 CAAAATTCAC
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
59 4 0.07
60 55 0.92
61 1 0.02
ACGTcount: A:0.43, C:0.26, G:0.08, T:0.23
Consensus pattern (60 bp):
ATTCAGGGCAACTGCTAAATAAACAAATTAAACCTAAATCCCTCACACACTGTAACCAAA
Found at i:49760819 original size:270 final size:271
Alignment explanation
Indices: 49760236--49760918 Score: 816
Period size: 270 Copynumber: 2.5 Consensus size: 271
49760226 AATACTTGAT
* * * * *
49760236 TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGAAACGGCACCGTTTACCCATTACTCTAATA
1 TTCTAAAATTTTTCTAAGTTAAAAATCGTGCACAGAAACGGCGCCGTTTACACATTATTTTAATA
* * * *
49760301 CCCTTTTGCGGCGTTTATTGTAAAAATGCCGCTATTGCTTCCACATTTCCGGCGTTTTCCTAAAA
66 CCCTTTTGCGGCGTTTACTGTAAAAACGCCGCTATTGCTTCCAAAGTTCCGGCGTTTTCCTAAAA
* ** * * *
49760366 ACGCCACTAAATATTAAAGTTGTAAAGGGAAACGGCACCGTTTTTGTTAGTCTCAAATTGCATTA
131 ACGCCACTAAATATTAAAGTCGTAAACAGAAACGGCACCGTTTTTGCTACTCTCAAACTGCATTA
** * * * *
49760431 TTTCTGGCGTTTTATGTAAAAACGCCACTAATACTTAATTTACTTTAACCCAAACGGTGATGTTT
196 TTTCTGGCGTTTTATGTAAAAACGCCACTAATACTTAACGTAATTTAACCCAAACGATAACGTTT
49760496 TAAATAAATAA
261 TAAATAAATAA
* * *
49760507 TTCTAAAATCTTTCTAAGTTAAAAATCGTGTACAGAAACGGCGCCGTTTAGACATTATTTTAATA
1 TTCTAAAATTTTTCTAAGTTAAAAATCGTGCACAGAAACGGCGCCGTTTACACATTATTTTAATA
* * * *
49760572 CCCTTGTGCGGCGTTTACTGTACAAACGCCGCTATTGCTTCTAAAGTTCCGGCGTTTTGCC-GAA
66 CCCTTTTGCGGCGTTTACTGTAAAAACGCCGCTATTGCTTCCAAAGTTCCGGCGTTTT-CCTAAA
* *
49760636 AACGCCAC-AAATATTTAAAGTCGTAAACAGAAACGGCGCCG-TTTTGCTACTTTCAAACTGCAT
130 AACGCCACTAAATA-TTAAAGTCGTAAACAGAAACGGCACCGTTTTTGCTACTCTCAAACTGCAT
* * *
49760699 TGTTTCTGGCGTTTTATGTTAAAACGCCACTAATACTTAACGTAATTTAAGCCAAACGATAACGT
194 TATTTCTGGCGTTTTATGTAAAAACGCCACTAATACTTAACGTAATTTAACCCAAACGATAACGT
*
49760764 TTTAAGTAAATAA
259 TTTAAATAAATAA
* * * * * * * ** *
49760777 TTCTAAACTTTTTATAAGTTAAAAATTGTGGAGAGAAACGGCGTCGTTTACTCAAAATTTTAAGA
1 TTCTAAAATTTTTCTAAGTTAAAAATCGTGCACAGAAACGGCGCCGTTTACACATTATTTTAATA
* * * * * * * **
49760842 CACTTTTGCGGCGTTT-CTTGTAAAAACGCCACTAATGCATCCAATATTTGCAGCGTTTTCAAAA
66 CCCTTTTGCGGCGTTTAC-TGTAAAAACGCCGCTATTGCTTCCAA-AGTTCCGGCGTTTTCCTAA
*
49760906 AAATGCCACTAAA
129 AAACGCCACTAAA
49760919 AGTTTAACTA
Statistics
Matches: 347, Mismatches: 59, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
269 1 0.00
270 180 0.52
271 161 0.46
272 5 0.01
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (271 bp):
TTCTAAAATTTTTCTAAGTTAAAAATCGTGCACAGAAACGGCGCCGTTTACACATTATTTTAATA
CCCTTTTGCGGCGTTTACTGTAAAAACGCCGCTATTGCTTCCAAAGTTCCGGCGTTTTCCTAAAA
ACGCCACTAAATATTAAAGTCGTAAACAGAAACGGCACCGTTTTTGCTACTCTCAAACTGCATTA
TTTCTGGCGTTTTATGTAAAAACGCCACTAATACTTAACGTAATTTAACCCAAACGATAACGTTT
TAAATAAATAA
Found at i:49761292 original size:44 final size:42
Alignment explanation
Indices: 49761243--49761346 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 42
49761233 ACCTTTGAAT
*
49761243 TCCTAAACCCTAAATCATTAACTCATTAACCCATAGCCCTTAAA
1 TCCTAAACCCTAAATC-TTAAC-CATTAACCCATAACCCTTAAA
* * * *
49761287 TCCTAAACCCCTAAACTCTTAACCCTTAACCCCTAACTCTTATA
1 TCCTAAA-CCCTAAA-TCTTAACCATTAACCCATAACCCTTAAA
*
49761331 TCCCAAACCCTAAATC
1 TCCTAAACCCTAAATC
49761347 CATACCTCTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
42 2 0.04
43 7 0.13
44 29 0.56
45 12 0.23
46 2 0.04
ACGTcount: A:0.36, C:0.37, G:0.01, T:0.27
Consensus pattern (42 bp):
TCCTAAACCCTAAATCTTAACCATTAACCCATAACCCTTAAA
Found at i:49761339 original size:22 final size:22
Alignment explanation
Indices: 49761285--49761344 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
49761275 ATAGCCCTTA
*
49761285 AATCCTAAACCCCTAAACTCTT
1 AATCCCAAACCCCTAAACTCTT
*
49761307 AA-CCCTTAACCCCT-AACTCTT
1 AATCCC-AAACCCCTAAACTCTT
49761328 ATATCCCAAA-CCCTAAA
1 A-ATCCCAAACCCCTAAA
49761345 TCCATACCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
21 14 0.45
22 14 0.45
23 3 0.10
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.25
Consensus pattern (22 bp):
AATCCCAAACCCCTAAACTCTT
Found at i:49768282 original size:29 final size:31
Alignment explanation
Indices: 49768249--49768311 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
49768239 AGCTAGAAAT
49768249 CGAAAAATTAAG-AAAAGGGAAGAATAAA-C
1 CGAAAAATTAAGAAAAAGGGAAGAATAAAGC
49768278 CGAAAAATTAAGAAAAAGGGAAGAATAAAGC
1 CGAAAAATTAAGAAAAAGGGAAGAATAAAGC
49768309 CGA
1 CGA
49768312 GGAAGATTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 12 0.38
30 16 0.50
31 4 0.12
ACGTcount: A:0.60, C:0.08, G:0.22, T:0.10
Consensus pattern (31 bp):
CGAAAAATTAAGAAAAAGGGAAGAATAAAGC
Found at i:49768980 original size:19 final size:19
Alignment explanation
Indices: 49768956--49769002 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
49768946 TTGATGTCTT
*
49768956 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
49768975 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
49768994 TATGCATTA
1 TTTGCATTA
49769003 AAGTCCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:49771484 original size:51 final size:49
Alignment explanation
Indices: 49771360--49771553 Score: 201
Period size: 51 Copynumber: 3.9 Consensus size: 49
49771350 TAAAGTGATG
* * *
49771360 GTCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGA-ATGATAA
1 GTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATA-G-TAT
* * * * *
49771410 GTCGCATGTGTAGTACTATGTGCAAACTACTATGCGTACCGGATAGCTTT
1 GTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATAG-TAT
* * * *
49771460 GATCACGTGTGTAGTACTATGTGCAGGCTATTACGTGTATCGGATAGTGAT
1 G-TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATAGT-AT
* *
49771511 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGAACCGG
1 -GTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGG
49771554 TATCATTAAT
Statistics
Matches: 118, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
50 41 0.35
51 76 0.64
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
GTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATAGTAT
Found at i:49771792 original size:16 final size:16
Alignment explanation
Indices: 49771771--49771802 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49771761 TGATTGAAAG
*
49771771 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
49771787 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
49771803 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:49777493 original size:44 final size:44
Alignment explanation
Indices: 49777444--49777552 Score: 166
Period size: 44 Copynumber: 2.5 Consensus size: 44
49777434 AACTCATCGG
*
49777444 AATAATAACAGATACAC-GATGGCATGCACAGAGTCCGTACCACT
1 AATAATAACAGATACACAG-TGGCATGCACAGAGTCCGTACCACA
* * *
49777488 AATAATAACAGATACACAGTGGCCTGCACATAGTCCGTCCCACA
1 AATAATAACAGATACACAGTGGCATGCACAGAGTCCGTACCACA
49777532 AATAATAACAGATACACAGTG
1 AATAATAACAGATACACAGTG
49777553 CATCAGCACA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 59 0.98
45 1 0.02
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.18
Consensus pattern (44 bp):
AATAATAACAGATACACAGTGGCATGCACAGAGTCCGTACCACA
Found at i:49777601 original size:43 final size:43
Alignment explanation
Indices: 49777542--49777671 Score: 190
Period size: 43 Copynumber: 3.0 Consensus size: 43
49777532 AATAATAACA
*
49777542 GATACACAGTGCATCAGCACATAGCACCACCCTTATAGTCAAT
1 GATACACAGTGGATCAGCACATAGCACCACCCTTATAGTCAAT
* *
49777585 GATACACAGTGGATCAGCACATAGCACCACCCGTATAATCAAT
1 GATACACAGTGGATCAGCACATAGCACCACCCTTATAGTCAAT
* * *
49777628 GATAC-CCGATGGATCAGCACATAGCACTACCCTTATAGTTAAT
1 GATACACAG-TGGATCAGCACATAGCACCACCCTTATAGTCAAT
49777671 G
1 G
49777672 TCATCCGGTA
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 2 0.03
43 76 0.97
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.22
Consensus pattern (43 bp):
GATACACAGTGGATCAGCACATAGCACCACCCTTATAGTCAAT
Found at i:49779975 original size:143 final size:143
Alignment explanation
Indices: 49778757--49779977 Score: 1518
Period size: 143 Copynumber: 8.5 Consensus size: 143
49778747 GTTGTAGTAC
* * * * **
49778757 AGCATATTGAAGCCACCAACCTTATCTCCCTAAAGCTGCAGCGGAGCAGACTGAAGACAGTGAAT
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
* ** * * * * *
49778822 CTTATATCCCTGAAGATGCAGTGGAACAGATTGAAGCTACAAATTATGGTGGTTCTTATCTTTCT
66 CTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGATACAAATTATGGTGGATCTTATCTTCCT
* * * *
49778887 AAAATTACAATGG
131 GAAGTTGCAGTGG
* * * *
49778900 AGCAGATTGAAGCCACCAGCCTTATTTCCCTGAAATTGCAGCGGAGCAGACTGAATACAGTAAAT
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
* * * *
49778965 CTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGATAGAAATTATGGCGGATCTTATCTTCTT
66 CTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGATACAAATTATGGTGGATCTTATCTTCCT
*
49779030 GAAGTTGTAGTGG
131 GAAGTTGCAGTGG
* * * * *
49779043 AGCAGATTGAAGCCACCAACCTTATCTCTCTGAAGTTGCAGCGGAACAGACTAAAGACAACAAAT
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
** * * * *
49779108 CTTATTTCTTTGGCATTGCAGTGGAACAAATTAAAGCTAGAAATTATGGTGGATCTTATCTTCCT
66 CTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGATACAAATTATGGTGGATCTTATCTTCCT
*
49779173 GAAGTTGTAGTGG
131 GAAGTTGCAGTGG
* * *
49779186 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGACAACAAAT
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
* *
49779251 CTTATTTCCC-GAGCATTGCAGTGGAACAGATTAAA-ACGACAAATTATGGTGGATCTTATCTTC
66 CTTATTTCCCTG-GCGTTGCAGTGGAACAGATTAAAGA-TACAAATTATGGTGGATCTTATCTTC
* *
49779314 CTAAAGTTGTAGTGG
129 CTGAAGTTGCAGTGG
* * *
49779329 AGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGAAGCAGACTGAAGACAGCGAAT
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
* * * **
49779394 CTTATTTCTCTAGCATTGCAGTGGAACAGATTAAA-ACTACAAATTATGGCAGATCTTATCTTCC
66 CTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGA-TACAAATTATGGTGGATCTTATCTTCC
* **
49779458 TGAAGTTGTAGTAA
130 TGAAGTTGCAGTGG
* * * ** *
49779472 AGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGCTGCAGCGGAGCAGACTAAAGATTGCGAAT
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
* ** * * * * *
49779537 CTTATTTCCTTGAAGATGCAGTGGAACATATTGAAGCTACAAATTATGGCT-GTTCTTATCTTCC
66 CTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGATACAAATTATGG-TGGATCTTATCTTCC
*
49779601 TGAAGTTGCAGTGA
130 TGAAGTTGCAGTGG
* * * *
49779615 AGCAAATTGAGGCCACCAGCCTTATCT-CCTGGAAGTTACAGCGGAGCACACTGAAGACAGCAAA
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCT-GAAGTTGCAGCGGAGCAGACTGAAGACAGCAAA
* * * **
49779679 TCTT-TTTCCCCTGGCGTTACAGTGGAACAGATTAAAGCTATAAATTATGCCGGATCTTATCTTC
65 TCTTATTT-CCCTGGCGTTGCAGTGGAACAGATTAAAGATACAAATTATGGTGGATCTTATCTTC
49779743 CTGAAGTTGCAGTGG
129 CTGAAGTTGCAGTGG
* * *
49779758 AGCAGATTGAAGCCACCAACCTTATCTCTCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCAAAT
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
*
49779823 CTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAGATACAAATTATGGTGGATCTTATCTTCCT
66 CTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGATACAAATTATGGTGGATCTTATCTTCCT
*
49779888 GGAGTTGCAGTGG
131 GAAGTTGCAGTGG
* * * * * *
49779901 AGTAAATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTGAAGATAGCAAAT
1 AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
49779966 CTTATTTCCCTG
66 CTTATTTCCCTG
49779978 AAATTACAAT
Statistics
Matches: 937, Mismatches: 131, Indels: 20
0.86 0.12 0.02
Matches are distributed among these distances:
142 7 0.01
143 925 0.99
144 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (143 bp):
AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAAAT
CTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGATACAAATTATGGTGGATCTTATCTTCCT
GAAGTTGCAGTGG
Found at i:49783511 original size:38 final size:38
Alignment explanation
Indices: 49783437--49783511 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 38
49783427 GAAACAACAT
* * *
49783437 ACATGCTTAACATGCATTCAGTTTAACATTAGTAGTAG
1 ACATGCTTAACATGCATTCAGTTCAACAATAATAGTAG
* *
49783475 ACATGTTTAACATGTATTC-GATTCAACAATAATAGTA
1 ACATGCTTAACATGCATTCAG-TTCAACAATAATAGTA
49783512 AGCATGATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 1 0.03
38 30 0.97
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (38 bp):
ACATGCTTAACATGCATTCAGTTCAACAATAATAGTAG
Found at i:49786684 original size:25 final size:25
Alignment explanation
Indices: 49786652--49786704 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
49786642 GTTACAAATT
**
49786652 TTTGTTTTTAAGTTGTGTCTTTTAA
1 TTTGTTTTTAAGTCATGTCTTTTAA
*
49786677 TTTGTTTTTAGGTCATGTCTTTTAA
1 TTTGTTTTTAAGTCATGTCTTTTAA
49786702 TTT
1 TTT
49786705 TCTCTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.15, C:0.06, G:0.15, T:0.64
Consensus pattern (25 bp):
TTTGTTTTTAAGTCATGTCTTTTAA
Found at i:49788333 original size:17 final size:17
Alignment explanation
Indices: 49788311--49788348 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
49788301 TAATTGAAAA
49788311 TTAATATTTTCA-ATAAT
1 TTAATATTTTCACAT-AT
49788328 TTAATATTTTCACATAT
1 TTAATATTTTCACATAT
49788345 TTAA
1 TTAA
49788349 CAATTCAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTTTCACATAT
Found at i:49788919 original size:81 final size:81
Alignment explanation
Indices: 49788784--49789026 Score: 459
Period size: 81 Copynumber: 3.0 Consensus size: 81
49788774 AAGTTCTTTA
*
49788784 CCACTACACTTATAATCATTATTGAATAAATTTTAAAAAATATTTCTTCACATAAAATGTTTTCT
1 CCACTACACCTATAATCATTATTGAATAAATTTTAAAAAATATTTCTTCACATAAAATGTTTTCT
49788849 CCCACCCACATTGTGT
66 CCCACCCACATTGTGT
49788865 CCACTACACCTATAATCATTATTGAATAAATTTTAAAAAATATTTCTTCACATAAAATGTTTTCT
1 CCACTACACCTATAATCATTATTGAATAAATTTTAAAAAATATTTCTTCACATAAAATGTTTTCT
49788930 CCCACCCACATTGTGT
66 CCCACCCACATTGTGT
*
49788946 CCACTACGCCTATAATCATTATTGAATAAATTTTAAAAAATATTTCTTCACATAAAATGTTTTCT
1 CCACTACACCTATAATCATTATTGAATAAATTTTAAAAAATATTTCTTCACATAAAATGTTTTCT
*
49789011 CCCACTCACATTGTGT
66 CCCACCCACATTGTGT
49789027 ATCTATACGA
Statistics
Matches: 159, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 159 1.00
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.38
Consensus pattern (81 bp):
CCACTACACCTATAATCATTATTGAATAAATTTTAAAAAATATTTCTTCACATAAAATGTTTTCT
CCCACCCACATTGTGT
Found at i:49789619 original size:50 final size:51
Alignment explanation
Indices: 49789565--49789669 Score: 176
Period size: 50 Copynumber: 2.1 Consensus size: 51
49789555 GGGATTAGTC
* *
49789565 CATATTATTTAAGGGGTAGGACGAATCATATATTTGTGTTTATATTTTTT-
1 CATATTATTTAAGGGGTAGGACCAATCATATATTTGGGTTTATATTTTTTA
*
49789615 CATATTATTTAAGGTGTAGGACCAATCATATATTTGGGTTTATATTTTTTA
1 CATATTATTTAAGGGGTAGGACCAATCATATATTTGGGTTTATATTTTTTA
49789666 CATA
1 CATA
49789670 GATAAATTTC
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 47 0.92
51 4 0.08
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.47
Consensus pattern (51 bp):
CATATTATTTAAGGGGTAGGACCAATCATATATTTGGGTTTATATTTTTTA
Found at i:49793581 original size:18 final size:18
Alignment explanation
Indices: 49793543--49793578 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
49793533 TTATTATTTT
*
49793543 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
49793561 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
49793579 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:49793731 original size:10 final size:9
Alignment explanation
Indices: 49793693--49793727 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
49793683 ATTTTATATT
49793693 AATATTTTA
1 AATATTTTA
49793702 AATATTTTA
1 AATATTTTA
49793711 AATATTTTA
1 AATATTTTA
49793720 AATATTTT
1 AATATTTT
49793728 TAAAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
AATATTTTA
Found at i:49797896 original size:18 final size:18
Alignment explanation
Indices: 49797875--49797921 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
49797865 ATAATAATTT
*
49797875 AAAATTAAAAATTTAATA
1 AAAATTAAAAATGTAATA
*
49797893 AAAACTAAAAATGTAATA
1 AAAATTAAAAATGTAATA
*
49797911 ATAATTAAAAA
1 AAAATTAAAAA
49797922 ACATTAAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAATTAAAAATGTAATA
Found at i:49798230 original size:22 final size:20
Alignment explanation
Indices: 49798205--49798254 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
49798195 TTGGTTAATT
49798205 AAAGTTCAATGACTAAATTGTA
1 AAAGTTCAAT-A-TAAATTGTA
49798227 AAAGTTC-A-ATAAATTGTA
1 AAAGTTCAATATAAATTGTA
49798245 AAAGTTCAAT
1 AAAGTTCAAT
49798255 TGATATTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 16 0.62
19 2 0.08
21 1 0.04
22 7 0.27
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (20 bp):
AAAGTTCAATATAAATTGTA
Found at i:49798241 original size:18 final size:18
Alignment explanation
Indices: 49798218--49798254 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
49798208 GTTCAATGAC
49798218 TAAATTGTAAAAGTTCAA
1 TAAATTGTAAAAGTTCAA
49798236 TAAATTGTAAAAGTTCAA
1 TAAATTGTAAAAGTTCAA
49798254 T
1 T
49798255 TGATATTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (18 bp):
TAAATTGTAAAAGTTCAA
Found at i:49799715 original size:26 final size:27
Alignment explanation
Indices: 49799661--49799736 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 27
49799651 GTCCTCACGA
*
49799661 ACTTT-CACAAAAGATAGTCCTTATAG
1 ACTTTCCATAAAAGATAGTCCTTATAG
49799687 AC-TTCCATAAAAGATAGT-CTTGGAT-G
1 ACTTTCCATAAAAGATAGTCCTT--ATAG
*
49799713 ACTTTCCATATATTAGATAGTCCT
1 ACTTTCCATA-A-AAGATAGTCCT
49799737 CATGGGCTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
25 5 0.12
26 17 0.41
27 9 0.22
28 1 0.02
29 7 0.17
30 2 0.05
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (27 bp):
ACTTTCCATAAAAGATAGTCCTTATAG
Found at i:49803409 original size:17 final size:19
Alignment explanation
Indices: 49803381--49803415 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
49803371 AAGAATAATT
49803381 TTTTATTGTTTAT-TTTTC
1 TTTTATTGTTTATGTTTTC
49803399 TTTTA-TGTTTATGTTTT
1 TTTTATTGTTTATGTTTT
49803416 TCCTCTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.11, C:0.03, G:0.09, T:0.77
Consensus pattern (19 bp):
TTTTATTGTTTATGTTTTC
Found at i:49804223 original size:30 final size:30
Alignment explanation
Indices: 49804189--49804275 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
49804179 GTAACAGTGT
* * *
49804189 GTGGGCCATAGCCCAATATAATAATAGAGA
1 GTGGGCCTTAGCCCAATATAATAACAAAGA
* *
49804219 GTGGGCCTTAGCCCAATACT-GTAACAAAGT
1 GTGGGCCTTAGCCCAATA-TAATAACAAAGA
*
49804249 GTGGGCCTTAGCCCAATATAGTAACAA
1 GTGGGCCTTAGCCCAATATAATAACAA
49804276 GGCAAATGCA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
29 1 0.02
30 48 0.96
31 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (30 bp):
GTGGGCCTTAGCCCAATATAATAACAAAGA
Found at i:49804412 original size:26 final size:26
Alignment explanation
Indices: 49804383--49804472 Score: 128
Period size: 26 Copynumber: 3.5 Consensus size: 26
49804373 ACACCAATAT
49804383 CGCAGCAAAGCTGCCAGTAATAGTAA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
*
49804409 CGCAGCAAAGCTGCTAGTAATAGTAA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
* *
49804435 TGCAGCAGAGCTGCCAGT-ATCAGTAA
1 CGCAGCAAAGCTGCCAGTAAT-AGTAA
*
49804461 CGCAACAAAGCT
1 CGCAGCAAAGCT
49804473 ACCAATAACA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
25 2 0.04
26 54 0.96
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAATAGTAA
Found at i:49804691 original size:27 final size:27
Alignment explanation
Indices: 49804660--49804966 Score: 255
Period size: 27 Copynumber: 11.4 Consensus size: 27
49804650 AGGAGCATAA
* *
49804660 CAGTCATTTTACCCTAT-GGGGGTGTTT
1 CAGTCATTTTACCCT-TCGAGGGTATTT
*
49804687 TAGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* ** *
49804714 CAGTCATTTTACCTTTTAAGTGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
49804741 C-GATCATTTTATCCTTCGAGGGTATTT
1 CAG-TCATTTTACCCTTCGAGGGTATTT
* * *
49804768 TAGTAATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* * * *
49804795 TAATAATTTTACCGTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* *
49804822 CAGTAATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* *
49804849 C-GATAATTTTACTCTTCGAGGGTATTT
1 CAG-TCATTTTACCCTTCGAGGGTATTT
* * * *
49804876 CAATAATTTTACTCATCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* * * *
49804903 -TGATAATTTTACTCATCGAGGGTATTT
1 CAG-TCATTTTACCCTTCGAGGGTATTT
* *
49804930 C-GATAATTTTACCCATCGAGGGTATTT
1 CAG-TCATTTTACCCTTCGAGGGTATTT
* *
49804957 CGGTAATTTT
1 CAGTCATTTT
49804967 CCCATGAATC
Statistics
Matches: 241, Mismatches: 31, Indels: 16
0.84 0.11 0.06
Matches are distributed among these distances:
26 3 0.01
27 236 0.98
28 2 0.01
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.44
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCGAGGGTATTT
Found at i:49804724 original size:54 final size:55
Alignment explanation
Indices: 49804660--49804956 Score: 311
Period size: 54 Copynumber: 5.5 Consensus size: 55
49804650 AGGAGCATAA
* * *
49804660 CAGTCATTTTACCCTAT-GGGGGTGTTTTAG-TCATTTTACCCTTCGAGGGTATTT
1 CAGTAATTTTACCCT-TCGGGGGTATTTTAGATAATTTTACCCTTCGAGGGTATTT
* * *** * * * *
49804714 CAGTCATTTTACCTTTTAAGTGTA-TTTCGATCATTTTATCCTTCGAGGGTATTT
1 CAGTAATTTTACCCTTCGGGGGTATTTTAGATAATTTTACCCTTCGAGGGTATTT
* *
49804768 TAGTAATTTTACCCTTCGGGGGTATTTTA-ATAATTTTACCGTTCGAGGGTATTT
1 CAGTAATTTTACCCTTCGGGGGTATTTTAGATAATTTTACCCTTCGAGGGTATTT
* *
49804822 CAGTAATTTTACCCTTCGGGGGTA-TTTCGATAATTTTACTCTTCGAGGGTATTT
1 CAGTAATTTTACCCTTCGGGGGTATTTTAGATAATTTTACCCTTCGAGGGTATTT
* * * * * *
49804876 CAATAATTTTACTCATCGAGGGTATTTT-GATAATTTTACTCATCGAGGGTATTT
1 CAGTAATTTTACCCTTCGGGGGTATTTTAGATAATTTTACCCTTCGAGGGTATTT
* *
49804930 C-GATAATTTTACCCATCGAGGGTATTT
1 CAG-TAATTTTACCCTTCGGGGGTATTT
49804957 CGGTAATTTT
Statistics
Matches: 208, Mismatches: 29, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
53 8 0.04
54 194 0.93
55 6 0.03
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (55 bp):
CAGTAATTTTACCCTTCGGGGGTATTTTAGATAATTTTACCCTTCGAGGGTATTT
Found at i:49804781 original size:81 final size:80
Alignment explanation
Indices: 49804692--49804966 Score: 304
Period size: 81 Copynumber: 3.4 Consensus size: 80
49804682 TGTTTTAGTC
* * ** * *
49804692 ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCTTTTAAGTGTATTTCGATCATTTTATCCTT
1 ATTTTACCCTTCGAGGGTATTTCAATAATTTTACCTTTCGAGGGTATTTCGATAATTTTA-CCTT
49804757 CGAGGGTATTTTAG-TA
65 CGAGGGTA-TTTAGATA
* * *
49804773 ATTTTACCCTTCGGGGGTATTTTAATAATTTTACCGTTCGAGGGTATTTC-AGTAATTTTACCCT
1 ATTTTACCCTTCGAGGGTATTTCAATAATTTTACCTTTCGAGGGTATTTCGA-TAATTTTA-CCT
* *
49804837 TCGGGGGTATTTCGATA
64 TCGAGGGTATTTAGATA
* * * *
49804854 ATTTTACTCTTCGAGGGTATTTCAATAATTTTA-CTCATCGAGGGTATTTTGATAATTTTACTCA
1 ATTTTACCCTTCGAGGGTATTTCAATAATTTTACCT-TTCGAGGGTATTTCGATAATTTTAC-CT
*
49804918 TCGAGGGTATTTCGATA
64 TCGAGGGTATTTAGATA
* **
49804935 ATTTTACCCATCGAGGGTATTTCGGTAATTTT
1 ATTTTACCCTTCGAGGGTATTTCAATAATTTT
49804967 CCCATGAATC
Statistics
Matches: 165, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
80 7 0.04
81 157 0.95
82 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (80 bp):
ATTTTACCCTTCGAGGGTATTTCAATAATTTTACCTTTCGAGGGTATTTCGATAATTTTACCTTC
GAGGGTATTTAGATA
Found at i:49804964 original size:54 final size:54
Alignment explanation
Indices: 49804692--49804966 Score: 322
Period size: 54 Copynumber: 5.1 Consensus size: 54
49804682 TGTTTTAGTC
* * ** ** * *
49804692 ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCTTTTAAGTGTATTTCGATC
1 ATTTTACTCTTCGAGGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCGATA
* * * **
49804746 ATTTTA-TCCTTCGAGGGTATTTTAGTAATTTTACCCTTCGGGGGTATTTTAATA
1 ATTTTACT-CTTCGAGGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCGATA
* *
49804800 ATTTTAC-CGTTCGAGGGTATTTCAGTAATTTTACCCTTCGGGGGTATTTCGATA
1 ATTTTACTC-TTCGAGGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCGATA
* * *
49804854 ATTTTACTCTTCGAGGGTATTTCAATAATTTTACTCATCGAGGGTATTTTGATA
1 ATTTTACTCTTCGAGGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCGATA
* *
49804908 ATTTTACTCATCGAGGGTATTTC-GATAATTTTACCCATCGAGGGTATTTCGGTA
1 ATTTTACTCTTCGAGGGTATTTCAG-TAATTTTACCCATCGAGGGTATTTCGATA
49804962 ATTTT
1 ATTTT
49804967 CCCATGAATC
Statistics
Matches: 192, Mismatches: 24, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.01
54 190 0.99
55 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (54 bp):
ATTTTACTCTTCGAGGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCGATA
Found at i:49808221 original size:53 final size:53
Alignment explanation
Indices: 49808154--49808260 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
49808144 AAGAATGAAA
*
49808154 TCCGTGGATAAGTATACCCATAGCGAAGAAGGAATCGACAAAGAAGTGAAAAG
1 TCCGTGGATAAGTATACCCATAGCGAAGAAGGAATCGAAAAAGAAGTGAAAAG
*
49808207 TCCGTGGATAAGTATACCTATAGCGAAGAAGGAATCGAAAAAGAAGTGAAAAG
1 TCCGTGGATAAGTATACCCATAGCGAAGAAGGAATCGAAAAAGAAGTGAAAAG
49808260 T
1 T
49808261 TCATAAGACG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.44, C:0.13, G:0.26, T:0.17
Consensus pattern (53 bp):
TCCGTGGATAAGTATACCCATAGCGAAGAAGGAATCGAAAAAGAAGTGAAAAG
Found at i:49808602 original size:15 final size:15
Alignment explanation
Indices: 49808582--49808613 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
49808572 CCTTTTTATG
49808582 TTCAAACCCTAAGAC
1 TTCAAACCCTAAGAC
49808597 TTCAAACCCTAAGAC
1 TTCAAACCCTAAGAC
49808612 TT
1 TT
49808614 TAGCATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.31, G:0.06, T:0.25
Consensus pattern (15 bp):
TTCAAACCCTAAGAC
Found at i:49814144 original size:28 final size:28
Alignment explanation
Indices: 49814074--49814130 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
49814064 AGGGAAAATG
* *
49814074 ACTAGTTAAAAAGAATATCAGGGGTTTC
1 ACTAATTAAAAATAATATCAGGGGTTTC
49814102 ACTAATTAAAAATAATATCAGGGGTTTC
1 ACTAATTAAAAATAATATCAGGGGTTTC
49814130 A
1 A
49814131 TAAATTGACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.30
Consensus pattern (28 bp):
ACTAATTAAAAATAATATCAGGGGTTTC
Found at i:49819508 original size:35 final size:35
Alignment explanation
Indices: 49819464--49819553 Score: 135
Period size: 35 Copynumber: 2.6 Consensus size: 35
49819454 ACACCAAATT
* * * *
49819464 CTCACAAGAGCTAGTCCGACCGAAAAACGCCAATG
1 CTCATAAGAGCTAGTCCAACCAAAAAACGCCAATA
49819499 CTCATAAGAGCTAGTCCAACCAAAAAACGCCAATA
1 CTCATAAGAGCTAGTCCAACCAAAAAACGCCAATA
*
49819534 CTGATAAGAGCTAGTCCAAC
1 CTCATAAGAGCTAGTCCAAC
49819554 TGAAATACAC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.40, C:0.29, G:0.17, T:0.14
Consensus pattern (35 bp):
CTCATAAGAGCTAGTCCAACCAAAAAACGCCAATA
Found at i:49821684 original size:8 final size:7
Alignment explanation
Indices: 49821654--49821683 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
49821644 TAATAATTAT
49821654 AAAAATA
1 AAAAATA
49821661 AAAAATA
1 AAAAATA
49821668 AAAAATA
1 AAAAATA
49821675 ATAAAATA
1 A-AAAATA
49821683 A
1 A
49821684 TGGGTCTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAAATA
Found at i:49853921 original size:7 final size:7
Alignment explanation
Indices: 49853905--49854063 Score: 68
Period size: 7 Copynumber: 22.4 Consensus size: 7
49853895 ATCATTTTAT
*
49853905 TTTAGTG
1 TTTAGGG
49853912 TTTAGGG
1 TTTAGGG
**
49853919 TTTAGAA
1 TTTAGGG
*
49853926 TTTAAGG
1 TTTAGGG
**
49853933 TTTAAAG
1 TTTAGGG
*
49853940 TCTAGGG
1 TTTAGGG
49853947 -TTAGGG
1 TTTAGGG
*
49853953 TTTTAAGG
1 -TTTAGGG
* **
49853961 TATATAG
1 TTTAGGG
*
49853968 TTTAGTG
1 TTTAGGG
*
49853975 TTTTGGG
1 TTTAGGG
49853982 TTTAGGG
1 TTTAGGG
* *
49853989 TTTAATGT
1 TTT-AGGG
*
49853997 TTTTGGG
1 TTTAGGG
* *
49854004 TTTAAGA
1 TTTAGGG
49854011 TTTAGGG
1 TTTAGGG
*
49854018 TTTAGTGT
1 TTTAG-GG
**
49854026 TTTATAG
1 TTTAGGG
49854033 TTTAGGG
1 TTTAGGG
*
49854040 TTTAAGG
1 TTTAGGG
*
49854047 TTTAGGA
1 TTTAGGG
*
49854054 TTTAGTG
1 TTTAGGG
49854061 TTT
1 TTT
49854064 TAAGATTTAG
Statistics
Matches: 106, Mismatches: 42, Indels: 8
0.68 0.27 0.05
Matches are distributed among these distances:
6 5 0.05
7 86 0.81
8 15 0.14
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:49854003 original size:22 final size:21
Alignment explanation
Indices: 49853967--49854007 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
49853957 AAGGTATATA
*
49853967 GTTTAGTGTTTTGGGTTTAGG
1 GTTTAATGTTTTGGGTTTAGG
49853988 GTTTAATGTTTTTGGGTTTA
1 GTTTAATG-TTTTGGGTTTA
49854008 AGATTTAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.00, G:0.32, T:0.56
Consensus pattern (21 bp):
GTTTAATGTTTTGGGTTTAGG
Found at i:49854006 original size:15 final size:15
Alignment explanation
Indices: 49853982--49854029 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
49853972 GTGTTTTGGG
49853982 TTTAGGGTTTAATGT
1 TTTAGGGTTTAATGT
* *
49853997 TTTTGGGTTTAA-GA
1 TTTAGGGTTTAATGT
*
49854011 TTTAGGGTTTAGTGT
1 TTTAGGGTTTAATGT
49854026 TTTA
1 TTTA
49854030 TAGTTTAGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.54
Consensus pattern (15 bp):
TTTAGGGTTTAATGT
Found at i:49854019 original size:36 final size:36
Alignment explanation
Indices: 49853979--49854063 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
49853969 TTAGTGTTTT
* *
49853979 GGGTTTAGGGTTTAAT-GTTTTTGGGTTTAAGATTTA
1 GGGTTTAGTGTTTAATAG-TTTAGGGTTTAAGATTTA
* *
49854015 GGGTTTAGTGTTTTATAGTTTAGGGTTTAAGGTTTA
1 GGGTTTAGTGTTTAATAGTTTAGGGTTTAAGATTTA
*
49854051 GGATTTAGTGTTT
1 GGGTTTAGTGTTT
49854064 TAAGATTTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 42 0.98
37 1 0.02
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.51
Consensus pattern (36 bp):
GGGTTTAGTGTTTAATAGTTTAGGGTTTAAGATTTA
Found at i:49854020 original size:22 final size:22
Alignment explanation
Indices: 49853975--49854020 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
49853965 TAGTTTAGTG
* * *
49853975 TTTTGGGTTTAGGGTTTAATGT
1 TTTTGGGTTTAAGATTTAAGGT
*
49853997 TTTTGGGTTTAAGATTTAGGGT
1 TTTTGGGTTTAAGATTTAAGGT
49854019 TT
1 TT
49854021 AGTGTTTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.54
Consensus pattern (22 bp):
TTTTGGGTTTAAGATTTAAGGT
Found at i:49854051 original size:29 final size:29
Alignment explanation
Indices: 49853974--49854051 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
49853964 ATAGTTTAGT
* * *
49853974 GTTTTGGGTTTAGGGTTTAATGTTTTTGG
1 GTTTAGGGTTTAGGGTTTAGTGTTTTTGA
* *
49854003 GTTTAAGATTTAGGGTTTAGTGTTTTAT-A
1 GTTTAGGGTTTAGGGTTTAGTGTTTT-TGA
*
49854032 GTTTAGGGTTTAAGGTTTAG
1 GTTTAGGGTTTAGGGTTTAG
49854052 GATTTAGTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 39 0.98
30 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (29 bp):
GTTTAGGGTTTAGGGTTTAGTGTTTTTGA
Found at i:49854064 original size:36 final size:36
Alignment explanation
Indices: 49854001--49854073 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
49853991 TAATGTTTTT
*
49854001 GGGTTTAAGATTTAGGGTTTAGTGTTTTATAG-TTTA
1 GGGTTTAAGATTTAGGATTTAGTGTTTTA-AGATTTA
*
49854037 GGGTTTAAGGTTTAGGATTTAGTGTTTTAAGATTTA
1 GGGTTTAAGATTTAGGATTTAGTGTTTTAAGATTTA
49854073 G
1 G
49854074 AATTTATGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 2 0.06
36 32 0.94
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (36 bp):
GGGTTTAAGATTTAGGATTTAGTGTTTTAAGATTTA
Found at i:49854072 original size:22 final size:21
Alignment explanation
Indices: 49854040--49854086 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
49854030 TAGTTTAGGG
* *
49854040 TTTAAGGTTTAGGATTTAGTGT
1 TTTAAGATTTAGAATTTA-TGT
49854062 TTTAAGATTTAGAATTTATGT
1 TTTAAGATTTAGAATTTATGT
49854083 TTTA
1 TTTA
49854087 GGGTTAGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (21 bp):
TTTAAGATTTAGAATTTATGT
Found at i:49854087 original size:36 final size:36
Alignment explanation
Indices: 49854004--49854088 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 36
49853994 TGTTTTTGGG
* * **
49854004 TTTAAGATTTAGGGTTTAGTGTTTTATAGTTTAGGG
1 TTTAAGGTTTAGGATTTAGTGTTTTATAGTTTAGAA
49854040 TTTAAGGTTTAGGATTTAGTGTTTTA-AGATTTAGAA
1 TTTAAGGTTTAGGATTTAGTGTTTTATAG-TTTAGAA
* *
49854076 TTTATGTTTTAGG
1 TTTAAGGTTTAGG
49854089 GTTAGGGATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 2 0.05
36 40 0.95
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (36 bp):
TTTAAGGTTTAGGATTTAGTGTTTTATAGTTTAGAA
Found at i:49854817 original size:113 final size:113
Alignment explanation
Indices: 49854690--49854918 Score: 309
Period size: 113 Copynumber: 2.0 Consensus size: 113
49854680 GTTTATGATT
* * * * ***
49854690 AAAACGCGGCAAAAAAACATTTTACTTTAAACAAAACGGTGCCATTTTTAGTGGCATTAATGGTG
1 AAAACGCGGCAAAAAAACATTTTACTTTAAACAAAACGGCGACATTTTTAATGGCATTAACGACA
*
49854755 CTAGGTGAAAAACACCGCAATAGAGCGAGCATTAGCGG-AGCTAGGTAA
66 CTAGGTGAAAAACACCACAATAGAGCGAGCATTAGCGGCA-CTAGGTAA
* * *
49854803 AAAACGCCGG-AAAAAAACATTTTACTTTAAACAAAATGGCGACGTTTTTAATGGCATTAGCGAC
1 AAAACG-CGGCAAAAAAACATTTTACTTTAAACAAAACGGCGACATTTTTAATGGCATTAACGAC
* *
49854867 ACTAGGTGAAAAACGCCACAATAGATCGAGCATTAGCGGCACTAGGTAA
65 ACTAGGTGAAAAACACCACAATAGAGCGAGCATTAGCGGCACTAGGTAA
49854916 AAA
1 AAA
49854919 TCATCACAAA
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
113 97 0.96
114 4 0.04
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (113 bp):
AAAACGCGGCAAAAAAACATTTTACTTTAAACAAAACGGCGACATTTTTAATGGCATTAACGACA
CTAGGTGAAAAACACCACAATAGAGCGAGCATTAGCGGCACTAGGTAA
Found at i:49863330 original size:12 final size:12
Alignment explanation
Indices: 49863313--49863338 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49863303 TAGCTCCCCA
49863313 TAGTCTCTTTGT
1 TAGTCTCTTTGT
49863325 TAGTCTCTTTGT
1 TAGTCTCTTTGT
49863337 TA
1 TA
49863339 TCTTTCTCTC
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:0.12, C:0.15, G:0.15, T:0.58
Consensus pattern (12 bp):
TAGTCTCTTTGT
Done.