Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 190 of 199
Found at i:55156552 original size:21 final size:22
Alignment explanation
Indices: 55156526--55156572 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
55156516 TGCATTTGGG
55156526 CTGCTTCTTTCTTCTT-TTTTT
1 CTGCTTCTTTCTTCTTCTTTTT
55156547 CTGCTTCTTTCTTCTTCTTTTT
1 CTGCTTCTTTCTTCTTCTTTTT
55156569 -TGCT
1 CTGCT
55156573 GTTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.00, C:0.26, G:0.06, T:0.68
Consensus pattern (22 bp):
CTGCTTCTTTCTTCTTCTTTTT
Found at i:55156716 original size:7 final size:7
Alignment explanation
Indices: 55156699--55156740 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
55156689 TTATTATTTC
55156699 TTTTC-T
1 TTTTCTT
55156705 TTTTCTT
1 TTTTCTT
55156712 TTTTCTT
1 TTTTCTT
55156719 TCTTTCTT
1 T-TTTCTT
* *
55156727 CTTTCTC
1 TTTTCTT
55156734 TTTTCTT
1 TTTTCTT
55156741 CTTCCTTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 5 0.17
7 19 0.63
8 6 0.20
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTCTT
Found at i:55156722 original size:22 final size:22
Alignment explanation
Indices: 55156695--55156750 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
55156685 TTTTTTATTA
*
55156695 TTTCTTTTCTT-TTTCTTTTTTC
1 TTTC-TTTCTTCTTTCTCTTTTC
55156717 TTTCTTTCTTCTTTCTCTTTTC
1 TTTCTTTCTTCTTTCTCTTTTC
*
55156739 -TTCTTCCTTCTT
1 TTTCTTTCTTCTT
55156751 CTTCTTCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTCTTTCTTCTTTCTCTTTTC
Found at i:55156728 original size:24 final size:24
Alignment explanation
Indices: 55156701--55156753 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
55156691 ATTATTTCTT
* *
55156701 TTCTTTTTCTTTT-TTCTTTCTTTC
1 TTCTTTCTCTTTTCTTC-TTCCTTC
55156725 TTCTTTCTCTTTTCTTCTTCCTTC
1 TTCTTTCTCTTTTCTTCTTCCTTC
55156749 TTCTT
1 TTCTT
55156754 CTTCAAAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (24 bp):
TTCTTTCTCTTTTCTTCTTCCTTC
Found at i:55156735 original size:17 final size:17
Alignment explanation
Indices: 55156695--55156749 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
55156685 TTTTTTATTA
55156695 TTTCT-TTTCTTT-TTC
1 TTTCTCTTTCTTTCTTC
*
55156710 TTTTTTCTTTCTTTCTTC
1 -TTTCTCTTTCTTTCTTC
55156728 TTTCTCTTT-TCTTCTTC
1 TTTCTCTTTCT-TTCTTC
*
55156745 CTTCT
1 TTTCT
55156750 TCTTCTTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 5 0.15
17 25 0.76
18 3 0.09
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTCTCTTTCTTTCTTC
Found at i:55156853 original size:18 final size:19
Alignment explanation
Indices: 55156817--55156857 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
55156807 CGGTACTCTT
*
55156817 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCCTCTCCTCTTTC
55156836 TCTTTTCCT-TCCT-TTT-
1 TCTTTTCCTCTCCTCTTTC
55156852 TCTTTT
1 TCTTTT
55156858 TTTCGAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 3 0.14
18 4 0.19
19 8 0.38
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
TCTTTTCCTCTCCTCTTTC
Found at i:55156859 original size:18 final size:16
Alignment explanation
Indices: 55156812--55156859 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
55156802 GACGCCGGTA
55156812 CTCTTTCTTTTCTTCTC
1 CTCTTTCTTTT-TTCTC
*
55156829 CTCTTTCTCTTTTCCTTC
1 CTCTTTCT-TTTTTC-TC
*
55156847 CTTTTTCTTTTTT
1 CTCTTTCTTTTTT
55156860 TCGAAACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
CTCTTTCTTTTTTCTC
Found at i:55157146 original size:30 final size:30
Alignment explanation
Indices: 55157091--55157207 Score: 139
Period size: 30 Copynumber: 3.9 Consensus size: 30
55157081 TGTAATTTTT
* *
55157091 AGAAAATTTA-GGGTTAAAATGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* * *
55157120 TGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
*
55157150 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
55157179 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AG-AAAGTTTAGGGGTCAAAATGAAATTT
55157208 TTATTTTTTA
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
29 10 0.14
30 64 0.86
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
AGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:55157207 original size:60 final size:59
Alignment explanation
Indices: 55157091--55157207 Score: 155
Period size: 60 Copynumber: 2.0 Consensus size: 59
55157081 TGTAATTTTT
* * * *
55157091 AGAAAATTTAGGGTTAAAATGAAATTTAATGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
55157150 AGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAATTT-AGGGTCAAAATGAAATTTAAGG-AAAGTTTAGGGGTCAAAATGAAATTT
55157208 TTATTTTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 10 0.20
60 40 0.80
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (59 bp):
AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:55159744 original size:15 final size:16
Alignment explanation
Indices: 55159715--55159747 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
55159705 TTTTTATAAC
*
55159715 TTTTTAATATTTTTAT
1 TTTTTAATATATTTAT
55159731 TTTTTAATA-ATTTAT
1 TTTTTAATATATTTAT
55159746 TT
1 TT
55159748 GTTTTGAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTAATATATTTAT
Found at i:55160013 original size:26 final size:26
Alignment explanation
Indices: 55159961--55160013 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
55159951 AAATTTGTTG
*
55159961 TTTATGTTTTTAAAATTATTTTATTT
1 TTTATGTTTTTAAAATTATTATATTT
* *
55159987 TTTATTTTTTTAAAATTA-TATACTT
1 TTTATGTTTTTAAAATTATTATATTT
55160012 TT
1 TT
55160014 AAAGGGTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTATGTTTTTAAAATTATTATATTT
Found at i:55167233 original size:3 final size:3
Alignment explanation
Indices: 55167225--55167254 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
55167215 GTTATTTTCA
55167225 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
55167255 GTTCTTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:55172088 original size:15 final size:15
Alignment explanation
Indices: 55172048--55172090 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 15
55172038 GACAGTCATG
55172048 AAAAGAAAAAGAAAACA
1 AAAAG-AAAA-AAAACA
55172065 AAACA-AAAAAAAACA
1 AAA-AGAAAAAAAACA
55172080 AAAAGAAAAAA
1 AAAAGAAAAAA
55172091 GGACAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.04
15 15 0.62
16 4 0.17
17 3 0.12
18 1 0.04
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAACA
Found at i:55172096 original size:26 final size:27
Alignment explanation
Indices: 55172048--55172104 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
55172038 GACAGTCATG
*
55172048 AAAAGAAAAAGAAAACAAAACAA-AAA
1 AAAACAAAAAGAAAACAAAACAAGAAA
*
55172074 AAAACAAAAAGAAAA-AAGGACAAGAAA
1 AAAACAAAAAGAAAACAA-AACAAGAAA
55172101 AAAA
1 AAAA
55172105 ATTAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 18 0.67
27 7 0.26
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (27 bp):
AAAACAAAAAGAAAACAAAACAAGAAA
Found at i:55174408 original size:72 final size:73
Alignment explanation
Indices: 55174283--55174443 Score: 261
Period size: 72 Copynumber: 2.2 Consensus size: 73
55174273 TGATGCTTTT
* *
55174283 ATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGCTTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
55174348 TAATTTCA
66 TAATTTCA
*
55174356 ATTTCTG-TTTTCAAAATTCAACTCATTTTACGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 ATTTCTGCTTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
*
55174420 TATTTTCA
66 TAATTTCA
**
55174428 AAATCTGCTTTTCAAA
1 ATTTCTGCTTTTCAAA
55174444 TTAAGTTTCA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
72 66 0.81
73 15 0.19
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (73 bp):
ATTTCTGCTTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
TAATTTCA
Found at i:55174589 original size:53 final size:54
Alignment explanation
Indices: 55174449--55174700 Score: 393
Period size: 53 Copynumber: 4.7 Consensus size: 54
55174439 TCAAATTAAG
* * *
55174449 TTTCAAAAATCAACTCATATTACGAGAGGTGAGTT-AAGCCTTTTAATTCCTGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTAATTTCTGGT
55174503 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
1 TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
**
55174558 TTTC-AAAATTGACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
* *
55174611 TTTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
*
55174665 TTTC-AAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
55174701 GCCTCGGGGC
Statistics
Matches: 184, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
53 81 0.44
54 53 0.29
55 48 0.26
56 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (54 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
Found at i:55174662 original size:107 final size:109
Alignment explanation
Indices: 55174449--55174704 Score: 403
Period size: 107 Copynumber: 2.4 Consensus size: 109
55174439 TCAAATTAAG
* *
55174449 TTTCAAAAATCAACTCATATTACGAGAGGTGAGTT-AAGCCTTTTAATTCCTGTTTTTCAAAAAA
1 TTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTTAATTCCTGGTTTTCAAAAAA
55174513 TCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
65 TCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
** *
55174558 TTTCAAAATTGACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTAATTTCTGGTTTTC-AAAAAT
1 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTTAATTCCTGGTTTTCAAAAAAT
* *
55174621 CAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTGTT
66 CAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
*
55174665 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTG-AGCCT
1 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCCT
55174705 CGGGGCACGC
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
106 1 0.01
107 83 0.61
108 45 0.33
109 6 0.04
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (109 bp):
TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTTAATTCCTGGTTTTCAAAAAAT
CAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
Found at i:55174765 original size:69 final size:71
Alignment explanation
Indices: 55174651--55174917 Score: 299
Period size: 69 Copynumber: 3.7 Consensus size: 71
55174641 GGGTTGAACC
* *
55174651 TTTT-AATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTATGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
55174715 CGAGGTA
65 CGAGGTA
* * ** * * *
55174722 TTTTTAGTTTATG-TTTT-AAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
1 TTTTCAATTTATGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCC
55174785 GAGGTA
66 GAGGTA
* *
55174791 ATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTCAATTTATGTTTTT--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
55174856 CCGAGGTA
64 CCGAGGTA
*** *
55174864 TTTTCAAATTCTACT-TTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTC-AATT-TA-TGTT--TTTAAAATCAACTCATATTGCGAGAGGTGAGTTGA
55174918 ACCTTTTAAT
Statistics
Matches: 163, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
69 55 0.34
70 4 0.02
71 8 0.05
72 6 0.04
73 51 0.31
74 4 0.02
75 34 0.21
76 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (71 bp):
TTTTCAATTTATGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCC
GAGGTA
Found at i:55174843 original size:73 final size:72
Alignment explanation
Indices: 55174651--55174917 Score: 328
Period size: 73 Copynumber: 3.7 Consensus size: 72
55174641 GGGTTGAACC
*
55174651 TTTT-AATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
55174715 CGAGGTA
66 CGAGGTA
* * * ** * *
55174722 TTTTTAGTTTATG-TTTT--AAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTCAATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
*
55174784 TGAGGTA
66 CGAGGTA
*
55174791 ATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTCAATTTCTGTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
55174856 CCGAGGTA
65 CCGAGGTA
* ** *
55174864 TTTTCAAATTCT-ACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTCAATTTCTGTTTTTC----AAAATCAACTCATATTGCGAGAGGTGAGTTGA
55174918 ACCTTTTAAT
Statistics
Matches: 166, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
69 55 0.33
70 4 0.02
71 8 0.05
72 10 0.06
73 57 0.34
75 32 0.19
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (72 bp):
TTTTCAATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
CGAGGTA
Found at i:55175413 original size:404 final size:411
Alignment explanation
Indices: 55174745--55175674 Score: 1441
Period size: 404 Copynumber: 2.2 Consensus size: 411
55174735 TTTTAAATTG
* * *
55174745 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTTC
1 ACTCATATTGC-AGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTTTGTTTTTC
55174810 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTC
65 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTC
55174875 TACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTC
130 TACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTC
*
55174940 AAAATCAGCTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
195 AAAATCAGCTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
55175005 TGTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC-GCCGAGGTAT
260 TGTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACAGCCGAGGTAT
55175069 TTTC-AAA-TT-C-TAC-T-TTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAA
325 TTTCAAAATTTGCATACGTGTTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAA
55175128 TTTCTAC-TTTTTC-AAAATCA
390 TTTCTACTTTTTTCAAAAATCA
* *
55175148 GCTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGT
1 ACTCATATTGC-AGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAA-TTTTTGT-T-T
* ** *
55175213 TT-TAATTTCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGGCACGCCGAGGTATTTTCAAA
62 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAA
55175277 TTCTACTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTT
127 TTCTACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTT
55175341 TTCAAAATCAGCTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
192 TTCAAAATCAGCTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
* *
55175406 TTTTGTGTGTTTTAATTTCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAG
257 TTTTGTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACA-GCCGAG
*
55175471 GTATTTTCAAAATCTGTTTGGCAAATTCTGTGTTCAAAAATCAACTCATATTGCGAGAGGTGGGT
321 GTATTTTCAAAA----TTT-GC--ATAC-GTGTTCAAAAATCAACTCATATTGCGAGAGGTGGGT
55175536 TGAACCTTTTAATTTCTACTTTTTTCAAAAATCA
378 TGAACCTTTTAATTTCTACTTTTTTCAAAAATCA
* * * * * * *
55175570 ACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAAGTATTTCTTTCAAATTTTCGTTT
1 ACTCATATTGCAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA--T-TTTC-AATTTTTGTTT
55175635 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
62 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
55175675 TGGATCACAT
Statistics
Matches: 475, Mismatches: 26, Indels: 32
0.89 0.05 0.06
Matches are distributed among these distances:
403 48 0.10
404 179 0.38
405 69 0.15
406 17 0.04
407 3 0.01
412 2 0.00
414 1 0.00
417 2 0.00
419 1 0.00
420 52 0.11
421 36 0.08
422 18 0.04
423 35 0.07
424 10 0.02
425 2 0.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (411 bp):
ACTCATATTGCAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTTTGTTTTTCA
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCT
ACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
AAATCAGCTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTT
GTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACAGCCGAGGTATT
TTCAAAATTTGCATACGTGTTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAAT
TTCTACTTTTTTCAAAAATCA
Found at i:55175435 original size:203 final size:204
Alignment explanation
Indices: 55174746--55175674 Score: 1358
Period size: 201 Copynumber: 4.5 Consensus size: 204
55174736 TTTAAATTGA
* * * * *
55174746 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA-TTTCTGT-T-TT
1 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGTT
* **
55174808 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAAT
66 T-TAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAAT
55174873 TCTACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
130 TCTACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
55174938 TCAAAATCAG
195 TCAAAATCAG
55174948 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGTT
1 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGTT
55175013 TTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATT
66 TTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATT
55175078 CTACTTTC---AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTT
131 CTACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTT
55175140 CAAAATCAG
196 CAAAATCAG
55175149 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGTT
1 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGTT
*
55175214 TTAATTTCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGGCACGCCGAGGTATTTTCAAATT
66 TTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATT
55175279 CTACTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTT
131 CTACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTT
55175343 CAAAATCAG
196 CAAAATCAG
*
55175352 CTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGTT
1 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGTT
* *
55175417 TTAATTTCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAAA
66 TTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC--GCCGAGGTATTTTCAAA
* *
55175482 ATCT-GTTTGGCAAATTCTGTGTTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTT
129 TTCTACTTT--CAAA----------AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTT
*
55175546 AATTTCTACTTTTTTCAAAAATCAA
182 AATTTCTAC-TTTTTC-AAAATCAG
* * * * * * * *
55175571 CTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAAGTATTTCTTTCAAATTTTCGT-T
1 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA--T-TTTCAATTTTTTGTGT
* **
55175634 -TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
63 GTTT-TAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
55175675 TGGATCACAT
Statistics
Matches: 672, Mismatches: 29, Indels: 34
0.91 0.04 0.05
Matches are distributed among these distances:
201 200 0.30
202 48 0.07
203 176 0.26
204 73 0.11
205 23 0.03
206 1 0.00
207 2 0.00
217 49 0.07
218 35 0.05
219 18 0.03
220 35 0.05
221 12 0.02
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (204 bp):
CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGTT
TTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATT
CTACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTT
CAAAATCAG
Found at i:55175789 original size:76 final size:77
Alignment explanation
Indices: 55175556--55175830 Score: 403
Period size: 76 Copynumber: 3.6 Consensus size: 77
55175546 AATTTCTACT
*
55175556 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAAGTATTTCT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
* *
55175620 TTCAAATTTTCG
66 TTTAAATTTTTG
* * * *
55175632 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGATCACATGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT--CATGCCGAGGTATTT
* *
55175697 CTTTTCAATTTCTG
64 CTTTTAAATTTTTG
55175711 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
55175775 TTTAAATTTTTG
66 TTTAAATTTTTG
* *
55175787 -TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTTTC-AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTC
55175831 AGGACACACG
Statistics
Matches: 177, Mismatches: 17, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
75 5 0.03
76 67 0.38
77 38 0.21
78 20 0.11
79 47 0.27
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (77 bp):
TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
TTTAAATTTTTG
Found at i:55175844 original size:155 final size:155
Alignment explanation
Indices: 55175556--55175851 Score: 515
Period size: 155 Copynumber: 1.9 Consensus size: 155
55175546 AATTTCTACT
55175556 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAAGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAAGTATTTCTT
* *
55175621 TCAAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGATCACATG
66 TCAAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGATCACACG
55175686 CCGAGGTATTTCTTTTCAATTTCTG
131 CCGAGGTATTTCTTTTCAATTTCTG
*
55175711 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAAGTATTTCTT
* *
55175776 TTAAATTTTTG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACA
66 TCAAATTTTCGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGATCACA
55175839 CGCCGAGGTATTT
129 CGCCGAGGTATTT
55175852 TCAATTAAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
154 5 0.04
155 126 0.94
156 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (155 bp):
TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAAGTATTTCTT
TCAAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGATCACACG
CCGAGGTATTTCTTTTCAATTTCTG
Found at i:55176098 original size:73 final size:73
Alignment explanation
Indices: 55175979--55176231 Score: 402
Period size: 73 Copynumber: 3.5 Consensus size: 73
55175969 TTTGAAAGAA
*
55175979 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
55176044 TCAAAAAT
66 TCAAAAAT
*
55176052 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
55176117 TTC-AAAAT
65 TTCAAAAAT
* * * *
55176125 TTAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
* *
55176190 TAAAAAAA
66 TCAAAAAT
55176198 TCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
55176232 GTTCACATGT
Statistics
Matches: 167, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
72 6 0.04
73 156 0.93
74 5 0.03
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (73 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAAT
Found at i:55177926 original size:3 final size:3
Alignment explanation
Indices: 55177918--55177950 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
55177908 GTTATTTTCA
55177918 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
55177951 GTTCTTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:55182781 original size:15 final size:15
Alignment explanation
Indices: 55182741--55182783 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 15
55182731 GACAGTCATG
55182741 AAAAGAAAAAGAAAACA
1 AAAAG-AAAA-AAAACA
55182758 AAACA-AAAAAAAACA
1 AAA-AGAAAAAAAACA
55182773 AAAAGAAAAAA
1 AAAAGAAAAAA
55182784 GGACAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.04
15 15 0.62
16 4 0.17
17 3 0.12
18 1 0.04
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAACA
Found at i:55182789 original size:26 final size:27
Alignment explanation
Indices: 55182741--55182797 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
55182731 GACAGTCATG
*
55182741 AAAAGAAAAAGAAAACAAAACAA-AAA
1 AAAACAAAAAGAAAACAAAACAAGAAA
*
55182767 AAAACAAAAAGAAAA-AAGGACAAGAAA
1 AAAACAAAAAGAAAACAA-AACAAGAAA
55182794 AAAA
1 AAAA
55182798 TTAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 18 0.67
27 7 0.26
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (27 bp):
AAAACAAAAAGAAAACAAAACAAGAAA
Found at i:55185100 original size:72 final size:73
Alignment explanation
Indices: 55184975--55185135 Score: 261
Period size: 72 Copynumber: 2.2 Consensus size: 73
55184965 TGATGCTTTT
* *
55184975 ATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGCTTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
55185040 TAATTTCA
66 TAATTTCA
*
55185048 ATTTCTG-TTTTCAAAATTCAACTCATTTTACGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 ATTTCTGCTTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
*
55185112 TATTTTCA
66 TAATTTCA
**
55185120 AAATCTGCTTTTCAAA
1 ATTTCTGCTTTTCAAA
55185136 TTAAGTTTCA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
72 66 0.81
73 15 0.19
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (73 bp):
ATTTCTGCTTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
TAATTTCA
Found at i:55185281 original size:53 final size:54
Alignment explanation
Indices: 55185141--55185392 Score: 393
Period size: 53 Copynumber: 4.7 Consensus size: 54
55185131 TCAAATTAAG
* * *
55185141 TTTCAAAAATCAACTCATATTACGAGAGGTGAGTT-AAGCCTTTTAATTCCTGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTAATTTCTGGT
55185195 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
1 TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
**
55185250 TTTC-AAAATTGACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
* *
55185303 TTTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
*
55185357 TTTC-AAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
55185393 GCCTCGGGGC
Statistics
Matches: 184, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
53 81 0.44
54 53 0.29
55 48 0.26
56 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (54 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
Found at i:55185354 original size:107 final size:109
Alignment explanation
Indices: 55185141--55185396 Score: 403
Period size: 107 Copynumber: 2.4 Consensus size: 109
55185131 TCAAATTAAG
* *
55185141 TTTCAAAAATCAACTCATATTACGAGAGGTGAGTT-AAGCCTTTTAATTCCTGTTTTTCAAAAAA
1 TTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTTAATTCCTGGTTTTCAAAAAA
55185205 TCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
65 TCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
** *
55185250 TTTCAAAATTGACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTAATTTCTGGTTTTC-AAAAAT
1 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTTAATTCCTGGTTTTCAAAAAAT
* *
55185313 CAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTGTT
66 CAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
*
55185357 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTG-AGCCT
1 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCCT
55185397 CGGGGCACGC
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
106 1 0.01
107 83 0.61
108 45 0.33
109 6 0.04
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (109 bp):
TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTTAATTCCTGGTTTTCAAAAAAT
CAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGGT
Found at i:55185457 original size:69 final size:71
Alignment explanation
Indices: 55185343--55185609 Score: 299
Period size: 69 Copynumber: 3.7 Consensus size: 71
55185333 GGGTTGAACC
* *
55185343 TTTT-AATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTATGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
55185407 CGAGGTA
65 CGAGGTA
* * ** * * *
55185414 TTTTTAGTTTATG-TTTT-AAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
1 TTTTCAATTTATGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCC
55185477 GAGGTA
66 GAGGTA
* *
55185483 ATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTCAATTTATGTTTTT--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
55185548 CCGAGGTA
64 CCGAGGTA
*** *
55185556 TTTTCAAATTCTACT-TTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTC-AATT-TA-TGTT--TTTAAAATCAACTCATATTGCGAGAGGTGAGTTGA
55185610 ACCTTTTAAT
Statistics
Matches: 163, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
69 55 0.34
70 4 0.02
71 8 0.05
72 6 0.04
73 51 0.31
74 4 0.02
75 34 0.21
76 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (71 bp):
TTTTCAATTTATGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCC
GAGGTA
Found at i:55185535 original size:73 final size:72
Alignment explanation
Indices: 55185343--55185609 Score: 328
Period size: 73 Copynumber: 3.7 Consensus size: 72
55185333 GGGTTGAACC
*
55185343 TTTT-AATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
55185407 CGAGGTA
66 CGAGGTA
* * * ** * *
55185414 TTTTTAGTTTATG-TTTT--AAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTCAATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
*
55185476 TGAGGTA
66 CGAGGTA
*
55185483 ATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTCAATTTCTGTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
55185548 CCGAGGTA
65 CCGAGGTA
* ** *
55185556 TTTTCAAATTCT-ACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTCAATTTCTGTTTTTC----AAAATCAACTCATATTGCGAGAGGTGAGTTGA
55185610 ACCTTTTAAT
Statistics
Matches: 166, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
69 55 0.33
70 4 0.02
71 8 0.05
72 10 0.06
73 57 0.34
75 32 0.19
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (72 bp):
TTTTCAATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
CGAGGTA
Found at i:55186106 original size:405 final size:411
Alignment explanation
Indices: 55185437--55186367 Score: 1425
Period size: 405 Copynumber: 2.2 Consensus size: 411
55185427 TTTTAAATTG
* * *
55185437 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTTC
1 ACTCATATTGC-AGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTTTGTTTTTC
55185502 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTC
65 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTC
55185567 TACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTC
130 TACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTC
*
55185632 AAAATCAGCTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
195 AAAATCAGCTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
55185697 TGTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC-GCCGAGGTAT
260 TGTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACAGCCGAGGTAT
55185761 TTTC-AAA-TT-C-TAC-T-TTCAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTA
325 TTTCAAAATTTGCATACGTGTTC-AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTA
55185820 ATTTCTAC-TTTTTC-AAAATCA
389 ATTTCTACTTTTTTCAAAAATCA
* *
55185841 GCTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGT
1 ACTCATATTGC-AGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAA-TTTTTGT-T-T
* ** *
55185906 TT-TAATTTCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGGCACGCCGAGGTATTTTCAAA
62 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAA
55185970 TTCTACTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTT
127 TTCTACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTT
*
55186034 TTCAAAATTAGCTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
192 TTCAAAATCAGCTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
* *
55186099 TTTTGTGTGTTTTAATTTCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAG
257 TTTTGTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACA-GCCGAG
*
55186164 GTATTTTCAAAATCTGTTTGGCAAATTCTGTGTTCAAAAATCAACTCATATTGCGAGAGGTGGGT
321 GTATTTTCAAAA----TTT-GC--ATAC-GTGTTCAAAAATCAACTCATATTGCGAGAGGTGGGT
55186229 TGAACCTTTTAATTTCTACTTTTTTCAAAAATCA
378 TGAACCTTTTAATTTCTACTTTTTTCAAAAATCA
* * * * * * *
55186263 ACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAAGTATTTCTTTCAAATTTTCGTTT
1 ACTCATATTGCAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA--T-TTTC-AATTTTTGTTT
55186328 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
62 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
55186368 TGGATCACAT
Statistics
Matches: 474, Mismatches: 27, Indels: 33
0.89 0.05 0.06
Matches are distributed among these distances:
404 48 0.10
405 178 0.38
406 69 0.15
407 17 0.04
408 3 0.01
413 2 0.00
415 1 0.00
418 2 0.00
420 50 0.11
421 39 0.08
422 18 0.04
423 35 0.07
424 10 0.02
425 2 0.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (411 bp):
ACTCATATTGCAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTTTGTTTTTCA
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCT
ACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
AAATCAGCTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTT
GTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACAGCCGAGGTATT
TTCAAAATTTGCATACGTGTTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAAT
TTCTACTTTTTTCAAAAATCA
Found at i:55186127 original size:203 final size:204
Alignment explanation
Indices: 55185438--55186367 Score: 1358
Period size: 202 Copynumber: 4.5 Consensus size: 204
55185428 TTTAAATTGA
* * * * *
55185438 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA-TTTCTGT-T-TT
1 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGTT
* **
55185500 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAAT
66 T-TAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAAT
55185565 TCTACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
130 TCTACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
55185630 TCAAAATCAG
195 TCAAAATCAG
55185640 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGTT
1 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGTT
55185705 TTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATT
66 TTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATT
55185770 CTACTTTC--AAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTT
131 CTACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTT
55185833 CAAAATCAG
196 CAAAATCAG
55185842 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGTT
1 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGTT
*
55185907 TTAATTTCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGGCACGCCGAGGTATTTTCAAATT
66 TTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATT
55185972 CTACTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTT
131 CTACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTT
*
55186036 CAAAATTAG
196 CAAAATCAG
*
55186045 CTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGTT
1 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGTT
* *
55186110 TTAATTTCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAAA
66 TTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC--GCCGAGGTATTTTCAAA
* *
55186175 ATCT-GTTTGGCAAATTCTGTGTTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTT
129 TTCTACTTT--CAAA----------AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTT
*
55186239 AATTTCTACTTTTTTCAAAAATCAA
182 AATTTCTAC-TTTTTC-AAAATCAG
* * * * * * * *
55186264 CTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAAGTATTTCTTTCAAATTTTCGT-T
1 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA--T-TTTCAATTTTTTGTGT
* **
55186327 -TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
63 GTTT-TAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
55186368 TGGATCACAT
Statistics
Matches: 672, Mismatches: 31, Indels: 32
0.91 0.04 0.04
Matches are distributed among these distances:
202 249 0.37
203 176 0.26
204 73 0.11
205 23 0.03
206 1 0.00
207 2 0.00
217 49 0.07
218 35 0.05
219 17 0.03
220 35 0.05
221 12 0.02
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (204 bp):
CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTTGTGTGTT
TTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATT
CTACTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTT
CAAAATCAG
Found at i:55186482 original size:76 final size:77
Alignment explanation
Indices: 55186249--55186523 Score: 403
Period size: 76 Copynumber: 3.6 Consensus size: 77
55186239 AATTTCTACT
*
55186249 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAAGTATTTCT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
* *
55186313 TTCAAATTTTCG
66 TTTAAATTTTTG
* * * *
55186325 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGATCACATGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT--CATGCCGAGGTATTT
* *
55186390 CTTTTCAATTTCTG
64 CTTTTAAATTTTTG
55186404 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
55186468 TTTAAATTTTTG
66 TTTAAATTTTTG
* *
55186480 -TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTTTC-AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTC
55186524 AGGACACACG
Statistics
Matches: 177, Mismatches: 17, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
75 5 0.03
76 67 0.38
77 38 0.21
78 20 0.11
79 47 0.27
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (77 bp):
TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
TTTAAATTTTTG
Found at i:55186537 original size:155 final size:155
Alignment explanation
Indices: 55186249--55186544 Score: 515
Period size: 155 Copynumber: 1.9 Consensus size: 155
55186239 AATTTCTACT
55186249 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAAGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAAGTATTTCTT
* *
55186314 TCAAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGATCACATG
66 TCAAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGATCACACG
55186379 CCGAGGTATTTCTTTTCAATTTCTG
131 CCGAGGTATTTCTTTTCAATTTCTG
*
55186404 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAAGTATTTCTT
* *
55186469 TTAAATTTTTG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACA
66 TCAAATTTTCGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGATCACA
55186532 CGCCGAGGTATTT
129 CGCCGAGGTATTT
55186545 TCAATTAAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
154 5 0.04
155 126 0.94
156 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (155 bp):
TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAAGTATTTCTT
TCAAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGATCACACG
CCGAGGTATTTCTTTTCAATTTCTG
Found at i:55186791 original size:73 final size:73
Alignment explanation
Indices: 55186672--55186925 Score: 395
Period size: 73 Copynumber: 3.5 Consensus size: 73
55186662 TTTGAAAGAA
*
55186672 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
55186737 TCAAAAAT
66 TCAAAAAT
*
55186745 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
55186810 TTC-AAAAT
65 TTCAAAAAT
* * *
55186818 TTAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTT-
** *
55186883 TAAAAAAAA
65 TTCAAAAAT
55186892 TCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
55186926 GTTCACATGT
Statistics
Matches: 167, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
72 2 0.01
73 127 0.76
74 38 0.23
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (73 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAAT
Found at i:55188620 original size:3 final size:3
Alignment explanation
Indices: 55188612--55188641 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
55188602 GTTATTTTCA
55188612 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
55188642 GTTCTTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:55192363 original size:42 final size:43
Alignment explanation
Indices: 55192314--55192406 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 43
55192304 GAATTACTAG
*
55192314 TTAAAAAT-TTGA-AATGAAATAGAAGTTGT-GATAATTATACAT
1 TTAAAAATATT-ATAATGAAATAGAAGTTGTAG-TAATTACACAT
* **
55192356 TTAAAAATAATTATAGTTTAATAGAAGTTGTAGTAATTACACAT
1 TTAAAAAT-ATTATAATGAAATAGAAGTTGTAGTAATTACACAT
55192400 TTAAAAA
1 TTAAAAA
55192407 CAATTTAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
42 8 0.19
43 1 0.02
44 33 0.77
45 1 0.02
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.37
Consensus pattern (43 bp):
TTAAAAATATTATAATGAAATAGAAGTTGTAGTAATTACACAT
Found at i:55192453 original size:25 final size:24
Alignment explanation
Indices: 55192408--55192458 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
55192398 ATTTAAAAAC
*
55192408 AATTTAAACTTATATTATAATTATT
1 AATTTAAAATTATATTATAATT-TT
*
55192433 AATTTAAAA-TATAATTCTAATTTT
1 AATTTAAAATTAT-ATTATAATTTT
55192457 AA
1 AA
55192459 AATAGAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
AATTTAAAATTATATTATAATTTT
Found at i:55192832 original size:29 final size:29
Alignment explanation
Indices: 55192799--55192859 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
55192789 CATGACATTG
*
55192799 TTTGTTATATATGCCATATCAACAAATAA
1 TTTGTTATATATGCCACATCAACAAATAA
* * *
55192828 TTTGTTATATATTCTACATCTACAAATAA
1 TTTGTTATATATGCCACATCAACAAATAA
55192857 TTT
1 TTT
55192860 TAAAAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (29 bp):
TTTGTTATATATGCCACATCAACAAATAA
Found at i:55193121 original size:40 final size:39
Alignment explanation
Indices: 55193040--55193123 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 39
55193030 CTTTTTAACC
*
55193040 AACGCCGCTAAGATCAAGCAATAGCGGCGTTTAGTGTAA
1 AACGCCGCTAAGATCAAGCAATAGCGGCGTTTAGTGGAA
* * * *
55193079 AACGCCGCTATATATCAAGTATTAGCGGCGCTTT-TTGGAA
1 AACGCCGCTA-AGATCAAGCAATAGCGGCG-TTTAGTGGAA
55193119 AACGC
1 AACGC
55193124 TGCAAAAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
39 10 0.26
40 25 0.66
41 3 0.08
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (39 bp):
AACGCCGCTAAGATCAAGCAATAGCGGCGTTTAGTGGAA
Found at i:55193363 original size:157 final size:153
Alignment explanation
Indices: 55193018--55193416 Score: 390
Period size: 157 Copynumber: 2.6 Consensus size: 153
55193008 AATAAATTGA
* * * ** * * *
55193018 GCATTAGCGACGCTTTTTAACCAACGCCG-CTAAGATCAAGCAATAGCGGCG-TTTAGTGTA-AA
1 GCATTAACGACGCTTCTTAACAAACGCCGAAAAAGATCAAGAAATAGCGGCGCATT--TCTAGAA
* * * * * * *
55193080 ACGCCGCTATATATCAAGTATTAGCGGCGCTTTTTGGAAAACGCTGCAAAAAAGTTGAGCAAAAC
64 ACGTCGCTAAAGATCAAGCATTAGCGGCGCTTTTTGGAAAACACCGCAAAAAAGTTGAACAAAAC
55193145 GTCATTTTATTTTTGAGCTTTAGTG
129 GTCATTTTATTTTTGAGCTTTAGTG
* * * *
55193170 GCATTAACGATGCTTTTTAACAAACGCCGAAAAAGATCAAGAAATAGCGGCGCATTTTTAGAAAT
1 GCATTAACGACGCTTCTTAACAAACGCCGAAAAAGATCAAGAAATAGCGGCGCATTTCTAGAAAC
* * * * * *
55193235 GTCGTTATAGATGAAGCATTAGCGGCGTTTTTTGAGAAAACACCGTAAAAACGTTGAACAAAACG
66 GTCGCTAAAGATCAAGCATTAGCGGCGCTTTTTG-GAAAACACCGCAAAAAAGTTGAACAAAACG
* * *
55193300 ACATCGTTTTCTTTTTGAGTTTTAGTG
130 ---TCATTTTATTTTTGAGCTTTAGTG
* * * * * * * *
55193327 GCGTTAGCGGCGCTTCTTAACAAACGCTGCAAAAGATCGAGAATTAGCGGCGCCTTTCTAGAAAC
1 GCATTAACGACGCTTCTTAACAAACGCCGAAAAAGATCAAGAAATAGCGGCGCATTTCTAGAAAC
*
55193392 GTCGCTAAAGATCAAGCAATAGCGG
66 GTCGCTAAAGATCAAGCATTAGCGG
55193417 TATTTTACAG
Statistics
Matches: 201, Mismatches: 39, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
152 29 0.14
153 50 0.25
154 27 0.13
157 95 0.47
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (153 bp):
GCATTAACGACGCTTCTTAACAAACGCCGAAAAAGATCAAGAAATAGCGGCGCATTTCTAGAAAC
GTCGCTAAAGATCAAGCATTAGCGGCGCTTTTTGGAAAACACCGCAAAAAAGTTGAACAAAACGT
CATTTTATTTTTGAGCTTTAGTG
Found at i:55198356 original size:43 final size:43
Alignment explanation
Indices: 55198198--55198397 Score: 165
Period size: 43 Copynumber: 4.7 Consensus size: 43
55198188 GAATGGTACT
***
55198198 TTTAGCGGCGTTTGTGA-AAAAGTACC-CTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAACGCCGCTAAAGGTCATGTTC
* * * ** **
55198239 TTTAGCGGCGTTTGTGATAAGAGCCCCGCTAAAGAACATGGCC
1 TTTAGCGGCGTTTGTGATAAAAACGCCGCTAAAGGTCATGTTC
* * * * *** *
55198282 TTTAGCGGTGCTTCT-CTTTGAACGCCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGATAAAAACGCCGCTAAAGGTCATGTTC
* *
55198324 TTTAGCGGCGATTGTGATAAAAACGCCGCTAAATGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAACGCCGCTAAAGGTCATGTTC
55198367 TTTAGCGGCGTTTATGTGA-AAGAAACGCCGC
1 TTTAGCGGCG-TT-TGTGATAA-AAACGCCGC
55198398 CAAAATTAGT
Statistics
Matches: 124, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
41 17 0.14
42 36 0.29
43 54 0.44
44 3 0.02
45 14 0.11
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAACGCCGCTAAAGGTCATGTTC
Found at i:55198902 original size:20 final size:21
Alignment explanation
Indices: 55198877--55198918 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
55198867 GTTAAAAATG
55198877 TTTTAATTAT-TATTTGAATT
1 TTTTAATTATATATTTGAATT
55198897 TTTTAATTATAATATTTGAATT
1 TTTTAATTAT-ATATTTGAATT
55198919 AACAAGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.50
22 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTTAATTATATATTTGAATT
Found at i:55200469 original size:5 final size:5
Alignment explanation
Indices: 55200459--55200525 Score: 93
Period size: 5 Copynumber: 13.2 Consensus size: 5
55200449 AATTATGTTT
55200459 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
55200508 TTATTA TTATA TATATA T
1 TTA-TA TTATA T-TATA T
55200526 GACAAAGAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 38 0.67
6 15 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:55200475 original size:3 final size:3
Alignment explanation
Indices: 55200462--55200517 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
55200452 TATGTTTTTA
*
55200462 TAT TA- TAT TAT TAT TAA TA- TAT TA- TAT TA- TAT TA- TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
55200504 TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
55200518 ATATATATGA
Statistics
Matches: 45, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
2 14 0.31
3 31 0.69
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:55200591 original size:40 final size:41
Alignment explanation
Indices: 55200535--55200614 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 41
55200525 TGACAAAGAA
*
55200535 AGAAAGAAAAGAAACAGAGAGCAAAACAAAATAGAGAAGGG
1 AGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGG
*
55200576 AGAAAG-AAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
55200615 AAGGAAGGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
40 31 0.84
41 6 0.16
ACGTcount: A:0.62, C:0.09, G:0.28, T:0.01
Consensus pattern (41 bp):
AGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGG
Found at i:55201909 original size:25 final size:24
Alignment explanation
Indices: 55201881--55202013 Score: 173
Period size: 25 Copynumber: 5.5 Consensus size: 24
55201871 ACTTTAGCGC
55201881 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGA-TATTAGCACGTTGGT
55201906 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGA-TATTAGCACGTTGGT
55201931 GCTCTCTGATATTAGCACGTTGGT
1 GCTCTCTGATATTAGCACGTTGGT
**
55201955 GCTCTCTGATATTTAGCACGTCAGT
1 GCTCTCTGATA-TTAGCACGTTGGT
* *
55201980 GCTCTCTG-T-TTAGCACATTTGT
1 GCTCTCTGATATTAGCACGTTGGT
*
55202002 GCTATCTG-TATT
1 GCTCTCTGATATT
55202014 TGTTCCGTAT
Statistics
Matches: 100, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
22 18 0.18
23 2 0.02
24 27 0.27
25 53 0.53
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.41
Consensus pattern (24 bp):
GCTCTCTGATATTAGCACGTTGGT
Found at i:55201949 original size:49 final size:49
Alignment explanation
Indices: 55201881--55202014 Score: 177
Period size: 49 Copynumber: 2.8 Consensus size: 49
55201871 ACTTTAGCGC
**
55201881 GCTCTCTGATTATTAGCACGTTGGTGCTCTCTGAT-TATTAGCACGTTGGT
1 GCTCTCTGA-TATTAGCACGTTGGTGCTCTCTGATAT-TTAGCACGTCAGT
55201931 GCTCTCTGATATTAGCACGTTGGTGCTCTCTGATATTTAGCACGTCAGT
1 GCTCTCTGATATTAGCACGTTGGTGCTCTCTGATATTTAGCACGTCAGT
* * *
55201980 GCTCTCTG-T-TTAGCACATTTGTGCTATCTG-TATTT
1 GCTCTCTGATATTAGCACGTTGGTGCTCTCTGATATTT
55202015 GTTCCGTATA
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
46 5 0.06
47 18 0.23
48 1 0.01
49 44 0.56
50 10 0.13
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.41
Consensus pattern (49 bp):
GCTCTCTGATATTAGCACGTTGGTGCTCTCTGATATTTAGCACGTCAGT
Found at i:55204139 original size:116 final size:117
Alignment explanation
Indices: 55203937--55204149 Score: 367
Period size: 116 Copynumber: 1.8 Consensus size: 117
55203927 GACTGTAACA
55203937 CCCTAAAACATAAGTTCGGTTAAGCGACAAAATTAAGTAAGAAATAGGCAACAACCTAACGATTA
1 CCCTAAAACATAAGTTCGGTTAAGCGACAAAATTAAGTAAGAAATAGGCAACAACCTAACGATTA
55204002 AGCTTTAGTCTCTCCCCCTTGCTTACCCAAGTGCCTTCCTCCCTTGTGACAC
66 AGCTTTAGTCTCTCCCCCTTGCTTACCCAAGTGCCTTCCTCCCTTGTGACAC
* * *
55204054 CCCT-AAACATAAGTTCGGTTAAGCGACGAAATTAAGTAAGAAATGGGCAACAACCTAATGATTA
1 CCCTAAAACATAAGTTCGGTTAAGCGACAAAATTAAGTAAGAAATAGGCAACAACCTAACGATTA
*
55204118 AG-TGTTAGTCTCTCCCTCTTGCTTACCCAAGT
66 AGCT-TTAGTCTCTCCCCCTTGCTTACCCAAGT
55204150 TCGAGCCCCC
Statistics
Matches: 91, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
115 1 0.01
116 86 0.95
117 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (117 bp):
CCCTAAAACATAAGTTCGGTTAAGCGACAAAATTAAGTAAGAAATAGGCAACAACCTAACGATTA
AGCTTTAGTCTCTCCCCCTTGCTTACCCAAGTGCCTTCCTCCCTTGTGACAC
Found at i:55205048 original size:33 final size:35
Alignment explanation
Indices: 55204953--55205049 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
55204943 TCAATATTTT
*
55204953 AATATATGAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
55204988 AATAAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
55205021 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
55205050 ATATAACCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.25
34 8 0.16
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:55210595 original size:25 final size:25
Alignment explanation
Indices: 55210545--55210597 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
55210535 AGCAATTATC
*
55210545 ATTATAAATTACAACTTTTTATAAA
1 ATTATAAATTACAACTTATTATAAA
*
55210570 ATTAT-AATTACAACATTAATTAAAAA
1 ATTATAAATTACAAC-TT-ATTATAAA
55210596 AT
1 AT
55210598 AATATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.38
25 7 0.29
26 8 0.33
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.40
Consensus pattern (25 bp):
ATTATAAATTACAACTTATTATAAA
Found at i:55211002 original size:26 final size:27
Alignment explanation
Indices: 55210956--55211007 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 27
55210946 AATTAATTTG
*
55210956 TAAAATATATAATTATAAATG-TTTAT
1 TAAAATATATAATTAGAAATGATTTAT
*
55210982 TAAAA-ATCTAATTAGACAATGATTTA
1 TAAAATATATAATTAGA-AATGATTTA
55211008 ATCACTCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 9 0.41
26 9 0.41
27 4 0.18
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (27 bp):
TAAAATATATAATTAGAAATGATTTAT
Found at i:55212047 original size:22 final size:23
Alignment explanation
Indices: 55212022--55212087 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
55212012 ACATTAATCG
55212022 AATAATTTTATATATTATTAA-A
1 AATAATTTTATATATTATTAATA
*
55212044 AAT-ATTTTTTGAATATT-TTAATA
1 AATAATTTTAT--ATATTATTAATA
*
55212067 ATTAA-TTTATATATTATTAAT
1 AATAATTTTATATATTATTAAT
55212088 TGATATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
21 11 0.31
22 12 0.33
23 12 0.33
24 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
AATAATTTTATATATTATTAATA
Found at i:55212078 original size:19 final size:21
Alignment explanation
Indices: 55212056--55212101 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
55212046 TATTTTTTGA
55212056 ATATTTTAATAATT-A-ATTT
1 ATATTTTAATAATTGATATTT
* *
55212075 ATATATTATTAATTGATATTT
1 ATATTTTAATAATTGATATTT
55212096 A-ATTTT
1 ATATTTT
55212102 TTTAAGAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 12 0.55
20 5 0.23
21 5 0.23
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
ATATTTTAATAATTGATATTT
Found at i:55213326 original size:30 final size:31
Alignment explanation
Indices: 55213262--55213326 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
55213252 ATATTAGTGG
*
55213262 GTGATTGATTTGTCACTTTTCAATAATGTTA
1 GTGATTGATTTGTCACTTTTCAATAAAGTTA
* *
55213293 GTGATTGATTTGTTA-TTTTC-CTAAAGTTGA
1 GTGATTGATTTGTCACTTTTCAATAAAGTT-A
55213323 GTGA
1 GTGA
55213327 CTACTAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 6 0.20
30 10 0.33
31 14 0.47
ACGTcount: A:0.25, C:0.08, G:0.20, T:0.48
Consensus pattern (31 bp):
GTGATTGATTTGTCACTTTTCAATAAAGTTA
Found at i:55217074 original size:20 final size:20
Alignment explanation
Indices: 55217038--55217082 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 20
55217028 TTTTAAGAAT
55217038 TTTTTAAAATGATTTTTGAAA
1 TTTTTAAAATGATTTTTG-AA
55217059 TTTTTATAAAT-A-TTTTGAA
1 TTTTTA-AAATGATTTTTGAA
55217078 TTTTT
1 TTTTT
55217083 TTTTGTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.30
20 5 0.22
21 7 0.30
22 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTTAAAATGATTTTTGAA
Found at i:55217084 original size:21 final size:21
Alignment explanation
Indices: 55217034--55217083 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
55217024 ATATTTTTAA
55217034 GAATTTTTTAAAATGATTTTT
1 GAATTTTTTAAAATGATTTTT
*
55217055 GAAATTTTTATAAAT-A-TTTT
1 GAATTTTTTA-AAATGATTTTT
55217075 GAATTTTTT
1 GAATTTTTT
55217084 TTTGTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 12 0.46
21 10 0.38
22 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (21 bp):
GAATTTTTTAAAATGATTTTT
Found at i:55217776 original size:106 final size:103
Alignment explanation
Indices: 55217592--55217803 Score: 388
Period size: 106 Copynumber: 2.0 Consensus size: 103
55217582 AATTTTTTCA
55217592 ATTTCAAGCACACTTTCAATTAGTCTAGTTTCTTATTACGAGTAAAGATCAAACTCCTAATCTTA
1 ATTTCAAGCACACTTTCAATTAGTCTAGTTTCTTATTACGAGTAAAGATCAAACTCCTAATCTTA
55217657 TTTCTATAAGCAATCACCCCACCACACATACTTTCCTG
66 TTTCTATAAGCAATCACCCCACCACACATACTTTCCTG
*
55217695 ATTTCAAGCACACTTTCAATTAGTCTAGTTTCTTATTGCTACGAGTAAAGATCAAACTTCTAATC
1 ATTTCAAGCACACTTTCAATTAGTCTAGTTTCTTA-T--TACGAGTAAAGATCAAACTCCTAATC
55217760 TTATTTCTATAAGCAATCACCCCACCACACATACTTTCCTG
63 TTATTTCTATAAGCAATCACCCCACCACACATACTTTCCTG
55217801 ATT
1 ATT
55217804 CATACTTTTT
Statistics
Matches: 105, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
103 35 0.33
104 1 0.01
106 69 0.66
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (103 bp):
ATTTCAAGCACACTTTCAATTAGTCTAGTTTCTTATTACGAGTAAAGATCAAACTCCTAATCTTA
TTTCTATAAGCAATCACCCCACCACACATACTTTCCTG
Found at i:55222571 original size:31 final size:31
Alignment explanation
Indices: 55222509--55222574 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
55222499 TGATTTTAAG
* * *
55222509 TTTTTAATAGTTCAATGACTTAAATAAAATA
1 TTTTGAATAATTCAATGACTCAAATAAAATA
*
55222540 TTTTGAATAATTCAATGAC-CAAATTACAATA
1 TTTTGAATAATTCAATGACTCAAA-TAAAATA
55222571 TTTT
1 TTTT
55222575 TCTAGTTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (31 bp):
TTTTGAATAATTCAATGACTCAAATAAAATA
Found at i:55227801 original size:35 final size:34
Alignment explanation
Indices: 55227748--55227845 Score: 105
Period size: 35 Copynumber: 2.9 Consensus size: 34
55227738 TTTGTCTAAG
55227748 TATA-TATATAATTAATGAT-ATTAAAATATAATT
1 TATATTATATAATTAATGATAATTAAAATATAA-T
* *
55227781 TATATTATATGAATTTATGATAATTAAATTATAAT
1 TATATTATAT-AATTAATGATAATTAAAATATAAT
* *
55227816 GATATTATATTATTAA--ATAAATTAAAATAT
1 TATATTATATAATTAATGAT-AATTAAAATAT
55227846 GCCAATTGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
32 2 0.04
33 14 0.25
34 9 0.16
35 19 0.35
36 11 0.20
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (34 bp):
TATATTATATAATTAATGATAATTAAAATATAAT
Found at i:55227817 original size:25 final size:23
Alignment explanation
Indices: 55227773--55227833 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
55227763 TGATATTAAA
*
55227773 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
55227797 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
55227822 ATATTATTAAAT
1 ATATAATTAAAT
55227834 AAATTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:55228278 original size:12 final size:12
Alignment explanation
Indices: 55228246--55228286 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
55228236 AAAGTAAAAT
55228246 AAAAGAAACA-A
1 AAAAGAAACAGA
55228257 AAGAAG-AACAGA
1 AA-AAGAAACAGA
55228269 AAAAGAAACAGA
1 AAAAGAAACAGA
*
55228281 GAAAGA
1 AAAAGA
55228287 GACGAAACAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.73, C:0.07, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAGAAACAGA
Found at i:55229351 original size:39 final size:38
Alignment explanation
Indices: 55229277--55229362 Score: 111
Period size: 39 Copynumber: 2.3 Consensus size: 38
55229267 ATTTGCCGGC
*
55229277 TTACTGATTAGGCACTTATGTGCCGACTACTGTTACTG
1 TTACTGATTAGGCACTTATGTGCCGAATACTGTTACTG
* * * *
55229315 TTACTGATTCGGTACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTAGGCAC-TTATGTGCCGAATACTGTTACTG
55229354 TTACT-ATTA
1 TTACTGATTA
55229363 CCAATTCGGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 16 0.39
39 25 0.61
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (38 bp):
TTACTGATTAGGCACTTATGTGCCGAATACTGTTACTG
Found at i:55229370 original size:45 final size:45
Alignment explanation
Indices: 55229304--55229448 Score: 175
Period size: 45 Copynumber: 3.2 Consensus size: 45
55229294 ATGTGCCGAC
* ** *
55229304 TACTGTTACTGTTACTGATTCGGTACTTTGTGTGTCGAATACTGT
1 TACTGTTACTATTACCAATTCGGCACTTTGTGTGTCGAATACTGT
*
55229349 TACTGTTACTATTACCAATTCGGCATTTTGTGTGTCGAATACTGT
1 TACTGTTACTATTACCAATTCGGCACTTTGTGTGTCGAATACTGT
** ** * *
55229394 TACCATTACTATTA-CAGATTCAACACTTTGTGTGTTGAATATTGT
1 TACTGTTACTATTACCA-ATTCGGCACTTTGTGTGTCGAATACTGT
55229439 TACTGTTACT
1 TACTGTTACT
55229449 GCTACCGTTA
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
44 2 0.02
45 83 0.98
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (45 bp):
TACTGTTACTATTACCAATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:55237609 original size:15 final size:15
Alignment explanation
Indices: 55237589--55237631 Score: 79
Period size: 14 Copynumber: 2.9 Consensus size: 15
55237579 GGTTCCCAGG
55237589 ATTGAAAATTTGAAA
1 ATTGAAAATTTGAAA
55237604 ATTGAAAA-TTGAAA
1 ATTGAAAATTTGAAA
55237618 ATTGAAAATTTGAA
1 ATTGAAAATTTGAA
55237632 TAGGATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (15 bp):
ATTGAAAATTTGAAA
Found at i:55237610 original size:7 final size:7
Alignment explanation
Indices: 55237589--55237627 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
55237579 GGTTCCCAGG
55237589 ATTGAAA
1 ATTGAAA
55237596 ATTTGAAA
1 A-TTGAAA
55237604 ATTGAAA
1 ATTGAAA
55237611 ATTGAAA
1 ATTGAAA
55237618 ATTGAAA
1 ATTGAAA
55237625 ATT
1 ATT
55237628 TGAATAGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (7 bp):
ATTGAAA
Found at i:55243014 original size:18 final size:17
Alignment explanation
Indices: 55242981--55243019 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
55242971 TTTTATAAAT
55242981 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
55242999 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
55243016 TGTG
1 TGTG
55243020 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:55272488 original size:16 final size:15
Alignment explanation
Indices: 55272463--55272517 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 15
55272453 AAAATTTGAA
55272463 TTGAAGATTTGAAACT
1 TTGAAGATTTG-AACT
*
55272479 TTGAATATTTG-A-T
1 TTGAAGATTTGAACT
55272492 TTGAAGATTTGTAACT
1 TTGAAGATTTG-AACT
*
55272508 TTGAATATTT
1 TTGAAGATTT
55272518 TGGTATGCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 11 0.33
14 1 0.03
15 1 0.03
16 20 0.61
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (15 bp):
TTGAAGATTTGAACT
Found at i:55272498 original size:29 final size:29
Alignment explanation
Indices: 55272456--55272517 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
55272446 CGAATATAAA
55272456 ATTTGAATTGAAGATTTGAAACTTTGAAT
1 ATTTGAATTGAAGATTTGAAACTTTGAAT
* *
55272485 ATTTGATTTGAAGATTTGTAACTTTGAAT
1 ATTTGAATTGAAGATTTGAAACTTTGAAT
55272514 ATTT
1 ATTT
55272518 TGGTATGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (29 bp):
ATTTGAATTGAAGATTTGAAACTTTGAAT
Found at i:55274341 original size:22 final size:22
Alignment explanation
Indices: 55274316--55274404 Score: 117
Period size: 22 Copynumber: 4.0 Consensus size: 22
55274306 AAATTCAATA
*
55274316 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCTTTCAAAAATTCTC
*
55274338 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCTTTCAAAAATTCTC
*
55274360 TCAATTCCTTTCAAAATTTC-C
1 TCAATTCCTTTCAAAAATTCTC
* *
55274381 ATCAATTTCTTTCCAAAATTCTC
1 -TCAATTCCTTTCAAAAATTCTC
55274404 T
1 T
55274405 TAAACTCTCA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
21 1 0.02
22 58 0.97
23 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (22 bp):
TCAATTCCTTTCAAAAATTCTC
Found at i:55274440 original size:52 final size:51
Alignment explanation
Indices: 55274357--55274455 Score: 119
Period size: 52 Copynumber: 1.9 Consensus size: 51
55274347 TTCAAAATTT
* * * *
55274357 CTCTCAATTCCTTTCAAAATTTCCATCAATTTCTTTCCAAAATTCTCTTAAA
1 CTCTCAATTCCTTCCAAAA-TTCCATCAATTTCCTTCAAAAAATCTCTTAAA
*
55274409 CTCTCAAATTCCTTCCAAAA-TCCTCTCAATTTCCTTCAAAAAATCTC
1 CTCTC-AATTCCTTCCAAAATTCC-ATCAATTTCCTTCAAAAAATCTC
55274456 CAAATCCATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
51 3 0.08
52 24 0.60
53 13 0.32
ACGTcount: A:0.31, C:0.30, G:0.00, T:0.38
Consensus pattern (51 bp):
CTCTCAATTCCTTCCAAAATTCCATCAATTTCCTTCAAAAAATCTCTTAAA
Found at i:55274448 original size:21 final size:22
Alignment explanation
Indices: 55274409--55274450 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
55274399 TTCTCTTAAA
55274409 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
55274431 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
55274451 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:55274555 original size:29 final size:30
Alignment explanation
Indices: 55274492--55274555 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
55274482 ATTAAATTTC
*
55274492 ATTTTTTAAGAAAATTTTAAAATTTTTTAT
1 ATTTTTTAAGAAAATTTTAAAATTTTTAAT
* *
55274522 TTTTTTTAA-ATAATTTTAAAATTTTTAAT
1 ATTTTTTAAGAAAATTTTAAAATTTTTAAT
55274551 ATTTT
1 ATTTT
55274556 CAACAATGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
ATTTTTTAAGAAAATTTTAAAATTTTTAAT
Found at i:55276914 original size:24 final size:23
Alignment explanation
Indices: 55276819--55277777 Score: 352
Period size: 23 Copynumber: 37.3 Consensus size: 23
55276809 ACATTATTTG
*
55276819 ATTAAAATCCCTAACCCTACTTA
1 ATTAAAAACCCTAACCCTACTTA
* ** *
55276842 ATTAAAAAACCTAA-TTTAATTAA
1 ATTAAAAACCCTAACCCTACTT-A
55276865 ATTAAAAACCCTAAACCCTACTTA
1 ATTAAAAACCCT-AACCCTACTTA
*
55276889 ATTAAAAACCCTAACCCTAACCTA
1 ATTAAAAACCCTAACCCT-ACTTA
****
55276913 ATTTAATTAAATTAAAAACCCTAACCTAACCTA
1 A-TTAA--AAA-CCCTAACCCT-A-CT----TA
*
55276946 ATTAAATTAAAAATCCTAACCTAACCTACTTAA
1 ATT-AA----AAACCCTAACC---C-TACTT-A
*
55276979 ATTAAAAACCCTAACCTAACCTAATGTA
1 ATTAAAAACCCTAA-C---CCTACT-TA
*
55277007 ATTAAAAACCCTAA-CCTAATTTA
1 ATTAAAAACCCTAACCCT-ACTTA
*
55277030 ATTAAAAACCCTAACCTAACCTAATTTA
1 ATTAAAAACCCTAA-C---CCT-ACTTA
*
55277058 ATTAAAAACCCTAA-CCTAATTTA
1 ATTAAAAACCCTAACCCT-ACTTA
*
55277081 ATTAAAAACCCTAA-CCTAATTTA
1 ATTAAAAACCCTAACCCT-ACTTA
55277104 ATTAAAAACCCTAA-CCTACTTAA
1 ATTAAAAACCCTAACCCTACTT-A
*
55277127 ATTAAAAACCCTAA-CCTAATTTA
1 ATTAAAAACCCTAACCCT-ACTTA
55277150 ATTAAAAACCCTAA-CCTACTTAA
1 ATTAAAAACCCTAACCCTACTT-A
* *
55277173 ATTAAAAACCCTAACCTAATTTAATTAA
1 ATTAAAAACCCTAACC----CTACTT-A
*
55277201 ATTAAAAACCCTAACCTAACCTAATTAA
1 ATTAAAAACCCTAA-C---CCTACTT-A
* *
55277229 ATTAAAAACCCTAACCTTATTTTAATTAA
1 ATTAAAAACCCTAACC-----CTACTT-A
55277258 ATTAAAAACCCTAACCTAACCTACTTAA
1 ATTAAAAACCCTAA-C---CCTACTT-A
* *
55277286 ATTAAAAACCCTAACCTTATTTAATTAA
1 ATTAAAAACCCTAACC----CTACTT-A
55277314 ATTAAAAACCCTAACCTAACCTACTTAA
1 ATTAAAAACCCTAA-C---CCTACTT-A
*
55277342 ATTAAAAACCCTAACCTAACCTAATTTA
1 ATTAAAAACCCTAA-C---CCT-ACTTA
*
55277370 ATTAAAAACCCTAA-CCTAATTTA
1 ATTAAAAACCCTAACCCT-ACTTA
*
55277393 ATTAAAAACCCTAACCTAACCTAATTTA
1 ATTAAAAACCCTAA-C---CCT-ACTTA
*
55277421 ATTAAAAACCCTAA-CCTAATTTA
1 ATTAAAAACCCTAACCCT-ACTTA
55277444 ATTAAAAACCCTAA-CCTACTTAA
1 ATTAAAAACCCTAACCCTACTT-A
* * *
55277467 ATTAAAAATCCTAACCTTATTTAATTAA
1 ATTAAAAACCCTAACC----CTACTT-A
55277495 ATTAAAAACCCT-ACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCT-A-C----TTA
*
55277523 ATTAAAAATCCTAA-CCTACTTAA
1 ATTAAAAACCCTAACCCTACTT-A
*
55277546 ATTAAAAACCCTAA-CCTAATTTA
1 ATTAAAAACCCTAACCCT-ACTTA
55277569 ATTAAAAACCCTAA-CCTACTTAA
1 ATTAAAAACCCTAACCCTACTT-A
* *
55277592 ATTAAAAACCCTAACCTAATTTAATTAA
1 ATTAAAAACCCTAACC----CTACTT-A
*
55277620 ATTAAAAACCCTAACCTAACCTAATTAA
1 ATTAAAAACCCTAA-C---CCTACTT-A
*
55277648 ATTAAAAACCCTAACCTAACCTAATTA
1 ATTAAAAACCCTAA-C---CCTACTTA
*
55277675 ATTAAAAACCCTAA-CCTAATTTA
1 ATTAAAAACCCTAACCCT-ACTTA
*
55277698 ATTAAAAACCCTAA-CCTAATTTA
1 ATTAAAAACCCTAACCCT-ACTTA
55277721 ATTTAATTTAAAACCCTAA-CCTACTTAA
1 A-TT-A---AAAACCCTAACCCTACTT-A
*
55277749 ATTAAAAACCCTAA-CCTAATTTA
1 ATTAAAAACCCTAACCCT-ACTTA
55277772 ATTAAA
1 ATTAAA
55277778 TTAAAAACCC
Statistics
Matches: 782, Mismatches: 54, Indels: 200
0.75 0.05 0.19
Matches are distributed among these distances:
22 21 0.03
23 311 0.40
24 39 0.05
25 9 0.01
26 2 0.00
27 29 0.04
28 304 0.39
29 34 0.04
30 1 0.00
32 9 0.01
33 10 0.01
34 5 0.01
35 3 0.00
36 2 0.00
37 2 0.00
38 1 0.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (23 bp):
ATTAAAAACCCTAACCCTACTTA
Found at i:55276933 original size:28 final size:26
Alignment explanation
Indices: 55276849--55277898 Score: 944
Period size: 28 Copynumber: 40.1 Consensus size: 26
55276839 TTAATTAAAA
55276849 AACCTAATTTAATTAAATTAAAAACCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
* *
55276877 AAACCCTACTTAATTAAA--AACCCTAACCCT
1 -AA-CCTA-ATAATTAAATTAA---AAACCCT
55276907 AACCTAATTTAATTAAATTAAAAACCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
*
55276935 AACCTAACCTAATTAAATTAAAAATCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
*
55276963 AACCTAACCTACTTAAATTAAAAACCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
55276991 AACCTAACCTAATGT-AATTAAAAACCCT
1 AACCTAA--TAAT-TAAATTAAAAACCCT
55277019 AACCTAAT--TT-AATTAAAAACCCT
1 AACCTAATAATTAAATTAAAAACCCT
*
55277042 AACCTAACCTAATTTAATTAAAAACCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
55277070 AACCTAAT--TT-AATTAAAAACCCT
1 AACCTAATAATTAAATTAAAAACCCT
55277093 AACCTAAT--TT-AATTAAAAACCCT
1 AACCTAATAATTAAATTAAAAACCCT
*
55277116 AACC---TACTTAAATTAAAAACCCT
1 AACCTAATAATTAAATTAAAAACCCT
55277139 AACCTAAT--TT-AATTAAAAACCCT
1 AACCTAATAATTAAATTAAAAACCCT
*
55277162 AACC---TACTTAAATTAAAAACCCT
1 AACCTAATAATTAAATTAAAAACCCT
55277185 AACCTAATTTAATTAAATTAAAAACCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
55277213 AACCTAACCTAATTAAATTAAAAACCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
*
55277241 AACCTTATTTTAATTAAATTAAAAACCCT
1 AACC-TA--ATAATTAAATTAAAAACCCT
*
55277270 AACCTAACCTACTTAAATTAAAAACCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
*
55277298 AACCTTATTTAATTAAATTAAAAACCCT
1 AACC-TA-ATAATTAAATTAAAAACCCT
*
55277326 AACCTAACCTACTTAAATTAAAAACCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
*
55277354 AACCTAACCTAATTTAATTAAAAACCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
55277382 AACCTAAT--TT-AATTAAAAACCCT
1 AACCTAATAATTAAATTAAAAACCCT
*
55277405 AACCTAACCTAATTTAATTAAAAACCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
55277433 AACCTAAT--TT-AATTAAAAACCCT
1 AACCTAATAATTAAATTAAAAACCCT
* *
55277456 AACC---TACTTAAATTAAAAATCCT
1 AACCTAATAATTAAATTAAAAACCCT
*
55277479 AACCTTATTTAATTAAATTAAAAACCCT
1 AACC-TA-ATAATTAAATTAAAAACCCT
* * *
55277507 ACCCTAACCTAATTTAATTAAAAATCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
*
55277535 AACC---TACTTAAATTAAAAACCCT
1 AACCTAATAATTAAATTAAAAACCCT
55277558 AACCTAAT--TT-AATTAAAAACCCT
1 AACCTAATAATTAAATTAAAAACCCT
*
55277581 AACC---TACTTAAATTAAAAACCCT
1 AACCTAATAATTAAATTAAAAACCCT
55277604 AACCTAATTTAATTAAATTAAAAACCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
55277632 AACCTAACCTAATTAAATTAAAAACCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
55277660 AACCTAACCTAATT-AATTAAAAACCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
55277687 AACCTAAT--TT-AATTAAAAACCCT
1 AACCTAATAATTAAATTAAAAACCCT
* *
55277710 AACCTAATTTAATTTAATTTAAAACCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
*
55277738 AACC---TACTTAAATTAAAAACCCT
1 AACCTAATAATTAAATTAAAAACCCT
55277761 AACCTAATTTAATTAAATTAAAAACCCTAACCCT
1 AACCTAA--TAATTAAATT--AAA----AACCCT
*
55277795 AACCTAACCTAATTTAATTAAAAACCCT
1 AACCTAA--TAATTAAATTAAAAACCCT
*
55277823 AACC---TACTTAAATTAAAAACCCT
1 AACCTAATAATTAAATTAAAAACCCT
*
55277846 AACCTAAATTAATTAAATTAAAAATCCT
1 AACCT-AA-TAATTAAATTAAAAACCCT
*
55277874 AACC---TACTTAAATTAAAAACCCT
1 AACCTAATAATTAAATTAAAAACCCT
55277897 AA
1 AA
55277899 TTAAATTGTA
Statistics
Matches: 886, Mismatches: 50, Indels: 176
0.80 0.04 0.16
Matches are distributed among these distances:
20 4 0.00
22 8 0.01
23 301 0.34
24 11 0.01
25 4 0.00
26 6 0.01
27 32 0.04
28 432 0.49
29 48 0.05
30 13 0.01
31 2 0.00
32 3 0.00
34 22 0.02
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (26 bp):
AACCTAATAATTAAATTAAAAACCCT
Found at i:55276964 original size:51 final size:51
Alignment explanation
Indices: 55276916--55277792 Score: 1006
Period size: 51 Copynumber: 17.0 Consensus size: 51
55276906 TAACCTAATT
55276916 TAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAATCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAA--C---CCTAACC
*
55276972 TACTTAAATTAAAAACCCTAACCTAACCTAATGT-AATTAAAAACCCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACCTAAT-TAAATTAAAAACCCTAACC
* *
55277023 TAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACC
*
55277074 TAATTTAATTAAAAACCCTAACCTAA--T--TT-AATTAAAAACCCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACC
*
55277120 TACTTAAATTAAAAACCCTAACCTAA--T--TT-AATTAAAAACCCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACC
* **
55277166 TACTTAAATTAAAAACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAA--C---CCTAACC
***
55277222 TAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACC
1 TAATTAAATTAAAAACCCTAACC-TAACCTAATTAAATTAAAAACCCTAACC
* **
55277274 TAACCTACTTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCTAACC
1 T-A---A-TTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACC
*
55277330 TAACCTACTTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACC
1 T-A---A-TTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACC
* *
55277386 TAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACC
* *
55277437 TAATTTAATTAAAAACCCTAACCT-A-C---TTAAATTAAAAATCCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACC
* * *
55277483 TTATTTAATTAAATTAAAAACCCTACCCTAACCTAATTTAATTAAAAATCCTAACC
1 -----TAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACC
*
55277539 TACTTAAATTAAAAACCCTAACCTAA--T--TT-AATTAAAAACCCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACC
* **
55277585 TACTTAAATTAAAAACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAA--C---CCTAACC
55277641 TAATTAAATTAAAAACCCTAACCTAACCTAATT-AATTAAAAACCCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACC
* ** * *
55277691 TAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTTAAAACCCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACC
* **
55277742 TACTTAAATTAAAAACCCTAACCTAATTTAATTAAATTAAAAACCCTAACC
1 TAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACC
55277793 CTAACCTAAC
Statistics
Matches: 749, Mismatches: 33, Indels: 83
0.87 0.04 0.10
Matches are distributed among these distances:
46 147 0.20
47 4 0.01
48 2 0.00
49 3 0.00
50 43 0.06
51 278 0.37
52 10 0.01
53 5 0.01
54 1 0.00
55 11 0.01
56 205 0.27
57 40 0.05
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (51 bp):
TAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACC
Found at i:55277790 original size:23 final size:23
Alignment explanation
Indices: 55276937--55277777 Score: 692
Period size: 23 Copynumber: 32.9 Consensus size: 23
55276927 AAAACCCTAA
55276937 CCTAACCTAATTAAATTAAAAATCC
1 CCTAACCTAATTAAATTAAAAA--C
*
55276962 TAACCTAACCTACTTAAATTAAAAAC
1 ---CCTAACCTAATTAAATTAAAAAC
*
55276988 CCTAACCTAACCTAATGTAATTAAAAAC
1 CCTAACCTAA--T--T-AAATTAAAAAC
*
55277016 CCTAACCTAATTTAATTAAAAACCC
1 CCTAACCTAATTAAATTAAAAA--C
*
55277041 TAACCTAACCTAATTTAATTAAAAAC
1 ---CCTAACCTAATTAAATTAAAAAC
*
55277067 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
*
55277090 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
*
55277113 CCTAACCTACTTAAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
*
55277136 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
*
55277159 CCTAACCTACTTAAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
55277182 CCTAACCTAATTTAATTAAATTAAAAACCC
1 CCTAACC-----TAATTAAATTAAAAA--C
55277212 TAACCTAACCTAATTAAATTAAAAAC
1 ---CCTAACCTAATTAAATTAAAAAC
55277238 CCTAACCTTATTTTAATTAAATTAAAAAC
1 CCTAACC------TAATTAAATTAAAAAC
55277267 CCTAACCTAACCTACTTAAATTAAAAAC
1 CCTAACCT-A---A-TTAAATTAAAAAC
55277295 CCTAACCTTATTTAATTAAATTAAAAAC
1 CCTAACC-----TAATTAAATTAAAAAC
55277323 CCTAACCTAACCTACTTAAATTAAAAACCC
1 CCTAACCT-A---A-TTAAATTAAAAA--C
*
55277353 TAACCTAACCTAATTTAATTAAAAAC
1 ---CCTAACCTAATTAAATTAAAAAC
*
55277379 CCTAACCTAATTTAATTAAAAACCC
1 CCTAACCTAATTAAATTAAAAA--C
*
55277404 TAACCTAACCTAATTTAATTAAAAAC
1 ---CCTAACCTAATTAAATTAAAAAC
*
55277430 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
* *
55277453 CCTAACCTACTTAAATTAAAAAT
1 CCTAACCTAATTAAATTAAAAAC
55277476 CCTAACCTTATTTAATTAAATTAAAAACCCTAC
1 CCTAACC-----TAATTAAATT-AAAA----AC
* *
55277509 CCTAACCTAATTTAATTAAAAAT
1 CCTAACCTAATTAAATTAAAAAC
*
55277532 CCTAACCTACTTAAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
*
55277555 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
*
55277578 CCTAACCTACTTAAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
55277601 CCTAACCTAATTTAATTAAATTAAAAACCC
1 CCTAACC-----TAATTAAATTAAAAA--C
55277631 TAACCTAACCTAATTAAATTAAAAAC
1 ---CCTAACCTAATTAAATTAAAAAC
*
55277657 CCTAACCTAACCTAATTAATTAAAAAC
1 CCTAACCTAA--T--TAAATTAAAAAC
*
55277684 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
*
55277707 CCTAACCTAATTTAATTTAATTTAAAAC
1 CCTAACCTAA-TT-A---AATTAAAAAC
*
55277735 CCTAACCTACTTAAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
*
55277758 CCTAACCTAATTTAATTAAA
1 CCTAACCTAATTAAATTAAA
55277778 TTAAAAACCC
Statistics
Matches: 700, Mismatches: 33, Indels: 165
0.78 0.04 0.18
Matches are distributed among these distances:
23 345 0.49
24 5 0.01
25 5 0.01
26 8 0.01
27 30 0.04
28 242 0.35
29 29 0.04
30 3 0.00
32 2 0.00
33 31 0.04
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (23 bp):
CCTAACCTAATTAAATTAAAAAC
Found at i:55277793 original size:34 final size:34
Alignment explanation
Indices: 55277755--55277826 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
55277745 TTAAATTAAA
**
55277755 AACCCTAACCTAATTTAATTAAATTAAAAACCCT
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCT
*
55277789 AACCCTAACCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCT
55277823 AACC
1 AACC
55277827 TACTTAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (34 bp):
AACCCTAACCTAACCTAATTAAATTAAAAACCCT
Found at i:55277824 original size:23 final size:23
Alignment explanation
Indices: 55277797--55277898 Score: 123
Period size: 23 Copynumber: 4.2 Consensus size: 23
55277787 CTAACCCTAA
*
55277797 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
*
55277820 CCTAACCTACTTAAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
*
55277843 CCTAACCTAAATTAATTAAATTAAAAAT
1 CCTAACC-----TAATTAAATTAAAAAC
*
55277871 CCTAACCTACTTAAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
55277894 CCTAA
1 CCTAA
55277899 TTAAATTGTA
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
23 47 0.69
28 21 0.31
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (23 bp):
CCTAACCTAATTAAATTAAAAAC
Found at i:55277859 original size:51 final size:50
Alignment explanation
Indices: 55276819--55277898 Score: 659
Period size: 51 Copynumber: 20.7 Consensus size: 50
55276809 ACATTATTTG
* *
55276819 ATTAAAATCCCTAACCCTACTT-AATTAAAAAACCTAA--T--TTAATTAA
1 ATTAAAAACCCTAA-CCTACTTAAATTAAAAACCCTAACCTACTTAATTAA
55276865 ATTAAAAACCCTAAACCCTACTT-AATTAAAAACCCTAACCCTAACCTAATTTAATTAA
1 ATTAAAAACCCT-AA-CCTACTTAAATTAAAAACCCTAA-CCT-A-C----TTAATTAA
* * *
55276923 ATTAAAAACCCTAACCTAACCTAATTAAATTAAAAATCCTAACCTAACCTACTTAA
1 ATTAAAAACCCTAACCT-A-C---TTAAATTAAAAACCCTAACCT-ACTTAATTAA
* *
55276979 ATTAAAAACCCTAACCTAACCTAATGTAATTAAAAACCCTAA-C--C-TAATTTA
1 ATTAAAAACCCTAACCT-A-CT--T-AAATTAAAAACCCTAACCTACTTAATTAA
* *
55277030 ATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA-C--C-TAATTTA
1 ATTAAAAACCCTAACCT-A-C---TTAAATTAAAAACCCTAACCTACTTAATTAA
* *
55277081 ATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAC----TTAA
1 ATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCTACTTAATTAA
* *
55277127 ATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAC----TTAA
1 ATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCTACTTAATTAA
* *
55277173 ATTAAAAACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTAA
1 ATTAAAAACCCTAACC-----TACTTAAATTAAAAACCCTAACCT-ACTTAATTAA
* * *
55277229 ATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCTAACCTACTTAA
1 ATTAAAAACCCTAACC------TACTTAAATTAAAAACCCTAACCT-ACTTAATTAA
* * *
55277286 ATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCTAACCTAACCTACTTAA
1 ATTAAAAACCCTAACC-----TACTTAAATTAAAAACCCTAACCT-ACTTAATTAA
* *
55277342 ATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA-C--C-TAATTTA
1 ATTAAAAACCCTAACCT-A-C---TTAAATTAAAAACCCTAACCTACTTAATTAA
* *
55277393 ATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA-C--C-TAATTTA
1 ATTAAAAACCCTAACCT-A-C---TTAAATTAAAAACCCTAACCTACTTAATTAA
* *
55277444 ATTAAAAACCCTAACCTACTTAAATTAAAAATCCTAACCTTATTTAATTAA
1 ATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACC-TACTTAATTAA
* * *
55277495 ATTAAAAACCCTACCCTAACCTAATTTAATTAAAAATCCTAACCTAC----TTAA
1 ATT-AAAA----ACCCTAACCTACTTAAATTAAAAACCCTAACCTACTTAATTAA
* *
55277546 ATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAC----TTAA
1 ATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCTACTTAATTAA
* *
55277592 ATTAAAAACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTAA
1 ATTAAAAACCCTAACC-----TACTTAAATTAAAAACCCTAACCT-ACTTAATTAA
* *
55277648 ATTAAAAACCCTAACCTAACCTAATTAATTAAAAACCCTAA-C--C-TAATTTA
1 ATTAAAAACCCTAACCT-A-CT--TAAATTAAAAACCCTAACCTACTTAATTAA
* *
55277698 ATTAAAAACCCTAACCTAATTTAATTTAATTTAAAACCCTAACCTAC----TTAA
1 ATTAAAAACCCTAACCT-ACTT-A---AATTAAAAACCCTAACCTACTTAATTAA
* *
55277749 ATTAAAAACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCCTAACCTAACCTAATTTA
1 ATTAAAAACCCTAACC-----TACTTAAATTAAAAACCCTAA-CCT-A-CT----TAATTAA
*
55277811 ATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCTAAATTAATTAA
1 ATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCT-ACTTAATTAA
*
55277862 ATTAAAAATCCTAACCTACTTAAATTAAAAACCCTAA
1 ATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAA
55277899 TTAAATTGTA
Statistics
Matches: 901, Mismatches: 43, Indels: 175
0.81 0.04 0.16
Matches are distributed among these distances:
46 164 0.18
47 27 0.03
49 3 0.00
50 32 0.04
51 295 0.33
52 17 0.02
53 3 0.00
54 5 0.01
55 25 0.03
56 191 0.21
57 77 0.09
58 21 0.02
60 1 0.00
61 7 0.01
62 33 0.04
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (50 bp):
ATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCTACTTAATTAA
Found at i:55281238 original size:84 final size:85
Alignment explanation
Indices: 55281038--55281241 Score: 392
Period size: 84 Copynumber: 2.4 Consensus size: 85
55281028 CAAACTTGCT
*
55281038 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACATCAAAAAAA
55281103 AATTATTTCCTACATGACCA
66 AATTATTTCCTACATGACCA
55281123 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACATC-AAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACATCAAAAAAA
55281187 AATTATTTCCTACATGACCA
66 AATTATTTCCTACATGACCA
55281207 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
55281242 CACAATTTCT
Statistics
Matches: 118, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
84 61 0.52
85 57 0.48
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (85 bp):
ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACATCAAAAAAA
AATTATTTCCTACATGACCA
Found at i:55281423 original size:124 final size:124
Alignment explanation
Indices: 55281151--55281430 Score: 359
Period size: 124 Copynumber: 2.3 Consensus size: 124
55281141 CCACGAGGGC
* * * *
55281151 GCGATTTGACACTATTTGCTCAGAAACATCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
1 GCGATTTCACACTATTTACTCAGAAACGTCAAAAAAAAATATTTCCTACATGACCAACTGTAGCG
* * * * **
55281216 AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* * * *
55281275 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAAATATTT-CTCACATGACC-ATTGTAG
1 GCGATTTCACACTATTTACTCAG-AAACGTCAAAAAAAAATATTTCCT-ACATGACCAACTGTAG
* *
55281338 CGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
64 CGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
*
55281399 GCGATTTCCCACTATTTAAC-CAGAAACGTCAA
1 GCGATTTCACACTATTT-ACTCAGAAACGTCAA
55281431 CTCGAAAAAA
Statistics
Matches: 135, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
123 9 0.07
124 98 0.73
125 28 0.21
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (124 bp):
GCGATTTCACACTATTTACTCAGAAACGTCAAAAAAAAATATTTCCTACATGACCAACTGTAGCG
AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:55281801 original size:31 final size:31
Alignment explanation
Indices: 55281750--55281831 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 31
55281740 TCTTGAATAA
* * * **
55281750 AATATTTTTATTTAAATAATA-ATGAAAATT
1 AATATTTTTACTAAAATAATATATAAAAAAG
55281780 AATATTTTTGACTAAAATAATATATAAAAAAG
1 AATATTTTT-ACTAAAATAATATATAAAAAAG
*
55281812 AAT-TATTTACTAAAATAATA
1 AATATTTTTACTAAAATAATA
55281832 CACAAACTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
30 21 0.48
31 14 0.32
32 9 0.20
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (31 bp):
AATATTTTTACTAAAATAATATATAAAAAAG
Found at i:55282059 original size:66 final size:66
Alignment explanation
Indices: 55281990--55282270 Score: 379
Period size: 66 Copynumber: 4.3 Consensus size: 66
55281980 ATTTTGAATT
* * *
55281990 TTTGAATAGGAAAGGTAAGATAGGTGGAAAACGATTATAAAATTTGAAGATAGGCGGGTTTGAAA
1 TTTGAATAGGAATGGTAAGATAGGTGGAAAACGACTATAAAATTTGAAGATAGGCGGATTTGAAA
*
55282055 T
66 A
* * *
55282056 TTTGAATAGGAATGGTAAGATAAGTGGAAAACGACTATAAAATCTGAAGATAGGTGGATTTGAAA
1 TTTGAATAGGAATGGTAAGATAGGTGGAAAACGACTATAAAATTTGAAGATAGGCGGATTTGAAA
55282121 A
66 A
* * * * *
55282122 TTTGATTAAGG-ATGGTAAGATAGATGGAAAAAGACTGTAAAATTTGAAGATA-GCGGGTTTGAA
1 TTTGAAT-AGGAATGGTAAGATAGGTGGAAAACGACTATAAAATTTGAAGATAGGCGGATTTGAA
55282185 AA
65 AA
* * * *
55282187 TTTAAATAGGAATGATAAGATAGGTGGAAAACGACTATAAAATTTAAAGATAGGCAGATTTGAAA
1 TTTGAATAGGAATGGTAAGATAGGTGGAAAACGACTATAAAATTTGAAGATAGGCGGATTTGAAA
55282252 A
66 A
55282253 TTTGAATTA-GAATGGTAA
1 TTTGAA-TAGGAATGGTAA
55282271 AATGACTAAG
Statistics
Matches: 185, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
64 3 0.02
65 52 0.28
66 125 0.68
67 5 0.03
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.27
Consensus pattern (66 bp):
TTTGAATAGGAATGGTAAGATAGGTGGAAAACGACTATAAAATTTGAAGATAGGCGGATTTGAAA
A
Found at i:55282237 original size:131 final size:132
Alignment explanation
Indices: 55281990--55282270 Score: 397
Period size: 131 Copynumber: 2.1 Consensus size: 132
55281980 ATTTTGAATT
* * * *
55281990 TTTGAA-TAGGAAAGGTAAGATAGGTGGAAAACGATTATAAAATTTGAAGATAGGCGGGTTTGAA
1 TTTGAATTA-GAATGGTAAGATAGATGGAAAAAGACTATAAAATTTGAAGATAGGCGGGTTTGAA
* * * * **
55282054 ATTTTGAATAGGAATGGTAAGATAAGTGGAAAACGACTATAAAATCTGAAGATAGGTGGATTTGA
65 AATTTAAATAGGAATGATAAGATAAGTGGAAAACGACTATAAAATCTAAAGATAGGCAGATTTGA
55282119 AAA
130 AAA
* *
55282122 TTTG-ATTAAGGATGGTAAGATAGATGGAAAAAGACTGTAAAATTTGAAGATA-GCGGGTTTGAA
1 TTTGAATT-AGAATGGTAAGATAGATGGAAAAAGACTATAAAATTTGAAGATAGGCGGGTTTGAA
* *
55282185 AATTTAAATAGGAATGATAAGATAGGTGGAAAACGACTATAAAATTTAAAGATAGGCAGATTTGA
65 AATTTAAATAGGAATGATAAGATAAGTGGAAAACGACTATAAAATCTAAAGATAGGCAGATTTGA
55282250 AAA
130 AAA
55282253 TTTGAATTAGAATGGTAA
1 TTTGAATTAGAATGGTAA
55282271 AATGACTAAG
Statistics
Matches: 131, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
131 85 0.65
132 45 0.34
133 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.27
Consensus pattern (132 bp):
TTTGAATTAGAATGGTAAGATAGATGGAAAAAGACTATAAAATTTGAAGATAGGCGGGTTTGAAA
ATTTAAATAGGAATGATAAGATAAGTGGAAAACGACTATAAAATCTAAAGATAGGCAGATTTGAA
AA
Found at i:55286131 original size:10 final size:10
Alignment explanation
Indices: 55286100--55286133 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
55286090 TCATTCAATT
55286100 AAGT-ACTTC
1 AAGTAACTTC
*
55286109 AAATAACTTC
1 AAGTAACTTC
55286119 AAGTAACTTC
1 AAGTAACTTC
55286129 AAGTA
1 AAGTA
55286134 TTCAATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 3 0.14
10 19 0.86
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (10 bp):
AAGTAACTTC
Found at i:55300608 original size:85 final size:84
Alignment explanation
Indices: 55300463--55300665 Score: 381
Period size: 85 Copynumber: 2.4 Consensus size: 84
55300453 CAAACTTGCT
*
55300463 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACATC-AAAAAA
55300528 AATTATTTCCTACATGACCA
65 AATTATTTCCTACATGACCA
55300548 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACATCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACATCAAAAAAA
55300613 ATTATTTCCTACATGACCA
66 ATTATTTCCTACATGACCA
55300632 ACTGTAGCGAAATCGCG-CCACGAGGGCGCGATTT
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
55300666 CACAATTTCT
Statistics
Matches: 117, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
83 17 0.15
84 43 0.37
85 57 0.49
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (84 bp):
ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACATCAAAAAAA
ATTATTTCCTACATGACCA
Found at i:55300796 original size:124 final size:123
Alignment explanation
Indices: 55300576--55300838 Score: 343
Period size: 124 Copynumber: 2.1 Consensus size: 123
55300566 CCACGAGGGC
* *
55300576 GCGATTTGACACTATTTGCTCAGAAACATCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
1 GCGATTTGACACTATTTCCTCAGAAACATCAAAAAAAAATATTTCCTACATGACCAACTGTAGCG
* * * * **
55300641 AAATCGCGCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 AAATCGCGCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* * * *
55300699 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAAATATTT-CTCACATGACC-ATTGTAG
1 GCGATTTGACACTATTTCCTCAG-AAACATCAAAAAAAAATATTTCCT-ACATGACCAACTGTAG
* *
55300762 CGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
64 CGAAATCGCG-CCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
*
55300823 GCGATTT-CCACTATTT
1 GCGATTTGACACTATTT
55300839 AACCAGAAAC
Statistics
Matches: 121, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
123 45 0.37
124 76 0.63
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (123 bp):
GCGATTTGACACTATTTCCTCAGAAACATCAAAAAAAAATATTTCCTACATGACCAACTGTAGCG
AAATCGCGCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:55301451 original size:66 final size:66
Alignment explanation
Indices: 55301382--55301662 Score: 379
Period size: 66 Copynumber: 4.3 Consensus size: 66
55301372 ATTTTGAATT
* * *
55301382 TTTGAATAGGAAAGGTAAGATAGGTGGAAAACGATTATAAAATTTGAAGATAGGCGGGTTTGAAA
1 TTTGAATAGGAATGGTAAGATAGGTGGAAAACGACTATAAAATTTGAAGATAGGCGGATTTGAAA
*
55301447 T
66 A
* * *
55301448 TTTGAATAGGAATGGTAAGATAAGTGGAAAACGACTATAAAATCTGAAGATAGGTGGATTTGAAA
1 TTTGAATAGGAATGGTAAGATAGGTGGAAAACGACTATAAAATTTGAAGATAGGCGGATTTGAAA
55301513 A
66 A
* * * * *
55301514 TTTGATTAAGG-ATGGTAAGATAGATGGAAAAAGACTGTAAAATTTGAAGATA-GCGGGTTTGAA
1 TTTGAAT-AGGAATGGTAAGATAGGTGGAAAACGACTATAAAATTTGAAGATAGGCGGATTTGAA
55301577 AA
65 AA
* * * *
55301579 TTTAAATAGGAATGATAAGATAGGTGGAAAACGACTATAAAATTTAAAGATAGGCAGATTTGAAA
1 TTTGAATAGGAATGGTAAGATAGGTGGAAAACGACTATAAAATTTGAAGATAGGCGGATTTGAAA
55301644 A
66 A
55301645 TTTGAATTA-GAATGGTAA
1 TTTGAA-TAGGAATGGTAA
55301663 AATGACTAAG
Statistics
Matches: 185, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
64 3 0.02
65 52 0.28
66 125 0.68
67 5 0.03
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.27
Consensus pattern (66 bp):
TTTGAATAGGAATGGTAAGATAGGTGGAAAACGACTATAAAATTTGAAGATAGGCGGATTTGAAA
A
Found at i:55301629 original size:131 final size:132
Alignment explanation
Indices: 55301382--55301662 Score: 397
Period size: 131 Copynumber: 2.1 Consensus size: 132
55301372 ATTTTGAATT
* * * *
55301382 TTTGAA-TAGGAAAGGTAAGATAGGTGGAAAACGATTATAAAATTTGAAGATAGGCGGGTTTGAA
1 TTTGAATTA-GAATGGTAAGATAGATGGAAAAAGACTATAAAATTTGAAGATAGGCGGGTTTGAA
* * * * **
55301446 ATTTTGAATAGGAATGGTAAGATAAGTGGAAAACGACTATAAAATCTGAAGATAGGTGGATTTGA
65 AATTTAAATAGGAATGATAAGATAAGTGGAAAACGACTATAAAATCTAAAGATAGGCAGATTTGA
55301511 AAA
130 AAA
* *
55301514 TTTG-ATTAAGGATGGTAAGATAGATGGAAAAAGACTGTAAAATTTGAAGATA-GCGGGTTTGAA
1 TTTGAATT-AGAATGGTAAGATAGATGGAAAAAGACTATAAAATTTGAAGATAGGCGGGTTTGAA
* *
55301577 AATTTAAATAGGAATGATAAGATAGGTGGAAAACGACTATAAAATTTAAAGATAGGCAGATTTGA
65 AATTTAAATAGGAATGATAAGATAAGTGGAAAACGACTATAAAATCTAAAGATAGGCAGATTTGA
55301642 AAA
130 AAA
55301645 TTTGAATTAGAATGGTAA
1 TTTGAATTAGAATGGTAA
55301663 AATGACTAAG
Statistics
Matches: 131, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
131 85 0.65
132 45 0.34
133 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.27
Consensus pattern (132 bp):
TTTGAATTAGAATGGTAAGATAGATGGAAAAAGACTATAAAATTTGAAGATAGGCGGGTTTGAAA
ATTTAAATAGGAATGATAAGATAAGTGGAAAACGACTATAAAATCTAAAGATAGGCAGATTTGAA
AA
Found at i:55305514 original size:10 final size:10
Alignment explanation
Indices: 55305483--55305516 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
55305473 TCATTCAATT
55305483 AAGT-ACTTC
1 AAGTAACTTC
*
55305492 AAATAACTTC
1 AAGTAACTTC
55305502 AAGTAACTTC
1 AAGTAACTTC
55305512 AAGTA
1 AAGTA
55305517 TTCAATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 3 0.14
10 19 0.86
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (10 bp):
AAGTAACTTC
Found at i:55312001 original size:13 final size:14
Alignment explanation
Indices: 55311973--55312002 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
55311963 AAATTTCAAG
55311973 TTTTTACTAGATTT
1 TTTTTACTAGATTT
*
55311987 TTTTTTCTAGATTT
1 TTTTTACTAGATTT
55312001 TT
1 TT
55312003 AATGGTTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTTTACTAGATTT
Found at i:55312041 original size:19 final size:19
Alignment explanation
Indices: 55312011--55312060 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
55312001 TTAATGGTTG
* *
55312011 ATTTTAGTTTATTTTTTCTA
1 ATTTT-GTTTATTTTTCCCA
55312031 ATTTTGTTTATTTTTCCCA
1 ATTTTGTTTATTTTTCCCA
55312050 ATTTTGTTTAT
1 ATTTTGTTTAT
55312061 GATATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.18, C:0.08, G:0.06, T:0.68
Consensus pattern (19 bp):
ATTTTGTTTATTTTTCCCA
Found at i:55312909 original size:21 final size:22
Alignment explanation
Indices: 55312875--55312915 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
55312865 TTTTTTTTTT
*
55312875 AATTTTTAATTATTGATTTAAG
1 AATTTTCAATTATTGATTTAAG
*
55312897 AATTTTCAA-TATTTATTTA
1 AATTTTCAATTATTGATTTA
55312916 TTATTATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (22 bp):
AATTTTCAATTATTGATTTAAG
Found at i:55313042 original size:5 final size:5
Alignment explanation
Indices: 55313032--55313062 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
55313022 TGAGCATTCG
55313032 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
55313063 AATTTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:55316447 original size:30 final size:31
Alignment explanation
Indices: 55316412--55316475 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
55316402 AGTAAATAAT
* * *
55316412 TTTTTTA-TATTATTTTAATCAAAAAGTTTA
1 TTTTTTATTATTATTTAAATAAAAAAATTTA
55316442 TTTTTTATTATTATTTAAATAAAAAAATTTA
1 TTTTTTATTATTATTTAAATAAAAAAATTTA
55316473 TTT
1 TTT
55316476 AAGAGAATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (31 bp):
TTTTTTATTATTATTTAAATAAAAAAATTTA
Found at i:55316767 original size:25 final size:25
Alignment explanation
Indices: 55316726--55316804 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
55316716 ATTTTTAATT
*
55316726 TTTTAAAAGTATT-TATATTATATTA
1 TTTTAAAA-TTTTATATATTATATTA
*
55316751 TTTTAATATTTTATATATT-T-TTA
1 TTTTAAAATTTTATATATTATATTA
* * *
55316774 TTTATTAAAATTTTTTATATAATATTT
1 -TT-TTAAAATTTTATATATTATATTA
55316801 TTTT
1 TTTT
55316805 TGAAAGATCG
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
23 3 0.07
24 6 0.14
25 29 0.67
26 3 0.07
27 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (25 bp):
TTTTAAAATTTTATATATTATATTA
Found at i:55323961 original size:171 final size:171
Alignment explanation
Indices: 55323676--55324014 Score: 669
Period size: 171 Copynumber: 2.0 Consensus size: 171
55323666 TTGAAGAAAG
55323676 TTGCCTCTCTGTAAAGCAATCAGTAAAGAATTTATTATGACCATGAAAAGAGTTTCCCTAGCATA
1 TTGCCTCTCTGTAAAGCAATCAGTAAAGAATTTATTATGACCATGAAAAGAGTTTCCCTAGCATA
55323741 TCTCACCCAAAATATTGAATCCACAAATAGAAAAAGGGATAGATTTGACATCCATATTTAGACAC
66 TCTCACCCAAAATATTGAATCCACAAATAGAAAAAGGGATAGATTTGACATCCATATTTAGACAC
55323806 AAGTAAAAGTGTACAAGCTGCAGTGTTTGCAAAAGCCATAT
131 AAGTAAAAGTGTACAAGCTGCAGTGTTTGCAAAAGCCATAT
55323847 TTGCCTCTCTGTAAAGCAATCAGTAAAGAATTTATTATGACCATGAAAAGAGTTTCCCTAGCATA
1 TTGCCTCTCTGTAAAGCAATCAGTAAAGAATTTATTATGACCATGAAAAGAGTTTCCCTAGCATA
55323912 TCTCACCCAAAATATTGAATCCACAAATAGAAAAAGGGATAGATTTGACATCCATATTTAGACAC
66 TCTCACCCAAAATATTGAATCCACAAATAGAAAAAGGGATAGATTTGACATCCATATTTAGACAC
*
55323977 AAGTAAAAGTGTACAAGCTGTAGTGTTTGCAAAAGCCA
131 AAGTAAAAGTGTACAAGCTGCAGTGTTTGCAAAAGCCA
55324015 ATCATGAAAA
Statistics
Matches: 167, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
171 167 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (171 bp):
TTGCCTCTCTGTAAAGCAATCAGTAAAGAATTTATTATGACCATGAAAAGAGTTTCCCTAGCATA
TCTCACCCAAAATATTGAATCCACAAATAGAAAAAGGGATAGATTTGACATCCATATTTAGACAC
AAGTAAAAGTGTACAAGCTGCAGTGTTTGCAAAAGCCATAT
Found at i:55328724 original size:15 final size:15
Alignment explanation
Indices: 55328704--55328732 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
55328694 CTTGCTTCGT
55328704 TGTTTAATAGGTGCG
1 TGTTTAATAGGTGCG
55328719 TGTTTAATAGGTGC
1 TGTTTAATAGGTGC
55328733 TCTGTAAGTC
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:0.21, C:0.07, G:0.31, T:0.41
Consensus pattern (15 bp):
TGTTTAATAGGTGCG
Found at i:55329409 original size:19 final size:20
Alignment explanation
Indices: 55329368--55329416 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
55329358 CACGTTACCC
*
55329368 TAAACCCTTAATCATAAGCCA
1 TAAA-CCTTAATCATAAACCA
*
55329389 TAAACCTTAA-CATAAATCA
1 TAAACCTTAATCATAAACCA
55329408 TAAA-CTTAA
1 TAAACCTTAA
55329417 ACCCTAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 5 0.19
19 11 0.42
20 6 0.23
21 4 0.15
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAACCTTAATCATAAACCA
Found at i:55329436 original size:14 final size:13
Alignment explanation
Indices: 55329387--55329438 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
55329377 AATCATAAGC
*
55329387 CATAAA-CCTTAA
1 CATAAATCCTAAA
*
55329399 CATAAATCATAAA
1 CATAAATCCTAAA
* *
55329412 CTTAAACCCTAAA
1 CATAAATCCTAAA
55329425 CACTAAATCCTAAA
1 CA-TAAATCCTAAA
55329439 TTTTAAACAC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
12 6 0.19
13 15 0.48
14 10 0.32
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (13 bp):
CATAAATCCTAAA
Found at i:55329557 original size:22 final size:22
Alignment explanation
Indices: 55329532--55329678 Score: 83
Period size: 22 Copynumber: 6.9 Consensus size: 22
55329522 AATACAAATA
* *
55329532 CTAAATCATCAATATTAAAACC
1 CTAAATCATAAACATTAAAACC
* *
55329554 CTAAATCTTAAACCTTAAAACC
1 CTAAATCATAAACATTAAAACC
* * *
55329576 CTAAACCTTAAACACT-AAACC
1 CTAAATCATAAACATTAAAACC
*
55329597 CTTAAA-CTTAAA-ACTT-AAACC
1 C-TAAATCATAAACA-TTAAAACC
* * *
55329618 CTAAACCTTAAAC-TTCAAACTC
1 CTAAATCATAAACATTAAAAC-C
* *
55329640 CTAAAT-ATTAATATT-AAACC
1 CTAAATCATAAACATTAAAACC
* *
55329660 CTAAATCTTAAACCTTAAA
1 CTAAATCATAAACATTAAA
55329679 TGCATAAACC
Statistics
Matches: 100, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
20 14 0.14
21 41 0.41
22 45 0.45
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (22 bp):
CTAAATCATAAACATTAAAACC
Found at i:55329570 original size:7 final size:7
Alignment explanation
Indices: 55329549--55330192 Score: 184
Period size: 7 Copynumber: 88.4 Consensus size: 7
55329539 ATCAATATTA
*
55329549 AAACCCT
1 AAACCTT
*
55329556 AAATCTT
1 AAACCTT
55329563 AAACCTT
1 AAACCTT
*
55329570 AAAACCCT
1 -AAACCTT
55329578 AAACCTT
1 AAACCTT
55329585 AAACAC-T
1 AAAC-CTT
55329592 AAACCCTT
1 AAA-CCTT
55329600 AAA-CTT
1 AAACCTT
*
55329606 AAAACTT
1 AAACCTT
*
55329613 AAACCCT
1 AAACCTT
55329620 AAACCTT
1 AAACCTT
55329627 AAA-CTT
1 AAACCTT
*
55329633 CAAACTCCT
1 -AAAC-CTT
**
55329642 AAATATT
1 AAACCTT
55329649 AATA--TT
1 AA-ACCTT
*
55329655 AAACCCT
1 AAACCTT
*
55329662 AAATCTT
1 AAACCTT
55329669 AAACCTT
1 AAACCTT
* *
55329676 AAATGCAT
1 AAA-CCTT
*
55329684 AAACCCTA
1 AAA-CCTT
55329692 AAACCTT
1 AAACCTT
*
55329699 AAAACTCT
1 AAACCT-T
55329707 AAACCTT
1 AAACCTT
* *
55329714 AAAAACAT
1 -AAACCTT
55329722 AAACAC-T
1 AAAC-CTT
* *
55329729 AATCCCT
1 AAACCTT
**
55329736 AAATATCT
1 AAACCT-T
*
55329744 AAACATT
1 AAACCTT
*
55329751 AAACCCT
1 AAACCTT
*
55329758 AAACCTCA
1 AAACCT-T
55329766 AATGACCTT
1 AA--ACCTT
**
55329775 AAATATT
1 AAACCTT
*
55329782 AAA-TTCT
1 AAACCT-T
55329789 AAACCTT
1 AAACCTT
55329796 AAACCTT
1 AAACCTT
*
55329803 AAACTCTC
1 AAAC-CTT
55329811 AAACCTT
1 AAACCTT
* *
55329818 AAATCTC
1 AAACCTT
*
55329825 AAACACCT
1 AAAC-CTT
* *
55329833 AAACAATA
1 AAAC-CTT
*
55329841 AAACTTT
1 AAACCTT
*
55329848 AAACCCT
1 AAACCTT
*
55329855 GAACCTT
1 AAACCTT
*
55329862 AAAACTCT
1 AAACCT-T
*
55329870 AAATCTT
1 AAACCTT
*
55329877 AAACTCTA
1 AAAC-CTT
*
55329885 AAACCCT
1 AAACCTT
55329892 AAACAC-T
1 AAAC-CTT
* *
55329899 AAATCAT
1 AAACCTT
**
55329906 AAATTTT
1 AAACCTT
*
55329913 AAACCCT
1 AAACCTT
* *
55329920 AAATCTC
1 AAACCTT
* *
55329927 AAATACAT
1 AAA-CCTT
*
55329935 AAGCCTT
1 AAACCTT
*
55329942 AAAACTCT
1 AAACCT-T
*
55329950 AAACTTT
1 AAACCTT
55329957 AAACCTT
1 AAACCTT
*
55329964 AAACCCT
1 AAACCTT
55329971 AAATCC-T
1 AAA-CCTT
55329978 AAACCTT
1 AAACCTT
55329985 AAA-CTT
1 AAACCTT
**
55329991 CAAATATAT
1 -AAACCT-T
55330000 AAACCTT
1 AAACCTT
55330007 AAACCTT
1 AAACCTT
*
55330014 AAACTTT
1 AAACCTT
* *
55330021 AAATGCAT
1 AAA-CCTT
55330029 AAACCTT
1 AAACCTT
*
55330036 AAA-TTAT
1 AAACCT-T
*
55330043 AAACCCT
1 AAACCTT
55330050 AAACCTT
1 AAACCTT
*
55330057 AAATACTT
1 AAA-CCTT
*
55330065 AAACCCT
1 AAACCTT
55330072 AAACCTT
1 AAACCTT
* *
55330079 AAATCAT
1 AAACCTT
*
55330086 AAACCCT
1 AAACCTT
*
55330093 AAACCCT
1 AAACCTT
55330100 AAA-CTT
1 AAACCTT
55330106 CAAATGCC-T
1 -AAA--CCTT
*
55330115 AAATCCTA
1 AAA-CCTT
*
55330123 AAATCTT
1 AAACCTT
55330130 AAAACCTT
1 -AAACCTT
*
55330138 AAA-TTAT
1 AAACCT-T
55330145 AAACCTT
1 AAACCTT
55330152 AAAATCC-T
1 -AAA-CCTT
*
55330160 AAACCCT
1 AAACCTT
*
55330167 AAACACTA
1 AAAC-CTT
55330175 ACAACCTT
1 A-AACCTT
*
55330183 AAACTTT
1 AAACCTT
55330190 AAA
1 AAA
55330193 TTATAAACTC
Statistics
Matches: 465, Mismatches: 120, Indels: 104
0.67 0.17 0.15
Matches are distributed among these distances:
5 1 0.00
6 27 0.06
7 299 0.64
8 122 0.26
9 11 0.02
10 5 0.01
ACGTcount: A:0.47, C:0.25, G:0.01, T:0.27
Consensus pattern (7 bp):
AAACCTT
Found at i:55329597 original size:21 final size:22
Alignment explanation
Indices: 55329549--55329730 Score: 123
Period size: 22 Copynumber: 8.4 Consensus size: 22
55329539 ATCAATATTA
*
55329549 AAACCCTAAATCTTAAAC-CTT
1 AAACCCTAAACCTTAAACACTT
55329570 AAAACCCTAAACCTTAAACAC-T
1 -AAACCCTAAACCTTAAACACTT
55329592 AAACCCTTAAA-CTTAAA-ACTT
1 AAACCC-TAAACCTTAAACACTT
55329613 AAACCCTAAACCTT-AA-ACTT
1 AAACCCTAAACCTTAAACACTT
** *
55329633 CAAACTCCTAAATATT-AATA-TT
1 -AAAC-CCTAAACCTTAAACACTT
*
55329655 AAACCCTAAATCTTAAAC-CTT
1 AAACCCTAAACCTTAAACACTT
* * *
55329676 AAATGCATAAACCCTAAA-ACCTT
1 AAA-CCCTAAACCTTAAACA-CTT
* * *
55329699 AAAACTCTAAACCTTAAAAACAT
1 -AAACCCTAAACCTTAAACACTT
*
55329722 AAACACTAA
1 AAACCCTAA
55329731 TCCCTAAATA
Statistics
Matches: 131, Mismatches: 15, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
20 21 0.16
21 37 0.28
22 52 0.40
23 17 0.13
24 4 0.03
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.25
Consensus pattern (22 bp):
AAACCCTAAACCTTAAACACTT
Found at i:55329712 original size:38 final size:37
Alignment explanation
Indices: 55329655--55329738 Score: 98
Period size: 38 Copynumber: 2.3 Consensus size: 37
55329645 TATTAATATT
* ** *
55329655 AAACCCTAAATCTTAAACCTTAAATGCATAAACCCTA
1 AAACCCTAAAACTTAAACCTTAAAAACATAAACACTA
*
55329692 AAACCTTAAAACTCTAAACCTTAAAAACATAAACACT-
1 AAACCCTAAAACT-TAAACCTTAAAAACATAAACACTA
*
55329729 AATCCCTAAA
1 AAACCCTAAA
55329739 TATCTAAACA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
37 19 0.49
38 20 0.51
ACGTcount: A:0.50, C:0.26, G:0.01, T:0.23
Consensus pattern (37 bp):
AAACCCTAAAACTTAAACCTTAAAAACATAAACACTA
Found at i:55329738 original size:22 final size:22
Alignment explanation
Indices: 55329683--55329760 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
55329673 CTTAAATGCA
* *
55329683 TAAACCCTAAA-ACCTTAAAACTC
1 TAAACCCTAAATAAC-T-AAACAC
*
55329706 TAAACCTTAAA-AACATAAACAC
1 TAAACCCTAAATAAC-TAAACAC
* * *
55329728 TAATCCCTAAATATCTAAACAT
1 TAAACCCTAAATAACTAAACAC
55329750 TAAACCCTAAA
1 TAAACCCTAAA
55329761 CCTCAAATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
22 30 0.67
23 15 0.33
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAACCCTAAATAACTAAACAC
Found at i:55329908 original size:29 final size:28
Alignment explanation
Indices: 55329863--55329922 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
55329853 CTGAACCTTA
* *
55329863 AAACTCTAAATCTTAAACTCTAAAACCCT
1 AAACACTAAATCATAAA-TCTAAAACCCT
* *
55329892 AAACACTAAATCATAAATTTTAAACCCT
1 AAACACTAAATCATAAATCTAAAACCCT
55329920 AAA
1 AAA
55329923 TCTCAAATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (28 bp):
AAACACTAAATCATAAATCTAAAACCCT
Found at i:55330003 original size:43 final size:42
Alignment explanation
Indices: 55329956--55330102 Score: 154
Period size: 43 Copynumber: 3.4 Consensus size: 42
55329946 CTCTAAACTT
* * *
55329956 TAAACCTTAAACCCTAAATCCTAAACCTTAAA-CTTCAAATATA
1 TAAACCCTAAACCCTAAATCTTAAACCATAAACCTT-AAAT-TA
* * *
55329999 TAAACCTTAAACCTTAAA-CTTTAAATGCATAAACCTTAAATTA
1 TAAACCCTAAACCCTAAATC-TTAAA-CCATAAACCTTAAATTA
* * *
55330042 TAAACCCTAAACCTTAAATACTTAAACCCTAAACCTTAAATCA
1 TAAACCCTAAACCCTAAAT-CTTAAACCATAAACCTTAAATTA
55330085 TAAACCCTAAACCCTAAA
1 TAAACCCTAAACCCTAAA
55330103 CTTCAAATGC
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
42 1 0.01
43 71 0.79
44 14 0.16
45 4 0.04
ACGTcount: A:0.47, C:0.25, G:0.01, T:0.27
Consensus pattern (42 bp):
TAAACCCTAAACCCTAAATCTTAAACCATAAACCTTAAATTA
Found at i:55330009 original size:29 final size:29
Alignment explanation
Indices: 55329977--55330154 Score: 100
Period size: 29 Copynumber: 6.1 Consensus size: 29
55329967 CCCTAAATCC
*
55329977 TAAACCTTAAACTTCAAATATATAAACCT
1 TAAACCTTAAACTTCAAATACATAAACCT
* *
55330006 TAAACCTTAAACTTTAAATGCATAAACCT
1 TAAACCTTAAACTTCAAATACATAAACCT
* * * * *
55330035 TAAA-TTATAAAC-CCTAAA-CCTTAAATACT
1 TAAACCT-TAAACTTC-AAATACATAAA-CCT
* *
55330064 TAAACCCTAAACCTT-AAAT-CATAAACCC
1 TAAACCTTAAA-CTTCAAATACATAAACCT
* * *
55330092 TAAACCCTAAACTTCAAATGCCTAAATCCT
1 TAAACCTTAAACTTCAAATACATAAA-CCT
* * *
55330122 AAAATCTTAAAACCTT-AAAT-TATAAACCT
1 TAAACCTT-AAA-CTTCAAATACATAAACCT
55330151 TAAA
1 TAAA
55330155 ATCCTAAACC
Statistics
Matches: 114, Mismatches: 23, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
27 3 0.03
28 22 0.19
29 67 0.59
30 12 0.11
31 7 0.06
32 3 0.03
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (29 bp):
TAAACCTTAAACTTCAAATACATAAACCT
Found at i:55330031 original size:22 final size:21
Alignment explanation
Indices: 55330007--55330102 Score: 88
Period size: 22 Copynumber: 4.5 Consensus size: 21
55329997 TATAAACCTT
*
55330007 AAACCTTAAACTT-TAAATGCAT
1 AAACCTTAAA-TTATAAA-CCAT
*
55330029 AAACCTTAAATTATAAACCCT
1 AAACCTTAAATTATAAACCAT
*
55330050 AAACCTTAAA-TACTTAAACCCT
1 AAACCTTAAATTA--TAAACCAT
* *
55330072 AAACCTTAAATCATAAACCCT
1 AAACCTTAAATTATAAACCAT
*
55330093 AAACCCTAAA
1 AAACCTTAAA
55330103 CTTCAAATGC
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
20 2 0.03
21 31 0.47
22 32 0.48
23 1 0.02
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.26
Consensus pattern (21 bp):
AAACCTTAAATTATAAACCAT
Found at i:55330075 original size:65 final size:63
Alignment explanation
Indices: 55329847--55330102 Score: 196
Period size: 65 Copynumber: 4.0 Consensus size: 63
55329837 AATAAAACTT
* * * ** * *
55329847 TAAACCCTGAACCTTAAA-ACTCTAAATCTTAAACTCTAAAACCCTAAA-CACTAAATCATAAAT
1 TAAACCCT-AAACTTAAATACT-TAAACCTTAAAC-CTTAAACTTTAAACCA-TAAACCCTAAAT
*
55329910 TT
62 TA
* * * * * **
55329912 TAAACCCTAAATCTCAAATACATAAGCCTTAAAACTCTAAACTTTAAACCTTAAACCCTAAATCC
1 TAAACCCTAAA-CTTAAATACTTAAACCTTAAACCT-TAAACTTTAAACCATAAACCCTAAATTA
* * *
55329977 TAAACCTTAAACTTCAAATA-TATAAACCTTAAACCTTAAACTTTAAATGCATAAACCTTAAATT
1 TAAACCCTAAACTT-AAATACT-TAAACCTTAAACCTTAAACTTTAAA-CCATAAACCCTAAATT
55330041 A
63 A
* * *
55330042 TAAACCCTAAACCTTAAATACTTAAACCCTAAACCTTAAA-TCATAAACCCTAAACCCTAAA
1 TAAACCCTAAA-CTTAAATACTTAAACCTTAAACCTTAAACT-TTAAACCATAAACCCTAAA
55330103 CTTCAAATGC
Statistics
Matches: 151, Mismatches: 30, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
64 29 0.19
65 115 0.76
66 7 0.05
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.27
Consensus pattern (63 bp):
TAAACCCTAAACTTAAATACTTAAACCTTAAACCTTAAACTTTAAACCATAAACCCTAAATTA
Found at i:55330116 original size:43 final size:42
Alignment explanation
Indices: 55329998--55330132 Score: 155
Period size: 43 Copynumber: 3.1 Consensus size: 42
55329988 CTTCAAATAT
* * *
55329998 ATAAACCTTAAACCTTAAACTTTAAATGCATAAACCTTAAATT
1 ATAAACCCTAAACCTTAAAC-TTAAATGCCTAAACCTTAAATC
*
55330041 ATAAACCCTAAACCTTAAATACTTAAA-CCCTAAACCTTAAATC
1 ATAAACCCTAAACCTT-AA-ACTTAAATGCCTAAACCTTAAATC
* *
55330084 ATAAACCCTAAACCCTAAACTTCAAATGCCTAAATCCTAAAATC
1 ATAAACCCTAAACCTTAAACTT-AAATGCCTAAA-CCTTAAATC
*
55330128 TTAAA
1 ATAAA
55330133 ACCTTAAATT
Statistics
Matches: 79, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
41 4 0.05
42 5 0.06
43 49 0.62
44 19 0.24
45 2 0.03
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.27
Consensus pattern (42 bp):
ATAAACCCTAAACCTTAAACTTAAATGCCTAAACCTTAAATC
Found at i:55330213 original size:14 final size:14
Alignment explanation
Indices: 55329549--55330264 Score: 159
Period size: 14 Copynumber: 49.2 Consensus size: 14
55329539 ATCAATATTA
*
55329549 AAACCCTAAA-TCTT
1 AAACCTTAAACTC-T
*
55329563 AAACCTTAAAACCCT
1 AAACCTT-AAACTCT
*
55329578 AAACCTTAAACACT
1 AAACCTTAAACTCT
55329592 AAACCCTTAAACT-T
1 AAA-CCTTAAACTCT
* *
55329606 AAAACTTAAACCCT
1 AAACCTTAAACTCT
55329620 AAACCTTAAACT-T
1 AAACCTTAAACTCT
* *
55329633 CAAACTCCTAAA-TAT
1 -AAAC-CTTAAACTCT
* ** *
55329648 TAATATTAAACCCT
1 AAACCTTAAACTCT
*
55329662 AAATCTTAAAC-CTT
1 AAACCTTAAACTC-T
* * *
55329676 AAATGCATAAACCCT
1 AAA-CCTTAAACTCT
55329691 AAAACCTTAAAACTCT
1 -AAACCTT-AAACTCT
**
55329707 AAACCTTAAAAACAT
1 AAACCTTAAACTC-T
* *
55329722 AAACAC-TAATCCCT
1 AAAC-CTTAAACTCT
**
55329736 AAATATCTAAACAT-T
1 AAACCT-TAAAC-TCT
* *
55329751 AAACCCTAAACCTCA
1 AAACCTTAAA-CTCT
*
55329766 AATGACCTTAAA-TATT
1 AA--ACCTTAAACT-CT
*
55329782 AAA-TTCTAAAC-CTT
1 AAACCT-TAAACTC-T
55329796 AAACCTTAAACTCT
1 AAACCTTAAACTCT
55329810 CAAACCTTAAA-TCT
1 -AAACCTTAAACTCT
* **
55329824 CAAACACCTAAACAAT
1 -AAAC-CTTAAACTCT
* *
55329840 AAAACTTTAAACCCT
1 -AAACCTTAAACTCT
*
55329855 GAACCTTAAAACTCT
1 AAACCTT-AAACTCT
*
55329870 AAATCTTAAACTCT
1 AAACCTTAAACTCT
* *
55329884 AAAACCCTAAACACT
1 -AAACCTTAAACTCT
* * * *
55329899 AAATCATAAATTTT
1 AAACCTTAAACTCT
*
55329913 AAACCCTAAA-TCT
1 AAACCTTAAACTCT
* * *
55329926 CAAATACATAAGC-CTT
1 -AAA-CCTTAAACTC-T
* *
55329942 AAAACTCTAAACTTT
1 AAACCT-TAAACTCT
*
55329957 AAACCTTAAACCCT
1 AAACCTTAAACTCT
55329971 AAATCC-TAAAC-CTT
1 AAA-CCTTAAACTC-T
* *
55329985 AAA-CTTCAAATATAT
1 AAACCTT-AAA-CTCT
55330000 AAACCTTAAAC-CTT
1 AAACCTTAAACTC-T
*
55330014 AAACTTTAAA-TGCAT
1 AAACCTTAAACT-C-T
* *
55330029 AAACCTTAAATTAT
1 AAACCTTAAACTCT
*
55330043 AAACCCTAAAC-CTT
1 AAACCTTAAACTC-T
* *
55330057 AAATACTTAAACCCT
1 AAA-CCTTAAACTCT
55330072 AAACCTTAAA-TCAT
1 AAACCTTAAACTC-T
* *
55330086 AAACCCTAAACCCT
1 AAACCTTAAACTCT
55330100 AAA-CTTCAAA-TGCCT
1 AAACCTT-AAACT--CT
*
55330115 AAATCC-TAAAATCTT
1 AAA-CCTTAAACTC-T
* *
55330130 AAAACCTTAAATTAT
1 -AAACCTTAAACTCT
*
55330145 AAACCTTAAAATCCT
1 AAACCTTAAACT-CT
* *
55330160 AAACCCTAAACACT
1 AAACCTTAAACTCT
*
55330174 AACAACCTTAAACTTT
1 -A-AACCTTAAACTCT
*
55330190 AAA-TTATAAACTCT
1 AAACCT-TAAACTCT
* * *
55330204 AAACCCTAAATTTT
1 AAACCTTAAACTCT
* *
55330218 AAACCCTAAACTTT
1 AAACCTTAAACTCT
* *
55330232 ACATA-TTTAAACTTT
1 A-A-ACCTTAAACTCT
55330247 AAAACCTTAAACTCT
1 -AAACCTTAAACTCT
55330262 AAA
1 AAA
55330265 TTATAAAGCA
Statistics
Matches: 515, Mismatches: 114, Indels: 146
0.66 0.15 0.19
Matches are distributed among these distances:
12 1 0.00
13 22 0.04
14 239 0.46
15 198 0.38
16 47 0.09
17 8 0.02
ACGTcount: A:0.47, C:0.25, G:0.01, T:0.28
Consensus pattern (14 bp):
AAACCTTAAACTCT
Found at i:55330213 original size:21 final size:21
Alignment explanation
Indices: 55330189--55330228 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
55330179 CCTTAAACTT
*
55330189 TAAATTATAAACTCTAAACCC
1 TAAATTATAAACCCTAAACCC
*
55330210 TAAATTTTAAACCCTAAAC
1 TAAATTATAAACCCTAAAC
55330229 TTTACATATT
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:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAATTATAAACCCTAAACCC
Found at i:55330315 original size:37 final size:36
Alignment explanation
Indices: 55330218--55330328 Score: 100
Period size: 37 Copynumber: 3.0 Consensus size: 36
55330208 CCTAAATTTT
* *
55330218 AAACCCTAAACTTTACATATT-TAAACTTTAAAACCTT-
1 AAACCCTAAACTATA-A-ATTATAAACATT-AAACCTTA
* * **
55330255 AAACTCTAAATTATAAAGCATAAACATTAAACCTTA
1 AAACCCTAAACTATAAATTATAAACATTAAACCTTA
* *
55330291 AAACCCTAAAACTATAAATTATAAATACTAAACCTTA
1 AAACCCT-AAACTATAAATTATAAACATTAAACCTTA
55330328 A
1 A
55330329 CCCTTAAACT
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
35 8 0.14
36 14 0.24
37 37 0.63
ACGTcount: A:0.50, C:0.19, G:0.01, T:0.30
Consensus pattern (36 bp):
AAACCCTAAACTATAAATTATAAACATTAAACCTTA
Found at i:55330323 original size:44 final size:42
Alignment explanation
Indices: 55330238--55330387 Score: 133
Period size: 44 Copynumber: 3.5 Consensus size: 42
55330228 CTTTACATAT
* * *
55330238 TTAAACTTTAAAACCTTAAACTCTAAATTATAAAGCATAAACA
1 TTAAACCTTAAAACCTAAAACTCTAAATTATAAAAC-TAAACA
* *
55330281 TTAAACCTTAAAACCCTAAAACTATAAATTATAAATACTAAACC
1 TTAAACCTTAAAA-CCTAAAACTCTAAATTATAAA-ACTAAACA
* * * * *
55330325 TTAACCCTT-AAACTTTAAACTCTAAATAATAAACCCTAAA-A
1 TTAAACCTTAAAACCTAAAACTCTAAATTATAAA-ACTAAACA
55330366 TGTTAAACCTTAAAACACTAAA
1 --TTAAACCTTAAAAC-CTAAA
55330388 CCTTAAACCT
Statistics
Matches: 85, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
42 22 0.26
43 23 0.27
44 36 0.42
45 4 0.05
ACGTcount: A:0.51, C:0.19, G:0.01, T:0.29
Consensus pattern (42 bp):
TTAAACCTTAAAACCTAAAACTCTAAATTATAAAACTAAACA
Found at i:55330338 original size:35 final size:36
Alignment explanation
Indices: 55330248--55330364 Score: 105
Period size: 35 Copynumber: 3.3 Consensus size: 36
55330238 TTAAACTTTA
* * * *
55330248 AAACCTTAAACTCT-AAATTATAAAGC-ATAAACATT
1 AAACCTTAAACCCTAAAACTATAAA-CTATAAATAAT
* *
55330283 AAACCTTAAAACCCTAAAACTATAAATTATAAATACT
1 AAACCTT-AAACCCTAAAACTATAAACTATAAATAAT
* * *
55330320 AAACCTT-AACCCTTAAACTTTAAACTCTAAATAAT
1 AAACCTTAAACCCTAAAACTATAAACTATAAATAAT
*
55330355 AAACCCTAAA
1 AAACCTTAAA
55330365 ATGTTAAACC
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
35 36 0.54
36 8 0.12
37 23 0.34
ACGTcount: A:0.51, C:0.21, G:0.01, T:0.27
Consensus pattern (36 bp):
AAACCTTAAACCCTAAAACTATAAACTATAAATAAT
Found at i:55330464 original size:35 final size:35
Alignment explanation
Indices: 55330354--55330537 Score: 130
Period size: 34 Copynumber: 5.3 Consensus size: 35
55330344 CTCTAAATAA
* * *
55330354 TAAACCCTAAAATGTTAAACCTTAAAACACTAAACCT
1 TAAACCCTAAAA-CTTAAACCAT-AAATACTAAACCT
* * * * * *
55330391 TAAA-CCTCAAAACATGAA-TACAAATACTAAATCA
1 TAAACCCT-AAAACTTAAACCATAAATACTAAACCT
*
55330425 TAAACCCTAAAACTTAAACCATAAATAGTAAACCT
1 TAAACCCTAAAACTTAAACCATAAATACTAAACCT
*
55330460 TAAACCCTAAAAAC--AAACTATAAATACTAAAACCT
1 TAAACCCT-AAAACTTAAACCATAAATACT-AAACCT
* * * *
55330495 TAAACCCT--AATTTAAACCCTAAACAC-AATCCT
1 TAAACCCTAAAACTTAAACCATAAATACTAAACCT
*
55330527 TAAACCTTAAA
1 TAAACCCTAAA
55330538 TATAAATCAT
Statistics
Matches: 114, Mismatches: 24, Indels: 21
0.72 0.15 0.13
Matches are distributed among these distances:
32 14 0.12
34 45 0.39
35 36 0.32
36 11 0.10
37 8 0.07
ACGTcount: A:0.52, C:0.24, G:0.02, T:0.23
Consensus pattern (35 bp):
TAAACCCTAAAACTTAAACCATAAATACTAAACCT
Done.