Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 190 of 207
Found at i:57606504 original size:81 final size:80
Alignment explanation
Indices: 57606263--57606711 Score: 537
Period size: 81 Copynumber: 5.7 Consensus size: 80
57606253 TAAATTTTTG
* *
57606263 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAA
1 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCTTTTAAA
*
57606328 TTTCTGTTCTTC--A
66 TTTCTGTTTTTCAAA
* * *
57606341 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCGTTTAAA
1 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCTTTTAAA
57606406 TTTCTGTTTTTCAAAA
66 TTTCTGTTTTTC-AAA
*
57606422 AAAATCAACTCATAATGAGAGAGGTGAGTTGAGCCTCGAGTCACATGCCGAGGTATTTCTTTTAA
1 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG-GTCACATGCCGAGGTATTTCTTTTAA
57606487 ATTTC-GTATTTTCAAA
65 ATTTCTGT-TTTTCAAA
* * * * *
57606503 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGAGT--CATGTCGAGGTA--T-TTTTCA
1 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG-GTCACATGCCGAGGTATTTCTTTTAA
*
57606563 ATTGCTGTTTTTC---
65 ATTTCTGTTTTTCAAA
* * * *
57606576 AAAATTAACTCATAATGCGAGAGATGAGATGAGCCTCGGGTCACATGCCGAGGTA--TCTTTTCA
1 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCCGAGGTATTTCTTTTAA
*
57606639 ATTTCTGTTTTCCAAA
65 ATTTCTGTTTTTCAAA
* * * * * *
57606655 AAAATCAACTCATAATGCTAAATGTGAGTTGAGCCTCGGGCCACACGCCGAGCTATT
1 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCCGAGGTATT
57606712 CTCGATTTCA
Statistics
Matches: 323, Mismatches: 33, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
73 33 0.10
74 1 0.00
75 12 0.04
76 31 0.10
77 3 0.01
78 73 0.23
79 57 0.18
81 78 0.24
82 35 0.11
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (80 bp):
AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCTTTTAAA
TTTCTGTTTTTCAAA
Found at i:57606928 original size:29 final size:29
Alignment explanation
Indices: 57606879--57607011 Score: 135
Period size: 29 Copynumber: 4.5 Consensus size: 29
57606869 AAAAAATTTG
* *
57606879 CATTTTGACCCCTGAACTTTTCTAAAATTA
1 CATTTTGA-CCCTTAATTTTTCTAAAATTA
* *
57606909 CATTTTGGCCCTTAATTTTTTTTCAAAATTA
1 CATTTTGACCCTTAA-TTTTTCT-AAAATTA
** * *
57606940 CATTTCAACCCTAAACTTTTCT-AAATTA
1 CATTTTGACCCTTAATTTTTCTAAAATTA
*
57606968 CATTTTGACCCTATAATTTCT-TAAAATTA
1 CATTTTGACCCT-TAATTTTTCTAAAATTA
57606997 CATTTTGACCCTTAA
1 CATTTTGACCCTTAA
57607012 ACTTCCTCAA
Statistics
Matches: 84, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
28 20 0.24
29 29 0.35
30 17 0.20
31 18 0.21
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.44
Consensus pattern (29 bp):
CATTTTGACCCTTAATTTTTCTAAAATTA
Found at i:57607026 original size:30 final size:28
Alignment explanation
Indices: 57606879--57607027 Score: 129
Period size: 28 Copynumber: 5.0 Consensus size: 28
57606869 AAAAAATTTG
*
57606879 CATTTTGACCCCTGAACTTTTCTAAAATTA
1 CATTTTGA-CCCTAAACTTTTC-AAAATTA
* **
57606909 CATTTTGGCCCTTAATTTTTTTTCAAAATTA
1 CATTTTGACCC-TAA--ACTTTTCAAAATTA
** *
57606940 CATTTCAACCCTAAACTTTTCTAAATTA
1 CATTTTGACCCTAAACTTTTCAAAATTA
*
57606968 CATTTTGACCCTATAA-TTTCTTAAAATTA
1 CATTTTGACCCTA-AACTTT-TCAAAATTA
*
57606997 CATTTTGACCCTTAAACTTCCTCAAAATTA
1 CATTTTGACCC-TAAACTT-TTCAAAATTA
57607027 C
1 C
57607028 GTTTCGGCCC
Statistics
Matches: 95, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
28 25 0.26
29 25 0.26
30 25 0.26
31 15 0.16
32 5 0.05
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.42
Consensus pattern (28 bp):
CATTTTGACCCTAAACTTTTCAAAATTA
Found at i:57607271 original size:18 final size:18
Alignment explanation
Indices: 57607250--57607306 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
57607240 AACTTGCAAA
57607250 AAAAAGAAAAAGAAGAGG
1 AAAAAGAAAAAGAAGAGG
57607268 AAAAAGGAGAGAAAG-AGAGG
1 AAAAA-GA-A-AAAGAAGAGG
* * *
57607288 AGAAAGGAGAAGAAGAGG
1 AAAAAGAAAAAGAAGAGG
57607306 A
1 A
57607307 GGGCTTCCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 3 0.09
18 12 0.38
19 3 0.09
20 10 0.31
21 4 0.12
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAGAAGAGG
Found at i:57607286 original size:20 final size:21
Alignment explanation
Indices: 57607258--57607297 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
57607248 AAAAAAAGAA
57607258 AAAGAAGAGGAAAAAGGAGAG
1 AAAGAAGAGGAAAAAGGAGAG
*
57607279 AAAG-AGAGGAGAAAGGAGA
1 AAAGAAGAGGAAAAAGGAGA
57607298 AGAAGAGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (21 bp):
AAAGAAGAGGAAAAAGGAGAG
Found at i:57607307 original size:18 final size:18
Alignment explanation
Indices: 57607259--57607307 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
57607249 AAAAAAGAAA
*
57607259 AAGAAGAGGAAAAAGGAG
1 AAGAAGAGGAGAAAGGAG
*
57607277 AGAAAGAGAGGAGAAAGGAG
1 A-AGA-AGAGGAGAAAGGAG
57607297 AAGAAGAGGAG
1 AAGAAGAGGAG
57607308 GGCTTCCGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.31
19 4 0.15
20 14 0.54
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (18 bp):
AAGAAGAGGAGAAAGGAG
Found at i:57607401 original size:10 final size:10
Alignment explanation
Indices: 57607386--57607436 Score: 61
Period size: 10 Copynumber: 5.3 Consensus size: 10
57607376 AGGGTTTCCG
57607386 AAAGAAGAAA
1 AAAGAAGAAA
*
57607396 AAAGAAGGAA
1 AAAGAAGAAA
* *
57607406 GAAGAAGAAG
1 AAAGAAGAAA
57607416 AAAGAA-AAA
1 AAAGAAGAAA
57607425 AAAGAA-AAA
1 AAAGAAGAAA
57607434 AAA
1 AAA
57607437 TTATTATAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
9 14 0.40
10 21 0.60
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (10 bp):
AAAGAAGAAA
Found at i:57607571 original size:19 final size:19
Alignment explanation
Indices: 57607544--57607587 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
57607534 AGCAGCCCAA
*
57607544 AAAGAAAAAAGAAAAG-AAG
1 AAAGCAAAAA-AAAAGAAAG
57607563 AAAGCAAAAAAAAAGAAAG
1 AAAGCAAAAAAAAAGAAAG
57607582 AAAGCA
1 AAAGCA
57607588 GGCCATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.77, C:0.05, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAGCAAAAAAAAAGAAAG
Found at i:57607711 original size:10 final size:9
Alignment explanation
Indices: 57607695--57607790 Score: 68
Period size: 9 Copynumber: 9.7 Consensus size: 9
57607685 CAGGCCGAAG
57607695 AAAAAAAGA
1 AAAAAAAGA
57607704 AAAGAAAA-A
1 AAA-AAAAGA
57607713 AGAAAAAAGGA
1 A-AAAAAA-GA
57607724 GAAAAAAAGA
1 -AAAAAAAGA
57607734 AGAAAAAAGAAA
1 A-AAAAAAG--A
57607746 AAAAAAAGA
1 AAAAAAAGA
*
57607755 AAAAAAGGAGG
1 AAAAAA--AGA
*
57607766 AAAAAAGGA
1 AAAAAAAGA
*
57607775 GGAAAAAAGA
1 -AAAAAAAGA
57607785 AAAAAA
1 AAAAAA
57607791 GAGGTTCAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 22
0.71 0.06 0.22
Matches are distributed among these distances:
9 23 0.33
10 22 0.31
11 22 0.31
12 3 0.04
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:57607729 original size:11 final size:11
Alignment explanation
Indices: 57607715--57607783 Score: 74
Period size: 11 Copynumber: 6.6 Consensus size: 11
57607705 AAGAAAAAAG
57607715 AAAAAAGGAGA
1 AAAAAAGGAGA
*
57607726 AAAAAAGAAG-
1 AAAAAAGGAGA
57607736 AAAAAA-GA-A
1 AAAAAAGGAGA
*
57607745 AAAAAA-AAGA
1 AAAAAAGGAGA
*
57607755 AAAAAAGGAGG
1 AAAAAAGGAGA
*
57607766 AAAAAAGGAGG
1 AAAAAAGGAGA
57607777 AAAAAAG
1 AAAAAAG
57607784 AAAAAAAGAG
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
9 8 0.16
10 13 0.26
11 29 0.58
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AAAAAAGGAGA
Found at i:57607729 original size:30 final size:28
Alignment explanation
Indices: 57607693--57607772 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 28
57607683 AGCAGGCCGA
57607693 AGAAAAAAAGAAAAGAAAAAAGAAAAAAGG
1 AGAAAAAAAG--AAGAAAAAAGAAAAAAGG
**
57607723 AGAAAAAAAGAAGAAAAAAGAAAAAAAAA
1 AGAAAAAAAGAAGAAAAAAG-AAAAAAGG
*
57607752 AGAAAAAAAGGAGGAAAAAAG
1 AGAAAAAAA-GAAGAAAAAAG
57607773 GAGGAAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
28 10 0.22
29 15 0.33
30 20 0.44
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (28 bp):
AGAAAAAAAGAAGAAAAAAGAAAAAAGG
Found at i:57607760 original size:41 final size:40
Alignment explanation
Indices: 57607691--57607790 Score: 148
Period size: 41 Copynumber: 2.5 Consensus size: 40
57607681 GAAGCAGGCC
57607691 GAAGAAAAAAAGAAAAGAAAAAAGAAAAAAGGA-GAAAAAAA
1 GAAG-AAAAAAGAAAA-AAAAAAGAAAAAAGGAGGAAAAAAA
*
57607732 GAAGAAAAAAGAAAAAAAAAAGAAAAAAAGGAGGAAAAAAG
1 GAAGAAAAAAGAAAAAAAAAAG-AAAAAAGGAGGAAAAAAA
*
57607773 GAGGAAAAAAGAAAAAAA
1 GAAGAAAAAAGAAAAAAA
57607791 GAGGTTCAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
39 7 0.13
40 20 0.36
41 28 0.51
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (40 bp):
GAAGAAAAAAGAAAAAAAAAAGAAAAAAGGAGGAAAAAAA
Found at i:57607962 original size:16 final size:16
Alignment explanation
Indices: 57607941--57607978 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
57607931 GCATTTATGT
57607941 TTTTAA-TTTAATTTAA
1 TTTTAATTTTAATTT-A
57607957 TTTTAATTTTAATTTA
1 TTTTAATTTTAATTTA
57607973 TTTTAA
1 TTTTAA
57607979 ATACTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAATTTTAATTTA
Found at i:57608164 original size:19 final size:20
Alignment explanation
Indices: 57608142--57608184 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
57608132 TATATTTTGC
57608142 AAAA-TTTT-TCGTGTCTTCA
1 AAAATTTTTCTCGTGT-TTCA
57608161 AAAATTTTTCTCGTGTTTCA
1 AAAATTTTTCTCGTGTTTCA
57608181 AAAA
1 AAAA
57608185 AATATTCGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.18
20 12 0.55
21 6 0.27
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (20 bp):
AAAATTTTTCTCGTGTTTCA
Found at i:57608365 original size:19 final size:21
Alignment explanation
Indices: 57608320--57608366 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
57608310 AAAATTTGTG
*
57608320 TAAAAAAATCTTTCTGTGGTT
1 TAAAAAAATCATTCTGTGGTT
* *
57608341 TCAAAAAA-CATTC-GTGTTT
1 TAAAAAAATCATTCTGTGGTT
57608360 TAAAAAA
1 TAAAAAA
57608367 TAAAATAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 11 0.50
20 4 0.18
21 7 0.32
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (21 bp):
TAAAAAAATCATTCTGTGGTT
Found at i:57608565 original size:22 final size:23
Alignment explanation
Indices: 57608523--57608566 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
57608513 CGGTGTTTCC
*
57608523 AAAATTTTCATGTTTTCAAAATA
1 AAAATTCTCATGTTTTCAAAATA
*
57608546 AAAATTCTCGTGTTTT-AAAAT
1 AAAATTCTCATGTTTTCAAAAT
57608567 TTTTGCGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (23 bp):
AAAATTCTCATGTTTTCAAAATA
Found at i:57608592 original size:127 final size:129
Alignment explanation
Indices: 57608428--57608692 Score: 317
Period size: 127 Copynumber: 2.1 Consensus size: 129
57608418 AAAAAATTAT
* * * *
57608428 TTTTCAAAATTTTTCGTGTTTTTAAAAAATTCTCGTGTTTTCAAAAACCTTCGTGTTTTAAAAAA
1 TTTTCAAAATTTTTCGCGTTTTAAAAAAAATCTCGTGTTTTCAAAAACCATCGTGTTTTAAAAAA
* * * *
57608493 -TCTTCGTGTTTTCAA-GATTTCGGTGTTTCCAAAATTTTCATGTTTTCAAAATAAAAATTCTCG
66 TTC-TCGTG-TTTCAATAATTACGGTGTTTCAAAAATTTCCATGTTTTCAAAA-AAAAATTCTCG
57608556 TG
128 TG
* *
57608558 TTTT-AAAATTTTT-GCGTTTTAAAAAAAAT-TCGTGTTTTCAAAAATCATCGTGTTTTTAAAAA
1 TTTTCAAAATTTTTCGCGTTTTAAAAAAAATCTCGTGTTTTCAAAAACCATCGTGTTTTAAAAAA
* * * * *
57608620 TTCTGGTGTTTCAATAATTACTGTGTTTTAAAAATTTCCGTGTTTTCAAAAAAAAA-TCTTCGTA
66 TTCTCGTGTTTCAATAATTACGGTGTTTCAAAAATTTCCATGTTTTCAAAAAAAAATTC-TCGTG
57608684 TTTTCAAAA
1 TTTTCAAAA
57608693 AAAATTGTGT
Statistics
Matches: 116, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
125 2 0.02
126 19 0.16
127 67 0.58
128 15 0.13
129 9 0.08
130 4 0.03
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (129 bp):
TTTTCAAAATTTTTCGCGTTTTAAAAAAAATCTCGTGTTTTCAAAAACCATCGTGTTTTAAAAAA
TTCTCGTGTTTCAATAATTACGGTGTTTCAAAAATTTCCATGTTTTCAAAAAAAAATTCTCGTG
Found at i:57608600 original size:17 final size:17
Alignment explanation
Indices: 57608440--57608912 Score: 143
Period size: 18 Copynumber: 26.1 Consensus size: 17
57608430 TTCAAAATTT
*
57608440 TTCGTGTTTTTAAAAAA
1 TTCGTGTTTTCAAAAAA
*
57608457 TTCTCGTGTTTTCAAAAACC
1 -T-TCGTGTTTTCAAAAA-A
57608477 TTCGTGTTTT-AAAAAA
1 TTCGTGTTTTCAAAAAA
* *
57608493 TCTTCGTGTTTTC-AAGAT
1 --TTCGTGTTTTCAAAAAA
* **
57608511 TTCGGTGTTTCCAAAATT
1 TTC-GTGTTTTCAAAAAA
*
57608529 TTCATGTTTTCAAAATAAAAA
1 TTCGTGTTTTC---A-AAAAA
**
57608550 TTCTCGTGTTTT-AAAATT
1 -T-TCGTGTTTTCAAAAAA
* * *
57608568 TTTGCGTTTTAAAAAAAA
1 TTCGTGTTTT-CAAAAAA
57608586 TTCGTGTTTTC-AAAAA
1 TTCGTGTTTTCAAAAAA
*
57608602 TCATCGTGTTTT-TAAAAA
1 T--TCGTGTTTTCAAAAAA
*
57608620 TTC-TGGTGTTTC-AATAA
1 TTCGT-GT-TTTCAAAAAA
*
57608637 TTACTGTGTTTT-AAAAAT
1 TT-C-GTGTTTTCAAAAAA
57608655 TTCCGTGTTTTCAAAAAAAAA
1 TT-CGTGTTTTC---AAAAAA
*
57608676 TCTTCGTATTTTCAAAAAAAA
1 --TTCGTGTTTTC--AAAAAA
57608697 TT-GTG-TTTC-AAAAA
1 TTCGTGTTTTCAAAAAA
*
57608711 TCCTCGTGTTTTCAAAAAT
1 T--TCGTGTTTTCAAAAAA
* *
57608730 TTCG-GTGTTTCAAAGAT
1 TTCGTGT-TTTCAAAAAA
57608747 TTCGTGTTTTC-AAAAA
1 TTCGTGTTTTCAAAAAA
*
57608763 TTCCGGTGATTTTAAAAAAAAAA
1 TT-C-GTG-TTTT---CAAAAAA
57608786 TTCGTGTTTTCTAAAAAAAAA
1 TTCGTGTTTTC----AAAAAA
*
57608807 TTCGTG-TTTCAAAAATT
1 TTCGTGTTTTCAAAAA-A
*
57608824 TTCATGTTTTCAAAAAA
1 TTCGTGTTTTCAAAAAA
**
57608841 TTCCCGTG-TTTCACAAATG
1 TT--CGTGTTTTCA-AAAAA
**
57608860 TTCGTGTTTT-AAAATT
1 TTCGTGTTTTCAAAAAA
* *
57608876 TTTGTGTTTTGAAAAAAA
1 TTCGTGTTTT-CAAAAAA
57608894 TTC-TCGTGTTTCAAAAAA
1 TTCGT-GT-TTTCAAAAAA
57608912 T
1 T
57608913 GTTGTGTTGT
Statistics
Matches: 349, Mismatches: 47, Indels: 118
0.68 0.09 0.23
Matches are distributed among these distances:
14 6 0.02
15 1 0.00
16 46 0.13
17 76 0.22
18 112 0.32
19 40 0.11
20 10 0.03
21 31 0.09
22 10 0.03
23 17 0.05
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (17 bp):
TTCGTGTTTTCAAAAAA
Found at i:57608697 original size:21 final size:22
Alignment explanation
Indices: 57608649--57608696 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
57608639 ACTGTGTTTT
*
57608649 AAAAATTTCCGTGTTTTCAAAA
1 AAAAATTTCCGTATTTTCAAAA
57608671 AAAAATCTT-CGTATTTTCAAAA
1 AAAAAT-TTCCGTATTTTCAAAA
57608693 AAAA
1 AAAA
57608697 TTGTGTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (22 bp):
AAAAATTTCCGTATTTTCAAAA
Found at i:57608710 original size:127 final size:127
Alignment explanation
Indices: 57608445--57608780 Score: 292
Period size: 127 Copynumber: 2.6 Consensus size: 127
57608435 AATTTTTCGT
* * * * *
57608445 GTTTTTAAAAAATTCTCGTGTTTTCAAAAACCTTCGTGTTTTAAAAAATCTTCGTGTTTTCAAGA
1 GTTTTAAAAAAAAT-TCGTGTTTTCAAAAATCATCGTGTTTTAAAAAATCTTCGTGTTTTCAAAA
* * * * ***
57608510 TTTCGGTGTTTCCAAAATTTTCATGTTTTCAAAATAAAAATTCTCGTGTTTTAAAATTTTTGC
65 TTACGGTGTTTCAAAAATTTCCATGTTTTCAAAATAAAAATTCTCGTATTTTAAAAAAATTGC
* *
57608573 GTTTTAAAAAAAATTCGTGTTTTCAAAAATCATCGTGTTTTTAAAAAT-TCTGGTG-TTTCAATA
1 GTTTTAAAAAAAATTCGTGTTTTCAAAAATCATCGTGTTTTAAAAAATCT-TCGTGTTTTCAA-A
* * *
57608636 ATTACTGTGTTTTAAAAATTTCCGTGTTTTCAAAA-AAAAA-TCTTCGTATTTTCAAAAAAAATT
64 ATTACGGTGTTTCAAAAATTTCCATGTTTTCAAAATAAAAATTC-TCGTATTTT--AAAAAAATT
*
57608699 GT
126 GC
* *** * * *
57608701 G-TTTCAAAAATCCTCGTGTTTTCAAAAAT-TTCG-GTGTTTCAAAGAT-TTCGTGTTTTCAAAA
1 GTTTTAAAAAAAATTCGTGTTTTCAAAAATCATCGTGT-TTTAAAAAATCTTCGTGTTTTC-AAA
* *
57608762 ATTCCGGTGATTTTAAAAA
64 ATTACGGTG-TTTCAAAAA
57608781 AAAAATTCGT
Statistics
Matches: 171, Mismatches: 28, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
125 8 0.05
126 44 0.26
127 99 0.58
128 20 0.12
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (127 bp):
GTTTTAAAAAAAATTCGTGTTTTCAAAAATCATCGTGTTTTAAAAAATCTTCGTGTTTTCAAAAT
TACGGTGTTTCAAAAATTTCCATGTTTTCAAAATAAAAATTCTCGTATTTTAAAAAAATTGC
Found at i:57608770 original size:34 final size:35
Alignment explanation
Indices: 57608581--57608780 Score: 133
Period size: 35 Copynumber: 5.6 Consensus size: 35
57608571 GCGTTTTAAA
* *
57608581 AAAAATT-C-GTGTTTTCAAAAATCATCGTGTTTTT
1 AAAAATTCCGGTG-TTTCAAAAATCCTCGTGTTTTC
* * *
57608615 AAAAATTCTGGTGTTTCAATAATTACT-GTGTTTT-
1 AAAAATTCCGGTGTTTCAA-AAATCCTCGTGTTTTC
* *
57608649 AAAAATTTCC-GTGTTTTCAAAAAAAAATCTTCGTATTTTC
1 AAAAA-TTCCGGTG-TTTC----AAAAATCCTCGTGTTTTC
*****
57608689 AAAAAAAATTGTGTTTCAAAAATCCTCGTGTTTTC
1 AAAAATTCCGGTGTTTCAAAAATCCTCGTGTTTTC
* * *
57608724 AAAAATTTCGGTGTTTCAAAGAT-TTCGTGTTTTC
1 AAAAATTCCGGTGTTTCAAAAATCCTCGTGTTTTC
*
57608758 AAAAATTCCGGTGATTTTAAAAA
1 AAAAATTCCGGTG-TTTCAAAAA
57608781 AAAAATTCGT
Statistics
Matches: 128, Mismatches: 25, Indels: 25
0.72 0.14 0.14
Matches are distributed among these distances:
34 37 0.29
35 60 0.47
36 7 0.05
38 4 0.03
39 12 0.09
40 8 0.06
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (35 bp):
AAAAATTCCGGTGTTTCAAAAATCCTCGTGTTTTC
Found at i:57608795 original size:20 final size:20
Alignment explanation
Indices: 57608758--57608821 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
57608748 TCGTGTTTTC
57608758 AAAAATTCCGGTGATTTTAAAAA
1 AAAAATT-C-GTG-TTTTAAAAA
*
57608781 AAAAATTCGTGTTTTCTAAAA
1 AAAAATTCGTGTTTT-AAAAA
*
57608802 AAAAATTCGTGTTTCAAAAA
1 AAAAATTCGTGTTTTAAAAA
57608822 TTTTCATGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.22
21 21 0.57
22 1 0.03
23 7 0.19
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (20 bp):
AAAAATTCGTGTTTTAAAAA
Found at i:57608894 original size:53 final size:53
Alignment explanation
Indices: 57608807--57608926 Score: 145
Period size: 53 Copynumber: 2.3 Consensus size: 53
57608797 TAAAAAAAAA
* * *
57608807 TTCGTGTTTCAAAAATTTTCATGTTTTCAAAAAATTCCCGTGTTTC-ACAAATG
1 TTCGTGTTT-TAAAATTTTCATGTTTTAAAAAAATTCCCGTGTTTCAAAAAATG
** *
57608860 TTCGTGTTTTAAAATTTTTGTGTTTTGAAAAAAATTCTCGTGTTTCAAAAAATG
1 TTCGTGTTTTAAAATTTTCATGTTTT-AAAAAAATTCCCGTGTTTCAAAAAATG
*
57608914 TT-GTGTTGTAAAA
1 TTCGTGTTTTAAAA
57608927 AAGAATTTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
52 14 0.24
53 36 0.62
54 8 0.14
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (53 bp):
TTCGTGTTTTAAAATTTTCATGTTTTAAAAAAATTCCCGTGTTTCAAAAAATG
Found at i:57608957 original size:37 final size:35
Alignment explanation
Indices: 57608855--57608957 Score: 100
Period size: 37 Copynumber: 2.8 Consensus size: 35
57608845 CGTGTTTCAC
* *
57608855 AAATGTTCGTGTTT-TAAAATTTTTGTGTTTTGAAAA
1 AAAT-TTCGTGTTTCTAAAA-TTTTGTGTTGTAAAAA
* *
57608891 AAATTCTCGTGTTTCAAAAAATGTTGTGTTGTAAAAA
1 AAATT-TCGTGTTTC-TAAAATTTTGTGTTGTAAAAA
*
57608928 AGAATTTCGTGTTTCTAAAGTTTTCGTGTT
1 A-AATTTCGTGTTTCTAAAATTTT-GTGTT
57608958 TCAAAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
35 1 0.02
36 18 0.33
37 28 0.51
38 8 0.15
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (35 bp):
AAATTTCGTGTTTCTAAAATTTTGTGTTGTAAAAA
Found at i:57608964 original size:37 final size:34
Alignment explanation
Indices: 57608855--57608964 Score: 96
Period size: 36 Copynumber: 3.0 Consensus size: 34
57608845 CGTGTTTCAC
*
57608855 AAATGTTCGTGTTT-TAAAATTTTTGTGTTTTGAAAA
1 AAAT-TTCGTGTTTCTAAAA-TTTTGTG-TTTAAAAA
* *
57608891 AAATTCTCGTGTTTCAAAAAATGTTGTGTTGTAAAAA
1 AAATT-TCGTGTTTC-TAAAATTTTGTGTT-TAAAAA
* *
57608928 AGAATTTCGTGTTTCTAAAGTTTTCGTGTTTCAAAA
1 A-AATTTCGTGTTTCTAAAATTTT-GTGTTTAAAAA
57608964 A
1 A
57608965 TTTTGTTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
35 1 0.02
36 26 0.43
37 26 0.43
38 8 0.13
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (34 bp):
AAATTTCGTGTTTCTAAAATTTTGTGTTTAAAAA
Found at i:57608968 original size:17 final size:17
Alignment explanation
Indices: 57608429--57608968 Score: 146
Period size: 17 Copynumber: 29.8 Consensus size: 17
57608419 AAAAATTATT
*
57608429 TTTCAAAATTTTTCGTG
1 TTTCAAAAATTTTCGTG
* *
57608446 TTTTTAAAAAATTCTCGTG
1 --TTTCAAAAATTTTCGTG
**
57608465 TTTTCAAAAACCTTCGTG
1 -TTTCAAAAATTTTCGTG
* *
57608483 TTTTAAAAAATCTTCGTG
1 -TTTCAAAAATTTTCGTG
*
57608501 TTTTC-AAGA-TTTCGGTG
1 -TTTCAAAAATTTTC-GTG
* *
57608518 TTTCCAAAATTTTCATG
1 TTTCAAAAATTTTCGTG
*
57608535 TTTTCAAAATAAAAATTCTCGTG
1 -TTTC-----AAAAATTTTCGTG
* *
57608558 TTTTAAAATTTTTGCGT-
1 TTTCAAAAATTTT-CGTG
* **
57608575 TTTAAAAAAAATTCGTG
1 TTTCAAAAATTTTCGTG
**
57608592 TTTTCAAAAATCATCGTG
1 -TTTCAAAAATTTTCGTG
* * *
57608610 TTTTTAAAAATTCTGGTG
1 -TTTCAAAAATTTTCGTG
* *
57608628 TTTCAATAA-TTACTGTG
1 TTTCAAAAATTTTC-GTG
* *
57608645 TTTTAAAAATTTCCGTG
1 TTTCAAAAATTTTCGTG
* *
57608662 TTTTCAAAAAAAAATCTTCGTAT
1 -TTTC----AAAAATTTTCGT-G
**
57608685 TTTCAAAAAAAATT-GTG
1 TTTC-AAAAATTTTCGTG
**
57608702 TTTCAAAAATCCTCGTG
1 TTTCAAAAATTTTCGTG
57608719 TTTTCAAAAA-TTTCGGTG
1 -TTTCAAAAATTTTC-GTG
*
57608737 TTTCAAAGA-TTTCGTG
1 TTTCAAAAATTTTCGTG
*
57608753 TTTTCAAAAA-TTCCGGTG
1 -TTTCAAAAATTTTC-GTG
* **
57608771 ATTTTAAAAAAAAAATTCGTG
1 --TTT--CAAAAATTTTCGTG
**
57608792 TTTTCTAAAAAAAAATTCGTG
1 -TTTC---AAAAATTTTCGTG
*
57608813 TTTCAAAAATTTTCATG
1 TTTCAAAAATTTTCGTG
**
57608830 TTTTCAAAAAATTCCCGTG
1 -TTTC-AAAAATTTTCGTG
* *
57608849 TTTCACAAATGTTCGTG
1 TTTCAAAAATTTTCGTG
* *
57608866 TTT-TAAAATTTTTGTG
1 TTTCAAAAATTTTCGTG
* *
57608882 TTTTGAAAAAAATTCTCGTG
1 -TTT--CAAAAATTTTCGTG
*
57608902 TTTCAAAAAATGTT-GTG
1 TTTC-AAAAATTTTCGTG
* *
57608919 TTGTAAAAAAGAATTTCGTG
1 TT-T-CAAAA-ATTTTCGTG
* *
57608939 TTTCTAAAGTTTTCGTG
1 TTTCAAAAATTTTCGTG
57608956 TTTCAAAAATTTT
1 TTTCAAAAATTTT
57608969 GTTTTTTTTT
Statistics
Matches: 390, Mismatches: 88, Indels: 88
0.69 0.16 0.16
Matches are distributed among these distances:
16 29 0.07
17 127 0.33
18 118 0.30
19 43 0.11
20 23 0.06
21 21 0.05
22 19 0.05
23 10 0.03
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.43
Consensus pattern (17 bp):
TTTCAAAAATTTTCGTG
Found at i:57611835 original size:21 final size:20
Alignment explanation
Indices: 57611779--57611835 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
57611769 CTTTAAACCT
*
57611779 TTTGGGTTCATGATTTAAGA
1 TTTGGGTTCAAGATTTAAGA
* * *
57611799 TTTGAGTTTTAGGATTTAAGA
1 TTTG-GGTTCAAGATTTAAGA
57611820 TTTGGGATTCAAGATT
1 TTTGGG-TTCAAGATT
57611836 CAAAGCAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.26, C:0.04, G:0.25, T:0.46
Consensus pattern (20 bp):
TTTGGGTTCAAGATTTAAGA
Found at i:57613190 original size:30 final size:30
Alignment explanation
Indices: 57613123--57613255 Score: 103
Period size: 30 Copynumber: 4.4 Consensus size: 30
57613113 AACAAAAAAA
* *
57613123 TATAAATTACATTTT-AGCCCATGATCTTTTC
1 TATAAATTACATTTTGACCCCA--AACTTTTC
* *
57613154 -AAAAATTATATTTTGACCCCAAACTTTTC
1 TATAAATTACATTTTGACCCCAAACTTTTC
* *
57613183 TATAAATTACATTTTAACCCTGAAA-TTTTC
1 TATAAATTACATTTTGACCC-CAAACTTTTC
* * *
57613213 TTTAAATTACACTTTGACCCCTTAAC-TTTC
1 TATAAATTACATTTTGACCCC-AAACTTTTC
* *
57613243 CAGAAATTACATT
1 TATAAATTACATT
57613256 ATAGCCCTAT
Statistics
Matches: 80, Mismatches: 17, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
29 7 0.09
30 65 0.81
31 8 0.10
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (30 bp):
TATAAATTACATTTTGACCCCAAACTTTTC
Found at i:57613220 original size:60 final size:60
Alignment explanation
Indices: 57613123--57613255 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 60
57613113 AACAAAAAAA
* ** * *
57613123 TATAAATTACATTTTAGCCCATGATCTTTTCAAAAATTATATTTTGACCCC-AAACTTTTC
1 TATAAATTACATTTTAACCCATGAAATTTTCAAAAATTACACTTTGACCCCTAAAC-TTTC
** *
57613183 TATAAATTACATTTTAACCC-TGAAATTTTCTTTAAATTACACTTTGACCCCTTAACTTTC
1 TATAAATTACATTTTAACCCATGAAATTTTC-AAAAATTACACTTTGACCCCTAAACTTTC
* *
57613243 CAGAAATTACATT
1 TATAAATTACATT
57613256 ATAGCCCTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
59 8 0.13
60 50 0.82
61 3 0.05
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (60 bp):
TATAAATTACATTTTAACCCATGAAATTTTCAAAAATTACACTTTGACCCCTAAACTTTC
Found at i:57613821 original size:4 final size:4
Alignment explanation
Indices: 57613814--57613869 Score: 73
Period size: 4 Copynumber: 14.5 Consensus size: 4
57613804 ACGGAGAAGG
*
57613814 AAGA AAGA AAGA AAGA AA-A AAGA AAG- AAGA AAAA AAGA AAGA AA-A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
57613859 AAGGA AAGA AA
1 AA-GA AAGA AA
57613870 AAAAATAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
3 9 0.20
4 34 0.74
5 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:57613835 original size:15 final size:14
Alignment explanation
Indices: 57613817--57613874 Score: 75
Period size: 15 Copynumber: 4.1 Consensus size: 14
57613807 GAGAAGGAAG
57613817 AAAGAAAGAAAGAAA
1 AAAGAAAGAAA-AAA
57613832 AAAGAAAGAAGAAAA
1 AAAGAAAGAA-AAAA
57613847 AAAGAAAG--AAAA
1 AAAGAAAGAAAAAA
*
57613859 AAGGAAAGAAAAAA
1 AAAGAAAGAAAAAA
57613873 AA
1 AA
57613875 TAAAAAAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 11 0.28
14 6 0.15
15 21 0.54
16 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAAAA
Found at i:57613870 original size:12 final size:12
Alignment explanation
Indices: 57613810--57613872 Score: 67
Period size: 12 Copynumber: 5.2 Consensus size: 12
57613800 CTGAACGGAG
57613810 AAGG-AAGAAAGA
1 AAGGAAAGAAA-A
57613822 AA-GAAAGAAAA
1 AAGGAAAGAAAA
*
57613833 AAGAAAGAAGAAAA
1 AAG-GA-AAGAAAA
*
57613847 AAAGAAAGAAAA
1 AAGGAAAGAAAA
57613859 AAGGAAAGAAAA
1 AAGGAAAGAAAA
57613871 AA
1 AA
57613873 AATAAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
11 4 0.09
12 28 0.65
13 2 0.05
14 9 0.21
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAGGAAAGAAAA
Found at i:57613872 original size:26 final size:26
Alignment explanation
Indices: 57613808--57613874 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
57613798 TGCTGAACGG
* *
57613808 AGAAGGAAGAAAGAAAGAAAGAAAAA
1 AGAAAGAAGAAAAAAAGAAAGAAAAA
57613834 AGAAAGAAGAAAAAAAGAAAGAAAAA
1 AGAAAGAAGAAAAAAAGAAAGAAAAA
57613860 AGGAAAGAA-AAAAAA
1 A-GAAAGAAGAAAAAA
57613875 TAAAAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 31 0.82
27 7 0.18
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (26 bp):
AGAAAGAAGAAAAAAAGAAAGAAAAA
Found at i:57614571 original size:20 final size:21
Alignment explanation
Indices: 57614537--57614576 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
57614527 AAAATGTTCG
*
57614537 AAATTCCTCGTGTTTAAATAA
1 AAATTCCTCGCGTTTAAATAA
*
57614558 AAATT-CTCGCGTTTTAATA
1 AAATTCCTCGCGTTTAAATA
57614577 GAATCCCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (21 bp):
AAATTCCTCGCGTTTAAATAA
Found at i:57616480 original size:59 final size:59
Alignment explanation
Indices: 57616408--57616523 Score: 232
Period size: 59 Copynumber: 2.0 Consensus size: 59
57616398 TAGAAAAATG
57616408 AAAAGTCAAAACATCACAGTTCCGTTTTAAAAATATACATATTGAATACGAGTTTTTAA
1 AAAAGTCAAAACATCACAGTTCCGTTTTAAAAATATACATATTGAATACGAGTTTTTAA
57616467 AAAAGTCAAAACATCACAGTTCCGTTTTAAAAATATACATATTGAATACGAGTTTTT
1 AAAAGTCAAAACATCACAGTTCCGTTTTAAAAATATACATATTGAATACGAGTTTTT
57616524 GAACCTGTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (59 bp):
AAAAGTCAAAACATCACAGTTCCGTTTTAAAAATATACATATTGAATACGAGTTTTTAA
Found at i:57617383 original size:25 final size:26
Alignment explanation
Indices: 57617355--57617413 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 26
57617345 TAAAATAATT
*
57617355 ATATAAAAAATTTTAATAA-ATAAAA
1 ATATAAAAAATTTAAATAATATAAAA
*
57617380 ATAT--TAAA-TTAAATAATATAAAA
1 ATATAAAAAATTTAAATAATATAAAA
*
57617403 ATGTAAAAAAT
1 ATATAAAAAAT
57617414 AATATGGGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
22 7 0.27
23 12 0.46
25 7 0.27
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (26 bp):
ATATAAAAAATTTAAATAATATAAAA
Found at i:57619039 original size:20 final size:19
Alignment explanation
Indices: 57619007--57619068 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
57618997 TTAAGCAATT
57619007 TATA-AAATT-TAATTAGAA
1 TATATAAATTATAATTA-AA
57619025 TATATAAATTATAATTTAAA
1 TATATAAATTATAA-TTAAA
*
57619045 TATTTAAATATAATAATTAAA
1 TATATAAAT-T-ATAATTAAA
57619066 TAT
1 TAT
57619069 TAACACATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 4 0.11
19 5 0.13
20 13 0.34
21 12 0.32
22 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TATATAAATTATAATTAAA
Found at i:57623568 original size:22 final size:20
Alignment explanation
Indices: 57623516--57623570 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
57623506 AACTTAATCC
*
57623516 ATATAATATGAA-TTTATGT
1 ATATAATATAAATTTTATGT
*
57623535 ATATATTA-AAATTTTATGT
1 ATATAATATAAATTTTATGT
57623554 AATATAAATATAAATTT
1 -ATAT-AATATAAATTT
57623571 AATTAAATCC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 2 0.07
19 14 0.48
20 4 0.14
21 3 0.10
22 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
ATATAATATAAATTTTATGT
Found at i:57624268 original size:21 final size:20
Alignment explanation
Indices: 57624212--57624268 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
57624202 CTTTAAACCT
*
57624212 TTTGGGTTCATGATTTAAGA
1 TTTGGGTTCAAGATTTAAGA
* * *
57624232 TTTGAGTTTTAGGATTTAAGA
1 TTTG-GGTTCAAGATTTAAGA
57624253 TTTGGGATTCAAGATT
1 TTTGGG-TTCAAGATT
57624269 CAAAGCAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.26, C:0.04, G:0.25, T:0.46
Consensus pattern (20 bp):
TTTGGGTTCAAGATTTAAGA
Found at i:57627027 original size:30 final size:30
Alignment explanation
Indices: 57626993--57627094 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
57626983 TTAAAAATAA
*
57626993 AAATTGCATTTTGACCCCTAAA-TTT-TTCCT
1 AAATTTCATTTTGACCCCTAAACTTTCTT--T
*
57627023 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
* * *
57627053 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
57627083 AAATTTCATTTT
1 AAATTTCATTTT
57627095 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
30 57 0.92
31 3 0.05
32 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCTTT
Found at i:57627625 original size:4 final size:4
Alignment explanation
Indices: 57627616--57627693 Score: 58
Period size: 4 Copynumber: 20.5 Consensus size: 4
57627606 CTGATCGGGG
* * * *
57627616 AGAA AGAA AGGA AGAA AAAGA AGAA GGAA AG-A AGAA AAAA AGAA AGAA
1 AGAA AGAA AGAA AGAA AGA-A AGAA AGAA AGAA AGAA AGAA AGAA AGAA
* *
57627664 A-AA A-AG AGAA AG-A A-AA AGAA AGAA AAAA AG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
57627694 TAATTAAAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
3 12 0.21
4 42 0.74
5 3 0.05
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:57627637 original size:14 final size:14
Alignment explanation
Indices: 57627618--57627693 Score: 59
Period size: 14 Copynumber: 5.3 Consensus size: 14
57627608 GATCGGGGAG
57627618 AAAGAAAGGAAGAA
1 AAAGAAAGGAAGAA
57627632 AAAGAAGAAGGAAAGAA
1 AAAG-A-AAGG-AAGAA
* *
57627649 GAAAAAAAGAAAGAA
1 -AAAGAAAGGAAGAA
*
57627664 AAA-AAGAGAAAGAA
1 AAAGAA-AGGAAGAA
57627678 AAAGAAA-GAA-AA
1 AAAGAAAGGAAGAA
57627690 AAAG
1 AAAG
57627694 TAATTAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
12 6 0.11
13 4 0.08
14 19 0.36
15 8 0.15
16 7 0.13
17 6 0.11
18 3 0.06
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAAGAAAGGAAGAA
Found at i:57627641 original size:12 final size:11
Alignment explanation
Indices: 57627630--57627693 Score: 67
Period size: 12 Copynumber: 5.5 Consensus size: 11
57627620 AGAAAGGAAG
57627630 AAAAAGAAGAA
1 AAAAAGAAGAA
**
57627641 GGAAAGAAGAA
1 AAAAAGAAGAA
57627652 AAAAAGAAAGAA
1 AAAAAG-AAGAA
57627664 AAAAAG-AGAAA
1 AAAAAGAAG-AA
57627675 GAAAAAGAAAGAA
1 -AAAAAG-AAGAA
57627688 AAAAAG
1 AAAAAG
57627694 TAATTAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
10 2 0.05
11 15 0.34
12 23 0.52
13 2 0.05
14 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AAAAAGAAGAA
Found at i:57627647 original size:8 final size:7
Alignment explanation
Indices: 57627619--57627687 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 7
57627609 ATCGGGGAGA
57627619 AAGAAAGG
1 AAGAAA-G
57627627 AAGAAA-
1 AAGAAAG
57627633 AAG-AAG
1 AAGAAAG
57627639 AAGGAAAG
1 AA-GAAAG
*
57627647 AAGAAAAA
1 AAG-AAAG
57627655 AAGAAAG
1 AAGAAAG
57627662 AA-AAA-
1 AAGAAAG
*
57627667 AAGAGA-
1 AAGAAAG
57627673 AAGAAA-
1 AAGAAAG
57627679 AAGAAAG
1 AAGAAAG
57627686 AA
1 AA
57627688 AAAAAGTAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
5 4 0.08
6 21 0.41
7 9 0.18
8 17 0.33
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (7 bp):
AAGAAAG
Found at i:57627648 original size:11 final size:11
Alignment explanation
Indices: 57627616--57627688 Score: 73
Period size: 10 Copynumber: 6.8 Consensus size: 11
57627606 CTGATCGGGG
57627616 AGAAAGAAAGGA
1 AGAAAGAAA-GA
57627628 AG-AA-AAAGA
1 AGAAAGAAAGA
*
57627637 AGAAGGAAAGA
1 AGAAAGAAAGA
*
57627648 AGAAAAAAAGAA
1 AGAAAGAAAG-A
*
57627660 AGAAAAAAAG-
1 AGAAAGAAAGA
57627670 AGAAAGAAA-A
1 AGAAAGAAAGA
57627680 AGAAAGAAA
1 AGAAAGAAA
57627689 AAAAGTAATT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
9 4 0.08
10 21 0.40
11 15 0.28
12 13 0.25
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAGA
Found at i:57627659 original size:36 final size:34
Alignment explanation
Indices: 57627618--57627693 Score: 95
Period size: 33 Copynumber: 2.2 Consensus size: 34
57627608 GATCGGGGAG
*
57627618 AAAGAAAGGAAGAAAAAGAAGAAGGAAAGAAGAAA-A
1 AAAGAAAGGAA-AAAAAG-AGAAAGAAA-AAGAAAGA
57627654 AAAGAAA-GAAAAAAAGAGAAAGAAAAAGAAAGA
1 AAAGAAAGGAAAAAAAGAGAAAGAAAAAGAAAGA
57627687 AAA-AAAG
1 AAAGAAAG
57627694 TAATTAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
32 9 0.24
33 12 0.32
34 6 0.16
35 3 0.08
36 7 0.19
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (34 bp):
AAAGAAAGGAAAAAAAGAGAAAGAAAAAGAAAGA
Found at i:57627676 original size:40 final size:38
Alignment explanation
Indices: 57627616--57627692 Score: 100
Period size: 40 Copynumber: 2.0 Consensus size: 38
57627606 CTGATCGGGG
** *
57627616 AGAAAGAAAGGAAGAAAAAGAAGAAGGAAAGAAGAAAAAA
1 AGAAAGAAAAAAAGAAAAAGAA-AAAGAAAGAA-AAAAAA
*
57627656 AGAAAGAAAAAAAGAGAAAGAAAAAGAAAGAAAAAAA
1 AGAAAGAAAAAAAGAAAAAGAAAAAGAAAGAAAAAAA
57627693 GTAATTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 5 0.15
39 9 0.27
40 19 0.58
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (38 bp):
AGAAAGAAAAAAAGAAAAAGAAAAAGAAAGAAAAAAAA
Found at i:57627702 original size:11 final size:11
Alignment explanation
Indices: 57627688--57627714 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
57627678 AAAGAAAGAA
57627688 AAAAAGTAATT
1 AAAAAGTAATT
57627699 AAAAAGTAATT
1 AAAAAGTAATT
57627710 AAAAA
1 AAAAA
57627715 AAATAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (11 bp):
AAAAAGTAATT
Found at i:57627703 original size:24 final size:23
Alignment explanation
Indices: 57627616--57627693 Score: 81
Period size: 24 Copynumber: 3.4 Consensus size: 23
57627606 CTGATCGGGG
* *
57627616 AGAAAGAAAG-GAAGAAAAAG-A
1 AGAAAAAAAGAGAAAAAAAAGAA
**
57627637 AGAAGGAAAGA-AGAAAAAAAGAA
1 AGAAAAAAAGAGA-AAAAAAAGAA
57627660 AGAAAAAAAGAGAAAGAAAAAGAA
1 AGAAAAAAAGAGAAA-AAAAAGAA
57627684 AGAAAAAAAG
1 AGAAAAAAAG
57627694 TAATTAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
21 10 0.21
22 7 0.15
23 12 0.25
24 19 0.40
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (23 bp):
AGAAAAAAAGAGAAAAAAAAGAA
Found at i:57628402 original size:36 final size:37
Alignment explanation
Indices: 57628362--57628444 Score: 114
Period size: 36 Copynumber: 2.3 Consensus size: 37
57628352 CGTGTTTTAT
*
57628362 AAATTTCCGTATTTTCAAAAAAATCA-TGTCTTTCAA
1 AAATTTCCGTATTTTCAAAAAAATCACCGTCTTTCAA
* * * *
57628398 AAATTTTCGTGTTTTCAAAAAAATGACCGTGTTTCAA
1 AAATTTCCGTATTTTCAAAAAAATCACCGTCTTTCAA
57628435 AAATTTCCGT
1 AAATTTCCGT
57628445 GTTAAAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 23 0.57
37 17 0.43
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.39
Consensus pattern (37 bp):
AAATTTCCGTATTTTCAAAAAAATCACCGTCTTTCAA
Found at i:57628413 original size:18 final size:18
Alignment explanation
Indices: 57628296--57628780 Score: 252
Period size: 17 Copynumber: 27.8 Consensus size: 18
57628286 TAAAGAAAAA
*
57628296 TCGTGTTTTC-AAAATTC
1 TCGTGTTTTCAAAAATTT
*
57628313 TAGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
*
57628330 TCTTGTTTTCAGAAAAAATTT
1 TCGTGTTTTC---AAAAATTT
*
57628351 TCGTGTTTT-ATAAATTT
1 TCGTGTTTTCAAAAATTT
* * **
57628368 CCGTATTTTCAAAAA-AA
1 TCGTGTTTTCAAAAATTT
*
57628385 TCATGTCTTTCAAAAATTT
1 TCGTGT-TTTCAAAAATTT
**
57628404 TCGTGTTTTCAAAAAAATGA
1 TCGTGTTTTC--AAAAATTT
*
57628424 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* *** *
57628441 CCGTGTTAAAAAAAATCT
1 TCGTGTTTTCAAAAATTT
* *
57628459 TCGTATTTTCAAAAAAATT
1 TCGTGTTTTC-AAAAATTT
57628478 TCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
57628495 TCGTGTTTTCAAAAA-TT
1 TCGTGTTTTCAAAAATTT
*
57628512 TCG-GTGTTTCAAAGATTT
1 TCGTGT-TTTCAAAAATTT
*
57628530 TCGTGTTTTCAAAAA-CT
1 TCGTGTTTTCAAAAATTT
* * **
57628547 CCGGTGATTTTAAAAAAAAT
1 TC-GTG-TTTTCAAAAATTT
*
57628567 T-GT-TTTCTAAAAAATTT
1 TCGTGTTT-TCAAAAATTT
*
57628584 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
57628601 TCGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTT
*
57628618 TCGTGTTTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
* *
57628635 TCGTATTTT--TAAATTT
1 TCGTGTTTTCAAAAATTT
*** **
57628651 T--T-TTAAGAAAAAAAT
1 TCGTGTTTTCAAAAATTT
* *
57628666 T-GTG-TTTCAAAAAATG
1 TCGTGTTTTCAAAAATTT
* *
57628682 TCTTGTTTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
* *
57628699 TCGTG-TTTCAAAAAAATG
1 TCGTGTTTTC-AAAAATTT
*
57628717 ACGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTT
**
57628734 TCGTGTTTT-TGAAATTT
1 TCGTGTTTTCAAAAATTT
* *
57628751 CCGTG-TTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
57628767 TCGTGTTTT-AAAAA
1 TCGTGTTTTCAAAAA
57628781 AAAAACTTTC
Statistics
Matches: 357, Mismatches: 78, Indels: 66
0.71 0.16 0.13
Matches are distributed among these distances:
13 2 0.01
14 1 0.00
15 5 0.01
16 39 0.11
17 165 0.46
18 85 0.24
19 33 0.09
20 11 0.03
21 16 0.04
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.44
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:57628474 original size:54 final size:54
Alignment explanation
Indices: 57628396--57628501 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 54
57628386 CATGTCTTTC
* *
57628396 AAAAATTTTCGTGTTTTCAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAA
1 AAAAATCTTCGTATTTTCAAAAAAAT-ACCGTGTTTCAAAAATTTCCGTGTTAAA
** *
57628451 AAAAATCTTCGTATTTTCAAAAAAATTTCGTGTTTCAAAAATTTTCGTGTT
1 AAAAATCTTCGTATTTTCAAAAAAATACCGTGTTTCAAAAATTTCCGTGTT
57628502 TTCAAAAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
54 22 0.48
55 24 0.52
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (54 bp):
AAAAATCTTCGTATTTTCAAAAAAATACCGTGTTTCAAAAATTTCCGTGTTAAA
Found at i:57628519 original size:35 final size:34
Alignment explanation
Indices: 57628343--57628781 Score: 217
Period size: 35 Copynumber: 12.7 Consensus size: 34
57628333 TGTTTTCAGA
* *
57628343 AAAAATTTTCGTGTTTT-ATAAATTTCCGTATTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTT-CGT-GTTTC
** *
57628378 AAAAA-AATCATGTCTTTCAAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGT-TTTCAAAAA-TTTCGTG-TTTC
*** **
57628414 AAAAAAATGACCGTG-TTTCAAAAATTTCCGTGTTAAA
1 --AAAAATTTTCGTGTTTTCAAAAATTT-CGTGTT-TC
* *
57628451 AAAAATCTTCGTATTTTCAAAAAAATTTCGTGTTTC
1 AAAAATTTTCGTGTTTTC--AAAAATTTCGTGTTTC
57628487 AAAAATTTTCGTGTTTTCAAAAATTTCGGTGTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTTC
* * * *
57628522 AAAGATTTTCGTGTTTTCAAAAACTCCGGTGATTTTA
1 AAAAATTTTCGTGTTTTCAAAAATTTC-GTG--TTTC
** *
57628559 AAAAAAATT-GT-TTTCTAAAAAATTTCCGTGTTTC
1 AAAAATTTTCGTGTTT-TCAAAAATTT-CGTGTTTC
*
57628593 AAAAATTTTCGTGTTTT-AAAAATTTTCGTGTTTT
1 AAAAATTTTCGTGTTTTCAAAAA-TTTCGTGTTTC
* * * *
57628627 AAAAATTCTCGTATTTT--TAAATTT--T-TTTAAG
1 AAAAATTTTCGTGTTTTCAAAAATTTCGTGTTT--C
** * * *
57628658 AAAAAAATT-GTG-TTTCAAAAAATGTCTTGTTTT
1 AAAAATTTTCGTGTTTTC-AAAAATTTCGTGTTTC
* ** *
57628691 AAAAATTCTCGTG-TTTCAAAAAAATGACGTGTTTT
1 AAAAATTTTCGTGTTTTC--AAAAATTTCGTGTTTC
**
57628726 AAAAATTTTCGTGTTTT-TGAAATTTCCGTGTTT-
1 AAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTTC
* *
57628759 AAAAATTCTCGTGTTTTAAAAAA
1 AAAAATTTTCGTGTTTTCAAAAA
57628782 AAAACTTTCA
Statistics
Matches: 315, Mismatches: 56, Indels: 67
0.72 0.13 0.15
Matches are distributed among these distances:
29 6 0.02
30 3 0.01
31 6 0.02
32 8 0.03
33 29 0.09
34 69 0.22
35 91 0.29
36 54 0.17
37 32 0.10
38 13 0.04
39 4 0.01
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (34 bp):
AAAAATTTTCGTGTTTTCAAAAATTTCGTGTTTC
Found at i:57628819 original size:16 final size:17
Alignment explanation
Indices: 57628800--57628836 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
57628790 CATTTTTTAA
57628800 AAAAATT-TCGTG-CTT
1 AAAAATTCTCGTGTCTT
*
57628815 CAAAATTCTCGTGTCTT
1 AAAAATTCTCGTGTCTT
57628832 AAAAA
1 AAAAA
57628837 AAGTTTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
15 6 0.33
16 5 0.28
17 7 0.39
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (17 bp):
AAAAATTCTCGTGTCTT
Found at i:57633700 original size:4 final size:4
Alignment explanation
Indices: 57633693--57633746 Score: 71
Period size: 4 Copynumber: 14.5 Consensus size: 4
57633683 ACGGAGAAGG
57633693 AAGA AAGA AAGA AAGA AA-A AAGA AAG- AAGA AA-A AAGA AAGA AA-A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
*
57633737 AGGA AAGA AA
1 AAGA AAGA AA
57633747 AAAATAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 11 0.25
4 33 0.75
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:57633714 original size:11 final size:11
Alignment explanation
Indices: 57633693--57633749 Score: 73
Period size: 11 Copynumber: 5.2 Consensus size: 11
57633683 ACGGAGAAGG
57633693 AAGAAAGAAAGA
1 AAGAAAGAAA-A
57633705 AAGAAA-AAAGA
1 AAGAAAGAAA-A
57633716 AAG-AAGAAAA
1 AAGAAAGAAAA
57633726 AAGAAAGAAAA
1 AAGAAAGAAAA
*
57633737 AGGAAAGAAAA
1 AAGAAAGAAAA
57633748 AA
1 AA
57633750 ATAAAAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
10 6 0.15
11 29 0.71
12 6 0.15
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:57633724 original size:14 final size:14
Alignment explanation
Indices: 57633696--57633734 Score: 69
Period size: 14 Copynumber: 2.7 Consensus size: 14
57633686 GAGAAGGAAG
57633696 AAAGAAAGAAAGAAA
1 AAAGAAAG-AAGAAA
57633711 AAAGAAAGAAGAAA
1 AAAGAAAGAAGAAA
57633725 AAAGAAAGAA
1 AAAGAAAGAA
57633735 AAAGGAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAGAAA
Found at i:57634445 original size:20 final size:21
Alignment explanation
Indices: 57634411--57634450 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
57634401 AAAATGTTCG
*
57634411 AAATTCCTCGTGTTTAAATAA
1 AAATTCCTCGCGTTTAAATAA
*
57634432 AAATT-CTCGCGTTTTAATA
1 AAATTCCTCGCGTTTAAATA
57634451 GAATCCCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (21 bp):
AAATTCCTCGCGTTTAAATAA
Found at i:57635844 original size:14 final size:14
Alignment explanation
Indices: 57635834--57635865 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
57635824 AAAATAAAGT
57635834 AAAAAAGATAAAAC
1 AAAAAAGATAAAAC
57635848 AAAAAAG-TAAAA-
1 AAAAAAGATAAAAC
57635860 AAAAAA
1 AAAAAA
57635866 TTGAAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 5 0.28
14 7 0.39
ACGTcount: A:0.84, C:0.03, G:0.06, T:0.06
Consensus pattern (14 bp):
AAAAAAGATAAAAC
Found at i:57640120 original size:21 final size:20
Alignment explanation
Indices: 57640081--57640119 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
57640071 TAAAAATCCC
*
57640081 AAAAATTATAATTTATTTTA
1 AAAAATTACAATTTATTTTA
57640101 AAAAATTACAATTTATTTT
1 AAAAATTACAATTTATTTT
57640120 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAAATTACAATTTATTTTA
Found at i:57640195 original size:19 final size:20
Alignment explanation
Indices: 57640149--57640185 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
57640139 TGTTTGTTTG
57640149 GAATTTTATAGAAAATTTTA
1 GAATTTTATAGAAAATTTTA
57640169 GAATTTTATA-AAAATTT
1 GAATTTTATAGAAAATTT
57640186 ATGAGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
GAATTTTATAGAAAATTTTA
Found at i:57640558 original size:25 final size:25
Alignment explanation
Indices: 57640492--57640583 Score: 98
Period size: 25 Copynumber: 3.5 Consensus size: 25
57640482 CCTAATTCTA
*
57640492 AAAAATTTAAAGAAATATATAAAAATACAT
1 AAAATTTTAAA-AAATATAT---AATA-AT
57640522 AAATATTTTAAAAAATATATAATAAT
1 AAA-ATTTTAAAAAATATATAATAAT
57640548 AAAATTTT-AAAAATATTATAATAAT
1 AAAATTTTAAAAAATA-TATAATAAT
57640573 AAAA-TTTAAAA
1 AAAATTTTAAAA
57640584 TGTCAATATT
Statistics
Matches: 58, Mismatches: 1, Indels: 11
0.83 0.01 0.16
Matches are distributed among these distances:
24 10 0.17
25 21 0.36
26 5 0.09
27 4 0.07
30 11 0.19
31 7 0.12
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (25 bp):
AAAATTTTAAAAAATATATAATAAT
Found at i:57645364 original size:33 final size:33
Alignment explanation
Indices: 57645322--57645386 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
57645312 AGAGGATCTT
57645322 AGAATATGAT-ATTTAAAAT-GGAATTTGATTCTG
1 AGAATATGATCA-TTAAAATAGG-ATTTGATTCTG
*
57645355 AGAATATGATCATTAGAATAGGATTTGATTCT
1 AGAATATGATCATTAAAATAGGATTTGATTCT
57645387 TTAATGTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (33 bp):
AGAATATGATCATTAAAATAGGATTTGATTCTG
Found at i:57645425 original size:54 final size:55
Alignment explanation
Indices: 57645333--57645464 Score: 189
Period size: 54 Copynumber: 2.5 Consensus size: 55
57645323 GAATATGATA
* * *
57645333 TTTAA-AA-TGGAATTTGATTCTGAGAATATGATCATTAGAATAGGATTTGATTC
1 TTTAATAATTGGAATTTGATTCTCAGAATATGATAATTAGAATAGAATTTGATTC
**
57645386 TTTAATGTTTGGAATTTGATTCTCA-AATATGATAATTAGAATAGAATTTGATTC
1 TTTAATAATTGGAATTTGATTCTCAGAATATGATAATTAGAATAGAATTTGATTC
*
57645440 TTTGATAATTGGAATTTGATTCTCA
1 TTTAATAATTGGAATTTGATTCTCA
57645465 TTTAGAATGG
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
53 5 0.07
54 49 0.71
55 15 0.22
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (55 bp):
TTTAATAATTGGAATTTGATTCTCAGAATATGATAATTAGAATAGAATTTGATTC
Found at i:57645678 original size:3 final size:3
Alignment explanation
Indices: 57645670--57645694 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
57645660 ATTTTAAATA
57645670 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
57645695 TTCAACCCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:57646074 original size:9 final size:9
Alignment explanation
Indices: 57646050--57646088 Score: 51
Period size: 9 Copynumber: 4.0 Consensus size: 9
57646040 ATTTCAACTT
57646050 TTTTTTATATA
1 TTTTTTA-A-A
57646061 TTTTTTAGAA
1 TTTTTTA-AA
57646071 TTTTTTAAA
1 TTTTTTAAA
57646080 TTTTTTAAA
1 TTTTTTAAA
57646089 AATATATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 11 0.41
10 8 0.30
11 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:57652717 original size:90 final size:90
Alignment explanation
Indices: 57652564--57652728 Score: 233
Period size: 90 Copynumber: 1.8 Consensus size: 90
57652554 TAAACAAGAA
* * *
57652564 TGAAATCCAGAAAACTATATATGCAAACATCCACACACGTATATATAAACATGATCAAATGAACA
1 TGAAATCCAGAAAACTATATATGCAAACATACAAACACGCATATATAAACATGATCAAATGAACA
*
57652629 TAGGGTTTAAAGTATCACTTGAAGT
66 TAGGGCTTAAAGTATCACTTGAAGT
** * *
57652654 TGAAATCCAGAAAGTTATTTATGCATAA-ATACAAACATGCATATATAAACATGATCAAATGAAC
1 TGAAATCCAGAAAACTATATATGCA-AACATACAAACACGCATATATAAACATGATCAAATGAAC
*
57652718 ATGGGGCTTAA
65 ATAGGGCTTAA
57652729 CTTAGTTGGT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
90 63 0.97
91 2 0.03
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (90 bp):
TGAAATCCAGAAAACTATATATGCAAACATACAAACACGCATATATAAACATGATCAAATGAACA
TAGGGCTTAAAGTATCACTTGAAGT
Found at i:57653751 original size:16 final size:17
Alignment explanation
Indices: 57653732--57653765 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
57653722 ATTTTTACTT
57653732 TTAAT-AAAATATATAA
1 TTAATGAAAATATATAA
57653748 TTAATGGAAAATATATAA
1 TTAAT-GAAAATATATAA
57653766 ATATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
18 11 0.69
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
TTAATGAAAATATATAA
Found at i:57654019 original size:20 final size:21
Alignment explanation
Indices: 57653990--57654031 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
57653980 AAAGTCATTG
*
57653990 TAAATACATT-AATTATATTA
1 TAAATACATTAAATAATATTA
*
57654010 TAAATGCATTAAATAATATTA
1 TAAATACATTAAATAATATTA
57654031 T
1 T
57654032 TGTTTTGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAATACATTAAATAATATTA
Found at i:57654887 original size:68 final size:68
Alignment explanation
Indices: 57654806--57654952 Score: 199
Period size: 68 Copynumber: 2.2 Consensus size: 68
57654796 ATACAAAACT
* * *
57654806 AAAGTTTATGTATAGGATTGTGTCACAG-GCGACAGATTTCTAACCCCGTGACAATCGCGA-GTT
1 AAAGTTTATGTATAGCATCGTGTCA-AGAGCCACAGATTTCTAACCCCGTGACAATCGC-ACGTT
57654869 CAATC
64 CAATC
* * * *
57654874 AAAGTTCATGTATAGCATCGTGTCATGAGCCACAGATTTCTAACCCTGTGACAATTGCACGTTCA
1 AAAGTTTATGTATAGCATCGTGTCAAGAGCCACAGATTTCTAACCCCGTGACAATCGCACGTTCA
57654939 ATC
66 ATC
57654942 AAAGTTTATGT
1 AAAGTTTATGT
57654953 GCAGTTTTGA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
67 2 0.03
68 67 0.97
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (68 bp):
AAAGTTTATGTATAGCATCGTGTCAAGAGCCACAGATTTCTAACCCCGTGACAATCGCACGTTCA
ATC
Found at i:57658066 original size:27 final size:25
Alignment explanation
Indices: 57657981--57658058 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
57657971 ACTATTAAAT
* *
57657981 AGAGAGAACTAAAGTGCT-AT-A-C
1 AGAGAGCACTAACGTGCTAATAATC
* *
57658003 AGAGAACACTAATGTGCTAATAATC
1 AGAGAGCACTAACGTGCTAATAATC
57658028 AGAGAGCACTAACGTGCTAATAATC
1 AGAGAGCACTAACGTGCTAATAATC
57658053 AGAGAG
1 AGAGAG
57658059 TGCGCTAAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.31
23 2 0.04
24 1 0.02
25 30 0.62
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (25 bp):
AGAGAGCACTAACGTGCTAATAATC
Found at i:57660796 original size:11 final size:11
Alignment explanation
Indices: 57660765--57660803 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
57660755 ATTAGATAAA
*
57660765 TATTATTTAAT
1 TATTATTTTAT
*
57660776 TAATATTTTTAT
1 TATTA-TTTTAT
57660788 TATTATTTTAT
1 TATTATTTTAT
57660799 TATTA
1 TATTA
57660804 AATGATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:57662802 original size:25 final size:25
Alignment explanation
Indices: 57662774--57662917 Score: 91
Period size: 25 Copynumber: 5.8 Consensus size: 25
57662764 ACTCTCTCTC
* *
57662774 GAGCTATATAACAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATAT
* * * *
57662799 GAGCCATGTAACGGGAAGCTTATCT
1 GAGCCATATAACAGGAAGCTCATAT
* ** ** *
57662824 GGGCTGTATAATGGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATAT
* *
57662849 GAGCCATA-ATCAAGAAGCTCATAT
1 GAGCCATATAACAGGAAGCTCATAT
*
57662873 GAGCCA-ATAACAGGTAGCTTCGA-A-
1 GAGCCATATAACAGGAAGC-TC-ATAT
57662897 GAGCCAT-TAATCAGGAAGCTC
1 GAGCCATATAA-CAGGAAGCTC
57662918 CGAATAGTCA
Statistics
Matches: 89, Mismatches: 25, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
23 1 0.01
24 35 0.39
25 52 0.58
26 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.22
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATAT
Found at i:57662868 original size:24 final size:24
Alignment explanation
Indices: 57662837--57662917 Score: 85
Period size: 24 Copynumber: 3.3 Consensus size: 24
57662827 CTGTATAATG
57662837 GGAAGCTCATAAGAGCCATAATCA
1 GGAAGCTCATAAGAGCCATAATCA
* *
57662861 AGAAGCTCATATGAGCCAATAA-CA
1 GGAAGCTCATAAGAGCC-ATAATCA
* *
57662885 GGTAGCTTC-GAAGAGCCATTAATCA
1 GGAAGC-TCATAAGAGCCA-TAATCA
57662910 GGAAGCTC
1 GGAAGCTC
57662918 CGAATAGTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
23 1 0.02
24 32 0.70
25 13 0.28
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCA
Found at i:57662951 original size:74 final size:75
Alignment explanation
Indices: 57662872--57663012 Score: 203
Period size: 74 Copynumber: 1.9 Consensus size: 75
57662862 GAAGCTCATA
* * * *
57662872 TGAGCCAATAACAGGTAGCTTCGAAGAGCCATTAATCAGGAAGCTC-CGAATAGTCATATATCGG
1 TGAGCCAATAACAGGAAGCTCCGAAGAGCCATTAATCAGGAAGCTCACGAAGAGCCATATATCGG
57662936 GAAGTTTAAG
66 GAAGTTTAAG
* * * *
57662946 TGAGCCAATATCGGGAAGCTCCGGAGAGCCATTAATTAGGAAGCTCACGAAGAGCCATATATCGG
1 TGAGCCAATAACAGGAAGCTCCGAAGAGCCATTAATCAGGAAGCTCACGAAGAGCCATATATCGG
57663011 GA
66 GA
57663013 CGCTCATAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
74 40 0.69
75 18 0.31
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (75 bp):
TGAGCCAATAACAGGAAGCTCCGAAGAGCCATTAATCAGGAAGCTCACGAAGAGCCATATATCGG
GAAGTTTAAG
Found at i:57663017 original size:26 final size:26
Alignment explanation
Indices: 57662893--57663018 Score: 93
Period size: 25 Copynumber: 5.0 Consensus size: 26
57662883 CAGGTAGCTT
*
57662893 CGAAGAGCCAT-TAATCAGGAAGCTC-
1 CGAAGAGCCATAT-ATCGGGAAGCTCA
* * * *
57662918 CGAATAGTCATATATCGGGAAGTTTA
1 CGAAGAGCCATATATCGGGAAGCTCA
* *
57662944 AG-TGAGCCA-ATATCGGGAAGCTC-
1 CGAAGAGCCATATATCGGGAAGCTCA
* **
57662967 CGGAGAGCCAT-TAATTAGGAAGCTCA
1 CGAAGAGCCATAT-ATCGGGAAGCTCA
*
57662993 CGAAGAGCCATATATCGGGACGCTCA
1 CGAAGAGCCATATATCGGGAAGCTCA
57663019 TAAAAGTTGT
Statistics
Matches: 75, Mismatches: 19, Indels: 13
0.70 0.18 0.12
Matches are distributed among these distances:
23 1 0.01
24 19 0.25
25 32 0.43
26 22 0.29
27 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (26 bp):
CGAAGAGCCATATATCGGGAAGCTCA
Found at i:57663759 original size:12 final size:12
Alignment explanation
Indices: 57663742--57663766 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57663732 AATTTGGTCA
57663742 TTTTCATCAAAT
1 TTTTCATCAAAT
57663754 TTTTCATCAAAT
1 TTTTCATCAAAT
57663766 T
1 T
57663767 AGACATGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTCATCAAAT
Found at i:57665230 original size:108 final size:109
Alignment explanation
Indices: 57665015--57665232 Score: 361
Period size: 110 Copynumber: 2.0 Consensus size: 109
57665005 AATGATCGTA
57665015 AAACAATAAGAAAAGAAAAATAAAACACATAGATTTTACGTGGAAACCCTTTTGGGAAAAAAACC
1 AAACAATAAGAAAAGAAAAATAAAACACATAGATTTTACGTGGAAACCCTTTTGGG-AAAAAACC
*
57665080 ATGGGCTGAGTAGAAGAAATTCACTAATGTTGAAAACTGAATGAT
65 ATAGGCTGAGTAGAAGAAATTCACTAATGTTGAAAACTGAATGAT
*
57665125 AAACAATAAGAAAAGAAAAATAAAACATATAGATTTTACGTGGAAACCCTTTTGGG-AAAAACCA
1 AAACAATAAGAAAAGAAAAATAAAACACATAGATTTTACGTGGAAACCCTTTTGGGAAAAAACCA
*
57665189 TAGGCAATG-G-AGAAGAAATTCACTAATGTTGAAATCTGAATGAT
66 TAGGC--TGAGTAGAAGAAATTCACTAATGTTGAAAACTGAATGAT
57665233 TTAATATGAG
Statistics
Matches: 103, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
108 45 0.44
109 1 0.01
110 57 0.55
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.22
Consensus pattern (109 bp):
AAACAATAAGAAAAGAAAAATAAAACACATAGATTTTACGTGGAAACCCTTTTGGGAAAAAACCA
TAGGCTGAGTAGAAGAAATTCACTAATGTTGAAAACTGAATGAT
Found at i:57680955 original size:420 final size:420
Alignment explanation
Indices: 57680176--57681018 Score: 1641
Period size: 420 Copynumber: 2.0 Consensus size: 420
57680166 ATGCATTTTC
57680176 CTATGCCTGCACAATAGTGAAGGCCTCACAAAGATAGGTACATATATATTCCGAAAGTGATGCAT
1 CTATGCCTGCACAATAGTGAAGGCCTCACAAAGATAGGTACATATATATTCCGAAAGTGATGCAT
* *
57680241 TATCTTGTACAGAGGTGAAGACCTCACGAAAAAATAGCTTCTCACTCTCACTTAAGAAGGGTAGA
66 TATCTTGTACAGAGGTGAAGACCTCACAAAAAAATAGCTTCTCACTCCCACTTAAGAAGGGTAGA
57680306 ATCCAAGTAGAACGTTTATGTCATGCAATACGTATGAAAGTGTATAAAGAGAAACTCTCAAACTT
131 ATCCAAGTAGAACGTTTATGTCATGCAATACGTATGAAAGTGTATAAAGAGAAACTCTCAAACTT
57680371 TTAACTGAATAAAAAGTAAAACCATAAGTTTAGGTGACTATATAACTTGAGATTATTAACAAAGA
196 TTAACTGAATAAAAAGTAAAACCATAAGTTTAGGTGACTATATAACTTGAGATTATTAACAAAGA
57680436 CATTCGTATAATTGTTTGCTACCAAAACAACACATGACTGAACGATGAAATGCAAGGAAGGGATT
261 CATTCGTATAATTGTTTGCTACCAAAACAACACATGACTGAACGATGAAATGCAAGGAAGGGATT
57680501 ACAAATTAAATTAAACCGATTCTCAATTTCTAACAAAAGGACCAAAAAGTAATCAACTTGTAGCT
326 ACAAATTAAATTAAACCGATTCTCAATTTCTAACAAAAGGACCAAAAAGTAATCAACTTGTAGCT
*
57680566 TGACTCTTTTTTTAGTCATCAGTGAAGTCA
391 TAACTCTTTTTTTAGTCATCAGTGAAGTCA
57680596 CTATGCCTGCACAATAGTGAAGGCCTCACAAAGATAGGTACATATATATTCCGAAAGTGATGCAT
1 CTATGCCTGCACAATAGTGAAGGCCTCACAAAGATAGGTACATATATATTCCGAAAGTGATGCAT
57680661 TATCTTGTACAGAGGTGAAGACCTCACAAAAAAATAGCTTCTCACTCCCACTTAAGAAGGGTAGA
66 TATCTTGTACAGAGGTGAAGACCTCACAAAAAAATAGCTTCTCACTCCCACTTAAGAAGGGTAGA
*
57680726 ATCCAAGTAGGACGTTTATGTCATGCAATACGTATGAAAGTGTATAAAGAGAAACTCTCAAACTT
131 ATCCAAGTAGAACGTTTATGTCATGCAATACGTATGAAAGTGTATAAAGAGAAACTCTCAAACTT
*
57680791 TTAACTGAATAAAAAGTAAAACCATAAGTTTAGGTGACTATATAACTTGAGTTTATTAACAAAGA
196 TTAACTGAATAAAAAGTAAAACCATAAGTTTAGGTGACTATATAACTTGAGATTATTAACAAAGA
57680856 CATTCGTATAATTGTTTGCTACCAAAACAACACATGACTGAACGATGAAATGCAAGGAAGGGATT
261 CATTCGTATAATTGTTTGCTACCAAAACAACACATGACTGAACGATGAAATGCAAGGAAGGGATT
57680921 ACAAATTAAATTAAACCGATTCTCAATTTCTAACAAAAGGACCAAAAAGTAATCAACTTGTAGCT
326 ACAAATTAAATTAAACCGATTCTCAATTTCTAACAAAAGGACCAAAAAGTAATCAACTTGTAGCT
57680986 TAACTCTTTTTTTAGTCATCAGTGAAGTCA
391 TAACTCTTTTTTTAGTCATCAGTGAAGTCA
57681016 CTA
1 CTA
57681019 AGTTGTCAAA
Statistics
Matches: 418, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
420 418 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.27
Consensus pattern (420 bp):
CTATGCCTGCACAATAGTGAAGGCCTCACAAAGATAGGTACATATATATTCCGAAAGTGATGCAT
TATCTTGTACAGAGGTGAAGACCTCACAAAAAAATAGCTTCTCACTCCCACTTAAGAAGGGTAGA
ATCCAAGTAGAACGTTTATGTCATGCAATACGTATGAAAGTGTATAAAGAGAAACTCTCAAACTT
TTAACTGAATAAAAAGTAAAACCATAAGTTTAGGTGACTATATAACTTGAGATTATTAACAAAGA
CATTCGTATAATTGTTTGCTACCAAAACAACACATGACTGAACGATGAAATGCAAGGAAGGGATT
ACAAATTAAATTAAACCGATTCTCAATTTCTAACAAAAGGACCAAAAAGTAATCAACTTGTAGCT
TAACTCTTTTTTTAGTCATCAGTGAAGTCA
Found at i:57688683 original size:19 final size:19
Alignment explanation
Indices: 57688659--57688792 Score: 187
Period size: 19 Copynumber: 6.8 Consensus size: 19
57688649 AATCATATAT
57688659 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
57688678 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
57688697 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
57688716 TCTAAGATTGCATTTATCATA
1 TCTAAGATTGCA--TATCATA
57688737 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
** *
57688758 TCTTGGATTGTATATCATA
1 TCTAAGATTGCATATCATA
57688777 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
57688793 CTCAAAAATT
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
19 67 0.66
21 33 0.33
23 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:57688745 original size:40 final size:39
Alignment explanation
Indices: 57688659--57688792 Score: 200
Period size: 40 Copynumber: 3.4 Consensus size: 39
57688649 AATCATATAT
57688659 TCTAAGATTGCATATCATATCTAAGATT-ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGATATATCATA
*
57688697 TCTAAGATTGCATATCATATCTAAGATTGCATTTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTG-ATATATCATA
**
57688737 TCTAAGATTGCATATATCATATCTTGGATTG-TATATCATA
1 TCTAAGATTGC--ATATCATATCTAAGATTGATATATCATA
57688777 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
57688793 CTCAAAAATT
Statistics
Matches: 88, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
38 33 0.38
40 39 0.44
42 16 0.18
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.40
Consensus pattern (39 bp):
TCTAAGATTGCATATCATATCTAAGATTGATATATCATA
Found at i:57688767 original size:61 final size:58
Alignment explanation
Indices: 57688652--57688789 Score: 201
Period size: 61 Copynumber: 2.4 Consensus size: 58
57688642 ATTACAAAAT
57688652 CATAT-AT-TCTAAGATTGCA-TATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATTATCATATCTAAGATTATATATCATATCTAAGATTG
**
57688707 CATATCATATCTAAGATTGCATTTATCATATCTAAGATTGCATATATCATATCTTGGATTG
1 CATATCATATCTAAGATTGCA-TTATCATATCTAAGATT--ATATATCATATCTAAGATTG
*
57688768 TATATCATATCTAAGATTGCAT
1 CATATCATATCTAAGATTGCAT
57688790 ATCCTCAAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 12 0.16
59 16 0.22
60 1 0.01
61 38 0.51
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.41
Consensus pattern (58 bp):
CATATCATATCTAAGATTGCATTATCATATCTAAGATTATATATCATATCTAAGATTG
Found at i:57689018 original size:44 final size:44
Alignment explanation
Indices: 57688968--57689485 Score: 438
Period size: 44 Copynumber: 11.8 Consensus size: 44
57688958 TGCCATCTTC
*
57688968 AGTCTGC-CTCACTGCAACTTTA-GGAGGATAAGACTTGCTTATTT
1 AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTATTT
* **
57689012 AGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCCAATTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTATTT
* * *
57689056 CAGTCTGCCCCACTGCAACTTCA-GGAGGATATGACTTGCTTACTT
1 -AGTCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCTTATTT
* * ***
57689101 AGTCTGCTCCACTGCAACTTCAGGGAGATAGGA-TTATCGGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCTTATTT
* * *
57689145 AATCTGTTCCACTGCAACTTCAGGGAGATAAGACTTGC-CATCTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTAT-TT
*
57689189 CAGTCTGCTCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTT
1 -AGTCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCTTATTT
* * *
57689234 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAG---ATGT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTATTT
* * * **
57689275 -GATCTGCT-CTCTGTAACTTCAGAGAGATAAGA-TCTGAGGT-TTT
1 AG-TCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TG-CTTATTT
* * * * * * * ***
57689318 AATCCGTTCTAATGCAACTTCAGGGAGATAGGA-TTATCGGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCTTATTT
* *
57689362 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATT-TTC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-C-TTATTT
* *
57689407 AGTCTGCCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTT
1 AGTCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCTTATTT
*
57689451 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
57689486 AGATACGATC
Statistics
Matches: 382, Mismatches: 64, Indels: 56
0.76 0.13 0.11
Matches are distributed among these distances:
39 1 0.00
40 22 0.06
41 8 0.02
43 13 0.03
44 218 0.57
45 119 0.31
46 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTATTT
Found at i:57689109 original size:89 final size:89
Alignment explanation
Indices: 57688965--57689485 Score: 459
Period size: 89 Copynumber: 5.9 Consensus size: 89
57688955 TAGTGCCATC
* * * *
57688965 TTCAGTCTGCCTCACTGCAACTTTA-GGAGGATAAGACTTGCTTATTTAGTCTGCTCCACTACAA
1 TTCAGTCTGCCCCACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAA
57689029 CTTCAGGGAGATAAGACTTGCCAAT
65 CTTCAGGGAGATAAGACTTGCCAAT
*
57689054 TTCAGTCTGCCCCACTGCAACTTCA-GGAGGATATGACTTGCTTACTTAGTCTGCTCCACTGCAA
1 TTCAGTCTGCCCCACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAA
* * *
57689118 CTTCAGGGAGATAGGATTATCGGC--T
65 CTTCAGGGAGATAAGACT-T-GCCAAT
* ** *
57689143 TT-AATCTGTTCCACTGCAACTTCAGGGAGATAAGACTTGC-CATCTTCAGTCTGCTCCACTGCA
1 TTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AGTCTGCTCCACTGCA
** *
57689206 ACTTCA-GGAGGATAAGACTTGCTTAC
64 ACTTCAGGGA-GATAAGACTTGCCAAT
* * * * * * * *
57689232 TT-AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAG-AT-GTGA-TCTGCT-CTCTGTAAC
1 TTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAAC
* *
57689292 TTCAGAGAGATAAGA-TCTG--AGGT
66 TTCAGGGAGATAAGACT-TGCCA-AT
* * * ** * * * * *
57689315 TTTAATCCGTTCTAATGCAACTTCAGGGAGATAGGATTATCGGC-T--TTAATCTGCTCCACTGC
1 TTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTACTTAGTCTGCTCCACTGC
*
57689377 AACTTCAGGGAGATAAGACTTGCCATT
63 AACTTCAGGGAGATAAGACTTGCCAAT
57689404 TTCAGTCTGCCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAA
1 TTCAGTCTGCCCCACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAA
*
57689468 CTTTAGGGAGATAAGACT
65 CTTCAGGGAGATAAGACT
57689486 AGATACGATC
Statistics
Matches: 350, Mismatches: 56, Indels: 52
0.76 0.12 0.11
Matches are distributed among these distances:
83 3 0.01
84 47 0.13
85 8 0.02
86 5 0.01
87 12 0.03
88 64 0.18
89 207 0.59
90 2 0.01
91 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (89 bp):
TTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAAC
TTCAGGGAGATAAGACTTGCCAAT
Found at i:57689206 original size:133 final size:133
Alignment explanation
Indices: 57689009--57689263 Score: 440
Period size: 133 Copynumber: 1.9 Consensus size: 133
57688999 GACTTGCTTA
*
57689009 TTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCCAATTTCAGTCTGCCCCACTGCAA
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCCAATTTCAGTCTGCCCCACTGCAA
*
57689074 CTTCAGGAGGATATGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAGGATTATC
66 CTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAGGATTATC
57689139 GGC
131 GGC
* * *
57689142 TTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGACTTGCC-ATCTTCAGTCTGCTCCACTGCA
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCCAAT-TTCAGTCTGCCCCACTGCA
*
57689206 ACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATA
65 ACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
57689264 AGACTAGATG
Statistics
Matches: 115, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
132 2 0.02
133 113 0.98
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (133 bp):
TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCCAATTTCAGTCTGCCCCACTGCAA
CTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAGGATTATC
GGC
Found at i:57689399 original size:217 final size:216
Alignment explanation
Indices: 57688958--57689569 Score: 879
Period size: 217 Copynumber: 2.8 Consensus size: 216
57688948 TAGGAATTAG
* *
57688958 TGCCATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGCTTATTTAGTCTGCTCCA
1 TGCCATCTTCAGTCTGCC-CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
* * * * * * *
57689023 CTACAACTTCAGGGAGATAAGACTTGCCAATTTCAGTCTGCCCCACTGCAACTTCAG-GAGGATA
65 CTGCAACTTTAGGGAGATAAGACTAG---ATATGA-TCTG-CTCTCTGCAACTTCAGAGA-GATA
* * * * * *
57689087 TGA-CT-TGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCT
124 AGATCTGAGGTT--TTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCT
*
57689150 GTTCCACTGCAACTTCAGGGAGATAAGACT
187 GCTCCACTGCAACTTCAGGGAGATAAGACT
57689180 TGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
1 TGCCATCTTCAGTCTGC-CCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
* *
57689245 CTGCAACTTTAGGGAGATAAGACTAGATGTGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCT
65 CTGCAACTTTAGGGAGATAAGACTAGATATGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
* *
57689310 GAGGTTTTAATCCGTTCTAATGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
130 GAGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
57689375 GCAACTTCAGGGAGATAAGACT
195 GCAACTTCAGGGAGATAAGACT
*
57689397 TGCCATTTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
1 TGCCATCTTCAGTCTG-CCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
* * * *
57689462 CTGCAACTTTAGGGAGATAAGACTAGATACGATCTACTTTCTGCAACTTTAGAGAGATAAGATCT
65 CTGCAACTTTAGGGAGATAAGACTAGATATGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
57689527 GAGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATT
130 GAGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATT
57689570 TACAATCTTC
Statistics
Matches: 357, Mismatches: 28, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
217 256 0.72
218 9 0.03
219 7 0.02
222 84 0.24
223 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (216 bp):
TGCCATCTTCAGTCTGCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCAC
TGCAACTTTAGGGAGATAAGACTAGATATGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTG
AGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTG
CAACTTCAGGGAGATAAGACT
Found at i:57689476 original size:133 final size:129
Alignment explanation
Indices: 57688968--57689485 Score: 425
Period size: 133 Copynumber: 3.9 Consensus size: 129
57688958 TGCCATCTTC
* * *
57688968 AGTCTGC-CTCACTGCAACTTTA-GGAGGATAAGACTTGCTTATTTAGTCTGCTCCACTACAACT
1 AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGC---TTTAGTCTGCCCCACTGCAACT
** * * *
57689031 TCAGGGAGATAAGACTTGCCAATTTCAGTCTGCCCCACTGCAACTTCAGGAGGATATGACTTGCT
61 TCAGGGAGATAAGACTTGCTTACTTCAGTCTGCTCCACTGCAACTTCAGGAGGATAAGACTTGCT
57689096 TACTT
126 TA-TT
* * * **
57689101 AGTCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGTTCCACTGCAACTTC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTTAGTCTGCCCCACTGCAACTTC
*
57689166 AGGGAGATAAGACTTGC-CATCTTCAGTCTGCTCCACTGCAACTTCAGGAGGATAAGACTTGCTT
63 AGGGAGATAAGACTTGCTTA-CTTCAGTCTGCTCCACTGCAACTTCAGGAGGATAAGACTTGCTT
57689230 ACTT
127 A-TT
* * * * * * *
57689234 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGT-GATCTG-CTCTCTGTAACTTCAG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTAG-TCTGCCCCACTGCAACTTCAG
* * * * * * * * * *
57689297 AGAGATAAGATCTGAGGTT--TT-AATCCGTTCTAATGCAACTTCAGG-GAGATAGGATTATCGG
65 GGAGATAAGA-CT-TGCTTACTTCAGTCTGCTCCACTGCAACTTCAGGAG-GATAAGACT-T--G
57689358 C-T-TT
124 CTTATT
*
57689362 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATTTTCAGTCTGCCCCACTGCAACTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-C--TTT-AGTCTGCCCCACTGCAACTT
*
57689427 CA-GGAGGATAAGACTTGCTTACTT-AGTCTGCTCCACTGCAACTTTAGG-GAGATAAGACT
62 CAGGGA-GATAAGACTTGCTTACTTCAGTCTGCTCCACTGCAACTTCAGGAG-GATAAGACT
57689486 AGATACGATC
Statistics
Matches: 311, Mismatches: 51, Indels: 46
0.76 0.12 0.11
Matches are distributed among these distances:
127 1 0.00
128 62 0.20
129 24 0.08
130 10 0.03
131 8 0.03
132 9 0.03
133 190 0.61
134 5 0.02
136 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (129 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTAGTCTGCCCCACTGCAACTTCAGG
GAGATAAGACTTGCTTACTTCAGTCTGCTCCACTGCAACTTCAGGAGGATAAGACTTGCTTATT
Found at i:57689676 original size:217 final size:215
Alignment explanation
Indices: 57689108--57689699 Score: 611
Period size: 217 Copynumber: 2.7 Consensus size: 215
57689098 CTTAGTCTGC
* * * * * *
57689108 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGTTCCACTGCAACTTCAGGGAGA
1 TCCAATGCAACTTCAGGGAGATAGGATTATCAGCTTCAACCTGCTCCACTGCAACTTCAAGGAGA
* * * * * * **
57689173 TAAGACTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTC
66 CAAGACTTGCCAGCTTAAATCTGCCCCACT-CAACTT-AGGAAGATAAGACTTGCCGACTTAGTC
** * *
57689238 TGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGTGATCTGCTCTCTGTAACTTCAGAGAGAT
129 TGCTCCACTGCAACTTTAGGGAGATAAGACTAGATACGATCTACTCTCTGCAACTTCAGAGAGAT
57689303 AAGATCTGAGGTTTTAATCCGT
194 AAGATCTGAGGTTTTAATCCGT
* * * * *
57689325 TCTAATGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
1 TCCAATGCAACTTCAGGGAGATAGGATTATCAGCTTCAACCTGCTCCACTGCAACTTCAAGGAGA
* ** * * * **
57689390 TAAGACTTGCCATTTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTC
66 CAAGACTTGCCAGCTTAAATCTGCCCCACT-CAACTT-AGGAAGATAAGACTTGCCGACTTAGTC
* *
57689455 TGCTCCACTGCAACTTTAGGGAGATAAGACTAGATACGATCTACTTTCTGCAACTTTAGAGAGAT
129 TGCTCCACTGCAACTTTAGGGAGATAAGACTAGATACGATCTACTCTCTGCAACTTCAGAGAGAT
57689520 AAGATCTGAGGTTTTAATCCGT
194 AAGATCTGAGGTTTTAATCCGT
* * * * **
57689542 TCCACTGCAACTTCAGGGAGATAGGATT-TACAATCTTCAACCTTCTCCGCTGCTGC-TCAAGGA
1 TCCAATGCAACTTCAGGGAGATAGGATTAT-C-AGCTTCAACCTGCTCCACTGCAACTTCAAGGA
* *** *
57689605 GACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT-ATCTT-GGAAAGATAAGA-TTCGCCGACTT
64 GACAAGACTTGCCAGCTTAAATCTGC--CCCACTCAACTTAGG-AAGATAAGACTT-GCCGACTT
* * **
57689667 CGATCTGCTCCACTACTGC-TTAGGGAGATAAGA
125 AG-TCTGCTCCACTGCAACTTTAGGGAGATAAGA
57689700 TCTACAAACT
Statistics
Matches: 329, Mismatches: 39, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
215 4 0.01
216 30 0.09
217 273 0.83
218 16 0.05
219 6 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (215 bp):
TCCAATGCAACTTCAGGGAGATAGGATTATCAGCTTCAACCTGCTCCACTGCAACTTCAAGGAGA
CAAGACTTGCCAGCTTAAATCTGCCCCACTCAACTTAGGAAGATAAGACTTGCCGACTTAGTCTG
CTCCACTGCAACTTTAGGGAGATAAGACTAGATACGATCTACTCTCTGCAACTTCAGAGAGATAA
GATCTGAGGTTTTAATCCGT
Found at i:57689696 original size:44 final size:44
Alignment explanation
Indices: 57689648--57690096 Score: 174
Period size: 44 Copynumber: 10.2 Consensus size: 44
57689638 TATCTTGGAA
*
57689648 AGATAAGATTCGCCGACTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGACTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * *
57689692 AGATAAGA-TCTACAAACTTCAACCTTCTCCGCTACTGCTGAGGG
1 AGATAAGATTC-GCCGACTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * *
57689736 AGACAAGGCTT-GGTGGCTTAAATCTGCTTTCAACTA-T-CTT-GGAA
1 AGATAA-GATTCGCCGACTTCAATCTGC--TCCACTACTGCTTAGG-G
* *
57689780 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGACTTCAATCTGCTCCACTACTGCTTAGGG
** * * * * * *
57689824 AGATAAGA-TCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGG
1 AGATAAGATTCGCCGA-CTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * *
57689868 AGACAAGGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCCGACTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
57689912 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGACTTCAATCTGCTCCACTACTGCTTAGGG
** * * * * * *
57689956 AGATAAGA-TCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGG
1 AGATAAGATTCGCCGA-CTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * *
57690000 AGACAATGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCCGACTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
57690044 AGATAAGATTCGTC-ATCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGA-CTTCAATCTGCTCCACTACTGCTTAGGG
57690088 AGATAAGAT
1 AGATAAGAT
57690097 CTACAATCTT
Statistics
Matches: 279, Mismatches: 95, Indels: 62
0.64 0.22 0.14
Matches are distributed among these distances:
42 18 0.06
43 28 0.10
44 203 0.73
45 14 0.05
46 16 0.06
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (44 bp):
AGATAAGATTCGCCGACTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:57689753 original size:132 final size:132
Alignment explanation
Indices: 57689556--57690206 Score: 1135
Period size: 132 Copynumber: 4.9 Consensus size: 132
57689546 CTGCAACTTC
* * * *
57689556 AGGGAGATAGGATTTACAATCTTCAACCTTCTCCGCTGCTGCTCAAGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
57689621 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGACTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGACTTCGATCTGCTCCACTACTGC
57689686 TT
131 TT
* *
57689688 AGGGAGATAAGATCTACAAACTTCAACCTTCTCCGCTACTGCTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
* * *
57689753 TTAAATCTGCTTTCAACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGACTTCGATCTGCTCCACTACTGC
57689818 TT
131 TT
57689820 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
*
57689885 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGACTTCGATCTGCTCCACTACTGC
57689950 TT
131 TT
*
57689952 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAATGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
*
57690017 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTC-ATCTTCGATCTGCTCCACTACTG
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGA-CTTCGATCTGCTCCACTACTG
57690081 CTT
130 CTT
* *
57690084 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGTCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
*
57690149 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC-CCCATCTTCGATCTGCTCCA
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGA-CTTCGATCTGCTCCA
57690207 TTGTCAATGC
Statistics
Matches: 497, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
131 1 0.00
132 496 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGACTTCGATCTGCTCCACTACTGC
TT
Found at i:57691460 original size:30 final size:30
Alignment explanation
Indices: 57691405--57691541 Score: 129
Period size: 30 Copynumber: 4.6 Consensus size: 30
57691395 TATTTTTTTG
* **
57691405 CATTTTAACCCCTGTACTTTT-TAAAATTTA
1 CATTTTGACCCCTAAACTTTTCTAAAA-TTA
57691435 CATTTTGA-CCCTAAACTTTTCTAAAATTTA
1 CATTTTGACCCCTAAACTTTTCTAAAA-TTA
*
57691465 CATTTTGACCCCAAAAC-TTTCTAAAATTA
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
** ** *
57691494 CATTTCAACCTTTAGAC-TTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTTCT-AAAATTA
*
57691524 CACTTTGACCCCTAAACT
1 CATTTTGACCCCTAAACT
57691542 CTCAAGAAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
29 29 0.33
30 51 0.59
31 7 0.08
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTTCTAAAATTA
Found at i:57692138 original size:29 final size:29
Alignment explanation
Indices: 57692112--57692181 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 29
57692102 AAGGAAGAAG
*
57692112 AAGAAAGAAAGAAAAAAAGAAAAAAGAGA
1 AAGAAAAAAAGAAAAAAAGAAAAAAGAGA
* * *
57692141 AAGAAAAAAATAAAAAAATAAAAAA-ATA
1 AAGAAAAAAAGAAAAAAAGAAAAAAGAGA
*
57692169 AA-AGAAAAAGAAA
1 AAGAAAAAAAGAAA
57692182 TACATCACAG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 9 0.26
28 4 0.11
29 22 0.63
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (29 bp):
AAGAAAAAAAGAAAAAAAGAAAAAAGAGA
Found at i:57692141 original size:9 final size:8
Alignment explanation
Indices: 57692112--57692177 Score: 57
Period size: 8 Copynumber: 8.0 Consensus size: 8
57692102 AAGGAAGAAG
*
57692112 AAGAAAGA
1 AAGAAAAA
57692120 AAGAAAAA
1 AAGAAAAA
57692128 AAGAAAAA
1 AAGAAAAA
57692136 AGAGAAAGAA
1 A-AGAAA-AA
57692146 AA-AAATAA
1 AAGAAA-AA
57692154 AA-AAATAA
1 AAGAAA-AA
57692162 AA-AAATAA
1 AAGAAA-AA
57692170 AAGAAAAA
1 AAGAAAAA
57692178 GAAATACATC
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
8 41 0.77
9 9 0.17
10 3 0.06
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (8 bp):
AAGAAAAA
Found at i:57692141 original size:25 final size:23
Alignment explanation
Indices: 57692113--57692158 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
57692103 AGGAAGAAGA
57692113 AGAAAGAAAGAAAAAAAGAAAAAAG
1 AGAAAGAAA-AAAAAAA-AAAAAAG
*
57692138 AGAAAGAAAAAAATAAAAAAA
1 AGAAAGAAAAAAAAAAAAAAA
57692159 TAAAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 6 0.30
25 9 0.45
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (23 bp):
AGAAAGAAAAAAAAAAAAAAAAG
Found at i:57692143 original size:21 final size:20
Alignment explanation
Indices: 57692115--57692177 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 20
57692105 GAAGAAGAAG
57692115 AAAGAAAGAAAAAAAGAAAA
1 AAAGAAAGAAAAAAAGAAAA
*
57692135 AAGAGAAAGAAAAAAATAAAA
1 AA-AGAAAGAAAAAAAGAAAA
* *
57692156 AAATAAAAAAATAAAAGAAAA
1 AAAGAAAGAAA-AAAAGAAAA
57692177 A
1 A
57692178 GAAATACATC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 9 0.24
21 28 0.76
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (20 bp):
AAAGAAAGAAAAAAAGAAAA
Found at i:57692487 original size:7 final size:7
Alignment explanation
Indices: 57692477--57692509 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
57692467 GGAGAAAAGG
57692477 AAAAAAC
1 AAAAAAC
57692484 AAAAAAC
1 AAAAAAC
57692491 -AAAAAC
1 AAAAAAC
57692497 AAAAAAC
1 AAAAAAC
57692504 AAAAAA
1 AAAAAA
57692510 GGCCCGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:57692487 original size:13 final size:13
Alignment explanation
Indices: 57692478--57692508 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
57692468 GAGAAAAGGA
57692478 AAAAACAAAAAAC
1 AAAAACAAAAAAC
57692491 AAAAACAAAAAAC
1 AAAAACAAAAAAC
57692504 AAAAA
1 AAAAA
57692509 AGGCCCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAC
Found at i:57693101 original size:22 final size:21
Alignment explanation
Indices: 57693050--57693101 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
57693040 ATTTACCGTG
*
57693050 TTTCAAAAAATATATTCGTGT
1 TTTCAAAAAATATATTCGTAT
**
57693071 TTTTTAAAAATA-ATTTCCGTAT
1 TTTCAAAAAATATA-TT-CGTAT
57693093 TTTCAAAAA
1 TTTCAAAAA
57693102 TTTCCGTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 1 0.04
21 12 0.50
22 11 0.46
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (21 bp):
TTTCAAAAAATATATTCGTAT
Found at i:57693164 original size:35 final size:34
Alignment explanation
Indices: 57693082--57693291 Score: 169
Period size: 35 Copynumber: 6.1 Consensus size: 34
57693072 TTTTAAAAAT
* * *
57693082 AATTTCCGTATTTTCAAAAATTTCCGTGTTTTAAAA
1 AATTT-CGTGTTTTCAAAAATTTTCGTGTTTT-CAA
* **
57693118 AATCTTCGTGTTTTCAAGAATCCTCGTGTTTTCAA
1 AAT-TTCGTGTTTTCAAAAATTTTCGTGTTTTCAA
*
57693153 AATTTCG-GTGTTTCAAAAATTTTCATGTTTTCAAA
1 AATTTCGTGT-TTTCAAAAATTTTCGTGTTTTC-AA
*
57693188 AATTCCCGTGTTTT-AAAAATTTTCGTGTTTTCAAA
1 AATT-TCGTGTTTTCAAAAATTTTCGTGTTTTC-AA
* * * * *
57693223 AATTTTCGTATTTTTAAGAATTTTCGT-CTCT-AA
1 AA-TTTCGTGTTTTCAAAAATTTTCGTGTTTTCAA
* *
57693256 AATTCTCGTATTTT-AAAAATTTTCGTATTTTCAA
1 AATT-TCGTGTTTTCAAAAATTTTCGTGTTTTCAA
57693290 AA
1 AA
57693292 AAATAAATGT
Statistics
Matches: 144, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
32 13 0.09
33 17 0.12
34 26 0.18
35 42 0.29
36 42 0.29
37 4 0.03
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (34 bp):
AATTTCGTGTTTTCAAAAATTTTCGTGTTTTCAA
Found at i:57693228 original size:18 final size:18
Alignment explanation
Indices: 57693046--57693292 Score: 188
Period size: 18 Copynumber: 13.8 Consensus size: 18
57693036 TGAAATTTAC
57693046 CGTG-TTTCAAAAAATATATT
1 CGTGTTTTC-AAAAAT-T-TT
*
57693066 CGTGTTTTTTAAAAATAATTT
1 CGTG-TTTTCAAAAAT--TTT
* *
57693087 CCGTATTTTCAAAAATTTC
1 -CGTGTTTTCAAAAATTTT
* *
57693106 CGTGTTTTAAAAAATCTT
1 CGTGTTTTCAAAAATTTT
* **
57693124 CGTGTTTTCAAGAATCCT
1 CGTGTTTTCAAAAATTTT
57693142 CGTGTTTTC-AAAA-TTT
1 CGTGTTTTCAAAAATTTT
57693158 CG-GTGTTTCAAAAATTTT
1 CGTGT-TTTCAAAAATTTT
* **
57693176 CATGTTTTCAAAAATTCC
1 CGTGTTTTCAAAAATTTT
57693194 CGTGTTTT-AAAAATTTT
1 CGTGTTTTCAAAAATTTT
57693211 CGTGTTTTCAAAAATTTT
1 CGTGTTTTCAAAAATTTT
* * *
57693229 CGTATTTTTAAGAATTTT
1 CGTGTTTTCAAAAATTTT
* * *
57693247 C--G-TCTCTAAAATTCT
1 CGTGTTTTCAAAAATTTT
*
57693262 CGTATTTT-AAAAATTTT
1 CGTGTTTTCAAAAATTTT
*
57693279 CGTATTTTCAAAAA
1 CGTGTTTTCAAAAA
57693293 AATAAATGTT
Statistics
Matches: 181, Mismatches: 33, Indels: 28
0.75 0.14 0.12
Matches are distributed among these distances:
15 11 0.06
16 7 0.04
17 37 0.20
18 92 0.51
19 4 0.02
20 4 0.02
21 18 0.10
22 8 0.04
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (18 bp):
CGTGTTTTCAAAAATTTT
Found at i:57693257 original size:52 final size:53
Alignment explanation
Indices: 57693092--57693289 Score: 199
Period size: 52 Copynumber: 3.8 Consensus size: 53
57693082 AATTTCCGTA
* * * * *
57693092 TTTTCAAAAATTTCCGTGTTTTAAAAAATCTTCGTGTTTTCAAGAATCCTCGTG
1 TTTT-AAAAATTTTCGTGTTTTCAAAAATTTTCGTATTTTCAAGAATTCTCGTG
* * * * *
57693146 TTTTCAAAA-TTTCG-GTGTTTCAAAAATTTTCATGTTTTCAAAAATTCCCGTG
1 TTTTAAAAATTTTCGTGT-TTTCAAAAATTTTCGTATTTTCAAGAATTCTCGTG
* *
57693198 TTTTAAAAATTTTCGTGTTTTCAAAAATTTTCGTATTTTTAAGAATTTTCGT-
1 TTTTAAAAATTTTCGTGTTTTCAAAAATTTTCGTATTTTCAAGAATTCTCGTG
* * * *
57693250 CTCT-AAAATTCTCGTATTTT-AAAAATTTTCGTATTTTCAA
1 TTTTAAAAATTTTCGTGTTTTCAAAAATTTTCGTATTTTCAA
57693290 AAAAATAAAT
Statistics
Matches: 121, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
50 19 0.16
51 16 0.13
52 43 0.36
53 37 0.31
54 6 0.05
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (53 bp):
TTTTAAAAATTTTCGTGTTTTCAAAAATTTTCGTATTTTCAAGAATTCTCGTG
Found at i:57698929 original size:10 final size:9
Alignment explanation
Indices: 57698857--57698928 Score: 81
Period size: 9 Copynumber: 7.8 Consensus size: 9
57698847 TATTATGCTT
57698857 AAAAAAACA
1 AAAAAAACA
*
57698866 AAAAAAATA
1 AAAAAAACA
*
57698875 GAAAAAAATA
1 -AAAAAAACA
*
57698885 GAAAAAACA
1 AAAAAAACA
57698894 GAAAAAAACA
1 -AAAAAAACA
* *
57698904 GACAAAACA
1 AAAAAAACA
57698913 AAAAAAACA
1 AAAAAAACA
57698922 AAAAAAA
1 AAAAAAA
57698929 ATCAAGATGA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
9 36 0.68
10 17 0.32
ACGTcount: A:0.83, C:0.08, G:0.06, T:0.03
Consensus pattern (9 bp):
AAAAAAACA
Found at i:57698929 original size:19 final size:19
Alignment explanation
Indices: 57698857--57698928 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
57698847 TATTATGCTT
*
57698857 AAAAAAACAAAAAAAATAG
1 AAAAAAACAAAAAAAACAG
* *
57698876 AAAAAAATAGAAAAAACAG
1 AAAAAAACAAAAAAAACAG
* *
57698895 AAAAAAACAGACAAAACA-
1 AAAAAAACAAAAAAAACAG
57698913 AAAAAAACAAAAAAAA
1 AAAAAAACAAAAAAAA
57698929 ATCAAGATGA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
18 14 0.30
19 32 0.70
ACGTcount: A:0.83, C:0.08, G:0.06, T:0.03
Consensus pattern (19 bp):
AAAAAAACAAAAAAAACAG
Found at i:57700144 original size:74 final size:74
Alignment explanation
Indices: 57699818--57701004 Score: 1193
Period size: 74 Copynumber: 15.6 Consensus size: 74
57699808 TTTTTTTCAA
* *
57699818 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGAGTCACGCTGAGGTATTTTTTAATTTAA
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TTTTTAATTTCA
*
57699883 TTTCTATTTTTT
65 -GTCT-TTTTTT
* *
57699895 CAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAAGCCGAGGTATTTTTAATTT
1 ---AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTT
*
57699960 CTGTC-TTTTTT
63 CAGTCTTTTTTT
* *
57699971 AAAATCAACTCATAATATAGAGGTGAGTTGAGCCTCGAGTCACGCTGAGGTATTTTTTAAATTTC
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TTTTT-AATTTC
*
57700036 TG-CTTTTTTT
64 AGTCTTTTTTT
*
57700046 AAAAAAAATCAACTCATAATACAGAGGTGAGCTGAGCCTCGGGTCACGCTGAGGTATTTTTAATT
1 ----AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATT
57700111 TCAGTCTTTTTTT
62 TCAGTCTTTTTTT
*
57700124 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCGG
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCAG
57700189 TCTTTTTTT
66 TCTTTTTTT
57700198 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTT-AT
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCA-
57700262 GTCTTTTTTT
65 GTCTTTTTTT
*
57700272 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACACTGAGGTATTTTTAATTT-AT
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCA-
57700336 GTCTCTTTTTT
65 GTCT-TTTTTT
*
57700347 AAAATCAACTCATAATACAGAGGTGAGTTGAGCTTCGGGTCACGCTGAGGTATTTTTAATTTCAG
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCAG
57700412 TCTTTTTTATTT
66 TC--TTTT-TTT
*
57700424 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAA-TTCTT
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTC-A
57700488 GT-TTTTTTT
65 GTCTTTTTTT
* * *
57700497 TAAATCAACTCATAATATGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTCTTTTAAAT
1 AAAATCAACTCATAATA-CAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T-TTTT-AAT
* *
57700562 TTCTGTTTTTTTTT
61 TTCAGTCTTTTTTT
* * ** * *
57700576 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTT
1 ----AAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T-TTTT
***
57700641 AAATTT-ATGT-TTTTCAAA
58 -AATTTCA-GTCTTTT-TTT
* * * ** * *
57700659 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATGTCTTTTAAAT
1 AAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T-TTTT-AAT
***
57700724 TT-A-TGCTTTTCAA
61 TTCAGT-CTTTTTTT
* * * ** * *
57700737 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTTCTTTTAAAT
1 AAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T-TTTT-AAT
* **
57700802 TTC--TGTTTTTCA
61 TTCAGTCTTTTTTT
* * *
57700814 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTTCAA-TTC
1 AAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT-AATTTC
* **
57700878 A-TGTTTTTCA
64 AGTCTTTTTTT
* * *
57700888 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACATG-TCGAGGTATTTTT-ATT
1 AAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCAC--GCT-GAGGTATTTTTAATT
** * **
57700951 T-TTTGTTTTTCG
62 TCAGTCTTTTTTT
* * *
57700963 AAGATCAACTCATAATTCAAGAGGTGAGTTGAGTCTCGGGTC
1 AAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTC
57701005 GCACGCCGAG
Statistics
Matches: 1009, Mismatches: 60, Indels: 81
0.88 0.05 0.07
Matches are distributed among these distances:
73 70 0.07
74 313 0.31
75 130 0.13
76 26 0.03
77 130 0.13
78 89 0.09
79 139 0.14
80 49 0.05
82 4 0.00
83 59 0.06
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (74 bp):
AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCAG
TCTTTTTTT
Found at i:57700194 original size:226 final size:224
Alignment explanation
Indices: 57699790--57701004 Score: 1252
Period size: 226 Copynumber: 5.3 Consensus size: 224
57699780 TTTCAAGAAA
* **
57699790 TATTTTTAAAATTCTATTTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
1 TATTTTTAAATTTCT-GCTTTTTTT-AAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
* * *
57699855 AGTCACGCTGAGGTATTTTTTAATTTAATTTCTATTTTTTCAAAAAATCAACTCATAATACAGAG
64 GGTCACGCTGAGGTATTTTTTAATTTCA-GTCT-TTTTTT---AAAATCAACTCATAATACAGAG
*
57699920 GTGAGTTGAGCCTCGGGTCAAGCCGAGGTATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATA
124 GTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATA
* *
57699985 ATATAGAGGTGAGTTGAGCCTCGAGTCACGCTGAGG
189 ATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
*
57700021 TATTTTTTAAATTTCTGCTTTTTTTAAAAAAAATCAACTCATAATACAGAGGTGAGCTGAGCCTC
1 TA-TTTTTAAATTTCTGCTTTTTTT--AAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
57700086 GGGTCACGCTGAGGTA-TTTTTAATTTCAGTCTTTTTTTAAAATCAACTCATAATACAGAGGTGA
63 GGGTCACGCTGAGGTATTTTTTAATTTCAGTCTTTTTTTAAAATCAACTCATAATACAGAGGTGA
* *
57700150 GTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCGGTCTTTTTTTAAAATCAACTCATAATA
128 GTTGAGCCTCGGGTCACGCCGAGGTATTTTTAATTTCTGTC-TTTTTTAAAATCAACTCATAATA
57700215 CAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
192 CAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
*
57700248 TATTTTT-AATTTATGTCTTTTTTT--AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
1 TATTTTTAAATTTCTG-CTTTTTTTAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
*
57700310 GTCACACTGAGGTA-TTTTTAATTT-ATGTCTCTTTTTTAAAATCAACTCATAATACAGAGGTGA
65 GTCACGCTGAGGTATTTTTTAATTTCA-GTCT-TTTTTTAAAATCAACTCATAATACAGAGGTGA
* * *
57700373 GTTGAGCTTCGGGTCACGCTGAGGTATTTTTAATTTCAGTCTTTTTTATTTAAAATCAACTCATA
128 GTTGAGCCTCGGGTCACGCCGAGGTATTTTTAATTTCTGTC---TTT-TTTAAAATCAACTCATA
57700438 ATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
189 ATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
** * *
57700474 TATTTTT-AA-TTCTTG-TTTTTTT-TTAAATCAACTCATAATATGAGAGGTGAGTTGAGCCTCA
1 TATTTTTAAATTTC-TGCTTTTTTTAAAAAATCAACTCATAATA-CAGAGGTGAGTTGAGCCTCG
* * * *
57700535 GGTCACGCTGAGGTATTTCTTTTAAATTTCTGTTTTTTTTTCAAAAAAATCAACTCATATTGCGA
64 GGTCACGCTGAGGTA-TT-TTTT-AATTTCAGTCTTTTTTT----AAAATCAACTCATAATAC-A
** * * **
57700600 GAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATTTATGT-TTTTCAAAAAAAT
121 GAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA--T-TTTT-AATTTCTGTCTTTT--TTAAAAT
* * * ** * *
57700664 CAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGG
180 CAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
* * * *
57700710 TATGTCTTTTAAATTTATGC--TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TA--T-TTTTAAATTTCTGCTTTTTTTAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCT
* ** * * * ** * *
57700773 TGGACCATGCCGAGGTATTTCTTTTAAATTTC--TGTTTTTCAAAAATCAACTCATATTGCGAGA
62 CGGGTCACGCTGAGGTA-TT-TTTT-AATTTCAGTCTTTTTTTAAAATCAACTCATAATAC-AGA
**
57700836 GGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTTCAA-TTCATGT-TTTTCAAAAATCAACTC
123 GGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTT-AATTTC-TGTCTTTTTTAAAATCAACTC
* * *
57700899 ATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACATG-TCGAGG
186 ATAATAC-AGAGGTGAGTTGAGCCTCGGGTCAC--GCT-GAGG
** * * *
57700941 TATTTTT--ATTT-T--TTGTTTTTCGAAGATCAACTCATAATTCAAGAGGTGAGTTGAGTCTCG
1 TATTTTTAAATTTCTGCTT-TTTTTAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCG
57701001 GGTC
64 GGTC
57701005 GCACGCCGAG
Statistics
Matches: 859, Mismatches: 81, Indels: 93
0.83 0.08 0.09
Matches are distributed among these distances:
221 1 0.00
222 64 0.07
223 71 0.08
224 7 0.01
225 30 0.03
226 215 0.25
227 56 0.07
228 5 0.01
229 58 0.07
230 13 0.02
231 40 0.05
232 65 0.08
233 17 0.02
234 82 0.10
235 16 0.02
236 30 0.03
237 4 0.00
238 14 0.02
239 8 0.01
240 61 0.07
241 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (224 bp):
TATTTTTAAATTTCTGCTTTTTTTAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
TCACGCTGAGGTATTTTTTAATTTCAGTCTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTT
GAGCCTCGGGTCACGCCGAGGTATTTTTAATTTCTGTCTTTTTTAAAATCAACTCATAATACAGA
GGTGAGTTGAGCCTCGGGTCACGCTGAGG
Found at i:57700427 original size:300 final size:303
Alignment explanation
Indices: 57699818--57701004 Score: 1260
Period size: 300 Copynumber: 3.9 Consensus size: 303
57699808 TTTTTTTCAA
* *
57699818 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGAGTCACGCTGAGGTATTTTTTAATTTAA
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTAATTT-C
* *
57699883 TTTCTATTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAAGCCGAGG
65 TGTCT-TTTTTT---AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGG
* * *
57699948 TATTTTT-AATTTCTGTC-TTTTTTAAAATCAACTCATAATA-TAGAGGTGAGTTGAGCCTCGAG
126 TATTTTTAAATTTATGTCTTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
* * *
57700010 TCACGCTGAGGTATTTTTTAAATTTCTGCTTTTTTTAAAAAAAATCAACTCATAATAC-AGAGGT
191 TCACACTGAGGTATTTTTTAAATTTATG-TTTTTTT---TAAAATCAACTCATAATACAAGAGGT
* *
57700074 GAGCTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCAGTC-TTTT-TTT
252 GAGTTGAGCTTCGGGTCACGCTGAGGTATTTTTAATTTCAGTCTTTTTATTT
*
57700124 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TTTTTAATTTCG
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTAATTTCT
*
57700188 GTCTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
66 GTCTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTT
57700253 TT-AATTTATGTCTTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACA
131 TTAAATTTATGTCTTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACA
57700316 CTGAGGTA-TTTTT-AATTTATGTCTCTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGA
196 CTGAGGTATTTTTTAAATTTATGT-T-TTTTTTAAAATCAACTCATAATACAAGAGGTGAGTTGA
57700378 GCTTCGGGTCACGCTGAGGTATTTTTAATTTCAGTCTTTTTTATTT
259 GCTTCGGGTCACGCTGAGGTATTTTTAATTTCAGTC-TTTTTATTT
57700424 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TTTTTAA-TTCT
1 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTAATTTC-
* * * *
57700487 TGT-TTTTTTTTAAATCAACTCATAATATGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTAT
65 TGTCTTTTTTTAAAATCAACTCATAATA-CAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA-
* * * *
57700551 TTCTTTTAAATTTCTGTTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
128 -T-TTTTAAATTTATGTCTTTTTTT----AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCT
** ** * *** * * *
57700616 CGGACCATGCCGAGGTATTTCTTTTAAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGA
187 CGGGTCACACTGAGGTA-TT-TTTTAAATTTATGTTTTT-TTTAAAATCAACTCATAATACAAGA
** * * * *
57700681 GGTGAGTTGAGCCTT-GGACCATGCCGAGGTATGTCTTTTAAATTT-A-TGCTTTTCA--A
249 GGTGAGTTGAG-CTTCGGGTCACGCTGAGGTA--T-TTTT-AATTTCAGT-CTTTTTATTT
* * * ** * *
57700737 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTTCTTTTAAAT
1 AAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TT-TTTT-AAT
** * *
57700802 TTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGG
62 TTCTGTCTTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCCGAGG
* * ** * *
57700865 TATTTTTCAATTCATG--TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
126 TATTTTTAAATTTATGTCTTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
* * * * ** * *
57700928 GCACATGTCGAGGTA-TTTTT-ATTTTTTG-TTTTTCGAAGATCAACTCATAATTCAAGAGGTGA
191 TCACA-CT-GAGGTATTTTTTAAATTTATGTTTTTTTTAAAATCAACTCATAATACAAGAGGTGA
57700990 GTTGAG-TCTCGGGTC
254 GTTGAGCT-TCGGGTC
57701005 GCACGCCGAG
Statistics
Matches: 766, Mismatches: 74, Indels: 84
0.83 0.08 0.09
Matches are distributed among these distances:
297 65 0.08
298 1 0.00
299 38 0.05
300 171 0.22
301 55 0.07
302 2 0.00
303 11 0.01
304 50 0.07
305 14 0.02
306 57 0.07
307 4 0.01
308 58 0.08
309 29 0.04
310 6 0.01
311 4 0.01
312 26 0.03
313 51 0.07
314 42 0.05
315 8 0.01
316 7 0.01
317 60 0.08
318 4 0.01
319 3 0.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (303 bp):
AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTAATTTCT
GTCTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTT
TTAAATTTATGTCTTTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACA
CTGAGGTATTTTTTAAATTTATGTTTTTTTTAAAATCAACTCATAATACAAGAGGTGAGTTGAGC
TTCGGGTCACGCTGAGGTATTTTTAATTTCAGTCTTTTTATTT
Found at i:57701036 original size:75 final size:72
Alignment explanation
Indices: 57700579--57701039 Score: 383
Period size: 79 Copynumber: 6.0 Consensus size: 72
57700569 TTTTTTTCAA
* *
57700579 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACCATGCCGAGGTATTTCTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCCGAGGTATTTC------
*
57700643 ATTTATGTTTTTC
60 ATTTCTGTTTTTC
* * *
57700656 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGACCATGCCGAGGTATGTCTTTT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCCGAGGTA-----TTT
* * *
57700720 AAATTTATGCTTTTC
59 -CATTTCTGTTTTTC
* * *
57700735 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGACCATGCCGAGGTATTTCTTTTA
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCCGAGGTATTTC-----
57700799 AATTTCTGTTTTTC
60 -ATTTCTGTTTTTC
*
57700813 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-CACGCCGAGGTATTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCCGAGGTA--TTTCATTT
57700877 CATGTTTTTC
64 C-TGTTTTTC
* * * *
57700887 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACATGTCGAGGTATTTTTATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCCGAGGTA-TTTCA-TT
*
57700952 TTTGTTTTTC
63 TCTGTTTTTC
* * * * * *
57700962 GAAGATCAACTCATAATT-CAAGAGGTGAGTTGAGTCTCGGGTCGCACGCCGAGCTGTTCTCGAT
1 AAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCCGAGGTATT-TC-AT
*
57701026 TTCTGCTTTTC
62 TTCTGTTTTTC
57701037 AAA
1 AAA
57701040 TAAAGAGAAA
Statistics
Matches: 330, Mismatches: 29, Indels: 50
0.81 0.07 0.12
Matches are distributed among these distances:
73 7 0.02
74 51 0.15
75 68 0.21
76 16 0.05
77 48 0.15
78 68 0.21
79 69 0.21
84 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCCGAGGTATTTCATTTCT
GTTTTTC
Found at i:57701233 original size:30 final size:30
Alignment explanation
Indices: 57701199--57701333 Score: 145
Period size: 30 Copynumber: 4.6 Consensus size: 30
57701189 TATTTTTTTG
**
57701199 CATTTTAACCACTGTACTTTTC-AAAATTTA
1 CATTTTAACC-CTAAACTTTTCTAAAATTTA
*
57701229 CATTTTGACCCTAAACTTTTCTAAAATTTA
1 CATTTTAACCCTAAACTTTTCTAAAATTTA
* *
57701259 CATTTTGACCCCAAAC-TTTCTAAAA-TTA
1 CATTTTAACCCTAAACTTTTCTAAAATTTA
57701287 CATTTTAACCCTTAAA-TTTTCTCAAAA-TTA
1 CATTTTAACCC-TAAACTTTTCT-AAAATTTA
* *
57701317 CACTTTGACCCTAAACT
1 CATTTTAACCCTAAACT
57701334 CTCAAGAAAT
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
28 13 0.14
29 30 0.33
30 49 0.53
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (30 bp):
CATTTTAACCCTAAACTTTTCTAAAATTTA
Found at i:57701248 original size:29 final size:28
Alignment explanation
Indices: 57701214--57701352 Score: 147
Period size: 30 Copynumber: 4.8 Consensus size: 28
57701204 TAACCACTGT
57701214 ACTTTTCAAAATTTACATTTTGACCCTAA
1 ACTTTTCAAAA-TTACATTTTGACCCTAA
*
57701243 ACTTTTCTAAAATTTACATTTTGACCCCAA
1 ACTTTTC-AAAA-TTACATTTTGACCCTAA
*
57701273 AC-TTTCTAAAATTACATTTTAACCCTTAA
1 ACTTTTC-AAAATTACATTTTGACCC-TAA
* *
57701302 ATTTTCTCAAAATTACACTTTGACCCTAA
1 ACTTT-TCAAAATTACATTTTGACCCTAA
*
57701331 AC-TCTCAAGAAATTACATTTTG
1 ACTTTTC-A-AAATTACATTTTG
57701353 GCCCATATTT
Statistics
Matches: 95, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.02
28 15 0.16
29 35 0.37
30 41 0.43
31 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.40
Consensus pattern (28 bp):
ACTTTTCAAAATTACATTTTGACCCTAA
Found at i:57701372 original size:58 final size:56
Alignment explanation
Indices: 57701219--57701380 Score: 173
Period size: 58 Copynumber: 2.8 Consensus size: 56
57701209 ACTGTACTTT
* * *
57701219 TCAAAATTTACATTTTGACCC-TAAACTTTTCTAAAATTTACATTTTGACCCCAAACTT
1 TCAAAAATTACATTTTGACCCAT-AA-TTTTCTAAAA-TTACACTTTGACCCCAAACTC
* * * *
57701277 TCTAAAATTACATTTTAACCCTTAAATTTTCTCAAAATTACACTTTGACCCTAAACTC
1 TCAAAAATTACATTTTGACCCAT-AATTTTCT-AAAATTACACTTTGACCCCAAACTC
* *
57701335 TCAAGAAATTACATTTTGGCCCATATTTTTGCTAAAATTACACTTT
1 TCAA-AAATTACATTTTGACCCATAATTTT-CTAAAATTACACTTT
57701381 TGCCCCAGAA
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
58 63 0.71
59 26 0.29
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.40
Consensus pattern (56 bp):
TCAAAAATTACATTTTGACCCATAATTTTCTAAAATTACACTTTGACCCCAAACTC
Found at i:57701946 original size:20 final size:19
Alignment explanation
Indices: 57701918--57701965 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
57701908 GGAAGGAAGA
*
57701918 AGAAGAAAGAAAGAAAACAG
1 AGAAAAAAGAAAGAAAA-AG
57701938 AGAAAAAAGAGAAAGAAAAAG
1 AG-AAAAA-AGAAAGAAAAAG
57701959 A-AAAAAA
1 AGAAAAAA
57701966 AATAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 5 0.20
20 2 0.08
21 7 0.28
22 10 0.40
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (19 bp):
AGAAAAAAGAAAGAAAAAG
Found at i:57701953 original size:22 final size:21
Alignment explanation
Indices: 57701925--57701992 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
57701915 AGAAGAAGAA
*
57701925 AGAAAGAAAACAGAGAAAAAAG
1 AGAAAGAAAA-AGAAAAAAAAG
57701947 AGAAAGAAAAAGAAAAAAAA-
1 AGAAAGAAAAAGAAAAAAAAG
* * *
57701967 ATAAAAAAAAATAAAAGAAAA-
1 AGAAAGAAAAAGAAAA-AAAAG
57701988 AGAAA
1 AGAAA
57701993 TACATCACAG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
20 13 0.32
21 17 0.43
22 10 0.25
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (21 bp):
AGAAAGAAAAAGAAAAAAAAG
Found at i:57701958 original size:6 final size:6
Alignment explanation
Indices: 57701941--57701992 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
57701931 AAAACAGAGA
* * *
57701941 AAAAAG AGAAAG AAAAAG AAAAA- AAAATAA AAAAAA ATAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA-AG AAAAAG A-AAAAG AAAAAG
57701990 AAA
1 AAA
57701993 TACATCACAG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
5 4 0.10
6 27 0.68
7 9 0.22
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:57701965 original size:9 final size:9
Alignment explanation
Indices: 57701917--57701988 Score: 58
Period size: 9 Copynumber: 7.9 Consensus size: 9
57701907 GGGAAGGAAG
57701917 AAGAAGAAAGA
1 AAGAA-AAA-A
*
57701928 AAGAAAACA
1 AAGAAAAAA
*
57701937 GAGAAAAAA
1 AAGAAAAAA
*
57701946 GAGAAAGAAA
1 AAGAAA-AAA
57701956 AAGAAAAAA
1 AAGAAAAAA
*
57701965 AA-ATAAAA
1 AAGAAAAAA
*
57701973 AA-AAATAA
1 AAGAAAAAA
57701981 AAGAAAAA
1 AAGAAAAA
57701989 GAAATACATC
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
8 13 0.25
9 23 0.45
10 10 0.20
11 5 0.10
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:57701966 original size:10 final size:10
Alignment explanation
Indices: 57701923--57701992 Score: 68
Period size: 10 Copynumber: 6.7 Consensus size: 10
57701913 GAAGAAGAAG
57701923 AAAGAAAGAAA
1 AAAGAAA-AAA
*
57701934 ACAGAGAAAAA
1 AAAGA-AAAAA
* *
57701945 AGAGAAAGAA
1 AAAGAAAAAA
57701955 AAAGAAAAAA
1 AAAGAAAAAA
*
57701965 AAATAAAAAA
1 AAAGAAAAAA
*
57701975 AAATAAAAGAA
1 AAAGAAAA-AA
57701986 AAAGAAA
1 AAAGAAA
57701993 TACATCACAG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
10 29 0.58
11 19 0.38
12 2 0.04
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.03
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:57702284 original size:13 final size:13
Alignment explanation
Indices: 57702268--57702298 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
57702258 GAGAAAAGGA
*
57702268 AAAAAGAAAAAAC
1 AAAAACAAAAAAC
57702281 AAAAACAAAAAAC
1 AAAAACAAAAAAC
57702294 AAAAA
1 AAAAA
57702299 AGGCCCGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAC
Found at i:57702890 original size:15 final size:16
Alignment explanation
Indices: 57702870--57702916 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 16
57702860 TTTTAAAAAT
57702870 AATTTCCGTA-TTTCA
1 AATTTCCGTATTTTCA
57702885 AATTTCCGTATTTTCAAA
1 AATTTCCGTATTTTC--A
*
57702903 AATTTCCGTGTTTT
1 AATTTCCGTATTTT
57702917 AAAAAATCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 10 0.36
16 4 0.14
18 14 0.50
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (16 bp):
AATTTCCGTATTTTCA
Found at i:57702905 original size:18 final size:18
Alignment explanation
Indices: 57702884--57703098 Score: 178
Period size: 18 Copynumber: 12.2 Consensus size: 18
57702874 TCCGTATTTC
*
57702884 AAATTTCCGTATTTTCAA
1 AAATTTCCGTGTTTTCAA
*
57702902 AAATTTCCGTGTTTTAAA
1 AAATTTCCGTGTTTTCAA
57702920 AAATCTT-CGTGTTTTCAA
1 AAAT-TTCCGTGTTTTCAA
* *
57702938 GAA-TCCTCGTGTTTTC-A
1 AAATTTC-CGTGTTTTCAA
*
57702955 AAA-TTCTG-GTGTTTCAA
1 AAATTTCCGTGT-TTTCAA
* *
57702972 AAATTTTCATGTTTTCAA
1 AAATTTCCGTGTTTTCAA
*
57702990 AAATTCCCGTGTTTT-AA
1 AAATTTCCGTGTTTTCAA
57703007 AAATTTCCGTGTTTTCAA
1 AAATTTCCGTGTTTTCAA
* * *
57703025 AAATTTTCGTATTTTTAA
1 AAATTTCCGTGTTTTCAA
* * * *
57703043 GAATTTTCGTG-TCTCTA
1 AAATTTCCGTGTTTTCAA
57703060 AAA-TTCTCGTGTTTT-AA
1 AAATTTC-CGTGTTTTCAA
*
57703077 AAATTTTTCGTGTTTTCAA
1 AAA-TTTCCGTGTTTTCAA
57703096 AAA
1 AAA
57703099 AATAAATGTT
Statistics
Matches: 156, Mismatches: 28, Indels: 25
0.75 0.13 0.12
Matches are distributed among these distances:
15 2 0.01
16 8 0.05
17 38 0.24
18 97 0.62
19 11 0.07
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (18 bp):
AAATTTCCGTGTTTTCAA
Found at i:57702959 original size:53 final size:53
Alignment explanation
Indices: 57702895--57703095 Score: 205
Period size: 53 Copynumber: 3.8 Consensus size: 53
57702885 AATTTCCGTA
*
57702895 TTTTCAAAAATTTCCGTGTTTTAAAAAATCTTCGTGTTTTCAAGAATCCTCGTG
1 TTTTCAAAAA-TTCCGTGTTTTAAAAAATTTTCGTGTTTTCAAGAATCCTCGTG
* * * *
57702949 TTTTC-AAAATTCTG-GTGTTTCAAAAATTTTCATGTTTTCAAAAATTCC-CGTG
1 TTTTCAAAAATTCCGTGT-TTTAAAAAATTTTCGTGTTTTCAAGAA-TCCTCGTG
* * * **
57703001 TTTT-AAAAATTTCCGTGTTTTCAAAAATTTTCGTATTTTTAAGAATTTTCGTG
1 TTTTCAAAAA-TTCCGTGTTTTAAAAAATTTTCGTGTTTTCAAGAATCCTCGTG
* * *
57703054 -TCTCTAAAATTCTCGTGTTTTAAAAATTTTTCGTGTTTTCAA
1 TTTTCAAAAATTC-CGTGTTTTAAAAAATTTTCGTGTTTTCAA
57703096 AAAAATAAAT
Statistics
Matches: 121, Mismatches: 18, Indels: 17
0.78 0.12 0.11
Matches are distributed among these distances:
51 2 0.02
52 45 0.37
53 67 0.55
54 7 0.06
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (53 bp):
TTTTCAAAAATTCCGTGTTTTAAAAAATTTTCGTGTTTTCAAGAATCCTCGTG
Found at i:57702967 original size:35 final size:35
Alignment explanation
Indices: 57702895--57703145 Score: 213
Period size: 35 Copynumber: 7.1 Consensus size: 35
57702885 AATTTCCGTA
* *
57702895 TTTTCAAAAATTTCCGTGTTTT-AAAAAATCTTCGTG
1 TTTT-AAAAATTTTCGTGTTTTCAAAAATTC-TCGTG
* ** *
57702931 TTTTCAAGAATCCTCGTGTTTTC-AAAATTCTGGTG
1 TTTT-AAAAATTTTCGTGTTTTCAAAAATTCTCGTG
* * *
57702966 TTTCAAAAATTTTCATGTTTTCAAAAATTCCCGTG
1 TTTTAAAAATTTTCGTGTTTTCAAAAATTCTCGTG
* * *
57703001 TTTTAAAAATTTCCGTGTTTTCAAAAATTTTCGTAT
1 TTTTAAAAATTTTCGTGTTTTCAAAAATTCTCGT-G
* * *
57703037 TTTTAAGAATTTTCGTG-TCTCTAAAATTCTCGTG
1 TTTTAAAAATTTTCGTGTTTTCAAAAATTCTCGTG
* ***
57703071 TTTTAAAAATTTTTCGTGTTTTCAAAAAAAT-AAATG
1 TTTTAAAAA-TTTTCGTGTTTTC-AAAAATTCTCGTG
* * * *
57703107 TTTCAAAAATCTTCGTGTTTTTAAAAATTCTCGTA
1 TTTTAAAAATTTTCGTGTTTTCAAAAATTCTCGTG
57703142 TTTT
1 TTTT
57703146 GATCTGATCG
Statistics
Matches: 167, Mismatches: 41, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
34 28 0.17
35 82 0.49
36 52 0.31
37 5 0.03
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (35 bp):
TTTTAAAAATTTTCGTGTTTTCAAAAATTCTCGTG
Done.