Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 301 of 352
Found at i:98691695 original size:20 final size:21
Alignment explanation
Indices: 98691664--98691721 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
98691654 CTTTATATAT
*
98691664 TTTGAAATTTTTATAAA-TAA
1 TTTGAATTTTTTATAAATTAA
*
98691684 TTTGAATTTTTTGA-AAATTAT
1 TTTGAATTTTTT-ATAAATTAA
98691705 TTTGAATTATTTTATAA
1 TTTGAATT-TTTTATAA
98691722 TTTTTGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 14 0.44
21 12 0.38
22 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (21 bp):
TTTGAATTTTTTATAAATTAA
Found at i:98691723 original size:21 final size:20
Alignment explanation
Indices: 98691661--98691723 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
98691651 TTTCTTTATA
* *
98691661 TATTTTGAAATTTTTATAAA
1 TATTTTGAATTTTTTATAAT
* *
98691681 TAATTTGAATTTTTTGAAAAT
1 TATTTTGAATTTTTT-ATAAT
98691702 TATTTTGAATTATTTTATAAT
1 TATTTTGAATT-TTTTATAAT
98691723 T
1 T
98691724 TTTGTTGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
20 13 0.37
21 18 0.51
22 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
TATTTTGAATTTTTTATAAT
Found at i:98696602 original size:82 final size:82
Alignment explanation
Indices: 98696500--98696658 Score: 266
Period size: 82 Copynumber: 1.9 Consensus size: 82
98696490 GTAGTTAAGC
* * *
98696500 TATCCTCTACTCTTAGGACTATGT-AGGTCACATAACTTGTCTTATTTGAAGTTGGTAATCTTTT
1 TATCCTCTACTCTTAGGACTATGTGA-GTCAAATAACTTGTCCTATTTGAAGTTGATAATCTTTT
98696564 CATCAAAATCAGTCATAA
65 CATCAAAATCAGTCATAA
*
98696582 TATCCTCTGCTCTTAGGACTATGTGAGTCAAATAACTTGTCCTATTTGAAGTTGATAATCTTTTC
1 TATCCTCTACTCTTAGGACTATGTGAGTCAAATAACTTGTCCTATTTGAAGTTGATAATCTTTTC
98696647 ATCAAAATCAGT
66 ATCAAAATCAGT
98696659 TGACAATAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
82 71 0.99
83 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (82 bp):
TATCCTCTACTCTTAGGACTATGTGAGTCAAATAACTTGTCCTATTTGAAGTTGATAATCTTTTC
ATCAAAATCAGTCATAA
Found at i:98700097 original size:28 final size:28
Alignment explanation
Indices: 98700038--98700105 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 28
98700028 TAAATTATAC
**
98700038 TTTTTAAATAATTTTAATAGTTTCTAGT
1 TTTTTAAATAATTTTAATAGTTTCTAAA
* * * *
98700066 TTTTTTAATAATTTTTATATTTTTTAAA
1 TTTTTAAATAATTTTAATAGTTTCTAAA
*
98700094 -TTTTAAAAAATT
1 TTTTTAAATAATT
98700106 AATTGCTTAC
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
27 10 0.31
28 22 0.69
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.60
Consensus pattern (28 bp):
TTTTTAAATAATTTTAATAGTTTCTAAA
Found at i:98707045 original size:17 final size:16
Alignment explanation
Indices: 98707009--98707068 Score: 54
Period size: 17 Copynumber: 3.8 Consensus size: 16
98706999 ATTATTTTAA
*
98707009 TAATTTAATATTAAATT
1 TAATTTAATATT-TATT
98707026 TAATTTAATATTTATCT
1 TAATTTAATATTTAT-T
*
98707043 TAA--TAGTATTT-TAT
1 TAATTTAATATTTAT-T
98707057 TAATTTAATATT
1 TAATTTAATATT
98707069 AAAATGATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 5 0.14
15 7 0.19
16 8 0.22
17 16 0.44
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
TAATTTAATATTTATT
Found at i:98707070 original size:11 final size:11
Alignment explanation
Indices: 98706995--98707070 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
98706985 ATTCCAAAAA
*
98706995 TAATATTATTT
1 TAATATTAATT
98707006 TAATAATTTAATAT
1 TAAT-A-TTAAT-T
98707020 TAA-ATTTAATT
1 TAATA-TTAATT
*
98707031 TAATATTTATCT
1 TAATATTAAT-T
*
98707043 TAATAGT-ATT
1 TAATATTAATT
98707053 T--TATTAATT
1 TAATATTAATT
98707062 TAATATTAA
1 TAATATTAA
98707071 AATGATTATA
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 20 0.38
12 16 0.30
13 4 0.08
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:98707287 original size:26 final size:22
Alignment explanation
Indices: 98707258--98707305 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 22
98707248 AGTTGTAGAG
98707258 AGAAAATTCTCTGAAGAGATTATTTT
1 AGAAAATT-TCT-AA-AGA-TATTTT
98707284 AGAAAATTTCTAAAGATATTTT
1 AGAAAATTTCTAAAGATATTTT
98707306 TCTGATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 3 0.14
24 2 0.09
25 3 0.14
26 8 0.36
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (22 bp):
AGAAAATTTCTAAAGATATTTT
Found at i:98712117 original size:21 final size:21
Alignment explanation
Indices: 98712093--98712161 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
98712083 AAAAAAAGGC
98712093 ATCAATATTTATAAAAACATG
1 ATCAATATTTATAAAAACATG
* **
98712114 ATCAATATATT-TTAAGTCATG
1 ATCAATAT-TTATAAAAACATG
* *
98712135 GT-AA-CTTTATAAAAACATG
1 ATCAATATTTATAAAAACATG
98712154 ATCAATAT
1 ATCAATAT
98712162 ATTTTAAGTC
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
18 2 0.06
19 9 0.26
20 4 0.12
21 17 0.50
22 2 0.06
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.36
Consensus pattern (21 bp):
ATCAATATTTATAAAAACATG
Found at i:98712123 original size:23 final size:23
Alignment explanation
Indices: 98712097--98712165 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 23
98712087 AAAGGCATCA
98712097 ATATTTATAAAAACATGATCAAT
1 ATATTTATAAAAACATGATCAAT
** *
98712120 ATATTT-T-AAGTCATGGT--A-
1 ATATTTATAAAAACATGATCAAT
*
98712138 A-CTTTATAAAAACATGATCAAT
1 ATATTTATAAAAACATGATCAAT
98712160 ATATTT
1 ATATTT
98712166 TAAGTCATGG
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
17 3 0.09
18 2 0.06
19 8 0.25
21 8 0.25
22 2 0.06
23 9 0.28
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (23 bp):
ATATTTATAAAAACATGATCAAT
Found at i:98712144 original size:40 final size:40
Alignment explanation
Indices: 98712100--98712192 Score: 186
Period size: 40 Copynumber: 2.3 Consensus size: 40
98712090 GGCATCAATA
98712100 TTTATAAAAACATGATCAATATATTTTAAGTCATGGTAAC
1 TTTATAAAAACATGATCAATATATTTTAAGTCATGGTAAC
98712140 TTTATAAAAACATGATCAATATATTTTAAGTCATGGTAAC
1 TTTATAAAAACATGATCAATATATTTTAAGTCATGGTAAC
98712180 TTTATAAAAACAT
1 TTTATAAAAACAT
98712193 ATTATTAACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.38
Consensus pattern (40 bp):
TTTATAAAAACATGATCAATATATTTTAAGTCATGGTAAC
Found at i:98712174 original size:21 final size:21
Alignment explanation
Indices: 98712110--98712174 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
98712100 TTTATAAAAA
98712110 CATGATCAATATATTTTAAGT
1 CATGATCAATATATTTTAAGT
* * * **
98712131 CATGGT-AACT-T-TATAAAAA
1 CATGATCAA-TATATTTTAAGT
98712150 CATGATCAATATATTTTAAGT
1 CATGATCAATATATTTTAAGT
98712171 CATG
1 CATG
98712175 GTAACTTTAT
Statistics
Matches: 30, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
19 10 0.33
20 6 0.20
21 14 0.47
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (21 bp):
CATGATCAATATATTTTAAGT
Found at i:98715442 original size:14 final size:14
Alignment explanation
Indices: 98715419--98715458 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
98715409 ACAGAAAAGT
*
98715419 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
98715433 AAATCATTTTACGG
1 AAAACATTTTACAG
98715447 AAAACATTTTAC
1 AAAACATTTTAC
98715459 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:98715444 original size:34 final size:35
Alignment explanation
Indices: 98715384--98715450 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
98715374 CAAACACCAG
* *
98715384 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
98715419 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
98715451 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:98718321 original size:37 final size:37
Alignment explanation
Indices: 98718280--98718355 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
98718270 AAAGATGATT
*
98718280 TTCACCTTTTGAATTATATAAATAAATTATTTTTGTC
1 TTCACCTTTTGAATTATATAAATAAACTATTTTTGTC
*
98718317 TTCACCTTTTGAATTATATAAATAAGCTATTTTTGTC
1 TTCACCTTTTGAATTATATAAATAAACTATTTTTGTC
98718354 TT
1 TT
98718356 TCATATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (37 bp):
TTCACCTTTTGAATTATATAAATAAACTATTTTTGTC
Found at i:98738175 original size:73 final size:73
Alignment explanation
Indices: 98738044--98738180 Score: 184
Period size: 73 Copynumber: 1.9 Consensus size: 73
98738034 TCTCTGACTT
* * *
98738044 GGGTCACACGGTCAAGCCACACGCCCGTGTGCTAGGCCATGTAAGCATACTAACTTGCATTAATA
1 GGGTCACACGGCCAAGCCACACGCCCATGTGCTAGGCCATGTAAGCATACTAACTTGCACTAATA
98738109 AGATGCAG
66 AGATGCAG
* ** * * **
98738117 GGGTCACACGGCCAAGCCACATGCCCATGTGCTAGGCTGTGTGAGCATTCTATTTTGCACTAAT
1 GGGTCACACGGCCAAGCCACACGCCCATGTGCTAGGCCATGTAAGCATACTAACTTGCACTAAT
98738181 TAAAAGATAC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 54 1.00
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (73 bp):
GGGTCACACGGCCAAGCCACACGCCCATGTGCTAGGCCATGTAAGCATACTAACTTGCACTAATA
AGATGCAG
Found at i:98738814 original size:52 final size:52
Alignment explanation
Indices: 98738731--98738836 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 52
98738721 GAATTACTAC
* * *
98738731 AAAATAGGGAAAATAAAATAGAGTAAACATTTCATGCTTAGTAAGTTCGTAT
1 AAAACAGGGAAAATAAAACAGAGTAAACATTTAATGCTTAGTAAGTTCGTAT
*
98738783 AAAACAGGGAAAATAAAACAGAGTAAGCATTTAATGCTTAGTAAGTTCGTAT
1 AAAACAGGGAAAATAAAACAGAGTAAACATTTAATGCTTAGTAAGTTCGTAT
98738835 AA
1 AA
98738837 CATGGAATCT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.26
Consensus pattern (52 bp):
AAAACAGGGAAAATAAAACAGAGTAAACATTTAATGCTTAGTAAGTTCGTAT
Found at i:98741526 original size:24 final size:24
Alignment explanation
Indices: 98741465--98741528 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
98741455 GAAGCCAAGT
* * *
98741465 GTAGAGATGAAAATTAGTACTAGG
1 GTAGAGATGAAGATGAGTACGAGG
*
98741489 GTGGAGATGAAGATGAGTACGAGG
1 GTAGAGATGAAGATGAGTACGAGG
* *
98741513 GTAGAGGTGGAGATGA
1 GTAGAGATGAAGATGA
98741529 AGAAGATGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.36, C:0.03, G:0.41, T:0.20
Consensus pattern (24 bp):
GTAGAGATGAAGATGAGTACGAGG
Found at i:98745149 original size:131 final size:131
Alignment explanation
Indices: 98744915--98745186 Score: 481
Period size: 131 Copynumber: 2.1 Consensus size: 131
98744905 GAAAATCTTG
*
98744915 AAAATAAAGGCAATATTCCATATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
1 AAAATAAAGGAAATATTCCATATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
*
98744980 TTTTTCTCGCGTTGAACCTAAATAACCAAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAAT
66 TTTTTCTCGCGTTGAACCTAAATAACCAAATATCCTTTTAAAACTAAAATAAATATGTTTTAAAT
98745045 A
131 A
* *
98745046 AAAATAAAGGAAATATTCCGTATTTGGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
1 AAAATAAAGGAAATATTCCATATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
**
98745111 TTTTTCTCGCGTTGAACCTAAATAACTGAATATCCTTTTAAAACTAAAATAAATATGTTTTAAAT
66 TTTTTCTCGCGTTGAACCTAAATAACCAAATATCCTTTTAAAACTAAAATAAATATGTTTTAAAT
98745176 A
131 A
*
98745177 AAAACAAAGG
1 AAAATAAAGG
98745187 CGAGCTTATT
Statistics
Matches: 134, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 134 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (131 bp):
AAAATAAAGGAAATATTCCATATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
TTTTTCTCGCGTTGAACCTAAATAACCAAATATCCTTTTAAAACTAAAATAAATATGTTTTAAAT
A
Found at i:98748353 original size:27 final size:27
Alignment explanation
Indices: 98748323--98748376 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
98748313 TCGGGTTTCC
98748323 ACGCTTCAACCATTTTCTTCAAAATCT
1 ACGCTTCAACCATTTTCTTCAAAATCT
98748350 ACGCTTCAACCATTTTCTTCAAAATCT
1 ACGCTTCAACCATTTTCTTCAAAATCT
98748377 TATTATTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.37
Consensus pattern (27 bp):
ACGCTTCAACCATTTTCTTCAAAATCT
Found at i:98748661 original size:8 final size:8
Alignment explanation
Indices: 98748648--98748678 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
98748638 AGAAAATGGA
98748648 GATGTTGC
1 GATGTTGC
98748656 GATGTTGC
1 GATGTTGC
98748664 GATGTTGC
1 GATGTTGC
98748672 GAT-TTGC
1 GATGTTGC
98748679 ACATCAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.17
8 19 0.83
ACGTcount: A:0.13, C:0.13, G:0.35, T:0.39
Consensus pattern (8 bp):
GATGTTGC
Found at i:98753429 original size:41 final size:40
Alignment explanation
Indices: 98753384--98753508 Score: 128
Period size: 43 Copynumber: 3.0 Consensus size: 40
98753374 CGGCCCATTT
*
98753384 TTTAATAAAA-TA-CCAAAAATTTATTTTAAAAATTAAAAAAA
1 TTTAAAAAAAGTATCCAAAAA--TATTTT-AAAATTAAAAAAA
**
98753425 TTTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAA
1 TTTAAAAAAAGTA-TCCAAAAATATTTTAAAATTAAAAAAA
**
98753466 TTTAAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAA
1 TTT--AAAAAAAGTA-TCCAAAAATATTTTAAAATTAAAAAAA
98753509 GTATTTTAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
41 25 0.33
42 8 0.11
43 38 0.50
44 5 0.07
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (40 bp):
TTTAAAAAAAGTATCCAAAAATATTTTAAAATTAAAAAAA
Found at i:98753433 original size:31 final size:29
Alignment explanation
Indices: 98753405--98753549 Score: 124
Period size: 31 Copynumber: 5.0 Consensus size: 29
98753395 ACCAAAAATT
98753405 TATTTTAAAAATTAAAAAAATTTAAAAAAA
1 TATTTTAAAAATTAAAAAAATTT-AAAAAA
***
98753435 GTATTTTAAAAATATTTTAAAA-TTAAAAAA
1 -TATTTTAAAAAT-TAAAAAAATTTAAAAAA
** *
98753465 -A-TTTAAAAA--AAAAGTATTTTAAAAA
1 TATTTTAAAAATTAAAAAAATTTAAAAAA
*
98753490 TATTTT-AAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAAATT-AAAAAA--ATTTAAAAAA
98753521 TATTTT-AAAATTAAAAAAATTTAAAAAA
1 TATTTTAAAAATTAAAAAAATTTAAAAAA
98753549 T
1 T
98753550 GAATATATTT
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
24 2 0.02
25 7 0.08
26 5 0.05
27 11 0.12
28 11 0.12
29 4 0.04
30 12 0.13
31 36 0.39
32 5 0.05
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (29 bp):
TATTTTAAAAATTAAAAAAATTTAAAAAA
Found at i:98753479 original size:43 final size:41
Alignment explanation
Indices: 98753405--98753530 Score: 182
Period size: 43 Copynumber: 3.0 Consensus size: 41
98753395 ACCAAAAATT
98753405 TATTTTAAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAA
98753447 TATTTTAAAATTAAAAAAATTTAAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTT--AAAAAAAGTATTTTAAAAA
**
98753490 TATTTTAAAATTAAAAAAAGTATTTTAAAAA-TATTTTAAAA
1 TATTTTAAAATTAAAAAAA-T-TTAAAAAAAGTATTTTAAAA
98753531 TTAAAAAAAT
Statistics
Matches: 78, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
41 16 0.21
42 16 0.21
43 43 0.55
44 1 0.01
45 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAA
Found at i:98753486 original size:74 final size:74
Alignment explanation
Indices: 98753405--98753548 Score: 245
Period size: 74 Copynumber: 1.9 Consensus size: 74
98753395 ACCAAAAATT
98753405 TATTTTAAAAAT-TAAAAAAATTTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTT
1 TATTTTAAAAATATAAAAAAA-TTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTT
98753469 AAAAAAAAAG
65 AAAAAAAAAG
***
98753479 TATTTTAAAAATATTTTAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTA
1 TATTTTAAAAATATAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTA
98753544 AAAAA
66 AAAAA
98753549 TGAATATATT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
74 61 0.92
75 5 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (74 bp):
TATTTTAAAAATATAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTA
AAAAAAAAG
Found at i:98753488 original size:11 final size:11
Alignment explanation
Indices: 98753473--98753530 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
98753463 AAATTTAAAA
98753473 AAAAAGTATTTT
1 AAAAA-TATTTT
98753485 AAAAATATTTT
1 AAAAATATTTT
**
98753496 --AAA-ATTAA
1 AAAAATATTTT
98753504 AAAAAGTATTTT
1 AAAAA-TATTTT
98753516 AAAAATATTTT
1 AAAAATATTTT
98753527 AAAA
1 AAAA
98753531 TTAAAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
8 3 0.08
9 3 0.08
10 3 0.08
11 16 0.42
12 13 0.34
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:98753547 original size:17 final size:17
Alignment explanation
Indices: 98753514--98753547 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
98753504 AAAAAGTATT
* *
98753514 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTAAAAA
98753531 TTAAAAAAATTTAAAAA
1 TTAAAAAAATTTAAAAA
98753548 ATGAATATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAATTTAAAAA
Found at i:98760960 original size:28 final size:28
Alignment explanation
Indices: 98760887--98760960 Score: 76
Period size: 34 Copynumber: 2.4 Consensus size: 28
98760877 CGAATATAAT
98760887 AAATATTTTTTTTTATTTTTTAATTTTA
1 AAATATTTTTTTTTATTTTTTAATTTTA
*
98760915 AAATACTTTTAAAATTTTTTATTTTTTATTTTTA
1 AAATA--TTT----TTTTTTATTTTTTAATTTTA
*
98760949 AAATAATTTTTT
1 AAATATTTTTTT
98760961 AATGTTTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
28 9 0.24
30 3 0.08
32 2 0.05
34 24 0.63
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (28 bp):
AAATATTTTTTTTTATTTTTTAATTTTA
Found at i:98775066 original size:6 final size:6
Alignment explanation
Indices: 98775055--98775082 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
98775045 TTCAATTTTG
98775055 AATTGA AATTGA AATTGA AATTGA AATT
1 AATTGA AATTGA AATTGA AATTGA AATT
98775083 TTTGTTGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (6 bp):
AATTGA
Found at i:98780073 original size:20 final size:23
Alignment explanation
Indices: 98780050--98780090 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
98780040 TTGATGTGTA
98780050 TGATT-TT-TATTATT-TTATGC
1 TGATTCTTATATTATTATTATGC
98780070 TGATTCTTATATTATTATTAT
1 TGATTCTTATATTATTATTAT
98780091 ATGATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 7 0.39
23 4 0.22
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.63
Consensus pattern (23 bp):
TGATTCTTATATTATTATTATGC
Found at i:98780727 original size:17 final size:19
Alignment explanation
Indices: 98780707--98780751 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
98780697 TTAAAATAGT
98780707 AACAAAATTA-AAAATAA-
1 AACAAAATTATAAAATAAC
*
98780724 AACAAAAGTTATACAATAAC
1 AACAAAA-TTATAAAATAAC
98780744 AACAAAAT
1 AACAAAAT
98780752 AGTAGCAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 3 0.12
19 7 0.29
20 7 0.29
ACGTcount: A:0.69, C:0.11, G:0.02, T:0.18
Consensus pattern (19 bp):
AACAAAATTATAAAATAAC
Found at i:98784361 original size:3 final size:3
Alignment explanation
Indices: 98784353--98784384 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
98784343 CGGTAGGGTT
98784353 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
98784385 GCTCAGTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:98792887 original size:9 final size:9
Alignment explanation
Indices: 98792869--98792942 Score: 51
Period size: 9 Copynumber: 8.2 Consensus size: 9
98792859 GAAAATGGGA
*
98792869 CCAGGTGGG
1 CCAGGAGGG
98792878 CCAGGAGGG
1 CCAGGAGGG
*
98792887 CCACCG-GGG
1 CCA-GGAGGG
* *
98792896 CCAGGTGGA
1 CCAGGAGGG
*
98792905 CCAGGGGGG
1 CCAGGAGGG
***
98792914 CCTCCAGGG
1 CCAGGAGGG
*
98792923 CCAGGAGGA
1 CCAGGAGGG
98792932 CCAGGAGGG
1 CCAGGAGGG
98792941 CC
1 CC
98792943 TCCAGGATGG
Statistics
Matches: 48, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
8 1 0.02
9 46 0.96
10 1 0.02
ACGTcount: A:0.18, C:0.30, G:0.49, T:0.04
Consensus pattern (9 bp):
CCAGGAGGG
Found at i:98792899 original size:27 final size:27
Alignment explanation
Indices: 98792869--98792948 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
98792859 GAAAATGGGA
* *
98792869 CCAGGTGGGCCAGGAGGGCCACCGGGG
1 CCAGGTGGACCAGGAGGGCCACCAGGG
* *
98792896 CCAGGTGGACCAGGGGGGCCTCCAGGG
1 CCAGGTGGACCAGGAGGGCCACCAGGG
* *
98792923 CCAGGAGGACCAGGAGGGCCTCCAGG
1 CCAGGTGGACCAGGAGGGCCACCAGG
98792949 ATGGGGCGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.17, C:0.30, G:0.47, T:0.05
Consensus pattern (27 bp):
CCAGGTGGACCAGGAGGGCCACCAGGG
Found at i:98793093 original size:39 final size:39
Alignment explanation
Indices: 98792929--98793080 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
98792919 AGGGCCAGGA
* * * *
98792929 GGACCAGGAGGGCCTCCAGGATGGGGCGGTCCTGCACCC
1 GGACCAGGAGGGCCACCGGGGTGGGGCGGTCCTCCACCC
*
98792968 GGACCAGGAGGGCCACCGGGATGGGGCGGTCCTCCACCC
1 GGACCAGGAGGGCCACCGGGGTGGGGCGGTCCTCCACCC
98793007 GGACCAGGAGGGCCACCGGGGTGGGGCGGTCCTCCACCC
1 GGACCAGGAGGGCCACCGGGGTGGGGCGGTCCTCCACCC
*
98793046 GGACCAGG-GGGACCACCGGGGTGGGGCGGCCCTCC
1 GGACCAGGAGGG-CCACCGGGGTGGGGCGGTCCTCC
98793081 GGTCGGACCA
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 3 0.03
39 104 0.97
ACGTcount: A:0.14, C:0.35, G:0.43, T:0.08
Consensus pattern (39 bp):
GGACCAGGAGGGCCACCGGGGTGGGGCGGTCCTCCACCC
Found at i:98802387 original size:22 final size:22
Alignment explanation
Indices: 98802362--98802404 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
98802352 TTAATTAATC
98802362 TTTAT-ATTGTATATATTATTTT
1 TTTATAATTGTA-ATATTATTTT
*
98802384 TTTATAATTTTAATATTATTT
1 TTTATAATTGTAATATTATTT
98802405 GAACAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTATAATTGTAATATTATTTT
Found at i:98804410 original size:23 final size:23
Alignment explanation
Indices: 98804378--98804433 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
98804368 AGTGAGTGAC
*
98804378 GTCGCGACGTATATATACATGTT
1 GTCGCAACGTATATATACATGTT
*
98804401 GTCGCAACGTATGTATACATGTT
1 GTCGCAACGTATATATACATGTT
*
98804424 GTCGCTACGT
1 GTCGCAACGT
98804434 GAGTCACTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (23 bp):
GTCGCAACGTATATATACATGTT
Found at i:98807183 original size:19 final size:19
Alignment explanation
Indices: 98807150--98807189 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
98807140 TGTAAATGGT
*
98807150 CTTATCATATTAGTGTATG
1 CTTATCATATGAGTGTATG
* *
98807169 CTTATCATGTGAGTGTGTG
1 CTTATCATATGAGTGTATG
98807188 CT
1 CT
98807190 AGTTGTGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.20, C:0.12, G:0.23, T:0.45
Consensus pattern (19 bp):
CTTATCATATGAGTGTATG
Found at i:98814009 original size:4 final size:4
Alignment explanation
Indices: 98813995--98814045 Score: 75
Period size: 4 Copynumber: 12.8 Consensus size: 4
98813985 GTAGGGACGA
* * *
98813995 ATAC GTAC ATAC ATAC ATAC ATAC ATAC ATAC ATTC ATAC ATAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
98814043 ATA
1 ATA
98814046 TACATATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:98826985 original size:27 final size:27
Alignment explanation
Indices: 98826955--98827012 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
98826945 AAAATGTGAG
98826955 AATTATGATATTTGAAAGTTTGGATGA
1 AATTATGATATTTGAAAGTTTGGATGA
98826982 AATTATGATATTTGAAAGTTTGGATGA
1 AATTATGATATTTGAAAGTTTGGATGA
98827009 AATT
1 AATT
98827013 GAAAAGCTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (27 bp):
AATTATGATATTTGAAAGTTTGGATGA
Found at i:98829754 original size:11 final size:11
Alignment explanation
Indices: 98829740--98829776 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
98829730 AATTAAAAAA
98829740 AAAAGTATTTT
1 AAAAGTATTTT
98829751 AAAAGTATTTT
1 AAAAGTATTTT
*
98829762 AAAAATATTTT
1 AAAAGTATTTT
98829773 AAAA
1 AAAA
98829777 TTTAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:98829792 original size:27 final size:26
Alignment explanation
Indices: 98829762--98829824 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
98829752 AAAGTATTTT
*
98829762 AAAAATATTTTAAAATTTAAAAATAAA
1 AAAAATATTTTAAAA-ATAAAAATAAA
**
98829789 AAAAATATTTTAAAAATAAAAATATT
1 AAAAATATTTTAAAAATAAAAATAAA
98829815 AAAAATATTT
1 AAAAATATTT
98829825 ATTATATCGG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
AAAAATATTTTAAAAATAAAAATAAA
Found at i:98830395 original size:26 final size:25
Alignment explanation
Indices: 98830366--98830428 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
98830356 AGTTTTGGAT
* *
98830366 ATTAAAAATATTTTAAATTTTAATTA
1 ATTAAAAATATTTAAAATGTTAA-TA
*
98830392 ATTATAAAACA-TTAAAATGTTAATA
1 ATTA-AAAATATTTAAAATGTTAATA
*
98830417 TTTAAAAATATT
1 ATTAAAAATATT
98830429 AAATATTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
24 5 0.17
25 6 0.20
26 14 0.47
27 5 0.17
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
ATTAAAAATATTTAAAATGTTAATA
Found at i:98833185 original size:2 final size:2
Alignment explanation
Indices: 98833173--98833218 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
98833163 ACTTTTTGCT
* *
98833173 TC TC GC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
98833215 TC TC
1 TC TC
98833219 CTATGGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (2 bp):
TC
Found at i:98838847 original size:3 final size:3
Alignment explanation
Indices: 98838839--98838874 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
98838829 CATCTACTTC
98838839 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
98838875 ACTCCCTTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:98864449 original size:21 final size:20
Alignment explanation
Indices: 98864425--98864471 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
98864415 TTTTTTAAAA
*
98864425 TTTATTTATTTTTATATATT
1 TTTATTTATTTTTATAGATT
*
98864445 CTTTA-TAATTTTT-TAGATT
1 -TTTATTTATTTTTATAGATT
98864464 TTTATTTA
1 TTTATTTA
98864472 ATATTTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 4 0.18
19 7 0.32
20 7 0.32
21 4 0.18
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTATTTATTTTTATAGATT
Found at i:98867436 original size:25 final size:25
Alignment explanation
Indices: 98867402--98867452 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
98867392 TTCCTTATAA
**
98867402 ACTTTAAATTAAGAATTCTATTAGG
1 ACTTTAAATTAAGAATTAGATTAGG
*
98867427 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAAGAATTAGATTAGG
98867452 A
1 A
98867453 TTTTCCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAAGAATTAGATTAGG
Found at i:98872122 original size:25 final size:25
Alignment explanation
Indices: 98872073--98872123 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
98872063 TTCCTTATAA
**
98872073 ACTTTAAATTAGGAATTCTACTAGG
1 ACTTTAAATTAGGAATTAGACTAGG
*
98872098 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGACTAGG
98872123 A
1 A
98872124 TTTTCCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGACTAGG
Found at i:98881204 original size:37 final size:37
Alignment explanation
Indices: 98881163--98881236 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
98881153 AGTTTTTTAG
98881163 GTGGGCTTGAGTTGGACATGAACAAAGCTTTTACTTA
1 GTGGGCTTGAGTTGGACATGAACAAAGCTTTTACTTA
98881200 GTGGGCTTGAGTTGGACATGAACAAAGCTTTTACTTA
1 GTGGGCTTGAGTTGGACATGAACAAAGCTTTTACTTA
98881237 AATAAGTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (37 bp):
GTGGGCTTGAGTTGGACATGAACAAAGCTTTTACTTA
Found at i:98883180 original size:16 final size:16
Alignment explanation
Indices: 98883156--98883192 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
98883146 AGTCTCTTTT
*
98883156 ACTACTGTTATCAACA
1 ACTATTGTTATCAACA
98883172 ACTATTGTTATCAACA
1 ACTATTGTTATCAACA
*
98883188 TCTAT
1 ACTAT
98883193 CCTTCAAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (16 bp):
ACTATTGTTATCAACA
Found at i:98885761 original size:39 final size:39
Alignment explanation
Indices: 98885697--98885953 Score: 372
Period size: 39 Copynumber: 6.5 Consensus size: 39
98885687 TAATGGAGAA
*
98885697 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
98885736 TTATATCCGGGCTAAATCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
98885775 TTATATCCGGGCTAAGTCCAGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
**
98885814 TTATATATGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
98885853 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
98885892 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
98885931 TTATATTCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
98885954 CATGCTTTGT
Statistics
Matches: 197, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
39 175 0.89
40 22 0.11
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:98895495 original size:30 final size:32
Alignment explanation
Indices: 98895459--98895519 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
98895449 GGATGAAAAT
*
98895459 TTTAACG-AAAAGGACTAGTTTGCTC-TTTTA
1 TTTAACGTAAAAGGACTAATTTGCTCATTTTA
* *
98895489 TTTAACGTACAGGGACTAATTTGCTCATTTT
1 TTTAACGTAAAAGGACTAATTTGCTCATTTT
98895520 TGGAGTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 7 0.27
31 15 0.58
32 4 0.15
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (32 bp):
TTTAACGTAAAAGGACTAATTTGCTCATTTTA
Found at i:98904522 original size:16 final size:16
Alignment explanation
Indices: 98904501--98904548 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
98904491 CTTTCTCATT
98904501 AATAAAAACAAAGAAA
1 AATAAAAACAAAGAAA
* *
98904517 AATAAAAACAGATAAA
1 AATAAAAACAAAGAAA
* *
98904533 AATGACAA-AAAGAAA
1 AATAAAAACAAAGAAA
98904548 A
1 A
98904549 GAAAAAAACT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 6 0.23
16 20 0.77
ACGTcount: A:0.77, C:0.06, G:0.08, T:0.08
Consensus pattern (16 bp):
AATAAAAACAAAGAAA
Found at i:98910799 original size:27 final size:27
Alignment explanation
Indices: 98910768--98910821 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
98910758 ATTTGGCAGA
* *
98910768 GTTGGTTGTTTACTCGAACCATTTGTT
1 GTTGGTCGTTTACCCGAACCATTTGTT
98910795 GTTGGTCGTTTACCCGAACCATTTGTT
1 GTTGGTCGTTTACCCGAACCATTTGTT
98910822 AAACATCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (27 bp):
GTTGGTCGTTTACCCGAACCATTTGTT
Found at i:98925060 original size:69 final size:68
Alignment explanation
Indices: 98924987--98925429 Score: 293
Period size: 69 Copynumber: 6.4 Consensus size: 68
98924977 ACAGTTAACA
* **
98924987 AGAGCAAAGCAT-CCAGCTGTCACACTAAGGCTTGAAAGTGAAGAGCCACAACCTTCAACATAAT
1 AGAGCAAAGC-TCCCAGCTGTCACATTAAGG-TTGAAAGTGAAGAGCTGCAACCTTCAACATAAT
98925051 TAGTG
64 TAGTG
** * * * * * * *
98925056 AGAGCAAAGCTCCCAATTGTTACATTAAGAGTCGAAGGTGATGAGTTGCAACTTTTAACATAATT
1 AGAGCAAAGCTCCCAGCTGTCACATTAAG-GTTGAAAGTGAAGAGCTGCAACCTTCAACATAATT
98925121 AGTG
65 AGTG
* * * *
98925125 AGAGCAAAGCTCCCAGCTGTCACATTAAGGGTCAAAATGAAGAGCTGCAACCTTCAACATATTTA
1 AGAGCAAAGCTCCCAGCTGTCACATTAAGGTTGAAAGTGAAGAGCTGCAACCTTCAACATAATTA
98925190 GTG
66 GTG
* * * * ** * * * * *
98925193 AAAGTAAAACTCCTAATTGTCACATTAAGGTTCATAGGTGAAGAGCCGCAGCC-TCTAACATAGT
1 AGAGCAAAGCTCCCAGCTGTCACATTAAGGTTGA-AAGTGAAGAGCTGCAACCTTC-AACATAAT
**
98925257 TAGCA
64 TAGTG
* * * * * * * *
98925262 AAAGCTAAGCTCCCAACTATCATATTAAGGATCGAAGGTGAAGAGCCGCAACCTTCAACATAATT
1 AGAGCAAAGCTCCCAGCTGTCACATTAAGG-TTGAAAGTGAAGAGCTGCAACCTTCAACATAATT
*
98925327 AACT-
65 -AGTG
* * * * * * * * * * *
98925331 AGAGTAAAGCTCTCAACTATCACATTGAGGTTCATATGTGAAGAGCCGTAGCC-TCTA-ATACAG
1 AGAGCAAAGCTCCCAGCTGTCACATTAAGGTTGA-AAGTGAAGAGCTGCAACCTTCAACATA-A-
*
98925394 TTAGCG
63 TTAGTG
* *
98925400 AAAGCAAAGCTCCCAGTTGTCACATTAAGG
1 AGAGCAAAGCTCCCAGCTGTCACATTAAGG
98925430 CCCCGTTCAA
Statistics
Matches: 290, Mismatches: 73, Indels: 22
0.75 0.19 0.06
Matches are distributed among these distances:
67 3 0.01
68 66 0.23
69 215 0.74
70 6 0.02
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (68 bp):
AGAGCAAAGCTCCCAGCTGTCACATTAAGGTTGAAAGTGAAGAGCTGCAACCTTCAACATAATTA
GTG
Found at i:98925362 original size:138 final size:137
Alignment explanation
Indices: 98925127--98925429 Score: 358
Period size: 138 Copynumber: 2.2 Consensus size: 137
98925117 AATTAGTGAG
* * * * * *
98925127 AGCAAAGCTCCCAGCTGTCACATTAAGGGTCAAAATGAAGAGCTGCAACCTTCAACATATTTAGT
1 AGCAAAGCTCCCAACTATCACATTAAGGATCAAAATGAAGAGCCGCAACCTTCAACATATTAACT
* * *
98925192 GAAAGTAAAACTCCTAATTGTCACATTAAGGTTCATAGGTGAAGAGCCGCAGCCTCTAACATAGT
66 GAAAGTAAAACTCCTAACTATCACATTAAGGTTCATAGGTGAAGAGCCGCAGCCTCTAACACAGT
98925257 TAGCAAA
131 TAGCAAA
* * **
98925264 AGCTAAGCTCCCAACTATCATATTAAGGATCGAAGGTGAAGAGCCGCAACCTTCAACATAATTAA
1 AGCAAAGCTCCCAACTATCACATTAAGGATC-AAAATGAAGAGCCGCAACCTTCAACAT-ATTAA
* * * * * *
98925329 CT-AGAGTAAAGCT-CTCAACTATCACATTGAGGTTCATATGTGAAGAGCCGTAGCCTCTAATAC
64 CTGAAAGTAAAACTCCT-AACTATCACATTAAGGTTCATAGGTGAAGAGCCGCAGCCTCTAACAC
*
98925392 AGTTAGCGAA
128 AGTTAGCAAA
** *
98925402 AGCAAAGCTCCCAGTTGTCACATTAAGG
1 AGCAAAGCTCCCAACTATCACATTAAGG
98925430 CCCCGTTCAA
Statistics
Matches: 138, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
137 28 0.20
138 105 0.76
139 5 0.04
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (137 bp):
AGCAAAGCTCCCAACTATCACATTAAGGATCAAAATGAAGAGCCGCAACCTTCAACATATTAACT
GAAAGTAAAACTCCTAACTATCACATTAAGGTTCATAGGTGAAGAGCCGCAGCCTCTAACACAGT
TAGCAAA
Found at i:98925876 original size:35 final size:35
Alignment explanation
Indices: 98925806--98925876 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 35
98925796 AGTTGTTTTC
* *
98925806 TGATTGTTTGATTTTTACAGAAAATTTATAGAAAT
1 TGATTGTTTGATTTTTACAGAAAATTTAAAAAAAT
98925841 TGATTGTTTGA-TTTTACAG-AAATTTCACAAAAAAT
1 TGATTGTTTGATTTTTACAGAAAATTT-A-AAAAAAT
98925876 T
1 T
98925877 TAATACAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 6 0.19
34 9 0.28
35 17 0.53
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.44
Consensus pattern (35 bp):
TGATTGTTTGATTTTTACAGAAAATTTAAAAAAAT
Found at i:98925886 original size:14 final size:14
Alignment explanation
Indices: 98925867--98925917 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
98925857 CAGAAATTTC
98925867 ACAAAAAATTTAAT
1 ACAAAAAATTTAAT
98925881 ACAAAAAATTT--T
1 ACAAAAAATTTAAT
* *
98925893 ACATAAATTTTAAT
1 ACAAAAAATTTAAT
*
98925907 ACCAAAAATTT
1 ACAAAAAATTT
98925918 TACAGAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
12 10 0.33
14 20 0.67
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (14 bp):
ACAAAAAATTTAAT
Found at i:98925895 original size:12 final size:12
Alignment explanation
Indices: 98925851--98925921 Score: 54
Period size: 12 Copynumber: 5.7 Consensus size: 12
98925841 TGATTGTTTG
*
98925851 ATTTTAC-AGAA
1 ATTTTACAAAAA
*
98925862 ATTTCACAAAAA
1 ATTTTACAAAAA
98925874 ATTTAATACAAAAA
1 ATTT--TACAAAAA
*
98925888 ATTTTACATAAA
1 ATTTTACAAAAA
* *
98925900 TTTTAATACCAAAA
1 ATTT--TACAAAAA
98925914 ATTTTACA
1 ATTTTACA
98925922 GAAATTGATT
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
11 6 0.13
12 20 0.43
14 20 0.43
ACGTcount: A:0.52, C:0.11, G:0.01, T:0.35
Consensus pattern (12 bp):
ATTTTACAAAAA
Found at i:98925918 original size:26 final size:26
Alignment explanation
Indices: 98925860--98925927 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
98925850 GATTTTACAG
* *
98925860 AAATTTCACAAAAAATTTAATACAAA
1 AAATTTTACAAAAATTTTAATACAAA
* *
98925886 AAATTTTACATAAATTTTAATACCAA
1 AAATTTTACAAAAATTTTAATACAAA
*
98925912 AAATTTTACAGAAATT
1 AAATTTTACAAAAATT
98925928 GATTGTTTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.34
Consensus pattern (26 bp):
AAATTTTACAAAAATTTTAATACAAA
Found at i:98926224 original size:26 final size:25
Alignment explanation
Indices: 98926182--98926235 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
98926172 TAAACATTTA
*
98926182 AATTTTAAACAAAACTTCTCAAAAGT
1 AATTTTAAACAAAACTT-TAAAAAGT
*
98926208 AATTTTAAA-AAGCACTTTAAAAAGT
1 AATTTTAAACAA-AACTTTAAAAAGT
98926233 AAT
1 AAT
98926236 ACTAAATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (25 bp):
AATTTTAAACAAAACTTTAAAAAGT
Found at i:98926696 original size:207 final size:207
Alignment explanation
Indices: 98926248--98926717 Score: 516
Period size: 207 Copynumber: 2.3 Consensus size: 207
98926238 TAAATTAGTC
* * *
98926248 CTAAGGCTCGCAAGTGAAAAGCTGCAGCCTTCAACACAGTTAATAAGAGCAAAGCTCCCAGTTGT
1 CTAAGGCTCGCAAGTGAAAAGCAGCAGCCTCCAACACAGTTAGTAAGAGCAAAGCTCCCAGTTGT
* * * * *
98926313 CACATTAAAGCTTGCAAGTGAAGAGTCGCAACCTCCAACACAGTTAGCGAGAGCAAAGCTCCTAG
66 CACATCAAAGCTCGCAAGTGAAAAGTCGCAACCTCCAACACAGTTAACGAGAGCAAAGCTCCCAG
* * * * *
98926378 CTGTCATATTAAGACTCAAAGGTGAAGAGCTGCAACCTTCAACACAATTAGCGAGACCAAAGCTC
131 CTATCACATTAAGACTCAAAGGTGAAGAGCTACAACCTTCAACACAATTAGCAAGACCAAAACTC
* **
98926443 CCAGCTGTCTTA
196 CCAGCTATCACA
* ** * *
98926455 CTAAGGCTCGCAAGTGAATAGCAAAAGCCTCCAACACAATTAGTGAA-AGTAAAGCTCCCAGTTG
1 CTAAGGCTCGCAAGTGAAAAGCAGCAGCCTCCAACACAGTTAGT-AAGAGCAAAGCTCCCAGTTG
* * ** * *
98926519 TCACATC-AAGACTCGCAGGTGAAAAGTCGCAGCCTCCAACATGGTTAATGAGAGCAAATCTCCC
65 TCACATCAAAG-CTCGCAAGTGAAAAGTCGCAACCTCCAACACAGTTAACGAGAGCAAAGCTCCC
* ** * * * *
98926583 AGCTATCACATTAAGGCTCGCAGGTGAAGAGCTATAGCC-TCTAACACAGTTAGCAAGAGCAAAA
129 AGCTATCACATTAAGACTCAAAGGTGAAGAGCTACAACCTTC-AACACAATTAGCAAGACCAAAA
98926647 CTCCCAGCTATCACA
193 CTCCCAGCTATCACA
* * * * **
98926662 TTAAGGCTCGCAGGTGAAGAGTC-GCAGACTCCAACACAGTTAGCGAGAGCAAAGCT
1 CTAAGGCTCGCAAGTGAAAAG-CAGCAGCCTCCAACACAGTTAGTAAGAGCAAAGCT
98926718 TCTAGCTATC
Statistics
Matches: 214, Mismatches: 44, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
206 6 0.03
207 205 0.96
208 3 0.01
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (207 bp):
CTAAGGCTCGCAAGTGAAAAGCAGCAGCCTCCAACACAGTTAGTAAGAGCAAAGCTCCCAGTTGT
CACATCAAAGCTCGCAAGTGAAAAGTCGCAACCTCCAACACAGTTAACGAGAGCAAAGCTCCCAG
CTATCACATTAAGACTCAAAGGTGAAGAGCTACAACCTTCAACACAATTAGCAAGACCAAAACTC
CCAGCTATCACA
Found at i:98926725 original size:69 final size:69
Alignment explanation
Indices: 98926249--98926749 Score: 461
Period size: 69 Copynumber: 7.3 Consensus size: 69
98926239 AAATTAGTCC
* * * *** *
98926249 TAAGGCTCGCAAGTGAAAAGCTGCAGCCTTCAACACAGTTAATAAGAGCAAAGCTCCCAGTTGTC
1 TAAGGCTCGCAGGTGAAGAGCTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTC
98926314 ACAT
66 ACAT
* * * * *
98926318 TAAAGCTTGCAAGTGAAGAG-TCGCAACCTCCAACACAGTTAGCGAGAGCAAAGCTCCTAGCTGT
1 TAAGGCTCGCAGGTGAAGAGCT-GCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGT
*
98926382 CATAT
65 CACAT
* ** * * * *
98926387 TAAGACTCAAAGGTGAAGAGCTGCAACCTTCAACACAATTAGCGAGACCAAAGCTCCCAGCTGTC
1 TAAGGCTCGCAGGTGAAGAGCTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTC
** *
98926452 TTAC
66 ACAT
* * *** * * * * *
98926456 TAAGGCTCGCAAGTGAATAGCAAAAGCCTCCAACACAATTAGTGAAAGTAAAGCTCCCAGTTGTC
1 TAAGGCTCGCAGGTGAAGAGCTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTC
98926521 ACAT
66 ACAT
* * * ** ** * *
98926525 CAAGACTCGCAGGTGAAAAG-TCGCAGCCTCCAACATGGTTAATGAGAGCAAATCTCCCAGCTAT
1 TAAGGCTCGCAGGTGAAGAGCT-GCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGT
98926589 CACAT
65 CACAT
** * * * *
98926594 TAAGGCTCGCAGGTGAAGAGCTATAGCCTCTAACACAGTTAGCAAGAGCAAAACTCCCAGCTATC
1 TAAGGCTCGCAGGTGAAGAGCTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTC
98926659 ACAT
66 ACAT
* * * *
98926663 TAAGGCTCGCAGGTGAAGAG-TCGCAGACTCCAACACAGTTAGCGAGAGCAAAGCTTCTAGCTAT
1 TAAGGCTCGCAGGTGAAGAGCT-GCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGT
*
98926727 CATAT
65 CACAT
*
98926732 TAAGGCTCACAGGT-AAGA
1 TAAGGCTCGCAGGTGAAGA
98926750 ATAGTAACCT
Statistics
Matches: 348, Mismatches: 79, Indels: 11
0.79 0.18 0.03
Matches are distributed among these distances:
68 6 0.02
69 340 0.98
70 2 0.01
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.20
Consensus pattern (69 bp):
TAAGGCTCGCAGGTGAAGAGCTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTC
ACAT
Found at i:98926843 original size:69 final size:69
Alignment explanation
Indices: 98926767--98926924 Score: 210
Period size: 69 Copynumber: 2.3 Consensus size: 69
98926757 CCTCTAATAC
* * * *
98926767 AGTTAGCGCGAGTTCAAGCTCTCAGTTGTAATCTCAGGCTCGTAGGTTCAACAATGA-AGCCTCC
1 AGTTAGCGCGAGCTCAAGCTCCCAGATGTAATCTCAGGCTCGTAGGTTCAACAA-CACAGCCTCC
98926831 AAAAT
65 AAAAT
* * * *
98926836 AGTTAGCGCTAGCTCAAGCTCCCAGATGTAATTTCAGGCTCGTTGGTTTAACAACACAGCCTCCA
1 AGTTAGCGCGAGCTCAAGCTCCCAGATGTAATCTCAGGCTCGTAGGTTCAACAACACAGCCTCCA
98926901 AAAT
66 AAAT
**
98926905 AGTTAGCGTTAGCTCAAGCT
1 AGTTAGCGCGAGCTCAAGCT
98926925 TCTAACTATA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
68 1 0.01
69 78 0.99
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (69 bp):
AGTTAGCGCGAGCTCAAGCTCCCAGATGTAATCTCAGGCTCGTAGGTTCAACAACACAGCCTCCA
AAAT
Found at i:98943157 original size:18 final size:20
Alignment explanation
Indices: 98943131--98943171 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
98943121 TTTTTTTTAT
*
98943131 TTTTATTTTTAT-AATTAAC
1 TTTTATTTTTATGAAATAAC
98943150 TTTT-TTTTTATGAAATAAC
1 TTTTATTTTTATGAAATAAC
98943169 TTT
1 TTT
98943172 GAATATCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATTTTTATGAAATAAC
Found at i:98955246 original size:71 final size:71
Alignment explanation
Indices: 98955171--98955308 Score: 267
Period size: 71 Copynumber: 1.9 Consensus size: 71
98955161 AACTTAAAAA
*
98955171 AAAATTATTTTAATTTTTTATTTGATCTTTTGCCTATTTTATCCTTAAAATGTGTTATTTATCAA
1 AAAATTATTTTAATTTTTTATTTGATCTTTTGCCTATTTTATCCTTAAAATATGTTATTTATCAA
98955236 ATCATT
66 ATCATT
98955242 AAAATTATTTTAATTTTTTATTTGATCTTTTGCCTATTTTATCCTTAAAATATGTTATTTATCAA
1 AAAATTATTTTAATTTTTTATTTGATCTTTTGCCTATTTTATCCTTAAAATATGTTATTTATCAA
98955307 AT
66 AT
98955309 TACTCCAAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.55
Consensus pattern (71 bp):
AAAATTATTTTAATTTTTTATTTGATCTTTTGCCTATTTTATCCTTAAAATATGTTATTTATCAA
ATCATT
Found at i:98956182 original size:2 final size:2
Alignment explanation
Indices: 98956175--98956199 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
98956165 TTAGTGCAAT
98956175 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
98956200 GAAACTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:98957149 original size:18 final size:17
Alignment explanation
Indices: 98957097--98957149 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
98957087 AGTTACAAAA
*
98957097 AAAATTCAAAAAAAT-T
1 AAAATTCAAAAATATAT
*
98957113 AAAATTCAAAATATTTAT
1 AAAATTCAAAA-ATATAT
98957131 AAAATTCCAAAAATATAT
1 AAAATT-CAAAAATATAT
98957149 A
1 A
98957150 TTTTTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 11 0.35
17 2 0.06
18 13 0.42
19 5 0.16
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATTCAAAAATATAT
Found at i:98959571 original size:40 final size:40
Alignment explanation
Indices: 98959511--98959600 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
98959501 AGATCAACTG
* * *
98959511 AACACACCAGACAGATGCTCATAAGAGCTTATCCAACCGA
1 AACACACCAGACAGAAGCTCATAAGAGCTGAGCCAACCGA
* * * *
98959551 AACACACTAGACAGAAGCTCATTAGAGCTGGGCCAACTGA
1 AACACACCAGACAGAAGCTCATAAGAGCTGAGCCAACCGA
98959591 AACACACCAG
1 AACACACCAG
98959601 GCATAGAGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.40, C:0.29, G:0.18, T:0.13
Consensus pattern (40 bp):
AACACACCAGACAGAAGCTCATAAGAGCTGAGCCAACCGA
Found at i:98962883 original size:25 final size:25
Alignment explanation
Indices: 98962855--98962925 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 25
98962845 ATATTCATAC
* *
98962855 GAGCACATAAACGGGAAGCTCAT-GT
1 GAGC-CATTAACGGGAAGCTCATGGA
98962880 GAGCCATGTAACGGGAAGCTC-TGGA
1 GAGCCAT-TAACGGGAAGCTCATGGA
98962905 GAGCCATTAACGGGAAGCTCA
1 GAGCCATTAACGGGAAGCTCA
98962926 CAAATAGCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 17 0.41
25 24 0.59
ACGTcount: A:0.32, C:0.21, G:0.31, T:0.15
Consensus pattern (25 bp):
GAGCCATTAACGGGAAGCTCATGGA
Found at i:98963765 original size:23 final size:23
Alignment explanation
Indices: 98963738--98963784 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
98963728 ATTTTCTACC
*
98963738 ATAAAACTTCATAATTCATGCAT
1 ATAAAACTTCACAATTCATGCAT
98963761 ATAAAACTTCACAATTCATGCAT
1 ATAAAACTTCACAATTCATGCAT
98963784 A
1 A
98963785 CTAATCCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (23 bp):
ATAAAACTTCACAATTCATGCAT
Found at i:98972098 original size:12 final size:12
Alignment explanation
Indices: 98972076--98972105 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
98972066 ATAATTCAAT
98972076 TAATATTTTTTTA
1 TAAT-TTTTTTTA
98972089 TAATTTTTTTTA
1 TAATTTTTTTTA
98972101 TAATT
1 TAATT
98972106 GCTGGTAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TAATTTTTTTTA
Found at i:98972970 original size:7 final size:8
Alignment explanation
Indices: 98972956--98972983 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
98972946 CCCGGGCTTT
98972956 TAAAAAAA
1 TAAAAAAA
98972964 TAAAAAAA
1 TAAAAAAA
98972972 TAAAAAAA
1 TAAAAAAA
98972980 TAAA
1 TAAA
98972984 TGTTTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
TAAAAAAA
Found at i:98973825 original size:9 final size:9
Alignment explanation
Indices: 98973811--98973878 Score: 136
Period size: 9 Copynumber: 7.6 Consensus size: 9
98973801 ATCGTATATG
98973811 GAGGCGCGT
1 GAGGCGCGT
98973820 GAGGCGCGT
1 GAGGCGCGT
98973829 GAGGCGCGT
1 GAGGCGCGT
98973838 GAGGCGCGT
1 GAGGCGCGT
98973847 GAGGCGCGT
1 GAGGCGCGT
98973856 GAGGCGCGT
1 GAGGCGCGT
98973865 GAGGCGCGT
1 GAGGCGCGT
98973874 GAGGC
1 GAGGC
98973879 TGAATAGCTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.12, C:0.22, G:0.56, T:0.10
Consensus pattern (9 bp):
GAGGCGCGT
Found at i:98974585 original size:21 final size:22
Alignment explanation
Indices: 98974552--98974594 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
98974542 ATTAAAATAT
*
98974552 TTTTTTTAAAAATATTTATTATA
1 TTTTTTT-AAAATATTAATTATA
*
98974575 TTTTTTT-AAATCTTAATTAT
1 TTTTTTTAAAATATTAATTAT
98974595 GTATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
23 7 0.39
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTTTTAAAATATTAATTATA
Found at i:98976937 original size:18 final size:18
Alignment explanation
Indices: 98976914--98976956 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
98976904 TGCAATGTGC
* *
98976914 GTATCCTAACCTTTATGT
1 GTATCCTAACATTTATAT
*
98976932 GTATCCTAATATTTATAT
1 GTATCCTAACATTTATAT
98976950 GTATCCT
1 GTATCCT
98976957 TTTTCCACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.47
Consensus pattern (18 bp):
GTATCCTAACATTTATAT
Found at i:98977423 original size:60 final size:60
Alignment explanation
Indices: 98977330--98977508 Score: 313
Period size: 60 Copynumber: 3.0 Consensus size: 60
98977320 TATTGATTTA
98977330 TTTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTT
1 TTTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTT
* *
98977390 TTTTTGAATATTTTTGTACAAATTATTTTTATATTGCTTCATTTAATAGAATAGAAGTTT
1 TTTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTT
* * *
98977450 TTTTTGAATATTTTTGTATAAATTATTTTTATATTGTTTTATTTAATAAATTAGAAGTT
1 TTTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTT
98977509 ATCGAAACCC
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 112 1.00
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (60 bp):
TTTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTT
Found at i:98982958 original size:13 final size:13
Alignment explanation
Indices: 98982940--98982965 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98982930 CTTCTGTATC
98982940 TTGATCCTAAACA
1 TTGATCCTAAACA
98982953 TTGATCCTAAACA
1 TTGATCCTAAACA
98982966 ATTCATTGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
TTGATCCTAAACA
Found at i:98993196 original size:16 final size:16
Alignment explanation
Indices: 98993175--98993211 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
98993165 CAACCTGCAC
98993175 ATATCATTCAAAGGAT
1 ATATCATTCAAAGGAT
98993191 ATATCATTCAAAGGAT
1 ATATCATTCAAAGGAT
98993207 -TATCA
1 ATATCA
98993212 GAATGACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (16 bp):
ATATCATTCAAAGGAT
Found at i:98997353 original size:18 final size:18
Alignment explanation
Indices: 98997330--98997371 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
98997320 GCCAGATGCA
*
98997330 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
*
98997348 TATCCTAACTCTTATATG
1 TATCCTAACCCTTATATG
*
98997366 TTTCCT
1 TATCCT
98997372 TTTCTCAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.26, G:0.07, T:0.45
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:98997833 original size:59 final size:60
Alignment explanation
Indices: 98997726--98997909 Score: 241
Period size: 62 Copynumber: 3.0 Consensus size: 60
98997716 ATTTTTTTAG
*
98997726 TATATTTGTACAAATTATTTTTATATTGTT-T-C-ATTTAATAAAATATAAGTTGTTTTGAA
1 TATATTTGTACAAATTATTTTTATATT-TTGTCCTATTTAATAAAATA-AAGTTATTTTGAA
98997785 TATATTTGTACAAATTATTTTTATATTTTGTCCTATTTAATAAAATAAGAGTTATTTTGAA
1 TATATTTGTACAAATTATTTTTATATTTTGTCCTATTTAATAAAATAA-AGTTATTTTGAA
* * * *
98997846 TAT-TTTAATAGTAAATTATTTTTATATTTTGTCCTATTTAACAAAATAGAAGTTCTTTTGAA
1 TATATTT-GTA-CAAATTATTTTTATATTTTGTCCTATTTAATAAAATA-AAGTTATTTTGAA
98997908 TA
1 TA
98997910 AGGCAATAGA
Statistics
Matches: 113, Mismatches: 5, Indels: 11
0.88 0.04 0.09
Matches are distributed among these distances:
58 2 0.02
59 28 0.25
60 5 0.04
61 29 0.26
62 48 0.42
63 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (60 bp):
TATATTTGTACAAATTATTTTTATATTTTGTCCTATTTAATAAAATAAAGTTATTTTGAA
Found at i:98997918 original size:62 final size:61
Alignment explanation
Indices: 98997796--98997922 Score: 175
Period size: 62 Copynumber: 2.1 Consensus size: 61
98997786 ATATTTGTAC
* ****
98997796 AAATTATTTTTATATTTTGTCCTATTTAATAAAATAAGAGTTATTTTGAATATTTTAATAG
1 AAATTATTTTTATATTTTGTCCTATTTAACAAAATAAGAGTTATTTTGAATAAGGCAATAG
*
98997857 TAAATTATTTTTATATTTTGTCCTATTTAACAAAAT-AGAAGTTCTTTTGAATAAGGCAATAG
1 -AAATTATTTTTATATTTTGTCCTATTTAACAAAATAAG-AGTTATTTTGAATAAGGCAATAG
98997919 AAAT
1 AAAT
98997923 AATGCAACAT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 6 0.10
62 52 0.90
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (61 bp):
AAATTATTTTTATATTTTGTCCTATTTAACAAAATAAGAGTTATTTTGAATAAGGCAATAG
Found at i:99000962 original size:25 final size:25
Alignment explanation
Indices: 99000919--99000981 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
99000909 CAACTTATAC
* * *
99000919 CTTCTTAACTTGTTTAATTGATATT
1 CTTCTGAACTTCTTCAATTGATATT
**
99000944 CTTCTGAACTTCTTCAATTTCTATT
1 CTTCTGAACTTCTTCAATTGATATT
*
99000969 TTTCTGAACTTCT
1 CTTCTGAACTTCT
99000982 CTAATTTCTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.06, T:0.54
Consensus pattern (25 bp):
CTTCTGAACTTCTTCAATTGATATT
Found at i:99000987 original size:25 final size:25
Alignment explanation
Indices: 99000940--99000990 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
99000930 GTTTAATTGA
99000940 TATTCTTCTGAACTTCTTCAATTTC
1 TATTCTTCTGAACTTCTTCAATTTC
*
99000965 TATTTTTCTGAACTTC-TCTAATTTC
1 TATTCTTCTGAACTTCTTC-AATTTC
99000990 T
1 T
99000991 CTTATTGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.20, C:0.22, G:0.04, T:0.55
Consensus pattern (25 bp):
TATTCTTCTGAACTTCTTCAATTTC
Found at i:99001452 original size:125 final size:126
Alignment explanation
Indices: 99001148--99001727 Score: 796
Period size: 126 Copynumber: 4.7 Consensus size: 126
99001138 TTTTAATAAT
* *
99001148 CATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGACAAAGAGCGTCTAGCTGGGAGCTTTTT
1 CATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTT
* * * * *
99001213 TCAGTGCTTTTGCTGACAGTGCATCCTGCTTAAAGCATTTTTTACCCTATTTTTTTAGAAC
66 TCAGTACTTTTGCTGACAGTGCATCCTACTTGAAGCGTTTTTGACCCTATTTTTTTAGAAC
* *
99001274 CATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTTCATCTGGGAGCTTTTT
1 CATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTT
* * * *
99001339 TCAGTACTTTTGCTGACAGTGCATCCTACTTGAAGTGTTTTTGACCTTATTTTTTCAGAAT
66 TCAGTACTTTTGCTGACAGTGCATCCTACTTGAAGCGTTTTTGACCCTATTTTTTTAGAAC
* * *
99001400 CATCTTCTTAAAATTA-TTTTTCAAAAACTACTGTAGAAAAAGAGCGTCCATCTGGGAGCTTTTT
1 CATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTT
* * ** *
99001464 TAAGTACTTTTGCTGAAAGTGCATCCTGTTTGAAGTGTTTTT-ACCCTATTTTTTTAGAAC
66 TCAGTACTTTTGCTGACAGTGCATCCTACTTGAAGCGTTTTTGACCCTATTTTTTTAGAAC
* * *
99001524 CATCTTCTCAAAATTA----TTCAGAAACTACTGTAGAAACATAGCATCCAGCTGGGAGCTTTTT
1 CATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTT
* * *
99001585 TCAATAGTTTTGCTGACAGTGCATCTTACTTGAAGCGTTTTTGACCCTATTTTTTTAGAAC
66 TCAGTACTTTTGCTGACAGTGCATCCTACTTGAAGCGTTTTTGACCCTATTTTTTTAGAAC
* * * * * * *
99001646 CATCTTTTTTAAAATTATTTTTTCAGAAACTACTGTAGAAAAATAGCAT-CAACTGAGAACTTTT
1 CATC-TTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTT
99001710 TTCAGTACTTTTGCTGAC
65 TTCAGTACTTTTGCTGAC
99001728 TGGACAAAAA
Statistics
Matches: 403, Mismatches: 45, Indels: 12
0.88 0.10 0.03
Matches are distributed among these distances:
121 74 0.18
122 22 0.05
123 10 0.02
124 30 0.07
125 84 0.21
126 156 0.39
127 27 0.07
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (126 bp):
CATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTT
TCAGTACTTTTGCTGACAGTGCATCCTACTTGAAGCGTTTTTGACCCTATTTTTTTAGAAC
Found at i:99001848 original size:28 final size:28
Alignment explanation
Indices: 99001815--99001942 Score: 132
Period size: 28 Copynumber: 4.4 Consensus size: 28
99001805 CCTAAACACA
*
99001815 AATTTATTTTTAAAAATCCCTAAACCTT
1 AATTTATTTTTAAAAATCCATAAACCTT
* * *
99001843 AGTTTATTTTTTAAAAAACAATAAACCTTAATTT
1 AATTTA-TTTTTAAAAATCCATAAACC-----TT
*
99001877 AATTTATTTTTTAAAAA-CCATAAACCCT
1 AATTTA-TTTTTAAAAATCCATAAACCTT
*
99001905 AATTTATTTTTTAAAATCCATAAACCTT
1 AATTTATTTTTAAAAATCCATAAACCTT
99001933 AATTTATTTT
1 AATTTATTTT
99001943 AATAAAAACC
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
27 9 0.11
28 32 0.38
29 17 0.20
33 8 0.10
34 18 0.21
ACGTcount: A:0.41, C:0.13, G:0.01, T:0.45
Consensus pattern (28 bp):
AATTTATTTTTAAAAATCCATAAACCTT
Found at i:99001883 original size:34 final size:33
Alignment explanation
Indices: 99001845--99001910 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
99001835 TAAACCTTAG
*
99001845 TTTATTTTTTAAAAAACAATAAACCTTAATTTAA
1 TTTATTTTTT-AAAAACAATAAACCCTAATTTAA
*
99001879 TTTATTTTTTAAAAACCATAAACCCTAATTTA
1 TTTATTTTTTAAAAACAATAAACCCTAATTTA
99001911 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 20 0.67
34 10 0.33
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (33 bp):
TTTATTTTTTAAAAACAATAAACCCTAATTTAA
Found at i:99001902 original size:62 final size:61
Alignment explanation
Indices: 99001815--99001943 Score: 179
Period size: 62 Copynumber: 2.1 Consensus size: 61
99001805 CCTAAACACA
* * *
99001815 AATTTATTTTTAAAAATCCCTAAACCTTAGTTTATTTTTTAAAAAACAATAAACCTTAATTT
1 AATTTATTTTTAAAAATCCATAAACCCTAATTTATTTTTT-AAAAACAATAAACCTTAATTT
* *
99001877 AATTTATTTTTTAAAAA-CCATAAACCCTAATTTATTTTTTAAAATCCATAAACCTTAATTT
1 AATTTA-TTTTTAAAAATCCATAAACCCTAATTTATTTTTTAAAAACAATAAACCTTAATTT
*
99001938 ATTTTA
1 AATTTA
99001944 ATAAAAACCG
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 24 0.40
62 26 0.43
63 10 0.17
ACGTcount: A:0.41, C:0.13, G:0.01, T:0.45
Consensus pattern (61 bp):
AATTTATTTTTAAAAATCCATAAACCCTAATTTATTTTTTAAAAACAATAAACCTTAATTT
Found at i:99001958 original size:28 final size:28
Alignment explanation
Indices: 99001875--99001952 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
99001865 AAACCTTAAT
99001875 TTAATTTATTTTTTAAAAACCATAAACC
1 TTAATTTATTTTTTAAAAACCATAAACC
* *
99001903 CTAATTTATTTTTTAAAATCCATAAACC
1 TTAATTTATTTTTTAAAAACCATAAACC
*
99001931 TTAATTTATTTTAATAAAAACC
1 TTAATTTATTTT-TTAAAAACC
99001953 GTAACCCTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 37 0.84
29 7 0.16
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (28 bp):
TTAATTTATTTTTTAAAAACCATAAACC
Found at i:99002746 original size:20 final size:20
Alignment explanation
Indices: 99002721--99002760 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
99002711 GAGTTAATAT
99002721 TTTAAAATTATAACTAAATC
1 TTTAAAATTATAACTAAATC
*
99002741 TTTAAAATTATAATTAAATC
1 TTTAAAATTATAACTAAATC
99002761 GATATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTAAAATTATAACTAAATC
Found at i:99009925 original size:21 final size:21
Alignment explanation
Indices: 99009886--99009956 Score: 106
Period size: 21 Copynumber: 3.3 Consensus size: 21
99009876 AGGCACTTTA
99009886 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
*
99009909 TGTGTCGTATCAAGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
99009930 TGTGTTGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
99009951 TGTGTC
1 TGTGTC
99009957 ATTTTAGGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 35 0.80
23 9 0.20
ACGTcount: A:0.14, C:0.25, G:0.27, T:0.34
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:99009965 original size:21 final size:21
Alignment explanation
Indices: 99009897--99009967 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
99009887 GTGTCGTATT
*
99009897 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCATA
* **
99009918 TCAAGCACCTCGTGTGTTGTA
1 TCAGGCACCTCGTGTGTCATA
*
99009939 TCAGGCACCTCGTGTGTCATT
1 TCAGGCACCTCGTGTGTCATA
*
99009960 TTAGGCAC
1 TCAGGCAC
99009968 TTTATGTGTC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.17, C:0.27, G:0.25, T:0.31
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCATA
Found at i:99009976 original size:42 final size:42
Alignment explanation
Indices: 99009873--99009981 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
99009863 GGCTTTACTG
*
99009873 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTA--TCAGGCACCTCGTGTGTCAT
* * ** *
99009917 ATCAAGCACCTCGTGTGTTGTATCAGGCACCTCGTGTGTCAT
1 ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCAT
* *
99009959 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
99009982 ACTGATCAGG
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 35 0.67
44 17 0.33
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (42 bp):
ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCAT
Found at i:99012681 original size:25 final size:25
Alignment explanation
Indices: 99012638--99012700 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
99012628 CAACTTATAC
* * *
99012638 CTTCTTAACTTGTTTAATTGATATT
1 CTTCTGAACTTCTTCAATTGATATT
**
99012663 CTTCTGAACTTCTTCAATTTCTATT
1 CTTCTGAACTTCTTCAATTGATATT
*
99012688 TTTCTGAACTTCT
1 CTTCTGAACTTCT
99012701 CTAATTTCTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.06, T:0.54
Consensus pattern (25 bp):
CTTCTGAACTTCTTCAATTGATATT
Found at i:99012706 original size:25 final size:25
Alignment explanation
Indices: 99012659--99012709 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
99012649 GTTTAATTGA
99012659 TATTCTTCTGAACTTCTTCAATTTC
1 TATTCTTCTGAACTTCTTCAATTTC
*
99012684 TATTTTTCTGAACTTC-TCTAATTTC
1 TATTCTTCTGAACTTCTTC-AATTTC
99012709 T
1 T
99012710 CTTATTGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.20, C:0.22, G:0.04, T:0.55
Consensus pattern (25 bp):
TATTCTTCTGAACTTCTTCAATTTC
Found at i:99013000 original size:127 final size:126
Alignment explanation
Indices: 99012807--99013447 Score: 844
Period size: 126 Copynumber: 5.1 Consensus size: 126
99012797 CAGGTGGTTT
* * * * * *
99012807 AGTACTTTTGTTGACAGTACATCTTGCTTGAAGCATTTTTTTACCCTATTTTTTCATAATCATCT
1 AGTACTTTTGCTGACAGTGCATCCTGCTTGAAGC-GTTTTTTACCCTATTTTTTCAGAACCATCT
** *
99012872 TCTCAAAATTATTTTTTCAGAAACTACCATAGAAAAAGAGCGTCTAGCTGGGAGCTTTTTTC
65 TCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTTTC
** * * *
99012934 AGTGTTTTTGCTGACAGTGCATCCTGCTTAAAGCATTTTTTACCCTATTTTTTTTAGAACCATCT
1 AGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTTACCCTA-TTTTTTCAGAACCATCT
99012999 TCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCATG-TGGGAGCTTTTTTC
65 TCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCA-GCTGGGAGCTTTTTTC
* * * * *
99013061 AGTACTTTTGCTGACAGTGCATCCTACTTGAAGTGTTTTTGACCTTATTTTTTCAGAATCATCTT
1 AGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTTACCCTATTTTTTCAGAACCATCTT
* * *
99013126 CTTAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCATCTGGGAGCTTTTTTA
66 CTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTTTC
* * *
99013187 AGTACTTTTGCTGAAAGCGCATCCTGCTTGAAGTGTTTTTTACCCTATTTTTTCAGAACCATCTT
1 AGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTTACCCTATTTTTTCAGAACCATCTT
* * * *
99013252 CTCAAAATTA----TTCAGAAACTACTGTAGAAACATAGCATCTAGCTGGGAGCTTTTTTC
66 CTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTTTC
* ** * * *
99013309 AGTAGTTTTGCTGACAGTGCATTTTACTTGAAGCGTTTTTGACCCTATTTTTTTAGAACCATCTT
1 AGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTTACCCTATTTTTTCAGAACCATCTT
* * * * * *
99013374 TTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAATAGCAT-CAACTGAGAACTTTTTTC
66 CTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTTTC
99013434 AGTACTTTTGCTGA
1 AGTACTTTTGCTGA
99013448 ACAAAAAAAA
Statistics
Matches: 452, Mismatches: 55, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
122 106 0.23
125 27 0.06
126 180 0.40
127 138 0.31
128 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (126 bp):
AGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTTACCCTATTTTTTCAGAACCATCTT
CTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTTTC
Found at i:99013384 original size:248 final size:250
Alignment explanation
Indices: 99012807--99013448 Score: 871
Period size: 248 Copynumber: 2.6 Consensus size: 250
99012797 CAGGTGGTTT
* * * * * *
99012807 AGTACTTTTGTTGACAGTACATCTTGCTTGAAGCATTTTTTTACCCTATTTTTTCATAATCATCT
1 AGTACTTTTGCTGACAGTGCATCTTACTTGAAGC-GTTTTTGACCCTATTTTTTCAGAATCATCT
* ** * *
99012872 TCTCAAAATTATTTTTTCAGAAACTACCATAGAAAAAGAGCGTCTAGCTGGGAGCTTTTTTCAGT
65 TTTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAACTGGGAGCTTTTTTCAGT
** * * *
99012937 GTTTTTGCTGACAGTGCATCCTGCTTAAAGCATTTTTTACCCTATTTTTTTTAGAACCATCTTCT
130 ACTTTTGCTGAAAGCGCATCCTGCTTAAAGCATTTTTTACCCTATTTTTTTCAGAACCATCTTCT
*
99013002 CAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTC
195 CAAAATTA---TTTCAGAAACTACTGTAGAAAAAGAGCATCCATGTGGGAGCTTTTTTC
* * *
99013061 AGTACTTTTGCTGACAGTGCATCCTACTTGAAGTGTTTTTGACCTTATTTTTTCAGAATCATCTT
1 AGTACTTTTGCTGACAGTGCATCTTACTTGAAGCGTTTTTGACCCTATTTTTTCAGAATCATCTT
* *
99013126 CTT-AAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCATCTGGGAGCTTTTTTAAGT
66 -TTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAACTGGGAGCTTTTTTCAGT
* **
99013190 ACTTTTGCTGAAAGCGCATCCTGCTTGAAGTGTTTTTTACCCTA-TTTTTTCAGAACCATCTTCT
130 ACTTTTGCTGAAAGCGCATCCTGCTTAAAGCATTTTTTACCCTATTTTTTTCAGAACCATCTTCT
* * *
99013254 CAAAATTA-TTCAGAAACTACTGTAGAAACATAGCATCTA-GCTGGGAGCTTTTTTC
195 CAAAATTATTTCAGAAACTACTGTAGAAAAAGAGCATCCATG-TGGGAGCTTTTTTC
* * * *
99013309 AGTAGTTTTGCTGACAGTGCATTTTACTTGAAGCGTTTTTGACCCTATTTTTTTAGAACCATCTT
1 AGTACTTTTGCTGACAGTGCATCTTACTTGAAGCGTTTTTGACCCTATTTTTTCAGAATCATCTT
* * * *
99013374 TTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAATAGCAT-CAACTGAGAACTTTTTTCAGTA
66 TTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAACTGGGAGCTTTTTTCAGTA
99013438 CTTTTGCTGAA
131 CTTTTGCTGAA
99013449 CAAAAAAAAA
Statistics
Matches: 345, Mismatches: 40, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
247 32 0.09
248 136 0.39
252 27 0.08
253 120 0.35
254 30 0.09
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (250 bp):
AGTACTTTTGCTGACAGTGCATCTTACTTGAAGCGTTTTTGACCCTATTTTTTCAGAATCATCTT
TTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAACTGGGAGCTTTTTTCAGTA
CTTTTGCTGAAAGCGCATCCTGCTTAAAGCATTTTTTACCCTATTTTTTTCAGAACCATCTTCTC
AAAATTATTTCAGAAACTACTGTAGAAAAAGAGCATCCATGTGGGAGCTTTTTTC
Found at i:99013599 original size:62 final size:61
Alignment explanation
Indices: 99013532--99013660 Score: 179
Period size: 62 Copynumber: 2.1 Consensus size: 61
99013522 CCTAAACATA
* * *
99013532 AATTTA-TTTTTAAAAATCCCTAAACCTTAGTTTATTTTTTAAAAAACAATAAACCTTAATTT
1 AATTTATTTTTTAAAAAT-CATAAACCCTAATTTATTTTTT-AAAAACAATAAACCTTAATTT
* *
99013594 AATTTATTTTTTAAAAATCATAAACCCTAATTTATTTTTTAAAATCCATAAACCTTAATTT
1 AATTTATTTTTTAAAAATCATAAACCCTAATTTATTTTTTAAAAACAATAAACCTTAATTT
*
99013655 ATTTTA
1 AATTTA
99013661 ATAAAAACCG
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 24 0.40
62 25 0.42
63 11 0.18
ACGTcount: A:0.41, C:0.12, G:0.01, T:0.46
Consensus pattern (61 bp):
AATTTATTTTTTAAAAATCATAAACCCTAATTTATTTTTTAAAAACAATAAACCTTAATTT
Found at i:99013600 original size:34 final size:33
Alignment explanation
Indices: 99013562--99013627 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
99013552 TAAACCTTAG
*
99013562 TTTATTTTTTAAAAAACAATAAACCTTAATTTAA
1 TTTATTTTTTAAAAAAC-ATAAACCCTAATTTAA
*
99013596 TTTATTTTTTAAAAATCATAAACCCTAATTTA
1 TTTATTTTTTAAAAAACATAAACCCTAATTTA
99013628 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 14 0.47
34 16 0.53
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.45
Consensus pattern (33 bp):
TTTATTTTTTAAAAAACATAAACCCTAATTTAA
Found at i:99013639 original size:27 final size:29
Alignment explanation
Indices: 99013532--99013659 Score: 127
Period size: 28 Copynumber: 4.3 Consensus size: 29
99013522 CCTAAACATA
* *
99013532 AATTTA-TTTTTAAAAATCCCTAAACCTT
1 AATTTATTTTTTAAAAATCCATAAACCCT
* * * *
99013560 AGTTTATTTTTTAAAAAACAATAAACCTTAATTT
1 AATTTATTTTTTAAAAATCCATAAACC-----CT
99013594 AATTTATTTTTTAAAAAT-CATAAACCCT
1 AATTTATTTTTTAAAAATCCATAAACCCT
*
99013622 AATTTATTTTTT-AAAATCCATAAACCTT
1 AATTTATTTTTTAAAAATCCATAAACCCT
99013650 AATTTATTTT
1 AATTTATTTT
99013660 AATAAAAACC
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.06
28 37 0.44
29 17 0.20
33 7 0.08
34 18 0.21
ACGTcount: A:0.41, C:0.12, G:0.01, T:0.46
Consensus pattern (29 bp):
AATTTATTTTTTAAAAATCCATAAACCCT
Found at i:99013675 original size:28 final size:28
Alignment explanation
Indices: 99013592--99013669 Score: 111
Period size: 28 Copynumber: 2.8 Consensus size: 28
99013582 AAACCTTAAT
*
99013592 TTAATTTATTTTTTAAAAATCATAAACC
1 TTAATTTATTTTTTAAAAACCATAAACC
* *
99013620 CTAATTTATTTTTTAAAATCCATAAACC
1 TTAATTTATTTTTTAAAAACCATAAACC
*
99013648 TTAATTTATTTTAATAAAAACC
1 TTAATTTATTTT-TTAAAAACC
99013670 GTAACCCTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 36 0.84
29 7 0.16
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (28 bp):
TTAATTTATTTTTTAAAAACCATAAACC
Found at i:99014463 original size:20 final size:20
Alignment explanation
Indices: 99014438--99014477 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
99014428 GAGTTAATAT
99014438 TTTAAAATTATAACTAAATC
1 TTTAAAATTATAACTAAATC
99014458 TTTAAAATTATAACTAAATC
1 TTTAAAATTATAACTAAATC
99014478 GATATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTAAAATTATAACTAAATC
Found at i:99015302 original size:17 final size:19
Alignment explanation
Indices: 99015282--99015327 Score: 69
Period size: 17 Copynumber: 2.5 Consensus size: 19
99015272 GTATGATTAT
99015282 ATTAAAATATAA-TAA-AA
1 ATTAAAATATAATTAATAA
*
99015299 ATTAAAATATAATTAATTA
1 ATTAAAATATAATTAATAA
99015318 ATTAAAATAT
1 ATTAAAATAT
99015328 TTTTATAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 12 0.46
18 3 0.12
19 11 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTAAAATATAATTAATAA
Found at i:99015416 original size:18 final size:17
Alignment explanation
Indices: 99015390--99015428 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
99015380 AAAATTTAAT
*
99015390 ATAACAATAATAAATAGA
1 ATAAAAATAATAAATA-A
*
99015408 ATAAAAATAATTAATAA
1 ATAAAAATAATAAATAA
99015425 ATAA
1 ATAA
99015429 TAAAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
ATAAAAATAATAAATAA
Found at i:99031872 original size:22 final size:22
Alignment explanation
Indices: 99031842--99031920 Score: 81
Period size: 26 Copynumber: 3.5 Consensus size: 22
99031832 ATTATTATTA
99031842 ATTTTAAATTTTTAAAATATAT
1 ATTTTAAATTTTTAAAATATAT
*
99031864 ATTTAAAATATTTTATTAATATATAT
1 ATTTTAAAT-TTTTA--AA-ATATAT
*
99031890 TTTTTAAA-TTTT-AAATATAT
1 ATTTTAAATTTTTAAAATATAT
99031910 ATTTTGAAATT
1 ATTTT-AAATT
99031921 ACTTTTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 10 0.21
21 5 0.11
22 9 0.19
23 5 0.11
24 4 0.09
25 2 0.04
26 12 0.26
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (22 bp):
ATTTTAAATTTTTAAAATATAT
Found at i:99031900 original size:24 final size:24
Alignment explanation
Indices: 99031843--99031914 Score: 71
Period size: 22 Copynumber: 3.1 Consensus size: 24
99031833 TTATTATTAA
*
99031843 TTTTAAA-TTT-TTAAAATATATAT
1 TTTTAAATTTTATTAATATATAT-T
**
99031866 TTAAAATATTTTATTAATATATATT
1 TTTTAA-ATTTTATTAATATATATT
99031891 TTTTAAATTTTA--AATATATATT
1 TTTTAAATTTTATTAATATATATT
99031913 TT
1 TT
99031915 GAAATTACTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
22 12 0.29
23 4 0.10
24 7 0.17
25 8 0.20
26 10 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTAAATTTTATTAATATATATT
Found at i:99031951 original size:22 final size:23
Alignment explanation
Indices: 99031918--99031965 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
99031908 ATATTTTGAA
99031918 ATTACTTTTTTTAAAATTTAAAT
1 ATTACTTTTTTTAAAATTTAAAT
*
99031941 ATTA-TTTTTTTAATATTTAAAT
1 ATTACTTTTTTTAAAATTTAAAT
99031963 ATT
1 ATT
99031966 TTAAACTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTACTTTTTTTAAAATTTAAAT
Found at i:99031970 original size:66 final size:65
Alignment explanation
Indices: 99031897--99032058 Score: 179
Period size: 65 Copynumber: 2.5 Consensus size: 65
99031887 TATTTTTTAA
* *
99031897 ATTTTAAATATAT-ATTTTGAAATTACTTTTTTTAA-AATTTAAATATTATTT-TTTTAATATTT
1 ATTTTAAAT-TATCATTTTGAAATTA-TTTTTATAATAATTTAAATATTATTTAATTT-AT-TTT
99031959 AAAT
62 AAAT
* ** *
99031963 ATTTTAAACTT-TCAATTTGTTATTAATTTTATAATAATTTAAATATTATTTAATTTATTTTAAA
1 ATTTTAAA-TTATCATTTTGAAATTATTTTTATAATAATTTAAATATTATTTAATTTATTTTAAA
99032027 T
65 T
* *
99032028 ATTTTAAATTATGATTTTAAAATTATTTTTA
1 ATTTTAAATTATCATTTTGAAATTATTTTTA
99032059 AAGATATTCG
Statistics
Matches: 79, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
64 2 0.03
65 37 0.47
66 36 0.46
67 4 0.05
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (65 bp):
ATTTTAAATTATCATTTTGAAATTATTTTTATAATAATTTAAATATTATTTAATTTATTTTAAAT
Found at i:99032024 original size:21 final size:23
Alignment explanation
Indices: 99032000--99032055 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 23
99031990 TTTATAATAA
99032000 TTTAAATATTATTTAATT-T-AT
1 TTTAAATATTATTTAATTATGAT
*
99032021 TTTAAATATT-TTAAATTATGAT
1 TTTAAATATTATTTAATTATGAT
99032043 TTTAAA-ATTATTT
1 TTTAAATATTATTT
99032056 TTAAAGATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 6 0.20
21 14 0.47
22 10 0.33
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTAAATATTATTTAATTATGAT
Found at i:99032384 original size:13 final size:13
Alignment explanation
Indices: 99032325--99032390 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 13
99032315 ATATATTTGT
99032325 TATAAATTTAAAAAA
1 TATAAA-TT-AAAAA
99032340 TATATAA--AAAAA
1 TATA-AATTAAAAA
*
99032352 T-TAAATTAAAAT
1 TATAAATTAAAAA
99032364 TA-AAATTAAAAA
1 TATAAATTAAAAA
*
99032376 TATATATTATAAAA
1 TATAAATTA-AAAA
99032390 T
1 T
99032391 CACATCATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
10 2 0.05
11 2 0.05
12 22 0.52
13 5 0.12
14 5 0.12
15 4 0.10
16 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TATAAATTAAAAA
Found at i:99032918 original size:19 final size:20
Alignment explanation
Indices: 99032894--99032932 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
99032884 GTCCCATTAT
99032894 TTATTTATTTTT-TGTTTTA
1 TTATTTATTTTTATGTTTTA
99032913 TTATTTATTTTTATGTTTTA
1 TTATTTATTTTTATGTTTTA
99032933 AATGTATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (20 bp):
TTATTTATTTTTATGTTTTA
Found at i:99032924 original size:20 final size:19
Alignment explanation
Indices: 99032894--99032932 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
99032884 GTCCCATTAT
*
99032894 TTATTTATTTTTTGTTTTA
1 TTATTTATTTTATGTTTTA
99032913 TTATTTATTTTTATGTTTTA
1 TTATTTA-TTTTATGTTTTA
99032933 AATGTATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (19 bp):
TTATTTATTTTATGTTTTA
Found at i:99032951 original size:25 final size:23
Alignment explanation
Indices: 99032895--99032959 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
99032885 TCCCATTATT
*
99032895 TATTTATTTTT-TGTTTT--AT-
1 TATTTATTTTTATATTTTAAATG
*
99032914 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
99032937 TATTTGATTTATTATATTTTAAA
1 TATTT-ATTT-TTATATTTTAAA
99032960 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
22 2 0.05
23 5 0.13
24 4 0.10
25 11 0.28
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:99033561 original size:20 final size:20
Alignment explanation
Indices: 99033533--99033604 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
99033523 GTTGGTTATA
*
99033533 ATTTTTAAATTTTAGTACAC
1 ATTTATAAATTTTAGTACAC
*
99033553 ATTTATAAATTTATA-TATTA-
1 ATTTATAAATTT-TAGTA-CAC
* *
99033573 ATTTTTTAATTTTAGTACAC
1 ATTTATAAATTTTAGTACAC
*
99033593 ATTCATAAATTT
1 ATTTATAAATTT
99033605 ATGTACTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
19 3 0.08
20 34 0.85
21 3 0.08
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTATAAATTTTAGTACAC
Found at i:99033575 original size:40 final size:41
Alignment explanation
Indices: 99033531--99033615 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 41
99033521 GTGTTGGTTA
*
99033531 TAATTTTTAAATTTTAGTACACATTTATAAATTTATATA-T
1 TAATTTTTAAATTTTAGTACACATTCATAAATTTATATACT
* *
99033571 TAATTTTTTAATTTTAGTACACATTCATAAATTTATGTACT
1 TAATTTTTAAATTTTAGTACACATTCATAAATTTATATACT
99033612 TAAT
1 TAAT
99033616 ATATATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 36 0.88
41 5 0.12
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.52
Consensus pattern (41 bp):
TAATTTTTAAATTTTAGTACACATTCATAAATTTATATACT
Found at i:99033626 original size:40 final size:40
Alignment explanation
Indices: 99033540--99033626 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
99033530 ATAATTTTTA
* * *
99033540 AATTTTAGTACACATTTATAAATTTATATATTAATTTTTT
1 AATTTTAGTACACATTCATAAATTTATATATTAATTATAT
*
99033580 AATTTTAGTACACATTCATAAATTTATGTACTTAA-TATAT
1 AATTTTAGTACACATTCATAAATTTATATA-TTAATTATAT
*
99033620 ATTTTTA
1 AATTTTA
99033627 ATAGATAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 37 0.90
41 4 0.10
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (40 bp):
AATTTTAGTACACATTCATAAATTTATATATTAATTATAT
Found at i:99034223 original size:33 final size:33
Alignment explanation
Indices: 99034135--99034203 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
99034125 CAACTTATAG
99034135 TTTCTTAGGATATTATTATTAATTTTATGTACT
1 TTTCTTAGGATATTATTATTAATTTTATGTACT
99034168 TTTCTTAGGATATTATTATTAATTTTATGTACT
1 TTTCTTAGGATATTATTATTAATTTTATGTACT
99034201 TTT
1 TTT
99034204 TGTTGTTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.59
Consensus pattern (33 bp):
TTTCTTAGGATATTATTATTAATTTTATGTACT
Found at i:99035997 original size:30 final size:30
Alignment explanation
Indices: 99035961--99036060 Score: 96
Period size: 30 Copynumber: 3.3 Consensus size: 30
99035951 GCAGAGCAGC
*
99035961 TCATATCACTCAGAA-ATTGCCAGTTCAAGT
1 TCATATCAC-CAGAACATAGCCAGTTCAAGT
* * *
99035991 TCATATCACCCGAACATAGGCGGTTCAAGT
1 TCATATCACCAGAACATAGCCAGTTCAAGT
* * *
99036021 TCATATCACCCAG-ACATAGGCGGTTCGAGT
1 TCATATCA-CCAGAACATAGCCAGTTCAAGT
*
99036051 TCATTTCACC
1 TCATATCACC
99036061 CAGAGCAACC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
29 6 0.10
30 52 0.85
31 3 0.05
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (30 bp):
TCATATCACCAGAACATAGCCAGTTCAAGT
Found at i:99036061 original size:30 final size:30
Alignment explanation
Indices: 99035983--99036064 Score: 130
Period size: 30 Copynumber: 2.7 Consensus size: 30
99035973 GAAATTGCCA
99035983 GTTCAAGTTCATATCACCC-GAACATAGGCG
1 GTTCAAGTTCATATCACCCAG-ACATAGGCG
99036013 GTTCAAGTTCATATCACCCAGACATAGGCG
1 GTTCAAGTTCATATCACCCAGACATAGGCG
* *
99036043 GTTCGAGTTCATTTCACCCAGA
1 GTTCAAGTTCATATCACCCAGA
99036065 GCAACCACCG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 48 0.98
31 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (30 bp):
GTTCAAGTTCATATCACCCAGACATAGGCG
Found at i:99040232 original size:30 final size:29
Alignment explanation
Indices: 99040170--99040255 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 29
99040160 TGAATATCTT
* * *
99040170 TAAAATTAATTTTAAA-TTTAATAATTTA
1 TAAAATTAATTTAAAATTTTAAAAAATTA
99040198 TAAAAATTATATTTAAAATTTTAAAAAATT-
1 T-AAAATTA-ATTTAAAATTTTAAAAAATTA
* *
99040228 TAAAATATAAATTTAAAATATTATAAAA
1 TAAAAT-T-AATTTAAAATTTTAAAAAA
99040256 CAAATAATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
28 1 0.02
29 12 0.25
30 25 0.52
31 10 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
TAAAATTAATTTAAAATTTTAAAAAATTA
Found at i:99040241 original size:13 final size:13
Alignment explanation
Indices: 99040223--99040248 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99040213 AAATTTTAAA
99040223 AAATTTAAAATAT
1 AAATTTAAAATAT
99040236 AAATTTAAAATAT
1 AAATTTAAAATAT
99040249 TATAAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTTAAAATAT
Done.