Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 248 of 311
Found at i:83048984 original size:50 final size:50
Alignment explanation
Indices: 83048930--83049031 Score: 170
Period size: 50 Copynumber: 2.0 Consensus size: 50
83048920 TATTAAATGC
83048930 TTACTCTATTTTA-TTTCTTCTATTTTATAGTACTTTGGAAACTCGTTAGG
1 TTACTCTATTTTATTTTC-TCTATTTTATAGTACTTTGGAAACTCGTTAGG
* *
83048980 TTACTCTGTTTTATTTTCTCTATTTTGTAGTACTTTGGAAACTCGTTAGG
1 TTACTCTATTTTATTTTCTCTATTTTATAGTACTTTGGAAACTCGTTAGG
83049030 TT
1 TT
83049032 GGAAGCTTGG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 45 0.92
51 4 0.08
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.53
Consensus pattern (50 bp):
TTACTCTATTTTATTTTCTCTATTTTATAGTACTTTGGAAACTCGTTAGG
Found at i:83051183 original size:26 final size:26
Alignment explanation
Indices: 83051153--83051203 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
83051143 ACCAATGAAC
*
83051153 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
83051179 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
83051204 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:83051243 original size:103 final size:103
Alignment explanation
Indices: 83051059--83051280 Score: 367
Period size: 103 Copynumber: 2.2 Consensus size: 103
83051049 AATGGATATC
83051059 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
83051124 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACC-ATAAACCGGGGAATCA
83051163 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
*
83051227 GGATCA-CGCACATAGCACCACCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCATAAACCGGGGAATCA
**
83051265 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
83051281 TTTATATACA
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
102 28 0.25
103 66 0.59
104 18 0.16
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCATAAACCGGGGAATCA
Found at i:83051641 original size:29 final size:29
Alignment explanation
Indices: 83051608--83051671 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
83051598 TAATCCACCA
83051608 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
83051637 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
83051667 CCCAA
1 CCCAA
83051672 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:83051645 original size:30 final size:30
Alignment explanation
Indices: 83051615--83051671 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
83051605 CCACCCAACT
83051615 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
83051644 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
83051672 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:83058561 original size:22 final size:23
Alignment explanation
Indices: 83058518--83058564 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
83058508 ACCACTGAAT
*
83058518 CGGGGAATCATCACTTAGCAACCC
1 CGGGGAATCAGCAC-TAGCAACCC
83058542 CGGGGAATCAGCA-TAGCAACCC
1 CGGGGAATCAGCACTAGCAACCC
83058564 C
1 C
83058565 CTTTTCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.45
24 12 0.55
ACGTcount: A:0.30, C:0.34, G:0.23, T:0.13
Consensus pattern (23 bp):
CGGGGAATCAGCACTAGCAACCC
Found at i:83058646 original size:69 final size:69
Alignment explanation
Indices: 83058529--83058709 Score: 201
Period size: 69 Copynumber: 2.6 Consensus size: 69
83058519 GGGGAATCAT
** *
83058529 CACTTAGCAA-CCC-CGGGGAATCAG--CATAGCAACCCCCTTTTCATTTCAAATATACAATGGA
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAA-CCCCTTCACATTTCAAAGATACAATGGA
83058590 TATCG
65 TATCG
***
83058595 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCTTCACATTTCAAAGATATGGTGGAT
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCTTCACATTTCAAAGATACAATGGAT
83058660 ATCG
66 ATCG
*
83058664 CACTTAGC-ACCCCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
1 CACTTAGCAACCCC--T----CGGGGAATCAGCACATAGCAACCCCT
83058710 CGGGGAATCA
Statistics
Matches: 98, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
66 10 0.10
67 3 0.03
68 16 0.16
69 35 0.36
70 9 0.09
74 25 0.26
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (69 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCTTCACATTTCAAAGATACAATGGAT
ATCG
Found at i:83058714 original size:26 final size:26
Alignment explanation
Indices: 83058684--83058735 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
83058674 CCCAATGAAC
*
83058684 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
83058710 CGGGGAATCAGCACATAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
83058736 TTCACATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:83059168 original size:28 final size:29
Alignment explanation
Indices: 83059136--83059198 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
83059126 TAATCCACCA
83059136 CCCAACTTTTTG-AAAATTACAATTTTG-C
1 CCCAAC-TTTTGCAAAATTACAATTTTGTC
* *
83059164 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGTC
83059194 CCCAA
1 CCCAA
83059199 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 8 0.27
29 18 0.60
30 4 0.13
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGTC
Found at i:83059172 original size:29 final size:30
Alignment explanation
Indices: 83059143--83059198 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
83059133 CCACCCAACT
83059143 TTTTG-AAAATTACAATTTTG-CCCCAAAC
1 TTTTGCAAAATTACAATTTTGTCCCCAAAC
* *
83059171 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGTCCCCAA
83059199 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.21
29 13 0.54
30 6 0.25
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGTCCCCAAAC
Found at i:83069528 original size:19 final size:19
Alignment explanation
Indices: 83069475--83069542 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
83069465 AAATATTTAA
83069475 AAAAT-TAAAAGAAAATATAT
1 AAAATATAAAAG-AAAT-TAT
* * * *
83069495 AAAA-ATTATATAAATTTT
1 AAAATATAAAAGAAATTAT
83069513 AAAATATAAAAGAAATTAT
1 AAAATATAAAAGAAATTAT
*
83069532 AAAGTATAAAA
1 AAAATATAAAA
83069543 ATATGTGTCT
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
18 6 0.16
19 24 0.65
20 7 0.19
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAATATAAAAGAAATTAT
Found at i:83069541 original size:26 final size:27
Alignment explanation
Indices: 83069464--83069546 Score: 65
Period size: 26 Copynumber: 3.3 Consensus size: 27
83069454 ATTTTTTATA
*
83069464 AAAATATTTAAAAAAT-TA-AAAG---
1 AAAATATATAAAAAATATATAAAGTAT
* * *
83069486 AAAATATATAAAAATTATATAAATTTT
1 AAAATATATAAAAAATATATAAAGTAT
83069513 AAAATATA-AAAGAAAT-TATAAAGTAT
1 AAAATATATAAA-AAATATATAAAGTAT
83069539 AAAA-ATAT
1 AAAATATAT
83069547 GTGTCTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
22 14 0.29
23 2 0.04
24 3 0.06
25 3 0.06
26 15 0.31
27 11 0.23
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (27 bp):
AAAATATATAAAAAATATATAAAGTAT
Found at i:83069543 original size:27 final size:27
Alignment explanation
Indices: 83069486--83069546 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
83069476 AAATTAAAAG
* * *
83069486 AAAATATATAAAAATTATATAAATTTT
1 AAAATATAAAAAAATTATATAAATATA
*
83069513 AAAATATAAAAGAAATTATA-AAGTATA
1 AAAATATAAAA-AAATTATATAAATATA
83069540 AAAATAT
1 AAAATAT
83069547 GTGTCTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 21 0.72
28 8 0.28
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (27 bp):
AAAATATAAAAAAATTATATAAATATA
Found at i:83072969 original size:16 final size:16
Alignment explanation
Indices: 83072944--83072977 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
83072934 ATGAATATAT
* *
83072944 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
83072960 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
83072976 AT
1 AT
83072978 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:83077007 original size:164 final size:163
Alignment explanation
Indices: 83076799--83077127 Score: 532
Period size: 164 Copynumber: 2.0 Consensus size: 163
83076789 AAAGAAGTGA
* * * *
83076799 TTTCTATGGATGCAAAGCTGATGTTTCTTTAGATGAGGTGGATCTTTCAACTACACAACTACAAC
1 TTTCCATGGATGCAAAGCTGATGTTTCTTTAGATGAGATGGATCTCTCAACTACACAACCACAAC
*
83076864 CATCTAGAAACCAAGATGATTCCACATTTTCAAAGAAGAAAAAAAAAGATTTCTGATGCAAGTGA
66 CATCTAGAAACCAAGATGATTCCACATTTTCAAAGAAG-AAAAAAAAGATTTCTGATGAAAGTGA
* * *
83076929 ACAAATTTCTACTTTATTTATTGGTGCAGCCACG
130 ACAAATTTCTACTTCATCTATTGATGCAGCCACG
* * *
83076963 TTTCCATGGATGCGAAGCTGATGTTTCTTTGGATGAGATGGATCTCTCAACTACACAACCGCAAC
1 TTTCCATGGATGCAAAGCTGATGTTTCTTTAGATGAGATGGATCTCTCAACTACACAACCACAAC
*
83077028 CATCTAGAAACCAAGATGATTCCACATTTTCAAAGAAGGAAAAAAAGATTTCTGATGAAAGTGAA
66 CATCTAGAAACCAAGATGATTCCACATTTTCAAAGAAGAAAAAAAAGATTTCTGATGAAAGTGAA
*
83077093 CAAATTTCTACTTCATCTATTGATGTAGCCACG
131 CAAATTTCTACTTCATCTATTGATGCAGCCACG
83077126 TT
1 TT
83077128 ATTGGCAGAA
Statistics
Matches: 152, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
163 56 0.37
164 96 0.63
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (163 bp):
TTTCCATGGATGCAAAGCTGATGTTTCTTTAGATGAGATGGATCTCTCAACTACACAACCACAAC
CATCTAGAAACCAAGATGATTCCACATTTTCAAAGAAGAAAAAAAAGATTTCTGATGAAAGTGAA
CAAATTTCTACTTCATCTATTGATGCAGCCACG
Found at i:83080519 original size:3 final size:3
Alignment explanation
Indices: 83080511--83080551 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
83080501 GTTAAAATGA
83080511 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
83080552 AGTTTAACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:83082967 original size:30 final size:29
Alignment explanation
Indices: 83082933--83082995 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 29
83082923 CTTAACAAAT
83082933 AAATGTCTCTAAAATAATAACAAAATTAA
1 AAATGTCTCTAAAATAATAACAAAATTAA
*
83082962 CAAATGTCTTTAAAATAATAACAAAATTAA
1 -AAATGTCTCTAAAATAATAACAAAATTAA
83082992 AAAT
1 AAAT
83082996 AAAATAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.29
Consensus pattern (29 bp):
AAATGTCTCTAAAATAATAACAAAATTAA
Found at i:83086490 original size:2 final size:2
Alignment explanation
Indices: 83086483--83086528 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
83086473 TTAGAACAAA
83086483 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
83086525 AG AG
1 AG AG
83086529 TAGTGTATCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:83109597 original size:75 final size:75
Alignment explanation
Indices: 83109485--83109636 Score: 277
Period size: 75 Copynumber: 2.0 Consensus size: 75
83109475 AATATGGAAT
*
83109485 TAATAATGTAATGCAAGCAGAAGAAGAAAGCTATCACTACAATGACCATTTTATCATATTATTGA
1 TAATAATGTAATGCAAGCAGAAGAAGAAAGCTATCACTACAATGACCATTTTATCATATTAATGA
83109550 AATAAAACTA
66 AATAAAACTA
* *
83109560 TAATAATGTAATGCAAGCAGAAGACGAAAGCTATCACTACAATGACCTTTTTATCATATTAATGA
1 TAATAATGTAATGCAAGCAGAAGAAGAAAGCTATCACTACAATGACCATTTTATCATATTAATGA
83109625 AATAAAACTA
66 AATAAAACTA
83109635 TA
1 TA
83109637 TTTGATCACA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (75 bp):
TAATAATGTAATGCAAGCAGAAGAAGAAAGCTATCACTACAATGACCATTTTATCATATTAATGA
AATAAAACTA
Found at i:83110841 original size:15 final size:15
Alignment explanation
Indices: 83110821--83110851 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
83110811 CATCTATTAA
83110821 TAAAATTATATGATT
1 TAAAATTATATGATT
83110836 TAAAATTATATGATT
1 TAAAATTATATGATT
83110851 T
1 T
83110852 GAGGAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TAAAATTATATGATT
Found at i:83118318 original size:40 final size:40
Alignment explanation
Indices: 83118263--83118444 Score: 233
Period size: 40 Copynumber: 4.5 Consensus size: 40
83118253 ATTTGAATGA
*
83118263 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
83118303 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
83118343 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
83118383 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* *
83118423 TACCCGGGTTAAGACCCGAAGG
1 TATCCGGGCTAAGACCCGAAGG
83118445 AAATTGTGCT
Statistics
Matches: 134, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
40 131 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:83118401 original size:80 final size:80
Alignment explanation
Indices: 83118262--83118473 Score: 241
Period size: 80 Copynumber: 2.7 Consensus size: 80
83118252 CATTTGAATG
* * * * *
83118262 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
* *
83118327 TTTATGCTAG-TGATT
66 TTTATGCGAGTTG-CT
*
83118342 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
*
83118406 ATTTGTGCGAGTTGCT
65 ATTTATGCGAGTTGCT
* * * * ** *
83118422 ATACCCGGGTTAAGACCCGAAGGAAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAA
83118474 ATTCCGAAGA
Statistics
Matches: 112, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
79 8 0.07
80 99 0.88
81 5 0.04
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTATGCGAGTTGCT
Found at i:83126715 original size:26 final size:26
Alignment explanation
Indices: 83126685--83126735 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
83126675 ACCAATGAAC
*
83126685 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
83126711 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
83126736 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:83126775 original size:103 final size:104
Alignment explanation
Indices: 83126448--83126813 Score: 609
Period size: 103 Copynumber: 3.6 Consensus size: 104
83126438 TAACCGTTAT
* * *
83126448 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
83126513 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
83126551 ---TGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
83126613 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
83126652 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
83126716 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * **
83126755 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
83126814 TTATATACAA
Statistics
Matches: 250, Mismatches: 8, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
100 83 0.33
101 13 0.05
103 96 0.38
104 58 0.23
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:83127171 original size:29 final size:29
Alignment explanation
Indices: 83127138--83127201 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
83127128 TAATCCACCA
83127138 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
83127167 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
83127197 CCCAA
1 CCCAA
83127202 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:83127175 original size:30 final size:30
Alignment explanation
Indices: 83127145--83127201 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
83127135 CCACCCAACT
83127145 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
83127174 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
83127202 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:83130927 original size:40 final size:40
Alignment explanation
Indices: 83130701--83130921 Score: 361
Period size: 40 Copynumber: 5.5 Consensus size: 40
83130691 TATGTGCATA
*
83130701 GCATTCGTGTGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
83130741 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
83130781 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTTCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* * *
83130821 GCATTCGTGCAGGTTATTATAATCGGGTTAAGTCCCAAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
83130861 GCATTTGTGCGGGTTATTATAACCGAGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
83130901 GCATTCGTGCTGGTTGTTATA
1 GCATTCGTGCGGGTTATTATA
83130922 TCCGAGCCAA
Statistics
Matches: 167, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 167 1.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:83136668 original size:18 final size:18
Alignment explanation
Indices: 83136645--83136680 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
83136635 TAACATATAA
83136645 AAGTATATAATACATACC
1 AAGTATATAATACATACC
83136663 AAGTATATAATACATACC
1 AAGTATATAATACATACC
83136681 TGACCAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (18 bp):
AAGTATATAATACATACC
Found at i:83137068 original size:39 final size:39
Alignment explanation
Indices: 83136813--83137046 Score: 328
Period size: 39 Copynumber: 6.0 Consensus size: 39
83136803 AGAAAGCATG
* * * *
83136813 CGGGACTTTAAGCCCAGATATAATACCAGCATAAA-GCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAAATGCCTT
* *
83136853 CGGGACTTTAGCCCGGATATAATACCAGCATAAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACAAATGCCTT
83136893 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
*
83136932 CGAGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
*
83136971 CGGGACTTAGCCCAGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
* * *
83137010 CGGGACTTAGCTCGGATATAATACCAGCATAAA-GCCT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCT
83137047 GCGGACCTCA
Statistics
Matches: 182, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
38 4 0.02
39 159 0.87
40 19 0.10
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
Found at i:83145119 original size:21 final size:21
Alignment explanation
Indices: 83145094--83145134 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
83145084 AAGTCCAAAG
*
83145094 GCTAAATAGAAGCACATAAGT
1 GCTAAATAGAAACACATAAGT
*
83145115 GCTAAATAGAAACCCATAAG
1 GCTAAATAGAAACACATAAG
83145135 GGTTAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (21 bp):
GCTAAATAGAAACACATAAGT
Found at i:83145141 original size:21 final size:21
Alignment explanation
Indices: 83145093--83145141 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
83145083 GAAGTCCAAA
*
83145093 GGCTAAATAGAAGCACATAAG
1 GGCTAAATAGAAACACATAAG
* *
83145114 TGCTAAATAGAAACCCATAAG
1 GGCTAAATAGAAACACATAAG
*
83145135 GGTTAAA
1 GGCTAAA
83145142 CAAAAGCTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.18
Consensus pattern (21 bp):
GGCTAAATAGAAACACATAAG
Found at i:83151261 original size:28 final size:29
Alignment explanation
Indices: 83151197--83151261 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 29
83151187 TTTTCATTTA
* *
83151197 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATTGACACT
* * *
83151226 TTTCTCAATTTAATCTCT-AATTGACATT
1 TTTCTCAATTTAACCCCTCAATTGACACT
*
83151254 TTTGTCAA
1 TTTCTCAA
83151262 AAATCACTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.29, C:0.23, G:0.03, T:0.45
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATTGACACT
Found at i:83166639 original size:55 final size:56
Alignment explanation
Indices: 83166580--83166707 Score: 145
Period size: 55 Copynumber: 2.3 Consensus size: 56
83166570 CGTGTCAATC
* * * *
83166580 TAACAAGTTCGACCACGGGTGC-TAGACACGGGTGTGTCGCACGCTCGTGTAGTTT
1 TAACAGGTTCGACCACGGGTGCTTACACACGGGCGTGTCGCACGCCCGTGTAGTTT
* * * *
83166635 TAACAGGTTC-ACC-CATGGTTCTTCCACACGGGCGTGTCGCACGCCCGTGTTGTTT
1 TAACAGGTTCGACCAC-GGGTGCTTACACACGGGCGTGTCGCACGCCCGTGTAGTTT
*
83166690 TGACAGGTTCGACCACGG
1 TAACAGGTTCGACCACGG
83166708 CCATGTTGCA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
53 1 0.02
54 7 0.12
55 46 0.78
56 4 0.07
57 1 0.02
ACGTcount: A:0.18, C:0.27, G:0.29, T:0.26
Consensus pattern (56 bp):
TAACAGGTTCGACCACGGGTGCTTACACACGGGCGTGTCGCACGCCCGTGTAGTTT
Found at i:83182010 original size:25 final size:25
Alignment explanation
Indices: 83181976--83182026 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
83181966 TAGAAAAATT
*
83181976 TATTCTGATTAATTTTTATAATTTA
1 TATTCCGATTAATTTTTATAATTTA
83182001 TATTCCGATTAATTTTTATAATTTA
1 TATTCCGATTAATTTTTATAATTTA
83182026 T
1 T
83182027 TGAGTGATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (25 bp):
TATTCCGATTAATTTTTATAATTTA
Found at i:83182035 original size:25 final size:23
Alignment explanation
Indices: 83181972--83182036 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 23
83181962 TAAGTAGAAA
**
83181972 AATTTATTCTGATTAATTTTTAT
1 AATTTATAGTGATTAATTTTTAT
*
83181995 AATTTATATTCCGATTAATTTTTAT
1 AATTTATAGT--GATTAATTTTTAT
83182020 AATTTATTGAGTGATTA
1 AATTTA-T-AGTGATTA
83182037 GATGCATGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
23 8 0.23
25 24 0.69
26 1 0.03
27 2 0.06
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (23 bp):
AATTTATAGTGATTAATTTTTAT
Found at i:83183246 original size:28 final size:29
Alignment explanation
Indices: 83183182--83183246 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 29
83183172 TTTTCATTTA
* *
83183182 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATTGACACT
** *
83183211 TTTCTCAATTTAATTCCT-AATTGACATT
1 TTTCTCAATTTAACCCCTCAATTGACACT
*
83183239 TTTGTCAA
1 TTTCTCAA
83183247 AAATCACTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.29, C:0.23, G:0.03, T:0.45
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATTGACACT
Found at i:83186288 original size:13 final size:13
Alignment explanation
Indices: 83186270--83186314 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
83186260 GTGTGCACGC
83186270 CCGTGTGGCCAGG
1 CCGTGTGGCCAGG
*
83186283 CCGTGT-G-CACGC
1 CCGTGTGGCCA-GG
83186295 CCGTGTGGCCAGG
1 CCGTGTGGCCAGG
83186308 CCGTGTG
1 CCGTGTG
83186315 CACGTTCGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 2 0.07
12 8 0.30
13 15 0.56
14 2 0.07
ACGTcount: A:0.07, C:0.33, G:0.42, T:0.18
Consensus pattern (13 bp):
CCGTGTGGCCAGG
Found at i:83186300 original size:12 final size:12
Alignment explanation
Indices: 83186260--83186301 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
83186250 TGGCCAAGCT
83186260 GTGTGCACGCCC
1 GTGTGCACGCCC
*
83186272 GTGTGGC-CAGGCC
1 GTGT-GCAC-GCCC
83186285 GTGTGCACGCCC
1 GTGTGCACGCCC
83186297 GTGTG
1 GTGTG
83186302 GCCAGGCCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.07, C:0.33, G:0.40, T:0.19
Consensus pattern (12 bp):
GTGTGCACGCCC
Found at i:83186325 original size:25 final size:25
Alignment explanation
Indices: 83186240--83186318 Score: 131
Period size: 25 Copynumber: 3.2 Consensus size: 25
83186230 GCAAGAGACA
* * *
83186240 CACGCTCGTGTGGCCAAGCTGTGTG
1 CACGCCCGTGTGGCCAGGCCGTGTG
83186265 CACGCCCGTGTGGCCAGGCCGTGTG
1 CACGCCCGTGTGGCCAGGCCGTGTG
83186290 CACGCCCGTGTGGCCAGGCCGTGTG
1 CACGCCCGTGTGGCCAGGCCGTGTG
83186315 CACG
1 CACG
83186319 TTCGTGTCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.10, C:0.34, G:0.38, T:0.18
Consensus pattern (25 bp):
CACGCCCGTGTGGCCAGGCCGTGTG
Found at i:83186325 original size:50 final size:49
Alignment explanation
Indices: 83186240--83186338 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 49
83186230 GCAAGAGACA
* *
83186240 CACGCTCGTGTGGCCAAGCTGTGTGCACGCCCGTGTGGCC-AGGCCGTGTG
1 CACGCCCGTGTGGCCAAGCCGTGTGCACGCCCGTGT--CCTAGGCCGTGTG
* **
83186290 CACGCCCGTGTGGCCAGGCCGTGTGCACGTTCGTGTCCTAGGCCGTGTG
1 CACGCCCGTGTGGCCAAGCCGTGTGCACGCCCGTGTCCTAGGCCGTGTG
83186339 GGCATTCGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
48 2 0.05
49 10 0.23
50 31 0.72
ACGTcount: A:0.09, C:0.32, G:0.37, T:0.21
Consensus pattern (49 bp):
CACGCCCGTGTGGCCAAGCCGTGTGCACGCCCGTGTCCTAGGCCGTGTG
Found at i:83189937 original size:174 final size:175
Alignment explanation
Indices: 83189639--83189980 Score: 506
Period size: 174 Copynumber: 2.0 Consensus size: 175
83189629 TTTTGAAGAG
* * *
83189639 ATTATTCTAAAAATTTTCTAAAGATATTTTTTTGATTTACAACTTTACCCAAAAGTTTAGAGAAA
1 ATTATTCTAAAAAATTTCTAAAGATATTTTTCTGATTTACAACTTGACCCAAAAGTTTAGAGAAA
* * *** * *
83189704 TTGTAATATTACCCTAATAGTAATTTTTGTGAATTTTTTTTTGATTTGAAGCGAGCCCACACTC-
66 TTGTAAAATTACCCCAATAGTAATTTTTGTGAAAAATTTTCTGATTAGAAGCGAGCCCACACTCG
* *
83189768 AAAAAAGTGAGCTTGAGGATAGCGAAGACGACTACTCGATTAAAT
131 AAAAAAGTGAGCTTAAGGATAGCGAAGAAGACTACTCGATTAAAT
*
83189813 ATTATTCTAAAAAATTTCTAGAGATATTTTTCTGATTTACAACTTGACCCAAAAGTTTAGAGAAA
1 ATTATTCTAAAAAATTTCTAAAGATATTTTTCTGATTTACAACTTGACCCAAAAGTTTAGAGAAA
* * *
83189878 TTGTAAAATTACCCCACTGGTAATTTTTGTGAAAAATTTTCTGATTAGAAGCTAGCCCACACTCG
66 TTGTAAAATTACCCCAATAGTAATTTTTGTGAAAAATTTTCTGATTAGAAGCGAGCCCACACTCG
* * *
83189943 ACAAACGTGATCTTAAGGATAGCGAAGAAGACTACTCG
131 AAAAAAGTGAGCTTAAGGATAGCGAAGAAGACTACTCG
83189981 GTCGAATAAA
Statistics
Matches: 148, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
174 115 0.78
175 33 0.22
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (175 bp):
ATTATTCTAAAAAATTTCTAAAGATATTTTTCTGATTTACAACTTGACCCAAAAGTTTAGAGAAA
TTGTAAAATTACCCCAATAGTAATTTTTGTGAAAAATTTTCTGATTAGAAGCGAGCCCACACTCG
AAAAAAGTGAGCTTAAGGATAGCGAAGAAGACTACTCGATTAAAT
Found at i:83193515 original size:25 final size:27
Alignment explanation
Indices: 83193481--83193532 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
83193471 AATTGGTAAA
*
83193481 ATTTTTCTATCA-AT-ATTTTCATGCG
1 ATTTTCCTATCATATAATTTTCATGCG
83193506 ATTTTCCTATCATATCAATTTTCATGC
1 ATTTTCCTATCATAT-AATTTTCATGC
83193533 AAAAATATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 2 0.09
28 10 0.43
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (27 bp):
ATTTTCCTATCATATAATTTTCATGCG
Found at i:83193983 original size:11 final size:11
Alignment explanation
Indices: 83193963--83193994 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
83193953 AGAAATTGCA
*
83193963 TTAATGGCATG
1 TTAATTGCATG
83193974 TTAATTGCATG
1 TTAATTGCATG
83193985 TTAATTGCAT
1 TTAATTGCAT
83193995 ATTACCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (11 bp):
TTAATTGCATG
Found at i:83200630 original size:12 final size:12
Alignment explanation
Indices: 83200613--83200645 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
83200603 TATTTTTTAG
83200613 TTATTTACTCAC
1 TTATTTACTCAC
*
83200625 TTATTTATTCAC
1 TTATTTACTCAC
83200637 TTATTTACT
1 TTATTTACT
83200646 TCAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTACTCAC
Found at i:83201582 original size:64 final size:64
Alignment explanation
Indices: 83201504--83201639 Score: 157
Period size: 63 Copynumber: 2.1 Consensus size: 64
83201494 ATAGAAATAG
* * * **
83201504 TGAAAACGGAGAAATGGGAAACATTTAGAAATGAATGCAGTTTTCTCTGAAATGAAAATG-AAAA
1 TGAAAATGGAGAAAT-AGAAACATTTAGAAATGAATACAGTTTTCTCCAAAATGAAAATGAAAAA
* * * * **
83201568 TGAAAATGGTGAAATAGAATCATTTGGGAATGAATATGGTTTTCTCCAAAATGAAAATGAAAAA
1 TGAAAATGGAGAAATAGAAACATTTAGAAATGAATACAGTTTTCTCCAAAATGAAAATGAAAAA
83201632 TGAAAATG
1 TGAAAATG
83201640 ACCTGGAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
63 35 0.58
64 25 0.42
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (64 bp):
TGAAAATGGAGAAATAGAAACATTTAGAAATGAATACAGTTTTCTCCAAAATGAAAATGAAAAA
Found at i:83201633 original size:13 final size:13
Alignment explanation
Indices: 83201615--83201640 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83201605 GGTTTTCTCC
83201615 AAAATGAAAATGA
1 AAAATGAAAATGA
83201628 AAAATGAAAATGA
1 AAAATGAAAATGA
83201641 CCTGGAAATG
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:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAATGA
Found at i:83202833 original size:18 final size:17
Alignment explanation
Indices: 83202811--83202855 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
83202801 AAAAAAATTA
83202811 AAAATTTTTAAAAATAT
1 AAAATTTTTAAAAATAT
**
83202828 ATAAATTCATAAAAAGTAT
1 A-AAATTTTTAAAAA-TAT
83202847 AAAATTTTT
1 AAAATTTTT
83202856 CACATCAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 1 0.05
18 17 0.77
19 4 0.18
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
AAAATTTTTAAAAATAT
Found at i:83207464 original size:20 final size:23
Alignment explanation
Indices: 83207441--83207484 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
83207431 CCAATATTTG
83207441 CAAACA-TAT-ACCAA-CCAATT
1 CAAACATTATAACCAAGCCAATT
83207461 CAAACATTATAACCAAGCCAATT
1 CAAACATTATAACCAAGCCAATT
83207484 C
1 C
83207485 TAACTTCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 3 0.14
22 5 0.24
23 7 0.33
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (23 bp):
CAAACATTATAACCAAGCCAATT
Found at i:83208854 original size:13 final size:13
Alignment explanation
Indices: 83208836--83208869 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
83208826 AGCATATGGG
*
83208836 TGTGTGTCTTGGC
1 TGTGTGTCTAGGC
83208849 TGTGTGTCTAGGC
1 TGTGTGTCTAGGC
*
83208862 CGTGTGTC
1 TGTGTGTC
83208870 CCTAAATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.03, C:0.18, G:0.38, T:0.41
Consensus pattern (13 bp):
TGTGTGTCTAGGC
Found at i:83210471 original size:22 final size:22
Alignment explanation
Indices: 83210445--83210490 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
83210435 TAAAATTATA
*
83210445 TTTTAATTAAA-AATATTTTAAT
1 TTTTAACTAAATAATA-TTTAAT
83210467 TTTTAACTAAATTAATATTTAAT
1 TTTTAACTAAA-TAATATTTAAT
83210490 T
1 T
83210491 AATTCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 7 0.33
24 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTTAACTAAATAATATTTAAT
Found at i:83213190 original size:37 final size:37
Alignment explanation
Indices: 83213133--83213203 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
83213123 ATAATCACGT
* *
83213133 AAACTTATTACATGCAAACCCTAGGATTATGACAAGC
1 AAACTTATTACATACAAACCCTAGGACTATGACAAGC
*
83213170 AAACTTATTACATACGAACCCTAGGACTATGACA
1 AAACTTATTACATACAAACCCTAGGACTATGACA
83213204 CGTGAACCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.24
Consensus pattern (37 bp):
AAACTTATTACATACAAACCCTAGGACTATGACAAGC
Found at i:83213232 original size:22 final size:22
Alignment explanation
Indices: 83213174--83213238 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
83213164 ACAAGCAAAC
*
83213174 TTATTACATACGAACCCTAGGA
1 TTATGACATACGAACCCTAGGA
* ***
83213196 CTATGACACGTGAACCCTAGGA
1 TTATGACATACGAACCCTAGGA
*
83213218 TTATGACATACGAACCTTAGG
1 TTATGACATACGAACCCTAGG
83213239 TCATGCTATA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (22 bp):
TTATGACATACGAACCCTAGGA
Found at i:83216786 original size:47 final size:46
Alignment explanation
Indices: 83216708--83216846 Score: 116
Period size: 47 Copynumber: 3.2 Consensus size: 46
83216698 CTAATTCGGA
* * ** *
83216708 TTTAAATAGTATATTTTTATAATAGTAAAAATATAAATTTTATTAT
1 TTTAATTATTATATTTTTATAATTTTTAAAATATAAATTTTATTAT
*
83216754 TTTAATTATTTATATTTTTATAATTTTTAAAATATTAAA----ATAAT
1 TTTAATTA-TTATATTTTTATAATTTTTAAAATA-TAAATTTTATTAT
* *
83216798 TTT--TTATTAT-TTTTGA-AAATTTTAAAATAT-AATTTTATTAT
1 TTTAATTATTATATTTTTATAATTTTTAAAATATAAATTTTATTAT
83216839 TATTAATT
1 T-TTAATT
83216847 TAAAATTTTA
Statistics
Matches: 75, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
37 2 0.03
38 1 0.01
39 12 0.16
40 5 0.07
41 9 0.12
42 5 0.07
44 9 0.12
46 7 0.09
47 21 0.28
48 4 0.05
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (46 bp):
TTTAATTATTATATTTTTATAATTTTTAAAATATAAATTTTATTAT
Found at i:83216823 original size:31 final size:30
Alignment explanation
Indices: 83216768--83216861 Score: 107
Period size: 30 Copynumber: 2.9 Consensus size: 30
83216758 ATTATTTATA
* *
83216768 TTTTTATAATTTTTAAAATATTAAAATAAT
1 TTTTTATTATTTTTAAAATTTTAAAATAAT
83216798 TTTTTATTATTTTTGAAAATTTTAAAATATAAT
1 TTTTTATTATTTTT-AAAATTTT-AAA-ATAAT
83216831 TTTATTATTATTAATTTAAAATTTTATAAAT
1 TTT-TTATTATT--TTTAAAATTTTA-AAAT
83216862 TACAAAAGAA
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
30 13 0.24
31 7 0.13
32 3 0.05
33 8 0.15
34 11 0.20
35 10 0.18
36 3 0.05
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (30 bp):
TTTTTATTATTTTTAAAATTTTAAAATAAT
Found at i:83222287 original size:33 final size:33
Alignment explanation
Indices: 83222248--83222317 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
83222238 ACAAACATAC
83222248 AAAGTAATAATTAAATAATGCATGATATACAAA
1 AAAGTAATAATTAAATAATGCATGATATACAAA
*
83222281 AAAGTAATAATTAAATAATGTATGATATACAAA
1 AAAGTAATAATTAAATAATGCATGATATACAAA
83222314 AAAG
1 AAAG
83222318 AGTAATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.59, C:0.04, G:0.10, T:0.27
Consensus pattern (33 bp):
AAAGTAATAATTAAATAATGCATGATATACAAA
Found at i:83222554 original size:24 final size:24
Alignment explanation
Indices: 83222508--83222555 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
83222498 CTATACAATA
*
83222508 TATAAAACATGATAACAAAATATT
1 TATAAAAAATGATAACAAAATATT
*
83222532 TATAAAAGAATGATAA-AATATATT
1 TATAAAA-AATGATAACAAAATATT
83222556 GGGTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.31
Consensus pattern (24 bp):
TATAAAAAATGATAACAAAATATT
Found at i:83222673 original size:23 final size:23
Alignment explanation
Indices: 83222632--83222679 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
83222622 TATCATTTTA
*
83222632 AAATAAAATAATACTTAATAAAT
1 AAATAAAATAATACATAATAAAT
* * *
83222655 AAATAATATAATAGATAATATAT
1 AAATAAAATAATACATAATAAAT
83222678 AA
1 AA
83222680 TATACATAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATAAAATAATACATAATAAAT
Found at i:83222707 original size:40 final size:42
Alignment explanation
Indices: 83222648--83222740 Score: 104
Period size: 40 Copynumber: 2.3 Consensus size: 42
83222638 AATAATACTT
* * * *
83222648 AATA-AATAAATAATATAAT-AGATAATATATAATATACATAA
1 AATATAATAAATAAAATAATAAG-TAATATAGAATAAAAATAA
*
83222689 CATAT-ATAAA-AAAATAATAAGTAATATAGAATAAAAATAA
1 AATATAATAAATAAAATAATAAGTAATATAGAATAAAAATAA
83222729 AATATAATAAAT
1 AATATAATAAAT
83222741 GTTATATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
40 27 0.64
41 15 0.36
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (42 bp):
AATATAATAAATAAAATAATAAGTAATATAGAATAAAAATAA
Found at i:83225986 original size:3 final size:3
Alignment explanation
Indices: 83225980--83226255 Score: 137
Period size: 3 Copynumber: 92.7 Consensus size: 3
83225970 TTTTCTGTTC
* * ** * *
83225980 TTA TTA TTA TCA CTA TTA TCG TTA TTA CTA TTA TTA TT- TTT TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
83226026 TTA TTA TT- TATA TTA TTG TTG TTA TTA TTA TTA TTCC TGA TT- TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
* * * *
83226071 TTG TTA TTAA TGTA TTA TTG TTA TTCT TTA TT- TTA TTA TTA CTA TTA
1 TTA TTA TT-A T-TA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
** * * *
83226118 TT- TCTA TTA TTA TTA TTA TGG CTA TTA TTT TTA TTA TGA TTA -TA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
83226162 TT- TTC TT- TT- TTAA GT- TTA TCTA CTTA TTA TT- TTA TTA TTAA TTA
1 TTA TTA TTA TTA TT-A TTA TTA T-TA -TTA TTA TTA TTA TTA TT-A TTA
** *
83226206 TT- TTA GCA TTA TTTA TTA TTA TTA TTA TTA TTT TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
83226251 CTA TT
1 TTA TT
83226256 TTTGATATCT
Statistics
Matches: 205, Mismatches: 45, Indels: 46
0.69 0.15 0.16
Matches are distributed among these distances:
2 23 0.11
3 160 0.78
4 20 0.10
5 2 0.01
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:83226769 original size:15 final size:15
Alignment explanation
Indices: 83226749--83226783 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
83226739 AGATTTCATC
*
83226749 ATTGTTATTCTTATT
1 ATTGTTATTATTATT
83226764 ATTGTTATTATTATT
1 ATTGTTATTATTATT
*
83226779 TTTGT
1 ATTGT
83226784 GTCATTATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.20, C:0.03, G:0.09, T:0.69
Consensus pattern (15 bp):
ATTGTTATTATTATT
Found at i:83228552 original size:43 final size:43
Alignment explanation
Indices: 83228494--83228641 Score: 199
Period size: 43 Copynumber: 3.4 Consensus size: 43
83228484 AAATGCCATA
*
83228494 AAAGATCATGACTTTTAGCGGCGTTTGTAAGAAAAGCGTCGCT
1 AAAGATCATGACTTTTAGCGGCGTTTGTGAGAAAAGCGTCGCT
* * * * *
83228537 AAAGATCATGGCTTTTAGCGGCATTTGTGGGGAAAGTGTCGCT
1 AAAGATCATGACTTTTAGCGGCGTTTGTGAGAAAAGCGTCGCT
* * *
83228580 AAA-AGTCATGGCTTTTAGCAGCGTTTGTGAGAAAAGCGCCGCT
1 AAAGA-TCATGACTTTTAGCGGCGTTTGTGAGAAAAGCGTCGCT
83228623 AAAGATCATGACTTTTAGC
1 AAAGATCATGACTTTTAGC
83228642 AATTTTTGTG
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.01
43 88 0.98
44 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (43 bp):
AAAGATCATGACTTTTAGCGGCGTTTGTGAGAAAAGCGTCGCT
Found at i:83228650 original size:86 final size:86
Alignment explanation
Indices: 83228492--83228684 Score: 235
Period size: 86 Copynumber: 2.2 Consensus size: 86
83228482 AAAAATGCCA
* * * * *
83228492 TAAAAGATCATGACTTTTAGCGGCGTTTGTAAGAAAAGCGTCGCTAAAGATCATGGCTTTTAGCG
1 TAAAAG-TCATGGCTTTTAGCAGCGTTTGTAAGAAAAGCGCCGCTAAAGATCATGACTTTTAGCA
* * ***
83228557 GCATTTGTGGG-GAAAGTGTCGC
65 ACATTTGTGGGAAAAACACT-GC
*
83228579 TAAAAGTCATGGCTTTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGATCATGACTTTTAGCAA
1 TAAAAGTCATGGCTTTTAGCAGCGTTTGTAAGAAAAGCGCCGCTAAAGATCATGACTTTTAGCAA
** *
83228644 TTTTTGTGGGAAAAACACTGT
66 CATTTGTGGGAAAAACACTGC
83228665 TAAAAGTCATGGCTTTTAGC
1 TAAAAGTCATGGCTTTTAGC
83228685 GGCGCTTTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
86 81 0.89
87 10 0.11
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (86 bp):
TAAAAGTCATGGCTTTTAGCAGCGTTTGTAAGAAAAGCGCCGCTAAAGATCATGACTTTTAGCAA
CATTTGTGGGAAAAACACTGC
Found at i:83228675 original size:43 final size:43
Alignment explanation
Indices: 83228576--83228684 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 43
83228566 GGGAAAGTGT
* * *
83228576 CGCTAAAAGTCATGGCTTTTAGCAGCGTTTGTGAGAAAAGCGC
1 CGCTAAAAGTCATGGCTTTTAGCAACGTTTGTGAGAAAAACAC
* ** *
83228619 CGCT-AAAGATCATGACTTTTAGCAATTTTTGTGGGAAAAACAC
1 CGCTAAAAG-TCATGGCTTTTAGCAACGTTTGTGAGAAAAACAC
* *
83228662 TGTTAAAAGTCATGGCTTTTAGC
1 CGCTAAAAGTCATGGCTTTTAGC
83228685 GGCGCTTTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 4 0.07
43 46 0.85
44 4 0.07
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (43 bp):
CGCTAAAAGTCATGGCTTTTAGCAACGTTTGTGAGAAAAACAC
Found at i:83228747 original size:31 final size:31
Alignment explanation
Indices: 83228712--83228777 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
83228702 CGCTGTTCCT
* *
83228712 GCATTAAATCCAACCAAATACAACTAATATA
1 GCATTAAATCCAACCAAAAACAACAAATATA
* *
83228743 GCATTGAATCCAACCAAAAACAACAAATGTA
1 GCATTAAATCCAACCAAAAACAACAAATATA
83228774 GCAT
1 GCAT
83228778 AAAAAATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.50, C:0.23, G:0.08, T:0.20
Consensus pattern (31 bp):
GCATTAAATCCAACCAAAAACAACAAATATA
Found at i:83229054 original size:21 final size:21
Alignment explanation
Indices: 83229030--83229081 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
83229020 TCTACTGCCA
83229030 TCGCTGCTGCCGCTACCTCCC
1 TCGCTGCTGCCGCTACCTCCC
* **
83229051 TCGCTGTTGCCGCTGTCTCCC
1 TCGCTGCTGCCGCTACCTCCC
*
83229072 TTGCTGCTGC
1 TCGCTGCTGC
83229082 ATCCGTTCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.44, G:0.23, T:0.31
Consensus pattern (21 bp):
TCGCTGCTGCCGCTACCTCCC
Found at i:83229515 original size:13 final size:14
Alignment explanation
Indices: 83229489--83229517 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
83229479 ACTAACGACG
83229489 AATTAAACCATTAT
1 AATTAAACCATTAT
83229503 AATTAAA-CATTAT
1 AATTAAACCATTAT
83229516 AA
1 AA
83229518 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:83234603 original size:9 final size:9
Alignment explanation
Indices: 83234551--83234979 Score: 164
Period size: 9 Copynumber: 46.7 Consensus size: 9
83234541 TAAGTATAAT
*
83234551 TAAGTTCTG
1 TAAGTTATG
83234560 TAAGTTATG
1 TAAGTTATG
* * *
83234569 ATATGATATA
1 -TAAGTTATG
*
83234579 T-ATTTATG
1 TAAGTTATG
83234587 T-A-TTATG
1 TAAGTTATG
83234594 TAAGTTATG
1 TAAGTTATG
*
83234603 TAAATTATG
1 TAAGTTATG
83234612 TAAGTTATG
1 TAAGTTATG
* * *
83234621 AAATTTGATCTT
1 TAAGTT-A--TG
*
83234633 TAAATTATG
1 TAAGTTATG
83234642 TAAGTTATG
1 TAAGTTATG
83234651 T-A-TTATG
1 TAAGTTATG
83234658 TAAGTTATG
1 TAAGTTATG
*
83234667 TAAATTATG
1 TAAGTTATG
*
83234676 TAAGTTATA
1 TAAGTTATG
* * *
83234685 AAATTTGATCTT
1 TAAGTT-A--TG
*
83234697 TAAATTATG
1 TAAGTTATG
*
83234706 TTATGTATTATG
1 -TAAG--TTATG
83234718 TAAGTTATG
1 TAAGTTATG
* * *
83234727 AAATTTGATCTT
1 TAAGTT-A--TG
*
83234739 TAAATTATG
1 TAAGTTATG
83234748 TAAGTTATG
1 TAAGTTATG
83234757 T-A-TTATG
1 TAAGTTATG
*
83234764 AAAGTTATG
1 TAAGTTATG
*
83234773 TAAATTATG
1 TAAGTTATG
83234782 TAAGTTATG
1 TAAGTTATG
* * *
83234791 AAATTTGATCTT
1 TAAGTT-A--TG
*
83234803 TAAATTATG
1 TAAGTTATG
*
83234812 TTAGTTATG
1 TAAGTTATG
83234821 T-A-TTATG
1 TAAGTTATG
83234828 TAAGTTATG
1 TAAGTTATG
*
83234837 TAAATTATG
1 TAAGTTATG
83234846 TAAGTTATG
1 TAAGTTATG
* * *
83234855 AAATTTGAACTT
1 TAAGTT--A-TG
*
83234867 TAAATTATG
1 TAAGTTATG
*
83234876 TTAGTTATG
1 TAAGTTATG
83234885 T-A-TTATG
1 TAAGTTATG
* * *
83234892 TACGTTTTT
1 TAAGTTATG
*
83234901 TAAATTATG
1 TAAGTTATG
83234910 TAAGTTATG
1 TAAGTTATG
* * *
83234919 AAATTTGAACTT
1 TAAGTT--A-TG
*
83234931 TAAATTATG
1 TAAGTTATG
83234940 TAAGTTATG
1 TAAGTTATG
83234949 T-A-TTATG
1 TAAGTTATG
*
83234956 TAAATTATG
1 TAAGTTATG
*
83234965 TAAATTATG
1 TAAGTTATG
*
83234974 TGAGTT
1 TAAGTT
83234980 GCTGGTGAAC
Statistics
Matches: 311, Mismatches: 75, Indels: 68
0.69 0.17 0.15
Matches are distributed among these distances:
7 35 0.11
8 15 0.05
9 203 0.65
10 14 0.05
11 9 0.03
12 35 0.11
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:83234659 original size:64 final size:60
Alignment explanation
Indices: 83234582--83234979 Score: 419
Period size: 64 Copynumber: 6.6 Consensus size: 60
83234572 TGATATATAT
*
83234582 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTA--T--G
83234646 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTATG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTATG
** *
83234706 TTATGTATTATGTAAGTTATG-AAATT-TG-ATCTT-T-AAA-TT-A--TGT--A--A-G
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTATG
* *
83234752 TTATGTATTATGAAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTTAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTA---T-G
* *
83234816 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTTAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTA---T-G
* * * * *
83234880 TTATGTATTATGTACGTTTTTTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTA--T--G
* *
83234944 TTATGTATTATGTAAATTATGTAAATTATGTGAGTT
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTT
83234980 GCTGGTGAAC
Statistics
Matches: 295, Mismatches: 20, Indels: 38
0.84 0.06 0.11
Matches are distributed among these distances:
46 21 0.07
47 6 0.02
48 2 0.01
49 4 0.01
50 1 0.00
51 5 0.02
52 2 0.01
53 2 0.01
54 2 0.01
55 5 0.02
56 1 0.00
57 4 0.01
58 2 0.01
59 6 0.02
60 22 0.07
62 1 0.00
63 1 0.00
64 208 0.71
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (60 bp):
TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTATG
Found at i:83234719 original size:42 final size:44
Alignment explanation
Indices: 83234660--83234771 Score: 156
Period size: 42 Copynumber: 2.5 Consensus size: 44
83234650 GTATTATGTA
83234660 AGTTATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTA-T
1 AGTTATGT--ATTATGTAAGTTATAAAATTTGATCTTTAAATTAGT
*
83234705 -GTTATGTATTATGTAAGTTATGAAATTTGATCTTTAAATTATGT
1 AGTTATGTATTATGTAAGTTATAAAATTTGATCTTTAAATTA-GT
*
83234749 AAGTTATGTATTATGAAAGTTAT
1 -AGTTATGTATTATGTAAGTTAT
83234772 GTAAATTATG
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
42 33 0.54
44 8 0.13
46 20 0.33
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (44 bp):
AGTTATGTATTATGTAAGTTATAAAATTTGATCTTTAAATTAGT
Found at i:83234737 original size:106 final size:108
Alignment explanation
Indices: 83234596--83234842 Score: 417
Period size: 106 Copynumber: 2.3 Consensus size: 108
83234586 GTATTATGTA
*
83234596 AGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGTAA
1 AGTTATGT--ATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGAAA
83234661 GTTATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTA-T
64 GTTATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTATT
83234705 -GTTATGTATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGAAAGT
1 AGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGAAAGT
*
83234769 TATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTT
66 TATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTA--TT
83234814 AGTTATGTATTATGTAAGTTATGTAAATT
1 AGTTATGTATTATGTAAGTTATG-AAATT
83234843 ATGTAAGTTA
Statistics
Matches: 131, Mismatches: 2, Indels: 8
0.93 0.01 0.06
Matches are distributed among these distances:
106 96 0.73
108 7 0.05
109 1 0.01
110 22 0.17
111 5 0.04
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (108 bp):
AGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGAAAGT
TATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTATT
Found at i:83235041 original size:43 final size:43
Alignment explanation
Indices: 83234994--83235075 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
83234984 GTGAACTTGA
83234994 AAATAAAACTTAATTTAATTAGGTAAAT-TGAAAATAAAACTTT
1 AAATAAAACTTAATTTAATTAGGT-AATGTGAAAATAAAACTTT
* * *
83235037 AAATACAACTTAATTTAATTATGTAATGTTAAAATAAAA
1 AAATAAAACTTAATTTAATTAGGTAATGTGAAAATAAAA
83235076 TAAAATATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 3 0.09
43 32 0.91
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (43 bp):
AAATAAAACTTAATTTAATTAGGTAATGTGAAAATAAAACTTT
Found at i:83235138 original size:99 final size:99
Alignment explanation
Indices: 83235024--83235384 Score: 431
Period size: 99 Copynumber: 3.5 Consensus size: 99
83235014 AGGTAAATTG
* *
83235024 AAAATAAAACTTTAAATACAACTTAATTTAATTATGT-AATGTTAAAATAAAATAAAATATTGAA
1 AAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAAT-TGAAAATAAAATAAAATATTGAA
83235088 ATTAATTTTCGTGATTCAAATAAAATAAAATATTT
65 ATTAATTTTCGTGATTCAAATAAAATAAAATATTT
* * * ***
83235123 AAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGA-AAACA
1 AAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAATTGAAAATAAAA-TAAA-ATATTGA
* * *
83235187 AAATATTTTTCGTGATTAAATTTAAGTGAAATAAATTAAAATATTT
64 AATTAATTTTCGTGATT-CA---AA-T---A-AAA-TAAAATATTT
* *
83235233 AAAATAAAACTTTAAATACAACTTAATTTAATTATGT-AATGTTAAAATAAAATAAAATATTGAA
1 AAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAAT-TGAAAATAAAATAAAATATTGAA
83235297 ATTAATTTTCGTGATTCAAATAAAATAAAATATTT
65 ATTAATTTTCGTGATTCAAATAAAATAAAATATTT
* * *
83235332 AAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAAT
1 AAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAATTGAAAATAAAAT
83235385 TAAAGAAAAC
Statistics
Matches: 219, Mismatches: 27, Indels: 32
0.79 0.10 0.12
Matches are distributed among these distances:
99 97 0.44
100 30 0.14
101 3 0.01
104 3 0.01
105 3 0.01
108 3 0.01
109 27 0.12
110 53 0.24
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (99 bp):
AAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAATTGAAAATAAAATAAAATATTGAAA
TTAATTTTCGTGATTCAAATAAAATAAAATATTT
Found at i:83239083 original size:14 final size:13
Alignment explanation
Indices: 83239064--83239107 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
83239054 AACCCTTATC
83239064 CCATAAACACTAAA
1 CCATAAAC-CTAAA
83239078 CCATAAACCCTAAA
1 CCATAAA-CCTAAA
*
83239092 TCATAAATCCTAAA
1 CCATAAA-CCTAAA
83239106 CC
1 CC
83239108 CTTAACCCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 25 0.96
15 1 0.04
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (13 bp):
CCATAAACCTAAA
Found at i:83239177 original size:21 final size:21
Alignment explanation
Indices: 83239148--83239206 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
83239138 TAAACCATAA
* * *
83239148 AACCTCTAACCCTTAACCTCC
1 AACCCCTAAACCTTAAACTCC
83239169 AACCCCTAAACCTTAAACTCC
1 AACCCCTAAACCTTAAACTCC
*
83239190 AA-CCCTAAATCTTAAAC
1 AACCCCTAAACCTTAAAC
83239207 CATAATCCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCCCTAAACCTTAAACTCC
Found at i:83239268 original size:14 final size:14
Alignment explanation
Indices: 83239251--83239304 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
83239241 AATATTAACT
*
83239251 CCTAAACCTTAAAC
1 CCTAAACCATAAAC
* *
83239265 CCTAAACCATATAT
1 CCTAAACCATAAAC
83239279 CCTAAACCATAAAC
1 CCTAAACCATAAAC
* *
83239293 CTTAAACTATAA
1 CCTAAACCATAA
83239305 TGATAATTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:83239424 original size:15 final size:15
Alignment explanation
Indices: 83239404--83239434 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
83239394 ACCAAAAAAC
83239404 AATAAAATTATTTTA
1 AATAAAATTATTTTA
83239419 AATAAAATTATTTTA
1 AATAAAATTATTTTA
83239434 A
1 A
83239435 TTTTTTTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATAAAATTATTTTA
Found at i:83239722 original size:40 final size:40
Alignment explanation
Indices: 83239663--83239771 Score: 103
Period size: 40 Copynumber: 2.7 Consensus size: 40
83239653 ATAATTTATT
* ** *
83239663 GCGGCGTTTTTAGGAAAGCGCCGCTAATGGTGGA-CTTATA
1 GCGGCGTTCTTAAAAAAGCGCCGCTAATGGTCGATC-TATA
* * ***
83239703 GCGGCGTTCTTAAATAAGCGCTGCTAAAATTCGATCTATA
1 GCGGCGTTCTTAAAAAAGCGCCGCTAATGGTCGATCTATA
* *
83239743 GCGGCGTTTTTAAAAAAGCGCCACTAATG
1 GCGGCGTTCTTAAAAAAGCGCCGCTAATG
83239772 CTTAGTACAA
Statistics
Matches: 53, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
40 52 0.98
41 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (40 bp):
GCGGCGTTCTTAAAAAAGCGCCGCTAATGGTCGATCTATA
Found at i:83240012 original size:175 final size:176
Alignment explanation
Indices: 83239754--83240072 Score: 487
Period size: 175 Copynumber: 1.8 Consensus size: 176
83239744 CGGCGTTTTT
*
83239754 AAAAAAGCGCCACTAATGCTTAGTACAAAACGACGACGTTGCGCATAATTTTTTGTGGCACTTTC
1 AAAAAAGCGCCACTAATGCTTAGTACAAAACGACAACGTTGCGCATAATTTTTTGTGGCACTTTC
* * * *
83239819 TAAGAAACACTGCTAAAGGTGTTCCTATAGCGACATTTTTTAAAAAGCGCCGCTATTGATCGATA
66 TAAAAAACACCGCTAAAGGTGTTCCTATAGAGACATTTTTTAAAAAGCGCCGCTAATGATCGATA
*
83239884 TTTAG-GGCTTTTTTAAATAAGCGCCGCTAAAAGTCGATCTATAGC
131 TTTAGCGGCATTTTTAAATAAGCGCCGCTAAAAGTCGATCTATAGC
* * * **
83239929 AAAAAATCGCCGCTAATGCTTAGTACAAAATGACAACGTTGCGCATAATTTTTTGTGGTGCTTTC
1 AAAAAAGCGCCACTAATGCTTAGTACAAAACGACAACGTTGCGCATAATTTTTTGTGGCACTTTC
* * * * *
83239994 TAAAAAACGCCGCTAAAGGTGTTCCTATAGAGACGTTTTTTAGAAAGTGCCGCTAATGCTCGATA
66 TAAAAAACACCGCTAAAGGTGTTCCTATAGAGACATTTTTTAAAAAGCGCCGCTAATGATCGATA
83240059 TTTAGCGGCATTTT
131 TTTAGCGGCATTTT
83240073 AAAGAAAGTG
Statistics
Matches: 127, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
175 120 0.94
176 7 0.06
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (176 bp):
AAAAAAGCGCCACTAATGCTTAGTACAAAACGACAACGTTGCGCATAATTTTTTGTGGCACTTTC
TAAAAAACACCGCTAAAGGTGTTCCTATAGAGACATTTTTTAAAAAGCGCCGCTAATGATCGATA
TTTAGCGGCATTTTTAAATAAGCGCCGCTAAAAGTCGATCTATAGC
Found at i:83242921 original size:13 final size:13
Alignment explanation
Indices: 83242900--83242965 Score: 87
Period size: 13 Copynumber: 5.1 Consensus size: 13
83242890 AGTTTGGCAA
83242900 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
83242913 TGATTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
83242926 TGCTGTGGAAAAA
1 TGCTTTTGAAAAG
*
83242939 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
83242952 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
83242965 T
1 T
83242966 TTGATTTAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:83243619 original size:13 final size:12
Alignment explanation
Indices: 83243603--83243647 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
83243593 CAAACTTTTT
83243603 AAAAGCACTTCTC
1 AAAAGCACTT-TC
83243616 AAAAGCACTTTC
1 AAAAGCACTTTC
* *
83243628 CACAGCACTTTTC
1 AAAAGCAC-TTTC
83243641 AAAAGCA
1 AAAAGCA
83243648 TTTGAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 8 0.30
13 19 0.70
ACGTcount: A:0.40, C:0.29, G:0.09, T:0.22
Consensus pattern (12 bp):
AAAAGCACTTTC
Found at i:83252534 original size:40 final size:40
Alignment explanation
Indices: 83252465--83252729 Score: 374
Period size: 40 Copynumber: 6.7 Consensus size: 40
83252455 GGATATAACC
* * * * *
83252465 ACTCGCAC-AAGGCCGTCGGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
83252504 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
83252544 ACTCGCACAAATGCCTTCGGGATTTAGCCCGGAATTAGTG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
83252584 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
83252624 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTACTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
83252664 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
83252704 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
83252730 ACCCTGTTAG
Statistics
Matches: 208, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 7 0.03
40 199 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:83260424 original size:39 final size:39
Alignment explanation
Indices: 83260352--83260561 Score: 203
Period size: 40 Copynumber: 5.3 Consensus size: 39
83260342 ACCCAATTAT
* **
83260352 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGAC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAAG-C
* * * *
83260390 CGTCGGGTCTTAGCCCGGATATGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAA-GC
* *
83260430 CTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAA-GC
*
83260470 CTTCGGGACTTAGCCCGGA-ATTAGTGACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAA-GC
* * * *
83260510 CTTCGGGACTTAGCCC-GAAATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAA-GC
83260550 CTTCGGGACTTA
1 CTTCGGGACTTA
83260562 ACCCCGTTAG
Statistics
Matches: 148, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
38 10 0.07
39 19 0.13
40 118 0.80
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAAGC
Found at i:83260451 original size:40 final size:41
Alignment explanation
Indices: 83260392--83260561 Score: 222
Period size: 40 Copynumber: 4.2 Consensus size: 41
83260382 CACAAGACCG
* *
83260392 TCGGGTCTTAGCCCGGATA-TGGTCACTAGCACAAATGCCT
1 TCGGGACTTAGCCCGGATATTAGTCACTAGCACAAATGCCT
* * *
83260432 TCGGGACTTAGCCCAGATA-TAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGATATTAGTCACTAGCACAAATGCCT
* *
83260472 TCGGGACTTAGCCCGGA-ATTAGTGACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGATATTAGTCACTAGCACAAATGCCT
* * *
83260512 TCGGGACTTAGCCC-GAAATTAATCACTAGCACAAATGTCT
1 TCGGGACTTAGCCCGGATATTAGTCACTAGCACAAATGCCT
83260552 TCGGGACTTA
1 TCGGGACTTA
83260562 ACCCCGTTAG
Statistics
Matches: 117, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.97
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (41 bp):
TCGGGACTTAGCCCGGATATTAGTCACTAGCACAAATGCCT
Found at i:83263489 original size:26 final size:26
Alignment explanation
Indices: 83263460--83263509 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
83263450 CCAGCACACC
*
83263460 AATATCGCAGCAAAGCTGCCAGTAAT
1 AATAACGCAGCAAAGCTGCCAGTAAT
**
83263486 AATAACGCAGCGTAGCTGCCAGTA
1 AATAACGCAGCAAAGCTGCCAGTA
83263510 GCAGTAAGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (26 bp):
AATAACGCAGCAAAGCTGCCAGTAAT
Found at i:83283832 original size:18 final size:18
Alignment explanation
Indices: 83283811--83283845 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83283801 CTGAATAATT
*
83283811 GACTGTTACAGAATAAAC
1 GACTGGTACAGAATAAAC
*
83283829 GACTGGTACTGAATAAA
1 GACTGGTACAGAATAAA
83283846 TGAATATTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (18 bp):
GACTGGTACAGAATAAAC
Found at i:83286126 original size:4 final size:4
Alignment explanation
Indices: 83286102--83286206 Score: 70
Period size: 4 Copynumber: 26.5 Consensus size: 4
83286092 TTTTAATTCT
* * * * *
83286102 TTTA TTCA TTTA TTTA CTTA TTTA TTTA TTTA TTTA TTTA CTCA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * * * *
83286150 CTTA TCTA TTTA TATA -TTA TTCA CTTA TTT- TTTA ATCA TTTTA TTCA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA
83286197 TTTA TTTA TT
1 TTTA TTTA TT
83286207 ATTCCTTAAT
Statistics
Matches: 72, Mismatches: 26, Indels: 6
0.69 0.25 0.06
Matches are distributed among these distances:
3 5 0.07
4 65 0.90
5 2 0.03
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:83286136 original size:24 final size:24
Alignment explanation
Indices: 83286097--83286206 Score: 82
Period size: 24 Copynumber: 4.6 Consensus size: 24
83286087 TTTTATTTTA
* *
83286097 ATTCTTTTATTCATTTATTTACTT
1 ATTCATTTATTTATTTATTTACTT
* *
83286121 ATTTATTTATTTATTTATTTACTC
1 ATTCATTTATTTATTTATTTACTT
* * *
83286145 ATAT-ACTTATCTATTTATATA-TT
1 AT-TCATTTATTTATTTATTTACTT
* * * *
83286168 ATTCACTTATTT-TTTAATCATTTT
1 ATTCATTTATTTATTTATTTA-CTT
83286192 ATTCATTTATTTATT
1 ATTCATTTATTTATT
83286207 ATTCCTTAAT
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
22 6 0.09
23 10 0.15
24 49 0.72
25 3 0.04
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (24 bp):
ATTCATTTATTTATTTATTTACTT
Found at i:83286619 original size:6 final size:6
Alignment explanation
Indices: 83286562--83286599 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
83286552 ATTATTACTA
*
83286562 TAATGT TAATAT TAATAT TAATAT TAATAT TAATAT TA
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TA
83286600 TAATTATGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
TAATAT
Found at i:83291280 original size:47 final size:47
Alignment explanation
Indices: 83291211--83291471 Score: 423
Period size: 47 Copynumber: 5.5 Consensus size: 47
83291201 GTGTGTATAC
83291211 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
83291258 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
83291305 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
83291354 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * *
83291401 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
83291448 GTGAAAGTGTATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
83291472 TCCCGAAGGG
Statistics
Matches: 200, Mismatches: 12, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
47 154 0.77
49 46 0.23
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:83291331 original size:96 final size:94
Alignment explanation
Indices: 83291211--83291471 Score: 423
Period size: 96 Copynumber: 2.8 Consensus size: 94
83291201 GTGTGTATAC
83291211 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
83291276 GATAAGGCCTAATGGCTGATGTGATGAAT
66 GATAAGGCCTAATGGCCGATGTGATGAAT
83291305 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
83291370 GTGATAAGGCCTAATGGCCGATGTGATGAAT
64 GTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * * *
83291401 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
83291466 GATAAG
66 GATAAG
83291472 TCCCGAAGGG
Statistics
Matches: 156, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
94 63 0.40
96 93 0.60
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (94 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
GATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:83291646 original size:37 final size:37
Alignment explanation
Indices: 83291590--83291668 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
83291580 CCGAGCTCTA
* * *
83291590 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
83291627 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
83291664 AAGAC
1 AAGAC
83291669 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:83293162 original size:22 final size:22
Alignment explanation
Indices: 83293103--83293154 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
83293093 AGTCAACAGA
* *
83293103 ACGGGTCAACACCCTAGACAAG
1 ACGGCTCAACACCGTAGACAAG
*
83293125 ACGGCTCAACACCGTAGACAGG
1 ACGGCTCAACACCGTAGACAAG
83293147 ACGGCTCA
1 ACGGCTCA
83293155 TCGCCGTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.25, T:0.10
Consensus pattern (22 bp):
ACGGCTCAACACCGTAGACAAG
Found at i:83293444 original size:27 final size:27
Alignment explanation
Indices: 83293406--83293457 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
83293396 CATTCTACCA
*
83293406 TACAGGGGTATTACGATAATTTTACAC
1 TACAAGGGTATTACGATAATTTTACAC
* *
83293433 TACAAGGGTATTTCGGTAATTTTAC
1 TACAAGGGTATTACGATAATTTTAC
83293458 CAATATTAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (27 bp):
TACAAGGGTATTACGATAATTTTACAC
Found at i:83306054 original size:22 final size:23
Alignment explanation
Indices: 83306029--83306074 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
83306019 CAACTAAATC
83306029 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
83306051 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
83306074 A
1 A
83306075 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:83306080 original size:23 final size:23
Alignment explanation
Indices: 83306036--83306080 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
83306026 ATCAATTCAA
*
83306036 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
83306059 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
83306081 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:83319530 original size:19 final size:19
Alignment explanation
Indices: 83319481--83319531 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
83319471 TAAAGAAGAC
*
83319481 ATTTTCTGGAGAAGCATTA
1 ATTTTCTGGAGGAGCATTA
*
83319500 ATTTTCTGGAGGAGCGTTA
1 ATTTTCTGGAGGAGCATTA
83319519 ATTTTCTGGAGGA
1 ATTTTCTGGAGGA
83319532 CCTTTTGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.37
Consensus pattern (19 bp):
ATTTTCTGGAGGAGCATTA
Found at i:83320673 original size:134 final size:133
Alignment explanation
Indices: 83320460--83320764 Score: 337
Period size: 134 Copynumber: 2.3 Consensus size: 133
83320450 CCATCGTGGA
* * * ** *
83320460 AAATCTTATCTCCCTGAATTTGTAATGGAGCAAATT-AAAGCCACAAATCTTATCTCCCTAAATT
1 AAATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAAAAACACAAATCTTATCTCCCTAAAGT
* * * * *
83320524 TGTAGTGTAATAGATTAAAGCCACAGATCATATCTC-CTTGAGGTTGCAATAGAGCAGATTAAAG
66 TGTAGTGGAACAGATTAAAACCACAAATCATATCTCGCTAGA-GTTGCAATAGAGCAGATTAAAG
83320588 CCAC
130 CCAC
* * * *
83320592 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAAAATAGCGAGTCTTATCTCCCTAAAG
1 AAATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAAAAACA-CAAATCTTATCTCCCTAAAG
** * * * *
83320657 TTGTAGTGGAACAGATTAAAATGACAAATCTTATCTCGCTAGAGTTGCAGTGGAGCAGATTGAAG
65 TTGTAGTGGAACAGATTAAAACCACAAATCATATCTCGCTAGAGTTGCAATAGAGCAGATTAAAG
*
83320722 CTAC
130 CCAC
* * * *
83320726 AAATATTATTTCCCTGAAATTACAATGGAACAGA-TGAAA
1 AAATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAAA
83320765 GCTACAAGTT
Statistics
Matches: 144, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
132 33 0.23
133 9 0.06
134 98 0.68
135 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (133 bp):
AAATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAAAAACACAAATCTTATCTCCCTAAAGT
TGTAGTGGAACAGATTAAAACCACAAATCATATCTCGCTAGAGTTGCAATAGAGCAGATTAAAGC
CAC
Found at i:83320850 original size:95 final size:96
Alignment explanation
Indices: 83320680--83320860 Score: 240
Period size: 95 Copynumber: 1.9 Consensus size: 96
83320670 GATTAAAATG
* * *
83320680 ACAAATCTTATCTCGCTAGAGTTGCAGTGGAGCAGATTGAAGCTACAAATATTATTTCCCTGAAA
1 ACAAATCTTATCTCGCTAGAGTTACAGTGGAGCAGATTGAAGCTACAAACATTATCTCCCTGAAA
83320745 TTACAATGGAACAGA-TGAAAGCTACAAGTT
66 TTACAATGGAACAGATTGAAAGCTACAAGTT
* * * *
83320775 ACAAATCTTATCTTC-CTAGAGTTACAGTGGAGTAGATTGAAGCTACAAACCTTATCTCTCTGTA
1 ACAAATCTTATC-TCGCTAGAGTTACAGTGGAGCAGATTGAAGCTACAAACATTATCTCCCTGAA
* * * *
83320839 GTTGCAGTGGAATAGATTGAAA
65 ATTACAATGGAACAGATTGAAA
83320861 CAACAAATCT
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
95 66 0.90
96 7 0.10
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (96 bp):
ACAAATCTTATCTCGCTAGAGTTACAGTGGAGCAGATTGAAGCTACAAACATTATCTCCCTGAAA
TTACAATGGAACAGATTGAAAGCTACAAGTT
Found at i:83321044 original size:51 final size:46
Alignment explanation
Indices: 83320460--83321507 Score: 512
Period size: 44 Copynumber: 22.8 Consensus size: 46
83320450 CCATCGTGGA
* * * * * * *
83320460 AAATCTTATCTCCCTGAATTTGTAATGGAGCAAATTAAAGC--CAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * ** * *
83320504 AAATCTTATCTCCCTAAATTTGTAGTGTAATAGATTAAAGC--CAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * * * * * * *
83320548 AGATCATATCTCCTTGAGGTTGCAATAGAGCAGATTAAAGC--CAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * ** *
83320592 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAAAATAGC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * * * *
83320638 GAGTCTTATCTCCCTAAAGTTGTAGTGGAACAGATT-AA-AATGAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* *
83320682 AAATCTTATCTCGCTAGAGTTGCAGTGGAGCAGATTGAAGC-T-AC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * * * *
83320726 AAATATTATTTCCCTGAAA-TTACAATGGAACAGA-TGAAAGCTACAAGTTAC
1 AAATCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATTG-AAG---C-A-TAAC
* * * *
83320777 AAATCTTATCTTCCTAGAGTTACAGTGGAGTAGATTGAAGC-T-AC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * ** ** *
83320821 AAACCTTATCTCTCTGTAGTTGCAGTGGAATAGATTGAA--ACAAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* ** * ** *
83320865 AAATCTTATCTCCTTGGAGTTGTAGTGGAATAGATTGAA--ATGAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * ** * *
83320909 AAATTTTATCTCCTTGGAGTTGCAGTGCAGCAGATTGAAGC-T-AT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * * * *
83320953 AAATTTTGT-TTCCTAAAATTGCAGTGGAACAGATTAAAGCTATAAGTTTC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC-ATAA----C
83321003 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC-T-AC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * *
83321047 AAATTTTATCTCTCTGAAGTTGCAGTGGAGAAGCAGATTGAAGC-T-AC
1 AAATCTTATCTCCCTAAAGTTGCAGT-G-G-AGCAGATTGAAGCATAAC
* **
83321094 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAAAATAAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * * **
83321140 AAATCTTATCTCACTGAAGTTGCAATGGAACAGATTGAA--ACGAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
** * *
83321184 AAATCTTATCTCCCTGGAGTTGCAGTGGAGCAAATTAAAGC-T-AC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * * * * *
83321228 AAATCTTATTTCCGTAAAGTTTCAGAGGAACAGATTAAAGCTACAAGTTAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG---C-A-TAAC
* * *
83321279 AAATCTTATCTCTCTAGAA-TTACAGTGGAGCATATTGAAGC-T-AC
1 AAATCTTATCTCCCTA-AAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * * * * *
83321323 AAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTAT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG---C-A-TAAC
* * *
83321374 AAATCTTATCCCCCTAAAGTTGTAGTGGAGCAGATTGAAAC-T-AC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * * * *
83321418 AAATCTTATTTCCCT-GAGATTGCAGTGG-GATAAATTAAAGTTACAAGTTAC
1 AAATCTTATCTCCCTAAAG-TTGCAGTGGAG-CAGATTGAAG---C-A-TAAC
*
83321469 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAA
83321508 ACGTGATATT
Statistics
Matches: 779, Mismatches: 164, Indels: 115
0.74 0.16 0.11
Matches are distributed among these distances:
43 30 0.04
44 445 0.57
45 15 0.02
46 70 0.09
47 43 0.06
48 4 0.01
49 1 0.00
50 13 0.02
51 151 0.19
52 7 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (46 bp):
AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
Found at i:83321070 original size:226 final size:227
Alignment explanation
Indices: 83320566--83321507 Score: 772
Period size: 229 Copynumber: 4.1 Consensus size: 227
83320556 TCTCCTTGAG
* * * * * * *
83320566 GTTGCAATAGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAA
1 GTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTGAA
* * *
83320631 AAATAGCGAGTCTTATCTCCCTAAAGTTGTAGTGGAACAGATTAAAATGACAAATCTTATCTCGC
66 ACA-A-CAAATCTTATCTCCCTAAAGTTGTAGTGGAACAGATTAAAATGACAAATCTTATCTCGC
* *
83320696 TAGAGTTGCAGTGGAGCAGATTGAAGCTACAAATATTATTTCCCTGAAATTACAATGGAACAGAT
129 TAGAGTTGCAGTGCAGCAGATTGAAGCTACAAATATTATTTCCCTAAAATTACAATGGAACAGAT
* *
83320761 GAAAGCTACAAGTTACAAATCTTATCTTCCTAGA
194 GAAAGCTACAAGTTACAAATCTTATCTCCCTAAA
* * * * *
83320795 GTTACAGTGGAGTAGATTGAAGCTACAAACCTTATCTCTCTGTAGTTGCAGTGGAATAGATTGAA
1 GTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTGAA
* ** * * *
83320860 ACAACAAATCTTATCTCCTTGGAGTTGTAGTGGAATAGATTGAAATGACAAATTTTATCTC-CTT
66 ACAACAAATCTTATCTCCCTAAAGTTGTAGTGGAACAGATTAAAATGACAAATCTTATCTCGC-T
* * * * * * *
83320924 GGAGTTGCAGTGCAGCAGATTGAAGCTATAAATTTTGTTT-CCTAAAATTGCAGTGGAACAGATT
130 AGAGTTGCAGTGCAGCAGATTGAAGCTACAAATATTATTTCCCTAAAATTACAATGGAACAGATG
* *
83320988 AAAGCTATAAGTTTCAAATCTTATCTCCCTAAA
195 AAAGCTACAAGTTACAAATCTTATCTCCCTAAA
*
83321021 GTTGCAGTGGAGCAGATTGAAGCTACAAATTTTATCTCTCTGAAGTTGCAGTGGAGAAGCAGATT
1 GTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTGAAGTTGCAGT-G-GAA-CAGATT
* * * * * *
83321086 GAAGCTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAAAATAACAAATCTTATCT
63 GAAACAACAAATCTTATCTCCCTAAAGTTGTAGTGGAACAGATT--AAAATGACAAATCTTATCT
* * * * * * * * ** * * *
83321151 CACT-GAAGTTGCAATGGAACAGATTGAAACGACAAATCTTATCTCCCTGGAGTTGCAGTGG---
126 CGCTAG-AGTTGCAGTGCAGCAGATTGAAGCTACAAATATTATTTCCCTAAAATTACAATGGAAC
* * * * *
83321212 AG--CAAA-TTA-AAGCTACAAATCTTATTTCCGTAAA
190 AGATGAAAGCTACAAGTTACAAATCTTATCTCCCTAAA
* * * * * *
83321246 GTTTCAGAGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCTCTAGAA-TTACAGTGGAGC
1 GTTGCAGTGGAGCAGATT---G----AAGCTACAAATCTTATCTCTCT-GAAGTTGCAGTGGAAC
* * * * * * * * *
83321310 ATATTGAAGCTACAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATA
58 AGATTGAAACAACAAATCTTATCTCCCTAAAGTTGTAGTGGAACAGATT--A---A-AA-TGACA
* * * * * * * * * *
83321375 AATCTTATCCCCCTAAAGTTGTAGTGGAGCAGATTGAAACTACAAATCTTATTTCCCTGAGATTG
116 AATCTTATCTCGCTAGAGTTGCAGTGCAGCAGATTGAAGCTACAAATATTATTTCCCTAAAATTA
* * * * * * *
83321440 CAGTGGGATAAATTAAAGTTACAAGTTACAAATCTTATCTCCCTGAA
181 CAATGGAACAGATGAAAGCTACAAGTTACAAATCTTATCTCCCTAAA
83321487 GTTGCAGTGGAGCAGATTGAA
1 GTTGCAGTGGAGCAGATTGAA
83321508 ACGTGATATT
Statistics
Matches: 577, Mismatches: 106, Indels: 55
0.78 0.14 0.07
Matches are distributed among these distances:
225 36 0.06
226 99 0.17
227 89 0.15
228 5 0.01
229 143 0.25
230 3 0.01
231 48 0.08
232 41 0.07
233 5 0.01
234 64 0.11
237 1 0.00
238 1 0.00
239 3 0.01
240 3 0.01
241 36 0.06
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (227 bp):
GTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTGAA
ACAACAAATCTTATCTCCCTAAAGTTGTAGTGGAACAGATTAAAATGACAAATCTTATCTCGCTA
GAGTTGCAGTGCAGCAGATTGAAGCTACAAATATTATTTCCCTAAAATTACAATGGAACAGATGA
AAGCTACAAGTTACAAATCTTATCTCCCTAAA
Found at i:83321444 original size:139 final size:133
Alignment explanation
Indices: 83320460--83321445 Score: 485
Period size: 139 Copynumber: 7.2 Consensus size: 133
83320450 CCATCGTGGA
* * * * * * * * * *
83320460 AAATCTTATCTCCCT-GAATTTGTAATGGAGCAAATTAAAGCCACAAATCTTATCTCCCTAAATT
1 AAATCTTATCTCCCTAG-AGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATTTTCCTGAAGT
* * * * * * * * * * * * *
83320524 TGTAGTGTAATAGATTAAAGCCACAGATCATATCTCCTTGAGGTTGCAATAGAGCAGATT-AAAG
65 TGCAGTGGAACAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAAA
**
83320588 CCAC
130 ATAC
* ** * * * * *
83320592 AAATCTTATCTCCCT-GAAGTTGCAATGGAGCAGATTGAAAAATAGCGAGTCTTATCTCCCTAAA
1 AAATCTTATCTCCCTAG-AGTTGCAGTGGAGCAGATTG-AAGCTA-CAAATCTTATTTTCCTGAA
* * * * *
83320656 GTTGTAGTGGAACAGATTAAA-ATGACAAATCTTATCTCGCTAGAGTTGCAGTGGAGCAGATTG-
63 GTTGCAGTGGAACAGATTAAAGCT-ACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGA
**
83320719 AAGCTAC
127 AAAATAC
* * * * * * *
83320726 AAATATTATTTCCCT-GAAATTACAATGGAACAGA-TGAAAGCTACAAGTTACAAATCTTATCTT
1 AAATCTTATCTCCCTAG-AGTTGCAGTGGAGCAGATTG-AAG---C----TACAAATCTTATTTT
* ** * * * ** * **
83320789 CCT-AGAGTTACAGTGGAGTAGATTGAAGCTACAAACCTTATCTCTCTGTAGTTGCAGTGGAATA
57 CCTGA-AGTTGCAGTGGAACAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCA
*
83320853 GATTGAAACA-AC
121 GATTGAAAAATAC
* * * ** * * * *
83320865 AAATCTTATCTCCTTGGAGTTGTAGTGGAATAGATTGAA-ATGACAAATTTTA-TCTCCTTGGAG
1 AAATCTTATCTCCCTAGAGTTGCAGTGGAGCAGATTGAAGCT-ACAAATCTTATTTTCC-TGAAG
* * * * * * * * * * *
83320928 TTGCAGTGCAGCAGATTGAAGCTATAAATTTTGT-TTCCTAAAATTGCAGTGGAACAGATTAAAG
64 TTGCAGTGGAACAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAA-
*
83320992 CTATAAGTTTC
128 --A-AA--TAC
* * *
83321003 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATTTTA-TCTCTCTGAAGT
1 AAATCTTATCTCCCTAGAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATTTTC-CTGAAGT
* * *
83321067 TGCAGTGGAGAAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTGA
65 TGCAGT-G-GAA-CAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGA
83321132 AAAATAAC
127 AAAAT-AC
* * * * * * * *
83321140 AAATCTTATCTCACT-GAAGTTGCAATGGAACAGATTGAAACGACAAATCTTATCTCCCTGGAGT
1 AAATCTTATCTCCCTAG-AGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATTTTCCTGAAGT
* * * * * * *
83321204 TGCAGTGGAGCAAATTAAAGCTACAAATCTTATTTCCGTAAAGTT-TCAGAGGAACAGATTAAAG
65 TGCAGTGGAACAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTGT-AGTGGAGCAGATTGAA-
83321268 CTACAAGTTAC
128 --A-AA--TAC
* * * *
83321279 AAATCTTATCTCTCTAGAATTACAGTGGAGCATATTGAAGCTACAAATCTTATTTTCCTGAAGTT
1 AAATCTTATCTCCCTAGAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATTTTCCTGAAGTT
*
83321344 GCAGTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCCCCCTAAAGTTGTAGTGGAGCAGAT
66 GCAGTGGAACAGATTAAAGCTAC-------AAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGAT
*
83321409 TG-AAACTAC
124 TGAAAAATAC
*
83321418 AAATCTTATTTCCCT-GAGATTGCAGTGG
1 AAATCTTATCTCCCTAGAG-TTGCAGTGG
83321446 GATAAATTAA
Statistics
Matches: 661, Mismatches: 141, Indels: 97
0.74 0.16 0.11
Matches are distributed among these distances:
131 26 0.04
132 72 0.11
133 8 0.01
134 143 0.22
135 3 0.00
136 2 0.00
137 58 0.09
138 67 0.10
139 194 0.29
140 11 0.02
141 21 0.03
142 25 0.04
145 1 0.00
146 29 0.04
147 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (133 bp):
AAATCTTATCTCCCTAGAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATTTTCCTGAAGTT
GCAGTGGAACAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAAAA
TAC
Found at i:83321508 original size:95 final size:95
Alignment explanation
Indices: 83320818--83321509 Score: 633
Period size: 95 Copynumber: 7.5 Consensus size: 95
83320808 AGATTGAAGC
* * * ** * * * *
83320818 TACAAACCTTATCTCTCTGTAGTTGCAGTGGAATAGATTGAAACAACAAATCTTATCTCCTTGGA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATTTCCCTGAA
* *
83320883 GTTGTAGTGGAATAGATT---G--A-AA-T
66 GTTGCAGTGGAACAGATTAAAGCTACAAGT
* * * * * * * * * *
83320906 GACAAATTTTATCTCCTTGGAGTTGCAGTGCAGCAGATTGAAGCTATAAATTTTGTTT-CCTAAA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATTTCCCTGAA
* *
83320970 ATTGCAGTGGAACAGATTAAAGCTATAAGT
66 GTTGCAGTGGAACAGATTAAAGCTACAAGT
* * * * * *
83321000 TTCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATTTTATCTCTCTGAA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATTTCCCTGAA
*
83321065 GTTGCAGTGGAGAAGCAGATT---G----AAGC
66 GTTGCAGT-G-GAA-CAGATTAAAGCTACAAGT
* * * * *
83321091 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAAAATAACAAATCTTATCTCACTG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAACT-ACAAATCTTATTTCCCTG
* *
83321156 AAGTTGCAATGGAACAGATTGAA---AC--G-
64 AAGTTGCAGTGGAACAGATTAAAGCTACAAGT
* * * *
83321182 -ACAAATCTTATCTCCCTGGAGTTGCAGTGGAGCAAATT-AAAGCTACAAATCTTATTTCCGTAA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-CTACAAATCTTATTTCCCTGA
* *
83321245 AGTTTCAGAGGAACAGATTAAAGCTACAAGT
65 AGTTGCAGTGGAACAGATTAAAGCTACAAGT
* * * * *
83321276 TACAAATCTTATCTCTCTAGAA-TTACAGTGGAGCATATTGAAGCTACAAATCTTATTTTCCTGA
1 TACAAATCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATTTCCCTGA
83321340 AGTTGCAGTGGAACAGATTAAAGCTACAAGT
65 AGTTGCAGTGGAACAGATTAAAGCTACAAGT
* * * *
83321371 TATAAATCTTATCCCCCTAAAGTTGTAGTGGAGCAGATTGAAACTACAAATCTTATTTCCCTG-A
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATTTCCCTGAA
* * * *
83321435 GATTGCAGTGGGATAAATTAAAGTTACAAGT
66 G-TTGCAGTGGAACAGATTAAAGCTACAAGT
83321466 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAC
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAC
83321510 GTGATATTCG
Statistics
Matches: 492, Mismatches: 82, Indels: 53
0.78 0.13 0.08
Matches are distributed among these distances:
87 18 0.04
88 79 0.16
89 1 0.00
90 41 0.08
91 46 0.09
92 6 0.01
93 28 0.06
94 53 0.11
95 206 0.42
96 5 0.01
97 3 0.01
98 6 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (95 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATTTCCCTGAA
GTTGCAGTGGAACAGATTAAAGCTACAAGT
Found at i:83324474 original size:53 final size:51
Alignment explanation
Indices: 83324362--83324476 Score: 124
Period size: 53 Copynumber: 2.2 Consensus size: 51
83324352 TTTTTATTTT
* * * *
83324362 AATTCTTTTATTCATTTATATACTTATTTACTTATTAATTTATTCATTATTCC
1 AATTATTTTATTCATTTATATACTCATATACTTATTAATTTATTCATTA-T-A
**
83324415 TTTTATTTTATTCATTTATATACTCATATACTTATTAATTTTAATTTCATTA-A
1 AATTATTTTATTCATTTATATACTCATATACTTATTAA-TTT-A-TTCATTATA
83324468 AATTATTTT
1 AATTATTTT
83324477 TTTATTTTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
53 40 0.78
54 3 0.06
55 1 0.02
56 7 0.14
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.59
Consensus pattern (51 bp):
AATTATTTTATTCATTTATATACTCATATACTTATTAATTTATTCATTATA
Found at i:83324558 original size:14 final size:15
Alignment explanation
Indices: 83324539--83324568 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
83324529 TGTGCCATTA
83324539 TTATTATTA-CTATT
1 TTATTATTATCTATT
83324553 TTATTATTATCTATT
1 TTATTATTATCTATT
83324568 T
1 T
83324569 ATCTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTATTATCTATT
Found at i:83324600 original size:23 final size:23
Alignment explanation
Indices: 83324551--83324601 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
83324541 ATTATTACTA
*
83324551 TTTTA-TTATTATCTATTTATCT
1 TTTTATTTATTACCTATTTATCT
* * *
83324573 ATTTATTTATTACCTCTTTATTT
1 TTTTATTTATTACCTATTTATCT
83324596 TTTTAT
1 TTTTAT
83324602 ACATACTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTATTTATTACCTATTTATCT
Found at i:83324850 original size:17 final size:15
Alignment explanation
Indices: 83324806--83324870 Score: 55
Period size: 17 Copynumber: 4.3 Consensus size: 15
83324796 TTACTTCATT
83324806 TATTTATTATTATAA
1 TATTTATTATTATAA
* *
83324821 CA-TGATTA-T-TAA
1 TATTTATTATTATAA
83324833 TATTAATATTATTATAA
1 TATT--TATTATTATAA
83324850 TTATGTTATTATTATAA
1 -TAT-TTATTATTATAA
83324867 TATT
1 TATT
83324871 CCTTTTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
12 4 0.10
13 2 0.05
14 5 0.13
15 6 0.15
16 4 0.10
17 14 0.36
18 3 0.08
19 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTTATTATTATAA
Found at i:83326894 original size:42 final size:42
Alignment explanation
Indices: 83326838--83327089 Score: 432
Period size: 42 Copynumber: 6.0 Consensus size: 42
83326828 GGCGTTTATT
*
83326838 AAAAAAGGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGA
1 AAAAAA-GCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
*
83326881 AAAAAAGGGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
1 AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
83326923 AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
1 AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
* *
83326965 AAAAAAGCACCGCTAAAAGTCATGGCCTTTAGCGGCATTTGG
1 AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
*
83327007 AAGAAAAGCGCCGCTAAAAGTCAAGGCCTTTAGCGGCGTTTGG
1 AA-AAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
*
83327050 AAAAAACCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTT
1 AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTT
83327090 TTCCCACAAA
Statistics
Matches: 198, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
42 153 0.77
43 45 0.23
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.21
Consensus pattern (42 bp):
AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
Found at i:83326937 original size:84 final size:84
Alignment explanation
Indices: 83326838--83327089 Score: 432
Period size: 85 Copynumber: 3.0 Consensus size: 84
83326828 GGCGTTTATT
* *
83326838 AAAAAAGGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAAAAAAGGGCCGCTAAAAGTCA
1 AAAAAA-GCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGGAAAAAAGCGCCGCTAAAAGTCA
83326903 TGGCCTTTAGCGGCGTTTGG
65 TGGCCTTTAGCGGCGTTTGG
*
83326923 AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGGAAAAAAGCACCGCTAAAAGTCAT
1 AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGGAAAAAAGCGCCGCTAAAAGTCAT
*
83326988 GGCCTTTAGCGGCATTTGG
66 GGCCTTTAGCGGCGTTTGG
* *
83327007 AAGAAAAGCGCCGCTAAAAGTCAAGGCCTTTAGCGGCGTTTGGAAAAAACCGCCGCTAAAAGTCA
1 AA-AAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGGAAAAAAGCGCCGCTAAAAGTCA
83327072 TGGCCTTTAGCGGCGTTT
65 TGGCCTTTAGCGGCGTTT
83327090 TTCCCACAAA
Statistics
Matches: 158, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
84 76 0.48
85 82 0.52
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.21
Consensus pattern (84 bp):
AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGGAAAAAAGCGCCGCTAAAAGTCAT
GGCCTTTAGCGGCGTTTGG
Found at i:83327236 original size:32 final size:29
Alignment explanation
Indices: 83327162--83327237 Score: 82
Period size: 32 Copynumber: 2.6 Consensus size: 29
83327152 CTTCTTGCAT
*
83327162 TAAAATCCAA-CAAAATACAAATATAGCA
1 TAAAATACAACCAAAATACAAATATAGCA
* * *
83327190 TAAAATGCAGCCAAAATAGCAAATTTAGCA
1 TAAAATACAACCAAAATA-CAAATATAGCA
83327220 TAAAAAATACAACCAAAA
1 T--AAAATACAACCAAAA
83327238 ATATCAATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 8 0.21
29 7 0.18
30 11 0.28
32 13 0.33
ACGTcount: A:0.59, C:0.17, G:0.07, T:0.17
Consensus pattern (29 bp):
TAAAATACAACCAAAATACAAATATAGCA
Found at i:83327485 original size:21 final size:21
Alignment explanation
Indices: 83327459--83327520 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
83327449 TTCCTATGCT
*
83327459 CTGCCTCCCTCGCTGCTGCCA
1 CTGCCTCCCTCTCTGCTGCCA
* **
83327480 CTGCCTCCCTCTCTGCTACTG
1 CTGCCTCCCTCTCTGCTGCCA
83327501 CTGCCTCCCTCTCTGCTGCC
1 CTGCCTCCCTCTCTGCTGCC
83327521 TCCGCTCTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.03, C:0.52, G:0.16, T:0.29
Consensus pattern (21 bp):
CTGCCTCCCTCTCTGCTGCCA
Found at i:83327518 original size:15 final size:16
Alignment explanation
Indices: 83327498--83327528 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
83327488 CTCTCTGCTA
83327498 CTGCTGCCTCC-CTCT
1 CTGCTGCCTCCGCTCT
83327513 CTGCTGCCTCCGCTCT
1 CTGCTGCCTCCGCTCT
83327529 AAGTTGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.00, C:0.52, G:0.16, T:0.32
Consensus pattern (16 bp):
CTGCTGCCTCCGCTCT
Found at i:83327957 original size:13 final size:14
Alignment explanation
Indices: 83327932--83327960 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
83327922 TGATGAATTG
83327932 AATTAAACAATTAT
1 AATTAAACAATTAT
83327946 AATTAAAC-ATTAT
1 AATTAAACAATTAT
83327959 AA
1 AA
83327961 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:83328164 original size:16 final size:17
Alignment explanation
Indices: 83328127--83328165 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
83328117 AAAATATTAT
*
83328127 TTAATATTAGAAAGTTA
1 TTAATATTAGAAAGTAA
*
83328144 TTAATATTTGAAAG-AA
1 TTAATATTAGAAAGTAA
83328160 TTAATA
1 TTAATA
83328166 AATTTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (17 bp):
TTAATATTAGAAAGTAA
Found at i:83333167 original size:9 final size:9
Alignment explanation
Indices: 83333153--83333377 Score: 150
Period size: 9 Copynumber: 24.6 Consensus size: 9
83333143 TATTTAAGTA
83333153 TTATGTAAG
1 TTATGTAAG
*
83333162 TTATGTAAT
1 TTATGTAAG
*
83333171 TTATGATATG
1 TTATG-TAAG
* * *
83333181 ATATAT-AT
1 TTATGTAAG
*
83333189 TTATGTAAA
1 TTATGTAAG
* *
83333198 TTATAT-AT
1 TTATGTAAG
*
83333206 TTATCTAAG
1 TTATGTAAG
*
83333215 TTATATAAG
1 TTATGTAAG
83333224 TTATGTAAG
1 TTATGTAAG
*
83333233 TTATGTAAA
1 TTATGTAAG
*
83333242 TTATGATATAAA
1 TTATG---TAAG
*
83333254 TATATTTAAG
1 T-TATGTAAG
83333264 TATTATGTAAG
1 --TTATGTAAG
83333275 TTATGTAAG
1 TTATGTAAG
* *
83333284 TTATAT-AT
1 TTATGTAAG
*
83333292 TTATCTAAG
1 TTATGTAAG
*
83333301 TTATATAAG
1 TTATGTAAG
*
83333310 TTATATAAG
1 TTATGTAAG
*
83333319 TTATGTATG
1 TTATGTAAG
*
83333328 TTATATAAG
1 TTATGTAAG
83333337 TTATGTAAG
1 TTATGTAAG
* *
83333346 TTATATATG
1 TTATGTAAG
*
83333355 TTATATAAG
1 TTATGTAAG
*
83333364 TTATGTAAA
1 TTATGTAAG
83333373 TTATG
1 TTATG
83333378 ATATCAAATA
Statistics
Matches: 171, Mismatches: 35, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
8 16 0.09
9 131 0.77
10 8 0.05
11 7 0.04
12 6 0.04
13 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:83333232 original size:18 final size:18
Alignment explanation
Indices: 83333153--83333377 Score: 168
Period size: 18 Copynumber: 12.3 Consensus size: 18
83333143 TATTTAAGTA
* *
83333153 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
83333171 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
83333189 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
83333206 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
83333224 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
83333242 TTATGATATAAATATATTTAAG
1 TTATG---TAAGT-TATATAAG
*
83333264 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
83333284 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
83333301 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
83333319 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
83333337 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
83333355 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
83333373 TTATG
1 TTATG
83333378 ATATCAAATA
Statistics
Matches: 167, Mismatches: 31, Indels: 18
0.77 0.14 0.08
Matches are distributed among these distances:
17 37 0.22
18 97 0.58
19 7 0.04
20 7 0.04
21 8 0.05
22 6 0.04
24 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:83333245 original size:27 final size:27
Alignment explanation
Indices: 83333206--83333377 Score: 166
Period size: 27 Copynumber: 6.2 Consensus size: 27
83333196 AATTATATAT
*
83333206 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
83333233 TTATGTAAATTATGATATAAATATATTTAAG
1 TTATGT-AAGT-T-ATATAAGT-TATGTAAG
* * *
83333264 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
83333292 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
83333319 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
83333346 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
83333373 TTATG
1 TTATG
83333378 ATATCAAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
26 22 0.18
27 59 0.49
28 4 0.03
29 5 0.04
30 13 0.11
31 8 0.07
32 3 0.03
33 6 0.05
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:83333263 original size:113 final size:114
Alignment explanation
Indices: 83333129--83333349 Score: 313
Period size: 113 Copynumber: 1.9 Consensus size: 114
83333119 ACTAGTTATG
* * *
83333129 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATGAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
83333193 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
83333243 TATGATAT-AAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATGAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
83333307 AAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
83333350 ATATGTTATA
Statistics
Matches: 95, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
111 4 0.04
112 18 0.19
113 65 0.68
114 8 0.08
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (114 bp):
TATGATATGAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:83333502 original size:15 final size:15
Alignment explanation
Indices: 83333482--83333537 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
83333472 AAGTAGCGGG
83333482 ATTAAATAATATTTA
1 ATTAAATAATATTTA
83333497 ATTAAATAATATTT-
1 ATTAAATAATATTTA
83333511 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
83333526 ATTAAATAATAT
1 ATTAAATAATAT
83333538 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:83333744 original size:23 final size:24
Alignment explanation
Indices: 83333714--83333780 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
83333704 ACTTAAATGG
83333714 TAAAACGGACGATAATATTT-TGA
1 TAAAACGGACGATAATATTTGTGA
83333737 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTGA
*
83333761 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
83333781 CAAAATAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
22 1 0.03
23 18 0.45
24 20 0.50
25 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTGA
Found at i:83338976 original size:15 final size:15
Alignment explanation
Indices: 83338956--83338987 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
83338946 AAATAATAAT
*
83338956 TTATATATATTTATC
1 TTATATACATTTATC
83338971 TTATATACATTTATC
1 TTATATACATTTATC
83338986 TT
1 TT
83338988 CTACATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Done.