Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 96 of 186
Found at i:31547154 original size:30 final size:30
Alignment explanation
Indices: 31547113--31547172 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
31547103 AATTTAATTT
*
31547113 GTGATGGTCGTAAGTAGAAAGTTCACATTC
1 GTGACGGTCGTAAGTAGAAAGTTCACATTC
31547143 GTGACGGTCGTAAGTAGAAAGTTCACATTC
1 GTGACGGTCGTAAGTAGAAAGTTCACATTC
31547173 TTCGGTCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (30 bp):
GTGACGGTCGTAAGTAGAAAGTTCACATTC
Found at i:31548638 original size:13 final size:13
Alignment explanation
Indices: 31548620--31548644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31548610 AGGTGAAGGG
31548620 GTCACACGGCCAA
1 GTCACACGGCCAA
31548633 GTCACACGGCCA
1 GTCACACGGCCA
31548645 TGTGTTAGAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.40, G:0.24, T:0.08
Consensus pattern (13 bp):
GTCACACGGCCAA
Found at i:31552385 original size:61 final size:61
Alignment explanation
Indices: 31552290--31552534 Score: 481
Period size: 61 Copynumber: 4.0 Consensus size: 61
31552280 TTGATATGAG
*
31552290 CGAAATTTTGTAGCCCAGTTTTTACATATTGTGTATGATTAAGTCCGATAATGCCTCGTAC
1 CGAAATTTTGTAGCCCGGTTTTTACATATTGTGTATGATTAAGTCCGATAATGCCTCGTAC
31552351 CGAAATTTTGTAGCCCGGTTTTTACATATTGTGTATGATTAAGTCCGATAATGCCTCGTAC
1 CGAAATTTTGTAGCCCGGTTTTTACATATTGTGTATGATTAAGTCCGATAATGCCTCGTAC
31552412 CGAAATTTTGTAGCCCGGTTTTTACATATTGTGTATGATTAAGTCCGATAATGCCTCGTAC
1 CGAAATTTTGTAGCCCGGTTTTTACATATTGTGTATGATTAAGTCCGATAATGCCTCGTAC
31552473 CGAAATTTTGTAGCCCGGTTTTTACATATTGTGTATGATTAAGTCCGATAATGCCTCGTAC
1 CGAAATTTTGTAGCCCGGTTTTTACATATTGTGTATGATTAAGTCCGATAATGCCTCGTAC
31552534 C
1 C
31552535 CTATTTTGGC
Statistics
Matches: 183, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
61 183 1.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (61 bp):
CGAAATTTTGTAGCCCGGTTTTTACATATTGTGTATGATTAAGTCCGATAATGCCTCGTAC
Found at i:31553179 original size:23 final size:23
Alignment explanation
Indices: 31553135--31553179 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
31553125 GGATAGACAT
* *
31553135 ATATCGGGAAGTTCAAGCGAGCC
1 ATATCGGGAAGCTCAAGAGAGCC
*
31553158 ATATCGGGAAGCTCCAGAGAGC
1 ATATCGGGAAGCTCAAGAGAGC
31553180 TATTAATAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.22, G:0.31, T:0.16
Consensus pattern (23 bp):
ATATCGGGAAGCTCAAGAGAGCC
Found at i:31553204 original size:26 final size:25
Alignment explanation
Indices: 31553175--31553231 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
31553165 GAAGCTCCAG
31553175 AGAGCTATTAATAAGGAAACTCACAA
1 AGAGCT-TTAATAAGGAAACTCACAA
** * *
31553201 AGAGCCTTTAATTGGGAAGCTCACGA
1 AGAG-CTTTAATAAGGAAACTCACAA
31553227 AGAGC
1 AGAGC
31553232 CATATATCGG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.04
26 23 0.88
27 2 0.08
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (25 bp):
AGAGCTTTAATAAGGAAACTCACAA
Found at i:31553243 original size:26 final size:27
Alignment explanation
Indices: 31553079--31553243 Score: 72
Period size: 25 Copynumber: 6.6 Consensus size: 27
31553069 AAGCTTGTGC
* *
31553079 GAGCC-TATAA-CGGGTAGCT-TCGAA
1 GAGCCATATAATCGGGAAGCTCACGAA
* *
31553103 GAGCCAT-TAATCGGGGAGCTC-CGGA
1 GAGCCATATAATCGGGAAGCTCACGAA
* * * * *
31553128 TAGACATAT-ATCGGGAAGTTCAAG-C
1 GAGCCATATAATCGGGAAGCTCACGAA
31553153 GAGCC--AT-ATCGGGAAGCTC-C-AGA
1 GAGCCATATAATCGGGAAGCTCACGA-A
* ** * *
31553176 GAGCTAT-TAATAAGGAAACTCACAAA
1 GAGCCATATAATCGGGAAGCTCACGAA
* *
31553202 GAGCC-TTTAATTGGGAAGCTCACGAA
1 GAGCCATATAATCGGGAAGCTCACGAA
31553228 GAGCCATAT-ATCGGGA
1 GAGCCATATAATCGGGA
31553244 CACTCATAAG
Statistics
Matches: 103, Mismatches: 24, Indels: 26
0.67 0.16 0.17
Matches are distributed among these distances:
23 17 0.17
24 9 0.09
25 40 0.39
26 34 0.33
27 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.19
Consensus pattern (27 bp):
GAGCCATATAATCGGGAAGCTCACGAA
Found at i:31553334 original size:24 final size:25
Alignment explanation
Indices: 31553307--31553354 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
31553297 GGATGCTCCG
31553307 AAGAACTAT-TAACAGGAAGCTCGC
1 AAGAACTATATAACAGGAAGCTCGC
31553331 AAGAACTATATAACAGGAAGCTCG
1 AAGAACTATATAACAGGAAGCTCG
31553355 AGATGGCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.17
Consensus pattern (25 bp):
AAGAACTATATAACAGGAAGCTCGC
Found at i:31558354 original size:85 final size:85
Alignment explanation
Indices: 31558200--31558439 Score: 347
Period size: 85 Copynumber: 2.8 Consensus size: 85
31558190 AGATAAAAAC
* * * * *
31558200 ATTTCCAGTTACTGTCACTTGTTGTGAGTGCACAACATGGTTGCAGATTAAACAATCTACCACTG
1 ATTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATGGTTGCAAATTAAACAAACTGCCACTG
31558265 GGTTTGGGGACGAGCCACAT
66 GGTTTGGGGACGAGCCACAT
* * *
31558285 ATTTGCAGTTACTGCCACTTGTTGTGAGTGCATAACATGGTTGCAAATTAAACAAACTGCCATTT
1 ATTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATGGTTGCAAATTAAACAAACTGCCACTG
* *
31558350 GGTTTGTGGACGAGTCACAT
66 GGTTTGGGGACGAGCCACAT
* * *
31558370 ATTTGCAATTACTGCCACTTGTTGTGAGTGCACAACAT-ATTAGCAATTTAAACAAACTGCCACT
1 ATTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATGGTT-GCAAATTAAACAAACTGCCACT
31558434 GGGTTT
65 GGGTTT
31558440 TTGTGGATGA
Statistics
Matches: 138, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
84 2 0.01
85 136 0.99
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (85 bp):
ATTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATGGTTGCAAATTAAACAAACTGCCACTG
GGTTTGGGGACGAGCCACAT
Found at i:31559615 original size:23 final size:23
Alignment explanation
Indices: 31559587--31559633 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
31559577 AGGACTAGGA
31559587 AGGACTAAATAGCTAGGGTTTTC
1 AGGACTAAATAGCTAGGGTTTTC
*
31559610 AGGACTAAGTAGCTAGGGTTTTC
1 AGGACTAAATAGCTAGGGTTTTC
31559633 A
1 A
31559634 AACTTTGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (23 bp):
AGGACTAAATAGCTAGGGTTTTC
Found at i:31560999 original size:40 final size:38
Alignment explanation
Indices: 31560907--31561003 Score: 97
Period size: 40 Copynumber: 2.5 Consensus size: 38
31560897 ACCATCTTCG
* * *
31560907 TCCAACCCAACACACCATGTAGGGATAAAATTGACCCA
1 TCCAACCCTACACACCATATAGGGATAAAATCGACCCA
* * * *
31560945 -CTCATCCCTGCACACCTTATATGGGGATATAATCGACCCA
1 TC-CAACCCTACACACC--ATATAGGGATAAAATCGACCCA
31560985 TCCAACCCTACACACCATA
1 TCCAACCCTACACACCATA
31561004 AAGTATCGCA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
37 1 0.02
38 14 0.30
40 30 0.65
41 1 0.02
ACGTcount: A:0.34, C:0.35, G:0.11, T:0.20
Consensus pattern (38 bp):
TCCAACCCTACACACCATATAGGGATAAAATCGACCCA
Found at i:31561371 original size:31 final size:31
Alignment explanation
Indices: 31561333--31561402 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
31561323 GAGCTTACAT
31561333 GCCCGTGTGCCTTGCCTGTGTGGGCCCACAC
1 GCCCGTGTGCCTTGCCTGTGTGGGCCCACAC
*
31561364 GCCCGTGTGCCTTGCCTGTGTGGGCTCACAC
1 GCCCGTGTGCCTTGCCTGTGTGGGCCCACAC
31561395 GCCCGTGT
1 GCCCGTGT
31561403 AGGTTACACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.06, C:0.37, G:0.33, T:0.24
Consensus pattern (31 bp):
GCCCGTGTGCCTTGCCTGTGTGGGCCCACAC
Found at i:31563900 original size:77 final size:77
Alignment explanation
Indices: 31563806--31563963 Score: 298
Period size: 77 Copynumber: 2.1 Consensus size: 77
31563796 TGAGTATATT
*
31563806 ATTTGAGTTTGGGCTTAATATGTTATATTTGGGTTTTGTAATAAGTATTTTAGGATTTGCATAAT
1 ATTTGAGTTTGGACTTAATATGTTATATTTGGGTTTTGTAATAAGTATTTTAGGATTTGCATAAT
31563871 GATAAATTTGGC
66 GATAAATTTGGC
*
31563883 ATTTGAGTTTGGACTTAATATGTTATATTTGGTTTTTGTAATAAGTATTTTAGGATTTGCATAAT
1 ATTTGAGTTTGGACTTAATATGTTATATTTGGGTTTTGTAATAAGTATTTTAGGATTTGCATAAT
31563948 GATAAATTTGGC
66 GATAAATTTGGC
31563960 ATTT
1 ATTT
31563964 AACATTTACA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.28, C:0.04, G:0.20, T:0.48
Consensus pattern (77 bp):
ATTTGAGTTTGGACTTAATATGTTATATTTGGGTTTTGTAATAAGTATTTTAGGATTTGCATAAT
GATAAATTTGGC
Found at i:31564192 original size:10 final size:9
Alignment explanation
Indices: 31564166--31564234 Score: 68
Period size: 10 Copynumber: 7.4 Consensus size: 9
31564156 CTCAATGAAT
31564166 AATTT-AAA
1 AATTTAAAA
31564174 AATTTAAAA
1 AATTTAAAA
31564183 AATTTAAAA
1 AATTTAAAA
**
31564192 AATAAAAATA
1 AATTTAAA-A
*
31564202 AATTAAAAA
1 AATTTAAAA
*
31564211 AATTTCACAA
1 AATTT-AAAA
31564221 AATTTCAAAA
1 AATTT-AAAA
31564231 AATT
1 AATT
31564235 ACCATGACGG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
8 5 0.10
9 23 0.44
10 24 0.46
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (9 bp):
AATTTAAAA
Found at i:31572212 original size:27 final size:27
Alignment explanation
Indices: 31572181--31572358 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31572171 TAAATTGTAC
31572181 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31572208 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31572234 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31572262 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31572290 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31572317 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31572344 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31572359 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31572295 original size:82 final size:81
Alignment explanation
Indices: 31572182--31572337 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31572172 AAATTGTACA
* *
31572182 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31572246 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31572263 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31572328 TGCGAGTTGA
65 TGCGAATTGA
31572338 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31572349 original size:82 final size:81
Alignment explanation
Indices: 31572178--31572358 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
31572168 GATTAAATTG
* *
31572178 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31572243 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31572259 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31572323 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31572341 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31572359 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31580316 original size:27 final size:27
Alignment explanation
Indices: 31580285--31580462 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
31580275 TAAATTGTAC
31580285 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31580312 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31580338 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31580366 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31580394 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
31580421 AGCACTAAGTGTACGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31580448 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31580463 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31580426 original size:82 final size:81
Alignment explanation
Indices: 31580286--31580441 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
31580276 AAATTGTACA
* *
31580286 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
*
31580351 GCGAATTGACCATGCG
66 ACGAATTGACCATGCG
** *
31580367 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
31580431 GTACGAGTTGA
64 GTACGAATTGA
31580442 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
ACGAATTGACCATGCG
Found at i:31580453 original size:82 final size:81
Alignment explanation
Indices: 31580282--31580462 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
31580272 GATTAAATTG
* *
31580282 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
31580347 GTGTGCGAATTGACCA
66 GTGTACGAATTGACCA
* * ** *
31580363 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31580427 AAGTGTACGAGTTGATTA
64 AAGTGTACGAATTGACCA
* *
31580445 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31580463 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTACGAATTGACCA
Found at i:31590939 original size:22 final size:21
Alignment explanation
Indices: 31590914--31590956 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
31590904 ATTAAATCTC
31590914 CAAGATTACAAAATCATATCGT
1 CAAGATTAC-AAATCATATCGT
* *
31590936 CAAGATTGCATATCATATCGT
1 CAAGATTACAAATCATATCGT
31590957 ATCATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.30
Consensus pattern (21 bp):
CAAGATTACAAATCATATCGT
Found at i:31590995 original size:14 final size:15
Alignment explanation
Indices: 31590958--31590995 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
31590948 TCATATCGTA
31590958 TCATATCTAAGATTG
1 TCATATCTAAGATTG
31590973 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
31590990 -CATATC
1 TCATATC
31590996 ACATCTAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:31591001 original size:19 final size:19
Alignment explanation
Indices: 31590956--31591033 Score: 124
Period size: 19 Copynumber: 4.2 Consensus size: 19
31590946 TATCATATCG
31590956 TATCATATCTAAGATTG--
1 TATCATATCTAAGATTGCA
31590973 TATCATATCTAAGATTGCA
1 TATCATATCTAAGATTGCA
*
31590992 TATCACATCTAAGATTGCA
1 TATCATATCTAAGATTGCA
*
31591011 TATCATATCGAAGATTGCA
1 TATCATATCTAAGATTGCA
31591030 TATC
1 TATC
31591034 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
17 17 0.30
19 39 0.70
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (19 bp):
TATCATATCTAAGATTGCA
Found at i:31591647 original size:86 final size:86
Alignment explanation
Indices: 31591549--31591821 Score: 220
Period size: 86 Copynumber: 3.1 Consensus size: 86
31591539 ATGCCGAATC
*
31591549 ATCTTGGATCTGCTTCATTAAAATCATCTGAAGGTTAGCTCTGCTATGTATCTGCTCTCCGTCGA
1 ATCTTGGATCTGCTTCATTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGA
31591614 AATGGAGATGCCAGATCTATT
66 AATGGAGATGCCAGATCTATT
** * * * * * *
31591635 ATCTTGGATCTGCTTTGGTGTGAGAA-CATTTGAAAGTCAAATCTGCTATGTCTTCGATTTGCTC
1 ATCTTGGATCTGC-TTCAT-T-AAAATCATCTGAAGGTTAGATCTGCTATG---T--ATCTGCTC
* ** *
31591699 -CTTGT-GAACA-CAAGGATGCCAAATC-A-T
58 TC-CGTCGAA-ATGGA-GATGCCAGATCTATT
* * * *
31591726 -T-TTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTACCATGTATCTGCTCTCCGTCAA
1 ATCTTGGATCTGCTTCATTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGA
* *
31591789 AATGGAGATTCCAGATCTGTT
66 AATGGAGATGCCAGATCTATT
31591810 ATCTTGGATCTG
1 ATCTTGGATCTG
31591822 TTTTGGTGTG
Statistics
Matches: 137, Mismatches: 31, Indels: 38
0.67 0.15 0.18
Matches are distributed among these distances:
82 19 0.14
83 4 0.03
84 2 0.01
85 1 0.01
86 25 0.18
87 22 0.16
88 22 0.16
89 13 0.09
90 1 0.01
91 2 0.01
92 6 0.04
93 20 0.15
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (86 bp):
ATCTTGGATCTGCTTCATTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGA
AATGGAGATGCCAGATCTATT
Found at i:31591794 original size:175 final size:175
Alignment explanation
Indices: 31591490--31591873 Score: 624
Period size: 175 Copynumber: 2.2 Consensus size: 175
31591480 CGTAAACACG
* * *
31591490 TGAAAGCCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACATAAAGATGCCGAATCATCTTG
1 TGAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAAGATGCCAAATCATCTTG
* * * * *
31591555 GATCTGCTTCATTAAAATCATCTGAAGGTTAGCTCTGCTATGTATCTGCTCTCCGTCGAAATGGA
66 GATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTACCATGTATCTGCTCTCCGTCAAAATGGA
*
31591620 GATGCCAGATCTATTATCTTGGATCTGCTTTGGTGTGAGAACATT
131 GATGCCAGATCTATTATCTTGGATCTGCTTTGGTGTGAGAACATC
* *
31591665 TGAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATTTTG
1 TGAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAAGATGCCAAATCATCTTG
31591730 GATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTACCATGTATCTGCTCTCCGTCAAAATGGA
66 GATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTACCATGTATCTGCTCTCCGTCAAAATGGA
* * *
31591795 GATTCCAGATCTGTTATCTTGGATCTGTTTTGGTGTGAGAACATC
131 GATGCCAGATCTATTATCTTGGATCTGCTTTGGTGTGAGAACATC
* *
31591840 CGGAAGTCAAATCTGCTATGTCTTCGATTTGCTC
1 TGAAAGTCAAATCTGCTATGTCTTCGATTTGCTC
31591874 TCTGTCAAAG
Statistics
Matches: 193, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
175 193 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (175 bp):
TGAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAAGATGCCAAATCATCTTG
GATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTACCATGTATCTGCTCTCCGTCAAAATGGA
GATGCCAGATCTATTATCTTGGATCTGCTTTGGTGTGAGAACATC
Found at i:31592139 original size:38 final size:38
Alignment explanation
Indices: 31592088--31592225 Score: 133
Period size: 38 Copynumber: 3.6 Consensus size: 38
31592078 CGTCATCGAT
31592088 CTGTTCCGCTACTGCTTAGGGAGATAAGATTTGCGAAC
1 CTGTTCCGCTACTGCTTAGGGAGATAAGATTTGCGAAC
*
31592126 CTGTTACC-CTACTGCTTAGGG-GATTAAGGCGAGTCTT-CG-AT
1 CTGTT-CCGCTACTGCTTAGGGAGA-TAA---GA-T-TTGCGAAC
** *
31592167 CTACTCCGCTACTGCTTAGGGAGATAAGATCTGCGAAC
1 CTGTTCCGCTACTGCTTAGGGAGATAAGATTTGCGAAC
31592205 CTGTTACC-CTACTGCTTAGGG
1 CTGTT-CCGCTACTGCTTAGGG
31592226 GATTAAGGCG
Statistics
Matches: 81, Mismatches: 7, Indels: 24
0.72 0.06 0.21
Matches are distributed among these distances:
36 1 0.01
37 5 0.06
38 40 0.49
39 4 0.05
40 2 0.02
41 22 0.27
42 5 0.06
43 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (38 bp):
CTGTTCCGCTACTGCTTAGGGAGATAAGATTTGCGAAC
Found at i:31592202 original size:79 final size:79
Alignment explanation
Indices: 31591963--31592564 Score: 733
Period size: 79 Copynumber: 7.4 Consensus size: 79
31591953 CTTTGGTCTA
* * * *
31591963 TTACGCTACTGCTTAGGGG-TTAAGGTGCATCGTCTTCGATTTGCTCTGCTACTGCTTA-GG-GA
1 TTACCCTACTGCTTAGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCGCTACTGCTTAGGGAGA
*
31592025 TAAGATCTGCAAATTTAACCTG
63 TAAGATCTGC-----GAACCTG
* *
31592047 TTTCCCTACTGCTTAGGGGATTAAGGCGAGTCGTCATCGATCTGTTCCGCTACTGCTTAGGGAGA
1 TTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCGCTACTGCTTAGGGAGA
*
31592112 TAAGATTTGCGAACCTG
63 TAAGATCTGCGAACCTG
*
31592129 TTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTACTCCGCTACTGCTTAGGGAGATAA
1 TTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAA
31592194 GATCTGCGAACCTG
66 GATCTGCGAACCTG
* * *
31592208 TTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCAATCTACTCCACTACTGCTTAGGGAGATAA
1 TTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAA
* *
31592273 GATCTACAAATTTAACCTG
66 GATCTGC-----GAACCTG
* * *
31592292 TTACCCTACTGCTTAAGGGATTAAGGTGAGTCGTCATCGATCTGCTCCGCTACTGCTTAGGGCGA
1 TTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCGCTACTGCTTAGGGAGA
*
31592357 TAAGATCTGCGAACTTG
63 TAAGATCTGCGAACCTG
* * *
31592374 TTACCCTACTACTTAAGGGATTAAGGCGAGTCTTCGATCTGCTCCGCTACTGCTTAGAGAGATAA
1 TTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAA
*
31592439 GATCTGTGAACCTG
66 GATCTGCGAACCTG
* **
31592453 TTACCCTACTGCTTAGGGGATTAAGGTGAGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAA
1 TTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAA
*
31592518 GATCTGCAAATTTAACCTG
66 GATCTGC-----GAACCTG
31592537 TTACCCTACTGCTTAGGGGATTAAGGCG
1 TTACCCTACTGCTTAGGGGATTAAGGCG
31592565 CTAAATTTTG
Statistics
Matches: 459, Mismatches: 40, Indels: 38
0.85 0.07 0.07
Matches are distributed among these distances:
79 219 0.48
81 2 0.00
82 75 0.16
83 1 0.00
84 87 0.19
85 28 0.06
86 2 0.00
87 45 0.10
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (79 bp):
TTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAA
GATCTGCGAACCTG
Found at i:31592353 original size:166 final size:159
Alignment explanation
Indices: 31591963--31592564 Score: 730
Period size: 166 Copynumber: 3.7 Consensus size: 159
31591953 CTTTGGTCTA
* * * *
31591963 TTACGCTACTGCTT-AGGGGTTAAGGTGCATCGTCTTCGATTTGCTCTGCTACTGCTTA-GG-GA
1 TTACCCTACTGCTTAAGGGATTAAGGTG-A--GTCTTCGATCTGCTCCGCTACTGCTTAGGGAGA
* *
31592025 TAAGATCTGCAAATTTAACCTGTTTCCCTACTGCTTAGGGGATTAAGGCGAGTCGTCATCGATCT
63 TAAGATCTGC--A--GAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCT
* *
31592090 GTTCCGCTACTGCTTAGGGAGATAAGATTTGC-GAACCTG
121 GCTCCGCTACTGCTTAGGGAGATAAGATCT-CTGAACCTG
* * *
31592129 TTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTACTCCGCTACTGCTTAGGGAGATAA
1 TTACCCTACTGCTTAAGGGATTAAGGTGAGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAA
* * *
31592194 GATCTGC-GAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCAATCTACTCCACTAC
66 GATCTGCAGAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCGCTAC
*
31592258 TGCTTAGGGAGATAAGATCTACAAATTTAACCTG
131 TGCTTAGGGAGATAAGATCT-C----TGAACCTG
*
31592292 TTACCCTACTGCTTAAGGGATTAAGGTGAGTCGTCATCGATCTGCTCCGCTACTGCTTAGGGCGA
1 TTACCCTACTGCTTAAGGGATTAAGGTGAGTC-T--TCGATCTGCTCCGCTACTGCTTAGGGAGA
* * *
31592357 TAAGATCTGC-GAACTTGTTACCCTACTACTTAAGGGATTAAGGCGAGTCTTCGATCTGCTCCGC
63 TAAGATCTGCAGAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCGC
* *
31592421 TACTGCTTAGAGAGATAAGATCTGTGAACCTG
128 TACTGCTTAGGGAGATAAGATCTCTGAACCTG
* **
31592453 TTACCCTACTGCTTAGGGGATTAAGGTGAGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAA
1 TTACCCTACTGCTTAAGGGATTAAGGTGAGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAA
*
31592518 GATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
66 GATCTGC--A--GAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
31592565 CTAAATTTTG
Statistics
Matches: 383, Mismatches: 37, Indels: 35
0.84 0.08 0.08
Matches are distributed among these distances:
158 69 0.18
160 2 0.01
161 75 0.20
163 67 0.17
164 25 0.07
165 2 0.01
166 133 0.35
167 10 0.03
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (159 bp):
TTACCCTACTGCTTAAGGGATTAAGGTGAGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAA
GATCTGCAGAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCGCTAC
TGCTTAGGGAGATAAGATCTCTGAACCTG
Found at i:31592398 original size:245 final size:245
Alignment explanation
Indices: 31592011--31592564 Score: 941
Period size: 245 Copynumber: 2.3 Consensus size: 245
31592001 ATTTGCTCTG
*
31592011 CTACTGCTTA-GG-GATAAGATCTGCAAATTTAACCTGTTTCCCTACTGCTTAGGGGATTAAGGC
1 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
* *
31592074 GAGTCGTCATCGATCTGTTCCGCTACTGCTTAGGGAGATAAGATTTGCGAACCTGTTACCCTACT
66 GAGTCGTCATCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCGAACCTGTTACCCTACT
* * *
31592139 GCTTAGGGGATTAAGGCGAGTCTTCGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTGCGAA
131 ACTTAAGGGATTAAGGCGAGTCTTCGATCTACTCCGCTACTGCTTAGAGAGATAAGATCTGCGAA
31592204 CCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCAATCTACTCCA
196 CCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCAATCTACTCCA
* * *
31592254 CTACTGCTTAGGGAGATAAGATCTACAAATTTAACCTGTTACCCTACTGCTTAAGGGATTAAGGT
1 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
* *
31592319 GAGTCGTCATCGATCTGCTCCGCTACTGCTTAGGGCGATAAGATCTGCGAACTTGTTACCCTACT
66 GAGTCGTCATCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCGAACCTGTTACCCTACT
* *
31592384 ACTTAAGGGATTAAGGCGAGTCTTCGATCTGCTCCGCTACTGCTTAGAGAGATAAGATCTGTGAA
131 ACTTAAGGGATTAAGGCGAGTCTTCGATCTACTCCGCTACTGCTTAGAGAGATAAGATCTGCGAA
* * * *
31592449 CCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCTTCGATCTGCTCTA
196 CCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCAATCTACTCCA
31592499 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
1 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
31592564 G
66 G
31592565 CTAAATTTTG
Statistics
Matches: 289, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
243 10 0.03
244 2 0.01
245 277 0.96
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (245 bp):
CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
GAGTCGTCATCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCGAACCTGTTACCCTACT
ACTTAAGGGATTAAGGCGAGTCTTCGATCTACTCCGCTACTGCTTAGAGAGATAAGATCTGCGAA
CCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCAATCTACTCCA
Found at i:31593542 original size:7 final size:6
Alignment explanation
Indices: 31593511--31593578 Score: 59
Period size: 7 Copynumber: 10.8 Consensus size: 6
31593501 AGCCTCTCCA
* *
31593511 TTTTTC TCTTTTC TCTTTTC TTTTTCC TTTTTA TTTTT- TTATTTT TTTTCTC
1 TTTTTC T-TTTTC T-TTTTC TTTTT-C TTTTTC TTTTTC TT-TTTC TTTT-TC
31593563 TTTTTC TTTTT- TTTTT
1 TTTTTC TTTTTC TTTTT
31593579 GAAATAGAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
5 7 0.13
6 22 0.40
7 26 0.47
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:31593547 original size:12 final size:13
Alignment explanation
Indices: 31593512--31593573 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 13
31593502 GCCTCTCCAT
31593512 TTTTCTCTTTTCTC
1 TTTTCT-TTTTCTC
31593526 TTTTCTTTTTC-C
1 TTTTCTTTTTCTC
31593538 TTTT-TATTTT-T-
1 TTTTCT-TTTTCTC
*
31593549 TTATTTTTTTTCTC
1 TT-TTCTTTTTCTC
31593563 TTTTTCTTTTT
1 -TTTTCTTTTT
31593574 TTTTTGAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
11 3 0.08
12 15 0.38
13 7 0.17
14 13 0.32
15 2 0.05
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTTCTC
Found at i:31593559 original size:25 final size:26
Alignment explanation
Indices: 31593527--31593575 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
31593517 TCTTTTCTCT
31593527 TTTCTTTTTC-CTTTTTATTTTTTTA
1 TTTCTTTTTCTCTTTTTATTTTTTTA
*
31593552 TTT-TTTTTCTCTTTTTCTTTTTTT
1 TTTCTTTTTCTCTTTTTATTTTTTT
31593576 TTTGAAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (26 bp):
TTTCTTTTTCTCTTTTTATTTTTTTA
Found at i:31595395 original size:21 final size:23
Alignment explanation
Indices: 31595369--31595419 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
31595359 CGTATTATAT
31595369 ATATTTTA-TA-ATTATTTAC-TC
1 ATATTTTATTATATTA-TTACTTC
31595390 ATATTTTATTATATTATTACTTC
1 ATATTTTATTATATTATTACTTC
31595413 ATATTTT
1 ATATTTT
31595420 TCTATTATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.30
22 6 0.22
23 13 0.48
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (23 bp):
ATATTTTATTATATTATTACTTC
Found at i:31597267 original size:20 final size:19
Alignment explanation
Indices: 31597231--31597272 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
31597221 AATATATGTA
31597231 TTATATTTTATATTATTTAC
1 TTATATTTTATATTA-TTAC
31597251 TTATATTTTAT-TATATTAC
1 TTATATTTTATAT-TATTAC
31597270 TTA
1 TTA
31597273 ATATCTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATATTTTATATTATTAC
Found at i:31597287 original size:23 final size:18
Alignment explanation
Indices: 31597231--31597272 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
31597221 AATATATGTA
31597231 TTATATTTTATATTATTTAC
1 TTATA-TTT-TATTATTTAC
31597251 TTATATTTTATTATATTAC
1 TTATATTTTATTAT-TTAC
31597270 TTA
1 TTA
31597273 ATATCTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATTTTATTATTTAC
Found at i:31597399 original size:16 final size:16
Alignment explanation
Indices: 31597380--31597570 Score: 72
Period size: 16 Copynumber: 11.2 Consensus size: 16
31597370 ATTAACCATA
*
31597380 TATTATTTCATATTAT
1 TATTATTTTATATTAT
31597396 TATTA--TTAT-TTAT
1 TATTATTTTATATTAT
*
31597409 TATATATTTTTAAATTAT
1 TAT-TA-TTTTATATTAT
*
31597427 TATTATTTTACATTAT
1 TATTATTTTATATTAT
* *
31597443 TA-T-TTATATATTTT
1 TATTATTTTATATTAT
* *
31597457 TACTTGTATTATATCTTTAT
1 TA--T-TATTTTAT-ATTAT
31597477 TAATTATTTATATATTAT
1 T-ATTATTT-TATATTAT
*
31597495 ACATTATTTTTACATATATACT
1 -TATTA-TTTT--ATAT-TA-T
*
31597517 T-TCATATTATATATTAT
1 TAT--TATTTTATATTAT
*
31597534 AATTATTTTATATTAT
1 TATTATTTTATATTAT
*
31597550 GTCATT-TTTTATACTAT
1 -T-ATTATTTTATATTAT
31597567 TATT
1 TATT
31597571 TGTTTTTTAT
Statistics
Matches: 134, Mismatches: 17, Indels: 49
0.67 0.09 0.25
Matches are distributed among these distances:
13 7 0.05
14 15 0.11
15 4 0.03
16 30 0.22
17 16 0.12
18 27 0.20
19 17 0.13
20 9 0.07
21 6 0.04
22 3 0.02
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.61
Consensus pattern (16 bp):
TATTATTTTATATTAT
Found at i:31597483 original size:38 final size:37
Alignment explanation
Indices: 31597390--31597492 Score: 113
Period size: 38 Copynumber: 2.7 Consensus size: 37
31597380 TATTATTTCA
*
31597390 TATTATTATTATTATTTA-TTATATATTTTTAAATTAT
1 TATTATT-TTATTAATTATTTATATATTTTTAAATTAT
**
31597427 TATTATTTTACATT-ATTATTTATATATTTTTACTTGTAT
1 TATTATTTT--ATTAATTATTTATATATTTTTAAAT-TAT
31597466 TA-TATCTTTATTAATTATTTATATATT
1 TATTAT-TTTATTAATTATTTATATATT
31597493 ATACATTATT
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
36 2 0.04
37 13 0.23
38 34 0.60
39 8 0.14
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (37 bp):
TATTATTTTATTAATTATTTATATATTTTTAAATTAT
Found at i:31597570 original size:23 final size:23
Alignment explanation
Indices: 31597544--31597594 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
31597534 AATTATTTTA
31597544 TATTATGTCATTT-TTTATACTAT
1 TATTATGTCATTTATTTATAC-AT
**
31597567 TATT-TGTTTTTTATTTATACAT
1 TATTATGTCATTTATTTATACAT
31597589 TATTAT
1 TATTAT
31597595 CATTAAAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTATGTCATTTATTTATACAT
Found at i:31605670 original size:5 final size:5
Alignment explanation
Indices: 31605660--31605689 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
31605650 TCAAGATTGT
31605660 ATATC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC
31605690 TAAGATTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATC
Found at i:31605703 original size:19 final size:19
Alignment explanation
Indices: 31605641--31605741 Score: 105
Period size: 19 Copynumber: 5.2 Consensus size: 19
31605631 AGATTACAAA
*
31605641 ATCATATCTTCAAGATTGTAT
1 ATCATATC-T-AAGATTGCAT
**
31605662 ATCATATCATATCATAT-CAT
1 ATCATATC-TAAGAT-TGCAT
31605682 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
* *
31605701 ATCACATCTAAGATTCCAT
1 ATCATATCTAAGATTGCAT
*
31605720 ATCACATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
31605739 ATC
1 ATC
31605742 CTTAAAGATT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
18 1 0.01
19 45 0.65
20 13 0.19
21 10 0.14
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:31606803 original size:8 final size:8
Alignment explanation
Indices: 31606764--31606797 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
31606754 ACTTAAGTAT
31606764 ATAATATA
1 ATAATATA
31606772 ATAATATA
1 ATAATATA
*
31606780 TTAA-ATA
1 ATAATATA
31606787 ATAATATA
1 ATAATATA
31606795 ATA
1 ATA
31606798 TAATAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATATA
Found at i:31606835 original size:25 final size:24
Alignment explanation
Indices: 31606799--31606845 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
31606789 AATATAATAT
* *
31606799 AATAAAACATAAAAGAAATAAAAGA
1 AATAAAAAAT-AAAGAAACAAAAGA
31606824 AATAAAAAATAAAGAAACAAAA
1 AATAAAAAATAAAGAAACAAAA
31606846 AAAAGAGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.11
Consensus pattern (24 bp):
AATAAAAAATAAAGAAACAAAAGA
Found at i:31606839 original size:15 final size:16
Alignment explanation
Indices: 31606814--31606847 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
31606804 AACATAAAAG
*
31606814 AAATAAAAGAAATAAA
1 AAATAAAAGAAACAAA
31606830 AAAT-AAAGAAACAAA
1 AAATAAAAGAAACAAA
31606845 AAA
1 AAA
31606848 AAGAGAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09
Consensus pattern (16 bp):
AAATAAAAGAAACAAA
Found at i:31606846 original size:25 final size:25
Alignment explanation
Indices: 31606799--31606846 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
31606789 AATATAATAT
* *
31606799 AATAAAACATAAAAGAAATAAAAGA
1 AATAAAAAATAAAAGAAAAAAAAGA
31606824 AATAAAAAAT-AAAGAAACAAAAA
1 AATAAAAAATAAAAGAAA-AAAAA
31606847 AAAGAGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.10
Consensus pattern (25 bp):
AATAAAAAATAAAAGAAAAAAAAGA
Found at i:31610925 original size:40 final size:40
Alignment explanation
Indices: 31610860--31610977 Score: 191
Period size: 40 Copynumber: 3.0 Consensus size: 40
31610850 CGGATGTAAC
* * *
31610860 AACCAGCACAAATGCCTTTGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
31610900 AACCCGTACGAATGCCTTCGGGACTTAACCCGGTTATAGT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
31610940 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
31610978 TTTTTTTTTC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:31612494 original size:18 final size:18
Alignment explanation
Indices: 31612471--31612506 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
31612461 CCAAATGGAC
31612471 AAAATGACTAGCTTAAAG
1 AAAATGACTAGCTTAAAG
31612489 AAAATGACTAGCTTAAAG
1 AAAATGACTAGCTTAAAG
31612507 GCTAAGTAAT
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:0.11, G:0.17, T:0.22
Consensus pattern (18 bp):
AAAATGACTAGCTTAAAG
Found at i:31616058 original size:20 final size:20
Alignment explanation
Indices: 31616033--31616070 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31616023 CCACACAGGC
* *
31616033 ATGTGTGATGTTGTGTGGGT
1 ATGTGTGAGGCTGTGTGGGT
31616053 ATGTGTGAGGCTGTGTGG
1 ATGTGTGAGGCTGTGTGG
31616071 ACCACATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.03, G:0.47, T:0.39
Consensus pattern (20 bp):
ATGTGTGAGGCTGTGTGGGT
Found at i:31619194 original size:6 final size:6
Alignment explanation
Indices: 31619183--31619212 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
31619173 TAAATTTATT
31619183 TAATTA TAATTA TAATTA TAATTA TAATTA
1 TAATTA TAATTA TAATTA TAATTA TAATTA
31619213 ATTATAGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATTA
Found at i:31621514 original size:14 final size:13
Alignment explanation
Indices: 31621491--31621524 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
31621481 AATACTTGAT
*
31621491 TTGTTCTTAATTC
1 TTGTTTTTAATTC
31621504 TGTGTTTTTAATTC
1 T-TGTTTTTAATTC
31621518 TTGTTTT
1 TTGTTTT
31621525 AATATTCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.68
Consensus pattern (13 bp):
TTGTTTTTAATTC
Found at i:31629352 original size:49 final size:48
Alignment explanation
Indices: 31629258--31629353 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 48
31629248 GGCGACATGC
* * * *
31629258 CCGTGTCTATTTAACAGATTGTAACATGGCCTAAGCCACACCACACGA
1 CCGTGTCTATTTAACAGACTCTAACACGACCTAAGCCACACCACACGA
* *
31629306 CCGTGTCTATTTAGCAGACTCTAAACACGACGTAAGCCAC-CTCACACG
1 CCGTGTCTATTTAACAGACTCT-AACACGACCTAAGCCACAC-CACACG
31629354 GGCATGTCCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
48 20 0.50
49 20 0.50
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (48 bp):
CCGTGTCTATTTAACAGACTCTAACACGACCTAAGCCACACCACACGA
Found at i:31630951 original size:54 final size:54
Alignment explanation
Indices: 31630887--31631005 Score: 229
Period size: 54 Copynumber: 2.2 Consensus size: 54
31630877 TAGTCCACAC
*
31630887 GGGCGTGTGGGGTTTGAGCCAGACCGTGTGATCCATACGGGCCAAGGCCAATTG
1 GGGCGTGTGGGGTTTGAGCCAGACCGTGTGATCCATACGGGACAAGGCCAATTG
31630941 GGGCGTGTGGGGTTTGAGCCAGACCGTGTGATCCATACGGGACAAGGCCAATTG
1 GGGCGTGTGGGGTTTGAGCCAGACCGTGTGATCCATACGGGACAAGGCCAATTG
31630995 GGGCGTGTGGG
1 GGGCGTGTGGG
31631006 CCACACGGGC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.18, C:0.20, G:0.42, T:0.20
Consensus pattern (54 bp):
GGGCGTGTGGGGTTTGAGCCAGACCGTGTGATCCATACGGGACAAGGCCAATTG
Found at i:31631020 original size:17 final size:18
Alignment explanation
Indices: 31630995--31631034 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
31630985 AGGCCAATTG
*
31630995 GGGCGTGTGGGC-CACAC
1 GGGCATGTGGGCTCACAC
31631012 GGGCATGTGGGCTCACAC
1 GGGCATGTGGGCTCACAC
31631030 GGGCA
1 GGGCA
31631035 AGCGACATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.15, C:0.28, G:0.45, T:0.12
Consensus pattern (18 bp):
GGGCATGTGGGCTCACAC
Found at i:31631971 original size:19 final size:18
Alignment explanation
Indices: 31631925--31631985 Score: 50
Period size: 19 Copynumber: 3.3 Consensus size: 18
31631915 GAAAACTCAG
*
31631925 TTTTATTAAATACAACGT
1 TTTTATTAAATACAACGA
** *
31631943 TTTTCCTAAATGCAAACGA
1 TTTTATTAAATAC-AACGA
* *
31631962 TTTTATTAAAATATAACGG
1 TTTTATT-AAATACAACGA
31631981 TTTTA
1 TTTTA
31631986 AAAGCTTCCA
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
18 10 0.31
19 18 0.56
20 4 0.12
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (18 bp):
TTTTATTAAATACAACGA
Found at i:31635878 original size:176 final size:174
Alignment explanation
Indices: 31635582--31636347 Score: 972
Period size: 176 Copynumber: 4.4 Consensus size: 174
31635572 ATGGTGACTT
* * * * * * **
31635582 AAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCCTT-AATTTTCTCTAC-ATCTG
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAT-CTTCGATCTGCTCCACTA-CAA
* ** *
31635645 CTTAGGGAGATAAGATCTTCAATCTTCAGTCTACTTCCTTGCTACATCAGGAAGATAAGACTACA
64 CTTAGGGAGATAAGATCTTCAATCTTCAGTCTACTTTCTTGCTACCCCAGAAAGATAAGACT-C-
31635710 ATTGC-CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGTA
127 ATT-CTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGTA
* **
31635758 AAATCTGCTCCATTGCCGATACATAGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACAACT
* * * * * *
31635823 TGGGGAGATAAGATCTTCAATCTCCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTTAATC
66 TAGGGAGATAAGATCTTCAATCTTCAGTCTACTTTCTTGCTACCCCAGAAAGATAAGACTCATTC
* * *
31635888 TTTAACCTGCTCTCTTGCTACCTCAGGGAGATAA-G--ATTGGTA
131 -TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGTA
* * *
31635930 AAATCTGCTCCATTGCCAATACATAGAGATAAGATTCACCATCTTTGATCTGCTCCGA-TACAAC
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCC-ACTACAAC
* *
31635994 TTTAGGGAGATAAGATCTTCAATTTTCAGTCTGCTTTCTTGCTACCCCAGAAAGATAAGACTCAT
65 -TTAGGGAGATAAGATCTTCAATCTTCAGTCTACTTTCTTGCTACCCCAGAAAGATAAGACTCAT
*
31636059 TCTTCAACCTGCTCTCTTGCTACCTCAGATAGATAAGGCTAGTGGTA
129 TC-TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGTA
* *
31636106 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCA-CAGTCTTCGATCTGCTCCGCTGCAAC
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCA-TCTTCGATCTGCTCCACTACAAC
* *
31636170 TTCAGGGAGATAAGATCTTCAATTTTCAGTCTACTTTTTTGCTACCCCAGAAAGATAAGACTCAT
65 TT-AGGGAGATAAGATCTTCAATCTTCAGTCTACTTTCTTGCTACCCCAGAAAGATAAGACTCAT
* * * * *
31636235 TCTTCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGTTGGCGGCA
129 TC-TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGTA
** * * *
31636282 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTTGCCATCTTTGGTCTGCTCTACTACAACT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACAACT
31636347 T
66 T
31636348 TAAGGAAATA
Statistics
Matches: 525, Mismatches: 52, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
172 64 0.12
173 93 0.18
174 4 0.01
175 37 0.07
176 324 0.62
177 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (174 bp):
AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACAACT
TAGGGAGATAAGATCTTCAATCTTCAGTCTACTTTCTTGCTACCCCAGAAAGATAAGACTCATTC
TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGTA
Found at i:31636268 original size:88 final size:88
Alignment explanation
Indices: 31636000--31636271 Score: 223
Period size: 88 Copynumber: 3.1 Consensus size: 88
31635990 CAACTTTAGG
*
31636000 GAGATAAGATCTTCAATTTTCAGTCTGCTTTCTTGCTACCCCAGAAAGATAAGACTCATTCTTCA
1 GAGATAAGATCTTCAATTTTCAGTCTGCTTTATTGCTACCCCAGAAAGATAAGACTCATTCTTCA
31636065 ACCTGCTCTCTTGCTACCTCAGA
66 ACCTGCTCTCTTGCTACCTCAGA
* * * * ** * ** * ** * * *
31636088 TAGATAAG-GC-T-AGTGGTAAAATCTGCTCCATTGCCGA-TACATG-GAGATAAGATTCACAGT
1 GAGATAAGATCTTCAAT-TTTCAGTCTGCTTTATTG-CTACCCCA-GAAAGATAAGA--CTCATT
* * * * * *
31636148 CTTCGATCTGCTC-CGCTGCAACTTCAGG
61 CTTCAACCTGCTCTC-TTGCTACCTCAGA
* *
31636176 GAGATAAGATCTTCAATTTTCAGTCTACTTTTTTGCTACCCCAGAAAGATAAGACTCATTCTTCA
1 GAGATAAGATCTTCAATTTTCAGTCTGCTTTATTGCTACCCCAGAAAGATAAGACTCATTCTTCA
*
31636241 ACCTGCTCTCTTGCTACCTCAAA
66 ACCTGCTCTCTTGCTACCTCAGA
31636264 GAGATAAG
1 GAGATAAG
31636272 GTTGGCGGCA
Statistics
Matches: 126, Mismatches: 46, Indels: 24
0.64 0.23 0.12
Matches are distributed among these distances:
85 2 0.02
86 22 0.17
87 5 0.04
88 69 0.55
89 5 0.04
90 21 0.17
91 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (88 bp):
GAGATAAGATCTTCAATTTTCAGTCTGCTTTATTGCTACCCCAGAAAGATAAGACTCATTCTTCA
ACCTGCTCTCTTGCTACCTCAGA
Found at i:31636488 original size:176 final size:177
Alignment explanation
Indices: 31636306--31636756 Score: 467
Period size: 176 Copynumber: 2.6 Consensus size: 177
31636296 GCCGATACAT
* **
31636306 GGAGATAAGAT-TTGCCATCTTTGGTCTGCTCTACTACAACTTTAAGGAAATAAGACCTATCACT
1 GGAGATAAGATCTT-CAATCTTCAGTCTGCTCTACTACAACTTTAAGGAAATAAGACCTATCACT
* * *
31636370 TCAACTTGCTCCACTGCAACTTCAGGGAGATAA-GTTCAGTGG-TAAAATCTGCTCCATTGCCGA
65 TCAACCTGCTCCACTGCAACCTCAGGGAGATAAGGCT-AGTGGCTAAAATCTGCTCCATTGCCGA
*
31636433 TACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCT-ACTGCTTAG
129 TACATGGAGATAAGATTCACCATCTTCGATCTGCTCCG-TAACTGCCTAG
* * * * * *
31636482 GGAGATAAGATCTTCAATCTTCAGT-TG-TTTCCTTGCTAC-CTCAGGAAGATAAGA-CTA-CAA
1 GGAGATAAGATCTTCAATCTTCAGTCTGCTCTAC-TACAACTTTAAGGAA-ATAAGACCTATC-A
** * * * *
31636542 TCGCCAACCTGCTCTC-TTGCTACCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGC
63 -CTTCAACCTGCTC-CACTGCAACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGC
*
31636606 CGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGTAACTGCCTAG
126 CGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGTAACTGCCTAG
* ** * *
31636658 GGAGATAAGATCTTTAATCTTCAGTCTGCTCTACTACAA-TCTTAAGGGGATAAGACTTGT-ACA
1 GGAGATAAGATCTTCAATCTTCAGTCTGCTCTACTACAACT-TTAAGGAAATAAGACCTATCAC-
* * * *
31636721 TTGAGCCTGCTCCACTGCAGCGTCAGGGAGATAAGG
64 TTCAACCTGCTCCACTGCAACCTCAGGGAGATAAGG
31636757 TTTGTTATGA
Statistics
Matches: 218, Mismatches: 40, Indels: 33
0.75 0.14 0.11
Matches are distributed among these distances:
173 1 0.00
174 13 0.06
175 44 0.20
176 113 0.52
177 39 0.18
178 8 0.04
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (177 bp):
GGAGATAAGATCTTCAATCTTCAGTCTGCTCTACTACAACTTTAAGGAAATAAGACCTATCACTT
CAACCTGCTCCACTGCAACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATA
CATGGAGATAAGATTCACCATCTTCGATCTGCTCCGTAACTGCCTAG
Found at i:31637093 original size:64 final size:61
Alignment explanation
Indices: 31636954--31637129 Score: 239
Period size: 64 Copynumber: 2.9 Consensus size: 61
31636944 ATGCCCAATG
* * *
31636954 ATTAGGATGCTATGATTGAAATGAATCCAATGCTCCTAACTAAATG-AGTGATGTCAAATA
1 ATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTAGTGATGTCAAATA
* * *
31637014 ATTAGGACGCTATGATCGAAATGAATCAAATGCTCTTAACTAGATGTTATGCTTATGTCAAATA
1 ATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATG-TA-G-TGATGTCAAATA
* *
31637078 ATTAGGATGTTATGATCAAAATGAATCAAATGCTCCTAACTAGATGT-GTGAT
1 ATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTAGTGAT
31637130 TTATTATGCT
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
60 44 0.44
61 1 0.01
62 1 0.01
63 2 0.02
64 53 0.52
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (61 bp):
ATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTAGTGATGTCAAATA
Found at i:31638158 original size:17 final size:16
Alignment explanation
Indices: 31638136--31638195 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
31638126 ATTTCTTTGA
31638136 TTGATTCTTTCTTTTTT
1 TTGATTCTTT-TTTTTT
*
31638153 TTGATT-TTTTTCTTT
1 TTGATTCTTTTTTTTT
31638168 TT-ATTTCTTTTTTTATT
1 TTGA-TTCTTTTTTT-TT
31638185 TTGATT-TTTTT
1 TTGATTCTTTTT
31638196 AAGGTCTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 1 0.03
15 9 0.24
16 14 0.38
17 12 0.32
18 1 0.03
ACGTcount: A:0.08, C:0.07, G:0.05, T:0.80
Consensus pattern (16 bp):
TTGATTCTTTTTTTTT
Found at i:31638174 original size:10 final size:9
Alignment explanation
Indices: 31638143--31638181 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
31638133 TGATTGATTC
31638143 TTTCTTTTT
1 TTTCTTTTT
**
31638152 TTTGATTTT
1 TTTCTTTTT
31638161 TTTCTTTTT
1 TTTCTTTTT
31638170 ATTTCTTTTT
1 -TTTCTTTTT
31638180 TT
1 TT
31638182 ATTTTGATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.05, C:0.08, G:0.03, T:0.85
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:31638178 original size:18 final size:17
Alignment explanation
Indices: 31638143--31638195 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
31638133 TGATTGATTC
31638143 TTTCTTTTT-TTTGATTTT
1 TTTCTTTTTATTT--TTTT
31638161 TTTCTTTTTATTTCTTTT
1 TTTCTTTTTATTT-TTTT
* *
31638179 TTTATTTTGATTTTTTT
1 TTTCTTTTTATTTTTTT
31638196 AAGGTCTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.13
18 24 0.77
19 3 0.10
ACGTcount: A:0.08, C:0.06, G:0.04, T:0.83
Consensus pattern (17 bp):
TTTCTTTTTATTTTTTT
Found at i:31645631 original size:20 final size:19
Alignment explanation
Indices: 31645603--31645653 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
31645593 GGCCCATTAT
*
31645603 AAACCAAAATAAAGATAA-AA
1 AAACAAAAATAAA-A-AACAA
31645623 AAACAAAAATAAAAAACAA
1 AAACAAAAATAAAAAACAA
31645642 AAACAATAAATA
1 AAACAA-AAATA
31645654 GCCCAAGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 9 0.32
20 17 0.61
ACGTcount: A:0.78, C:0.10, G:0.02, T:0.10
Consensus pattern (19 bp):
AAACAAAAATAAAAAACAA
Found at i:31645636 original size:13 final size:13
Alignment explanation
Indices: 31645620--31645644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31645610 AATAAAGATA
31645620 AAAAAACAAAAAT
1 AAAAAACAAAAAT
31645633 AAAAAACAAAAA
1 AAAAAACAAAAA
31645645 CAATAAATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.08, G:0.00, T:0.04
Consensus pattern (13 bp):
AAAAAACAAAAAT
Found at i:31648966 original size:50 final size:49
Alignment explanation
Indices: 31648894--31648990 Score: 124
Period size: 50 Copynumber: 2.0 Consensus size: 49
31648884 ATTTTAGAGA
* * * *
31648894 TACACAAAACAAATGCATATTATATATGAGTGCTTTT-TTTTTTAGAATT
1 TACACAAAAAAAATGCACATTATATATAAGTG-TTTTCTTTTTGAGAATT
*
31648943 TACACAAAAAAAAATGCGCATTATATATAAGTGTTTTCTTTTTGAGAA
1 TACAC-AAAAAAAATGCACATTATATATAAGTGTTTTCTTTTTGAGAA
31648991 CTTTTTTGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 9 0.22
50 32 0.78
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.39
Consensus pattern (49 bp):
TACACAAAAAAAATGCACATTATATATAAGTGTTTTCTTTTTGAGAATT
Found at i:31652595 original size:111 final size:111
Alignment explanation
Indices: 31652432--31652646 Score: 297
Period size: 111 Copynumber: 1.9 Consensus size: 111
31652422 ACAGTTGCCC
* *
31652432 GAAAAACAACAAATGAATAGCAACAGCTAGCAGTTGCAGAGAAGTGTCAAGAAAAACAACAATTG
1 GAAAAACAACAAATGAATAGCAACAGCTAGCAATTGCAGAGAAGTGCCAAGAAAAACAACAATTG
* *
31652497 AATAGCAGCAGCCAACAATTGAATAGAAAAATAGCAGCAGTTACTG
66 AATAACAGCAACCAACAATTGAATAGAAAAATAGCAGCAGTTACTG
* * * * * *
31652543 GAAAAACAACAAATGAATTGTAGCAG-TCAGTAATTGCAGTGAAGTGCCAAGAAAAACAGCAATT
1 GAAAAACAACAAATGAATAGCAACAGCT-AGCAATTGCAGAGAAGTGCCAAGAAAAACAACAATT
* * *
31652607 GAATAACAGCAACTAGCAATTGAATAGCAAAATAGCAGCA
65 GAATAACAGCAACCAACAATTGAATAGAAAAATAGCAGCA
31652647 ACCATTAGTT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
110 1 0.01
111 89 0.99
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (111 bp):
GAAAAACAACAAATGAATAGCAACAGCTAGCAATTGCAGAGAAGTGCCAAGAAAAACAACAATTG
AATAACAGCAACCAACAATTGAATAGAAAAATAGCAGCAGTTACTG
Found at i:31654181 original size:15 final size:15
Alignment explanation
Indices: 31654151--31654179 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31654141 ACTATTAGTA
31654151 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
31654166 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
31654180 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:31654310 original size:22 final size:21
Alignment explanation
Indices: 31654263--31654310 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
31654253 GTTAACTTTT
* * *
31654263 TGTAAAAAAATTTAAACTCTA
1 TGTAAAAAAATATAAAATATA
*
31654284 AGTAAAAAAATATAAAATATA
1 TGTAAAAAAATATAAAATATA
31654305 GTGTAA
1 -TGTAA
31654311 CTTTTAATCT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (21 bp):
TGTAAAAAAATATAAAATATA
Found at i:31655872 original size:10 final size:10
Alignment explanation
Indices: 31655848--31655983 Score: 59
Period size: 10 Copynumber: 13.4 Consensus size: 10
31655838 ATTTGTATAA
31655848 AAAAAATGTCAT
1 AAAAAAT-T-AT
*
31655860 AAAAAATTGT
1 AAAAAATTAT
*
31655870 AAAATATTAT
1 AAAAAATTAT
*
31655880 ATAAACA-TAT
1 A-AAAAATTAT
31655890 AAAAAATTAT
1 AAAAAATTAT
**
31655900 -AAAAAGGAT
1 AAAAAATTAT
*
31655909 -AAAAATTACA
1 AAAAAATTA-T
31655919 AAAAAATT-T
1 AAAAAATTAT
* *
31655928 TAAATATTATT
1 AAAAAATTA-T
*
31655939 ATAAAATTAT
1 AAAAAATTAT
*
31655949 ATAAAAA-TGT
1 A-AAAAATTAT
31655959 -AAAAATTATTT
1 AAAAAATTA--T
*
31655970 AAAAAGTTAT
1 AAAAAATTAT
31655980 AAAA
1 AAAA
31655984 TATATTAATA
Statistics
Matches: 93, Mismatches: 20, Indels: 24
0.68 0.15 0.18
Matches are distributed among these distances:
8 5 0.05
9 24 0.26
10 26 0.28
11 24 0.26
12 14 0.15
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:31661250 original size:19 final size:19
Alignment explanation
Indices: 31661226--31661268 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
31661216 TATAGTTTTA
*
31661226 TATGTTGTA-AATATCATAT
1 TATGTTCTATAATAT-ATAT
*
31661245 TATGTTCTATAATGTATAT
1 TATGTTCTATAATATATAT
31661264 TATGT
1 TATGT
31661269 AGGTCATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.51
Consensus pattern (19 bp):
TATGTTCTATAATATATAT
Found at i:31665893 original size:26 final size:26
Alignment explanation
Indices: 31665857--31665966 Score: 202
Period size: 26 Copynumber: 4.2 Consensus size: 26
31665847 CATGAAATTC
31665857 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
31665883 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
31665909 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
31665935 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
31665961 TTATCA
1 TTATCA
31665967 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:31679922 original size:43 final size:43
Alignment explanation
Indices: 31679855--31679958 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 43
31679845 GCGATGGGCT
* * *
31679855 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGACC
1 TTAAACCCCTAAGCAGTAAGGTAACAAGCCAAATTCACAGACC
* * ** *
31679898 TTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAGATC
1 TTAAACCCCTAAGCAGTAAGGTAACAAGCCAAATTCACAGACC
*
31679941 TTAACCCCCTAAGCAGTA
1 TTAAACCCCTAAGCAGTA
31679959 GGGAAACAGA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.22
Consensus pattern (43 bp):
TTAAACCCCTAAGCAGTAAGGTAACAAGCCAAATTCACAGACC
Found at i:31679999 original size:130 final size:132
Alignment explanation
Indices: 31679764--31680013 Score: 369
Period size: 130 Copynumber: 1.9 Consensus size: 132
31679754 AACCACCAAG
* * * *
31679764 CCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAGCCCCCTAAGCAGTA
1 CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
* * * *
31679829 GGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
66 GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
31679894 GA
131 GA
*
31679896 CCTTAAATCCCTAAGCAGTAAGGTAACAGG-TTAA-ATTCACAGATCTTAACCCCCTAAGCAGTA
1 CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
* ** *
31679959 GGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTAGGGTAACAAGC
66 GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
31680014 TGACGTTCAT
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
130 74 0.70
131 3 0.03
132 28 0.27
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (132 bp):
CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
GA
Found at i:31680311 original size:130 final size:132
Alignment explanation
Indices: 31680118--31680367 Score: 369
Period size: 130 Copynumber: 1.9 Consensus size: 132
31680108 AACCACCAAG
* * * *
31680118 CCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAGCCCCCTAAGCAGTA
1 CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
* * * *
31680183 GGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
66 GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
31680248 GA
131 GA
*
31680250 CCTTAAATCCCTAAGCAGTAAGGTAACAGG-TTAA-ATTCACAGATCTTAACCCCCTAAGCAGTA
1 CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
* ** *
31680313 GGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTAGGGTAACAAGC
66 GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
31680368 TGACGTTCAT
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
130 74 0.70
131 3 0.03
132 28 0.27
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (132 bp):
CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
GA
Found at i:31680392 original size:354 final size:354
Alignment explanation
Indices: 31679743--31682693 Score: 5893
Period size: 354 Copynumber: 8.3 Consensus size: 354
31679733 ATGTTCCTAA
31679743 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
1 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
31679808 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
66 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
31679873 GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
131 GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
31679938 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
196 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
*
31680003 GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGCAGTAGGGAAGCAGATCAAAAGACA
261 GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGTAGTAGGGAAGCAGATCAAAAGACA
31680068 GCGAATCTTGCCTTCCTGAAGTTGCAGTG
326 GCGAATCTTGCCTTCCTGAAGTTGCAGTG
31680097 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
1 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
31680162 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
66 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
31680227 GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
131 GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
31680292 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
196 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
31680357 GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGTAGTAGGGAAGCAGATCAAAAGACA
261 GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGTAGTAGGGAAGCAGATCAAAAGACA
31680422 GCGAATCTTGCCTTCCTGAAGTTGCAGTG
326 GCGAATCTTGCCTTCCTGAAGTTGCAGTG
31680451 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
1 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
31680516 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
66 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
31680581 GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
131 GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
31680646 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
196 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
31680711 GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGTAGTAGGGAAGCAGATCAAAAGACA
261 GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGTAGTAGGGAAGCAGATCAAAAGACA
31680776 GCGAATCTTGCCTTCCTGAAGTTGCAGTG
326 GCGAATCTTGCCTTCCTGAAGTTGCAGTG
31680805 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
1 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
31680870 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
66 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
31680935 GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
131 GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
31681000 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
196 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
31681065 GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGTAGTAGGGAAGCAGATCAAAAGACA
261 GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGTAGTAGGGAAGCAGATCAAAAGACA
31681130 GCGAATCTTGCCTTCCTGAAGTTGCAGTG
326 GCGAATCTTGCCTTCCTGAAGTTGCAGTG
31681159 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
1 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
31681224 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
66 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
31681289 GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
131 GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
31681354 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
196 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
31681419 GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGTAGTAGGGAAGCAGATCAAAAGACA
261 GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGTAGTAGGGAAGCAGATCAAAAGACA
31681484 GCGAATCTTGCCTTCCTGAAGTTGCAGTG
326 GCGAATCTTGCCTTCCTGAAGTTGCAGTG
31681513 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
1 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
31681578 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
66 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
31681643 GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
131 GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
31681708 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
196 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
31681773 GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGTAGTAGGGAAGCAGATCAAAAGACA
261 GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGTAGTAGGGAAGCAGATCAAAAGACA
31681838 GCGAATCTTGCCTTCCTGAAGTTGCAGTG
326 GCGAATCTTGCCTTCCTGAAGTTGCAGTG
31681867 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
1 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
31681932 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
66 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
31681997 GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
131 GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
31682062 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
196 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
31682127 GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGTAGTAGGGAAGCAGATCAAAAGACA
261 GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGTAGTAGGGAAGCAGATCAAAAGACA
31682192 GCGAATCTTGCCTTCCTGAAGTTGCAGTG
326 GCGAATCTTGCCTTCCTGAAGTTGCAGTG
31682221 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
1 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
31682286 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
66 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
31682351 GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
131 GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
31682416 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
196 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
31682481 GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGTAGTAGGGAAGCAGATCAAAAGACA
261 GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGTAGTAGGGAAGCAGATCAAAAGACA
31682546 GCGAATCTTGCCTTCCTGAAGTTGCAGTG
326 GCGAATCTTGCCTTCCTGAAGTTGCAGTG
31682575 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
1 AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
31682640 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCC
66 ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCC
31682694 TAGCCTCGTC
Statistics
Matches: 2596, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
354 2596 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (354 bp):
AAGCAGATTCAAACCACCAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAG
ATCTTAGCCCCCTAAGCAGTAGGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTA
GGGTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAAGGTAACAGGTTAAATTCACAG
ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTA
GGGTAACAAGCTGACGTTCATAAGATCTTATCACCCTAAGTAGTAGGGAAGCAGATCAAAAGACA
GCGAATCTTGCCTTCCTGAAGTTGCAGTG
Found at i:31680665 original size:130 final size:132
Alignment explanation
Indices: 31680472--31680721 Score: 369
Period size: 130 Copynumber: 1.9 Consensus size: 132
31680462 AACCACCAAG
* * * *
31680472 CCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAGCCCCCTAAGCAGTA
1 CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
* * * *
31680537 GGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
66 GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
31680602 GA
131 GA
*
31680604 CCTTAAATCCCTAAGCAGTAAGGTAACAGG-TTAA-ATTCACAGATCTTAACCCCCTAAGCAGTA
1 CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
* ** *
31680667 GGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTAGGGTAACAAGC
66 GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
31680722 TGACGTTCAT
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
130 74 0.70
131 3 0.03
132 28 0.27
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (132 bp):
CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
GA
Found at i:31681019 original size:130 final size:132
Alignment explanation
Indices: 31680826--31681075 Score: 369
Period size: 130 Copynumber: 1.9 Consensus size: 132
31680816 AACCACCAAG
* * * *
31680826 CCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAGCCCCCTAAGCAGTA
1 CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
* * * *
31680891 GGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
66 GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
31680956 GA
131 GA
*
31680958 CCTTAAATCCCTAAGCAGTAAGGTAACAGG-TTAA-ATTCACAGATCTTAACCCCCTAAGCAGTA
1 CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
* ** *
31681021 GGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTAGGGTAACAAGC
66 GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
31681076 TGACGTTCAT
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
130 74 0.70
131 3 0.03
132 28 0.27
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (132 bp):
CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
GA
Found at i:31681373 original size:130 final size:132
Alignment explanation
Indices: 31681180--31681429 Score: 369
Period size: 130 Copynumber: 1.9 Consensus size: 132
31681170 AACCACCAAG
* * * *
31681180 CCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAGCCCCCTAAGCAGTA
1 CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
* * * *
31681245 GGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
66 GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
31681310 GA
131 GA
*
31681312 CCTTAAATCCCTAAGCAGTAAGGTAACAGG-TTAA-ATTCACAGATCTTAACCCCCTAAGCAGTA
1 CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
* ** *
31681375 GGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTAGGGTAACAAGC
66 GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
31681430 TGACGTTCAT
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
130 74 0.70
131 3 0.03
132 28 0.27
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (132 bp):
CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
GA
Found at i:31681727 original size:130 final size:132
Alignment explanation
Indices: 31681534--31681783 Score: 369
Period size: 130 Copynumber: 1.9 Consensus size: 132
31681524 AACCACCAAG
* * * *
31681534 CCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAGCCCCCTAAGCAGTA
1 CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
* * * *
31681599 GGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
66 GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
31681664 GA
131 GA
*
31681666 CCTTAAATCCCTAAGCAGTAAGGTAACAGG-TTAA-ATTCACAGATCTTAACCCCCTAAGCAGTA
1 CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
* ** *
31681729 GGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTAGGGTAACAAGC
66 GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
31681784 TGACGTTCAT
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
130 74 0.70
131 3 0.03
132 28 0.27
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (132 bp):
CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
GA
Found at i:31682081 original size:130 final size:132
Alignment explanation
Indices: 31681888--31682137 Score: 369
Period size: 130 Copynumber: 1.9 Consensus size: 132
31681878 AACCACCAAG
* * * *
31681888 CCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAGCCCCCTAAGCAGTA
1 CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
* * * *
31681953 GGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
66 GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
31682018 GA
131 GA
*
31682020 CCTTAAATCCCTAAGCAGTAAGGTAACAGG-TTAA-ATTCACAGATCTTAACCCCCTAAGCAGTA
1 CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
* ** *
31682083 GGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTAGGGTAACAAGC
66 GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
31682138 TGACGTTCAT
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
130 74 0.70
131 3 0.03
132 28 0.27
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (132 bp):
CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
GA
Found at i:31682435 original size:130 final size:132
Alignment explanation
Indices: 31682242--31682491 Score: 369
Period size: 130 Copynumber: 1.9 Consensus size: 132
31682232 AACCACCAAG
* * * *
31682242 CCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAGCCCCCTAAGCAGTA
1 CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
* * * *
31682307 GGGAAATAGATCAAAAGCGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
66 GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
31682372 GA
131 GA
*
31682374 CCTTAAATCCCTAAGCAGTAAGGTAACAGG-TTAA-ATTCACAGATCTTAACCCCCTAAGCAGTA
1 CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
* ** *
31682437 GGGAAACAGATCGAGGGCAACGAGCTTTAACTCCCTAAGCAGTAGGGTAACAAGC
66 GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
31682492 TGACGTTCAT
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
130 74 0.70
131 3 0.03
132 28 0.27
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (132 bp):
CCTTAAATCCCTAAGCAGTAAGGTAACAGGCTAAAGATTCACAGATCTTAACCCCCTAAGCAGTA
GGGAAACAGATCAAAAGCAACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACA
GA
Found at i:31685568 original size:6 final size:7
Alignment explanation
Indices: 31685553--31685581 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
31685543 GCCTTAAACT
31685553 AAAATAA
1 AAAATAA
31685560 AAAATAA
1 AAAATAA
31685567 AAAAT-A
1 AAAATAA
31685573 AAAATAA
1 AAAATAA
31685580 AA
1 AA
31685582 CAAAGTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:31685575 original size:13 final size:14
Alignment explanation
Indices: 31685553--31685581 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
31685543 GCCTTAAACT
31685553 AAAATAAAAAATAA
1 AAAATAAAAAATAA
31685567 AAAAT-AAAAATAA
1 AAAATAAAAAATAA
31685580 AA
1 AA
31685582 CAAAGTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAATAAAAAATAA
Found at i:31685728 original size:19 final size:19
Alignment explanation
Indices: 31685704--31685765 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
31685694 AATCTTTAAG
31685704 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
31685723 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
31685742 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
31685763 GAT
1 GAT
31685766 CTTGTAATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
21 9 0.22
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:31688026 original size:30 final size:30
Alignment explanation
Indices: 31687991--31688075 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
31687981 TGGGCTCTAC
31687991 TATTAACTTAATTTAATTACATATATATAA
1 TATTAACTTAATTTAATTACATATATATAA
31688021 TATTAACTTAATTTAA-T-CATATTATATAA
1 TATTAACTTAATTTAATTACATA-TATATAA
*
31688050 TAATTAATTTAATTTAATTACA-ATAT
1 T-ATTAACTTAATTTAATTACATATAT
31688076 TATGTACTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
28 4 0.08
29 9 0.18
30 33 0.66
31 2 0.04
32 2 0.04
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (30 bp):
TATTAACTTAATTTAATTACATATATATAA
Found at i:31688032 original size:25 final size:29
Alignment explanation
Indices: 31687998--31688063 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
31687988 TACTATTAAC
31687998 TTAATTTAATT-A-CATA-TATATAAT-A
1 TTAATTTAATTAATCATATTATATAATAA
*
31688023 TTAACTTAATTTAATCATATTATATAATAA
1 TTAATTTAA-TTAATCATATTATATAATAA
31688053 TTAATTTAATT
1 TTAATTTAATT
31688064 TAATTACAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 8 0.24
26 2 0.06
27 1 0.03
28 4 0.12
29 10 0.29
30 9 0.26
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (29 bp):
TTAATTTAATTAATCATATTATATAATAA
Found at i:31693350 original size:20 final size:19
Alignment explanation
Indices: 31693327--31693370 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
31693317 AAACTAATTT
*
31693327 GAGAA-TAAAAATAAAGAAAC
1 GAGAAGTAAAAA-AAA-AAAA
31693347 GAGAAGTAAAAAAAAAAAA
1 GAGAAGTAAAAAAAAAAAA
31693366 GAGAA
1 GAGAA
31693371 CAACGAGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 8 0.36
21 6 0.27
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (19 bp):
GAGAAGTAAAAAAAAAAAA
Found at i:31694201 original size:45 final size:45
Alignment explanation
Indices: 31694130--31694443 Score: 197
Period size: 45 Copynumber: 6.7 Consensus size: 45
31694120 TTGTAACTTG
* * * * *
31694130 ATCTGCTCTATTGCAACTTTAAGGAGACAAG-GTCTGCTTTCTTCA
1 ATCTGCTCCACTGCAACTTCAAGGAGACAAGATTC-GCTATCTTCA
* * *
31694175 TTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCA
1 ATCTGCTCCACTGCAACTTCAAGGAGACAAGATTCGCTATCTTCA
* * *
31694220 ATCTGCTCCACTGCAACTTCATGGAGATAAGACTT-GTAACTTCCAGCTTCA
1 ATCTGCTCCACTGCAACTTCAAGGAGACAAGA-TTCG---C-T--ATCTTCA
* * *
31694271 ATCTGCTCCACTGTAAC-TCCAGGAAGACAAGATTCACTATCTTCA
1 ATCTGCTCCACTGCAACTTCAAGG-AGACAAGATTCGCTATCTTCA
* * * * *
31694316 GTTTACTCCACTGCAACTTC-AGAGAGATAAGACTT-GTAACTTCCAGCTTCA
1 ATCTGCTCCACTGCAACTTCAAG-GAGACAAGA-TTCG---C-T--ATCTTCA
* * *
31694367 ATCTACTCCACTGTAACTTCAAGGAGACAAGATTCACTATCTTCA
1 ATCTGCTCCACTGCAACTTCAAGGAGACAAGATTCGCTATCTTCA
* * * * *
31694412 ATCTACTTCATTGTAACTTCAAGGAGATAAGA
1 ATCTGCTCCACTGCAACTTCAAGGAGACAAGA
31694444 CTTGTTTTGA
Statistics
Matches: 215, Mismatches: 33, Indels: 42
0.74 0.11 0.14
Matches are distributed among these distances:
45 128 0.60
46 9 0.04
47 2 0.01
48 4 0.02
49 2 0.01
50 8 0.04
51 60 0.28
52 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (45 bp):
ATCTGCTCCACTGCAACTTCAAGGAGACAAGATTCGCTATCTTCA
Found at i:31694303 original size:96 final size:94
Alignment explanation
Indices: 31694170--31694448 Score: 387
Period size: 96 Copynumber: 2.9 Consensus size: 94
31694160 GGTCTGCTTT
* * * * * *
31694170 CTTCATTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAATCTGCTCCACTGCA
1 CTTCAATCTGCTCCACTGTAACTCCA-GGAGACAAGATTCACTATCTTCAATCTACTCCACTGCA
31694235 ACTTCATGGAGATAAGACTTGTAACTTCCAG
65 ACTTCA-GGAGATAAGACTTGTAACTTCCAG
* *
31694266 CTTCAATCTGCTCCACTGTAACTCCAGGAAGACAAGATTCACTATCTTCAGTTTACTCCACTGCA
1 CTTCAATCTGCTCCACTGTAACTCCAGG-AGACAAGATTCACTATCTTCAATCTACTCCACTGCA
31694331 ACTTCAGAGAGATAAGACTTGTAACTTCCAG
65 ACTTCAG-GAGATAAGACTTGTAACTTCCAG
* * * * *
31694362 CTTCAATCTACTCCACTGTAACTTCAAGGAGACAAGATTCACTATCTTCAATCTACTTCATTGTA
1 CTTCAATCTGCTCCACTGTAAC-TCCAGGAGACAAGATTCACTATCTTCAATCTACTCCACTGCA
31694427 ACTTCAAGGAGATAAGACTTGT
65 ACTTC-AGGAGATAAGACTTGT
31694449 TTTGATCTAT
Statistics
Matches: 164, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
95 3 0.02
96 154 0.94
97 7 0.04
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (94 bp):
CTTCAATCTGCTCCACTGTAACTCCAGGAGACAAGATTCACTATCTTCAATCTACTCCACTGCAA
CTTCAGGAGATAAGACTTGTAACTTCCAG
Found at i:31699288 original size:13 final size:13
Alignment explanation
Indices: 31699270--31699303 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
31699260 AAAGTATCCC
31699270 CTTTCCTTGTCGA
1 CTTTCCTTGTCGA
31699283 CTTTCCTTGTCGA
1 CTTTCCTTGTCGA
31699296 CTTTCCTT
1 CTTTCCTT
31699304 CAGAGTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.06, C:0.32, G:0.12, T:0.50
Consensus pattern (13 bp):
CTTTCCTTGTCGA
Found at i:31707801 original size:26 final size:26
Alignment explanation
Indices: 31707772--31707879 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
31707762 TGGTACAAAT
*
31707772 TGATAATGTGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
31707798 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31707824 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
31707850 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31707876 TGAT
1 TGAT
31707880 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:31713930 original size:26 final size:26
Alignment explanation
Indices: 31713873--31713935 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
31713863 TTTTACTGAA
*
31713873 ATACCCCTAAGTATGAAAATTACCATT
1 ATACCCCT-AGTATGAAAATGACCATT
* *
31713900 TTACCCCTAG-ATGCAAAATGACCGTT
1 ATACCCCTAGTATG-AAAATGACCATT
31713926 ATACCCCTAG
1 ATACCCCTAG
31713936 GGTTAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 3 0.10
26 21 0.68
27 7 0.23
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (26 bp):
ATACCCCTAGTATGAAAATGACCATT
Found at i:31714259 original size:19 final size:20
Alignment explanation
Indices: 31714237--31714281 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
31714227 CTGTTTTATT
*
31714237 ATGGGCC-AGCTGTATTAAA
1 ATGGGCCTAACTGTATTAAA
* *
31714256 ATGGGCCTAACTGTGTTAAT
1 ATGGGCCTAACTGTATTAAA
31714276 ATGGGC
1 ATGGGC
31714282 AAGACCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (20 bp):
ATGGGCCTAACTGTATTAAA
Found at i:31714411 original size:28 final size:28
Alignment explanation
Indices: 31714310--31714423 Score: 81
Period size: 28 Copynumber: 3.9 Consensus size: 28
31714300 ACTTGTAATA
* * *
31714310 GGGCTACGGCCCAGACTGATACTGATAT
1 GGGCTAAGGCCCAGATTAATACTGATAT
* *
31714338 GGGCT-AGGCCCAGTATGCTCTGATATTG-TAAT
1 GGGCTAAGGCCCAG-A---T-TAATACTGAT-AT
*
31714370 AGGGCTATGGCCCAGATTAATACTGATAT
1 -GGGCTAAGGCCCAGATTAATACTGATAT
*
31714399 GGGCTAAGGCCCAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAATACTGAT
31714424 TTCTGAATAG
Statistics
Matches: 69, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
27 17 0.25
28 19 0.28
29 8 0.12
30 2 0.03
31 1 0.01
32 9 0.13
33 6 0.09
34 7 0.10
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAATACTGATAT
Found at i:31714444 original size:62 final size:61
Alignment explanation
Indices: 31714302--31714446 Score: 179
Period size: 61 Copynumber: 2.4 Consensus size: 61
31714292 ATATCTCGAC
* * *
31714302 TTGTAATAGGGCTACGGCCCAGACTGATACTGATATGGGCTAGGCCCAGTATGCTCTGATA
1 TTGTAATAGGGCTACGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
* *
31714363 TTGTAATAGGGCTATGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGT-TAACACTGAT-
1 TTGTAATAGGGCTACGGCCCAGACTAATACTGATATGGGCT-AGGCCCAGTAT-ACACTGATA
*
31714424 TTCTGAATAGGGCTTA-GGCCCAG
1 TTGT-AATAGGGC-TACGGCCCAG
31714447 TAAAGCTTGA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
61 42 0.57
62 30 0.41
63 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (61 bp):
TTGTAATAGGGCTACGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
Found at i:31715232 original size:16 final size:17
Alignment explanation
Indices: 31715200--31715232 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
31715190 CATCAAGAAG
31715200 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
31715218 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
31715233 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:31719431 original size:21 final size:21
Alignment explanation
Indices: 31719406--31719449 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
31719396 GAGAGCACTA
*
31719406 TAGTGCTATACAGAGGCATCG
1 TAGTGCTATACAGAGGCACCG
* *
31719427 TAGTGTTTTACAGAGGCACCG
1 TAGTGCTATACAGAGGCACCG
31719448 TA
1 TA
31719450 ATGCAAACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (21 bp):
TAGTGCTATACAGAGGCACCG
Found at i:31721216 original size:47 final size:49
Alignment explanation
Indices: 31721163--31721257 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
31721153 ATGATTTATG
* * * *
31721163 GGTTACAAGATAATGAATTT-A-GGGGTTATGGACATTCATTTTTTAAA
1 GGTTACAAGAGAATAAATTTGAGGGGGTTATGGACATCCATTTATTAAA
* *
31721210 GGTTACAATAGCATAAATTTGAGGGGGTTATGGACATCCATTTATTAA
1 GGTTACAAGAGAATAAATTTGAGGGGGTTATGGACATCCATTTATTAA
31721258 TGAGTTTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
47 16 0.40
48 1 0.03
49 23 0.57
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (49 bp):
GGTTACAAGAGAATAAATTTGAGGGGGTTATGGACATCCATTTATTAAA
Found at i:31722787 original size:30 final size:30
Alignment explanation
Indices: 31722703--31722787 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
31722693 ATAGTACATA
*
31722703 ATAT-TGTAATTAAATTAAATTAATTATTAT
1 ATATATGTAATTAAATTAAGTTAA-TATTAT
31722733 ATAATATG--ATTAAATTAAGTTAATATTAT
1 AT-ATATGTAATTAAATTAAGTTAATATTAT
31722762 ATATATGTAATTAAATTAAGTTAATA
1 ATATATGTAATTAAATTAAGTTAATA
31722788 GTAGAGCCCA
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
28 5 0.10
29 8 0.16
30 33 0.66
31 2 0.04
32 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (30 bp):
ATATATGTAATTAAATTAAGTTAATATTAT
Found at i:31722897 original size:5 final size:5
Alignment explanation
Indices: 31722887--31722924 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
31722877 GTTCCTTACT
*
31722887 TTATA TTATA TTATA TAATA -TATA TATATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA T-TATA TTATA TTA
31722925 CAAGGTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 3 0.10
5 21 0.72
6 5 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
TTATA
Found at i:31725679 original size:35 final size:36
Alignment explanation
Indices: 31725635--31725715 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 36
31725625 AATCATATCT
* *
31725635 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTGTATCATATCTAAAATTGCATATCACA
31725670 TCTAAGATTGTATCATATCTAAAATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAAATTGCATATCACA
*
31725706 TTTAAGATTG
1 TCTAAGATTG
31725716 CATATCATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 28 0.67
36 14 0.33
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (36 bp):
TCTAAGATTGTATCATATCTAAAATTGCATATCACA
Found at i:31725715 original size:19 final size:19
Alignment explanation
Indices: 31725635--31725723 Score: 116
Period size: 17 Copynumber: 4.9 Consensus size: 19
31725625 AATCATATCT
31725635 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
31725652 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
31725670 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
* *
31725687 TCTAAAATTGCATATCACA
1 TCTAAGATTGCATATCATA
*
31725706 TTTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
31725724 TGAATATTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
17 25 0.40
18 16 0.26
19 21 0.34
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:31726388 original size:83 final size:83
Alignment explanation
Indices: 31726279--31726654 Score: 605
Period size: 83 Copynumber: 4.5 Consensus size: 83
31726269 AGCTATATCT
* * *
31726279 TCGATTTGTATTCCTTGTAAGTACAAGGATACTAAACCATCTTG-GATCT-TCTTGAGAACATCT
1 TCGATTTG--TTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAG-TCTGT-TTGAGAACATCT
31726342 GAGAGTCATATCTGCAATGTCC
62 GAGAGTCATATCTGCAATGTCC
* * *
31726364 TCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTTTATTTGAGAACATTTGAGA
1 TCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATCTGAGA
31726429 GTCATATCTGCAATGTCC
66 GTCATATCTGCAATGTCC
*
31726447 TCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGA
1 TCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATCTGAGA
31726512 GTCATATCTGCAATGTCC
66 GTCATATCTGCAATGTCC
* *
31726530 TCGATTTGTTCTTTGTAAGCACAAGGATGCCAAACCATTTTGAGTCTGTTTGAGAACA-CTTGAG
1 TCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATC-TGAG
31726594 AGTCATATCTGCAATGTCC
65 AGTCATATCTGCAATGTCC
31726613 TCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
1 TCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
31726655 GATCTGCTTC
Statistics
Matches: 276, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
83 266 0.96
84 2 0.01
85 8 0.03
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (83 bp):
TCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATCTGAGA
GTCATATCTGCAATGTCC
Found at i:31727174 original size:119 final size:119
Alignment explanation
Indices: 31726590--31727171 Score: 1011
Period size: 119 Copynumber: 4.9 Consensus size: 119
31726580 TGAGAACACT
* * * * *
31726590 TGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
31726655 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTC
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTC
* *
31726709 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTG
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
* *
31726774 GATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGTTATATTTGAGAACGTC
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTC
* *
31726828 TGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTG
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
*
31726893 GATCTGCTTCAATATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTC
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTC
31726947 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
* *
31727012 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATCTTTGAGAACGTT
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTC
*
31727066 TGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
* *
31727131 GATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTACTAT
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
31727172 CTTCGATCTG
Statistics
Matches: 441, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 441 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (119 bp):
TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGTC
Found at i:31728184 original size:21 final size:23
Alignment explanation
Indices: 31728160--31728226 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
31728150 TCACCTTGGC
31728160 CTCTCCA-TTTTTTTCT-TTTTT
1 CTCTCCATTTTTTTTCTCTTTTT
**
31728181 CTCTTTATTTTTTTTCTCTTTTT
1 CTCTCCATTTTTTTTCTCTTTTT
* * *
31728204 CTTTTCTTTTTTTTTCTCTTTTT
1 CTCTCCATTTTTTTTCTCTTTTT
31728227 TTTTTGAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 5 0.13
22 9 0.23
23 25 0.64
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (23 bp):
CTCTCCATTTTTTTTCTCTTTTT
Found at i:31728192 original size:22 final size:23
Alignment explanation
Indices: 31728167--31728227 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
31728157 GGCCTCTCCA
31728167 TTTTTTTCTTTTTTCTCTT-TAT
1 TTTTTTTCTTTTTTCTCTTCTAT
* *
31728189 TTTTTTTCTCTTTTTCTTTTCTTT
1 TTTTTTTCT-TTTTTCTCTTCTAT
31728213 TTTTTTCTCTTTTTT
1 TTTTTT-TCTTTTTT
31728228 TTTTGAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 9 0.26
23 9 0.26
24 13 0.38
25 3 0.09
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTTTCTTTTTTCTCTTCTAT
Found at i:31728208 original size:15 final size:15
Alignment explanation
Indices: 31728169--31728226 Score: 66
Period size: 15 Copynumber: 3.8 Consensus size: 15
31728159 CCTCTCCATT
31728169 TTTTTCTTTTTTCTC
1 TTTTTCTTTTTTCTC
31728184 TTTATT-TTTTTTCTC
1 TTT-TTCTTTTTTCTC
*
31728199 TTTTTCTTTTCTT-TT
1 TTTTTCTTTT-TTCTC
31728214 TTTTTCTCTTTTT
1 TTTTTCT-TTTTT
31728227 TTTTTGAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.05
15 29 0.76
16 7 0.18
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTTTTCTC
Found at i:31728230 original size:22 final size:22
Alignment explanation
Indices: 31728167--31728231 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 22
31728157 GGCCTCTCCA
31728167 TTTTTTTCT-TTTTTCTCTTTAT
1 TTTTTTTCTCTTTTTCT-TTTAT
*
31728189 TTTTTTTCTCTTTTTCTTTTCTT
1 TTTTTTTCTCTTTTTCTTTT-AT
*
31728212 TTTTTTTCTCTTTTTTTTTT
1 TTTTTTTCTCTTTTTCTTTT
31728232 GAAATAGAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
22 12 0.31
23 27 0.69
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.85
Consensus pattern (22 bp):
TTTTTTTCTCTTTTTCTTTTAT
Found at i:31731153 original size:15 final size:15
Alignment explanation
Indices: 31731130--31731159 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31731120 GAAAGATTGG
31731130 CAAAAAAGTGGGCAT
1 CAAAAAAGTGGGCAT
*
31731145 CAAACAAGTGGGCAT
1 CAAAAAAGTGGGCAT
31731160 TCCTGCTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.17, G:0.27, T:0.13
Consensus pattern (15 bp):
CAAAAAAGTGGGCAT
Found at i:31733993 original size:17 final size:17
Alignment explanation
Indices: 31733933--31733993 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
31733923 TAATAAATTT
31733933 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
31733952 AAAA-ATATATT-TAT-A
1 AAAATATA-ATTATATAA
*
31733967 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
31733985 AAAATATAA
1 AAAATATAA
31733994 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
15 4 0.11
16 5 0.14
17 11 0.31
18 9 0.26
19 6 0.17
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:31734509 original size:35 final size:36
Alignment explanation
Indices: 31734465--31734545 Score: 146
Period size: 35 Copynumber: 2.3 Consensus size: 36
31734455 AATCATATCT
*
31734465 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
31734500 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
31734536 TCTAAGATTG
1 TCTAAGATTG
31734546 CATATCATTG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 29 0.66
36 15 0.34
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGTATCATATCTAAGATTGCATATCACA
Found at i:31734538 original size:19 final size:19
Alignment explanation
Indices: 31734465--31734553 Score: 134
Period size: 17 Copynumber: 4.9 Consensus size: 19
31734455 AATCATATCT
31734465 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
31734482 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
31734500 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
31734517 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
31734536 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
31734554 TGCAGATTAT
Statistics
Matches: 65, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
17 26 0.40
18 16 0.25
19 23 0.35
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:31735804 original size:61 final size:61
Alignment explanation
Indices: 31735707--31735829 Score: 219
Period size: 61 Copynumber: 2.0 Consensus size: 61
31735697 CATTGTTTAC
* * *
31735707 AAACTAAAGTTGCTAAACAAGTAAAAAATAAGTTAAGTTATAGTCATTGTACAAAAATTCT
1 AAACTAAAGCTGCTAAACAAGTAAAAAATAAATTAAGTTATAGTCACTGTACAAAAATTCT
31735768 AAACTAAAGCTGCTAAACAAGTAAAAAATAAATTAAGTTATAGTCACTGTACAAAAATTCT
1 AAACTAAAGCTGCTAAACAAGTAAAAAATAAATTAAGTTATAGTCACTGTACAAAAATTCT
31735829 A
1 A
31735830 GAAAATGAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (61 bp):
AAACTAAAGCTGCTAAACAAGTAAAAAATAAATTAAGTTATAGTCACTGTACAAAAATTCT
Found at i:31742087 original size:28 final size:28
Alignment explanation
Indices: 31742024--31742121 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
31742014 ATATTAAGTC
*
31742024 CGCACACTCAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
*
31742051 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
31742079 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATA-AAATCAAACT
31742108 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31742122 CAATCTCATG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 21 0.34
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:31742116 original size:29 final size:28
Alignment explanation
Indices: 31742023--31742121 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
31742013 TATATTAAGT
* *
31742023 CCGCACACTCAGTGCTATAAAATC-AAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
31742050 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
31742078 TCGCACACTTAGTGCTGA-ACAATTTAAAC
1 CCGCACACTTAGTGCT-ATACAA-TCAAAC
31742107 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
31742122 CAATCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
27 21 0.33
28 22 0.35
29 20 0.32
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.24
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:31743659 original size:176 final size:176
Alignment explanation
Indices: 31743363--31743712 Score: 675
Period size: 176 Copynumber: 2.0 Consensus size: 176
31743353 CCATCTCAAA
*
31743363 CATGCATAGATTTTCAAGAATCATTCAATACATACCTCATTCTAGCCATCTTCCAAGCCAAAATC
1 CATGCATAGATTTTCAAGAATCATTCAATACACACCTCATTCTAGCCATCTTCCAAGCCAAAATC
31743428 AAATAACCAAATCTCCCTTCCTTCTCCTCACTCACGGCAATAGCCAAAGAAAAAAAAGATGAACA
66 AAATAACCAAATCTCCCTTCCTTCTCCTCACTCACGGCAATAGCCAAAGAAAAAAAAGATGAACA
31743493 GTCCCTCTTCCCTCCTTATTTTATTCATCTTTTCCTTTTTAATTCC
131 GTCCCTCTTCCCTCCTTATTTTATTCATCTTTTCCTTTTTAATTCC
31743539 CATGCATAGATTTTCAAGAATCATTCAATACACACCTCATTCTAGCCATCTTCCAAGCCAAAATC
1 CATGCATAGATTTTCAAGAATCATTCAATACACACCTCATTCTAGCCATCTTCCAAGCCAAAATC
*
31743604 AAATAACCAAATCTCCCTTCCTTCTCCTCACTCA-GGCAATAGCCAAAGAAAAAAAAGATGAATA
66 AAATAACCAAATCTCCCTTCCTTCTCCTCACTCACGGCAATAGCCAAAGAAAAAAAAGATGAACA
31743668 GTCCCTCTTCCCTCCTTATTTTATTCATCTTTTCCTTTTTAATTC
131 GTCCCTCTTCCCTCCTTATTTTATTCATCTTTTCCTTTTTAATTC
31743713 TTTTCTTTAA
Statistics
Matches: 172, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
175 74 0.43
176 98 0.57
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.32
Consensus pattern (176 bp):
CATGCATAGATTTTCAAGAATCATTCAATACACACCTCATTCTAGCCATCTTCCAAGCCAAAATC
AAATAACCAAATCTCCCTTCCTTCTCCTCACTCACGGCAATAGCCAAAGAAAAAAAAGATGAACA
GTCCCTCTTCCCTCCTTATTTTATTCATCTTTTCCTTTTTAATTCC
Found at i:31749778 original size:30 final size:28
Alignment explanation
Indices: 31749744--31749811 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
31749734 GTTGGACTTG
*
31749744 AATTTTAAAATATGAAAAATAGAAAGACTA
1 AATTTTAAAA-AT-AAAAATACAAAGACTA
*
31749774 AATTTTATGAAATAAAAATACAAAGACTA
1 AATTTTA-AAAATAAAAATACAAAGACTA
31749803 AATTCTTAA
1 AATT-TTAA
31749812 TTTTGTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 19 0.58
30 12 0.36
31 2 0.06
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.29
Consensus pattern (28 bp):
AATTTTAAAAATAAAAATACAAAGACTA
Found at i:31751395 original size:28 final size:28
Alignment explanation
Indices: 31751363--31751417 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
31751353 CTTTTTTCCA
*
31751363 CAACGACTATTTAATTAGCTGTTGGGAT
1 CAACGACTATTTAATTAGCCGTTGGGAT
31751391 CAACGACTATTTAATTAGCCGTTGGGA
1 CAACGACTATTTAATTAGCCGTTGGGA
31751418 CCAATGGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (28 bp):
CAACGACTATTTAATTAGCCGTTGGGAT
Found at i:31754232 original size:46 final size:46
Alignment explanation
Indices: 31754165--31754378 Score: 242
Period size: 46 Copynumber: 4.7 Consensus size: 46
31754155 GTGTGCTCTC
*
31754165 TGATATGAAATGTG-TAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATG-GATAAGACCATGGTTGAAAGATACCATGGCAACA
31754211 TGATATGAAATGGATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGGATAAGACCATGGTTGAAAGATACCATGGCAACA
*** ***
31754257 TGACGGGAAATGGATAAGACCATGGTTG---GATACCATGGCAGGG
1 TGATATGAAATGGATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
31754300 TGACATGAAATGAATAAGACCATGGTTGAAAGATACGATGGCAGCA
1 TGATATGAAATGGATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
31754346 TGATA-GAAAAT-AAGTAAGACCATAGTTGAAAGA
1 TGATATG-AAATGGA-TAAGACCATGGTTGAAAGA
31754379 CACTATGACA
Statistics
Matches: 147, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
43 37 0.25
45 4 0.03
46 106 0.72
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGGATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:31754325 original size:89 final size:90
Alignment explanation
Indices: 31754171--31754348 Score: 261
Period size: 89 Copynumber: 2.0 Consensus size: 90
31754161 TCTCTGATAT
* *
31754171 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGGATAAGACCATGG
1 GAAATGTGTAAGACCATGGTTG--AGATACCATGGCAACGTGACATGAAATGAATAAGACCATGG
31754236 TTGAAAGATACCATGGCAACATGACGG
64 TTGAAAGATACCATGGCAACATGACGG
**
31754263 GAAATG-GATAAGACCATGGTTG-GATACCATGGCAGGGTGACATGAAATGAATAAGACCATGGT
1 GAAATGTG-TAAGACCATGGTTGAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGT
* *
31754326 TGAAAGATACGATGGCAGCATGA
65 TGAAAGATACCATGGCAACATGA
31754349 TAGAAAATAA
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
89 58 0.73
91 1 0.01
92 20 0.25
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.20
Consensus pattern (90 bp):
GAAATGTGTAAGACCATGGTTGAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTT
GAAAGATACCATGGCAACATGACGG
Found at i:31754364 original size:89 final size:89
Alignment explanation
Indices: 31754178--31754374 Score: 252
Period size: 89 Copynumber: 2.2 Consensus size: 89
31754168 TATGAAATGT
* *
31754178 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGGATAAGACCATGGTTGAAAG
1 GTAAGACCATGGTTG--AGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAG
* * *
31754243 ATACCATGGCAACATGACGGGAAATG
64 ATACCATGGCAACATGACAGAAAATA
**
31754269 GATAAGACCATGGTTG-GATACCATGGCAGGGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 G-TAAGACCATGGTTGAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * *
31754333 TACGATGGCAGCATGATAGAAAATAA
65 TACCATGGCAACATGACAGAAAAT-A
*
31754359 GTAAGACCATAGTTGA
1 GTAAGACCATGGTTGA
31754375 AAGACACTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
89 76 0.83
90 1 0.01
91 1 0.01
92 14 0.15
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.20
Consensus pattern (89 bp):
GTAAGACCATGGTTGAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGAT
ACCATGGCAACATGACAGAAAATA
Found at i:31755629 original size:23 final size:22
Alignment explanation
Indices: 31755599--31755641 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
31755589 ATATCCCCAC
31755599 ATGGTGTG-ATGGGTTGGATGGAG
1 ATGGTGTGCA-GGGTT-GATGGAG
31755622 ATGGTGTGCAGGGTTGATGG
1 ATGGTGTGCAGGGTTGATGG
31755642 GCATTACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 13 0.68
24 1 0.05
ACGTcount: A:0.16, C:0.02, G:0.51, T:0.30
Consensus pattern (22 bp):
ATGGTGTGCAGGGTTGATGGAG
Found at i:31780595 original size:16 final size:17
Alignment explanation
Indices: 31780564--31780596 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
31780554 TTCATAAGTA
31780564 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
31780581 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
31780597 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Done.