Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 165 of 210
Found at i:55376028 original size:35 final size:35
Alignment explanation
Indices: 55375989--55376064 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
55375979 ATTTTGAACT
*
55375989 TTAATTAATTAATTAATAA-TTCAAAGAATTATAAA
1 TTAATTAATTAACTAATAATTTCAAA-AATTATAAA
*
55376024 TTAATTAATTAACTAATAATTTTAAAAATTATAAA
1 TTAATTAATTAACTAATAATTTCAAAAATTATAAA
55376059 TTAATT
1 TTAATT
55376065 CTCAAGTCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 33 0.87
36 5 0.13
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (35 bp):
TTAATTAATTAACTAATAATTTCAAAAATTATAAA
Found at i:55376754 original size:12 final size:11
Alignment explanation
Indices: 55376733--55376775 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
55376723 CTAGAAGGCC
55376733 ATTAGTTTTTA
1 ATTAGTTTTTA
55376744 ATTAGGTTTTTA
1 ATTA-GTTTTTA
*
55376756 ATTCAGTTTTAA
1 ATT-AGTTTTTA
*
55376768 AATAGTTT
1 ATTAGTTT
55376776 ATTTTCTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 9 0.32
12 18 0.64
13 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (11 bp):
ATTAGTTTTTA
Found at i:55377889 original size:16 final size:16
Alignment explanation
Indices: 55377868--55377901 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
55377858 TATTGATACC
55377868 AACTTTAAAATTTTAA
1 AACTTTAAAATTTTAA
*
55377884 AACTTTGAAATTTTAA
1 AACTTTAAAATTTTAA
55377900 AA
1 AA
55377902 ATCAATCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (16 bp):
AACTTTAAAATTTTAA
Found at i:55382211 original size:30 final size:30
Alignment explanation
Indices: 55382177--55382243 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
55382167 TTAAGAACTT
* * * *
55382177 ATTTGAGCGTCAATTAAATTTTAAGGGTTC
1 ATTTGAACATCAATTAAAATTTAAGAGTTC
* *
55382207 ATTTGAATATCAATTAAAATTTAAGAGTTT
1 ATTTGAACATCAATTAAAATTTAAGAGTTC
55382237 ATTTGAA
1 ATTTGAA
55382244 TATTTTTAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.42
Consensus pattern (30 bp):
ATTTGAACATCAATTAAAATTTAAGAGTTC
Found at i:55382244 original size:30 final size:30
Alignment explanation
Indices: 55382186--55382246 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
55382176 TATTTGAGCG
* *
55382186 TCAATTAAATTTTAAGGGTTCATTTGAATA
1 TCAATTAAAATTTAAGAGTTCATTTGAATA
*
55382216 TCAATTAAAATTTAAGAGTTTATTTGAATA
1 TCAATTAAAATTTAAGAGTTCATTTGAATA
55382246 T
1 T
55382247 TTTTAAGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.44
Consensus pattern (30 bp):
TCAATTAAAATTTAAGAGTTCATTTGAATA
Found at i:55382587 original size:21 final size:19
Alignment explanation
Indices: 55382554--55382610 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
55382544 CAACAATTAA
55382554 TTTTTTATTTTTTTAAAAT
1 TTTTTTATTTTTTTAAAAT
*
55382573 TTTTTTATATCTTTTTGAAAT
1 TTTTTTAT-T-TTTTTAAAAT
**
55382594 TTTAATATTTTTTTAAA
1 TTTTTTATTTTTTTAAA
55382611 TTCTTTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 15 0.47
20 2 0.06
21 15 0.47
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTTTATTTTTTTAAAAT
Found at i:55382597 original size:29 final size:30
Alignment explanation
Indices: 55382564--55382629 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
55382554 TTTTTTATTT
*
55382564 TTTTAAAATTTTTTTATA-TCTTTTTGAAA
1 TTTTAAAATTTTTTTAAATTCTTTTTGAAA
* *
55382593 TTTTAATATTTTTTTAAATTCTTTTTGAAG
1 TTTTAAAATTTTTTTAAATTCTTTTTGAAA
55382623 TTTTAAA
1 TTTTAAA
55382630 TATTAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (30 bp):
TTTTAAAATTTTTTTAAATTCTTTTTGAAA
Found at i:55384289 original size:16 final size:16
Alignment explanation
Indices: 55384270--55384301 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
55384260 TAGAATAAGG
55384270 TTGTAATGAAATAGAA
1 TTGTAATGAAATAGAA
*
55384286 TTGTAATGTAATAGAA
1 TTGTAATGAAATAGAA
55384302 ATCTAATCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
TTGTAATGAAATAGAA
Found at i:55384579 original size:15 final size:15
Alignment explanation
Indices: 55384568--55384632 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 15
55384558 ATTAAATACA
55384568 ATATAATAAAATAAT
1 ATATAATAAAATAAT
55384583 ATATAATTTAAAA-AA-
1 ATATAA--TAAAATAAT
*
55384598 ATCATAAT-ATATAAT
1 AT-ATAATAAAATAAT
55384613 AT-T-ATAAAAATAAT
1 ATATAAT-AAAATAAT
55384627 ATATAA
1 ATATAA
55384633 CCTACTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 17
0.67 0.03 0.29
Matches are distributed among these distances:
12 2 0.05
13 3 0.08
14 11 0.28
15 11 0.28
16 7 0.18
17 5 0.13
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
ATATAATAAAATAAT
Found at i:55384605 original size:23 final size:24
Alignment explanation
Indices: 55384577--55384631 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
55384567 AATATAATAA
55384577 AATAATATATAAT-TTAAAAAAAT
1 AATAATATATAATATTAAAAAAAT
* *
55384600 CATAATATATAATATTATAAAAAT
1 AATAATATATAATATTAAAAAAAT
55384624 AAT-ATATA
1 AATAATATA
55384632 ACCTACTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 17 0.61
24 11 0.39
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AATAATATATAATATTAAAAAAAT
Found at i:55385829 original size:16 final size:16
Alignment explanation
Indices: 55385808--55385843 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
55385798 GATAGTATGC
55385808 ACAAACAACAAATTTA
1 ACAAACAACAAATTTA
55385824 ACAAACAACAAATTTA
1 ACAAACAACAAATTTA
55385840 ACAA
1 ACAA
55385844 TCTCATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.64, C:0.19, G:0.00, T:0.17
Consensus pattern (16 bp):
ACAAACAACAAATTTA
Found at i:55389115 original size:13 final size:13
Alignment explanation
Indices: 55389067--55389122 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
55389057 TGGGTTGAGA
*
55389067 AAATTATTTAATT
1 AAATTAATTAATT
* *
55389080 GAAATT-TTTCATT
1 -AAATTAATTAATT
* *
55389093 AATTTGATTAATT
1 AAATTAATTAATT
55389106 AAATTAATTAATT
1 AAATTAATTAATT
55389119 AAAT
1 AAAT
55389123 ATTATTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
12 4 0.11
13 26 0.74
14 5 0.14
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (13 bp):
AAATTAATTAATT
Found at i:55394221 original size:29 final size:29
Alignment explanation
Indices: 55394189--55394473 Score: 164
Period size: 29 Copynumber: 9.8 Consensus size: 29
55394179 CGATGGTTGT
*
55394189 AACCGTCCCTTTTCATATTCGATGGCCGA
1 AACCATCCCTTTTCATATTCGATGGCCGA
* * *
55394218 AACCATCCCTTTTCATTAATCGATGGTCGT
1 AACCATCCCTTTTCA-TATTCGATGGCCGA
* * **
55394248 CACCATCCCTTTTCATA-GCTGATGG-TTA
1 AACCATCCCTTTTCATATTC-GATGGCCGA
* * * * *
55394276 TCACCATGCCTTTTCATAATCGATAGTCGA
1 -AACCATCCCTTTTCATATTCGATGGCCGA
* * * * *
55394306 AGCTATCCCTTTTCACATTCGATAGCCCA
1 AACCATCCCTTTTCATATTCGATGGCCGA
* * * *
55394335 AGCTATCCCTTTTCATATTCGATGGTCGC
1 AACCATCCCTTTTCATATTCGATGGCCGA
* * *
55394364 CACCATCCCTTTTCATAATT-GATGGTCGT
1 AACCATCCCTTTTCAT-ATTCGATGGCCGA
* * * *
55394393 CACCATCCCTTCTCATAATT-GATAGCTGA
1 AACCATCCCTTTTCAT-ATTCGATGGCCGA
*** * * *
55394422 AGTTATCCCTTTTCACATTCGATAGCAGA
1 AACCATCCCTTTTCATATTCGATGGCCGA
* *
55394451 AGCTATCCCTTTTCATATTCGAT
1 AACCATCCCTTTTCATATTCGAT
55394474 AGCAGAAGCT
Statistics
Matches: 204, Mismatches: 45, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
28 4 0.02
29 170 0.83
30 30 0.15
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.35
Consensus pattern (29 bp):
AACCATCCCTTTTCATATTCGATGGCCGA
Found at i:55394368 original size:87 final size:87
Alignment explanation
Indices: 55394277--55394444 Score: 205
Period size: 87 Copynumber: 1.9 Consensus size: 87
55394267 TGATGGTTAT
* * * *
55394277 CACCATGCCTTTTCATAATCGATAGTCG-AAGCTATCCCTTTTCA-CATTCGATAGCCCAAGCTA
1 CACCATCCCTTTTCATAATCGATAGTCGTAA-CCATCCCTTCTCATAATT-GATAGCCCAAGCTA
*
55394340 TCCCTTTTCATATTCGATGGTCGC
64 TCCCTTTTCACATTCGATGGTCGC
* * * ** *
55394364 CACCATCCCTTTTCATAATTGATGGTCGTCACCATCCCTTCTCATAATTGATAGCTGAAGTTATC
1 CACCATCCCTTTTCATAATCGATAGTCGTAACCATCCCTTCTCATAATTGATAGCCCAAGCTATC
55394429 CCTTTTCACATTCGAT
66 CCTTTTCACATTCGAT
55394445 AGCAGAAGCT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
87 64 0.94
88 4 0.06
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.35
Consensus pattern (87 bp):
CACCATCCCTTTTCATAATCGATAGTCGTAACCATCCCTTCTCATAATTGATAGCCCAAGCTATC
CCTTTTCACATTCGATGGTCGC
Found at i:55394409 original size:116 final size:116
Alignment explanation
Indices: 55394194--55394473 Score: 391
Period size: 116 Copynumber: 2.4 Consensus size: 116
55394184 GTTGTAACCG
* * * * * *
55394194 TCCCTTTTCATATTCGATGGCCGAAACCATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTT
1 TCCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCA-TATTCGATGGTCGCCACCATCCCTT
* * * *
55394259 TTCATAGCTGATGGTTATCACCATGCCTTTTCATAATCGATAG-TCGAAGCTA
65 TTCATAACTGATGGTCATCACCATCCCTTCTCATAATCGATAGCT-GAAGCTA
*
55394311 TCCCTTTTCACATTCGATAGCCCAAGCTATCCCTTTTCATATTCGATGGTCGCCACCATCCCTTT
1 TCCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCATATTCGATGGTCGCCACCATCCCTTT
* * * *
55394376 TCATAATTGATGGTCGTCACCATCCCTTCTCATAATTGATAGCTGAAGTTA
66 TCATAACTGATGGTCATCACCATCCCTTCTCATAATCGATAGCTGAAGCTA
*
55394427 TCCCTTTTCACATTCGATAGCAGAAGCTATCCCTTTTCATATTCGAT
1 TCCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCATATTCGAT
55394474 AGCAGAAGCT
Statistics
Matches: 145, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
116 110 0.76
117 35 0.24
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (116 bp):
TCCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCATATTCGATGGTCGCCACCATCCCTTT
TCATAACTGATGGTCATCACCATCCCTTCTCATAATCGATAGCTGAAGCTA
Found at i:55394474 original size:29 final size:28
Alignment explanation
Indices: 55394284--55394495 Score: 180
Period size: 29 Copynumber: 7.3 Consensus size: 28
55394274 TATCACCATG
*
55394284 CCTTTTCATAATCGATAGTCGAAGCTATC
1 CCTTTTCATATTCGATAG-CGAAGCTATC
* *
55394313 CCTTTTCACATTCGATAGCCCAAGCTATC
1 CCTTTTCATATTCGATAG-CGAAGCTATC
* * *
55394342 CCTTTTCATATTCGATGGTCGCCA-CCATC
1 CCTTTTCATATTCGATAG-CG-AAGCTATC
* * *
55394371 CCTTTTCATAATT-GATGGTCGTCA-CCATC
1 CCTTTTCAT-ATTCGATAG-CG-AAGCTATC
* *
55394400 CCTTCTCATAATT-GATAGCTGAAGTTATC
1 CCTTTTCAT-ATTCGATAGC-GAAGCTATC
*
55394429 CCTTTTCACATTCGATAGCAGAAGCTATC
1 CCTTTTCATATTCGATAGC-GAAGCTATC
55394458 CCTTTTCATATTCGATAGCAGAAGCTATC
1 CCTTTTCATATTCGATAGC-GAAGCTATC
*
55394487 TCTTTTCAT
1 CCTTTTCAT
55394496 TATCTGAGGT
Statistics
Matches: 156, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
28 5 0.03
29 147 0.94
30 4 0.03
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (28 bp):
CCTTTTCATATTCGATAGCGAAGCTATC
Found at i:55396699 original size:15 final size:15
Alignment explanation
Indices: 55396681--55396713 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
55396671 AACAAAGCAA
55396681 AGCAGAACGGAACAG
1 AGCAGAACGGAACAG
*
55396696 AGCAGAACTGAACAG
1 AGCAGAACGGAACAG
55396711 AGC
1 AGC
55396714 TACGCAGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.21, G:0.30, T:0.03
Consensus pattern (15 bp):
AGCAGAACGGAACAG
Found at i:55401736 original size:45 final size:45
Alignment explanation
Indices: 55401682--55401860 Score: 358
Period size: 45 Copynumber: 4.0 Consensus size: 45
55401672 TCATAATGAG
55401682 AAGGAATTGGTGAAAGTATGCATCCAAAGAATGTTTAATGTGTAC
1 AAGGAATTGGTGAAAGTATGCATCCAAAGAATGTTTAATGTGTAC
55401727 AAGGAATTGGTGAAAGTATGCATCCAAAGAATGTTTAATGTGTAC
1 AAGGAATTGGTGAAAGTATGCATCCAAAGAATGTTTAATGTGTAC
55401772 AAGGAATTGGTGAAAGTATGCATCCAAAGAATGTTTAATGTGTAC
1 AAGGAATTGGTGAAAGTATGCATCCAAAGAATGTTTAATGTGTAC
55401817 AAGGAATTGGTGAAAGTATGCATCCAAAGAATGTTTAATGTGTA
1 AAGGAATTGGTGAAAGTATGCATCCAAAGAATGTTTAATGTGTA
55401861 TAGGGTGCAT
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (45 bp):
AAGGAATTGGTGAAAGTATGCATCCAAAGAATGTTTAATGTGTAC
Found at i:55404634 original size:44 final size:44
Alignment explanation
Indices: 55404551--55404663 Score: 138
Period size: 44 Copynumber: 2.6 Consensus size: 44
55404541 GCAGATTATT
* * * * *
55404551 TTATATCCCTTGAGGGATTAATTCGTATGCTTTGAGGGATTGTG
1 TTATATCCCTTGAGGGATTAATTTGTATCCCTAGAGGGATTGAG
* *
55404595 TTATATACCATGAGGGATTAATTTGTATCCCCTAG-GGGATTGAG
1 TTATATCCCTTGAGGGATTAATTTGTAT-CCCTAGAGGGATTGAG
*
55404639 TTATATCCCTTGAAGGATTAATTTG
1 TTATATCCCTTGAGGGATTAATTTG
55404664 AGTATACTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 55 0.95
45 3 0.05
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (44 bp):
TTATATCCCTTGAGGGATTAATTTGTATCCCTAGAGGGATTGAG
Found at i:55406825 original size:16 final size:16
Alignment explanation
Indices: 55406804--55406835 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
55406794 AAGGCTTTAT
55406804 TTATAATTGAGGTTAA
1 TTATAATTGAGGTTAA
55406820 TTATAATTGAGGTTAA
1 TTATAATTGAGGTTAA
55406836 AAAGTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (16 bp):
TTATAATTGAGGTTAA
Found at i:55412637 original size:6 final size:6
Alignment explanation
Indices: 55412626--55412659 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
55412616 TTCCCTAGAG
55412626 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT -TTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTT
55412660 CTGCTTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
CTTTTT
Found at i:55412661 original size:22 final size:23
Alignment explanation
Indices: 55412628--55412671 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
55412618 CCCTAGAGCT
**
55412628 TTTTCTTTTTCTTTTTCTTTTTC
1 TTTTCTTTTTCTGCTTCTTTTTC
55412651 TTTT-TTTTTCTGCTTCTTTTT
1 TTTTCTTTTTCTGCTTCTTTTT
55412672 GAGCTTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTTCTTTTTCTGCTTCTTTTTC
Found at i:55418939 original size:12 final size:12
Alignment explanation
Indices: 55418906--55418945 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
55418896 GTCTTTCACT
55418906 TATATACATTATA
1 TATATACA-TATA
* *
55418919 CATACACATATA
1 TATATACATATA
55418931 TATATACATATA
1 TATATACATATA
55418943 TAT
1 TAT
55418946 GTCCAATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 17 0.74
13 6 0.26
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (12 bp):
TATATACATATA
Found at i:55419417 original size:31 final size:31
Alignment explanation
Indices: 55419379--55419439 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
55419369 GGCCCATTTT
55419379 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATATTT-AAAAATTAAAAAAAG
*
55419410 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAAA
55419440 NNNNNNNNNN
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (31 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAAG
Found at i:55419419 original size:11 final size:11
Alignment explanation
Indices: 55419379--55419430 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 11
55419369 GGCCCATTTT
55419379 TATTTT-AAAA
1 TATTTTAAAAA
55419389 -ATTTTAAAAA
1 TATTTTAAAAA
**
55419399 -ATTAAAAAAA
1 TATTTTAAAAA
55419409 GTATTTTAAAAA
1 -TATTTTAAAAA
55419421 TATTTTAAAA
1 TATTTTAAAA
55419431 TTAAAAAAAN
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 5 0.14
10 12 0.34
11 10 0.29
12 8 0.23
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:55420024 original size:13 final size:13
Alignment explanation
Indices: 55420006--55420030 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55419996 ACACTCAAAA
55420006 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
55420019 TTTTCAAAAGCA
1 TTTTCAAAAGCA
55420031 ATGAAGAACT
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:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:55421560 original size:94 final size:94
Alignment explanation
Indices: 55421399--55421681 Score: 557
Period size: 94 Copynumber: 3.0 Consensus size: 94
55421389 AGAGTCATTG
55421399 CTAAATTTGGCGGTATGTGTGAGCTGTGGATGAAGTTTAATGCTTGGAATATGCCTTGAGCGACG
1 CTAAATTTGGCGGTATGTGTGAGCTGTGGATGAAGTTTAATGCTTGGAATATGCCTTGAGCGACG
55421464 CAAGGTAACCAACTTAAACCATGATTTTA
66 CAAGGTAACCAACTTAAACCATGATTTTA
55421493 CTAAATTTGGCGGTATGTGTGAGCTGTGGATGAAGTTTAATGCTTGGAATATGCCTTGAGCGACG
1 CTAAATTTGGCGGTATGTGTGAGCTGTGGATGAAGTTTAATGCTTGGAATATGCCTTGAGCGACG
55421558 CAAGGTAACCAACTTAAACCATGATTTTA
66 CAAGGTAACCAACTTAAACCATGATTTTA
55421587 CTAAATTTGGCGGTATGTGTGAGCTGTGGATGAAGTTTAATGCTTGGAATATGCCTTGAGCGACG
1 CTAAATTTGGCGGTATGTGTGAGCTGTGGATGAAGTTTAATGCTTGGAATATGCCTTGAGCGACG
*
55421652 CAAGCTAACCAACTTAAACCATGATTTTA
66 CAAGGTAACCAACTTAAACCATGATTTTA
55421681 C
1 C
55421682 AAAGTCCATT
Statistics
Matches: 188, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 188 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (94 bp):
CTAAATTTGGCGGTATGTGTGAGCTGTGGATGAAGTTTAATGCTTGGAATATGCCTTGAGCGACG
CAAGGTAACCAACTTAAACCATGATTTTA
Found at i:55421831 original size:16 final size:16
Alignment explanation
Indices: 55421787--55421838 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
55421777 TGGTTCGCTG
*
55421787 TAATGGAATAG-AGAT
1 TAATGGAATAGAAGCT
55421802 GTAATGGAATAGAAGCT
1 -TAATGGAATAGAAGCT
*
55421819 TAATGGAATAGAAGCG
1 TAATGGAATAGAAGCT
55421835 TAAT
1 TAAT
55421839 AGGTAATCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 30 0.91
17 3 0.09
ACGTcount: A:0.44, C:0.04, G:0.27, T:0.25
Consensus pattern (16 bp):
TAATGGAATAGAAGCT
Found at i:55422094 original size:18 final size:18
Alignment explanation
Indices: 55422071--55422204 Score: 81
Period size: 18 Copynumber: 7.9 Consensus size: 18
55422061 TTATTATTAA
55422071 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
55422089 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
55422106 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
55422124 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* * *
55422140 ATAAAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
55422159 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
*
55422171 ATATAATTTAACAAAAAT
1 ATATAATTTAATAAAAAT
55422189 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
55422205 TTCTTAGTAT
Statistics
Matches: 86, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
12 1 0.01
13 5 0.06
14 2 0.02
15 3 0.03
16 8 0.09
17 20 0.23
18 42 0.49
19 5 0.06
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:55427075 original size:60 final size:60
Alignment explanation
Indices: 55427007--55427129 Score: 246
Period size: 60 Copynumber: 2.0 Consensus size: 60
55426997 CACCATTTTC
55427007 TAATTTTTATACAATTAATATTTAAGCAATAGGATGGATCTACTTACATAATGCAAAAAA
1 TAATTTTTATACAATTAATATTTAAGCAATAGGATGGATCTACTTACATAATGCAAAAAA
55427067 TAATTTTTATACAATTAATATTTAAGCAATAGGATGGATCTACTTACATAATGCAAAAAA
1 TAATTTTTATACAATTAATATTTAAGCAATAGGATGGATCTACTTACATAATGCAAAAAA
55427127 TAA
1 TAA
55427130 AATAGTTTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.35
Consensus pattern (60 bp):
TAATTTTTATACAATTAATATTTAAGCAATAGGATGGATCTACTTACATAATGCAAAAAA
Found at i:55435318 original size:18 final size:18
Alignment explanation
Indices: 55435295--55435331 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
55435285 TGAGTTTTCA
*
55435295 AATTCGAATAACCCGAAT
1 AATTCGAATAAACCGAAT
55435313 AATTCGAATAAACCGAAT
1 AATTCGAATAAACCGAAT
55435331 A
1 A
55435332 CCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.22
Consensus pattern (18 bp):
AATTCGAATAAACCGAAT
Found at i:55435642 original size:17 final size:17
Alignment explanation
Indices: 55435586--55435644 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
55435576 TATATTCTAC
*
55435586 TATTTATATTATTAAAT
1 TATTTATATTATTGAAT
* *
55435603 TAAATTTCATATT-TTGTAC
1 T--ATTT-ATATTATTGAAT
55435622 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
55435639 TATTTA
1 TATTTA
55435645 ATCATATTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 5 0.15
17 15 0.45
19 8 0.24
20 5 0.15
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (17 bp):
TATTTATATTATTGAAT
Found at i:55435717 original size:19 final size:19
Alignment explanation
Indices: 55435669--55435717 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
55435659 TTATAAATTT
* *
55435669 ATGTTAAAATTGAATTATTG
1 ATGTTAAAA-TAAATTATTC
* *
55435689 ATGATGAAATAAATTATTC
1 ATGTTAAAATAAATTATTC
55435708 ATGTTAAAAT
1 ATGTTAAAAT
55435718 TTTATACTGG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.41
Consensus pattern (19 bp):
ATGTTAAAATAAATTATTC
Found at i:55435781 original size:36 final size:37
Alignment explanation
Indices: 55435725--55435798 Score: 141
Period size: 36 Copynumber: 2.0 Consensus size: 37
55435715 AATTTTATAC
55435725 TGGTATCAATTTCATATTTTATCTTTAAAATAACTTT
1 TGGTATCAATTTCATATTTTATCTTTAAAATAACTTT
55435762 TGGTATCAA-TTCATATTTTATCTTTAAAATAACTTT
1 TGGTATCAATTTCATATTTTATCTTTAAAATAACTTT
55435798 T
1 T
55435799 ATTAAAAATC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 28 0.76
37 9 0.24
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.51
Consensus pattern (37 bp):
TGGTATCAATTTCATATTTTATCTTTAAAATAACTTT
Found at i:55437179 original size:3 final size:3
Alignment explanation
Indices: 55437171--55437231 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
55437161 AGGATAAATG
55437171 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
55437219 AGA AGA AGA AGA A
1 AGA AGA AGA AGA A
55437232 AGAGATTTTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:55438283 original size:18 final size:18
Alignment explanation
Indices: 55438256--55438293 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
55438246 GCAAGGCTTT
55438256 AAGAGCCCTTGAAAAGTG
1 AAGAGCCCTTGAAAAGTG
* *
55438274 AAGAGTCCTTGAAATGTG
1 AAGAGCCCTTGAAAAGTG
55438292 AA
1 AA
55438294 TTCCCTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.21
Consensus pattern (18 bp):
AAGAGCCCTTGAAAAGTG
Found at i:55442284 original size:17 final size:18
Alignment explanation
Indices: 55442251--55442291 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
55442241 CATACCATAG
55442251 CCAGATACAAGTAGAATA
1 CCAGATACAAGTAGAATA
*
55442269 CCAGATATAA-TAGAATA
1 CCAGATACAAGTAGAATA
*
55442286 ACAGAT
1 CCAGAT
55442292 TCCAGAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.20
Consensus pattern (18 bp):
CCAGATACAAGTAGAATA
Found at i:55454260 original size:33 final size:33
Alignment explanation
Indices: 55454218--55454372 Score: 133
Period size: 33 Copynumber: 4.6 Consensus size: 33
55454208 AAGATACGGT
55454218 GGAATCAACACTTAGCAACCACCAATGAATAGG
1 GGAATCAACACTTAGCAACCACCAATGAATAGG
*
55454251 GGAATCAACACTTAGCAACC-CC--T---TGGG
1 GGAATCAACACTTAGCAACCACCAATGAATAGG
* * * *
55454278 GGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGAT
1 GGAATCAACACTTAGCAA-CCAC--C-AA--T-GAATA-G-G
55454320 GGAATCAACACTTAGCAACCACCAATGAATAGG
1 GGAATCAACACTTAGCAACCACCAATGAATAGG
*
55454353 GGAATCAGCACTTAGCAACC
1 GGAATCAACACTTAGCAACC
55454373 CCCTCTTTAT
Statistics
Matches: 98, Mismatches: 9, Indels: 30
0.72 0.07 0.22
Matches are distributed among these distances:
27 20 0.20
28 2 0.02
29 1 0.01
30 1 0.01
31 1 0.01
32 2 0.02
33 39 0.40
34 1 0.01
35 4 0.04
36 2 0.02
38 2 0.02
39 1 0.01
40 1 0.01
41 4 0.04
42 17 0.17
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.18
Consensus pattern (33 bp):
GGAATCAACACTTAGCAACCACCAATGAATAGG
Found at i:55454342 original size:102 final size:102
Alignment explanation
Indices: 55454161--55454374 Score: 376
Period size: 102 Copynumber: 2.1 Consensus size: 102
55454151 GAATCAGTAT
* * *
55454161 TTAGC-ACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCA
1 TTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGATGGAATCA
55454225 ACACTTAGCAACCACCAATGAATAGGGGAATCAACAC
66 ACACTTAGCAACCACCAATGAATAGGGGAATCAACAC
*
55454262 TTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGATGGAATCA
1 TTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGATGGAATCA
*
55454327 ACACTTAGCAACCACCAATGAATAGGGGAATCAGCAC
66 ACACTTAGCAACCACCAATGAATAGGGGAATCAACAC
55454364 TTAGCAACCCC
1 TTAGCAACCCC
55454375 CTCTTTATTC
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
101 5 0.05
102 102 0.95
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.19
Consensus pattern (102 bp):
TTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGATGGAATCA
ACACTTAGCAACCACCAATGAATAGGGGAATCAACAC
Found at i:55455978 original size:18 final size:18
Alignment explanation
Indices: 55455955--55455997 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
55455945 TGCCCCATAG
55455955 CTAGATACAAAAAGAATA
1 CTAGATACAAAAAGAATA
*
55455973 CTAGATA-TAAAAGAATA
1 CTAGATACAAAAAGAATA
*
55455990 ATAGATAC
1 CTAGATAC
55455998 CAGAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (18 bp):
CTAGATACAAAAAGAATA
Found at i:55458645 original size:21 final size:20
Alignment explanation
Indices: 55458604--55458652 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
55458594 ATAAATAAAA
*
55458604 TCATTCATGTCAATTCCCTG
1 TCATTCATGACAATTCCCTG
**
55458624 TCATTCACTGACAATTTTCTG
1 TCATTCA-TGACAATTCCCTG
55458645 TCATTCAT
1 TCATTCAT
55458653 AACTTCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.22, C:0.27, G:0.08, T:0.43
Consensus pattern (20 bp):
TCATTCATGACAATTCCCTG
Found at i:55458870 original size:21 final size:21
Alignment explanation
Indices: 55458825--55458882 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
55458815 TGAATATGCC
* *
55458825 AACAGAAGCTCG-AA-AACTG
1 AACAGAAGCTCGTAAGAGCTA
55458844 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
55458865 AACAGAAGCTCGTAAGAG
1 AACAGAAGCTCGTAAGAG
55458883 TGATCCATCC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.34
20 2 0.06
21 21 0.60
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTA
Found at i:55459086 original size:39 final size:39
Alignment explanation
Indices: 55459032--55459110 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
55459022 CGTTCAATTC
55459032 AAATCAAACATCCAATTCAATATTACAATTCCAACAATA
1 AAATCAAACATCCAATTCAATATTACAATTCCAACAATA
* * *
55459071 AAATCGAATATCCAATTCAATATTATAATTCCAACAATA
1 AAATCAAACATCCAATTCAATATTACAATTCCAACAATA
55459110 A
1 A
55459111 TTCATTTCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.51, C:0.20, G:0.01, T:0.28
Consensus pattern (39 bp):
AAATCAAACATCCAATTCAATATTACAATTCCAACAATA
Found at i:55460791 original size:30 final size:30
Alignment explanation
Indices: 55460755--55460831 Score: 136
Period size: 30 Copynumber: 2.6 Consensus size: 30
55460745 TCTTCATATG
55460755 AAAACTTGATGTATGTGCCTGGCATAACAA
1 AAAACTTGATGTATGTGCCTGGCATAACAA
*
55460785 AAAACTTGATGTATGTGCCTGGTATAACAA
1 AAAACTTGATGTATGTGCCTGGCATAACAA
*
55460815 AAAACTTGATGTCTGTG
1 AAAACTTGATGTATGTG
55460832 TCACAATTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (30 bp):
AAAACTTGATGTATGTGCCTGGCATAACAA
Found at i:55463953 original size:14 final size:15
Alignment explanation
Indices: 55463920--55463953 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
55463910 TTAAGACTGT
55463920 TAGTTAGTTAGCTAG
1 TAGTTAGTTAGCTAG
55463935 T-GTTAGTTAGCTA-
1 TAGTTAGTTAGCTAG
55463948 TAGTTA
1 TAGTTA
55463954 TTTATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 16 0.89
15 1 0.06
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (15 bp):
TAGTTAGTTAGCTAG
Found at i:55464341 original size:3 final size:3
Alignment explanation
Indices: 55464333--55464393 Score: 104
Period size: 3 Copynumber: 20.3 Consensus size: 3
55464323 AACACATAGT
*
55464333 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAT AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
*
55464381 AAA AAC AAC AAC A
1 AAC AAC AAC AAC A
55464394 CACCCATGCC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.69, C:0.30, G:0.00, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:55466509 original size:34 final size:35
Alignment explanation
Indices: 55466446--55466512 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
55466436 CAAAATCTAA
* *
55466446 AACAATAGTAATAAATAATTAAATTAAACTAAAAT
1 AACAATAATAATAAATAATTAAATAAAACTAAAAT
* *
55466481 AACAATAATAA-AATTAATTAACTAAAACTAAA
1 AACAATAATAATAAATAATTAAATAAAACTAAA
55466513 CCTAAGTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 18 0.64
35 10 0.36
ACGTcount: A:0.64, C:0.07, G:0.01, T:0.27
Consensus pattern (35 bp):
AACAATAATAATAAATAATTAAATAAAACTAAAAT
Found at i:55468945 original size:13 final size:14
Alignment explanation
Indices: 55468924--55469005 Score: 69
Period size: 13 Copynumber: 5.6 Consensus size: 14
55468914 CCCTGAATGG
55468924 TTTATTTTTAGTGT
1 TTTATTTTTAGTGT
*
55468938 TTTA-TTTTAGAGT
1 TTTATTTTTAGTGT
55468951 TTTACAATTTTTAGTGT
1 TTT---ATTTTTAGTGT
*
55468968 TTTA-TGTTAGTGT
1 TTTATTTTTAGTGT
*
55468981 TTTACAATTTTTAGTAT
1 TTT---ATTTTTAGTGT
55468998 TTTATTTT
1 TTTATTTT
55469006 AGTCCCTGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
13 22 0.40
14 10 0.18
16 2 0.04
17 21 0.38
ACGTcount: A:0.21, C:0.02, G:0.12, T:0.65
Consensus pattern (14 bp):
TTTATTTTTAGTGT
Found at i:55469008 original size:30 final size:30
Alignment explanation
Indices: 55468927--55469008 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
55468917 TGAATGGTTT
*
55468927 ATTTTTAGTGTTTTATTTTAGAGTTTTACA
1 ATTTTTAGTGTTTTATTTTAGTGTTTTACA
*
55468957 ATTTTTAGTGTTTTATGTTAGTGTTTTACA
1 ATTTTTAGTGTTTTATTTTAGTGTTTTACA
*
55468987 ATTTTTAGTATTTTATTTTAGT
1 ATTTTTAGTGTTTTATTTTAGT
55469009 CCCTGAATGA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.22, C:0.02, G:0.13, T:0.62
Consensus pattern (30 bp):
ATTTTTAGTGTTTTATTTTAGTGTTTTACA
Found at i:55471054 original size:45 final size:45
Alignment explanation
Indices: 55470990--55471112 Score: 165
Period size: 45 Copynumber: 2.7 Consensus size: 45
55470980 TACTGAGTAT
**
55470990 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACTGGGCAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACTGGAAAC
** * *
55471035 CATTGATTATAAAGGTGGTTGCTATGTGAGGACTCCACTGGAAAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACTGGAAAC
** *
55471080 CATTGAAAATAAATGTGGTTGCTATGTGCTGAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGAT
55471113 CGACCGTGTA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (45 bp):
CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACTGGAAAC
Found at i:55474801 original size:543 final size:543
Alignment explanation
Indices: 55473774--55474821 Score: 2069
Period size: 543 Copynumber: 1.9 Consensus size: 543
55473764 TTGCAAGTTG
55473774 AGAATTAAAGAGGTTGAGCTTAAATCATTTTTTTTTGTTTTTTGTACTATGTTGATCTTAGTGAA
1 AGAATTAAAGAGGTTGAGCTTAAATCATTTTTTTTTGTTTTTTGTACTATGTTGATCTTAGTGAA
55473839 TTGATTCTCTCAGTAAGACTCCACCGGCATAGGTTAAGTCTAAACCACGTTAACAATCTTTTTGT
66 TTGATTCTCTCAGTAAGACTCCACCGGCATAGGTTAAGTCTAAACCACGTTAACAATCTTTTTGT
55473904 GCAAAATTTTCTTGTTGTTGTTTCAATCGTTATGGCCACAACTTCCACCACAACAGATGTTCTTT
131 GCAAAATTTTCTTGTTGTTGTTTCAATCGTTATGGCCACAACTTCCACCACAACAGATGTTCTTT
55473969 CAAAATAGCTACATCAATTGAATGTTAGCGACATAACAATGAAGGGACCAACATAAGTGATGTCA
196 CAAAATAGCTACATCAATTGAATGTTAGCGACATAACAATGAAGGGACCAACATAAGTGATGTCA
55474034 CAAATATTAGTGACCAGTTTTAAAGATTTTGTACTTGAGTGACCAAAATAAAAAAAACCCCATAA
261 CAAATATTAGTGACCAGTTTTAAAGATTTTGTACTTGAGTGACCAAAATAAAAAAAACCCCATAA
55474099 TAATTGGGTGACTATTGAAGTAGTTTATCCATAATAATATTTTGTAACAAATTAATAACATATAT
326 TAATTGGGTGACTATTGAAGTAGTTTATCCATAATAATATTTTGTAACAAATTAATAACATATAT
55474164 AAATGTAGTAAAAAATAGTTTATAATGCAAGAATAAAAAAATATTATGAATAAAATAATAAATAA
391 AAATGTAGTAAAAAATAGTTTATAATGCAAGAATAAAAAAATATTATGAATAAAATAATAAATAA
* * *
55474229 TATATAACATAAAAATAAATAATTGATAATAGAGTTATATATTGTTTTTTTTTTTTTTTTTTTTT
456 TATATAACATAAAAATAAATAATTGATAATAGAGTAAAATAGTGTTTTTTTTTTTTTTTTTTTTT
55474294 TAAGTTATATAGCTTATTAAGTA
521 TAAGTTATATAGCTTATTAAGTA
55474317 AGAATTAAAGAGGTTGAGCTTAAATCATTTTTTTTTGTTTTTTGTACTATGTTGATCTTAGTGAA
1 AGAATTAAAGAGGTTGAGCTTAAATCATTTTTTTTTGTTTTTTGTACTATGTTGATCTTAGTGAA
55474382 TTGATTCTCTCAGTAAGACTCCACCGGCATAGGTTAAGTCTAAACCACGTTAACAATCTTTTTGT
66 TTGATTCTCTCAGTAAGACTCCACCGGCATAGGTTAAGTCTAAACCACGTTAACAATCTTTTTGT
55474447 GCAAAATTTTCTTGTTGTTGTTTCAATCGTTATGGCCACAACTTCCACCACAACAGATGTTCTTT
131 GCAAAATTTTCTTGTTGTTGTTTCAATCGTTATGGCCACAACTTCCACCACAACAGATGTTCTTT
55474512 CAAAATAGCTACATCAATTGAATGTTAGCGACATAACAATGAAGGGACCAACATAAGTGATGTCA
196 CAAAATAGCTACATCAATTGAATGTTAGCGACATAACAATGAAGGGACCAACATAAGTGATGTCA
55474577 CAAATATTAGTGACCAGTTTTAAAGATTTTGTACTTGAGTGACCAAAATAAAAAAAACCCCATAA
261 CAAATATTAGTGACCAGTTTTAAAGATTTTGTACTTGAGTGACCAAAATAAAAAAAACCCCATAA
55474642 TAATTGGGTGACTATTGAAGTAGTTTATCCATAATAATATTTTGTAACAAATTAATAACATATAT
326 TAATTGGGTGACTATTGAAGTAGTTTATCCATAATAATATTTTGTAACAAATTAATAACATATAT
55474707 AAATGTAGTAAAAAATAGTTTATAATGCAAGAATAAAAAAATATTATGAATAAAATAATAAATAA
391 AAATGTAGTAAAAAATAGTTTATAATGCAAGAATAAAAAAATATTATGAATAAAATAATAAATAA
55474772 TATATAACATAAAAATAAATAATTGATAATAGAGTAAAATAGTGTTTTTT
456 TATATAACATAAAAATAAATAATTGATAATAGAGTAAAATAGTGTTTTTT
55474822 ATAATTACAA
Statistics
Matches: 502, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
543 502 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.36
Consensus pattern (543 bp):
AGAATTAAAGAGGTTGAGCTTAAATCATTTTTTTTTGTTTTTTGTACTATGTTGATCTTAGTGAA
TTGATTCTCTCAGTAAGACTCCACCGGCATAGGTTAAGTCTAAACCACGTTAACAATCTTTTTGT
GCAAAATTTTCTTGTTGTTGTTTCAATCGTTATGGCCACAACTTCCACCACAACAGATGTTCTTT
CAAAATAGCTACATCAATTGAATGTTAGCGACATAACAATGAAGGGACCAACATAAGTGATGTCA
CAAATATTAGTGACCAGTTTTAAAGATTTTGTACTTGAGTGACCAAAATAAAAAAAACCCCATAA
TAATTGGGTGACTATTGAAGTAGTTTATCCATAATAATATTTTGTAACAAATTAATAACATATAT
AAATGTAGTAAAAAATAGTTTATAATGCAAGAATAAAAAAATATTATGAATAAAATAATAAATAA
TATATAACATAAAAATAAATAATTGATAATAGAGTAAAATAGTGTTTTTTTTTTTTTTTTTTTTT
TAAGTTATATAGCTTATTAAGTA
Found at i:55475362 original size:3 final size:3
Alignment explanation
Indices: 55475354--55475396 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
55475344 TGGATGTATG
55475354 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
55475397 AGTCCAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:55475920 original size:18 final size:18
Alignment explanation
Indices: 55475885--55475924 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
55475875 ATAAATGGTA
*
55475885 CTTTTCATATTATCTCCT
1 CTTTTCATATCATCTCCT
55475903 CTTTTCATATCA-CTTCCT
1 CTTTTCATATCATC-TCCT
55475921 CTTT
1 CTTT
55475925 GGTCCTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.55
Consensus pattern (18 bp):
CTTTTCATATCATCTCCT
Found at i:55476707 original size:2 final size:2
Alignment explanation
Indices: 55476700--55476727 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
55476690 GTTATTGCGC
55476700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55476728 TTACCGCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55477843 original size:13 final size:13
Alignment explanation
Indices: 55477825--55477849 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55477815 TTTAAAAATA
55477825 TTTTTATTTTTAT
1 TTTTTATTTTTAT
55477838 TTTTTATTTTTA
1 TTTTTATTTTTA
55477850 AAAAATATTT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:55479293 original size:17 final size:18
Alignment explanation
Indices: 55479244--55479293 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
55479234 CATTTTAAAA
55479244 TAAAATAATACAAATTTGT
1 TAAAATAATAC-AATTTGT
*
55479263 TAAAAGCAAT--AATTT-T
1 TAAAA-TAATACAATTTGT
55479279 TAAAATAATACAATT
1 TAAAATAATACAATT
55479294 GTGTCAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
15 3 0.12
16 6 0.23
17 9 0.35
19 5 0.19
20 3 0.12
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (18 bp):
TAAAATAATACAATTTGT
Found at i:55479619 original size:13 final size:13
Alignment explanation
Indices: 55479601--55479625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55479591 ACACTCAAAT
55479601 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
55479614 TTCTCAAAAGCA
1 TTCTCAAAAGCA
55479626 ATAAAGAACT
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:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:55482570 original size:21 final size:21
Alignment explanation
Indices: 55482536--55482575 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
55482526 ACGGTGGTGA
* *
55482536 TGAGATTAGTTACTGTAACAG
1 TGAGATTAGATACTATAACAG
*
55482557 TGAGATTGGATACTATAAC
1 TGAGATTAGATACTATAAC
55482576 GATGAAATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (21 bp):
TGAGATTAGATACTATAACAG
Found at i:55486367 original size:52 final size:50
Alignment explanation
Indices: 55486306--55486416 Score: 131
Period size: 49 Copynumber: 2.2 Consensus size: 50
55486296 ACAGTGTTTC
55486306 AGGTGTGTTTC-AAGGGCGGATGTAAAGCATAC-AGGCTTGGCACTTGGTG-CCG
1 AGGTGTGTTTCGAA--G-GGATGTAAAGC-TACGA-GCTTGGCACTTGGTGCCCG
* *
55486358 AGGTGTGTTTCGAAGGGATGTTAGGCTACGAGCTTGGCACTTGGTGCCCG
1 AGGTGTGTTTCGAAGGGATGTAAAGCTACGAGCTTGGCACTTGGTGCCCG
55486408 -GGTGTGTTT
1 AGGTGTGTTT
55486417 TTGGATGGTT
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
49 27 0.50
50 13 0.24
51 1 0.02
52 11 0.20
53 2 0.04
ACGTcount: A:0.17, C:0.16, G:0.38, T:0.29
Consensus pattern (50 bp):
AGGTGTGTTTCGAAGGGATGTAAAGCTACGAGCTTGGCACTTGGTGCCCG
Found at i:55488213 original size:40 final size:40
Alignment explanation
Indices: 55488147--55488400 Score: 295
Period size: 40 Copynumber: 6.4 Consensus size: 40
55488137 ATGCTCGTTT
* *
55488147 GAGCA-AC-TTTCAGTAGAATT-AATAGGTATGGCTCGATA
1 GAGCATACATTTCAGTA-AATTCAGTAGGTATGGCTCAATA
* * *
55488185 GAGCATACTTTTCAGTAAATTCTGTAGGTATGGCTCGATA
1 GAGCATACATTTCAGTAAATTCAGTAGGTATGGCTCAATA
* *
55488225 GTGCATACATTTCAGTAAATTCAATAGGTATGGCTCAATA
1 GAGCATACATTTCAGTAAATTCAGTAGGTATGGCTCAATA
* * *
55488265 GAGCATAC-TTTCAGTAGAA-TCAATAAGTATGGCTCGATA
1 GAGCATACATTTCAGTA-AATTCAGTAGGTATGGCTCAATA
*
55488304 TCA-CATACATTTCAGTAAATTCAGTAGGTATGGCTCAATA
1 -GAGCATACATTTCAGTAAATTCAGTAGGTATGGCTCAATA
* * *
55488344 GCGCATACATATCAGTAGATTCAGTAGGTATGGCTCAATA
1 GAGCATACATTTCAGTAAATTCAGTAGGTATGGCTCAATA
* *
55488384 GCGCATACGTTTCAGTA
1 GAGCATACATTTCAGTA
55488401 GGTAATGCTC
Statistics
Matches: 188, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
38 5 0.03
39 39 0.21
40 144 0.77
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (40 bp):
GAGCATACATTTCAGTAAATTCAGTAGGTATGGCTCAATA
Found at i:55488366 original size:119 final size:119
Alignment explanation
Indices: 55488147--55488401 Score: 379
Period size: 119 Copynumber: 2.1 Consensus size: 119
55488137 ATGCTCGTTT
* * * * *
55488147 GAGCA-ACTTTCAGTAGAATTAATAGGTATGGCTCGATAGAGCATACTTTTCAGTAAATTCTGTA
1 GAGCATACTTTCAGTAGAATCAATAAGTATGGCTCGATACAGCATACATTTCAGTAAATTCAGTA
* * *
55488211 GGTATGGCTCGATAGTGCATACATTTCAGTAAATTCAATAGGTATGGCTCAATA
66 GGTATGGCTCAATAGCGCATACATATCAGTAAATTCAATAGGTATGGCTCAATA
55488265 GAGCATACTTTCAGTAGAATCAATAAGTATGGCTCGATATCA-CATACATTTCAGTAAATTCAGT
1 GAGCATACTTTCAGTAGAATCAATAAGTATGGCTCGATA-CAGCATACATTTCAGTAAATTCAGT
* *
55488329 AGGTATGGCTCAATAGCGCATACATATCAGTAGATTCAGTAGGTATGGCTCAATA
65 AGGTATGGCTCAATAGCGCATACATATCAGTAAATTCAATAGGTATGGCTCAATA
*
55488384 GCGCATACGTTTCAGTAG
1 GAGCATAC-TTTCAGTAG
55488402 GTAATGCTCA
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
118 5 0.04
119 108 0.88
120 10 0.08
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (119 bp):
GAGCATACTTTCAGTAGAATCAATAAGTATGGCTCGATACAGCATACATTTCAGTAAATTCAGTA
GGTATGGCTCAATAGCGCATACATATCAGTAAATTCAATAGGTATGGCTCAATA
Found at i:55489144 original size:25 final size:25
Alignment explanation
Indices: 55489092--55489280 Score: 175
Period size: 23 Copynumber: 8.0 Consensus size: 25
55489082 ACCAACAATC
* *
55489092 GGACAGCAT-TATACA-TTAAAAAT
1 GGACAGCATCAATACACTTAAAATT
*
55489115 GGACAGCATCAATACACTCAAAATT
1 GGACAGCATCAATACACTTAAAATT
* * *
55489140 TGACAACAT-TATACA-TTAAAA-T
1 GGACAGCATCAATACACTTAAAATT
*
55489162 GGACAGCATCAATATACTTAAAATT
1 GGACAGCATCAATACACTTAAAATT
*
55489187 GGACAGCAT-TATACA-TTAAAA-T
1 GGACAGCATCAATACACTTAAAATT
* * *
55489209 GGACGGCATCAATATACTCAAAATT
1 GGACAGCATCAATACACTTAAAATT
*
55489234 GGACAGCAT-TATACA-TTAAAA-T
1 GGACAGCATCAATACACTTAAAATT
* *
55489256 GGACAGCATCAATATACTCAAAATT
1 GGACAGCATCAATACACTTAAAATT
55489281 ATAACACAAA
Statistics
Matches: 131, Mismatches: 24, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
22 27 0.21
23 37 0.28
24 34 0.26
25 33 0.25
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (25 bp):
GGACAGCATCAATACACTTAAAATT
Found at i:55489171 original size:47 final size:47
Alignment explanation
Indices: 55489092--55489280 Score: 324
Period size: 47 Copynumber: 4.0 Consensus size: 47
55489082 ACCAACAATC
*
55489092 GGACAGCATTATACATTAAAAATGGACAGCATCAATACACTCAAAATT
1 GGACAGCATTATACATT-AAAATGGACAGCATCAATATACTCAAAATT
* * *
55489140 TGACAACATTATACATTAAAATGGACAGCATCAATATACTTAAAATT
1 GGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAATT
*
55489187 GGACAGCATTATACATTAAAATGGACGGCATCAATATACTCAAAATT
1 GGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAATT
55489234 GGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAATT
1 GGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAATT
55489281 ATAACACAAA
Statistics
Matches: 132, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
47 117 0.89
48 15 0.11
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (47 bp):
GGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAATT
Found at i:55489211 original size:22 final size:22
Alignment explanation
Indices: 55489092--55489264 Score: 170
Period size: 25 Copynumber: 7.4 Consensus size: 22
55489082 ACCAACAATC
55489092 GGACAGCATTATACATTAAAAAT
1 GGACAGCATTATACATT-AAAAT
* *
55489115 GGACAGCATCAATACACTCAAAATT
1 GGACAGCAT-TATACA-TTAAAA-T
* *
55489140 TGACAACATTATACATTAAAAT
1 GGACAGCATTATACATTAAAAT
55489162 GGACAGCATCAATATAC-TTAAAATT
1 GGACAGCAT---TATACATTAAAA-T
55489187 GGACAGCATTATACATTAAAAT
1 GGACAGCATTATACATTAAAAT
* *
55489209 GGACGGCATCAATATAC-TCAAAATT
1 GGACAGCAT---TATACATTAAAA-T
55489234 GGACAGCATTATACATTAAAAT
1 GGACAGCATTATACATTAAAAT
55489256 GGACAGCAT
1 GGACAGCAT
55489265 CAATATACTC
Statistics
Matches: 125, Mismatches: 12, Indels: 27
0.76 0.07 0.16
Matches are distributed among these distances:
22 37 0.30
23 25 0.20
24 25 0.20
25 38 0.30
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (22 bp):
GGACAGCATTATACATTAAAAT
Found at i:55490250 original size:28 final size:27
Alignment explanation
Indices: 55490218--55490316 Score: 112
Period size: 28 Copynumber: 3.6 Consensus size: 27
55490208 TTAATAAGTA
*
55490218 CGCACACTTAGTGCTTAATAATCAAACT
1 CGCACACTTAGTGCTT-ATAATTAAACT
* *
55490246 CGCACACTTAGTGCTT-TACCCTTATACT
1 CGCACACTTAGTGCTTATA--ATTAAACT
55490274 CGCACACTTAGTGCATT-TCAATTAAACT
1 CGCACACTTAGTGC-TTAT-AATTAAACT
55490302 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55490317 AATCTCATTA
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
26 2 0.03
27 1 0.02
28 55 0.89
29 3 0.05
30 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (27 bp):
CGCACACTTAGTGCTTATAATTAAACT
Found at i:55512645 original size:11 final size:10
Alignment explanation
Indices: 55512619--55512644 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
55512609 AATGTTTCCC
55512619 AAAAAATTAA
1 AAAAAATTAA
55512629 AAAAAATTAA
1 AAAAAATTAA
55512639 AAAAAA
1 AAAAAA
55512645 AATGTATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAATTAA
Found at i:55514336 original size:23 final size:23
Alignment explanation
Indices: 55514283--55514336 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
55514273 ACCATCTACT
*
55514283 GGCAAATCTAAGAACTGTGCTAA
1 GGCAAATCTAAGAACAGTGCTAA
*
55514306 GTCAAATCTAAGAACAGTGCTAA
1 GGCAAATCTAAGAACAGTGCTAA
*
55514329 GGCTAATC
1 GGCAAATC
55514337 CATTCACAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (23 bp):
GGCAAATCTAAGAACAGTGCTAA
Found at i:55518997 original size:107 final size:108
Alignment explanation
Indices: 55518873--55519088 Score: 425
Period size: 107 Copynumber: 2.0 Consensus size: 108
55518863 CAAAAAGCCA
55518873 AAGAAAAAATGCACACAAAGTGTTTGAGTAAATGCTCAAAGAATTCTATTACTCTTAAGATATCA
1 AAGAAAAAATGCACACAAAGTGTTTGAGTAAATGCTCAAAGAATTCTATTACTCTTAAGATATCA
55518938 GCTTACAATGGATGAGTACAAATGAGGGGGAGACTCTCTATTT
66 GCTTACAATGGATGAGTACAAATGAGGGGGAGACTCTCTATTT
55518981 AAGAAAAAAT-CACACAAAGTGTTTGAGTAAATGCTCAAAGAATTCTATTACTCTTAAGATATCA
1 AAGAAAAAATGCACACAAAGTGTTTGAGTAAATGCTCAAAGAATTCTATTACTCTTAAGATATCA
55519045 GCTTACAATGGATGAGTACAAATGAGGGGGAGACTCTCTATTT
66 GCTTACAATGGATGAGTACAAATGAGGGGGAGACTCTCTATTT
55519088 A
1 A
55519089 TAGTTGAGCT
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
107 98 0.91
108 10 0.09
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (108 bp):
AAGAAAAAATGCACACAAAGTGTTTGAGTAAATGCTCAAAGAATTCTATTACTCTTAAGATATCA
GCTTACAATGGATGAGTACAAATGAGGGGGAGACTCTCTATTT
Found at i:55519068 original size:55 final size:55
Alignment explanation
Indices: 55518902--55519068 Score: 132
Period size: 55 Copynumber: 3.1 Consensus size: 55
55518892 GTGTTTGAGT
55518902 AAATGCTCAAAGAATTCTATTACTCTTAAGATATCAGCTTACAATGGATGAGTAC
1 AAATGCTCAAAGAATTCTATTACTCTTAAGATATCAGCTTACAATGGATGAGTAC
***** * *** * * **
55518957 AAATGAGGGGGAGACTCTCTATT--TAAGAAAAAATCA-C--ACAAAGTGTTTGAGT--
1 AAATG-CTCAAAGAAT-TCTATTACTCTTAAGATATCAGCTTAC-AA-TGGATGAGTAC
55519009 AAATGCTCAAAGAATTCTATTACTCTTAAGATATCAGCTTACAATGGATGAGTAC
1 AAATGCTCAAAGAATTCTATTACTCTTAAGATATCAGCTTACAATGGATGAGTAC
55519064 AAATG
1 AAATG
55519069 AGGGGGAGAC
Statistics
Matches: 75, Mismatches: 26, Indels: 22
0.61 0.21 0.18
Matches are distributed among these distances:
50 6 0.08
51 4 0.05
52 15 0.20
53 10 0.13
54 10 0.13
55 20 0.27
56 4 0.05
57 6 0.08
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (55 bp):
AAATGCTCAAAGAATTCTATTACTCTTAAGATATCAGCTTACAATGGATGAGTAC
Found at i:55519201 original size:5 final size:5
Alignment explanation
Indices: 55519191--55519215 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
55519181 TGTCATATCC
55519191 AATCT AATCT AATCT AATCT AATCT
1 AATCT AATCT AATCT AATCT AATCT
55519216 TTACAAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
AATCT
Found at i:55529688 original size:23 final size:23
Alignment explanation
Indices: 55529654--55529700 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
55529644 ATATATAATC
55529654 ACTCAACACTTCATTAATTTTTA
1 ACTCAACACTTCATTAATTTTTA
*
55529677 ACTCAACTCTTCATTAATTTTTA
1 ACTCAACACTTCATTAATTTTTA
55529700 A
1 A
55529701 TTGGCCATTA
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:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (23 bp):
ACTCAACACTTCATTAATTTTTA
Found at i:55529931 original size:9 final size:9
Alignment explanation
Indices: 55529917--55529947 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
55529907 GTTAAACGAA
55529917 TCGAGTTAT
1 TCGAGTTAT
*
55529926 TCGAGTTAA
1 TCGAGTTAT
55529935 TCGAGTTAT
1 TCGAGTTAT
55529944 TCGA
1 TCGA
55529948 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:55530017 original size:9 final size:9
Alignment explanation
Indices: 55530000--55530036 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
55529990 TGAGTTTTCG
55530000 AATTCGAAT
1 AATTCGAAT
*
55530009 AACTCGAAT
1 AATTCGAAT
55530018 AATTCGAAT
1 AATTCGAAT
55530027 AATTCGAAT
1 AATTCGAAT
55530036 A
1 A
55530037 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:55530881 original size:5 final size:5
Alignment explanation
Indices: 55530871--55530897 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
55530861 CTCGAAAATT
55530871 TTCGA TTCGA TTCGA TTCGA TTCGA TT
1 TTCGA TTCGA TTCGA TTCGA TTCGA TT
55530898 GAATGCTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (5 bp):
TTCGA
Found at i:55531037 original size:18 final size:17
Alignment explanation
Indices: 55531011--55531044 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
55531001 TTGTAAAATT
*
55531011 TTTATAAATTTATATAAC
1 TTTAAAAATTT-TATAAC
55531029 TTTAAAAATTTTATAA
1 TTTAAAAATTTTATAA
55531045 TTTGGTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAAAAATTTTATAAC
Found at i:55533273 original size:25 final size:25
Alignment explanation
Indices: 55533233--55533287 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
55533223 CACAAGTCCA
* * *
55533233 CCTTCAACTGGGCTATATGTAAAGG
1 CCTTCAACTAGACTATATGAAAAGG
*
55533258 CCTTCAACTAGACTATATGAAAAGT
1 CCTTCAACTAGACTATATGAAAAGG
55533283 CCTTC
1 CCTTC
55533288 TCTTTTTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (25 bp):
CCTTCAACTAGACTATATGAAAAGG
Found at i:55535006 original size:20 final size:20
Alignment explanation
Indices: 55534977--55535015 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
55534967 ATGGGATTGC
55534977 ACTTTAGTGCCTCTGTTTGA
1 ACTTTAGTGCCTCTGTTTGA
*
55534997 ACTTTGGTGCCTCTGTTTG
1 ACTTTAGTGCCTCTGTTTG
55535016 CACTACGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.46
Consensus pattern (20 bp):
ACTTTAGTGCCTCTGTTTGA
Found at i:55535027 original size:20 final size:20
Alignment explanation
Indices: 55534984--55535070 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 20
55534974 TGCACTTTAG
* ** *
55534984 TGCCTCTGTTTGAACTTTGG
1 TGCCTCTGTTTGCACTACGA
55535004 TGCCTCTGTTTGCACTACGA
1 TGCCTCTGTTTGCACTACGA
* *
55535024 TGCCTTTGATTGCACTATCG-
1 TGCCTCTGTTTGCACTA-CGA
* * *
55535044 TGTCTTTGTTTGCACTATGA
1 TGCCTCTGTTTGCACTACGA
55535064 TGCCTCT
1 TGCCTCT
55535071 ATATAGCATT
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
19 1 0.02
20 51 0.94
21 2 0.04
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.43
Consensus pattern (20 bp):
TGCCTCTGTTTGCACTACGA
Found at i:55535028 original size:40 final size:40
Alignment explanation
Indices: 55534984--55535070 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
55534974 TGCACTTTAG
* * *
55534984 TGCCTCTGTTTGAACTTTGGTGCCTCTGTTTGCACTACGA
1 TGCCTCTGATTGAACTATCGTGCCTCTGTTTGCACTACGA
* * * * *
55535024 TGCCTTTGATTGCACTATCGTGTCTTTGTTTGCACTATGA
1 TGCCTCTGATTGAACTATCGTGCCTCTGTTTGCACTACGA
55535064 TGCCTCT
1 TGCCTCT
55535071 ATATAGCATT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.43
Consensus pattern (40 bp):
TGCCTCTGATTGAACTATCGTGCCTCTGTTTGCACTACGA
Found at i:55535288 original size:26 final size:24
Alignment explanation
Indices: 55535225--55535279 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
55535215 AGACTTAAAT
*
55535225 GAATATACATGAATGTTTTCAATC
1 GAATATACATGAATGATTTCAATC
*
55535249 GAATATACATGAATGATTTCAATG
1 GAATATACATGAATGATTTCAATC
55535273 GAATATA
1 GAATATA
55535280 TATATGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.35
Consensus pattern (24 bp):
GAATATACATGAATGATTTCAATC
Found at i:55537102 original size:17 final size:17
Alignment explanation
Indices: 55537080--55537114 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
55537070 AACGTCAAAC
55537080 TTAAATTCACATACACA
1 TTAAATTCACATACACA
55537097 TTAAATTCACATACACA
1 TTAAATTCACATACACA
55537114 T
1 T
55537115 CACAAGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAATTCACATACACA
Found at i:55538916 original size:22 final size:21
Alignment explanation
Indices: 55538888--55538932 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
55538878 TGCATTCACT
55538888 TTTTCTTTCCACTATGTTTCTA
1 TTTTCTTT-CACTATGTTTCTA
* *
55538910 TTTTCTTTTATTATGTTTCTA
1 TTTTCTTTCACTATGTTTCTA
55538931 TT
1 TT
55538933 ATAATATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.13, C:0.16, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTCTTTCACTATGTTTCTA
Found at i:55539470 original size:19 final size:18
Alignment explanation
Indices: 55539413--55539482 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 18
55539403 ATAAAAATTG
55539413 AAATTTATAAAATTGTAA
1 AAATTTATAAAATTGTAA
* *
55539431 AAAATTATAAAAGTAGATAA
1 AAATTTATAAAA-TTG-TAA
*
55539451 AAATTTATTAAATTGTTAA
1 AAATTTATAAAATTG-TAA
*
55539470 AAATTTAAAAAAT
1 AAATTTATAAAAT
55539483 AAAATTATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
18 11 0.26
19 18 0.43
20 13 0.31
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.36
Consensus pattern (18 bp):
AAATTTATAAAATTGTAA
Found at i:55542173 original size:9 final size:9
Alignment explanation
Indices: 55542159--55542189 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
55542149 GTTAAACGAA
55542159 TCGAGTTAT
1 TCGAGTTAT
*
55542168 TCGAGTTAA
1 TCGAGTTAT
55542177 TCGAGTTAT
1 TCGAGTTAT
55542186 TCGA
1 TCGA
55542190 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:55542260 original size:9 final size:9
Alignment explanation
Indices: 55542243--55542279 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
55542233 TGAGTTTTCG
55542243 AATTCGAAT
1 AATTCGAAT
*
55542252 AACTCGAAT
1 AATTCGAAT
55542261 AATTCGAAT
1 AATTCGAAT
55542270 AATTCGAAT
1 AATTCGAAT
55542279 A
1 A
55542280 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:55543141 original size:5 final size:5
Alignment explanation
Indices: 55543131--55543156 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
55543121 CTCGAAAATT
55543131 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
55543157 CAAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:55546004 original size:23 final size:19
Alignment explanation
Indices: 55545972--55546028 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
55545962 CTCTATTTAG
*
55545972 TTATTATTTTGAATATTTATCC
1 TTATT-TTTTTAAT-TTT-TCC
*
55545994 TTTATTTTTTTAATTTTTTC
1 -TTATTTTTTTAATTTTTCC
*
55546014 TTATTTTTTTTATTT
1 TTATTTTTTTAATTT
55546029 CCTTTGTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 14 0.45
20 2 0.06
21 3 0.10
22 7 0.23
23 5 0.16
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (19 bp):
TTATTTTTTTAATTTTTCC
Found at i:55546011 original size:9 final size:9
Alignment explanation
Indices: 55545994--55546043 Score: 55
Period size: 9 Copynumber: 5.1 Consensus size: 9
55545984 ATATTTATCC
55545994 TTTATTTTT
1 TTTATTTTT
*
55546003 TTAATTTTT
1 TTTATTTTT
55546012 TCTTATTTTT
1 T-TTATTTTT
55546022 TTTATTTCCTT
1 TTTATTT--TT
55546033 TGTTATTTTT
1 T-TTATTTTT
55546043 T
1 T
55546044 AAATTTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
9 15 0.43
10 11 0.31
11 3 0.09
12 6 0.17
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTATTTTT
Found at i:55546038 original size:21 final size:19
Alignment explanation
Indices: 55545995--55546049 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 19
55545985 TATTTATCCT
55545995 TTATTTTTTTAATTTTTTC
1 TTATTTTTTTAATTTTTTC
* *
55546014 TTATTTTTTTTATTTCCTTTG
1 TTATTTTTTTAATTT--TTTC
*
55546035 TTATTTTTTAAATTT
1 TTATTTTTTTAATTT
55546050 ATTTGGTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 14 0.47
21 16 0.53
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.76
Consensus pattern (19 bp):
TTATTTTTTTAATTTTTTC
Found at i:55549101 original size:14 final size:14
Alignment explanation
Indices: 55549082--55549109 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
55549072 TGATAAAAGA
55549082 TGATAATATGAAAT
1 TGATAATATGAAAT
55549096 TGATAATATGAAAT
1 TGATAATATGAAAT
55549110 GAATTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (14 bp):
TGATAATATGAAAT
Found at i:55558382 original size:15 final size:14
Alignment explanation
Indices: 55558359--55558394 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
55558349 TACACGTCAT
*
55558359 TTAAAAATCAATTC
1 TTAAAAATCAAATC
55558373 TTAGAAAATCAAATC
1 TTA-AAAATCAAATC
55558388 TTAAAAA
1 TTAAAAA
55558395 CCCAAATCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.31
Consensus pattern (14 bp):
TTAAAAATCAAATC
Found at i:55569544 original size:6 final size:6
Alignment explanation
Indices: 55569533--55569567 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
55569523 CTATTAACGT
55569533 GACTCG GACTCG GACTCG GACTCG GACTCG GACTC
1 GACTCG GACTCG GACTCG GACTCG GACTCG GACTC
55569568 AGATACGCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.34, G:0.31, T:0.17
Consensus pattern (6 bp):
GACTCG
Found at i:55578893 original size:13 final size:13
Alignment explanation
Indices: 55578877--55578901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55578867 TCTCCCTTCC
55578877 TCTCTGTCCATCA
1 TCTCTGTCCATCA
55578890 TCTCTGTCCATC
1 TCTCTGTCCATC
55578902 GTCCCTTCTC
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:0.12, C:0.40, G:0.08, T:0.40
Consensus pattern (13 bp):
TCTCTGTCCATCA
Found at i:55583103 original size:32 final size:32
Alignment explanation
Indices: 55583067--55583150 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 32
55583057 AACTTTTTCG
*
55583067 GAAAATATTTTCAGGAAATT-TGCCAAACAACA
1 GAAAATATTTTCAGCAAATTAT-CCAAACAACA
* *
55583099 GAAAATATTTTACA-CAGATTCATCCAAACACCA
1 GAAAATATTTT-CAGCAAATT-ATCCAAACAACA
*
55583132 GAAAATATTTTCAGTAAAT
1 GAAAATATTTTCAGCAAAT
55583151 CATTTTCCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
32 17 0.40
33 25 0.58
34 1 0.02
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (32 bp):
GAAAATATTTTCAGCAAATTATCCAAACAACA
Found at i:55583157 original size:14 final size:15
Alignment explanation
Indices: 55583129--55583254 Score: 75
Period size: 14 Copynumber: 8.1 Consensus size: 15
55583119 CATCCAAACA
*
55583129 CCAGAAAAT-ATTTT
1 CCAGTAAATCATTTT
55583143 -CAGTAAATCATTTT
1 CCAGTAAATCATTTT
55583157 CCAAAAAAGTAAATCATTTT
1 CC-----AGTAAATCATTTT
*
55583177 CCA-AAAATCATTTT
1 CCAGTAAATCATTTT
* *
55583191 CCGGAAAAT-ATTTT
1 CCAGTAAATCATTTT
55583205 -CAGTAAATCATTTT
1 CCAGTAAATCATTTT
55583219 CCAAAAAAGTAAATCATTTT
1 CC-----AGTAAATCATTTT
*
55583239 CCA-AAAATCATTTT
1 CCAGTAAATCATTTT
55583253 CC
1 CC
55583255 GGAAAATATT
Statistics
Matches: 91, Mismatches: 6, Indels: 30
0.72 0.05 0.24
Matches are distributed among these distances:
13 13 0.14
14 39 0.43
15 9 0.10
20 30 0.33
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (15 bp):
CCAGTAAATCATTTT
Found at i:55583169 original size:20 final size:20
Alignment explanation
Indices: 55583144--55583245 Score: 90
Period size: 20 Copynumber: 5.0 Consensus size: 20
55583134 AAATATTTTC
55583144 AGTAAATCATTTTCCAAAAA
1 AGTAAATCATTTTCCAAAAA
55583164 AGTAAATCATTTTCC----A
1 AGTAAATCATTTTCCAAAAA
55583180 A--AAATCATTTTCCGGAAAATA
1 AGTAAATCATTTTCC--AAAA-A
55583201 TTTTCAGTAAATCATTTTCCAAAAA
1 -----AGTAAATCATTTTCCAAAAA
55583226 AGTAAATCATTTTCCAAAAA
1 AGTAAATCATTTTCCAAAAA
55583246 TCATTTTCCG
Statistics
Matches: 68, Mismatches: 0, Indels: 28
0.71 0.00 0.29
Matches are distributed among these distances:
14 12 0.18
16 2 0.03
20 35 0.51
21 1 0.01
25 1 0.01
26 5 0.07
28 12 0.18
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (20 bp):
AGTAAATCATTTTCCAAAAA
Found at i:55583207 original size:62 final size:62
Alignment explanation
Indices: 55583132--55583266 Score: 270
Period size: 62 Copynumber: 2.2 Consensus size: 62
55583122 CCAAACACCA
55583132 GAAAATATTTTCAGTAAATCATTTTCCAAAAAAGTAAATCATTTTCCAAAAATCATTTTCCG
1 GAAAATATTTTCAGTAAATCATTTTCCAAAAAAGTAAATCATTTTCCAAAAATCATTTTCCG
55583194 GAAAATATTTTCAGTAAATCATTTTCCAAAAAAGTAAATCATTTTCCAAAAATCATTTTCCG
1 GAAAATATTTTCAGTAAATCATTTTCCAAAAAAGTAAATCATTTTCCAAAAATCATTTTCCG
55583256 GAAAATATTTT
1 GAAAATATTTT
55583267 ACAGGCAAAC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 73 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (62 bp):
GAAAATATTTTCAGTAAATCATTTTCCAAAAAAGTAAATCATTTTCCAAAAATCATTTTCCG
Found at i:55583525 original size:14 final size:14
Alignment explanation
Indices: 55583506--55583543 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
55583496 GTTTGCCAAT
* *
55583506 AAAATGTTTTTTGG
1 AAAATGATTTCTGG
55583520 AAAATGATTTCTGG
1 AAAATGATTTCTGG
55583534 AAAATGATTT
1 AAAATGATTT
55583544 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:55583552 original size:20 final size:20
Alignment explanation
Indices: 55583527--55583566 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
55583517 TGGAAAATGA
55583527 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
55583547 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
55583567 GAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:55583560 original size:34 final size:33
Alignment explanation
Indices: 55583512--55583576 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
55583502 CAATAAAATG
*
55583512 TTTTTTGGAAAATGATTT-CTGGAAAATGATTTAC
1 TTTTCTGGAAAATGATTTACT-GAAAAT-ATTTAC
55583546 TTTTCTGGAAAATGATTTACTGAAAATATTT
1 TTTTCTGGAAAATGATTTACTGAAAATATTT
55583577 TATGGTGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 4 0.14
34 23 0.79
35 2 0.07
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (33 bp):
TTTTCTGGAAAATGATTTACTGAAAATATTTAC
Found at i:55583687 original size:20 final size:20
Alignment explanation
Indices: 55583664--55583702 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
55583654 ATTTTTACAT
55583664 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
55583684 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
55583703 TTTCAGACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:55584880 original size:32 final size:32
Alignment explanation
Indices: 55584834--55584939 Score: 107
Period size: 32 Copynumber: 3.5 Consensus size: 32
55584824 TGTCAATCAT
55584834 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
55584866 TTCAATATCTAACAAGCTTAAAAC---A-AAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* * * *
55584894 -TCAATATCTAACAA-ATTCAATACATAATAAT
1 TTCAATATCCAACAAGCTT-AAAACATAATAAA
*
55584925 TTCAAAATCCAACAA
1 TTCAATATCCAACAA
55584940 ACTAAAATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
26 2 0.03
27 18 0.29
28 3 0.05
29 1 0.02
30 1 0.02
31 2 0.03
32 35 0.56
ACGTcount: A:0.53, C:0.19, G:0.02, T:0.26
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:55588820 original size:51 final size:51
Alignment explanation
Indices: 55588743--55588909 Score: 264
Period size: 51 Copynumber: 3.3 Consensus size: 51
55588733 CTGATTAGTG
* * *
55588743 ACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTA
1 ACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTA
55588794 ACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTA
1 ACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTA
* * *
55588845 ACAAGTGATAAATGATAGCTTTAGCTACACTTATCTGATCAGGGAC-AGTGG
1 ACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGT-A
55588896 ACAAGTGATAAATG
1 ACAAGTGATAAATG
55588910 TGATCCGTGT
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 3 0.03
51 106 0.97
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (51 bp):
ACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTA
Found at i:55591066 original size:59 final size:59
Alignment explanation
Indices: 55590996--55591113 Score: 184
Period size: 59 Copynumber: 2.0 Consensus size: 59
55590986 GAAGTGAAAG
55590996 TTATTAAAAAATGTGATAAAATGCAT-ACTTATTAGTCATTGGATGACATAATAATGTAA
1 TTATTAAAAAATGTGATAAAATGCATGA-TTATTAGTCATTGGATGACATAATAATGTAA
* * * *
55591055 TTATTATAAAATGTGATCACATGCATGATTATTAGTCATTGGATGGCATAATAATGTAA
1 TTATTAAAAAATGTGATAAAATGCATGATTATTAGTCATTGGATGACATAATAATGTAA
55591114 CAATATTTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 53 0.98
60 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (59 bp):
TTATTAAAAAATGTGATAAAATGCATGATTATTAGTCATTGGATGACATAATAATGTAA
Found at i:55593122 original size:17 final size:17
Alignment explanation
Indices: 55593100--55593136 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
55593090 ATAGTAGTAG
55593100 TAAACTATTCATAATAA
1 TAAACTATTCATAATAA
*
55593117 TAAACTTTTCATAATAA
1 TAAACTATTCATAATAA
55593134 TAA
1 TAA
55593137 TAATAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAACTATTCATAATAA
Found at i:55593296 original size:16 final size:16
Alignment explanation
Indices: 55593275--55593312 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
55593265 TAAACCTTAT
* *
55593275 TAAAATAAAATACAGA
1 TAAAATAAAATAAAAA
55593291 TAAAATAAAATAAAAA
1 TAAAATAAAATAAAAA
55593307 TAAAAT
1 TAAAAT
55593313 CCATAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (16 bp):
TAAAATAAAATAAAAA
Found at i:55593310 original size:94 final size:95
Alignment explanation
Indices: 55593173--55593372 Score: 384
Period size: 94 Copynumber: 2.1 Consensus size: 95
55593163 TGACCCGAAT
55593173 CCTTATTAAAATAAAATACAGTGATAAAATAAAATAAAAATAAAATCCATAAAGAACTACACTTC
1 CCTTATTAAAATAAAATACAG-GATAAAATAAAATAAAAATAAAATCCATAAAGAACTACACTTC
55593238 TTTTATTTTATTTTAGAATAAGGTTTTTAAA
65 TTTTATTTTATTTTAGAATAAGGTTTTTAAA
55593269 CCTTATTAAAATAAAATACA-GATAAAATAAAATAAAAATAAAATCCATAAAGAACTACACTTCT
1 CCTTATTAAAATAAAATACAGGATAAAATAAAATAAAAATAAAATCCATAAAGAACTACACTTCT
55593333 TTTATTTTATTTTAGAATAAGGTTTTTAAA
66 TTTATTTTATTTTAGAATAAGGTTTTTAAA
55593363 CCTTATTAAA
1 CCTTATTAAA
55593373 CTTCATCTAT
Statistics
Matches: 104, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
94 84 0.81
96 20 0.19
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (95 bp):
CCTTATTAAAATAAAATACAGGATAAAATAAAATAAAAATAAAATCCATAAAGAACTACACTTCT
TTTATTTTATTTTAGAATAAGGTTTTTAAA
Found at i:55593981 original size:30 final size:30
Alignment explanation
Indices: 55593945--55594008 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
55593935 AACAAATATG
55593945 TATGTTGAAAACTCTAACTAGGAAGTTACA
1 TATGTTGAAAACTCTAACTAGGAAGTTACA
55593975 TATGTTGAAAACTCTAACTAGGAAGTTACA
1 TATGTTGAAAACTCTAACTAGGAAGTTACA
55594005 TATG
1 TATG
55594009 AAGCAACACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.31
Consensus pattern (30 bp):
TATGTTGAAAACTCTAACTAGGAAGTTACA
Found at i:55603383 original size:33 final size:33
Alignment explanation
Indices: 55603341--55603410 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
55603331 ATTTAATAAA
55603341 ATTATTCATGAATTACGTTAATACCATTTGTAC
1 ATTATTCATGAATTACGTTAATACCATTTGTAC
55603374 ATTATTCATGAATTACGTTAATACCATTTGTAC
1 ATTATTCATGAATTACGTTAATACCATTTGTAC
55603407 ATTA
1 ATTA
55603411 CCCTCAATGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (33 bp):
ATTATTCATGAATTACGTTAATACCATTTGTAC
Found at i:55606767 original size:20 final size:20
Alignment explanation
Indices: 55606744--55606828 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
55606734 TAAGTCCAGT
*
55606744 CAGGGGCACCAAAGTGTGAA
1 CAGGGGCACCAAAGTGCGAA
*
55606764 CAGGGGCA-CAAACGTGCAAA
1 CAGGGGCACCAAA-GTGCGAA
* * *
55606784 CAGGGACACCGAAGTG-TATA
1 CAGGGGCACCAAAGTGCGA-A
* * *
55606804 CAAGGGCATCGAAGTGCGAA
1 CAGGGGCACCAAAGTGCGAA
55606824 CAGGG
1 CAGGG
55606829 TCACATAGGT
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
19 5 0.10
20 42 0.82
21 4 0.08
ACGTcount: A:0.35, C:0.21, G:0.34, T:0.09
Consensus pattern (20 bp):
CAGGGGCACCAAAGTGCGAA
Found at i:55606811 original size:40 final size:40
Alignment explanation
Indices: 55606744--55606828 Score: 93
Period size: 40 Copynumber: 2.1 Consensus size: 40
55606734 TAAGTCCAGT
* *
55606744 CAGGGGCACCAAAGTGTGAACAGGGGCA-CAAACGTGCAAA
1 CAGGGACACCAAAGTGTGAACAAGGGCATCAAA-GTGCAAA
* * *
55606784 CAGGGACACCGAAGTGT-ATACAAGGGCATCGAAGTGCGAA
1 CAGGGACACCAAAGTGTGA-ACAAGGGCATCAAAGTGCAAA
55606824 CAGGG
1 CAGGG
55606829 TCACATAGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
39 1 0.03
40 34 0.89
41 3 0.08
ACGTcount: A:0.35, C:0.21, G:0.34, T:0.09
Consensus pattern (40 bp):
CAGGGACACCAAAGTGTGAACAAGGGCATCAAAGTGCAAA
Found at i:55606878 original size:61 final size:60
Alignment explanation
Indices: 55606744--55606894 Score: 185
Period size: 61 Copynumber: 2.5 Consensus size: 60
55606734 TAAGTCCAGT
* * * *
55606744 CAGGGGCACCAAAGTGTGAACAGGGGCACAAACGTGCAAACAGGGACACCGAAGTGTATA
1 CAGGGGCACCGAAGTGCGAACAGGGGCACAAACGTGCAAACAGAGACAACGAAGTGTATA
* * * * * * *
55606804 CAAGGGCATCGAAGTGCGAACAGGGTCACATAGGTGCAAATTAGAGACAATGAAGTGTATA
1 CAGGGGCACCGAAGTGCGAACAGGGGCACAAACGTGCAAA-CAGAGACAACGAAGTGTATA
*
55606865 CAGGGGCACCGAAGTGCGAACAGAGGCACA
1 CAGGGGCACCGAAGTGCGAACAGGGGCACA
55606895 GTTGTGCAAA
Statistics
Matches: 75, Mismatches: 15, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
60 33 0.44
61 42 0.56
ACGTcount: A:0.36, C:0.20, G:0.32, T:0.12
Consensus pattern (60 bp):
CAGGGGCACCGAAGTGCGAACAGGGGCACAAACGTGCAAACAGAGACAACGAAGTGTATA
Found at i:55613889 original size:62 final size:59
Alignment explanation
Indices: 55613820--55613936 Score: 153
Period size: 59 Copynumber: 1.9 Consensus size: 59
55613810 AGTGATTATC
* * *
55613820 TTAATATTAAATTAAATTTAATGTTTATTTTGTAGATAAATATTCTATTAATTAAATAATAT
1 TTAATATTAAATTAAATATAATATTTA---TGTAGATAAATATTATATTAATTAAATAATAT
* * *
55613882 TTAATATTAAATTTAATATAATATTTATGTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTAAATATAATATTTATGTAGATAAATATTATATTAATTAAATA
55613937 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 25 0.51
62 24 0.49
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTAAATATAATATTTATGTAGATAAATATTATATTAATTAAATAATAT
Found at i:55613907 original size:12 final size:12
Alignment explanation
Indices: 55613871--55613908 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
55613861 ATTCTATTAA
55613871 TTAA-ATAATAT
1 TTAATATAATAT
55613882 TTAATATTAA-AT
1 TTAATA-TAATAT
55613894 TTAATATAATAT
1 TTAATATAATAT
55613906 TTA
1 TTA
55613909 TGTTGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 7 0.29
12 14 0.58
13 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAATATAATAT
Found at i:55615820 original size:21 final size:22
Alignment explanation
Indices: 55615796--55615838 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
55615786 GTGTTATAAG
*
55615796 TTAAAATTAAATA-AATAAAAC
1 TTAAAATAAAATACAATAAAAC
55615817 TTAAAATAAAATACAATAAAAC
1 TTAAAATAAAATACAATAAAAC
55615839 ATAATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (22 bp):
TTAAAATAAAATACAATAAAAC
Found at i:55617455 original size:18 final size:17
Alignment explanation
Indices: 55617428--55617462 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
55617418 ATTTATACAA
55617428 GTTATATTTTGAATTAT
1 GTTATATTTTGAATTAT
*
55617445 GTTAGTATTTTGAGTTAT
1 GTTA-TATTTTGAATTAT
55617463 CATTTGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (17 bp):
GTTATATTTTGAATTAT
Found at i:55619905 original size:16 final size:16
Alignment explanation
Indices: 55619884--55619919 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
55619874 TTTGGTTCGC
55619884 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
55619900 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
55619916 TGTA
1 TGTA
55619920 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:55620176 original size:18 final size:17
Alignment explanation
Indices: 55620155--55620189 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
55620145 TTATTATTAA
*
55620155 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
55620173 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
55620190 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:55620243 original size:157 final size:157
Alignment explanation
Indices: 55620042--55620337 Score: 574
Period size: 157 Copynumber: 1.9 Consensus size: 157
55620032 TAGAATACCC
*
55620042 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
55620107 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
55620172 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
55620199 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
55620264 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
55620329 TATATAATT
131 TATATAATT
55620338 NNNNNNNNNN
Statistics
Matches: 137, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 137 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:55627116 original size:7 final size:7
Alignment explanation
Indices: 55627104--55627130 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
55627094 GAAAAAGAAA
55627104 AGAAGGT
1 AGAAGGT
55627111 AGAAGGT
1 AGAAGGT
55627118 AGAAGGT
1 AGAAGGT
55627125 AGAAGG
1 AGAAGG
55627131 AAATCGGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.11
Consensus pattern (7 bp):
AGAAGGT
Done.