Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 217 of 438
Found at i:67130066 original size:29 final size:29
Alignment explanation
Indices: 67130034--67130093 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
67130024 ATAACCAAAC
*
67130034 CTACAAAAACTTTATATCCATAAAACCAT
1 CTACAAAAACTTCATATCCATAAAACCAT
* *
67130063 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAAACCAT
67130092 CT
1 CT
67130094 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAAACCAT
Found at i:67130325 original size:10 final size:11
Alignment explanation
Indices: 67130309--67130348 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
67130299 AGTAAGTTTC
*
67130309 AAAAAAAATCG
1 AAAAAAATTCG
*
67130320 AAAAAAATTCA
1 AAAAAAATTCG
*
67130331 AAAAAAATTTG
1 AAAAAAATTCG
67130342 AAAAAAA
1 AAAAAAA
67130349 AAACAAAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (11 bp):
AAAAAAATTCG
Found at i:67130332 original size:21 final size:22
Alignment explanation
Indices: 67130306--67130348 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
67130296 TCAAGTAAGT
67130306 TTCAAAAAAAA-TCGAAAAAAA
1 TTCAAAAAAAATTCGAAAAAAA
*
67130327 TTCAAAAAAAATTTGAAAAAAA
1 TTCAAAAAAAATTCGAAAAAAA
67130349 AAACAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.19
Consensus pattern (22 bp):
TTCAAAAAAAATTCGAAAAAAA
Found at i:67131426 original size:18 final size:18
Alignment explanation
Indices: 67131403--67131452 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
67131393 GAAAGAAAAA
*
67131403 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGAATGAGAGT
* *
67131421 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
67131439 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
67131453 AAAAGAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:67131429 original size:24 final size:24
Alignment explanation
Indices: 67131396--67131477 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
67131386 AAGAAATGAA
67131396 AGAAAAAGAAAAAGAGATTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
* * * *
67131420 TGAAAAAGAAAATGAGATTGAAAA
1 AGAAAAAGAAAAAGAGATTGAGAG
* * *
67131444 AGAGAATGAAAAAGAGTTTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
*
67131468 AGAGAAAGAA
1 AGAAAAAGAA
67131478 TGTGAACAAG
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.60, C:0.00, G:0.28, T:0.12
Consensus pattern (24 bp):
AGAAAAAGAAAAAGAGATTGAGAG
Found at i:67134106 original size:30 final size:30
Alignment explanation
Indices: 67134020--67134117 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
67134010 TTAAACTAAA
* *
67134020 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
67134050 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
67134080 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
67134110 ATGAGCTA
1 ATGAGCTA
67134118 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:67136369 original size:30 final size:29
Alignment explanation
Indices: 67136324--67136408 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 29
67136314 TTCTTTTGTT
*
67136324 TCAATTTCTTTTTCATCTTCTTTTTCACTC
1 TCAATTTCTTTTTCAT-TTCTTTTTCAATC
67136354 TCAAATTTC-TTTTCATTCTCTTTTTCAATC
1 TC-AATTTCTTTTTCATT-TCTTTTTCAATC
*
67136384 TCATTTTCTTTTTCATTTTCTTTTT
1 TCAATTTCTTTTTCA-TTTCTTTTT
67136409 GCTTTTCAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
29 6 0.12
30 35 0.71
31 8 0.16
ACGTcount: A:0.14, C:0.22, G:0.00, T:0.64
Consensus pattern (29 bp):
TCAATTTCTTTTTCATTTCTTTTTCAATC
Found at i:67136408 original size:18 final size:18
Alignment explanation
Indices: 67136359--67136414 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
67136349 CACTCTCAAA
*
67136359 TTTC-TTTTCATTCTCTT
1 TTTCATTTTCATTTTCTT
* *
67136376 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
67136394 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
67136413 TT
1 TT
67136415 CAAAGACTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 4 0.13
18 22 0.71
19 5 0.16
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:67136415 original size:12 final size:12
Alignment explanation
Indices: 67136384--67136408 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67136374 TTTTTCAATC
67136384 TCATTTTCTTTT
1 TCATTTTCTTTT
67136396 TCATTTTCTTTT
1 TCATTTTCTTTT
67136408 T
1 T
67136409 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:67136426 original size:12 final size:12
Alignment explanation
Indices: 67136411--67136441 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
67136401 TTCTTTTTGC
67136411 TTTTCAAAGACT
1 TTTTCAAAGACT
*
67136423 TTTTCAAAGGCT
1 TTTTCAAAGACT
67136435 TTTTCAA
1 TTTTCAA
67136442 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGACT
Found at i:67136499 original size:5 final size:5
Alignment explanation
Indices: 67136489--67136545 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
67136479 CTCTTGCCTC
*
67136489 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
67136536 TCTTT TCTTT
1 TCTTT TCTTT
67136546 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:67136529 original size:15 final size:14
Alignment explanation
Indices: 67136489--67136545 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
67136479 CTCTTGCCTC
*
67136489 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
67136504 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
67136519 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
67136536 TCTTTTCTTT
1 TCTTTTCTTT
67136546 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:67136546 original size:21 final size:21
Alignment explanation
Indices: 67136489--67136556 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
67136479 CTCTTGCCTC
* *
67136489 TCTTTTCTTTT-TATTTCGTTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
67136510 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
67136531 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
67136551 CTCTTT
1 -TCTTT
67136557 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.01, C:0.18, G:0.04, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:67137478 original size:12 final size:11
Alignment explanation
Indices: 67137460--67137511 Score: 72
Period size: 11 Copynumber: 4.7 Consensus size: 11
67137450 CATTAAACAC
67137460 ATTTTTTTC-A
1 ATTTTTTTCGA
67137470 TATTTTTTTCGA
1 -ATTTTTTTCGA
67137482 ATTTTTTT-GA
1 ATTTTTTTCGA
67137492 ATTTTTTTTCGA
1 A-TTTTTTTCGA
67137504 ATTTTTTT
1 ATTTTTTT
67137512 TACTTGTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.08
11 31 0.82
12 4 0.11
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.71
Consensus pattern (11 bp):
ATTTTTTTCGA
Found at i:67139068 original size:30 final size:30
Alignment explanation
Indices: 67138983--67139079 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
67138973 TAAACTAAAA
* *
67138983 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
67139013 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
67139043 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
67139072 ATGAGCTA
1 -TGAGCTA
67139080 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:67141610 original size:29 final size:29
Alignment explanation
Indices: 67141577--67141636 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
67141567 ATAACCAAAC
*
67141577 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
67141606 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
67141635 CT
1 CT
67141637 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:67141629 original size:15 final size:15
Alignment explanation
Indices: 67141583--67141630 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
67141573 AAACCTACAA
*
67141583 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
67141598 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
67141612 AAACTTCATATCCAT
1 AAACTTCATATCCAT
67141627 AAAC
1 AAAC
67141631 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:67141994 original size:21 final size:20
Alignment explanation
Indices: 67141960--67142003 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
67141950 ACATTCTTGT
67141960 AAAGAGAAAACAAAGAAAAGA
1 AAAGAGAAAACAAA-AAAAGA
*
67141981 AAAGA-AAAAGCAAAAGAAGA
1 AAAGAGAAAA-CAAAAAAAGA
67142001 AAA
1 AAA
67142004 ATAAAATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.77, C:0.05, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAGAGAAAACAAAAAAAGA
Found at i:67142107 original size:11 final size:12
Alignment explanation
Indices: 67142075--67142105 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
67142065 TTGAGAGAAC
67142075 TTGAAAAAGCCT
1 TTGAAAAAGCCT
67142087 TTGAAAAAGCCT
1 TTGAAAAAGCCT
67142099 TTGAAAA
1 TTGAAAA
67142106 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:67146341 original size:30 final size:30
Alignment explanation
Indices: 67146256--67146343 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
67146246 TGAGCTAAAA
* *
67146256 TGAGCTAAGCTTTAGC-CCTTAAGCTAAAGT
1 TGAGCTAAGATTTAGCTCC-TAAGCTGAAGT
*
67146286 TGAGCTGAGATTATA-CTCCTAAGCTGAAGT
1 TGAGCTAAGATT-TAGCTCCTAAGCTGAAGT
* * *
67146316 TGAGCTAAGGTTTAGCTCGTGAGCTGAA
1 TGAGCTAAGATTTAGCTCCTAAGCTGAA
67146344 TATAAGCTAG
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
29 2 0.04
30 42 0.88
31 4 0.08
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCCTAAGCTGAAGT
Found at i:67147052 original size:10 final size:10
Alignment explanation
Indices: 67147039--67147088 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
67147029 AGCTCACTTG
*
67147039 AGCTCGATTC
1 AGCTCGATTT
67147049 AGCTCG-TTT
1 AGCTCGATTT
*
67147058 GAGCTAGAATTT
1 -AGCTCG-ATTT
67147070 AGCTCGATTT
1 AGCTCGATTT
67147080 AGCTC-ATTT
1 AGCTCGATTT
67147089 CTTTTTCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
9 6 0.18
10 20 0.59
11 5 0.15
12 3 0.09
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (10 bp):
AGCTCGATTT
Found at i:67147075 original size:21 final size:21
Alignment explanation
Indices: 67147027--67147083 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
67147017 TCAGCTCCTA
* *
67147027 TCAGCTC-ACTTGAGCTCGAT
1 TCAGCTCGATTTGAGCTAGAT
67147047 TCAGCTCG-TTTGAGCTAGAAT
1 TCAGCTCGATTTGAGCTAG-AT
*
67147068 TTAGCTCGATTT-AGCT
1 TCAGCTCGATTTGAGCT
67147084 CATTTCTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 15 0.48
21 13 0.42
22 3 0.10
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (21 bp):
TCAGCTCGATTTGAGCTAGAT
Found at i:67149731 original size:20 final size:21
Alignment explanation
Indices: 67149708--67149755 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
67149698 TCAGCTCCCA
*
67149708 TCAGCTCACTTGAGCTCG-AT
1 TCAGCTCACTTGAGCTAGAAT
**
67149728 TCAGCTCGTTTGAGCTAGAAT
1 TCAGCTCACTTGAGCTAGAAT
67149749 TCAGCTC
1 TCAGCTC
67149756 GATTTAGCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (21 bp):
TCAGCTCACTTGAGCTAGAAT
Found at i:67149752 original size:21 final size:20
Alignment explanation
Indices: 67149717--67149756 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
67149707 ATCAGCTCAC
*
67149717 TTGAGCTCGATTCAGCTCGT
1 TTGAGCTAGATTCAGCTCGT
67149737 TTGAGCTAGAATTCAGCTCG
1 TTGAGCTAG-ATTCAGCTCG
67149757 ATTTAGCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.33
Consensus pattern (20 bp):
TTGAGCTAGATTCAGCTCGT
Found at i:67155952 original size:76 final size:77
Alignment explanation
Indices: 67155837--67155994 Score: 273
Period size: 76 Copynumber: 2.1 Consensus size: 77
67155827 AATTTAGCTC
*
67155837 GTTTGAGCTAAATTTAGCTTCTTTCCAGCTTGTTTTCTTTACCATTTAAATAAATTAAGTGTTGT
1 GTTTGAGCTAAACTTAGCTTCTTTCCAGCTTGTTTTCTTTACCATTTAAATAAATTAAGTGTTGT
67155902 TTAATTATAATT
66 TTAATTATAATT
* *
67155914 GTTTGAGCTAAACTTAG-TTTTTTCCAGCTTGTTTTCTTTACCATTTGAATAAATTAAGTGTTGT
1 GTTTGAGCTAAACTTAGCTTCTTTCCAGCTTGTTTTCTTTACCATTTAAATAAATTAAGTGTTGT
67155978 TTAATTATAATT
66 TTAATTATAATT
*
67155990 ATTTG
1 GTTTG
67155995 CTATAGTTCA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
76 61 0.79
77 16 0.21
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.50
Consensus pattern (77 bp):
GTTTGAGCTAAACTTAGCTTCTTTCCAGCTTGTTTTCTTTACCATTTAAATAAATTAAGTGTTGT
TTAATTATAATT
Found at i:67158323 original size:11 final size:11
Alignment explanation
Indices: 67158307--67158345 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
67158297 TATACAAGTA
67158307 AAAAAAATTCG
1 AAAAAAATTCG
*
67158318 AAAAAAATTCAAA
1 AAAAAAATTC--G
67158331 AAAAAAATTCG
1 AAAAAAATTCG
67158342 AAAA
1 AAAA
67158346 GAAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 14 0.58
13 10 0.42
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (11 bp):
AAAAAAATTCG
Found at i:67158324 original size:13 final size:13
Alignment explanation
Indices: 67158306--67158351 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
67158296 TTATACAAGT
67158306 AAAAAAAATTCG-
1 AAAAAAAATTCGA
*
67158318 -AAAAAAATTCAA
1 AAAAAAAATTCGA
67158330 AAAAAAAATTCGA
1 AAAAAAAATTCGA
67158343 AAAGAAAAA
1 AAA-AAAAA
67158352 AAATCTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 10 0.34
13 14 0.48
14 5 0.17
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.13
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:67158352 original size:17 final size:16
Alignment explanation
Indices: 67158328--67158367 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
67158318 AAAAAAATTC
67158328 AAAAAAAAAAT-TCGAA
1 AAAAAAAAAATCT-GAA
67158344 AAGAAAAAAAATCTGAA
1 AA-AAAAAAAATCTGAA
67158361 AAAAAAA
1 AAAAAAA
67158368 GTGTTTAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.32
17 14 0.64
18 1 0.05
ACGTcount: A:0.78, C:0.05, G:0.07, T:0.10
Consensus pattern (16 bp):
AAAAAAAAAATCTGAA
Found at i:67159287 original size:9 final size:10
Alignment explanation
Indices: 67159280--67159336 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
67159270 AAGAGAAAAC
67159280 AAAGAAAAGA
1 AAAGAAAAGA
67159290 AAAGAAAAAGA
1 AAAG-AAAAGA
*
67159301 AAA-AGAAGAA
1 AAAGAAAAG-A
67159311 AAAGAAAATGA
1 AAAGAAAA-GA
67159322 AATA-AAAAGA
1 AA-AGAAAAGA
67159332 AAAGA
1 AAAGA
67159337 GAGGCAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 5 0.13
10 13 0.33
11 19 0.49
12 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:67159290 original size:5 final size:5
Alignment explanation
Indices: 67159280--67159336 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
67159270 AAGAGAAAAC
*
67159280 AAAGA AAAGA AAAGAA AAAGA AAA-A GAAGAA AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAGA AAAGA AAAG-A AAAGA AAA-GA AA-AGA
67159327 AAAGA AAAGA
1 AAAGA AAAGA
67159337 GAGGCAAAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 26 0.59
6 13 0.30
7 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:67159437 original size:29 final size:27
Alignment explanation
Indices: 67159405--67159497 Score: 91
Period size: 28 Copynumber: 3.3 Consensus size: 27
67159395 TTTGAAAAGC
* *
67159405 AAAAAGAAAACGAAAAAGAAAATGAATTG
1 AAAAAGAAAATGAAAAAGAAATTGAA--G
*
67159434 AAAAAGAGAATG-AAAAGAAATTTGAGAG
1 AAAAAGAAAATGAAAAAGAAA-TTGA-AG
*
67159462 AAAAAGAAGATGAAAAAGAAATTGAA-
1 AAAAAGAAAATGAAAAAGAAATTGAAG
67159488 ACAAAAGAAA
1 A-AAAAGAAA
67159498 CGAGTGATTC
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
26 1 0.02
27 8 0.15
28 23 0.43
29 21 0.39
30 1 0.02
ACGTcount: A:0.68, C:0.02, G:0.19, T:0.11
Consensus pattern (27 bp):
AAAAAGAAAATGAAAAAGAAATTGAAG
Found at i:67159453 original size:17 final size:17
Alignment explanation
Indices: 67159399--67159453 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
67159389 AAAGCCTTTG
*
67159399 AAAAGCAAAAAGAAAACGA
1 AAAAG-AAAATGAAAA-GA
**
67159418 AAAAGAAAATGAATTGA
1 AAAAGAAAATGAAAAGA
*
67159435 AAAAGAGAATGAAAAGA
1 AAAAGAAAATGAAAAGA
67159452 AA
1 AA
67159454 TTTGAGAGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
17 18 0.60
18 7 0.23
19 5 0.17
ACGTcount: A:0.71, C:0.04, G:0.18, T:0.07
Consensus pattern (17 bp):
AAAAGAAAATGAAAAGA
Found at i:67161688 original size:30 final size:30
Alignment explanation
Indices: 67161593--67161689 Score: 72
Period size: 30 Copynumber: 3.2 Consensus size: 30
67161583 AGCTCACTCC
* *
67161593 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * * * **
67161623 TAACTCAACTTCAGCTTAGGA-ATTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
67161653 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
67161683 TAGCTCA
1 TAGCTCA
67161690 TTTTAGTTTA
Statistics
Matches: 46, Mismatches: 18, Indels: 6
0.66 0.26 0.09
Matches are distributed among these distances:
29 2 0.04
30 37 0.80
31 7 0.15
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:67167956 original size:10 final size:10
Alignment explanation
Indices: 67167937--67167966 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
67167927 AGCTCGTCCG
67167937 AGCTCGATTTT
1 AGCTC-ATTTT
67167948 AGCTCATTTT
1 AGCTCATTTT
67167958 AGCTCATTT
1 AGCTCATTT
67167967 CTTTTCCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (10 bp):
AGCTCATTTT
Found at i:67170440 original size:40 final size:40
Alignment explanation
Indices: 67170248--67170433 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
67170238 TCGAATGATG
* * *
67170248 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
67170288 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
67170328 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
67170368 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
67170409 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
67170434 AACGAGTAGC
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 123 0.92
41 10 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:67170440 original size:80 final size:80
Alignment explanation
Indices: 67170248--67170466 Score: 270
Period size: 80 Copynumber: 2.8 Consensus size: 80
67170238 TCGAATGATG
* * **
67170248 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
67170312 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
* *
67170328 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCATT
67170392 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTA-AA
* **
67170409 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
67170467 TACGTGATTC
Statistics
Matches: 122, Mismatches: 11, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
79 16 0.13
80 97 0.80
81 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:67173556 original size:18 final size:18
Alignment explanation
Indices: 67173463--67173563 Score: 64
Period size: 19 Copynumber: 5.2 Consensus size: 18
67173453 TGCAATCAAA
*
67173463 CTTTT-TTTTCCCATTTT
1 CTTTTCTTTTCTCATTTT
*
67173480 CTTTTTCTTTTCTCACTTT
1 C-TTTTCTTTTCTCATTTT
*
67173499 CTTTTCTCTCTCTTTTGCTATTTT
1 C-TTT-TCT-T-TTCT-C-ATTTT
67173523 -TGTGTTCTTTTCTCATTTTT
1 CT-T-TTCTTTTCTCA-TTTT
67173543 CTTTTCTTTT-TCATTTT
1 CTTTTCTTTTCTCATTTT
67173560 CTTT
1 CTTT
67173564 CAATTGATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
17 9 0.13
18 7 0.10
19 23 0.34
20 9 0.13
21 5 0.07
22 5 0.07
23 5 0.07
24 5 0.07
ACGTcount: A:0.05, C:0.22, G:0.03, T:0.70
Consensus pattern (18 bp):
CTTTTCTTTTCTCATTTT
Found at i:67179751 original size:30 final size:30
Alignment explanation
Indices: 67179717--67179804 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
67179707 CTAGCTTATA
* *
67179717 TTCAGCTCATGAGCTAAACCTTAGCTCAAC
1 TTCAGCTTAAGAGCTAAACCTTAGCTCAAC
* * *
67179747 TTCAGCTTAGGAG-TATAATCTCAGCTCAAC
1 TTCAGCTTAAGAGCTA-AACCTTAGCTCAAC
* * *
67179777 TTTAGCTTAAGGGCTAAAGCTTAGCTCA
1 TTCAGCTTAAGAGCTAAACCTTAGCTCA
67179805 TTTAGCTCAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 2 0.04
30 43 0.91
31 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (30 bp):
TTCAGCTTAAGAGCTAAACCTTAGCTCAAC
Found at i:67180469 original size:20 final size:20
Alignment explanation
Indices: 67180446--67180493 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
67180436 AGCTCCGTCC
67180446 AGCTCAACTCAGCTCATTTA
1 AGCTCAACTCAGCTCATTTA
*** * *
67180466 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTA
67180486 AGCTCAAC
1 AGCTCAAC
67180494 CGAGCTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTA
Found at i:67186124 original size:13 final size:13
Alignment explanation
Indices: 67186106--67186134 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
67186096 CGGCTAACCT
67186106 ACATAATTAAATA
1 ACATAATTAAATA
67186119 ACATAATTAAATA
1 ACATAATTAAATA
67186132 ACA
1 ACA
67186135 CACAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:67188115 original size:30 final size:30
Alignment explanation
Indices: 67188039--67188116 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 30
67188029 TTCAACTTAC
* *
67188039 GAGCTAAACCTTAGCTCAACTTCAGCTTAG
1 GAGCTAAAGCTTAGCTCAACTTCAGCTCAG
** * * *
67188069 GAG-TTTAGCCTCAGCTCAACTTTAGCTCAT
1 GAGCTAAAG-CTTAGCTCAACTTCAGCTCAG
67188099 GAGCTAAAGCTTAGCTCA
1 GAGCTAAAGCTTAGCTCA
67188117 TTTTAGTTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
29 2 0.06
30 31 0.86
31 3 0.08
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (30 bp):
GAGCTAAAGCTTAGCTCAACTTCAGCTCAG
Found at i:67189849 original size:11 final size:10
Alignment explanation
Indices: 67189831--67189870 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
67189821 GTTATACAAG
67189831 TCAAAAAAAT
1 TCAAAAAAAT
67189841 TCGAAAAAAAT
1 TC-AAAAAAAT
67189852 TCAAAAAAAT
1 TCAAAAAAAT
67189862 TCAAAAAAA
1 TCAAAAAAA
67189871 ATCTGAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.70, C:0.10, G:0.03, T:0.17
Consensus pattern (10 bp):
TCAAAAAAAT
Found at i:67189855 original size:21 final size:22
Alignment explanation
Indices: 67189831--67189882 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
67189821 GTTATACAAG
*
67189831 TCAAAAAAATTCGAAAAAAAT-
1 TCAAAAAAATTCAAAAAAAATC
67189852 TCAAAAAAATTCAAAAAAAATC
1 TCAAAAAAATTCAAAAAAAATC
*
67189874 TGAAAAAAA
1 TCAAAAAAA
67189883 GTGTTTAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.69, C:0.10, G:0.04, T:0.17
Consensus pattern (22 bp):
TCAAAAAAATTCAAAAAAAATC
Found at i:67189871 original size:11 final size:11
Alignment explanation
Indices: 67189833--67189882 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
67189823 TATACAAGTC
*
67189833 AAAAAAATTCG
1 AAAAAAATTCA
67189844 AAAAAAATTC-
1 AAAAAAATTCA
67189854 AAAAAAATTCA
1 AAAAAAATTCA
*
67189865 AAAAAAATCTGA
1 AAAAAAAT-TCA
67189877 AAAAAA
1 AAAAAA
67189883 GTGTTTAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
10 10 0.28
11 18 0.50
12 8 0.22
ACGTcount: A:0.72, C:0.08, G:0.04, T:0.16
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:67190826 original size:6 final size:5
Alignment explanation
Indices: 67190802--67190858 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
67190792 AAGAGAAAAT
*
67190802 AAAGA AAAGA AAAGAA AAAGCA AAAG- AAGGA AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
67190849 AAAGA AAAGA
1 AAAGA AAAGA
67190859 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:67190855 original size:21 final size:21
Alignment explanation
Indices: 67190806--67190858 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
67190796 GAAAATAAAG
67190806 AAAAGAAAAGAAAAAGCAAAA
1 AAAAGAAAAGAAAAAGCAAAA
* * *
67190827 GAAGGAAAAGAAAATG-AAATA
1 AAAAGAAAAGAAAAAGCAAA-A
67190848 AAAAGAAAAGA
1 AAAAGAAAAGA
67190859 GAGGCAAGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (21 bp):
AAAAGAAAAGAAAAAGCAAAA
Found at i:67190938 original size:11 final size:12
Alignment explanation
Indices: 67190906--67190936 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
67190896 TTGAGAGAGC
67190906 TTGAAAAAGCCT
1 TTGAAAAAGCCT
67190918 TTGAAAAAGCCT
1 TTGAAAAAGCCT
67190930 TTGAAAA
1 TTGAAAA
67190937 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:67190947 original size:12 final size:12
Alignment explanation
Indices: 67190939--67190963 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67190929 TTTGAAAAGC
67190939 AAAAAGAAAATG
1 AAAAAGAAAATG
67190951 AAAAAGAAAATG
1 AAAAAGAAAATG
67190963 A
1 A
67190964 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:67190960 original size:18 final size:18
Alignment explanation
Indices: 67190933--67190988 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
67190923 AAAGCCTTTG
67190933 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
67190952 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
67190970 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
67190987 AA
1 AA
67190989 TTTGAGAGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:67190973 original size:30 final size:31
Alignment explanation
Indices: 67190939--67191020 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
67190929 TTTGAAAAGC
* *
67190939 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTA
* * *
67190969 AAAAAGAGAACG-AAAAGAAATTTGAGAGTA
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTA
*
67190999 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
67191021 TGAAACAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 8 0.19
30 25 0.60
31 9 0.21
ACGTcount: A:0.66, C:0.01, G:0.21, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTA
Found at i:67192809 original size:26 final size:26
Alignment explanation
Indices: 67192779--67192830 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
67192769 GATTGAATGA
67192779 ATATTTTATGAACTATCGAACACATT
1 ATATTTTATGAACTATCGAACACATT
67192805 ATATTTTATGAACTATCGAACACATT
1 ATATTTTATGAACTATCGAACACATT
67192831 TGAATTTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (26 bp):
ATATTTTATGAACTATCGAACACATT
Found at i:67193251 original size:30 final size:30
Alignment explanation
Indices: 67193175--67193252 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 30
67193165 TTCAACTTAC
* *
67193175 GAGCTAAACCTTAGCTCAACTTCAGCTTAG
1 GAGCTAAAGCTTAGCTCAACTTCAGCTCAG
** * * *
67193205 GAG-TTTAGCCTCAGCTCAACTTTAGCTCAT
1 GAGCTAAAG-CTTAGCTCAACTTCAGCTCAG
67193235 GAGCTAAAGCTTAGCTCA
1 GAGCTAAAGCTTAGCTCA
67193253 TTTTAGTTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
29 2 0.06
30 31 0.86
31 3 0.08
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (30 bp):
GAGCTAAAGCTTAGCTCAACTTCAGCTCAG
Found at i:67195176 original size:15 final size:15
Alignment explanation
Indices: 67195156--67195203 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
67195146 TCAAAGATGG
67195156 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
67195171 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
67195186 -TTTATGGATATAAA
1 GTTTATGGATATGAA
67195200 GTTT
1 GTTT
67195204 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:67195182 original size:29 final size:29
Alignment explanation
Indices: 67195150--67195209 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
67195140 AAGGATTCAA
* *
67195150 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGATTTATGGATATAAAGTTTATGT
*
67195179 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATGGATATAAAGTTTATGT
67195208 AG
1 AG
67195210 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGATTTATGGATATAAAGTTTATGT
Found at i:67198492 original size:30 final size:28
Alignment explanation
Indices: 67198439--67198494 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
67198429 TTCTTCCACG
* *
67198439 CTTTCTTTTTGCTCACTCTCTTTTTCAA
1 CTTTCTTTTTGCACACACTCTTTTTCAA
67198467 CTTTACTTTCTTGCACACACTCTTTTTC
1 CTTT-CTTT-TTGCACACACTCTTTTTC
67198495 TTTTTCGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.12, C:0.30, G:0.04, T:0.54
Consensus pattern (28 bp):
CTTTCTTTTTGCACACACTCTTTTTCAA
Found at i:67199547 original size:18 final size:18
Alignment explanation
Indices: 67199520--67199554 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
67199510 TATGTTCAAA
67199520 TTTTCAAATTTTGTTTTTT
1 TTTTCAAATTTT-TTTTTT
67199539 TTTTC-AATTTTTTTTT
1 TTTTCAAATTTTTTTTT
67199555 GAAACTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTCAAATTTTTTTTTT
Found at i:67203867 original size:13 final size:13
Alignment explanation
Indices: 67203849--67203877 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
67203839 CGGCTAACCT
67203849 ACATAATTAAATA
1 ACATAATTAAATA
67203862 ACATAATTAAATA
1 ACATAATTAAATA
67203875 ACA
1 ACA
67203878 CACAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:67204135 original size:10 final size:10
Alignment explanation
Indices: 67204102--67204150 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
67204092 AAAAAGGAAT
*
67204102 GAGCTGAAAC
1 GAGCTCAAAC
67204112 GAGCT-AAATTC
1 GAGCTCAAA--C
67204123 GAGCTCAAAC
1 GAGCTCAAAC
*
67204133 GAGCTAAAAC
1 GAGCTCAAAC
67204143 GAGCTCAA
1 GAGCTCAA
67204151 GTGAGCTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 3 0.09
10 22 0.65
11 6 0.18
12 3 0.09
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:67204157 original size:20 final size:21
Alignment explanation
Indices: 67204102--67204150 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
67204092 AAAAAGGAAT
* *
67204102 GAGCTGAAACGAGCTAAATTC
1 GAGCTCAAACGAGCTAAATAC
67204123 GAGCTCAAACGAGCTAAA-AC
1 GAGCTCAAACGAGCTAAATAC
67204143 GAGCTCAA
1 GAGCTCAA
67204151 GTGAGCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (21 bp):
GAGCTCAAACGAGCTAAATAC
Found at i:67209906 original size:15 final size:14
Alignment explanation
Indices: 67209882--67209926 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
67209872 GGATTCAAAG
67209882 ATGGGTTTATGGAT
1 ATGGGTTTATGGAT
* * *
67209896 ATGATGTTTATGTAG
1 ATG-GGTTTATGGAT
67209911 ATGGGTTTATGGAT
1 ATGGGTTTATGGAT
67209925 AT
1 AT
67209927 AAAGTTTTTG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.44
Consensus pattern (14 bp):
ATGGGTTTATGGAT
Found at i:67209933 original size:29 final size:29
Alignment explanation
Indices: 67209880--67209939 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
67209870 AAGGATTCAA
* *
67209880 AGATGGGTTTATGGATATGATGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
67209909 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
67209938 AG
1 AG
67209940 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:67213204 original size:30 final size:28
Alignment explanation
Indices: 67213151--67213206 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
67213141 TTCTTCCACG
* *
67213151 CTTTCTTTTTGCTCACTCTCTTTTTCAA
1 CTTTCTTTTTGCACACACTCTTTTTCAA
67213179 CTTTACTTTCTTGCACACACTCTTTTTC
1 CTTT-CTTT-TTGCACACACTCTTTTTC
67213207 TTTTTCGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.12, C:0.30, G:0.04, T:0.54
Consensus pattern (28 bp):
CTTTCTTTTTGCACACACTCTTTTTCAA
Found at i:67214281 original size:9 final size:9
Alignment explanation
Indices: 67214267--67214291 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
67214257 GTTTGAAATT
67214267 TTTTTTTCG
1 TTTTTTTCG
67214276 TTTTTTTCG
1 TTTTTTTCG
67214285 TTTTTTT
1 TTTTTTT
67214292 TAAACTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (9 bp):
TTTTTTTCG
Found at i:67214540 original size:29 final size:29
Alignment explanation
Indices: 67214507--67214566 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
67214497 AAGGATTCAA
* *
67214507 AGATGGGTTTATGGATATGAAGTTTTTGT
1 AGATGGATTTATGGATATAAAGTTTTTGT
67214536 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATGGATATAAAGTTTTTGT
67214565 AG
1 AG
67214567 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (29 bp):
AGATGGATTTATGGATATAAAGTTTTTGT
Found at i:67221326 original size:21 final size:21
Alignment explanation
Indices: 67221302--67221341 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
67221292 GAAAAAGGAA
*
67221302 TGAGCTGAAACGAGCTAAATT
1 TGAGCTCAAACGAGCTAAATT
67221323 TGAGCTCAAACGAGCTAAA
1 TGAGCTCAAACGAGCTAAA
67221342 ACAAGCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (21 bp):
TGAGCTCAAACGAGCTAAATT
Found at i:67223470 original size:30 final size:29
Alignment explanation
Indices: 67223415--67223478 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
67223405 TTTTTCAATT
* *
67223415 TCTTTTTCACTCTCAAATTTCTTTTCGTTC
1 TCTTTTTCAATCTCAAATCTCTTTTC-TTC
*
67223445 TCTTTTTCAATCTC-AATCTCATTTTCTTT
1 TCTTTTTCAATCTCAAATCTC-TTTTCTTC
67223474 TCTTT
1 TCTTT
67223479 GTTTTTCTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 12 0.40
30 18 0.60
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (29 bp):
TCTTTTTCAATCTCAAATCTCTTTTCTTC
Found at i:67223509 original size:20 final size:19
Alignment explanation
Indices: 67223469--67223508 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
67223459 AATCTCATTT
*
67223469 TCTTTTCTTTGTTTTTCTC
1 TCTTTTCTTTGTTTCTCTC
67223488 TCTTTTCTTTGTTTC-CTC
1 TCTTTTCTTTGTTTCTCTC
67223506 TCT
1 TCT
67223509 CGATTTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.00, C:0.25, G:0.05, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTTGTTTCTCTC
Found at i:67225714 original size:21 final size:21
Alignment explanation
Indices: 67225690--67225729 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
67225680 GAAAAAGGAA
*
67225690 TGAGCTGAAACGAGCTAAATT
1 TGAGCTCAAACGAGCTAAATT
67225711 TGAGCTCAAACGAGCTAAA
1 TGAGCTCAAACGAGCTAAA
67225730 ACGAGCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (21 bp):
TGAGCTCAAACGAGCTAAATT
Found at i:67229343 original size:30 final size:30
Alignment explanation
Indices: 67229258--67229354 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
67229248 TAAACTAAAA
* *
67229258 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
67229288 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
67229318 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
67229347 ATGAGCTA
1 -TGAGCTA
67229355 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:67231532 original size:30 final size:30
Alignment explanation
Indices: 67231461--67231543 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
67231451 CTTTTGTTTC
* *
67231461 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
67231492 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
67231521 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
67231544 TCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:67231543 original size:18 final size:18
Alignment explanation
Indices: 67231494--67231549 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
67231484 CACTCTCAAA
* *
67231494 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
67231511 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
67231529 TTTCATTTTCTTTTTTCTT
1 TTTCATTTTC-ATTTTCTT
67231548 TT
1 TT
67231550 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 17 0.57
19 9 0.30
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:67231550 original size:12 final size:12
Alignment explanation
Indices: 67231519--67231543 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67231509 TTTTTCAATC
67231519 TCATTTTCTTTT
1 TCATTTTCTTTT
67231531 TCATTTTCTTTT
1 TCATTTTCTTTT
67231543 T
1 T
67231544 TCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:67231561 original size:12 final size:12
Alignment explanation
Indices: 67231546--67231576 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
67231536 TTCTTTTTTC
67231546 TTTTCAAAGGCT
1 TTTTCAAAGGCT
67231558 TTTTCAAAGGCT
1 TTTTCAAAGGCT
67231570 TTTTCAA
1 TTTTCAA
67231577 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:67231647 original size:16 final size:15
Alignment explanation
Indices: 67231626--67231686 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
67231616 CTTGCCTCTC
67231626 TTTTCTTTTTATTTCA
1 TTTTCTTTTT-TTTCA
*
67231642 TTTTCTTTTTCTTC-
1 TTTTCTTTTTTTTCA
*
67231656 TTTTGCTTTTTCTTTTA
1 TTTT-CTTTTT-TTTCA
*
67231673 TTTTCTTTGTTTTC
1 TTTTCTTTTTTTTC
67231687 TCTTTACAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 17 0.46
17 4 0.11
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTTCTTTTTTTTCA
Found at i:67231664 original size:15 final size:14
Alignment explanation
Indices: 67231624--67231669 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
67231614 CTCTTGCCTC
*
67231624 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
67231639 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
67231654 TCTTTTGCTTTTTCT
1 TCTTTT-CTTTTTCT
67231669 T
1 T
67231670 TTATTTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 4 0.14
15 14 0.50
16 10 0.36
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:67231681 original size:21 final size:20
Alignment explanation
Indices: 67231642--67231691 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
67231632 TTTTATTTCA
67231642 TTTTCTTTTTCTTCTTTTGCT
1 TTTTCTTTTTCTTCTTTTG-T
*
67231663 TTTTCTTTTATTTTC-TTTGT
1 TTTTCTTTT-TCTTCTTTTGT
67231683 TTTCTCTTT
1 TTT-TCTTT
67231692 ACAAGAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 4 0.15
21 18 0.69
22 4 0.15
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTTCTTCTTTTGT
Found at i:67232633 original size:17 final size:17
Alignment explanation
Indices: 67232600--67232638 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
67232590 CATTAAACAC
*
67232600 TTTTTTTTCAGATTTTT
1 TTTTTTTTCAGAATTTT
67232617 TTTTCTTTTC-GAATTTT
1 TTTT-TTTTCAGAATTTT
67232634 TTTTT
1 TTTTT
67232639 GAATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 14 0.70
18 5 0.25
ACGTcount: A:0.10, C:0.08, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTTTTTCAGAATTTT
Found at i:67232637 original size:12 final size:12
Alignment explanation
Indices: 67232617--67232661 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
67232607 TCAGATTTTT
67232617 TTTTCTTTTCGAA
1 TTTT-TTTTCGAA
*
67232630 TTTTTTTTTGAA
1 TTTTTTTTCGAA
*
67232642 TTTTTTTTCAAA
1 TTTTTTTTCGAA
67232654 TTTTTTTT
1 TTTTTTTT
67232662 GACTTGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 25 0.86
13 4 0.14
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.73
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:67238368 original size:15 final size:15
Alignment explanation
Indices: 67238322--67238369 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
67238312 AAACCTACAA
*
67238322 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
67238337 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
67238351 AAACTTCATATCCAT
1 AAACTTCATATCCAT
67238366 AAAC
1 AAAC
67238370 CCACCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:67238606 original size:13 final size:13
Alignment explanation
Indices: 67238588--67238626 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
67238578 TCAAGTAAGT
67238588 TTCAAAAAAAAAA
1 TTCAAAAAAAAAA
67238601 TTC-AAAAAAAAA
1 TTCAAAAAAAAAA
*
67238613 TTGAAAAAATAAAA
1 TTCAAAAAA-AAAA
67238627 ATAAAATCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 11 0.48
13 8 0.35
14 4 0.17
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (13 bp):
TTCAAAAAAAAAA
Found at i:67238619 original size:21 final size:21
Alignment explanation
Indices: 67238595--67238640 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
67238585 AGTTTCAAAA
67238595 AAAAAATTCAAAAA-AAAAT-TG
1 AAAAAA-T-AAAAATAAAATCTG
67238616 AAAAAATAAAAATAAAATCTG
1 AAAAAATAAAAATAAAATCTG
67238637 AAAA
1 AAAA
67238641 TTTGAACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.22
20 6 0.26
21 12 0.52
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (21 bp):
AAAAAATAAAAATAAAATCTG
Found at i:67239556 original size:12 final size:12
Alignment explanation
Indices: 67239541--67239574 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
67239531 CTTGAAAGAG
* *
67239541 ATTGAGAAAGTC
1 ATTGAAAAAGCC
67239553 ATTGAAAAAGCC
1 ATTGAAAAAGCC
67239565 ATTGAAAAAG
1 ATTGAAAAAG
67239575 AAAAAGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.21, T:0.21
Consensus pattern (12 bp):
ATTGAAAAAGCC
Found at i:67239706 original size:30 final size:28
Alignment explanation
Indices: 67239670--67239725 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
67239660 AAGCGAAAAA
* *
67239670 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
67239700 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
67239726 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:67243012 original size:15 final size:15
Alignment explanation
Indices: 67242966--67243013 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
67242956 AAACCTACAA
*
67242966 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
67242981 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
67242995 AAACTTCATATCCAT
1 AAACTTCATATCCAT
67243010 AAAC
1 AAAC
67243014 CCACCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:67243847 original size:13 final size:13
Alignment explanation
Indices: 67243829--67243857 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
67243819 CGGCTAACCT
67243829 ACATAATTAAATA
1 ACATAATTAAATA
67243842 ACATAATTAAATA
1 ACATAATTAAATA
67243855 ACA
1 ACA
67243858 CACAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:67245392 original size:30 final size:31
Alignment explanation
Indices: 67245321--67245392 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 31
67245311 CTTTTGTTTC
* *
67245321 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCATCTTCATTTTCAATCTCA
*
67245352 AATTTC-TTTTCGT-TCTCATTTTCAATCTC-
1 AATTTCTTTTTCATCT-TCATTTTCAATCTCA
*
67245381 ATTTTCTTTTTC
1 AATTTCTTTTTC
67245393 TTTTTCTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 6 0.17
30 23 0.66
31 6 0.17
ACGTcount: A:0.15, C:0.24, G:0.01, T:0.60
Consensus pattern (31 bp):
AATTTCTTTTTCATCTTCATTTTCAATCTCA
Found at i:67245494 original size:5 final size:5
Alignment explanation
Indices: 67245484--67245540 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
67245474 CTCTTGCCTC
*
67245484 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
67245531 TCTTT TCTTT
1 TCTTT TCTTT
67245541 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:67245524 original size:15 final size:14
Alignment explanation
Indices: 67245484--67245540 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
67245474 CTCTTGCCTC
*
67245484 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
67245499 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
67245514 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
67245531 TCTTTTCTTT
1 TCTTTTCTTT
67245541 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:67245541 original size:21 final size:21
Alignment explanation
Indices: 67245484--67245551 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
67245474 CTCTTGCCTC
* *
67245484 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
67245505 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
67245526 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
67245546 CTCTTT
1 -TCTTT
67245552 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:67246514 original size:12 final size:12
Alignment explanation
Indices: 67246468--67246514 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
67246458 TTCAGATTTT
67246468 TTTTCTTTTCGAAA
1 TTTT-TTTTCG-AA
*
67246482 TTTTTTTTTTGAA
1 -TTTTTTTTCGAA
67246495 TTTTTTTTCGAA
1 TTTTTTTTCGAA
67246507 TTTTTTTT
1 TTTTTTTT
67246515 GACTTGTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
12 19 0.63
13 2 0.07
14 5 0.17
15 4 0.13
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.72
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:67251487 original size:22 final size:22
Alignment explanation
Indices: 67251445--67251487 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
67251435 TCTTGAAGTA
*
67251445 TTAAAAAAAAGAAATACGAAAT
1 TTAAAAAAAAGAAAGACGAAAT
*
67251467 TTAAACAAAAA-AAAGAGGAAA
1 TTAAA-AAAAAGAAAGACGAAA
67251488 AACAGAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.14
Consensus pattern (22 bp):
TTAAAAAAAAGAAAGACGAAAT
Found at i:67252403 original size:33 final size:35
Alignment explanation
Indices: 67252366--67252430 Score: 100
Period size: 33 Copynumber: 1.9 Consensus size: 35
67252356 ATAAAGAATT
67252366 TGAAAGAAA-AAAAGAA-ACAA-AAGAAAAAGAGTG
1 TGAAAGAAAGAAAA-AAGACAATAAGAAAAAGAGTG
67252399 TGAAAGAAAGAAAAAAGACAATAAGAAAAAGA
1 TGAAAGAAAGAAAAAAGACAATAAGAAAAAGA
67252431 AAAATGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 11 0.38
34 8 0.28
35 10 0.34
ACGTcount: A:0.71, C:0.03, G:0.20, T:0.06
Consensus pattern (35 bp):
TGAAAGAAAGAAAAAAGACAATAAGAAAAAGAGTG
Found at i:67252432 original size:6 final size:6
Alignment explanation
Indices: 67252401--67252479 Score: 61
Period size: 6 Copynumber: 12.8 Consensus size: 6
67252391 AAAGAGTGTG
* **
67252401 AAAGAA AGA-AA AAAGACA ATAAGAA AAAGAA AAATGAA ATTGAA AAAGAA
1 AAAGAA AAAGAA AAAGA-A A-AAGAA AAAGAA AAA-GAA AAAGAA AAAGAA
** * *
67252451 AGTGAA AAAGAA AAAGAG AAGGAA AAAGA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGA
67252480 TATCGAGATC
Statistics
Matches: 55, Mismatches: 14, Indels: 8
0.71 0.18 0.10
Matches are distributed among these distances:
5 4 0.07
6 39 0.71
7 8 0.15
8 4 0.07
ACGTcount: A:0.72, C:0.01, G:0.20, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:67252536 original size:42 final size:41
Alignment explanation
Indices: 67252427--67252539 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 41
67252417 CAATAAGAAA
*
67252427 AAGAAAAATGAAATTGAAAAAGAAAGTGAAAAAGAAAAAGAG
1 AAGAAAAA-GAAATTGAAAAAGAGAGTGAAAAAGAAAAAGAG
* * * ** ***
67252469 AAGGAAAAAGATATCGAGATCGAGAGTGAAAAAGAATGCGAG
1 AA-GAAAAAGAAATTGAAAAAGAGAGTGAAAAAGAAAAAGAG
67252511 AAGAAAAAGAAAATTGAAAAAGAGAGTGA
1 AAGAAAAAG-AAATTGAAAAAGAGAGTGA
67252540 GTATGAAGAA
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
41 7 0.13
42 42 0.76
43 6 0.11
ACGTcount: A:0.61, C:0.03, G:0.26, T:0.11
Consensus pattern (41 bp):
AAGAAAAAGAAATTGAAAAAGAGAGTGAAAAAGAAAAAGAG
Found at i:67254041 original size:10 final size:10
Alignment explanation
Indices: 67254026--67254059 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
67254016 CACAACTCAA
67254026 CTCATTTGAG
1 CTCATTTGAG
*
67254036 CTCATTTCAG
1 CTCATTTGAG
*
67254046 CTCGTTTGAG
1 CTCATTTGAG
67254056 CTCA
1 CTCA
67254060 ACCGAGCTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (10 bp):
CTCATTTGAG
Found at i:67254269 original size:20 final size:19
Alignment explanation
Indices: 67254240--67254284 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
67254230 TAATTTGTCC
*
67254240 TAATTAGTTAAGTTGTTATT
1 TAATTAGTT-AGTTGCTATT
* *
67254260 TAATTTGTTAGTTGCTGTT
1 TAATTAGTTAGTTGCTATT
67254279 TAATTA
1 TAATTA
67254285 TGATTAAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.56
Consensus pattern (19 bp):
TAATTAGTTAGTTGCTATT
Found at i:67258409 original size:5 final size:5
Alignment explanation
Indices: 67258399--67258455 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
67258389 CTCTTGCCTC
*
67258399 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
67258446 TCTTT TCTTT
1 TCTTT TCTTT
67258456 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:67258439 original size:15 final size:14
Alignment explanation
Indices: 67258399--67258455 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
67258389 CTCTTGCCTC
*
67258399 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
67258414 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
67258429 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
67258446 TCTTTTCTTT
1 TCTTTTCTTT
67258456 ATTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:67258465 original size:21 final size:20
Alignment explanation
Indices: 67258397--67258466 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
67258387 GCCTCTTGCC
67258397 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
67258420 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
67258440 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
67258460 TCTCTTT
1 TCTCTTT
67258467 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:67259384 original size:11 final size:11
Alignment explanation
Indices: 67259368--67259409 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
67259358 ATAAATCACT
67259368 TTTTTTTTCAA
1 TTTTTTTTCAA
*
67259379 TTTTTTTTGAA
1 TTTTTTTTCAA
*
67259390 -TTTTTTTCGA
1 TTTTTTTTCAA
67259400 TTTTTTTTCA
1 TTTTTTTTCA
67259410 GACTTGTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.74
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:67259714 original size:14 final size:14
Alignment explanation
Indices: 67259667--67259714 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
67259657 GTACGAATGG
*
67259667 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
67259681 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
67259695 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
67259709 ATTGGT
1 AATGGT
67259715 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:67268281 original size:20 final size:20
Alignment explanation
Indices: 67268256--67268303 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
67268246 ATTCACGAAT
67268256 ATTTTTTT-GAATTGTTTTGA
1 ATTTTTTTAGAATT-TTTTGA
67268276 ATTTTTTTAGAATTTTTTGA
1 ATTTTTTTAGAATTTTTTGA
67268296 ATTTTTTT
1 ATTTTTTT
67268304 TCAAATACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (20 bp):
ATTTTTTTAGAATTTTTTGA
Found at i:67268303 original size:10 final size:10
Alignment explanation
Indices: 67268256--67268303 Score: 71
Period size: 10 Copynumber: 4.8 Consensus size: 10
67268246 ATTCACGAAT
67268256 ATTTTTTTGA
1 ATTTTTTTGA
*
67268266 ATTGTTTTGA
1 ATTTTTTTGA
67268276 ATTTTTTTAGA
1 ATTTTTTT-GA
67268287 A-TTTTTTGA
1 ATTTTTTTGA
67268296 ATTTTTTT
1 ATTTTTTT
67268304 TCAAATACTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 3 0.09
10 28 0.82
11 3 0.09
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (10 bp):
ATTTTTTTGA
Found at i:67269531 original size:52 final size:50
Alignment explanation
Indices: 67269474--67269596 Score: 165
Period size: 50 Copynumber: 2.4 Consensus size: 50
67269464 ATGAACAAAT
* *
67269474 GAGTTACTTAATGCATGACTTAATTTAATGATACAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAATTT-ATGATACAAAC-TTAACTAACATGA
* * * *
67269526 GAGTTACATAATGCATGTCATAATTTATGATGCAAACTTAACTTACATGA
1 GAGTTACATAATGCATGACTTAATTTATGATACAAACTTAACTAACATGA
*
67269576 GAATTACATAATGCATGACTT
1 GAGTTACATAATGCATGACTT
67269597 TATTAAATAC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 29 0.47
51 10 0.16
52 23 0.37
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (50 bp):
GAGTTACATAATGCATGACTTAATTTATGATACAAACTTAACTAACATGA
Found at i:67269669 original size:39 final size:39
Alignment explanation
Indices: 67269613--67269689 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
67269603 ATACAGAACA
67269613 CATACTAATGATATTCAAACTATAACATAATTAAAGACT
1 CATACTAATGATATTCAAACTATAACATAATTAAAGACT
*
67269652 CATACTAATGATGTTCAAACTATAACATAATTAAAGAC
1 CATACTAATGATATTCAAACTATAACATAATTAAAGAC
67269690 ATAAACTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.30
Consensus pattern (39 bp):
CATACTAATGATATTCAAACTATAACATAATTAAAGACT
Found at i:67269698 original size:39 final size:39
Alignment explanation
Indices: 67269616--67269698 Score: 132
Period size: 39 Copynumber: 2.1 Consensus size: 39
67269606 CAGAACACAT
*
67269616 ACTAATGATATTCAAACTATAACATAATTAAAGACTCAT
1 ACTAATGATATTCAAACTATAACATAATTAAAGACTCAA
*
67269655 ACTAATGATGTTCAAACTATAACATAATTAAAGACAT-AA
1 ACTAATGATATTCAAACTATAACATAATTAAAGAC-TCAA
67269694 ACTAA
1 ACTAA
67269699 AATAACTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
39 40 0.98
40 1 0.02
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (39 bp):
ACTAATGATATTCAAACTATAACATAATTAAAGACTCAA
Found at i:67272970 original size:25 final size:26
Alignment explanation
Indices: 67272941--67273004 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
67272931 ATCTCTAATC
67272941 TTTCCTCTCGATTTTT-CATC-TTTCT
1 TTTCCTCTCGATTTTTAC-TCTTTTCT
67272966 TTTCCT-TCGCATTTTTACTCTTTTCT
1 TTTCCTCTCG-ATTTTTACTCTTTTCT
*
67272992 TTTTCTCTC-ATTT
1 TTTCCTCTCGATTT
67273005 GTTCCACAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
24 3 0.09
25 18 0.53
26 11 0.32
27 2 0.06
ACGTcount: A:0.08, C:0.27, G:0.03, T:0.62
Consensus pattern (26 bp):
TTTCCTCTCGATTTTTACTCTTTTCT
Found at i:67276343 original size:10 final size:10
Alignment explanation
Indices: 67276328--67276354 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
67276318 TACTCCTTCA
67276328 AGCTCAAATC
1 AGCTCAAATC
67276338 AGCTCAAATC
1 AGCTCAAATC
67276348 AGCTCAA
1 AGCTCAA
67276355 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:67282181 original size:30 final size:30
Alignment explanation
Indices: 67282147--67282243 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
67282137 TAAACTAAAA
67282147 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
67282177 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
67282207 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
67282237 TGAGCTA
1 TGAGCTA
67282244 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:67284503 original size:30 final size:30
Alignment explanation
Indices: 67284432--67284514 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
67284422 CTTTTGTTTC
* *
67284432 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
67284463 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
67284492 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
67284515 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:67284514 original size:18 final size:18
Alignment explanation
Indices: 67284465--67284520 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
67284455 CACTCTCAAA
* *
67284465 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
67284482 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
67284500 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
67284519 TT
1 TT
67284521 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:67284521 original size:12 final size:12
Alignment explanation
Indices: 67284490--67284514 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67284480 TTTTTCAATC
67284490 TCATTTTCTTTT
1 TCATTTTCTTTT
67284502 TCATTTTCTTTT
1 TCATTTTCTTTT
67284514 T
1 T
67284515 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:67284590 original size:5 final size:5
Alignment explanation
Indices: 67284580--67284636 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
67284570 CTCTTGCCTC
*
67284580 TCTTT TCTTT T-TATT TCTTTT TCTTT T-TCT TCTTTT TCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TC-TTT TC-TTT TCTTT
67284627 TCTTT TCTTT
1 TCTTT TCTTT
67284637 ATTTTCTCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 4 0.09
5 26 0.58
6 14 0.31
7 1 0.02
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:67284600 original size:15 final size:15
Alignment explanation
Indices: 67284582--67284636 Score: 74
Period size: 16 Copynumber: 3.5 Consensus size: 15
67284572 CTTGCCTCTC
*
67284582 TTTTCTTTTTATTTCT
1 TTTTCTTTTTCTTT-T
*
67284598 TTTTCTTTTTCTTCT
1 TTTTCTTTTTCTTTT
67284613 TTTTCTTTTTCTTTT
1 TTTTCTTTTTCTTTT
67284628 CTTTTCTTT
1 -TTTTCTTT
67284637 ATTTTCTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
15 15 0.43
16 20 0.57
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTTCTTTT
Found at i:67284602 original size:6 final size:6
Alignment explanation
Indices: 67284593--67284636 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
67284583 TTTCTTTTTA
67284593 TTTCTT TTTCTT TTTC-- -TTCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
67284636 T
1 T
67284637 ATTTTCTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 3 0.09
5 10 0.29
6 21 0.62
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:67284604 original size:21 final size:20
Alignment explanation
Indices: 67284580--67284647 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 20
67284570 CTCTTGCCTC
67284580 TCTTTTCTTTTTATTTCTTTT
1 TCTTTTCTTTTT-TTTCTTTT
*
67284601 TCTTTTTCTTCTTTTTCTTTT
1 TC-TTTTCTTTTTTTTCTTTT
* *
67284622 TCTTTTCTTTTCTTTATTTT
1 TCTTTTCTTTTTTTTCTTTT
67284642 CTCTTT
1 -TCTTT
67284648 ACAAGAATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.37
21 17 0.41
22 9 0.22
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (20 bp):
TCTTTTCTTTTTTTTCTTTT
Found at i:67284635 original size:25 final size:25
Alignment explanation
Indices: 67284584--67284632 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
67284574 TGCCTCTCTT
*
67284584 TTCTTTTTATTTCTTTTTCTTTTTC
1 TTCTTTTTCTTTCTTTTTCTTTTTC
*
67284609 TTCTTTTTCTTTTTCTTTTCTTTT
1 TTCTTTTTCTTTCT-TTTTCTTTT
67284633 CTTTATTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (25 bp):
TTCTTTTTCTTTCTTTTTCTTTTTC
Found at i:67286772 original size:30 final size:30
Alignment explanation
Indices: 67286738--67286823 Score: 102
Period size: 30 Copynumber: 2.9 Consensus size: 30
67286728 GCTCACTCCT
67286738 AGCTCATA-TTCAGCTCACGAGCTAAACCTC
1 AGCTCA-ACTTCAGCTCACGAGCTAAACCTC
* * * * *
67286768 AGCTCAACTTCAGCTTAGGAGTTTAATCTC
1 AGCTCAACTTCAGCTCACGAGCTAAACCTC
*
67286798 AGCTCAACTTTAGCTCACGAGCTAAA
1 AGCTCAACTTCAGCTCACGAGCTAAA
67286824 GCTTAGCCCA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
29 1 0.02
30 44 0.98
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (30 bp):
AGCTCAACTTCAGCTCACGAGCTAAACCTC
Found at i:67289463 original size:47 final size:47
Alignment explanation
Indices: 67289411--67289508 Score: 178
Period size: 47 Copynumber: 2.1 Consensus size: 47
67289401 ATGCATATGT
*
67289411 GCCGTCCAAAGGAAATGTATGACACTAATCCATATGCATGTATCCAA
1 GCCGTCCAAAAGAAATGTATGACACTAATCCATATGCATGTATCCAA
*
67289458 GCCGTCCAAAAGAAATGTATGACATTAATCCATATGCATGTATCCAA
1 GCCGTCCAAAAGAAATGTATGACACTAATCCATATGCATGTATCCAA
67289505 GCCG
1 GCCG
67289509 CCTAAGTGCA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (47 bp):
GCCGTCCAAAAGAAATGTATGACACTAATCCATATGCATGTATCCAA
Found at i:67291105 original size:30 final size:30
Alignment explanation
Indices: 67291071--67291167 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
67291061 AGCTCACTCC
67291071 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
67291101 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
67291131 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
67291161 TAGCTCA
1 TAGCTCA
67291168 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Done.