Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 283 of 297
Found at i:96217361 original size:26 final size:26
Alignment explanation
Indices: 96217332--96217413 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
96217322 TGATACAAAT
96217332 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
96217358 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
96217384 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
96217410 TGAT
1 TGAT
96217414 GGGAATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:96219073 original size:27 final size:27
Alignment explanation
Indices: 96219034--96219254 Score: 272
Period size: 27 Copynumber: 8.2 Consensus size: 27
96219024 GGAGGCGTCT
96219034 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTATGCCACAATTATCTGATC
* *
96219061 TGGTGGCTCTGCCAC-ATATATCTGTTC
1 TGGTGGCTATGCCACAAT-TATCTGATC
* *
96219088 TGGTGGCTATGCCACGATTATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATC
*
96219115 TGGTGGCTATGCCACGATTATCTGATC
1 TGGTGGCTATGCCACAATTATCTGATC
*
96219142 TGGTGGCTCTGCCAC-ATATATCT-ATTC
1 TGGTGGCTATGCCACAAT-TATCTGA-TC
*
96219169 TGGTGGCTATGCCACAAATATCTGATC
1 TGGTGGCTATGCCACAATTATCTGATC
* *
96219196 TGGTGGCTCTGCCACAGA-TATCTGTTC
1 TGGTGGCTATGCCACA-ATTATCTGATC
*
96219223 TGGTGGCTCTGCCACAA-TATCTGTATC
1 TGGTGGCTATGCCACAATTATCTG-ATC
96219250 TGGTG
1 TGGTG
96219255 ACTTCGTCAC
Statistics
Matches: 176, Mismatches: 10, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
26 12 0.07
27 159 0.90
28 5 0.03
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (27 bp):
TGGTGGCTATGCCACAATTATCTGATC
Found at i:96219170 original size:81 final size:81
Alignment explanation
Indices: 96219034--96219254 Score: 347
Period size: 81 Copynumber: 2.7 Consensus size: 81
96219024 GGAGGCGTCT
*
96219034 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATG
1 TGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATG
* * *
96219099 CCACGATTATCTGTTC
66 CCACAAATATCTGATC
*
96219115 TGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTATTCTGGTGGCTATG
1 TGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATG
96219180 CCACAAATATCTGATC
66 CCACAAATATCTGATC
* *
96219196 TGGTGGCTCTGCCACAGA-TATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTG
1 TGGTGGCTATGCCAC-GATTATCTGATCTGGTGGCTCTGCCACATATATCTGT-TCTGGTG
96219255 ACTTCGTCAC
Statistics
Matches: 130, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
80 7 0.05
81 121 0.93
82 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (81 bp):
TGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATG
CCACAAATATCTGATC
Found at i:96224412 original size:13 final size:12
Alignment explanation
Indices: 96224380--96224413 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
96224370 TTACTATATA
96224380 TATATAATAACT
1 TATATAATAACT
96224392 TA-ATAATATACT
1 TATATAATA-ACT
96224404 TATATAATAA
1 TATATAATAA
96224414 GTAAATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:96224514 original size:21 final size:20
Alignment explanation
Indices: 96224490--96224535 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
96224480 AAAATCTTAT
96224490 AATATAATTATTTAATTAATA
1 AATATAATTATTTAA-TAATA
** *
96224511 AATATCTTTTTTTAATAATA
1 AATATAATTATTTAATAATA
96224531 AATAT
1 AATAT
96224536 CTATTAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
AATATAATTATTTAATAATA
Found at i:96224546 original size:20 final size:20
Alignment explanation
Indices: 96224506--96224546 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
96224496 ATTATTTAAT
* **
96224506 TAATAAATATCTTTTTTTAA
1 TAATAAATATCTATTAATAA
96224526 TAATAAATATCTATTAATAA
1 TAATAAATATCTATTAATAA
96224546 T
1 T
96224547 TAAATACATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATAAATATCTATTAATAA
Found at i:96226586 original size:27 final size:27
Alignment explanation
Indices: 96226556--96226912 Score: 445
Period size: 27 Copynumber: 13.2 Consensus size: 27
96226546 CGATTTACAA
** *
96226556 AATTACTGAAATACCTTTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
96226583 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
96226610 AATTACTAAAATATCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
96226637 AATTAC-CAACATACCCCTATAGGGTAA
1 AATTACTGAA-ATACCCCTGTAGGGTAG
* *
96226664 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
96226691 AATTA-TCGAAATACCCCTATAAGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
96226718 AATTACAGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
96226745 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
96226772 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
96226799 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
96226826 AATTACCGAAATACCCTTGTAGGGTTG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
96226853 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
96226880 AATTACT-AAGATA-CCCTCGTGGGGTAA
1 AATTACTGAA-ATACCCCT-GTAGGGTAG
96226907 AATTAC
1 AATTAC
96226913 CATTTTGCCC
Statistics
Matches: 289, Mismatches: 33, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
26 10 0.03
27 276 0.96
28 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:96227353 original size:22 final size:22
Alignment explanation
Indices: 96227301--96227365 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
96227291 GCCAATTATT
* *
96227301 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
96227323 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
96227345 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
96227366 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:96227604 original size:27 final size:26
Alignment explanation
Indices: 96227565--96227631 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
96227555 CCATACCACA
* *
96227565 AATATCAGTTCTGGTGGCTCTG-CTAC
1 AATATCTGTTCTGGTGACTCTGTC-AC
*
96227591 AGTATCTGTATCTGGTGACTCTGTCAC
1 AATATCTGT-TCTGGTGACTCTGTCAC
96227618 AATATCTGTTCTGG
1 AATATCTGTTCTGG
96227632 CAGTCATACT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 12 0.34
27 22 0.63
28 1 0.03
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.37
Consensus pattern (26 bp):
AATATCTGTTCTGGTGACTCTGTCAC
Found at i:96227770 original size:18 final size:18
Alignment explanation
Indices: 96227749--96227783 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96227739 TTGCATTCAC
96227749 ATTCTAATTCTGATTCTG
1 ATTCTAATTCTGATTCTG
* *
96227767 ATTCTCATTTTGATTCT
1 ATTCTAATTCTGATTCT
96227784 AGTTCTGATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (18 bp):
ATTCTAATTCTGATTCTG
Found at i:96227869 original size:34 final size:34
Alignment explanation
Indices: 96227810--96227874 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
96227800 CTTATTCTGT
* *
96227810 AATGGGCTAAGGCCCATCTGGTACTGTAAGTTAC
1 AATGGGCTAAGGCCCATCTGATACTGAAAGTTAC
96227844 AATGGGCTAAGGCCCAAT-TGATACTGAAAGT
1 AATGGGCTAAGGCCC-ATCTGATACTGAAAGT
96227875 GTAAGTAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (34 bp):
AATGGGCTAAGGCCCATCTGATACTGAAAGTTAC
Found at i:96236389 original size:19 final size:19
Alignment explanation
Indices: 96236365--96236402 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
96236355 TTTAAGGTAA
96236365 ACAACACCCGATTAAAACC
1 ACAACACCCGATTAAAACC
*
96236384 ACAACACCCGTTTAAAACC
1 ACAACACCCGATTAAAACC
96236403 TTATTTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.37, G:0.05, T:0.13
Consensus pattern (19 bp):
ACAACACCCGATTAAAACC
Found at i:96238266 original size:6 final size:6
Alignment explanation
Indices: 96238255--96238288 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
96238245 TCCTCCTATC
96238255 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
96238289 ATTATTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:96241257 original size:13 final size:13
Alignment explanation
Indices: 96241235--96241267 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
96241225 TTGCTTTAGT
96241235 TTAA-TTAGTTAA
1 TTAATTTAGTTAA
96241247 TTAATTTAGTTAA
1 TTAATTTAGTTAA
*
96241260 TTAGTTTA
1 TTAATTTA
96241268 ATAAACAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (13 bp):
TTAATTTAGTTAA
Found at i:96250248 original size:79 final size:82
Alignment explanation
Indices: 96250137--96250321 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
96250127 GCTACTCGTT
* *
96250137 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
96250200 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
96250217 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
96250280 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
96250297 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
96250322 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:96250321 original size:40 final size:40
Alignment explanation
Indices: 96250118--96250321 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
96250108 CGGAATTTAA
** *
96250118 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
96250158 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
96250198 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
96250237 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
96250277 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
96250317 CCGGA
1 CCGGA
96250322 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:96269831 original size:27 final size:26
Alignment explanation
Indices: 96269801--96269960 Score: 176
Period size: 27 Copynumber: 5.9 Consensus size: 26
96269791 TTGATTGATC
*
96269801 AAAATGACTTTCTTGCCCTAATGTGGT
1 AAAATGACTTT-TTGCCCTTATGTGGT
*
96269828 AAAATGATTGTTTTGCCCTTATGTGGT
1 AAAATGACT-TTTTGCCCTTATGTGGT
* * *
96269855 AAAATGATTGTTTTTCCTTTATGTGGT
1 AAAATGACT-TTTTGCCCTTATGTGGT
*
96269882 AAAATGACTGTTTTTCCCTTATGTGGT
1 AAAATGACT-TTTTGCCCTTATGTGGT
*
96269909 AAAATGACTATTTTGCCCTTATATGGT
1 AAAATGACT-TTTTGCCCTTATGTGGT
* * *
96269936 AAGATAACTGTTTTGCCCCTATGTG
1 AAAATGACT-TTTTGCCCTTATGTG
96269961 ATGTATATAT
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
27 116 0.98
28 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.42
Consensus pattern (26 bp):
AAAATGACTTTTTGCCCTTATGTGGT
Found at i:96269879 original size:54 final size:54
Alignment explanation
Indices: 96269801--96269960 Score: 205
Period size: 54 Copynumber: 3.0 Consensus size: 54
96269791 TTGATTGATC
* *
96269801 AAAATGACT-TTCTTGCCCTAATGTGGTAAAATGATTGTTTTGCCCTTATGTGGT
1 AAAATGACTATT-TTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTTATGTGGT
* * * * *
96269855 AAAATGATTGTTTTTCCTTTATGTGGTAAAATGACTGTTTTTCCCTTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTTATGTGGT
* * * *
96269909 AAAATGACTATTTTGCCCTTATATGGTAAGATAACTGTTTTGCCCCTATGTG
1 AAAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTTATGTG
96269961 ATGTATATAT
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 88 0.98
55 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.42
Consensus pattern (54 bp):
AAAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTTATGTGGT
Found at i:96269948 original size:81 final size:81
Alignment explanation
Indices: 96269801--96269949 Score: 210
Period size: 81 Copynumber: 1.8 Consensus size: 81
96269791 TTGATTGATC
* * * * *
96269801 AAAATGACTTTCTTGCCCTAATGTGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATGATTGT
1 AAAATGACTTTCTTGCCCTAATGTGGTAAAATGACTATTTTGCCCTTATATGGTAAAATAACTGT
96269866 TTTTCCTTTATGTGGT
66 TTTTCCTTTATGTGGT
* * *
96269882 AAAATGACTGTT-TTTCCCTTATGTGGTAAAATGACTATTTTGCCCTTATATGGTAAGATAACTG
1 AAAATGACT-TTCTTGCCCTAATGTGGTAAAATGACTATTTTGCCCTTATATGGTAAAATAACTG
96269946 TTTT
65 TTTT
96269950 GCCCCTATGT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
81 57 0.97
82 2 0.03
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (81 bp):
AAAATGACTTTCTTGCCCTAATGTGGTAAAATGACTATTTTGCCCTTATATGGTAAAATAACTGT
TTTTCCTTTATGTGGT
Found at i:96270689 original size:40 final size:40
Alignment explanation
Indices: 96270644--96270720 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
96270634 ATTTGCTTTG
96270644 GTTTATAACTTCTAGAGATAGGAAAACTCTAGTTTTCCTA
1 GTTTATAACTTCTAGAGATAGGAAAACTCTAGTTTTCCTA
96270684 GTTTATAACTTCTAGAGATAGGAAAACTCTAGTTTTC
1 GTTTATAACTTCTAGAGATAGGAAAACTCTAGTTTTC
96270721 AAAAGAAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (40 bp):
GTTTATAACTTCTAGAGATAGGAAAACTCTAGTTTTCCTA
Found at i:96275758 original size:19 final size:19
Alignment explanation
Indices: 96275726--96275766 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
96275716 TATATTAAAT
96275726 AAAAGAAATAAAAGAAACA
1 AAAAGAAATAAAAGAAACA
* *
96275745 AAAAGGAATTAAAGAAACA
1 AAAAGAAATAAAAGAAACA
96275764 AAA
1 AAA
96275767 CAAACGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.76, C:0.05, G:0.12, T:0.07
Consensus pattern (19 bp):
AAAAGAAATAAAAGAAACA
Found at i:96276432 original size:5 final size:5
Alignment explanation
Indices: 96276422--96276456 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
96276412 TGGTATTGTA
* *
96276422 GAATT GAATT GGATT GGATT GAATT GAATT GAATT
1 GAATT GAATT GAATT GAATT GAATT GAATT GAATT
96276457 ATGAGTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (5 bp):
GAATT
Found at i:96279348 original size:31 final size:31
Alignment explanation
Indices: 96279313--96279411 Score: 162
Period size: 31 Copynumber: 3.2 Consensus size: 31
96279303 ATTCCATAAG
*
96279313 TCTGTATTACCATTTATAACTCAGTCTATAC
1 TCTGTACTACCATTTATAACTCAGTCTATAC
96279344 TCTGTACTACCATTTATAACTCAGTCTATAC
1 TCTGTACTACCATTTATAACTCAGTCTATAC
* *
96279375 CCTGTACTACCATTTATAATTCAGTCTATAC
1 TCTGTACTACCATTTATAACTCAGTCTATAC
96279406 TACTGT
1 T-CTGT
96279412 TTGATCCTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 59 0.94
32 4 0.06
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.40
Consensus pattern (31 bp):
TCTGTACTACCATTTATAACTCAGTCTATAC
Found at i:96280416 original size:17 final size:17
Alignment explanation
Indices: 96280394--96280427 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
96280384 GGTAAGTATA
96280394 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
*
96280411 TATTGTCATTTCATTTT
1 TATTGTCATTACATTTT
96280428 CATATTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.62
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:96282510 original size:42 final size:42
Alignment explanation
Indices: 96282388--96282502 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
96282378 TCTTACATTT
* * * **
96282388 TCGATGCCAATAACCCAGCTATGGTCTTACAATAAGTCTCATA
1 TCGATGCC-ATATCCCAGATATGGTCTTATACGAAGTCTCATA
96282431 TCGATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATA
1 TCGATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATA
*
96282473 -CTGATGTCATATCCCAGATATGGTCTTATA
1 TC-GATGCCATATCCCAGATATGGTCTTATA
96282503 TGTAGTCTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 56 0.86
43 8 0.12
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (42 bp):
TCGATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATA
Found at i:96285640 original size:26 final size:26
Alignment explanation
Indices: 96285611--96285660 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
96285601 CACAAAGGAG
96285611 TTCTACACTTCCTACCATACAATGCT
1 TTCTACACTTCCTACCATACAATGCT
96285637 TTCTACACTTCCTACCATACAATG
1 TTCTACACTTCCTACCATACAATG
96285661 ATTCAAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.34, G:0.04, T:0.34
Consensus pattern (26 bp):
TTCTACACTTCCTACCATACAATGCT
Found at i:96287659 original size:140 final size:140
Alignment explanation
Indices: 96287398--96287681 Score: 430
Period size: 140 Copynumber: 2.0 Consensus size: 140
96287388 AATACCCCAA
* * *
96287398 TCTTAGGTCAATCTTCGAAAACATCATTGCTCTTCTGAACTGATCAAATAATTCATCAATTTGAG
1 TCTTAGGTCAATCTTCGAAAACATCATTGCTCCTCTGAACTAATAAAATAATTCATCAATTTGAG
* * * *
96287463 GAAAGGGATACTTTTTCTTAATGGTGAACTTATTCAACTGTATAGAGTTTCTACATAACCGCATC
66 GAAAGGGATACTTATTCTTAATGCTCAACTTATTCAACTGTATAGAGTTACTACATAACCGCATC
96287528 GTGCCATCCT
131 GTGCCATCCT
* *
96287538 TCTTAGGTTAATCTTTGAAAACATCATTGCTCCTCTGAACTAATAAAAT-ATGTCATCAATTTGA
1 TCTTAGGTCAATCTTCGAAAACATCATTGCTCCTCTGAACTAATAAAATAAT-TCATCAATTTGA
*
96287602 GGCAAA-GGATACTTATTCTTAATGCTCAACTTATTCAACTGTATATAGTCTAC-ACATAACCGC
65 GG-AAAGGGATACTTATTCTTAATGCTCAACTTATTCAACTGTATAGAGT-TACTACATAACCGC
96287665 ATCGTGCCATCCT
128 ATCGTGCCATCCT
96287678 TCTT
1 TCTT
96287682 CTTCATAAAC
Statistics
Matches: 131, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
139 2 0.02
140 124 0.95
141 5 0.04
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (140 bp):
TCTTAGGTCAATCTTCGAAAACATCATTGCTCCTCTGAACTAATAAAATAATTCATCAATTTGAG
GAAAGGGATACTTATTCTTAATGCTCAACTTATTCAACTGTATAGAGTTACTACATAACCGCATC
GTGCCATCCT
Found at i:96290055 original size:42 final size:42
Alignment explanation
Indices: 96289950--96290106 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 42
96289940 TCATGTTTAC
* * * * * * *
96289950 TTTCCGTTTAGCTCTCACGAGCTTCTATTAAACTCATATGAG
1 TTTCCGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGGG
*
96289992 TTTCCGTTCAGCCCT-ATTGAGCTTCTGTTTAACCCTTATGGG
1 TTTCCGTTCAGCTCTCA-TGAGCTTCTGTTTAACCCTTATGGG
* * * * ** *
96290034 TTTCCGTTCATCTCTTATGAGCTTTTGTTCAACCCTTACAGA
1 TTTCCGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGGG
* *
96290076 TTTCTGTTTAGCTCTCATGAGCTTCTGTTTA
1 TTTCCGTTCAGCTCTCATGAGCTTCTGTTTA
96290107 GCTTTCAGGC
Statistics
Matches: 92, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
41 1 0.01
42 90 0.98
43 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGGG
Found at i:96290071 original size:21 final size:21
Alignment explanation
Indices: 96290009--96290071 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
96289999 TCAGCCCTAT
* *
96290009 TGAGCTTCTGTTTAACCCTTA
1 TGAGCTTTTGTTCAACCCTTA
* * * *
96290030 TG-GGTTTCCGTTCATCTCTTA
1 TGAGCTTT-TGTTCAACCCTTA
96290051 TGAGCTTTTGTTCAACCCTTA
1 TGAGCTTTTGTTCAACCCTTA
96290072 CAGATTTCTG
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
20 3 0.10
21 23 0.77
22 4 0.13
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.44
Consensus pattern (21 bp):
TGAGCTTTTGTTCAACCCTTA
Found at i:96290120 original size:19 final size:21
Alignment explanation
Indices: 96290077--96290121 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
96290067 CCTTACAGAT
96290077 TTCTGTTTAGCTCTCATGAGC
1 TTCTGTTTAGCTCTCATGAGC
*
96290098 TTCTGTTTAGCTTTCA-G-GC
1 TTCTGTTTAGCTCTCATGAGC
96290117 TTCTG
1 TTCTG
96290122 AAAATGATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.30
20 1 0.04
21 15 0.65
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (21 bp):
TTCTGTTTAGCTCTCATGAGC
Found at i:96292488 original size:26 final size:24
Alignment explanation
Indices: 96292459--96292508 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
96292449 AGTTGTAGAG
*
96292459 AGAAAATTCTCTGAAGAGATTATTTC
1 AGAAAATT-TCTAAAGAGATT-TTTC
*
96292485 AGAAAATTTCTAAAGATATTTTTC
1 AGAAAATTTCTAAAGAGATTTTTC
96292509 TGATTTACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (24 bp):
AGAAAATTTCTAAAGAGATTTTTC
Found at i:96297264 original size:40 final size:40
Alignment explanation
Indices: 96297208--96297432 Score: 299
Period size: 40 Copynumber: 5.6 Consensus size: 40
96297198 TATTCGGATG
96297208 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
96297248 GTATCCGGGCTAAGTCCCGAAGGCATTTTTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
96297291 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
96297331 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
96297371 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
96297411 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
96297433 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
39 14 0.09
40 114 0.70
41 1 0.01
43 35 0.21
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:96297351 original size:83 final size:80
Alignment explanation
Indices: 96297212--96297432 Score: 304
Period size: 83 Copynumber: 2.7 Consensus size: 80
96297202 CGGATGATAT
* * *
96297212 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTGTATCCGGGCTAAGTCCCGAAGGCATTTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTA
96297277 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
96297295 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTA
*
96297360 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
96297375 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAGG
96297433 TACTTGGGTT
Statistics
Matches: 128, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
79 17 0.13
80 45 0.35
81 2 0.02
83 64 0.50
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTA
TGCTAGTGACTATAC
Found at i:96297451 original size:123 final size:122
Alignment explanation
Indices: 96297208--96297432 Score: 339
Period size: 123 Copynumber: 1.9 Consensus size: 122
96297198 TATTCGGATG
* * * *
96297208 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTGTATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
96297273 TTTTTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 TTTGTGC-AGTAGTTGCTATACCCGGGCTAAATCCCGAAGGCATTTGTGCAAGTGACT
*
96297331 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
96297396 TTTGTGC-G-AGTTGCTATATCC-GGCTAAATCCCGAAGG
66 TTTGTGCAGTAGTTGCTATACCCGGGCTAAATCCCGAAGG
96297433 TACTTGGGTT
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
119 15 0.16
120 12 0.13
121 1 0.01
123 66 0.70
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (122 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCAGTAGTTGCTATACCCGGGCTAAATCCCGAAGGCATTTGTGCAAGTGACT
Found at i:96305382 original size:39 final size:40
Alignment explanation
Indices: 96305281--96305382 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 40
96305271 TATTCGAATG
* *
96305281 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTGACT
96305321 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAA-ATCCCGAAGGCATTTGTGCGAG-TGACT
96305361 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGG
96305383 TACTTGGGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
38 1 0.02
39 14 0.25
40 40 0.70
41 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTGACT
Found at i:96308317 original size:21 final size:21
Alignment explanation
Indices: 96308292--96308333 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
96308282 TTTGGGCTAG
96308292 TGTCTAGATACATCAAGAACA
1 TGTCTAGATACATCAAGAACA
* *
96308313 TGTCTTGATACCTCAAGAACA
1 TGTCTAGATACATCAAGAACA
96308334 AAAAACTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (21 bp):
TGTCTAGATACATCAAGAACA
Found at i:96317258 original size:26 final size:26
Alignment explanation
Indices: 96317227--96317287 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
96317217 CATGCTCAGT
*
96317227 ACAGTCATACATCTCATAAGGGCATA
1 ACAGTCATACACCTCATAAGGGCATA
* ** *
96317253 ATAGTCATTTTACCTCATAGGGGCATA
1 ACAGTCA-TACACCTCATAAGGGCATA
96317280 ACAGTCAT
1 ACAGTCAT
96317288 TTATAAATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (26 bp):
ACAGTCATACACCTCATAAGGGCATA
Found at i:96319288 original size:18 final size:18
Alignment explanation
Indices: 96319252--96319289 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
96319242 ATTTACTTTC
*
96319252 TTTTTCCTTTTTCTTTTT
1 TTTTTCCTTTTTCTATTT
96319270 TTTTTCCTTGTTT-TATTT
1 TTTTTCCTT-TTTCTATTT
96319288 TT
1 TT
96319290 CTTATTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTTCCTTTTTCTATTT
Found at i:96321843 original size:3 final size:3
Alignment explanation
Indices: 96321837--96321871 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
96321827 ATCATCATCA
96321837 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
96321872 AAGTTGTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:96325850 original size:27 final size:26
Alignment explanation
Indices: 96325786--96325850 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
96325776 TGCCTAGGGA
* *
96325786 AGAGGCAGCACTGGTGGAGGAGCTGG
1 AGAGGCTGCACTAGTGGAGGAGCTGG
*
96325812 CGCAGG-TGGCACTAGTGGAGGAGCTGG
1 AG-AGGCT-GCACTAGTGGAGGAGCTGG
96325839 TAGAGGCTGCAC
1 -AGAGGCTGCAC
96325851 CGCAGGCGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
26 1 0.03
27 28 0.90
28 2 0.06
ACGTcount: A:0.22, C:0.18, G:0.46, T:0.14
Consensus pattern (26 bp):
AGAGGCTGCACTAGTGGAGGAGCTGG
Found at i:96325966 original size:15 final size:15
Alignment explanation
Indices: 96325946--96326004 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
96325936 GCTGGTGAGT
96325946 GAAGGAGAAGAAAGA
1 GAAGGAGAAGAAAGA
96325961 GAAGGAGAAGAGAAGAAGA
1 GAAGGAG-A-AG-A-AAGA
**
96325980 GAATAAGAAGAAAGA
1 GAAGGAGAAGAAAGA
96325995 GAAGGAGAAG
1 GAAGGAGAAG
96326005 GAGAGGGCGG
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
15 19 0.53
16 2 0.06
17 4 0.11
18 2 0.06
19 9 0.25
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.02
Consensus pattern (15 bp):
GAAGGAGAAGAAAGA
Found at i:96326104 original size:58 final size:55
Alignment explanation
Indices: 96325946--96326105 Score: 150
Period size: 55 Copynumber: 2.9 Consensus size: 55
96325936 GCTGGTGAGT
* * * *
96325946 GAAGGAGAAGAAAGAGAAGGAG-AAGAGAA-GAAGAGAATAA-GAAGAAAGAGAAGGA
1 GAAGGAGAGGGAAG-GAAGGAGAAAGAGAAGGAA-A-AAAAAGGAAAAAAGAGAAGGA
** *
96326001 GAAGGAGAGGGCGGGAAGG-GAAAG-GAAGGGAAAAAGAAAGAAAAAAAGAGAAGGA
1 GAAGGAGAGGGAAGGAAGGAGAAAGAGAA-GGAAAAA-AAAGGAAAAAAGAGAAGGA
96326056 GAATAGAGAGAGGGAAGGAAGGAGAAAGAGAAGGAAAAAAAAGGAAAAAA
1 G-A-AG-GAGAGGGAAGGAAGGAGAAAGAGAAGGAAAAAAAAGGAAAAAA
96326106 AGGTAATTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
53 6 0.07
54 11 0.13
55 27 0.32
56 1 0.01
57 2 0.02
58 23 0.27
59 12 0.14
60 3 0.04
ACGTcount: A:0.59, C:0.01, G:0.39, T:0.01
Consensus pattern (55 bp):
GAAGGAGAGGGAAGGAAGGAGAAAGAGAAGGAAAAAAAAGGAAAAAAGAGAAGGA
Found at i:96328634 original size:18 final size:18
Alignment explanation
Indices: 96328613--96328671 Score: 100
Period size: 18 Copynumber: 3.3 Consensus size: 18
96328603 TCCTGAGCTT
* *
96328613 GAGCCCAAGCCAGAACCC
1 GAGCCCAAGCCACAGCCC
96328631 GAGCCCAAGCCACAGCCC
1 GAGCCCAAGCCACAGCCC
96328649 GAGCCCAAGCCACAGCCC
1 GAGCCCAAGCCACAGCCC
96328667 GAGCC
1 GAGCC
96328672 TGAACCCAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.29, C:0.47, G:0.24, T:0.00
Consensus pattern (18 bp):
GAGCCCAAGCCACAGCCC
Found at i:96328641 original size:24 final size:24
Alignment explanation
Indices: 96328587--96328647 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
96328577 AATATAGGGG
* *
96328587 CCAAGCCAAAGCCAGATCCTGAGC
1 CCAAGCCAAAGCCAGAACCCGAGC
*** *
96328611 TTGAGCCCAAGCCAGAACCCGAGC
1 CCAAGCCAAAGCCAGAACCCGAGC
*
96328635 CCAAGCCACAGCC
1 CCAAGCCAAAGCC
96328648 CGAGCCCAAG
Statistics
Matches: 26, Mismatches: 11, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.41, G:0.21, T:0.07
Consensus pattern (24 bp):
CCAAGCCAAAGCCAGAACCCGAGC
Found at i:96328864 original size:33 final size:33
Alignment explanation
Indices: 96328788--96328868 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 33
96328778 TTTGATATTT
96328788 TTGGGTCGTATCCACTGCAGTACAACACTCCTC
1 TTGGGTCGTATCCACTGCAGTACAACACTCCTC
* ** * * **
96328821 TCGGCCCGTATTCACTGTAGTACTCCACTCCTC
1 TTGGGTCGTATCCACTGCAGTACAACACTCCTC
96328854 TTGGGTCGTATCCAC
1 TTGGGTCGTATCCAC
96328869 CACAGTATGG
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.17, C:0.35, G:0.19, T:0.30
Consensus pattern (33 bp):
TTGGGTCGTATCCACTGCAGTACAACACTCCTC
Found at i:96334889 original size:27 final size:29
Alignment explanation
Indices: 96334853--96334921 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
96334843 AAATAGTGAG
96334853 TGAAAAAGAAAATGA-A-GA-AAAGAAAAT
1 TGAAAAAGAAAATGAGATGAGAAA-AAAAT
*
96334880 TGAAAAAGAAATTGAGATTGAGAAAAAAAT
1 TGAAAAAGAAAATGAGA-TGAGAAAAAAAT
*
96334910 TTAAAAAGAAAA
1 TGAAAAAGAAAA
96334922 AGATGTTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 14 0.40
28 1 0.03
30 17 0.49
31 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.16
Consensus pattern (29 bp):
TGAAAAAGAAAATGAGATGAGAAAAAAAT
Found at i:96338474 original size:13 final size:13
Alignment explanation
Indices: 96338456--96338480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96338446 TGGTCATCAT
96338456 GGTGTGAACACAA
1 GGTGTGAACACAA
96338469 GGTGTGAACACA
1 GGTGTGAACACA
96338481 TGATCAATAC
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:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:96339397 original size:12 final size:13
Alignment explanation
Indices: 96339380--96339427 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
96339370 TTGGAGTAAC
96339380 AAAAAAAATC-AA
1 AAAAAAAATCGAA
*
96339392 AAAAAAATTCGAA
1 AAAAAAAATCGAA
*
96339405 AAAAAAAATTGATTA
1 AAAAAAAATCGA--A
96339420 AAAAAAAA
1 AAAAAAAA
96339428 AATTCAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.30
13 12 0.40
15 9 0.30
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (13 bp):
AAAAAAAATCGAA
Found at i:96339398 original size:13 final size:13
Alignment explanation
Indices: 96339380--96339440 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 13
96339370 TTGGAGTAAC
96339380 AAAAAAAATC-AA
1 AAAAAAAATCAAA
*
96339392 AAAAAAATTCGAAA
1 AAAAAAAATC-AAA
*
96339406 AAAAAAATTGATTAAA
1 AAAAAAA---ATCAAA
96339422 AAAAAAAATTCAAA
1 AAAAAAAA-TCAAA
96339436 AAAAA
1 AAAAA
96339441 GTGAAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
12 9 0.23
13 1 0.03
14 18 0.46
16 10 0.26
17 1 0.03
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAAAAAATCAAA
Found at i:96339407 original size:14 final size:14
Alignment explanation
Indices: 96339390--96339440 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 14
96339380 AAAAAAAATC
96339390 AAAAAAAAATTCGA
1 AAAAAAAAATTCGA
96339404 AAAAAAAAATT-GATTAA
1 AAAAAAAAATTCG----A
96339421 AAAAAAAAATTC-A
1 AAAAAAAAATTCGA
96339434 AAAAAAA
1 AAAAAAA
96339441 GTGAAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
13 9 0.28
14 11 0.34
17 12 0.38
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (14 bp):
AAAAAAAAATTCGA
Found at i:96340397 original size:18 final size:18
Alignment explanation
Indices: 96340376--96340410 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
96340366 AGAAAAGAAA
96340376 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
96340394 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
96340411 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:96343313 original size:10 final size:10
Alignment explanation
Indices: 96343298--96343335 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
96343288 GCTCGTTTCC
*
96343298 AGCTCACTCG
1 AGCTCAATCG
96343308 AGCTCAAGTC-
1 AGCTCAA-TCG
96343318 AGCTCAATCG
1 AGCTCAATCG
96343328 AGCTCAAT
1 AGCTCAAT
96343336 TTAGCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:96343341 original size:20 final size:20
Alignment explanation
Indices: 96343297--96343334 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
96343287 AGCTCGTTTC
*
96343297 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
96343317 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
96343335 TTTAGCTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:96346302 original size:34 final size:33
Alignment explanation
Indices: 96346238--96346303 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
96346228 TTAAAGATGT
* *
96346238 TGTTCTACATGCATGGAACGGCAATTAATGAGA
1 TGTTCCACATGCATGGAACGACAATTAATGAGA
*
96346271 TGTTCCACATGCAATGG-ACGACATTTAAATGAG
1 TGTTCCACATGC-ATGGAACGACAATT-AATGAG
96346304 GGAGAGTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 18 0.64
34 10 0.36
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (33 bp):
TGTTCCACATGCATGGAACGACAATTAATGAGA
Found at i:96356964 original size:14 final size:15
Alignment explanation
Indices: 96356945--96356980 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
96356935 CGTTTTATTT
96356945 AAAAACT-AAACTAA
1 AAAAACTAAAACTAA
*
96356959 AAAAACTAAAACTAT
1 AAAAACTAAAACTAA
96356974 AAAAACT
1 AAAAACT
96356981 TAGATCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAACTAAAACTAA
Found at i:96357721 original size:54 final size:54
Alignment explanation
Indices: 96357639--96357745 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
96357629 TTGAAATCGG
*
96357639 TACGTTGCCTTATTTATTAAAATTAATTAAAAACATGGAAAATAATATTATTCA
1 TACGTTGCCTTATTTATTAAAATTAATTAAAAACATAGAAAATAATATTATTCA
96357693 TACGTTGCCTTATTTATTAAAATTAATTAAAAACATAGAAAATAATATTATTC
1 TACGTTGCCTTATTTATTAAAATTAATTAAAAACATAGAAAATAATATTATTC
96357746 GCAACAGGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (54 bp):
TACGTTGCCTTATTTATTAAAATTAATTAAAAACATAGAAAATAATATTATTCA
Found at i:96358103 original size:20 final size:23
Alignment explanation
Indices: 96358080--96358122 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 23
96358070 AAAATAATAC
96358080 TATATATA-A-ATAT-ATAAAAA
1 TATATATACACATATAATAAAAA
96358100 TATATATACACATATAATAAAAA
1 TATATATACACATATAATAAAAA
96358123 CATACACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 4 0.20
23 7 0.35
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (23 bp):
TATATATACACATATAATAAAAA
Found at i:96360885 original size:43 final size:44
Alignment explanation
Indices: 96360837--96360952 Score: 110
Period size: 43 Copynumber: 2.7 Consensus size: 44
96360827 TAATTGGTCA
* *
96360837 CTTCAACCTGTTCCACTACTGCTTAGGGACACAAGGTTT-GTGT
1 CTTCAACCTGTTCCACTACTGCTTAGGGAAACAAGGTTTGGTAT
* * * ** *
96360880 CTTCAACTTGTT-CTCTGCAACTTCAGAGAAACAAGGTTTGGTAT
1 CTTCAACCTGTTCCACTACTGCTT-AGGGAAACAAGGTTTGGTAT
* * *
96360924 CTTCGATCTGCTCCACTACTGCTTAGGGA
1 CTTCAACCTGTTCCACTACTGCTTAGGGA
96360953 GATAAGATCT
Statistics
Matches: 53, Mismatches: 17, Indels: 5
0.71 0.23 0.07
Matches are distributed among these distances:
42 7 0.13
43 24 0.45
44 15 0.28
45 7 0.13
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (44 bp):
CTTCAACCTGTTCCACTACTGCTTAGGGAAACAAGGTTTGGTAT
Found at i:96361016 original size:44 final size:44
Alignment explanation
Indices: 96360932--96361096 Score: 129
Period size: 44 Copynumber: 3.7 Consensus size: 44
96360922 ATCTTCGATC
* * * *
96360932 TGCTCCACTACTGCTTAGGGAGATAAGA-TCTGTTATCTTCAATA
1 TGCTCCACTACAGCTTAGAGAGATAAGACT-TGCTAACTTCAATA
* *
96360976 TGCTCCGCTACAGCTTCAGAGAGATAAGACTTG-TAACTTCAACA
1 TGCTCCACTACAGCTT-AGAGAGATAAGACTTGCTAACTTCAATA
* * * ** * * *
96361020 TGCT-CTCTGCAACTTTAGAGAGATAAGGTTTGCTATCTTTAATC
1 TGCTCCACTACAGC-TTAGAGAGATAAGACTTGCTAACTTCAATA
* *
96361064 TGCTCCACTACTGCTTAGGGAGATAAGATCTTG
1 TGCTCCACTACAGCTTAGAGAGATAAGA-CTTG
96361097 TAATCCTCCA
Statistics
Matches: 94, Mismatches: 21, Indels: 11
0.75 0.17 0.09
Matches are distributed among these distances:
43 20 0.21
44 52 0.55
45 21 0.22
46 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
TGCTCCACTACAGCTTAGAGAGATAAGACTTGCTAACTTCAATA
Found at i:96361264 original size:88 final size:92
Alignment explanation
Indices: 96361065--96361457 Score: 248
Period size: 88 Copynumber: 4.4 Consensus size: 92
96361055 TCTTTAATCT
* * *
96361065 GCTCCACTACTGCTTAGGGAGATAAGATCTTGTAATCCTCCAGCCTTTTACCCTACTGCTTAGGG
1 GCTCCACTACTGCTTAGGGAGATAAGATC-TGTAATCCTCCAGCCTTCTACCCTACTGCTCAGAG
* *
96361130 AGTTAAAGCCTGCTCATCATCTTCGATCT
65 AGATAAAGCCTGCTCAT-ATCTTCGATCC
* * *
96361159 GCTCCATTGCTGCTTAGGGAGATAAGATCTGTAAT-CTTCAG-CTTGCT-CCACTACTGCTCAGA
1 GCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCCTCCAGCCTT-CTACC-CTACTGCTCAGA
*
96361221 GAGATAAAGCTTGC-CAT-T-TTCGATCC
64 GAGATAAAGCCTGCTCATATCTTCGATCC
* * * * * ** * *
96361247 GCTCCACTATTGCTTAGGGAAATAGGATCTGT-AT-TTTCAGTCAGT-TACCCTATTGCTTAG-G
1 GCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCCTCCAG-CCTTCTACCCTACTGCTCAGAG
* * * * * * *
96361308 -GGTTAAGACT-CAC-CATCTTTGATCT
65 AGATAAAGCCTGCTCATATCTTCGATCC
* * * ** *
96361333 GCACCACTATTGCTTAGGGAGATAAAGATCTGTCATTTTCTC-GCCTAT-TACCCTACTGCTTAG
1 GCTCCACTACTGCTTAGGGAGAT-AAGATCTGTAATCCTC-CAGCCT-TCTACCCTACTGCTCAG
* * * * *
96361396 -GGGGTTAAG---GCTCATCGTCTTCGATCT
63 AGAGATAAAGCCTGCTCAT-ATCTTCGATCC
96361423 GCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
1 GCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
96361458 TTTTGATCCA
Statistics
Matches: 242, Mismatches: 40, Indels: 39
0.75 0.12 0.12
Matches are distributed among these distances:
84 1 0.00
85 8 0.03
86 28 0.12
87 25 0.10
88 41 0.17
89 32 0.13
90 38 0.16
91 8 0.03
92 28 0.12
93 6 0.02
94 27 0.11
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (92 bp):
GCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCCTCCAGCCTTCTACCCTACTGCTCAGAGA
GATAAAGCCTGCTCATATCTTCGATCC
Found at i:96361540 original size:44 final size:45
Alignment explanation
Indices: 96361418--96361629 Score: 159
Period size: 44 Copynumber: 4.8 Consensus size: 45
96361408 CATCGTCTTC
* * * * *
96361418 GATCTGCTCCACTACTGCTTAG-GGAGATAAGATCTG-TAATTTTT
1 GATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTGCGAA-ATTT
** ** * *
96361462 GATCCACTCCACTATTGCTTAAG-G-AGATAGGATCTGTCGAAATTT
1 GATCTGCTCCACTCCTGC-TCAGCGAAGATAAGATCTG-CGAAATTT
* * * * *
96361507 AATCTGTTCCACTCCTGC-CAGCG-GGATGAGATCTGCTAAAATTT
1 GATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTGC-GAAATTT
*
96361551 GATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTACCGAAATTT
1 GATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCT-GCGAAATTT
* *
96361597 GATCTGCTCCGCTCCT-CTCAGCGAAGATCAGAT
1 GATCTGCTCCACTCCTGCTCAGCGAAGATAAGAT
96361630 TTGTAGTTTT
Statistics
Matches: 134, Mismatches: 26, Indels: 15
0.77 0.15 0.09
Matches are distributed among these distances:
43 3 0.02
44 58 0.43
45 40 0.30
46 32 0.24
47 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (45 bp):
GATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTGCGAAATTT
Found at i:96361600 original size:46 final size:46
Alignment explanation
Indices: 96361499--96361629 Score: 160
Period size: 46 Copynumber: 2.9 Consensus size: 46
96361489 TAGGATCTGT
* * * * *
96361499 CGAAATTTAATCTGTTCCACTCCTGC-CAGCG-GGATGAGATCTGC
1 CGAAATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAC
**
96361543 TAAAATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAC
1 CGAAATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAC
* *
96361589 CGAAATTTGATCTGCTCCGCTCCT-CTCAGCGAAGATCAGAT
1 CGAAATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGAT
96361630 TTGTAGTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
44 22 0.30
45 21 0.28
46 31 0.42
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (46 bp):
CGAAATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAC
Found at i:96375205 original size:3 final size:3
Alignment explanation
Indices: 96375197--96375893 Score: 230
Period size: 3 Copynumber: 231.0 Consensus size: 3
96375187 ACCCACAAAG
* *
96375197 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA TGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * * * * * * * * *
96375243 TTAA ATG GTA A-A AGA ATA ATA GTA ACA ATA ATTT TTT TTA AAA ATG
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * * * * *
96375289 ATA ATA GTA ATA AAA ATA AAA ATA ATA GTA GTG ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
96375337 ATA ATA ATAA ATA GTA ATA ATAA ATA GTA ATA ATA ATA CATTA ATA ATA
1 ATA ATA AT-A ATA ATA ATA AT-A ATA ATA ATA ATA ATA -A-TA ATA ATA
* * * * * * *
96375386 AT- ATG TTA ATA ACA ATA A-A TTA ATGA ATTA ATA A-C ATA ACA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A A-TA ATA ATA ATA ATA ATA
* * * * *
96375430 AGTAA ATA A-A CATA AAA ATA A-A ATA ATT ATA ATA GTA ATA TTA ACA
1 A-T-A ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
96375476 A-A ATA ATA ATA ATA ATA ATA ATA A-A ATG ATA ACA ATG ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
96375522 A-A ATA ATA GAAA ATA ATA ATA CATTA ATA ATA ATA TATG TTA ATA ACA
1 ATA ATA ATA -ATA ATA ATA ATA -A-TA ATA ATA ATA -ATA ATA ATA ATA
* *
96375570 ATA ATA ATA TATA A-A ATA ATA AT- ATG GTA A-A A-A ATA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
96375612 AT- GTA TTA ATA AGA ATG ATA ATA ATA A-A ATA A-G ATT ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
96375657 GTA TTA ATA AAA ATA GA-C ATA A-A A-A GATA GTA ATA ATG GTA ACA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* *** * * *
96375701 ATA AGA GCG TTA ATA ATA ATA ATA TTGA GATA CA-A AAA AGTA A-A TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A -ATA -ATA ATA A-TA ATA -ATA
* * *
96375749 ATA A-A ATA TTA A-A ATA A-A GTA ATA A-A A-A ATA ATA CT- ATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* *
96375792 A-A TATA TATA CAT- ATA CGTA TATA ATA AAA AGT- ATA CACTA ATA TATA
1 ATA -ATA -ATA -ATA ATA -ATA -ATA ATA ATA A-TA ATA -A-TA ATA -ATA
*
96375840 ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
96375888 GTA ATA
1 ATA ATA
96375894 TTGAAATATA
Statistics
Matches: 507, Mismatches: 130, Indels: 114
0.68 0.17 0.15
Matches are distributed among these distances:
2 47 0.09
3 394 0.78
4 56 0.11
5 10 0.02
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:96375354 original size:13 final size:13
Alignment explanation
Indices: 96375326--96375386 Score: 79
Period size: 13 Copynumber: 4.7 Consensus size: 13
96375316 GTAGTGATAA
*
96375326 TAATAAT-AATAA
1 TAATAATAAATAG
96375338 TAATAATAAATAG
1 TAATAATAAATAG
96375351 TAATAATAAATAG
1 TAATAATAAATAG
* *
96375364 TAATAATAATACAT
1 TAATAATAA-ATAG
96375378 TAATAATAA
1 TAATAATAA
96375387 TATGTTAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
12 7 0.16
13 26 0.59
14 11 0.25
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (13 bp):
TAATAATAAATAG
Found at i:96375497 original size:29 final size:29
Alignment explanation
Indices: 96375451--96375613 Score: 100
Period size: 29 Copynumber: 5.3 Consensus size: 29
96375441 ATAAAAATAA
* *
96375451 AATAATTATAATAGTAATATTAACAA-AAT
1 AATAATAATAATAATAATATTAA-AACAAT
* *
96375480 AATAATAATAATAATAATAAAATGATAACAAT
1 AATAATAATAATAATAAT---ATTAAAACAAT
* * * *
96375512 GATATTAATAA-AATAATA-GAAAATAAT
1 AATAATAATAATAATAATATTAAAACAAT
*
96375539 AATACATTAATAATAATATATGTTAATAACAAT
1 AATA-A-TAATAATAATA-ATATTAA-AACAAT
96375572 AATAATATATAAAATAATAATATGGTAAAA-AAT
1 AATAATA-AT--AATAATAATAT--TAAAACAAT
96375605 AATAATAAT
1 AATAATAAT
96375614 GTATTAATAA
Statistics
Matches: 105, Mismatches: 14, Indels: 27
0.72 0.10 0.18
Matches are distributed among these distances:
27 10 0.10
28 1 0.01
29 22 0.21
30 4 0.04
31 12 0.11
32 22 0.21
33 22 0.21
34 9 0.09
35 3 0.03
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.32
Consensus pattern (29 bp):
AATAATAATAATAATAATATTAAAACAAT
Found at i:96375606 original size:33 final size:35
Alignment explanation
Indices: 96375531--96375611 Score: 105
Period size: 35 Copynumber: 2.3 Consensus size: 35
96375521 AAAATAATAG
*
96375531 AAAATAATAATACATTAATAATAATATATGTTAAT
1 AAAATAATAATACATTAATAATAATATATGGTAAT
*
96375566 AACAATAATAATATA-TAA-AATAATAATATGGTAA-
1 AA-AATAATAATACATTAATAATAAT-ATATGGTAAT
96375600 AAAATAATAATA
1 AAAATAATAATA
96375612 ATGTATTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 10 0.24
34 8 0.19
35 13 0.31
36 11 0.26
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (35 bp):
AAAATAATAATACATTAATAATAATATATGGTAAT
Found at i:96375623 original size:14 final size:15
Alignment explanation
Indices: 96375604--96375672 Score: 58
Period size: 14 Copynumber: 4.8 Consensus size: 15
96375594 TGGTAAAAAA
96375604 TAATAATAAT-GTAT
1 TAATAATAATAGTAT
* *
96375618 TAATAAGAAT-GATAA
1 TAATAATAATAG-TAT
96375633 TAATAA-AATAAG-AT
1 TAATAATAAT-AGTAT
96375647 T-ATAATAATAGTAT
1 TAATAATAATAGTAT
*
96375661 TAATAAAAATAG
1 TAATAATAATAG
96375673 ACATAAAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
13 6 0.13
14 21 0.47
15 17 0.38
16 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (15 bp):
TAATAATAATAGTAT
Found at i:96375653 original size:19 final size:20
Alignment explanation
Indices: 96375619--96375656 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
96375609 ATAATGTATT
96375619 AATAAGAATGATAATAATAA
1 AATAAGAATGATAATAATAA
*
96375639 AATAAG-ATTATAATAATA
1 AATAAGAATGATAATAATA
96375657 GTATTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (20 bp):
AATAAGAATGATAATAATAA
Found at i:96375886 original size:169 final size:170
Alignment explanation
Indices: 96375711--96376018 Score: 539
Period size: 169 Copynumber: 1.8 Consensus size: 170
96375701 ATAAGAGCGT
* *
96375711 TAATAATAATAATATTGAGATACAAAAAAGTAAATATAAT-AAAATATTAAAATAAAGTAATAAA
1 TAATAATAATAATATTGAAATA-AAAAAAGCAAATATAATAAAAATATTAAAATAAAGTAATAAA
*
96375775 AAATAATACTATATA-TAAATATATATACATATACGTATATAATAAAAAGTATACACTAATATAT
65 AAATAATACTATATACAAAATATATATACATATACGTATATAATAAAAAGTATACACTAATATAT
96375839 AATAATAATAATAACAATAATAATAATAATAATAATAATAA
130 AATAATAATAATAACAATAATAATAATAATAATAATAATAA
* *
96375880 TAATAATAGTAATATTGAAATATAAAAAGCAAATATAATAAAAATATTAAAATAAAGTAATAAAA
1 TAATAATAATAATATTGAAATAAAAAAAGCAAATATAATAAAAATATTAAAATAAAGTAATAAAA
*
96375945 AATAATACTATATACAAAATATATATGCATATACGTATATAATAAAAAGTATACACTAATATATA
66 AATAATACTATATACAAAATATATATACATATACGTATATAATAAAAAGTATACACTAATATATA
96376010 ATAATAATA
131 ATAATAATA
96376019 TTTAATAAAG
Statistics
Matches: 131, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
168 15 0.11
169 59 0.45
170 57 0.44
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.31
Consensus pattern (170 bp):
TAATAATAATAATATTGAAATAAAAAAAGCAAATATAATAAAAATATTAAAATAAAGTAATAAAA
AATAATACTATATACAAAATATATATACATATACGTATATAATAAAAAGTATACACTAATATATA
ATAATAATAATAACAATAATAATAATAATAATAATAATAA
Found at i:96376650 original size:3 final size:3
Alignment explanation
Indices: 96376642--96377019 Score: 136
Period size: 3 Copynumber: 126.0 Consensus size: 3
96376632 TGTATCTCAA
* *** * * *
96376642 TAT TAT TAT TAT TAT TAA CGC TCT TAT TAT TAC TAT TAT TAC TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * * * * *
96376690 T-T TAT GT-C TAT TTT TAT TAA TAC TAT TAT TA- TAA TCT TAT T-T
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
96376732 TAT TAC TAT CAT TCT TAT TAA TA- CAT TAT TAT TAT TTT TAC CA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
96376778 TAT TAT T-T TAT ATAT TAT TAT TTT TAT TAA CAT ATAT TAT TAT TAAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT T-AT
* * * *
96376825 GTAT TAT TAT TAT TAT TAT TAT TAT T-T TGT TAA TAC TAC TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
96376870 AAT TAT T-T TAT TTT TAT GT-T TATT TACT TAC TGT TA- TGT TAT TAAT
1 TAT TAT TAT TAT TAT TAT -TAT TA-T TA-T TAT TAT TAT TAT TAT T-AT
* * * *
96376916 TCAT TAA T-T TAT TGT TAT TAA CA- TAT TAT TAT TAT TAAT GTAT TAT
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT
* * * * * *
96376962 TAT TAC TATT TAT TAT TAT TAT TAT TAT CAC TAG TAT TTT TAT TTT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
96377008 TAT TAC TAT TAT
1 TAT TAT TAT TAT
96377020 CATTTTTAAA
Statistics
Matches: 272, Mismatches: 78, Indels: 50
0.68 0.19 0.12
Matches are distributed among these distances:
2 20 0.07
3 220 0.81
4 30 0.11
5 2 0.01
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:96376763 original size:14 final size:14
Alignment explanation
Indices: 96376703--96376765 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
96376693 ATGTCTATTT
96376703 TTATTAATACTATTA
1 TTATTAATAC-ATTA
96376718 TTA-TAAT-C-TTA
1 TTATTAATACATTA
* *
96376729 TTTTATTACTATCATTC
1 --TTATTAATA-CATTA
96376746 TTATTAATACATTA
1 TTATTAATACATTA
96376760 TTATTA
1 TTATTA
96376766 TTTTTACCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
11 3 0.08
13 4 0.11
14 17 0.45
15 11 0.29
16 1 0.03
17 2 0.05
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATTAATACATTA
Found at i:96376779 original size:71 final size:71
Alignment explanation
Indices: 96376704--96376838 Score: 159
Period size: 71 Copynumber: 1.9 Consensus size: 71
96376694 TGTCTATTTT
* *
96376704 TATTAATACTATTATTATAATCTTA-TTTTATT-AC-TATCATTCTTATTAATACATTATTATTA
1 TATTAATA-TATTA-TATAATATTATTTTTATTAACATAT-ATTATTATTAATACATTATTATTA
96376766 TTTTTACCA
63 TTTTTACCA
* * * **
96376775 TATTATTATTTTATATATTATTATTTTTATTAACATATATTATTATTAATGTATTATTATTATT
1 TATTAATATATTATATAATATTATTTTTATTAACATATATTATTATTAATACATTATTATTATT
96376839 ATTATTATTA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
69 8 0.15
70 11 0.20
71 32 0.59
72 3 0.06
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.59
Consensus pattern (71 bp):
TATTAATATATTATATAATATTATTTTTATTAACATATATTATTATTAATACATTATTATTATTT
TTACCA
Found at i:96376868 original size:71 final size:69
Alignment explanation
Indices: 96376729--96376869 Score: 153
Period size: 71 Copynumber: 2.0 Consensus size: 69
96376719 TATAATCTTA
* * *
96376729 TTTTATTACTATCATTCTTATTAATACATTATTATTATTTTTACCATATTATTATTTTATATATT
1 TTTTATTACTATCATTATTATTAATACATTATTATTATTATTA-CATATTATTATTTTATATACT
96376794 ATTAT
65 ATTAT
** *
96376799 TTTTATTAACATAT-ATTATTATTAATGTATTATTATTATTATTA-TTATTATT-TTGTTAATAC
1 TTTTATT-AC-TATCATTATTATTAATACATTATTATTATTATTACATATTATTATT-TT-ATA-
96376861 TACTATTAT
61 TACTATTAT
96376870 AATTATTTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
68 2 0.03
69 9 0.15
70 10 0.17
71 36 0.60
72 3 0.05
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (69 bp):
TTTTATTACTATCATTATTATTAATACATTATTATTATTATTACATATTATTATTTTATATACTA
TTAT
Found at i:96378610 original size:24 final size:26
Alignment explanation
Indices: 96378581--96378638 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 26
96378571 CATTATTATG
*
96378581 TATATATCATGTAAATATTTTA-ATA
1 TATATATCATGTAAACATTTTATATA
* *
96378606 T-TATATTATGTATACATTTTATATA
1 TATATATCATGTAAACATTTTATATA
96378631 TATATATC
1 TATATATC
96378639 TTTTAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 17 0.63
25 5 0.19
26 5 0.19
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (26 bp):
TATATATCATGTAAACATTTTATATA
Found at i:96382579 original size:15 final size:15
Alignment explanation
Indices: 96382559--96382589 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
96382549 TTTACTTTCC
96382559 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
96382574 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
96382589 A
1 A
96382590 AAATCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:96386914 original size:37 final size:38
Alignment explanation
Indices: 96386862--96386939 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 38
96386852 TTAGGATACA
96386862 ACCAGATAAAAATGCATCCAGAGGACATGAATAAAACC
1 ACCAGATAAAAATGCATCCAGAGGACATGAATAAAACC
* *
96386900 ACCA-ATAAAGATGCATCCAGAGGACATGGATAAAACC
1 ACCAGATAAAAATGCATCCAGAGGACATGAATAAAACC
96386937 ACC
1 ACC
96386940 TTTATAACCT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 34 0.89
38 4 0.11
ACGTcount: A:0.47, C:0.23, G:0.17, T:0.13
Consensus pattern (38 bp):
ACCAGATAAAAATGCATCCAGAGGACATGAATAAAACC
Found at i:96391169 original size:210 final size:210
Alignment explanation
Indices: 96390627--96391810 Score: 2046
Period size: 210 Copynumber: 5.7 Consensus size: 210
96390617 CTTCATCGGG
* * * *
96390627 GCAGATCTAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCATATCGAAGATATAGTTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
96390692 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
** * * *
96390757 GAATGAATCAAAGTTTGGCATCTT-CACTTTGATGG-AGAGCAGACACATAGCAGATCTGACCTT
131 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTTACCTT
*
96390820 CAGATGTTTATGCTGAA
194 CAGATGTTTACGCTGAA
* * ** * * * *
96390837 GCGGATCCAAGATG---G-T-TTGGCATC-CT-TGTGTT-TACAAGGAACAAATCGAAGACATAG
1 GCAGATCCAAGATGACAGATCTT---ATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAG
* *
96390894 CTGATTTGGCTTTCACGTGTTTACGTTGAAACAAATCTAAGATGATTTGTCGTCTCTGTATTGTC
63 CTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTC
*
96390959 AGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAAACACATAGCAGATCTTACCT
128 AGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCT
96391024 TCAGATGTTTACGCTGAA
193 TCAGATGTTTACGCTGAA
96391042 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
96391107 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* *
96391172 GAACAAATTGAAGGCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
96391237 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
96391252 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
96391317 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
96391382 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
96391447 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
96391462 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
96391527 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
96391592 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
96391657 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
96391672 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
96391737 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
96391802 GAACAAATC
131 GAACAAATC
96391811 NNNNNNNNNN
Statistics
Matches: 926, Mismatches: 35, Indels: 26
0.94 0.04 0.03
Matches are distributed among these distances:
204 2 0.00
205 165 0.18
206 8 0.01
207 6 0.01
208 6 0.01
209 6 0.01
210 733 0.79
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
GATGTTTACGCTGAA
Found at i:96393437 original size:20 final size:23
Alignment explanation
Indices: 96393389--96393441 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 23
96393379 ATTTACCTTC
*
96393389 AATATTATATATCGTATATTTCT
1 AATATTATATATCGTATATTACT
96393412 AATATTAT-TA-CGT-TATTACT
1 AATATTATATATCGTATATTACT
*
96393432 ACTATTATAT
1 AATATTATAT
96393442 TATTATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 13 0.48
21 4 0.15
22 2 0.07
23 8 0.30
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (23 bp):
AATATTATATATCGTATATTACT
Found at i:96394298 original size:21 final size:19
Alignment explanation
Indices: 96394260--96394298 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
96394250 ACTCCCGTTT
*
96394260 TCATTTTTAAAATCGATTC
1 TCATTTTCAAAATCGATTC
96394279 TCATTTTCCAAAACTCGATT
1 TCATTTT-CAAAA-TCGATT
96394299 TGAAAATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.44
Consensus pattern (19 bp):
TCATTTTCAAAATCGATTC
Found at i:96397044 original size:49 final size:49
Alignment explanation
Indices: 96396972--96397115 Score: 200
Period size: 51 Copynumber: 2.9 Consensus size: 49
96396962 GCCGAAGCTA
* *
96396972 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-ACAGT
* * *
96397021 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCACAG--T
*
96397072 TCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
96397116 TCACAATAGA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
48 4 0.05
49 39 0.47
51 40 0.48
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCACAGT
Found at i:96399257 original size:42 final size:42
Alignment explanation
Indices: 96399138--96399257 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
96399128 TACACAGTAG
* *
96399138 CATACCAATGCCATATCCCAAATATGGTCTTACATGAAATCT
1 CATATCAATGCCATATCCCAAATATGGTCTTACACGAAATCT
* ** *
96399180 CATATCAATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCT
1 CATATCAATGCC-ATATCCCAAATATGGTCTTACACGAAATCT
* * *
96399223 CGTATCGATGCCATATCCCATATATGGTCTTACAC
1 CATATCAATGCCATATCCCAAATATGGTCTTACAC
96399258 ATAATCGTAG
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAAATATGGTCTTACACGAAATCT
Found at i:96423174 original size:28 final size:28
Alignment explanation
Indices: 96423114--96423166 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
96423104 AAAATAATTA
**
96423114 AAATTAAATATTTTAATAATTTGAGTTC
1 AAATTAAATATTTTAATAATTAAAGTTC
96423142 AAATTAAATATTTT-ATAATTAAAGT
1 AAATTAAATATTTTAATAATTAAAGT
96423167 ATGAAATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (28 bp):
AAATTAAATATTTTAATAATTAAAGTTC
Found at i:96425366 original size:15 final size:16
Alignment explanation
Indices: 96425339--96425368 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
96425329 AATAAAAATT
96425339 AATATATATTATATAA
1 AATATATATTATATAA
96425355 AATATA-ATTATATA
1 AATATATATTATATA
96425369 TTAGTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:96425819 original size:14 final size:15
Alignment explanation
Indices: 96425793--96425822 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
96425783 ATGAGCGAGG
96425793 TTTTATCCCCCTCAA
1 TTTTATCCCCCTCAA
96425808 TTTTAT-CCCCTCAA
1 TTTTATCCCCCTCAA
96425822 T
1 T
96425823 AATGTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTTATCCCCCTCAA
Found at i:96433007 original size:49 final size:49
Alignment explanation
Indices: 96432881--96433102 Score: 243
Period size: 46 Copynumber: 4.5 Consensus size: 49
96432871 CTGGTACGCA
* * * *
96432881 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
96432930 TAGTA---TGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
96432976 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * ** * *
96433026 TAGTAGCCTGCACCTAGTACTACACACGTGATCACAGTTTTAGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
* *
96433077 TAGTAGCCTGCACTAAGCACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
96433103 TGCGATCTCA
Statistics
Matches: 146, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
46 42 0.29
49 30 0.21
50 42 0.29
51 31 0.21
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:96433045 original size:50 final size:49
Alignment explanation
Indices: 96432868--96433102 Score: 244
Period size: 50 Copynumber: 4.8 Consensus size: 49
96432858 TAGCCAAAGC
* * * * *
96432868 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
96432917 TAT-TCGGTACACGTAGTA---TGCACTTAGTACTACACACGTGACCAAT
1 TATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
96432963 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * *
96433013 CATCTGATACACGTAGTAGCCTGCACCTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* ** * * * *
96433064 TTTAGGGTACGCATAGTAGCCTGCACTAAGCACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
96433103 TGCGATCTCA
Statistics
Matches: 155, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
46 41 0.26
48 1 0.01
49 39 0.25
50 42 0.27
51 31 0.20
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:96454742 original size:21 final size:22
Alignment explanation
Indices: 96454724--96454801 Score: 86
Period size: 23 Copynumber: 3.5 Consensus size: 22
96454714 TAAAGTGCAT
96454724 AAAACGACACACGAGGTGCCT-
1 AAAACGACACACGAGGTGCCTA
***
96454745 GCTACGACACACGAGGTGCCTGA
1 AAAACGACACACGAGGTGCCT-A
* *
96454768 TATACGACACACGAGGTGCCTA
1 AAAACGACACACGAGGTGCCTA
96454790 AAATACGACACA
1 AAA-ACGACACA
96454802 TAAAGTGCCT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
21 18 0.38
22 2 0.04
23 27 0.57
ACGTcount: A:0.36, C:0.28, G:0.23, T:0.13
Consensus pattern (22 bp):
AAAACGACACACGAGGTGCCTA
Found at i:96454811 original size:23 final size:22
Alignment explanation
Indices: 96454704--96454801 Score: 101
Period size: 21 Copynumber: 4.5 Consensus size: 22
96454694 CCTGATCAGT
** * *
96454704 ATACGACACATAAAGTGCATAA
1 ATACGACACACGAGGTGCCTAA
*
96454726 A-ACGACACACGAGGTGCCT-G
1 ATACGACACACGAGGTGCCTAA
* *
96454746 CTACGACACACGAGGTGCCTGAT
1 ATACGACACACGAGGTGCCT-AA
96454769 ATACGACACACGAGGTGCCTAAA
1 ATACGACACACGAGGTGCCT-AA
96454792 ATACGACACA
1 ATACGACACA
96454802 TAAAGTGCCT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
21 32 0.51
22 1 0.02
23 30 0.48
ACGTcount: A:0.38, C:0.27, G:0.21, T:0.14
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTAA
Found at i:96455209 original size:15 final size:15
Alignment explanation
Indices: 96455184--96455241 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
96455174 TCATATATAT
96455184 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
96455200 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
96455215 AATAATTTCAATCAA
1 TATAAATTCAATCAA
96455230 TATAAATTCAAT
1 TATAAATTCAAT
96455242 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:96459432 original size:21 final size:21
Alignment explanation
Indices: 96459394--96459512 Score: 130
Period size: 21 Copynumber: 5.5 Consensus size: 21
96459384 CCTGATCAGT
** *
96459394 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTA
* *
96459415 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTA
* *
96459436 CTACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTA
*
96459457 CTACGACACACGAGGTGCCTGA
1 ATACGACACACGAGGTGCCT-A
96459479 TATACGACACACGAGGTGCCTAAA
1 -ATACGACACACGAGGTGCCT--A
96459503 ATACGACACA
1 ATACGACACA
96459513 TAAAGTGCCT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
21 55 0.65
23 29 0.34
24 1 0.01
ACGTcount: A:0.34, C:0.29, G:0.23, T:0.14
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTA
Found at i:96459446 original size:23 final size:21
Alignment explanation
Indices: 96459417--96459499 Score: 139
Period size: 21 Copynumber: 3.9 Consensus size: 21
96459407 AGTGCCTAAA
96459417 ACGACACACGAGGTGCCTGCT
1 ACGACACACGAGGTGCCTGCT
96459438 ACGACACACGAGGTGCCTGCT
1 ACGACACACGAGGTGCCTGCT
*
96459459 ACGACACACGAGGTGCCTGATAT
1 ACGACACACGAGGTGCCTG--CT
96459482 ACGACACACGAGGTGCCT
1 ACGACACACGAGGTGCCT
96459500 AAAATACGAC
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
21 40 0.68
23 19 0.32
ACGTcount: A:0.27, C:0.31, G:0.28, T:0.14
Consensus pattern (21 bp):
ACGACACACGAGGTGCCTGCT
Found at i:96461986 original size:13 final size:13
Alignment explanation
Indices: 96461968--96461992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96461958 ATAGATGAAG
96461968 GATTGGTAAAGGT
1 GATTGGTAAAGGT
96461981 GATTGGTAAAGG
1 GATTGGTAAAGG
96461993 ATTGGTACCC
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:0.32, C:0.00, G:0.40, T:0.28
Consensus pattern (13 bp):
GATTGGTAAAGGT
Found at i:96461995 original size:11 final size:11
Alignment explanation
Indices: 96461965--96461999 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
96461955 ATGATAGATG
96461965 AAGGATTGGTA
1 AAGGATTGGTA
96461976 AAGGTGATTGGTA
1 AA-G-GATTGGTA
96461989 AAGGATTGGTA
1 AAGGATTGGTA
96462000 CCCATGATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 10 0.45
12 2 0.09
13 10 0.45
ACGTcount: A:0.34, C:0.00, G:0.37, T:0.29
Consensus pattern (11 bp):
AAGGATTGGTA
Found at i:96466083 original size:34 final size:35
Alignment explanation
Indices: 96466017--96466083 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
96466007 CCTAGCTATA
*
96466017 GTCTCAGTCTTCTAAAGTTTTCAGTTTTCCCTACT
1 GTCTCAGTCTTCTAAAGTTTTCAGTTTACCCTACT
*
96466052 GTCTCAGT-TTCTATAGTTTT-AGTATTACCCTA
1 GTCTCAGTCTTCTAAAGTTTTCAGT-TTACCCTA
96466084 ACTATAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 3 0.10
34 18 0.62
35 8 0.28
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.46
Consensus pattern (35 bp):
GTCTCAGTCTTCTAAAGTTTTCAGTTTACCCTACT
Found at i:96467201 original size:60 final size:60
Alignment explanation
Indices: 96467058--96467204 Score: 140
Period size: 60 Copynumber: 2.5 Consensus size: 60
96467048 ATTCAGAAAT
* * *
96467058 CAGAGTTA-ATTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTA
1 CAGAGTTATATTGGGCCTT-GCCCATATCAATATCAATATGGGCCATAGCCCATTACAGTA
* ** * * * *
96467118 CCAGAG-TATACTGTTCCTAGCCCATGTCAGTATCAATATGGGTCATAGCCCTATTACAAGT-
1 -CAGAGTTATATTGGGCCTTGCCCATATCAATATCAATATGGGCCATAGCCC-ATTAC-AGTA
96467179 C-GAGTTATATTGGGCCTTGCCCATAT
1 CAGAGTTATATTGGGCCTTGCCCATAT
96467205 TAACACAGTT
Statistics
Matches: 67, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
59 3 0.04
60 46 0.69
61 15 0.22
62 3 0.04
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (60 bp):
CAGAGTTATATTGGGCCTTGCCCATATCAATATCAATATGGGCCATAGCCCATTACAGTA
Found at i:96475908 original size:40 final size:40
Alignment explanation
Indices: 96475810--96476030 Score: 279
Period size: 40 Copynumber: 5.5 Consensus size: 40
96475800 ATGACCACCA
* * * *
96475810 GGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCG
* *
96475850 GGC-AAGTCCCGAAGGCATTTGCGCTAGTGACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCG
*
96475889 GGCTAAGTCCCGAGGGCATTTGTG-TGAGTTACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTAATTCCG
* *
96475929 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCG
* *
96475969 GGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA--CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTTA--CTAATTCCG
*
96476009 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
96476031 AGCGAGTAGC
Statistics
Matches: 165, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
39 38 0.23
40 123 0.75
42 4 0.02
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCG
Found at i:96479267 original size:12 final size:12
Alignment explanation
Indices: 96479250--96479274 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
96479240 TATGTATGTT
96479250 TGAAAATTTTTA
1 TGAAAATTTTTA
96479262 TGAAAATTTTTA
1 TGAAAATTTTTA
96479274 T
1 T
96479275 TATTTGCTGT
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:96479529 original size:12 final size:12
Alignment explanation
Indices: 96479512--96479536 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
96479502 TATGTATGTT
96479512 TGAAAATTTTTA
1 TGAAAATTTTTA
96479524 TGAAAATTTTTA
1 TGAAAATTTTTA
96479536 T
1 T
96479537 TATTTGCTGT
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:96479646 original size:262 final size:262
Alignment explanation
Indices: 96479181--96479705 Score: 1023
Period size: 262 Copynumber: 2.0 Consensus size: 262
96479171 ATATTTTAAA
*
96479181 TTTTTATGAAATTTTAATTAGTATTATAAGATAAAATTTTTATTACAAAAATATTACTGTATGTA
1 TTTTTATGAAATTTTAATTAGTATTATAAGATAAAATTATTATTACAAAAATATTACTGTATGTA
96479246 TGTTTGAAAATTTTTATGAAAATTTTTATTATTTGCTGTATTATTGGTATTTGAAATTTTTATTA
66 TGTTTGAAAATTTTTATGAAAATTTTTATTATTTGCTGTATTATTGGTATTTGAAATTTTTATTA
96479311 TTAGATATGTTTATGAAATTATTATTATTATTAGTAACTAAATATGTAACGAAGGGGTATAATAT
131 TTAGATATGTTTATGAAATTATTATTATTATTAGTAACTAAATATGTAACGAAGGGGTATAATAT
96479376 GGGGAAAGGTCCGGGGCTCGGCCCATAGCTTTAGCAAAATTCTTGAATCTTGCCTCTTAAGGGAA
196 GGGGAAAGGTCCGGGGCTCGGCCCATAGCTTTAGCAAAATTCTTGAATCTTGCCTCTTAAGGGAA
96479441 TC
261 TC
* *
96479443 TTTTTATGAAATTTTAATTAGTATTATGAGATAAAATTATTATTAGAAAAATATTACTGTATGTA
1 TTTTTATGAAATTTTAATTAGTATTATAAGATAAAATTATTATTACAAAAATATTACTGTATGTA
96479508 TGTTTGAAAATTTTTATGAAAATTTTTATTATTTGCTGTATTATTGGTATTTGAAATTTTTATTA
66 TGTTTGAAAATTTTTATGAAAATTTTTATTATTTGCTGTATTATTGGTATTTGAAATTTTTATTA
96479573 TTAGATATGTTTATGAAATTATTATTATTATTAGTAACTAAATATGTAACGAAGGGGTATAATAT
131 TTAGATATGTTTATGAAATTATTATTATTATTAGTAACTAAATATGTAACGAAGGGGTATAATAT
96479638 GGGGAAAGGTCCGGGGCTCGGCCCATAGCTTTAGCAAAATTCTTGAATCTTGCCTCTTAAGGGAA
196 GGGGAAAGGTCCGGGGCTCGGCCCATAGCTTTAGCAAAATTCTTGAATCTTGCCTCTTAAGGGAA
96479703 TC
261 TC
96479705 T
1 T
96479706 GGGCAGTAGG
Statistics
Matches: 260, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
262 260 1.00
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (262 bp):
TTTTTATGAAATTTTAATTAGTATTATAAGATAAAATTATTATTACAAAAATATTACTGTATGTA
TGTTTGAAAATTTTTATGAAAATTTTTATTATTTGCTGTATTATTGGTATTTGAAATTTTTATTA
TTAGATATGTTTATGAAATTATTATTATTATTAGTAACTAAATATGTAACGAAGGGGTATAATAT
GGGGAAAGGTCCGGGGCTCGGCCCATAGCTTTAGCAAAATTCTTGAATCTTGCCTCTTAAGGGAA
TC
Found at i:96481559 original size:25 final size:25
Alignment explanation
Indices: 96481531--96481600 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
96481521 TTATAATATN
*
96481531 AAAAGGGCTTTGCCCCAGTTTA-CTG
1 AAAAGGGCTTTGCCCCAGTTTATC-A
96481556 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
96481581 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
96481601 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
25 42 0.98
26 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:96481613 original size:24 final size:24
Alignment explanation
Indices: 96481531--96481613 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 24
96481521 TTATAATATN
*
96481531 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTA-TC
96481556 AAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
96481580 AAAAAGGGCTTTGCCCCAG-TTATT
1 -AAAAGGGCTTTGCCCCAGTTTATC
96481604 AAAAGAGGCT
1 AAAAG-GGCT
96481614 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
23 5 0.09
24 9 0.17
25 40 0.74
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:96481624 original size:50 final size:50
Alignment explanation
Indices: 96481531--96481625 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
96481521 TTATAATATN
**
96481531 AAAAGGGCTTTGCCCCAGTTTACTGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTATCA
*
96481581 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACTGAAAAG-GGCTAGGCC-CCAGTT
96481626 ATATGATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
48 6 0.15
49 10 0.25
50 24 0.60
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:96490552 original size:11 final size:10
Alignment explanation
Indices: 96490520--96490573 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
96490510 CATGAGATTT
96490520 TGATAT-ACA
1 TGATATGACA
*
96490529 TGATTTGACA
1 TGATATGACA
96490539 TGATATGCACA
1 TGATATG-ACA
*
96490550 TGATATG-TA
1 TGATATGACA
96490559 TGATATGCACA
1 TGATATG-ACA
96490570 TGAT
1 TGAT
96490574 GTATTCATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 13 0.35
10 9 0.24
11 15 0.41
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:96490702 original size:24 final size:24
Alignment explanation
Indices: 96490619--96490702 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
96490609 GGAGGAAGGG
*
96490619 CAAAAGGGCTATGCCCCAGTTTACT
1 CAAAAGGGCTTTGCCCCAGTTTA-T
*
96490644 GAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
96490668 CAAAAAGGGCTTTGCCCCAG-TTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
*
96490692 TAAAAGAGGCT
1 CAAAAG-GGCT
96490703 AGGCCTCCNT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
23 5 0.09
24 9 0.17
25 39 0.74
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:96490922 original size:31 final size:31
Alignment explanation
Indices: 96490887--96490994 Score: 171
Period size: 31 Copynumber: 3.5 Consensus size: 31
96490877 CGTTTGCAGT
96490887 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
96490918 AAAGGCTTCGGCCCAGCGATATGAATGATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
96490949 AAAGGCTTCGGCCCAGTGACATGGATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
96490980 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
96490995 ATATATGCTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.20
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:96500013 original size:92 final size:92
Alignment explanation
Indices: 96499897--96500141 Score: 337
Period size: 92 Copynumber: 2.7 Consensus size: 92
96499887 TCAGATAGTA
* * ** * *
96499897 GTACGTAGAGTAGCTAACATACATGTGGTATGGTGCAATGTGGTAATCCGCTATACCGATAGGTT
1 GTACGTAGTGTAGCTAACATACATGCGGTACAGTGCAATGCGGTAATCCGCTATACCAATAGGTT
* *
96499962 GTAGTAAAACTGCCAGTTCAGTCAAAT
66 GCAGTAAAACTGCCAGTTCAGTCAAAG
* **
96499989 GTACGCAGTGTAGCTAATGTACATGCGGTACAGTGCAATGCGGTAATCCGCTATACCAATAGGTT
1 GTACGTAGTGTAGCTAACATACATGCGGTACAGTGCAATGCGGTAATCCGCTATACCAATAGGTT
96500054 GCAGTAAAACTGCCAGTTCAGTCAAAG
66 GCAGTAAAACTGCCAGTTCAGTCAAAG
* * * ** *
96500081 GTACGTAGTGTAGCTGACATACATGCAGTACAGTGCAATACGACAATCCACTATACCAATA
1 GTACGTAGTGTAGCTAACATACATGCGGTACAGTGCAATGCGGTAATCCGCTATACCAATA
96500142 TGATGTCATC
Statistics
Matches: 133, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 133 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (92 bp):
GTACGTAGTGTAGCTAACATACATGCGGTACAGTGCAATGCGGTAATCCGCTATACCAATAGGTT
GCAGTAAAACTGCCAGTTCAGTCAAAG
Found at i:96500325 original size:4 final size:4
Alignment explanation
Indices: 96500316--96500351 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
96500306 AGTTTATGCA
96500316 TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
96500352 CAGTCAGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:96500678 original size:20 final size:21
Alignment explanation
Indices: 96500641--96500687 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
96500631 AGGCACACGC
96500641 CTGTGTGAAGTAGGGGTATGG
1 CTGTGTGAAGTAGGGGTATGG
*
96500662 CTGTGTGAAG-CGGGGTATGG
1 CTGTGTGAAGTAGGGGTATGG
*
96500682 CCGTGT
1 CTGTGT
96500688 AAACAGGCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.15, C:0.11, G:0.47, T:0.28
Consensus pattern (21 bp):
CTGTGTGAAGTAGGGGTATGG
Found at i:96500868 original size:13 final size:13
Alignment explanation
Indices: 96500847--96500880 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
96500837 CAGCCACACA
96500847 GCCGTGTGGCCAG
1 GCCGTGTGGCCAG
*
96500860 GCTGTGTGGCCAG
1 GCCGTGTGGCCAG
96500873 GCCGTGTG
1 GCCGTGTG
96500881 ACTCCTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.26, G:0.47, T:0.21
Consensus pattern (13 bp):
GCCGTGTGGCCAG
Found at i:96503771 original size:86 final size:87
Alignment explanation
Indices: 96503620--96503779 Score: 209
Period size: 86 Copynumber: 1.9 Consensus size: 87
96503610 ACACCACACC
* * * *
96503620 AGTAGGCACCGAAGTGCAAATAAATGGGCACCATAGTCCAAAGCGATAGTCACTGAAATGCAAAT
1 AGTAGGCACCGAAGTGCAAATAAATAGGCACCATAGTCCAAAGCAATAGGCACTCAAATGCAAAT
96503685 CAGTAGGCACCTAAGGTAGAAT
66 CAGTAGGCACCTAAGGTAGAAT
* * * *
96503707 AGTAGGCATCGAAGTGCAAA-AAGTAGGCACTATTA-TGCAAAGCAATAGGCAC-CAAAGTGCAA
1 AGTAGGCACCGAAGTGCAAATAAATAGGCACCA-TAGTCCAAAGCAATAGGCACTCAAA-TGCAA
96503769 ATCAGTAGGCA
64 ATCAGTAGGCA
96503780 TTGTAGTGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
85 3 0.05
86 39 0.62
87 21 0.33
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (87 bp):
AGTAGGCACCGAAGTGCAAATAAATAGGCACCATAGTCCAAAGCAATAGGCACTCAAATGCAAAT
CAGTAGGCACCTAAGGTAGAAT
Found at i:96503791 original size:44 final size:44
Alignment explanation
Indices: 96503622--96503912 Score: 234
Period size: 44 Copynumber: 6.7 Consensus size: 44
96503612 ACCACACCAG
* * * * * *
96503622 TAGGCACCGAAGTGCAAATAAATGGGCACCATAGTCCAAAGCGA
1 TAGGCACCGAAGTGCAAATCAGTAGGCACCGTAGTGCAAAGCAA
* * * * * *
96503666 TAGTCACTGAAATGCAAATCAGTAGGCACC-TAAG-GTAGAA-TAG
1 TAGGCACCGAAGTGCAAATCAGTAGGCACCGT-AGTGCA-AAGCAA
* * **
96503709 TAGGCATCGAAGTGCAAA-AAGTAGGCACTATTA-TGCAAAGCAA
1 TAGGCACCGAAGTGCAAATCAGTAGGCAC-CGTAGTGCAAAGCAA
* **
96503752 TAGGCACCAAAGTGCAAATCAGTAGGCATTGTAGTGCAAAGCAA
1 TAGGCACCGAAGTGCAAATCAGTAGGCACCGTAGTGCAAAGCAA
* * **
96503796 TAGGCACCGAAGTGTAGAA-CAGTAGGCACCATAGTGCAAAATAA
1 TAGGCACCGAAGTGCA-AATCAGTAGGCACCGTAGTGCAAAGCAA
* * * * *
96503840 TAGGCATCGGAGTGCAAATTAGTAGGCACCGTAGTGTAAAGCAG
1 TAGGCACCGAAGTGCAAATCAGTAGGCACCGTAGTGCAAAGCAA
* *
96503884 TATGCACCAAAGTGCAAATCAGTAGGCAC
1 TAGGCACCGAAGTGCAAATCAGTAGGCAC
96503913 TGAACTACAG
Statistics
Matches: 190, Mismatches: 47, Indels: 20
0.74 0.18 0.08
Matches are distributed among these distances:
42 11 0.06
43 40 0.21
44 137 0.72
45 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (44 bp):
TAGGCACCGAAGTGCAAATCAGTAGGCACCGTAGTGCAAAGCAA
Found at i:96503809 original size:22 final size:22
Alignment explanation
Indices: 96503619--96503912 Score: 167
Period size: 22 Copynumber: 13.5 Consensus size: 22
96503609 TACACCACAC
96503619 CAGTAGGCACCGAAGTGCAAAT
1 CAGTAGGCACCGAAGTGCAAAT
* * * * *
96503641 AAATGGGCACC-ATAGTCCAAAG
1 CAGTAGGCACCGA-AGTGCAAAT
* * *
96503663 C-GATAGTCACTGAAATGCAAAT
1 CAG-TAGGCACCGAAGTGCAAAT
* *
96503685 CAGTAGGCACCTAAG-GTAGAAT
1 CAGTAGGCACCGAAGTGCA-AAT
*
96503707 -AGTAGGCATCGAAGTGCAAA-
1 CAGTAGGCACCGAAGTGCAAAT
* * *
96503727 AAGTAGGCA-CTATTA-TGCAAAG
1 CAGTAGGCACCGA--AGTGCAAAT
* *
96503749 CAATAGGCACCAAAGTGCAAAT
1 CAGTAGGCACCGAAGTGCAAAT
** * *
96503771 CAGTAGGCATTGTAGTGCAAAG
1 CAGTAGGCACCGAAGTGCAAAT
* *
96503793 CAATAGGCACCGAAGTGTAGAA-
1 CAGTAGGCACCGAAGTGCA-AAT
96503815 CAGTAGGCACC-ATAGTGCAAAAT
1 CAGTAGGCACCGA-AGTGC-AAAT
* * *
96503838 -AATAGGCATCGGAGTGCAAAT
1 CAGTAGGCACCGAAGTGCAAAT
* * * *
96503859 TAGTAGGCACCGTAGTGTAAAG
1 CAGTAGGCACCGAAGTGCAAAT
* *
96503881 CAGTATGCACCAAAGTGCAAAT
1 CAGTAGGCACCGAAGTGCAAAT
96503903 CAGTAGGCAC
1 CAGTAGGCAC
96503913 TGAACTACAG
Statistics
Matches: 200, Mismatches: 54, Indels: 36
0.69 0.19 0.12
Matches are distributed among these distances:
20 2 0.01
21 37 0.19
22 154 0.77
23 7 0.04
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (22 bp):
CAGTAGGCACCGAAGTGCAAAT
Found at i:96503832 original size:66 final size:66
Alignment explanation
Indices: 96503619--96503911 Score: 215
Period size: 66 Copynumber: 4.5 Consensus size: 66
96503609 TACACCACAC
* * * * * ** * * * * * *
96503619 CAGTAGGCACCGAAGTGCAAATAAATGGGCACCATAGTCCAAAGCGATAGTCACTGAAATGCAAA
1 CAGTAGGCACCAAAGTGCAAATCAGTAGGCATCGGAGTGCAAAGCAATAGGCACCGAAGTGTAAA
*
96503684 T
66 G
* * * *
96503685 CAGTAGGCACCTAAG-GTAGAAT-AGTAGGCATCGAAGTGCAAA--AAGTAGGCA-CTATTA-TG
1 CAGTAGGCACCAAAGTGCA-AATCAGTAGGCATCGGAGTGCAAAGCAA-TAGGCACCGA--AGTG
*
96503744 CAAAG
62 TAAAG
* * *
96503749 CAATAGGCACCAAAGTGCAAATCAGTAGGCATTGTAGTGCAAAGCAATAGGCACCGAAGTGTAGA
1 CAGTAGGCACCAAAGTGCAAATCAGTAGGCATCGGAGTGCAAAGCAATAGGCACCGAAGTGTA-A
96503814 A-
65 AG
* * ** * *
96503815 CAGTAGGCACCATAGTGCAAAAT-AATAGGCATCGGAGTGCAAATTAGTAGGCACCGTAGTGTAA
1 CAGTAGGCACCAAAGTGC-AAATCAGTAGGCATCGGAGTGCAAAGCAATAGGCACCGAAGTGTAA
96503879 AG
65 AG
*
96503881 CAGTATGCACCAAAGTGCAAATCAGTAGGCA
1 CAGTAGGCACCAAAGTGCAAATCAGTAGGCA
96503912 CTGAACTACA
Statistics
Matches: 181, Mismatches: 32, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
63 2 0.01
64 27 0.15
65 44 0.24
66 98 0.54
67 10 0.06
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (66 bp):
CAGTAGGCACCAAAGTGCAAATCAGTAGGCATCGGAGTGCAAAGCAATAGGCACCGAAGTGTAAA
G
Found at i:96505251 original size:30 final size:29
Alignment explanation
Indices: 96505225--96505299 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 29
96505215 ATTACATAAA
*
96505225 ATAAATAGTAATATACATAGCATACATGAT
1 ATAAATA-TAATATACATAACATACATGAT
96505255 ATAAACTATAATATACATAACATACATGAT
1 ATAAA-TATAATATACATAACATACATGAT
*
96505285 ATAAACAATAATATA
1 ATAAA-TATAATATA
96505300 TGCAGACACT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
30 40 0.95
31 2 0.05
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (29 bp):
ATAAATATAATATACATAACATACATGAT
Found at i:96505508 original size:14 final size:15
Alignment explanation
Indices: 96505489--96505526 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
96505479 AATCTTCAAT
96505489 GATATG-CAATCTTA
1 GATATGACAATCTTA
96505503 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
96505520 GATATGA
1 GATATGA
96505527 TTGCAATCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:96505515 original size:17 final size:17
Alignment explanation
Indices: 96505495--96505527 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
96505485 CAATGATATG
96505495 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
96505512 CAATCTTAGATATGAT
1 CAATCTTAGATATGAT
96505528 TGCAATCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:96505853 original size:17 final size:17
Alignment explanation
Indices: 96505829--96505863 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96505819 TGTTTCCCTG
*
96505829 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
96505847 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
96505864 GTATCATATC
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:96506731 original size:17 final size:17
Alignment explanation
Indices: 96506709--96506750 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
96506699 AGAAGCTATG
96506709 CTTTCGTAAGGTTTTCA
1 CTTTCGTAAGGTTTTCA
96506726 CTTTCGTAAGGTTTTCA
1 CTTTCGTAAGGTTTTCA
*
96506743 CCTTCGTA
1 CTTTCGTA
96506751 TGAGCTAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (17 bp):
CTTTCGTAAGGTTTTCA
Found at i:96513097 original size:311 final size:311
Alignment explanation
Indices: 96512534--96513100 Score: 1134
Period size: 311 Copynumber: 1.8 Consensus size: 311
96512524 AGTTCATTAG
96512534 ATTAATGCTATACACGACAAAGGATCGGAGCAAGGAAACCTTGAGGGCATTCGCCCTTACTAACC
1 ATTAATGCTATACACGACAAAGGATCGGAGCAAGGAAACCTTGAGGGCATTCGCCCTTACTAACC
96512599 GAGAAGCTCTGTGAACAATTGGACTGTGGAGGAACTTCCTGTAGTCTTTAGGAATTTTTCAGAGT
66 GAGAAGCTCTGTGAACAATTGGACTGTGGAGGAACTTCCTGTAGTCTTTAGGAATTTTTCAGAGT
96512664 AATTCTCGAAACATTCTTGTTACTCTAGAGCTTAGGAGTAATAGGATTTCATTTGTGAAATGGGC
131 AATTCTCGAAACATTCTTGTTACTCTAGAGCTTAGGAGTAATAGGATTTCATTTGTGAAATGGGC
96512729 TTACGATCATCTATTATTTTTTTAATAAAGCATAACTTTTATCAATTTGAACGAGTATTGTCTAT
196 TTACGATCATCTATTATTTTTTTAATAAAGCATAACTTTTATCAATTTGAACGAGTATTGTCTAT
96512794 GGTGACCTTATTTCACGATATGATGCACAAGGAAATTGAGGTGTATGTTTC
261 GGTGACCTTATTTCACGATATGATGCACAAGGAAATTGAGGTGTATGTTTC
96512845 ATTAATGCTATACACGACAAAGGATCGGAGCAAGGAAACCTTGAGGGCATTCGCCCTTACTAACC
1 ATTAATGCTATACACGACAAAGGATCGGAGCAAGGAAACCTTGAGGGCATTCGCCCTTACTAACC
96512910 GAGAAGCTCTGTGAACAATTGGACTGTGGAGGAACTTCCTGTAGTCTTTAGGAATTTTTCAGAGT
66 GAGAAGCTCTGTGAACAATTGGACTGTGGAGGAACTTCCTGTAGTCTTTAGGAATTTTTCAGAGT
96512975 AATTCTCGAAACATTCTTGTTACTCTAGAGCTTAGGAGTAATAGGATTTCATTTGTGAAATGGGC
131 AATTCTCGAAACATTCTTGTTACTCTAGAGCTTAGGAGTAATAGGATTTCATTTGTGAAATGGGC
96513040 TTACGATCATCTATTATTTTTTTAATAAAGCATAACTTTTATCAATTTGAACGAGTATTGT
196 TTACGATCATCTATTATTTTTTTAATAAAGCATAACTTTTATCAATTTGAACGAGTATTGT
96513101 TTCATTTTTA
Statistics
Matches: 256, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
311 256 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (311 bp):
ATTAATGCTATACACGACAAAGGATCGGAGCAAGGAAACCTTGAGGGCATTCGCCCTTACTAACC
GAGAAGCTCTGTGAACAATTGGACTGTGGAGGAACTTCCTGTAGTCTTTAGGAATTTTTCAGAGT
AATTCTCGAAACATTCTTGTTACTCTAGAGCTTAGGAGTAATAGGATTTCATTTGTGAAATGGGC
TTACGATCATCTATTATTTTTTTAATAAAGCATAACTTTTATCAATTTGAACGAGTATTGTCTAT
GGTGACCTTATTTCACGATATGATGCACAAGGAAATTGAGGTGTATGTTTC
Found at i:96516028 original size:11 final size:11
Alignment explanation
Indices: 96516012--96516042 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
96516002 TGAGTTTTCG
96516012 AAAAAAAAGAA
1 AAAAAAAAGAA
96516023 AAAAAAAAGAA
1 AAAAAAAAGAA
*
96516034 AGAAAAAAG
1 AAAAAAAAG
96516043 GGAGAGGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Done.