Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 13 of 131
Found at i:4242685 original size:27 final size:27
Alignment explanation
Indices: 4242649--4242708 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
4242639 CTGACGACCT
4242649 CAACTCGCCAAGCCCT-TTGGCGAACAC
1 CAACTCGCCAAGCCCTCTT-GCGAACAC
* * *
4242676 CAACTTGCCAGGCCCTCTTGTGAACAC
1 CAACTCGCCAAGCCCTCTTGCGAACAC
4242703 CAACTC
1 CAACTC
4242709 TCTAGGCCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 26 0.93
28 2 0.07
ACGTcount: A:0.25, C:0.40, G:0.17, T:0.18
Consensus pattern (27 bp):
CAACTCGCCAAGCCCTCTTGCGAACAC
Found at i:4246459 original size:11 final size:11
Alignment explanation
Indices: 4246427--4246485 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
4246417 AGAAAAGAGA
*
4246427 GAATGATGAAT
1 GAATGAGGAAT
4246438 G-ATGA-GAAT
1 GAATGAGGAAT
4246447 GAATGAGGAAT
1 GAATGAGGAAT
*
4246458 GATTGAGGGATGAT
1 GAATGA-GGA--AT
4246472 GAATGAAGGAAT
1 GAATG-AGGAAT
4246484 GA
1 GA
4246486 TAGGGTCTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 10 0.25
12 7 0.17
14 9 0.22
15 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.36, T:0.22
Consensus pattern (11 bp):
GAATGAGGAAT
Found at i:4261282 original size:31 final size:32
Alignment explanation
Indices: 4261242--4261304 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
4261232 AACAACTCAG
4261242 TGACTTTAAAAAAAAACCTTTAAATAGTTCAA
1 TGACTTTAAAAAAAAACCTTTAAATAGTTCAA
** * *
4261274 TGAC-TTAAATGAAAGCTTTTAAATAGTTCAA
1 TGACTTTAAAAAAAAACCTTTAAATAGTTCAA
4261305 AACTAAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (32 bp):
TGACTTTAAAAAAAAACCTTTAAATAGTTCAA
Found at i:4262820 original size:20 final size:20
Alignment explanation
Indices: 4262780--4262823 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4262770 TTACATAATA
*
4262780 TAATAATATATTTAAATTAT
1 TAATAATATATTTAAACTAT
4262800 TAATACATATATTT-AACTAT
1 TAATA-ATATATTTAAACTAT
4262820 TAAT
1 TAAT
4262824 TGGTTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATAATATATTTAAACTAT
Found at i:4263327 original size:43 final size:43
Alignment explanation
Indices: 4263274--4263378 Score: 183
Period size: 43 Copynumber: 2.4 Consensus size: 43
4263264 AAAGTGGAGA
4263274 TTATTTTTATTTCAAACTCAGAAGAAAATTTTGATGTGGATAT
1 TTATTTTTATTTCAAACTCAGAAGAAAATTTTGATGTGGATAT
4263317 TTATTTTTATTTCAAACTCAGAAGAAAATTTTGATGTGGATAT
1 TTATTTTTATTTCAAACTCAGAAGAAAATTTTGATGTGGATAT
4263360 TTATCTATTTATTATCAAA
1 TTAT-T-TTTATT-TCAAA
4263379 TTGATGTGGA
Statistics
Matches: 59, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
43 47 0.80
44 1 0.02
45 6 0.10
46 5 0.08
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (43 bp):
TTATTTTTATTTCAAACTCAGAAGAAAATTTTGATGTGGATAT
Found at i:4263958 original size:20 final size:22
Alignment explanation
Indices: 4263933--4263973 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
4263923 CCTTTGTACA
4263933 TATATAA-ACTAT-TAATATAT
1 TATATAACACTATATAATATAT
*
4263953 TATATAACATTATATAATATA
1 TATATAACACTATATAATATA
4263974 GTAGGACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (22 bp):
TATATAACACTATATAATATAT
Found at i:4264095 original size:20 final size:19
Alignment explanation
Indices: 4264057--4264106 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
4264047 TAATAATTAA
4264057 TATATTATGT-ATTACTAT
1 TATATTATGTAATTACTAT
*
4264075 TATATTATGTAATATAGTAT
1 TATATTATGTAAT-TACTAT
* *
4264095 TAAATAATGTAA
1 TATATTATGTAA
4264107 GTATTAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 10 0.37
19 2 0.07
20 15 0.56
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (19 bp):
TATATTATGTAATTACTAT
Found at i:4266466 original size:45 final size:45
Alignment explanation
Indices: 4266398--4266492 Score: 174
Period size: 45 Copynumber: 2.1 Consensus size: 45
4266388 ACTACATAAC
*
4266398 GAGT-TGGTCGAACAGAGCTTCGACAAACCAGTGGAGTCATGACG
1 GAGTATGGTCGAACAGAGCTTCGACAAACCAATGGAGTCATGACG
4266442 GAGTATGGTCGAACAGAGCTTCGACAAACCAATGGAGTCATGACG
1 GAGTATGGTCGAACAGAGCTTCGACAAACCAATGGAGTCATGACG
4266487 GAGTAT
1 GAGTAT
4266493 ATGAGAGGGG
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 4 0.08
45 45 0.92
ACGTcount: A:0.32, C:0.19, G:0.31, T:0.19
Consensus pattern (45 bp):
GAGTATGGTCGAACAGAGCTTCGACAAACCAATGGAGTCATGACG
Found at i:4301998 original size:41 final size:40
Alignment explanation
Indices: 4301942--4302048 Score: 133
Period size: 41 Copynumber: 2.6 Consensus size: 40
4301932 ATAGTTAATT
*
4301942 ATACCCTGAATTGCACATACATGCCCCTGTTTGTACTTCG
1 ATACCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCG
* * *
4301982 ATACCCATGAATTGCACATACGTGGCCTTGTTTGTACTTTG
1 ATACCC-TGAATTGCACATACGTGCCCCTGTTTGTACTTCG
* * *
4302023 GTACCCCTAAATTGCCCATACGTGCC
1 ATA-CCCTGAATTGCACATACGTGCC
4302049 TATTTACACT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
40 6 0.11
41 48 0.84
42 3 0.05
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.32
Consensus pattern (40 bp):
ATACCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCG
Found at i:4315069 original size:41 final size:41
Alignment explanation
Indices: 4315024--4315169 Score: 188
Period size: 41 Copynumber: 3.6 Consensus size: 41
4315014 AGTTAATTAT
* *
4315024 ACCCTGAATTGCACATATGTGCCTCTGTTTGCACTTTGGTA
1 ACCCTGAATTGCACATATGTGCCTCTGTTTGTACTTCGGTA
* **
4315065 ACCCTGAATTGCCCATATGTGCC-CTTGTTTGTACTTCAATA
1 ACCCTGAATTGCACATATGTGCCTC-TGTTTGTACTTCGGTA
* *
4315106 CCCCTGAATTGCACATAAGTGCCAT-TGTTTGTACTTCGGTA
1 ACCCTGAATTGCACATATGTGCC-TCTGTTTGTACTTCGGTA
*
4315147 TCCCTGAATTGCACATATGTGCC
1 ACCCTGAATTGCACATATGTGCC
4315170 CTATTTATAC
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
40 1 0.01
41 89 0.99
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (41 bp):
ACCCTGAATTGCACATATGTGCCTCTGTTTGTACTTCGGTA
Found at i:4317511 original size:20 final size:20
Alignment explanation
Indices: 4317488--4317531 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
4317478 CCACTTTCCG
4317488 TTTCTTAGAACCATTTACCA
1 TTTCTTAGAACCATTTACCA
* * *
4317508 TTTCTTATATCCATTTGCCA
1 TTTCTTAGAACCATTTACCA
4317528 TTTC
1 TTTC
4317532 ATATATCCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.25, G:0.05, T:0.48
Consensus pattern (20 bp):
TTTCTTAGAACCATTTACCA
Found at i:4317536 original size:20 final size:20
Alignment explanation
Indices: 4317498--4317543 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
4317488 TTTCTTAGAA
*
4317498 CCATTTACCATTTCTTATAT
1 CCATTTACCATTTCATATAT
*
4317518 CCATTTGCCATTTCATATAT
1 CCATTTACCATTTCATATAT
4317538 CCATTT
1 CCATTT
4317544 CCACCCACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.26, G:0.02, T:0.48
Consensus pattern (20 bp):
CCATTTACCATTTCATATAT
Found at i:4317620 original size:24 final size:24
Alignment explanation
Indices: 4317590--4317656 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
4317580 GCAAGATAAC
**
4317590 AATGCTCACACGAGCTATGAGTAT
1 AATGCTCACACGAGCTATGAAAAT
*
4317614 AATGCTCACAC-AGGCTGTGAAAAT
1 AATGCTCACACGA-GCTATGAAAAT
4317638 AATGCTCACACGAGCTATG
1 AATGCTCACACGAGCTATG
4317657 GATCGAGATG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.03
24 35 0.95
25 1 0.03
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (24 bp):
AATGCTCACACGAGCTATGAAAAT
Found at i:4322665 original size:21 final size:21
Alignment explanation
Indices: 4322639--4322691 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
4322629 AGAAGGTGAT
4322639 GTCATCGTCCTCCATCACCTC
1 GTCATCGTCCTCCATCACCTC
4322660 GTCATCGTCCTCCATCACCTC
1 GTCATCGTCCTCCATCACCTC
*
4322681 -TCATCCTCCTC
1 GTCATCGTCCTC
4322692 TTCTTCATCT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 10 0.32
21 21 0.68
ACGTcount: A:0.13, C:0.49, G:0.08, T:0.30
Consensus pattern (21 bp):
GTCATCGTCCTCCATCACCTC
Found at i:4323886 original size:9 final size:9
Alignment explanation
Indices: 4323874--4323899 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4323864 AATAGCTAAA
4323874 ATAACAAAG
1 ATAACAAAG
4323883 ATAACAAAG
1 ATAACAAAG
4323892 ATAACAAA
1 ATAACAAA
4323900 TGCAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.12, G:0.08, T:0.12
Consensus pattern (9 bp):
ATAACAAAG
Found at i:4337573 original size:46 final size:46
Alignment explanation
Indices: 4337461--4337573 Score: 129
Period size: 46 Copynumber: 2.5 Consensus size: 46
4337451 GATGCCATAA
* *
4337461 TGTCTTTCAACTATGGCCTTATTCATTTACCATCATATTTCCACAG
1 TGTCTTTCAACTATGGTCTTATTCATTTACCATCATATTACCACAG
* * * * * *
4337507 TGTCTTTCAACCATGCTCTTATTCATTT-CTCGTCATGTTACTATAG
1 TGTCTTTCAACTATGGTCTTATTCATTTAC-CATCATATTACCACAG
*
4337553 TGTCTTTCAATTATGGTCTTA
1 TGTCTTTCAACTATGGTCTTA
4337574 CACATCTTAA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 1 0.02
46 54 0.98
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (46 bp):
TGTCTTTCAACTATGGTCTTATTCATTTACCATCATATTACCACAG
Found at i:4337615 original size:45 final size:45
Alignment explanation
Indices: 4337554--4337933 Score: 399
Period size: 45 Copynumber: 8.4 Consensus size: 45
4337544 TTACTATAGT
** * * * * *
4337554 GTCTTTCAATTATGGTCTTACACATCTTAATTGTGATACCATAAC
1 GTCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAAC
* * * *
4337599 GCCTTT-TGACTATGGTCTTACTGGTCTGAATCGTGATGCCATAAT
1 GTCTTTCAG-CTATGGTCTTACTCGTCTGAATCGTGATGCCATAAC
* * *
4337644 GGCTTTCAGCTATGGTCTTACTCGTTTGAATTGTGATGCCATAAC
1 GTCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAAC
4337689 GTCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAAC
1 GTCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAAC
* * * *
4337734 GTCTTTCAACTATGGTCTTACTCATTTGAATCATGATGCCATAAC
1 GTCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAAC
* * * *
4337779 ATCTTTCAGCTATGGTCTTACTCGTTTGAATTGTGGTGCCATAAC
1 GTCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAAC
* * * * *
4337824 ATCTTTCAACTATGGCCTTACTCATCTGAATCGTGATGTCATAAC
1 GTCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAAC
* * * * *
4337869 GTCTTTCAGTTATTGTCTTACTCATTTCTG-GT-ATGATGCCAT-AC
1 GTCTTTCAGCTATGGTCTTACTC--GTCTGAATCGTGATGCCATAAC
*
4337913 TGTCTTTCAACTATGGTCTTA
1 -GTCTTTCAGCTATGGTCTTA
4337934 TTTATTTCTA
Statistics
Matches: 281, Mismatches: 49, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
44 2 0.01
45 273 0.97
46 2 0.01
47 4 0.01
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.39
Consensus pattern (45 bp):
GTCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAAC
Found at i:4337709 original size:90 final size:90
Alignment explanation
Indices: 4337554--4337933 Score: 446
Period size: 90 Copynumber: 4.2 Consensus size: 90
4337544 TTACTATAGT
* * * * * *
4337554 GTCTTTCAATTATGGTCTTACACATCTT-AATTGTGATACCATAACGCCTTT-TGACTATGGTCT
1 GTCTTTCAACTATGGTCTTACTCAT-TTGAATCGTGATGCCATAACGTCTTTCAG-CTATGGTCT
* *
4337617 TACTGGTCTGAATCGTGATGCCATAAT
64 TACTCGTCTGAATCGTGATGCCATAAC
* * * *
4337644 GGCTTTCAGCTATGGTCTTACTCGTTTGAATTGTGATGCCATAACGTCTTTCAGCTATGGTCTTA
1 GTCTTTCAACTATGGTCTTACTCATTTGAATCGTGATGCCATAACGTCTTTCAGCTATGGTCTTA
4337709 CTCGTCTGAATCGTGATGCCATAAC
66 CTCGTCTGAATCGTGATGCCATAAC
* *
4337734 GTCTTTCAACTATGGTCTTACTCATTTGAATCATGATGCCATAACATCTTTCAGCTATGGTCTTA
1 GTCTTTCAACTATGGTCTTACTCATTTGAATCGTGATGCCATAACGTCTTTCAGCTATGGTCTTA
* * *
4337799 CTCGTTTGAATTGTGGTGCCATAAC
66 CTCGTCTGAATCGTGATGCCATAAC
* * * * * *
4337824 ATCTTTCAACTATGGCCTTACTCATCTGAATCGTGATGTCATAACGTCTTTCAGTTATTGTCTTA
1 GTCTTTCAACTATGGTCTTACTCATTTGAATCGTGATGCCATAACGTCTTTCAGCTATGGTCTTA
* * *
4337889 CTCATTTCTG-GT-ATGATGCCAT-AC
66 CTC--GTCTGAATCGTGATGCCATAAC
4337913 TGTCTTTCAACTATGGTCTTA
1 -GTCTTTCAACTATGGTCTTA
4337934 TTTATTTCTA
Statistics
Matches: 251, Mismatches: 34, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
89 4 0.02
90 242 0.96
91 2 0.01
92 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.39
Consensus pattern (90 bp):
GTCTTTCAACTATGGTCTTACTCATTTGAATCGTGATGCCATAACGTCTTTCAGCTATGGTCTTA
CTCGTCTGAATCGTGATGCCATAAC
Found at i:4337731 original size:135 final size:135
Alignment explanation
Indices: 4337554--4337933 Score: 469
Period size: 135 Copynumber: 2.8 Consensus size: 135
4337544 TTACTATAGT
* * * * * * **
4337554 GTCTTTCAATTATGGTCTTACACATCTTAATTGTGATACCATAACGCCTTTTGACTATGGTCTTA
1 GTCTTTCAACTATGGTCTTACTCATCTGAATCGTGATGCCATAACGTCTTTCAACTATGGTCTTA
** * **
4337619 CTGGTCTGAATCGTGATGCCATAATGGCTTTCAGCTATGGTCTTACTCGTTTGAATTGTGATGCC
66 CTCATCTGAATCATGATGCCATAACAGCTTTCAGCTATGGTCTTACTCGTTTGAATTGTGATGCC
4337684 ATAAC
131 ATAAC
* *
4337689 GTCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAACGTCTTTCAACTATGGTCTTA
1 GTCTTTCAACTATGGTCTTACTCATCTGAATCGTGATGCCATAACGTCTTTCAACTATGGTCTTA
* * *
4337754 CTCATTTGAATCATGATGCCATAACATCTTTCAGCTATGGTCTTACTCGTTTGAATTGTGGTGCC
66 CTCATCTGAATCATGATGCCATAACAGCTTTCAGCTATGGTCTTACTCGTTTGAATTGTGATGCC
4337819 ATAAC
131 ATAAC
* * * ** *
4337824 ATCTTTCAACTATGGCCTTACTCATCTGAATCGTGATGTCATAACGTCTTTCAGTTATTGTCTTA
1 GTCTTTCAACTATGGTCTTACTCATCTGAATCGTGATGCCATAACGTCTTTCAACTATGGTCTTA
* * *
4337889 CTCATTTCTG-GT-ATGATGCCAT-ACTGTCTTTCAACTATGGTCTTA
66 CTCA--TCTGAATCATGATGCCATAACAG-CTTTCAGCTATGGTCTTA
4337934 TTTATTTCTA
Statistics
Matches: 211, Mismatches: 31, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
134 2 0.01
135 205 0.97
136 1 0.00
137 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.39
Consensus pattern (135 bp):
GTCTTTCAACTATGGTCTTACTCATCTGAATCGTGATGCCATAACGTCTTTCAACTATGGTCTTA
CTCATCTGAATCATGATGCCATAACAGCTTTCAGCTATGGTCTTACTCGTTTGAATTGTGATGCC
ATAAC
Found at i:4337941 original size:45 final size:45
Alignment explanation
Indices: 4337725--4337986 Score: 139
Period size: 45 Copynumber: 5.8 Consensus size: 45
4337715 TGAATCGTGA
* *
4337725 TGCCATAAC-GTCTTTCAACTATGGTCTTACTCATTT-GAATCAT-G
1 TGCCAT-ACTGTCTTTCAACTATGGTCTTACTCATTTCTAGT-ATAG
* * * ** * * *
4337769 ATGCCATAAC-ATCTTTCAGCTATGGTCTTACTCGTTTGAATTGTGG
1 -TGCCAT-ACTGTCTTTCAACTATGGTCTTACTCATTTCTAGTATAG
* * * *
4337815 TGCCATAAC-ATCTTTCAACTATGGCCTTACTCA--TCT-GAATCGTG
1 TGCCAT-ACTGTCTTTCAACTATGGTCTTACTCATTTCTAGTAT--AG
* ** * *
4337859 ATGTCATAAC-GTCTTTCAGTTATTGTCTTACTCATTTCTGGTAT-G
1 -TGCCAT-ACTGTCTTTCAACTATGGTCTTACTCATTTCTAGTATAG
* *
4337904 ATGCCATACTGTCTTTCAACTATGGTCTTATTTATTTCTAGTATAG
1 -TGCCATACTGTCTTTCAACTATGGTCTTACTCATTTCTAGTATAG
* * * *
4337950 TGCCATAGTATATTTCAACTATGGTCTTAGTCATTTC
1 TGCCATACTGTCTTTCAACTATGGTCTTACTCATTTC
4337987 CTTCAAACCA
Statistics
Matches: 173, Mismatches: 34, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 3 0.02
45 158 0.91
46 4 0.02
47 3 0.02
48 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (45 bp):
TGCCATACTGTCTTTCAACTATGGTCTTACTCATTTCTAGTATAG
Found at i:4337953 original size:135 final size:135
Alignment explanation
Indices: 4337555--4337983 Score: 407
Period size: 135 Copynumber: 3.2 Consensus size: 135
4337545 TACTATAGTG
* * * * * * **
4337555 TCTTTCAATTATGGTCTTACACATCTTAATTGTGATACCATAACGCCTTTTGACTATGGTCTTAC
1 TCTTTCAACTATGGTCTTACTCATCTGAATCGTGATGCCATAACGTCTTTCAACTATGGTCTTAC
** * * *** * * * * *
4337620 TGGTCTGAATCGTGATGCCATAATGGCTTTCAGCTATGGTCTTACTCGTTTGAATTGT-GATGCC
66 TCATTTGAATCATGATGCCATAACATCTTTCAACTATGGTCTTACTCATTTCAAGTATAG-TGCC
*
4337684 ATAACG
130 ATAACA
* *
4337690 TCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAACGTCTTTCAACTATGGTCTTAC
1 TCTTTCAACTATGGTCTTACTCATCTGAATCGTGATGCCATAACGTCTTTCAACTATGGTCTTAC
* * * * * *
4337755 TCATTTGAATCATGATGCCATAACATCTTTCAGCTATGGTCTTACTCGTTTGAATTGTGGTGCCA
66 TCATTTGAATCATGATGCCATAACATCTTTCAACTATGGTCTTACTCATTTCAAGTATAGTGCCA
4337820 TAACA
131 TAACA
* * ** *
4337825 TCTTTCAACTATGGCCTTACTCATCTGAATCGTGATGTCATAACGTCTTTCAGTTATTGTCTTAC
1 TCTTTCAACTATGGTCTTACTCATCTGAATCGTGATGCCATAACGTCTTTCAACTATGGTCTTAC
* * * * *
4337890 TCATTTCTG-GT-ATGATGCCAT-ACTGTCTTTCAACTATGGTCTTATTTATTTCTAGTATAGTG
66 TCA-TT-TGAATCATGATGCCATAAC-ATCTTTCAACTATGGTCTTACTCATTTCAAGTATAGTG
**
4337952 CCATAGTA
128 CCATAACA
* *
4337960 TATTTCAACTATGGTCTTAGTCAT
1 TCTTTCAACTATGGTCTTACTCAT
4337984 TTCCTTCAAA
Statistics
Matches: 249, Mismatches: 41, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
134 2 0.01
135 241 0.97
136 4 0.02
137 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (135 bp):
TCTTTCAACTATGGTCTTACTCATCTGAATCGTGATGCCATAACGTCTTTCAACTATGGTCTTAC
TCATTTGAATCATGATGCCATAACATCTTTCAACTATGGTCTTACTCATTTCAAGTATAGTGCCA
TAACA
Found at i:4342850 original size:30 final size:29
Alignment explanation
Indices: 4342814--4342890 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
4342804 GTAGCCGAAG
* *
4342814 CCATCCCTGTTCATAATTCGATGGTCGTCA
1 CCATCCCTTTTCATAATT-GATGGTCGCCA
**
4342844 CCATCCCTTTTCATTGTTGATGGTCGCCA
1 CCATCCCTTTTCATAATTGATGGTCGCCA
*
4342873 CAATCCCTTTTCATAATT
1 CCATCCCTTTTCATAATT
4342891 TGATAGCCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 25 0.62
30 15 0.38
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.38
Consensus pattern (29 bp):
CCATCCCTTTTCATAATTGATGGTCGCCA
Found at i:4348483 original size:27 final size:27
Alignment explanation
Indices: 4348380--4348612 Score: 261
Period size: 27 Copynumber: 8.7 Consensus size: 27
4348370 TACCCTCGAT
* *
4348380 GGGTAAAATGACCGAAATAACCC-ATA
1 GGGTAAAATGACCGTAATACCCCTATA
* * * * *
4348406 AGGTAAAATGACTGAAATGCCCCCATA
1 GGGTAAAATGACCGTAATACCCCTATA
* * * * *
4348433 AGGTAAAATTACCATAATGCCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTATA
*
4348460 GGGTAAAATGACTGTAATACCCCTATA
1 GGGTAAAATGACCGTAATACCCCTATA
* * *
4348487 GGTTAAATTGACCGTAATACCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTATA
* *
4348514 GGGTAAAATGACCGTAATACCCTTTTA
1 GGGTAAAATGACCGTAATACCCCTATA
* *
4348541 GGGTAAAATAACTGTAATACCCCTATA
1 GGGTAAAATGACCGTAATACCCCTATA
* *
4348568 GGGTAAAATTACCGTAATACCCCTACA
1 GGGTAAAATGACCGTAATACCCCTATA
4348595 GGGTAAAATGACCGTAAT
1 GGGTAAAATGACCGTAAT
4348613 GCCCTGGTGG
Statistics
Matches: 174, Mismatches: 32, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
26 19 0.11
27 155 0.89
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATACCCCTATA
Found at i:4348510 original size:54 final size:54
Alignment explanation
Indices: 4348362--4348632 Score: 264
Period size: 54 Copynumber: 5.1 Consensus size: 54
4348352 TCCATATCTG
* * * * * *
4348362 GACTGAAATACCCTCGAT-GGGTAAAATGACCGAAATAACCC-ATAAGGTAAAAT
1 GACTGTAATACCC-CTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
* * * * * * *
4348415 GACTGAAATGCCCCCATAAGGTAAAATTACCATAATGCCCCTGTAGGGTAAAAT
1 GACTGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
* *
4348469 GACTGTAATACCCCTATAGGTTAAATTGACCGTAATACCCCTGTAGGGTAAAAT
1 GACTGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
* * * * * *
4348523 GACCGTAATACCCTTTTAGGGTAAAATAACTGTAATACCCCTATAGGGTAAAAT
1 GACTGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
* * * *
4348577 TACCGTAATACCCCTACAGGGTAAAATGACCGTAAT-GCCCTGGT-GGGT-AAAT
1 GACTGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCT-GTAGGGTAAAAT
4348629 GACT
1 GACT
4348633 ATTTTTGCCC
Statistics
Matches: 178, Mismatches: 37, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
52 9 0.05
53 37 0.21
54 132 0.74
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (54 bp):
GACTGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
Found at i:4348920 original size:32 final size:32
Alignment explanation
Indices: 4348879--4349124 Score: 153
Period size: 32 Copynumber: 7.7 Consensus size: 32
4348869 GCTGCGATGC
* * *
4348879 TACTGATGGCTTCGTGCCGATCATAGTACCAT
1 TACTGATGGCTTTGTGCCAATCATAGTACCGT
* *
4348911 TACTGATGGCTTTGTACCAATTATAGTACCGT
1 TACTGATGGCTTTGTGCCAATCATAGTACCGT
* *
4348943 TACTGATGGCTTTGCGCCAATCATATTACCGT
1 TACTGATGGCTTTGTGCCAATCATAGTACCGT
* * ** * *
4348975 TAC-AATGGCTGTGTGCTGATCAT--TTCAGT
1 TACTGATGGCTTTGTGCCAATCATAGTACCGT
* ** * * *
4349004 GCTACTGATGGCTATGTATCGATCATA-TCACTGC
1 --TACTGATGGCTTTGTGCCAATCATAGT-ACCGT
* * *
4349038 CACTGATGGCTTTGTGCCGATCAT-GTTACCAT
1 TACTGATGGCTTTGTGCCAATCATAG-TACCGT
* * ** * *
4349070 TACAGATGGCTGTGTGCTGATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCAATCATAGT-ACCGT
4349102 TACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTGCCAATCA
4349125 CATTATTGTA
Statistics
Matches: 163, Mismatches: 42, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
29 4 0.02
31 19 0.12
32 136 0.83
33 2 0.01
34 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCAATCATAGTACCGT
Found at i:4349142 original size:95 final size:95
Alignment explanation
Indices: 4348911--4349144 Score: 281
Period size: 95 Copynumber: 2.5 Consensus size: 95
4348901 ATAGTACCAT
* * * * *
4348911 TACTGATGGCTTTGTACCAATTATAGTACCGTTACTGATGGCTTTGCGCCAATCATATTACCGTT
1 TACTGATGGCTTTGTACCAATCATATTACTGCTACTGATGGCTTTGCGCCAATCATATTACCATT
* *
4348976 ACAATGGCTGTGTGCTGATCATTTCAGTGC
66 ACAATGGCTGTGTGCTGATCATATCACTGC
* * * * * * * *
4349006 TACTGATGGCTATGTATCGATCATATCACTGCCACTGATGGCTTTGTGCCGATCATGTTACCATT
1 TACTGATGGCTTTGTACCAATCATATTACTGCTACTGATGGCTTTGCGCCAATCATATTACCATT
4349071 ACAGATGGCTGTGTGCTGATCATATCACTGC
66 ACA-ATGGCTGTGTGCTGATCATATCACTGC
* * * *
4349102 TACTGATGGCTTTGTGCCAATCACATTATTG-TACTTATGGCTT
1 TACTGATGGCTTTGTACCAATCATATTACTGCTACTGATGGCTT
4349145 GTAGCCATTC
Statistics
Matches: 114, Mismatches: 24, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
95 65 0.57
96 49 0.43
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (95 bp):
TACTGATGGCTTTGTACCAATCATATTACTGCTACTGATGGCTTTGCGCCAATCATATTACCATT
ACAATGGCTGTGTGCTGATCATATCACTGC
Found at i:4349252 original size:26 final size:26
Alignment explanation
Indices: 4349194--4349246 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
4349184 GACTCTTAGC
* * *
4349194 CATTCTTACTACTGGCAGCTCTGCTG
1 CATTATTATTACTGGCAGCTATGCTG
4349220 CATTATTATTACTGGCAGCTATGCTG
1 CATTATTATTACTGGCAGCTATGCTG
4349246 C
1 C
4349247 GATATTGGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (26 bp):
CATTATTATTACTGGCAGCTATGCTG
Found at i:4353915 original size:32 final size:32
Alignment explanation
Indices: 4353830--4354064 Score: 276
Period size: 32 Copynumber: 7.4 Consensus size: 32
4353820 TAATGGCTAC
* **
4353830 AAGCCATAAGT-ACAGTAATATGATTAGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
** * *
4353861 AAGCCATCAGTAGTAGTGATATGA-CTGGTACA
1 AAGCCATCAGTAACAGTAATATGATC-GGCACA
* * *
4353893 AAGCCATCAGTAACGGTAATATGGTCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
4353925 AAGCCATCAGTAACAATAATATCATCGGCATA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
4353957 AAGCCATCAGTAATAGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
4353989 AAGCTATCAGTAACATTAATATGATCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
4354021 AAGCCATCAGTAACGGTAGTATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
4354053 AAGCCATCAGTA
1 AAGCCATCAGTA
4354065 GCATTACATC
Statistics
Matches: 168, Mismatches: 33, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
31 10 0.06
32 157 0.93
33 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:4354090 original size:23 final size:26
Alignment explanation
Indices: 4354056--4354110 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
4354046 CGGCACAAAG
* * * *
4354056 CCATCAGTAGCATTACATCAAAGCTA
1 CCATCAGCAGTATCACAACAAAGCTA
4354082 CCATCAGCAGTATCACAACAAAGCTA
1 CCATCAGCAGTATCACAACAAAGCTA
4354108 CCA
1 CCA
4354111 ATAATCAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.31, G:0.11, T:0.18
Consensus pattern (26 bp):
CCATCAGCAGTATCACAACAAAGCTA
Found at i:4354264 original size:24 final size:24
Alignment explanation
Indices: 4354237--4354318 Score: 110
Period size: 24 Copynumber: 3.4 Consensus size: 24
4354227 CCACGCTCAG
*
4354237 AATCAGTCATACCAAACACAGACA
1 AATCAATCATACCAAACACAGACA
*
4354261 AATCAATCATACCAATCACAGACA
1 AATCAATCATACCAAACACAGACA
*** *
4354285 AATCAATCATTTAAAACACAAACA
1 AATCAATCATACCAAACACAGACA
4354309 AATCAATCAT
1 AATCAATCAT
4354319 TTAACCACAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.52, C:0.26, G:0.04, T:0.18
Consensus pattern (24 bp):
AATCAATCATACCAAACACAGACA
Found at i:4354452 original size:27 final size:26
Alignment explanation
Indices: 4354422--4354775 Score: 307
Period size: 27 Copynumber: 13.2 Consensus size: 26
4354412 TATCATGGTC
4354422 ATTTTGCAAACTAGGGGTATTTCGGTA
1 ATTTTGCAAACT-GGGGTATTTCGGTA
*** *
4354449 ATTTCATAAACTGGGGGTATTTCGATA
1 ATTTTGCAAACT-GGGGTATTTCGGTA
4354476 ATTTTG-AAACTGGGGGTATTTCGGTA
1 ATTTTGCAAACT-GGGGTATTTCGGTA
** * *
4354502 ATTTCACAAATTGAGGGTATTTTGGTA
1 ATTTTGCAAACTG-GGGTATTTCGGTA
*
4354529 ATTTTGCAAACTGGGGTTATTTCGATA
1 ATTTTGCAAACTGGGG-TATTTCGGTA
* *
4354556 ATTTTGTAAACTGAGGGTATTTTGGTA
1 ATTTTGCAAACTG-GGGTATTTCGGTA
* *
4354583 ATTTTGCAAATTAGGGGTATTTCAGTA
1 ATTTTGCAAACT-GGGGTATTTCGGTA
* *
4354610 ATTTTGCAAATTGTGGGGATTTCGGTA
1 ATTTTGCAAACTG-GGGTATTTCGGTA
** * * *
4354637 ATTTCACAAATTGAAGGTATTTTGGTA
1 ATTTTGCAAACTG-GGGTATTTCGGTA
* *
4354664 ATTTTACAAACTGGGGGTATTTCGATA
1 ATTTTGCAAACT-GGGGTATTTCGGTA
* *
4354691 ATTTTAC-AACTCGAGGGTATTTCGATA
1 ATTTTGCAAACT-G-GGGTATTTCGGTA
* * *
4354718 ATTTTACAAATTAGAGGTATTTCGGTA
1 ATTTTGCAAACT-GGGGTATTTCGGTA
* *
4354745 ATTTTGTAAACTGAGGGTATTTCGATA
1 ATTTTGCAAACTG-GGGTATTTCGGTA
4354772 ATTT
1 ATTT
4354776 ACCCATTGAG
Statistics
Matches: 270, Mismatches: 47, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
26 34 0.13
27 227 0.84
28 9 0.03
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTTGCAAACTGGGGTATTTCGGTA
Found at i:4354481 original size:54 final size:53
Alignment explanation
Indices: 4354422--4354775 Score: 345
Period size: 54 Copynumber: 6.6 Consensus size: 53
4354412 TATCATGGTC
* * *
4354422 ATTTTGCAAACTAGGGGTATTTCGGTAATTTCATAAACTGGGGGTATTTCGATA
1 ATTTTGCAAACT-GGGGTATTTCGGTAATTTTACAAACTGGGGGTATTTCGGTA
* * * *
4354476 ATTTTG-AAACTGGGGGTATTTCGGTAATTTCACAAATTGAGGGTATTTTGGTA
1 ATTTTGCAAACT-GGGGTATTTCGGTAATTTTACAAACTGGGGGTATTTCGGTA
* ** * *
4354529 ATTTTGCAAACTGGGGTTATTTCGATAATTTTGTAAACTGAGGGTATTTTGGTA
1 ATTTTGCAAACTGGGG-TATTTCGGTAATTTTACAAACTGGGGGTATTTCGGTA
* * * *
4354583 ATTTTGCAAATTAGGGGTATTTCAGTAATTTTGCAAATTGTGGGG-ATTTCGGTA
1 ATTTTGCAAACT-GGGGTATTTCGGTAATTTTACAAACTG-GGGGTATTTCGGTA
** * * * *
4354637 ATTTCACAAATTGAAGGTATTTTGGTAATTTTACAAACTGGGGGTATTTCGATA
1 ATTTTGCAAACTG-GGGTATTTCGGTAATTTTACAAACTGGGGGTATTTCGGTA
* * * * *
4354691 ATTTTAC-AACTCGAGGGTATTTCGATAATTTTACAAATTAGAGGTATTTCGGTA
1 ATTTTGCAAACT-G-GGGTATTTCGGTAATTTTACAAACTGGGGGTATTTCGGTA
* *
4354745 ATTTTGTAAACTGAGGGTATTTCGATAATTT
1 ATTTTGCAAACTG-GGGTATTTCGGTAATTT
4354776 ACCCATTGAG
Statistics
Matches: 255, Mismatches: 37, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
53 59 0.23
54 185 0.73
55 11 0.04
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (53 bp):
ATTTTGCAAACTGGGGTATTTCGGTAATTTTACAAACTGGGGGTATTTCGGTA
Found at i:4354603 original size:81 final size:81
Alignment explanation
Indices: 4354417--4354792 Score: 352
Period size: 81 Copynumber: 4.7 Consensus size: 81
4354407 AGGGTTATCA
* * * *
4354417 TGGTCATTTTGCAAACTAGGGGTATTTCGGTAATTTCATAAACTGGGGGTATTTCGATAATTTT-
1 TGGTAATTTTGCAAACTAGGGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCGATAATTTTA
* *
4354481 GAAACTGGGGGTATTT
66 CAAACTGAGGGTATTT
* ** * * *
4354497 CGGTAATTTCACAAA-TTGAGGGTATTTTGGTAATTTTGCAAACTG-GGGTTATTTCGATAATTT
1 TGGTAATTTTGCAAACTAG-GGGTATTTCGGTAATTTTACAAACTGAGGG-TATTTCGATAATTT
**
4354560 TGTAAACTGAGGGTATTT
64 TACAAACTGAGGGTATTT
* * * * * * * *
4354578 TGGTAATTTTGCAAATTAGGGGTATTTCAGTAATTTTGCAAATTGTGGGGATTTCGGTAATTTCA
1 TGGTAATTTTGCAAACTAGGGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCGATAATTTTA
* *
4354643 CAAATTGAAGGTATTT
66 CAAACTGAGGGTATTT
* * *
4354659 TGGTAATTTTACAAACTGGGGGTATTTCGATAATTTTAC-AACTCGAGGGTATTTCGATAATTTT
1 TGGTAATTTTGCAAACTAGGGGTATTTCGGTAATTTTACAAACT-GAGGGTATTTCGATAATTTT
*
4354723 ACAAA-TTAGAGGTATTT
65 ACAAACTGAG-GGTATTT
* * * ** *
4354740 CGGTAATTTTGTAAACT-GAGGGTATTTCGATAA-TTTACCCATTGAGGGTATTT
1 TGGTAATTTTGCAAACTAG-GGGTATTTCGGTAATTTTACAAACTGAGGGTATTT
4354793 GTGTAATTTA
Statistics
Matches: 244, Mismatches: 43, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
79 5 0.02
80 69 0.28
81 165 0.68
82 5 0.02
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (81 bp):
TGGTAATTTTGCAAACTAGGGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCGATAATTTTA
CAAACTGAGGGTATTT
Found at i:4354785 original size:26 final size:27
Alignment explanation
Indices: 4354436--4354817 Score: 199
Period size: 27 Copynumber: 14.3 Consensus size: 27
4354426 TGCAAACTAG
* * ** * *
4354436 GGGTATTTCGGTAATTTCATAAACTGG
1 GGGTATTTCGATAATTTTACCAATTGA
* *
4354463 GGGTATTTCGATAATTTTGA--AACTGG
1 GGGTATTTCGATAATTTT-ACCAATTGA
* * *
4354489 GGGTATTTCGGTAATTTCACAAATTGA
1 GGGTATTTCGATAATTTTACCAATTGA
* * * * *
4354516 GGGTATTTTGGTAATTTTGCAAACTG-
1 GGGTATTTCGATAATTTTACCAATTGA
*** *
4354542 GGGTTATTTCGATAATTTTGTAAACTGA
1 GGG-TATTTCGATAATTTTACCAATTGA
* * * *
4354570 GGGTATTTTGGTAATTTTGCAAATT-A
1 GGGTATTTCGATAATTTTACCAATTGA
* * *
4354596 GGGGTATTTC-AGTAATTTTGCAAATTGT
1 -GGGTATTTCGA-TAATTTTACCAATTGA
* * * *
4354624 GGGGATTTCGGTAATTTCACAAATTGA
1 GGGTATTTCGATAATTTTACCAATTGA
* * * * * *
4354651 AGGTATTTTGGTAATTTTACAAACTGG
1 GGGTATTTCGATAATTTTACCAATTGA
*
4354678 GGGTATTTCGATAATTTTA-CAACTCGA
1 GGGTATTTCGATAATTTTACCAA-TTGA
*
4354705 GGGTATTTCGATAATTTTACAAATT-A
1 GGGTATTTCGATAATTTTACCAATTGA
* *** *
4354731 GAGGTATTTCGGTAATTTTGTAAACTGA
1 G-GGTATTTCGATAATTTTACCAATTGA
*
4354759 GGGTATTTCGATAA-TTTACCCATTGA
1 GGGTATTTCGATAATTTTACCAATTGA
* *
4354785 GGGTATTT-GTGTAA-TTTACCCATTGA
1 GGGTATTTCG-ATAATTTTACCAATTGA
*
4354811 GAGTATT
1 GGGTATT
4354818 CTGGTCATTT
Statistics
Matches: 289, Mismatches: 52, Indels: 29
0.78 0.14 0.08
Matches are distributed among these distances:
25 2 0.01
26 66 0.23
27 213 0.74
28 8 0.03
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACCAATTGA
Found at i:4361496 original size:56 final size:50
Alignment explanation
Indices: 4361426--4361555 Score: 152
Period size: 50 Copynumber: 2.5 Consensus size: 50
4361416 GATCCCATGA
* * *
4361426 AAGACCATGTCTGGGACATGGCATTAGCATTATTGAGGTTATGAGATGTCCCACGT
1 AAGACCATGTCTGGGACATGGCATTAGC---ACTGA-G--ATGAGAGGCCCCACGT
* * *
4361482 AAGACCATGTCTGGGACATGGTATTGGCACTGAGATGAGAGGCCCCTCGT
1 AAGACCATGTCTGGGACATGGCATTAGCACTGAGATGAGAGGCCCCACGT
4361532 AAGACCATGTCTGGGACATGGCAT
1 AAGACCATGTCTGGGACATGGCAT
4361556 GGGCACCGAT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
50 36 0.54
52 1 0.01
53 4 0.06
56 26 0.39
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (50 bp):
AAGACCATGTCTGGGACATGGCATTAGCACTGAGATGAGAGGCCCCACGT
Found at i:4361584 original size:50 final size:50
Alignment explanation
Indices: 4361465--4361589 Score: 146
Period size: 50 Copynumber: 2.5 Consensus size: 50
4361455 TTATTGAGGT
** * * * *
4361465 TATGAGATGTCCCACGTAAGACCATGTCTGGGACATGGTATTGGCACTGA
1 TATGAGAACTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
* *
4361515 GATGAGAGGC-CCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
1 TATGAGA-ACTCCCAT-GTAAGACCATGTCTGGGACATGGCATGGGCACCGA
4361565 TATGAGAACTCCCATGTAAGACCAT
1 TATGAGAACTCCCATGTAAGACCAT
4361590 ATCTAGGATA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
49 1 0.02
50 60 0.97
51 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (50 bp):
TATGAGAACTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
Found at i:4371662 original size:30 final size:30
Alignment explanation
Indices: 4371626--4371900 Score: 229
Period size: 30 Copynumber: 9.2 Consensus size: 30
4371616 TTGTTTCCAC
* * *
4371626 CCCTTTTCATAGTTCGATAGCCGAAGCTAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
*
4371656 CCCTTTTCATATTTTGATAGCCGAAGCCAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
* * * * *
4371686 CCCTTTTAATAATTAGATTGTC-ATCA-CTAT
1 CCCTTTTCATAATTTGATAGCCGA--AGCCAT
* * * *
4371716 CCCTTTTCAT--TGTTGATGGTCGTCA-TCAT
1 CCCTTTTCATAAT-TTGATAGCCG-AAGCCAT
* * **
4371745 CCCATTTCATAATTTGATAGCTGAAGATAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
* *
4371775 CCCTTTTCATAATTCGGTAGCCGAAGCCAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
*
4371805 CCCTTTTTATAATTTGATAGCCGAAGCCAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
* * *
4371835 CCCTTTTCATAATTTGATGGTCGTCA-CCAT
1 CCCTTTTCATAATTTGATAGCCG-AAGCCAT
* * *
4371865 CCCTTTTCATAATTCGATAGCTGAAGCCTT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAT
4371895 CCCTTT
1 CCCTTT
4371901 CCATTGGTCG
Statistics
Matches: 194, Mismatches: 41, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
28 1 0.01
29 22 0.11
30 168 0.87
31 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (30 bp):
CCCTTTTCATAATTTGATAGCCGAAGCCAT
Found at i:4393975 original size:23 final size:23
Alignment explanation
Indices: 4393949--4393997 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
4393939 ATAAGTATGA
4393949 CATCTCATATCAACTTATTTGAG
1 CATCTCATATCAACTTATTTGAG
4393972 CATCTCATATCAACTTATTTGAG
1 CATCTCATATCAACTTATTTGAG
4393995 CAT
1 CAT
4393998 GGCCATGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (23 bp):
CATCTCATATCAACTTATTTGAG
Found at i:4407674 original size:25 final size:25
Alignment explanation
Indices: 4407644--4407694 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
4407634 CCTCTGAGTT
4407644 AGACAAAAATAGCTCGTGTTATCCC
1 AGACAAAAATAGCTCGTGTTATCCC
*
4407669 AGACAAAAATAGCTTGTGTTATCCC
1 AGACAAAAATAGCTCGTGTTATCCC
4407694 A
1 A
4407695 CTCTTGTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (25 bp):
AGACAAAAATAGCTCGTGTTATCCC
Found at i:4427926 original size:60 final size:60
Alignment explanation
Indices: 4427833--4427953 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
4427823 ATCAGCATCT
4427833 TCCTAGAATTTCCATGGCTTTTCTGCTGGCAATCTATCCAACATTTTGCCATGACAATAC
1 TCCTAGAATTTCCATGGCTTTTCTGCTGGCAATCTATCCAACATTTTGCCATGACAATAC
* *
4427893 TCCTAGAATTTCCATGGCTTTTCTGCTGGCAATCTGTCCAACCTTTTGCCATGACAATAC
1 TCCTAGAATTTCCATGGCTTTTCTGCTGGCAATCTATCCAACATTTTGCCATGACAATAC
4427953 T
1 T
4427954 TTACTCTTTC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (60 bp):
TCCTAGAATTTCCATGGCTTTTCTGCTGGCAATCTATCCAACATTTTGCCATGACAATAC
Found at i:4431033 original size:14 final size:15
Alignment explanation
Indices: 4431014--4431042 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4431004 TTATCCCAAT
4431014 CAAATAAAG-AAAAA
1 CAAATAAAGCAAAAA
4431028 CAAATAAAGCAAAAA
1 CAAATAAAGCAAAAA
4431043 TGAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.10, G:0.07, T:0.07
Consensus pattern (15 bp):
CAAATAAAGCAAAAA
Found at i:4437562 original size:32 final size:32
Alignment explanation
Indices: 4437511--4437710 Score: 249
Period size: 32 Copynumber: 6.3 Consensus size: 32
4437501 GAATGGCTAC
* * *
4437511 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
4437542 AAGCCATCAGTAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
** *
4437574 CTGCCATCAGTAATAGTAGTATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
4437606 AAGCCATCAATAGTAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * * *
4437638 CACCCATCAGTAATGGTAATATGATCGACACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* *
4437670 CAGCCATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
4437702 AAGCCATCA
1 AAGCCATCA
4437711 ATAGCATCGC
Statistics
Matches: 144, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 10 0.07
32 134 0.93
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:4437693 original size:96 final size:96
Alignment explanation
Indices: 4437524--4437714 Score: 310
Period size: 96 Copynumber: 2.0 Consensus size: 96
4437514 CCATAAGTAC
* * * *
4437524 AGTAATATGATTGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACACTGCCATCAGTAATA
1 AGTAATATGATTGGCACAAACCCATCAGTAATAGTAATATGATCGACACACAGCCATCAGTAATA
*
4437589 GTAGTATGATCGGCACAAAGCCATCAATAGT
66 GTAATATGATCGGCACAAAGCCATCAATAGT
* * *
4437620 AGTAATATGATTGGCACACACCCATCAGTAATGGTAATATGATCGACACACAGCCATCAGTAATG
1 AGTAATATGATTGGCACAAACCCATCAGTAATAGTAATATGATCGACACACAGCCATCAGTAATA
4437685 GTAATATGATCGGCACAAAGCCATCAATAG
66 GTAATATGATCGGCACAAAGCCATCAATAG
4437715 CATCGCAGCA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (96 bp):
AGTAATATGATTGGCACAAACCCATCAGTAATAGTAATATGATCGACACACAGCCATCAGTAATA
GTAATATGATCGGCACAAAGCCATCAATAGT
Found at i:4437916 original size:24 final size:24
Alignment explanation
Indices: 4437884--4437939 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
4437874 GCCATGCACG
* *
4437884 AAATTAGTCATACAAATCACTGAC
1 AAATCAGTCATACAAATCACAGAC
**
4437908 AAATCAGTCATTTAAATCACAGAC
1 AAATCAGTCATACAAATCACAGAC
4437932 AAATCAGT
1 AAATCAGT
4437940 ATTTTAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.25
Consensus pattern (24 bp):
AAATCAGTCATACAAATCACAGAC
Found at i:4437945 original size:24 final size:25
Alignment explanation
Indices: 4437897--4438016 Score: 97
Period size: 24 Copynumber: 5.0 Consensus size: 25
4437887 TTAGTCATAC
*
4437897 AAATCACTGACAAATCAGTCA-TTT
1 AAATCACAGACAAATCAGTCATTTT
4437921 AAATCACAGACAAATCAGT-ATTTT
1 AAATCACAGACAAATCAGTCATTTT
* * *
4437945 AAATCATAAACAAATTAGTCA-TTT
1 AAATCACAGACAAATCAGTCATTTT
* *** *
4437969 ACATCTGGGACAAATCATTCA-TTT
1 AAATCACAGACAAATCAGTCATTTT
* *
4437993 ACATCACA-AGCAAATCAATCATTT
1 AAATCACAGA-CAAATCAGTCATTT
4438017 AACCCCGAGG
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
23 2 0.03
24 72 0.94
25 3 0.04
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.30
Consensus pattern (25 bp):
AAATCACAGACAAATCAGTCATTTT
Found at i:4438056 original size:27 final size:26
Alignment explanation
Indices: 4438026--4438102 Score: 64
Period size: 26 Copynumber: 2.9 Consensus size: 26
4438016 TAACCCCGAG
*
4438026 GGGCAAAATAGTCATTTTACCCTATAA
1 GGGCAAAACAGTCATTTTACCCTAT-A
** * *
4438053 GGGCATTACGGTCATTTTACCTTATA
1 GGGCAAAACAGTCATTTTACCCTATA
** * *
4438079 GGGCATTACGGTCATTTTATCCTA
1 GGGCAAAACAGTCATTTTACCCTA
4438103 CAGGCGCATT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 23 0.53
27 20 0.47
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
GGGCAAAACAGTCATTTTACCCTATA
Found at i:4438088 original size:26 final size:26
Alignment explanation
Indices: 4438036--4438140 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 26
4438026 GGGCAAAATA
4438036 GTCATTTTACCCTATAAGGGCATTACG
1 GTCATTTTACCCTAT-AGGGCATTACG
*
4438063 GTCATTTTACCTTATAGGGCATTACG
1 GTCATTTTACCCTATAGGGCATTACG
* * *
4438089 GTCATTTTATCCTACAGGCGCATTGCG
1 GTCATTTTACCCTATAGG-GCATTACG
* *
4438116 GTTATTTTACCCTACAAGGGCATTA
1 GTCATTTTACCCTA-TAGGGCATTA
4438141 TAGTTCTTCT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 26 0.39
27 38 0.57
28 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (26 bp):
GTCATTTTACCCTATAGGGCATTACG
Found at i:4438093 original size:53 final size:54
Alignment explanation
Indices: 4438036--4438140 Score: 133
Period size: 53 Copynumber: 2.0 Consensus size: 54
4438026 GGGCAAAATA
* *
4438036 GTCATTTTACCCTATAAGG-GCATTACGGTCATTTTACCTTA-TAGGGCATTACG
1 GTCATTTTACCCTA-AAGGCGCATTACGGTCATTTTACCCTACAAGGGCATTACG
* * * *
4438089 GTCATTTTATCCTACAGGCGCATTGCGGTTATTTTACCCTACAAGGGCATTA
1 GTCATTTTACCCTAAAGGCGCATTACGGTCATTTTACCCTACAAGGGCATTA
4438141 TAGTTCTTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
52 3 0.07
53 32 0.73
54 9 0.20
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (54 bp):
GTCATTTTACCCTAAAGGCGCATTACGGTCATTTTACCCTACAAGGGCATTACG
Found at i:4438180 original size:27 final size:27
Alignment explanation
Indices: 4438150--4438233 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
4438140 ATAGTTCTTC
*
4438150 TACCCTTCGAGAGTATTTC-GATAATTT
1 TACCCTTCGAGGGTATTTCAG-TAATTT
*
4438177 TACCCTTCGAGGGTATTTCAGTAGTTT
1 TACCCTTCGAGGGTATTTCAGTAATTT
* *
4438204 TACCCTTCAAGGGTATTCCAGTAATTT
1 TACCCTTCGAGGGTATTTCAGTAATTT
4438231 TAC
1 TAC
4438234 AACCTTTCCA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 50 0.98
28 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (27 bp):
TACCCTTCGAGGGTATTTCAGTAATTT
Found at i:4442218 original size:50 final size:50
Alignment explanation
Indices: 4442103--4442345 Score: 360
Period size: 50 Copynumber: 4.8 Consensus size: 50
4442093 GATAATAAGA
* * * ** *
4442103 TGCCAAAGCCATGTCCCAAACATGGTCTTACATAGGATGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* *
4442154 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
4442204 TGCCAGTGCCATGTCCCAGACATGGTCTTACATGGGACCCCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
4442254 TGCCAATGCCAAGTCCCAAACATGGTCTTACATAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
4442304 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4442346 TTACCCAAAT
Statistics
Matches: 172, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 138 0.80
51 34 0.20
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:4459975 original size:14 final size:14
Alignment explanation
Indices: 4459956--4459983 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4459946 TCACCTAATT
4459956 ATTCAATCTATTTA
1 ATTCAATCTATTTA
4459970 ATTCAATCTATTTA
1 ATTCAATCTATTTA
4459984 CATATCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTCAATCTATTTA
Found at i:4470327 original size:21 final size:21
Alignment explanation
Indices: 4470303--4470347 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4470293 TGTGGCTACC
*
4470303 TCTAG-TTCTGGTGTGGATGTA
1 TCTAGCTT-TGGTGTGGATGCA
*
4470324 TCTAGCTTTGTTGTGGATGCA
1 TCTAGCTTTGGTGTGGATGCA
4470345 TCT
1 TCT
4470348 GAGTGCTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.13, C:0.13, G:0.29, T:0.44
Consensus pattern (21 bp):
TCTAGCTTTGGTGTGGATGCA
Found at i:4473131 original size:27 final size:27
Alignment explanation
Indices: 4473099--4473217 Score: 130
Period size: 27 Copynumber: 4.4 Consensus size: 27
4473089 GGTACTTCAG
* *
4473099 TCATTTTACCCTTTGGGGGTATTTTGG
1 TCATTTTACCCTTCGGGGGTATTTTGA
* ***
4473126 TTATTTTACCCTTCTACGGTATTTTGA
1 TCATTTTACCCTTCGGGGGTATTTTGA
* *
4473153 TCATTTTACCCTTCGGGGTTATTTCGA
1 TCATTTTACCCTTCGGGGGTATTTTGA
* * * *
4473180 TTATTTTACCCTCCGGAGGTATTTTGG
1 TCATTTTACCCTTCGGGGGTATTTTGA
4473207 TCATTTTACCC
1 TCATTTTACCC
4473218 ACGAATCGCA
Statistics
Matches: 73, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (27 bp):
TCATTTTACCCTTCGGGGGTATTTTGA
Found at i:4473176 original size:54 final size:54
Alignment explanation
Indices: 4473099--4473217 Score: 159
Period size: 54 Copynumber: 2.2 Consensus size: 54
4473089 GGTACTTCAG
* * * * *
4473099 TCATTTTACCCTTTGGGGGTATTTTGGTTATTTTACCCTTC-TACGGTATTTTGA
1 TCATTTTACCCTTCGGGGGTATTTCGATTATTTTACCCTCCGGA-GGTATTTTGA
* *
4473153 TCATTTTACCCTTCGGGGTTATTTCGATTATTTTACCCTCCGGAGGTATTTTGG
1 TCATTTTACCCTTCGGGGGTATTTCGATTATTTTACCCTCCGGAGGTATTTTGA
4473207 TCATTTTACCC
1 TCATTTTACCC
4473218 ACGAATCGCA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 56 0.98
55 1 0.02
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (54 bp):
TCATTTTACCCTTCGGGGGTATTTCGATTATTTTACCCTCCGGAGGTATTTTGA
Found at i:4476644 original size:18 final size:19
Alignment explanation
Indices: 4476610--4476646 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4476600 CCTCAGTTAG
4476610 AACTTTCTTCAATTTCTTAA
1 AACTTTCTT-AATTTCTTAA
4476630 AACTTTCTT-ATTTCTTA
1 AACTTTCTTAATTTCTTA
4476647 TCAATCCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.27, C:0.19, G:0.00, T:0.54
Consensus pattern (19 bp):
AACTTTCTTAATTTCTTAA
Found at i:4480227 original size:28 final size:28
Alignment explanation
Indices: 4480188--4480304 Score: 164
Period size: 28 Copynumber: 4.2 Consensus size: 28
4480178 ATACAGTAAT
4480188 AGTAA-AGTGTGGGCCTTAGCCCAAAAC
1 AGTAACAGTGTGGGCCTTAGCCCAAAAC
* *
4480215 AGTAACACTGTGGGCCTTAGCGCAAAAC
1 AGTAACAGTGTGGGCCTTAGCCCAAAAC
* *
4480243 AGTAACAGTGTGGGCCTTAGCCCAATAT
1 AGTAACAGTGTGGGCCTTAGCCCAAAAC
* * *
4480271 AGTAATAGTGTGGGTCTTAGCCCAATAC
1 AGTAACAGTGTGGGCCTTAGCCCAAAAC
4480299 AGTAAC
1 AGTAAC
4480305 CAGTACAGTG
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 5 0.06
28 74 0.94
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (28 bp):
AGTAACAGTGTGGGCCTTAGCCCAAAAC
Found at i:4480696 original size:27 final size:27
Alignment explanation
Indices: 4480648--4480766 Score: 127
Period size: 27 Copynumber: 4.4 Consensus size: 27
4480638 AGGGGTATAA
* *
4480648 CAGTCATTTT-CCCTTTGGGGGTATTT
1 CAGTCATTTTACCCTCTGAGGGTATTT
*
4480674 CACTCATTTTACCCTCTGAGGGTATTT
1 CAGTCATTTTACCCTCTGAGGGTATTT
*
4480701 C-GATCATTTTACCCT-TCAAGGGTATTT
1 CAG-TCATTTTACCCTCT-GAGGGTATTT
* * *
4480728 CGGTCATTTTACCCTCCGGGGGTATTT
1 CAGTCATTTTACCCTCTGAGGGTATTT
*
4480755 CGGTCATTTTAC
1 CAGTCATTTTAC
4480767 TCGTGAATCA
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
26 10 0.12
27 69 0.86
28 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (27 bp):
CAGTCATTTTACCCTCTGAGGGTATTT
Found at i:4484329 original size:79 final size:80
Alignment explanation
Indices: 4484198--4484354 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 80
4484188 TACTGCTTAG
4484198 CTCTTACTAGCAAATCTCTATCCTTTTATTCTACTTCGATTTAAACTGTAAATAATAAAATATTA
1 CTCTTACTAGCAAATCTCTATCCTTTTATTCTACTTCGATTTAAACTGTAAATAATAAAATATTA
4484263 ATAACAA-AAAATGA
66 ATAACAAGAAAATGA
4484277 CTCTTACTAGCAAATCTCTATCCTTTTATTCTACTTCGATTTAAACTGTAAATAATAAAATATTA
1 CTCTTACTAGCAAATCTCTATCCTTTTATTCTACTTCGATTTAAACTGTAAATAATAAAATATTA
4484342 ATAACAAGAAAAT
66 ATAACAAGAAAAT
4484355 AATGAAAAAT
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 72 0.94
80 5 0.06
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (80 bp):
CTCTTACTAGCAAATCTCTATCCTTTTATTCTACTTCGATTTAAACTGTAAATAATAAAATATTA
ATAACAAGAAAATGA
Found at i:4491579 original size:254 final size:253
Alignment explanation
Indices: 4491116--4491624 Score: 739
Period size: 254 Copynumber: 2.0 Consensus size: 253
4491106 GCATGTAATA
* *
4491116 TTAGAAACATTCTATATTACTACTAATGTTACAAGAGCCTACAAGGTCACACCTTATGGTTAAAG
1 TTAGAAACATTCTATATTACTACTAACGTTACAAGAGCCTACAAGGTCACACCCTATGGTTAAAG
* * * * * * * *
4491181 CGAATAGAATCCAACTACATTTTGTTTTGTGTTTAGATGTCATATGAATTAATTTAATTATTGAA
66 CAAACAAAATCCAAATACATTTGGTATTGTGTTTAGATGTCACATGAATTAAATTAATTATTGAA
* * *
4491246 TTAATTTAATTTGACAATAAAATATTGAACGCATTATATGTACAAACTTGTTGTACACAAATAAG
131 TTAATTTAATTTGACAATAAAATATTGAACGCATTATAAGTACAAACATGTTGTACACAAATAAA
* *
4491311 GAACATAATTAAAATTAATGTATGAATTCGATTCATATACAGTATTAACTAAATATAG
196 GAACATAATTAAAATTAATGTATGAATTCGATTCATATAAAATATTAACTAAATATAG
* * * *
4491369 TTAGAAACGTTCTAGTATTACTACTAACGTTACAAGAGCCTACAGGGTCACACCCTATGGTTGAG
1 TTAGAAACATTCTA-TATTACTACTAACGTTACAAGAGCCTACAAGGTCACACCCTATGGTTAAA
* *
4491434 GCAAACAAAATCGAAATACATTTGGTATTGTGTTTAGTTGTCACATGAATTAAATTAATTATTGA
65 GCAAACAAAATCCAAATACATTTGGTATTGTGTTTAGATGTCACATGAATTAAATTAATTATTGA
* * * * * *
4491499 GTTAATTTAATTTGATAGTTAAGTATTGAACGTATTATAAGTACAAACATGTTGTACACAAATAA
130 ATTAATTTAATTTGACAATAAAATATTGAACGCATTATAAGTACAAACATGTTGTACACAAATAA
** *
4491564 AGAACATTGTTAAAATTAATGTATGAATTTGATTCATATAAAATATTAACTAAATATAG
195 AGAACATAATTAAAATTAATGTATGAATTCGATTCATATAAAATATTAACTAAATATAG
4491623 TT
1 TT
4491625 TACCAAAATT
Statistics
Matches: 225, Mismatches: 30, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
253 13 0.06
254 212 0.94
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (253 bp):
TTAGAAACATTCTATATTACTACTAACGTTACAAGAGCCTACAAGGTCACACCCTATGGTTAAAG
CAAACAAAATCCAAATACATTTGGTATTGTGTTTAGATGTCACATGAATTAAATTAATTATTGAA
TTAATTTAATTTGACAATAAAATATTGAACGCATTATAAGTACAAACATGTTGTACACAAATAAA
GAACATAATTAAAATTAATGTATGAATTCGATTCATATAAAATATTAACTAAATATAG
Found at i:4492950 original size:14 final size:15
Alignment explanation
Indices: 4492931--4492962 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4492921 GTGGTTATAG
4492931 TTAAAATA-ATAAAA
1 TTAAAATAGATAAAA
4492945 TTAAAATAGATAAAA
1 TTAAAATAGATAAAA
4492960 TTA
1 TTA
4492963 TGATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
TTAAAATAGATAAAA
Found at i:4505792 original size:43 final size:42
Alignment explanation
Indices: 4505745--4505861 Score: 110
Period size: 42 Copynumber: 2.7 Consensus size: 42
4505735 TCTCAGACGT
* *
4505745 GGTCTTACATGTAATCAAATAACGATGTCACTATCCCAGACAG
1 GGTCTTACATGTAATCAAAT-ACGATGCCAATATCCCAGACAG
* * * * * *
4505788 GGTCTTACGTGAAATCATATATGATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATACGATGCCAATATCCCAGACAG
*
4505830 GGTCTTACACGTAAATCTCAAAT-CGATGCCAA
1 GGTCTTACATGT-AA--TCAAATACGATGCCAA
4505862 CGTCCCAAAC
Statistics
Matches: 58, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
42 26 0.45
43 19 0.33
44 8 0.14
45 5 0.09
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATACGATGCCAATATCCCAGACAG
Found at i:4511686 original size:19 final size:19
Alignment explanation
Indices: 4511662--4511699 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4511652 AAACAGCATC
4511662 TTTCTTTTTAAGGGTCAAA
1 TTTCTTTTTAAGGGTCAAA
4511681 TTTCTTTTTAAGGGTCAAA
1 TTTCTTTTTAAGGGTCAAA
4511700 GGCAAACCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (19 bp):
TTTCTTTTTAAGGGTCAAA
Found at i:4515939 original size:12 final size:11
Alignment explanation
Indices: 4515922--4515965 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 11
4515912 CAAAAATTCT
4515922 GAAAATTTTATG
1 GAAAATTTT-TG
4515934 GAAAATTTTTG
1 GAAAATTTTTG
4515945 GAAAAATTTTTGG
1 G-AAAATTTTT-G
4515958 GAAAATTT
1 GAAAATTT
4515966 ACAAAACTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.10
12 25 0.83
13 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (11 bp):
GAAAATTTTTG
Found at i:4519098 original size:43 final size:43
Alignment explanation
Indices: 4518980--4519099 Score: 122
Period size: 43 Copynumber: 2.8 Consensus size: 43
4518970 CTATTACTCG
* * * *
4518980 ATGGAATCAGCACTTAGCAACCACC-TTATATTC-TGTGATAC
1 ATGGAATCAGCACTTAACAACCACCTTTACAATCAAGTGATAC
* * *
4519021 GTGGAATCAGCACATAACAACC-CCTTCCACAATCAAG-GATAC
1 ATGGAATCAGCACTTAACAACCACCTT-TACAATCAAGTGATAC
*
4519063 AATGGAATCAGCACTTAACAACCACCTTTAGAATCAA
1 -ATGGAATCAGCACTTAACAACCACCTTTACAATCAA
4519100 TAATTTGTTG
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
40 2 0.03
41 20 0.32
42 9 0.14
43 28 0.44
44 4 0.06
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.23
Consensus pattern (43 bp):
ATGGAATCAGCACTTAACAACCACCTTTACAATCAAGTGATAC
Found at i:4521248 original size:16 final size:16
Alignment explanation
Indices: 4521227--4521258 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4521217 ATTTTGTTGC
*
4521227 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
4521243 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
4521259 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:4533323 original size:16 final size:18
Alignment explanation
Indices: 4533302--4533338 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
4533292 TTTTAGTTAA
4533302 AAAACTAA-ATTG-AAAT
1 AAAACTAATATTGAAAAT
4533318 AAAACTAATATTGAAAAT
1 AAAACTAATATTGAAAAT
4533336 AAA
1 AAA
4533339 CTCCTAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 4 0.21
18 7 0.37
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAACTAATATTGAAAAT
Found at i:4535254 original size:21 final size:21
Alignment explanation
Indices: 4535212--4535254 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4535202 TTATTGGTCA
* **
4535212 TTGGAAAATAACTTTTTTTTT
1 TTGGAAAATAACTTCTCCTTT
*
4535233 TTGGAAAATTACTTCTCCTTT
1 TTGGAAAATAACTTCTCCTTT
4535254 T
1 T
4535255 GGATAAAACA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (21 bp):
TTGGAAAATAACTTCTCCTTT
Found at i:4535496 original size:19 final size:18
Alignment explanation
Indices: 4535472--4535507 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4535462 TCTAAAAAAA
*
4535472 TTTAATATTACAATTTTAT
1 TTTAATAATA-AATTTTAT
4535491 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
4535508 ACATTAAACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:4542032 original size:27 final size:28
Alignment explanation
Indices: 4542002--4542057 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
4541992 ATGTAAATAC
4542002 TGATGT-ATCTTTGCTTTATAAT-ATATA
1 TGATGTAAT-TTTGCTTTATAATAATATA
*
4542029 TGATTTAATTTTGCTTTATAATAATATA
1 TGATGTAATTTTGCTTTATAATAATATA
4542057 T
1 T
4542058 ATGAGTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (28 bp):
TGATGTAATTTTGCTTTATAATAATATA
Found at i:4543140 original size:45 final size:46
Alignment explanation
Indices: 4543089--4543181 Score: 179
Period size: 45 Copynumber: 2.0 Consensus size: 46
4543079 GTTCTTGATC
4543089 TAATAAATCTTGTCCAATTTAGATAACAACAAA-TTTGGAATTTCT
1 TAATAAATCTTGTCCAATTTAGATAACAACAAATTTTGGAATTTCT
4543134 TAATAAATCTTGTCCAATTTAGATAACAACAAATTTTGGAATTTCT
1 TAATAAATCTTGTCCAATTTAGATAACAACAAATTTTGGAATTTCT
4543180 TA
1 TA
4543182 TATTTTTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 33 0.70
46 14 0.30
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.39
Consensus pattern (46 bp):
TAATAAATCTTGTCCAATTTAGATAACAACAAATTTTGGAATTTCT
Found at i:4547942 original size:29 final size:29
Alignment explanation
Indices: 4547904--4547990 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 29
4547894 ACTGATACAT
* *
4547904 AGTACCTGATAAATATAACACTGGCACAG
1 AGTACCTGATAAATATAACACCGGCACAA
* * * *
4547933 AGTGCTTGATAATTATAACACCGGTACAA
1 AGTACCTGATAAATATAACACCGGCACAA
*
4547962 AGTACCTGATAACTATAATCACCGGCACA
1 AGTACCTGATAAATATAA-CACCGGCACA
4547991 TAATGTCAGA
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 38 0.81
30 9 0.19
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (29 bp):
AGTACCTGATAAATATAACACCGGCACAA
Found at i:4557745 original size:54 final size:55
Alignment explanation
Indices: 4557676--4557798 Score: 185
Period size: 54 Copynumber: 2.3 Consensus size: 55
4557666 TACCCTTACA
* *
4557676 GGCCGTGTCGCAGGCTGTGTGCTAGACCATGTTTGAAATTA-TTTTGAGAAACAC
1 GGCCGTGTCGCAGGCTGTGTGCTAGACCATGTTCGAAACTATTTTTGAGAAACAC
* * *
4557730 GGCCGTGTTGCAGGCTGTGTGCTAGACCATGTTCGAAACTATTTTTGAGACACAT
1 GGCCGTGTCGCAGGCTGTGTGCTAGACCATGTTCGAAACTATTTTTGAGAAACAC
*
4557785 GGCCATGTCGCAGG
1 GGCCGTGTCGCAGG
4557799 ACATGTATTA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
54 38 0.62
55 23 0.38
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (55 bp):
GGCCGTGTCGCAGGCTGTGTGCTAGACCATGTTCGAAACTATTTTTGAGAAACAC
Found at i:4567002 original size:21 final size:20
Alignment explanation
Indices: 4566955--4567014 Score: 84
Period size: 21 Copynumber: 3.0 Consensus size: 20
4566945 AAGTCTATGA
*
4566955 ACCATTCCATTTTCTTAGTT
1 ACCATTCCATTTACTTAGTT
*
4566975 ACCATTCCATTTACTTACTTT
1 ACCATTCCATTTACTTA-GTT
*
4566996 TCCATTCCATTTACTTAGT
1 ACCATTCCATTTACTTAGT
4567015 ATAAACTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 17 0.49
21 18 0.51
ACGTcount: A:0.22, C:0.27, G:0.03, T:0.48
Consensus pattern (20 bp):
ACCATTCCATTTACTTAGTT
Found at i:4570671 original size:40 final size:40
Alignment explanation
Indices: 4570626--4570735 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 40
4570616 ATATTTATTG
* **
4570626 CCTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTAC-
1 CCTGAATGCACATTCGTGCTCCTGTTTGTACTTCGACACT
* *
4570665 CACTGAATGCACATTCGTGCTCTTGTTAGTACTTCGACACT
1 C-CTGAATGCACATTCGTGCTCCTGTTTGTACTTCGACACT
* * *
4570706 CCTGAAGGCACATTCATGCTCCTGATTGTA
1 CCTGAATGCACATTCGTGCTCCTGTTTGTA
4570736 TTCTGGTGTG
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.02
40 57 0.97
41 1 0.02
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (40 bp):
CCTGAATGCACATTCGTGCTCCTGTTTGTACTTCGACACT
Found at i:4579668 original size:10 final size:10
Alignment explanation
Indices: 4579655--4579679 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4579645 TACCAACACA
4579655 AACCAAAATC
1 AACCAAAATC
4579665 AACCAAAATC
1 AACCAAAATC
4579675 AACCA
1 AACCA
4579680 TCCAAATTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.32, G:0.00, T:0.08
Consensus pattern (10 bp):
AACCAAAATC
Found at i:4580375 original size:29 final size:29
Alignment explanation
Indices: 4580343--4580427 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 29
4580333 CTGATTAATA
* *
4580343 TAACACCGGCACAGAGTGCCTGATAACTG
1 TAACACCGACACAAAGTGCCTGATAACTG
* * **
4580372 TAACACTGATACAAAGTAACTGATAACTG
1 TAACACCGACACAAAGTGCCTGATAACTG
* * *
4580401 TAATCATCGACACATAGTGCTTGATAA
1 TAA-CACCGACACAAAGTGCCTGATAA
4580428 ACCCTAATGA
Statistics
Matches: 42, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
29 26 0.62
30 16 0.38
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (29 bp):
TAACACCGACACAAAGTGCCTGATAACTG
Found at i:4585972 original size:44 final size:44
Alignment explanation
Indices: 4585924--4586299 Score: 217
Period size: 44 Copynumber: 8.1 Consensus size: 44
4585914 TCTTAATCCA
* *
4585924 CTCCGCTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATTTG
1 CTCCGCTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
* *
4585968 CTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCG
1 CTCCGCTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATC---T--G
* * * * *
4586017 ATCTACTCTGCTGTAAAT-TCAGAGAGATAAGATCCT-TTA-TTTTAATCCG
1 --CT-C-C-GCTGT-AATCTCAGGGAGATAAGAT--TACTAGCTTCAATCTG
* * *
4586066 CTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTG
1 CTCCGCTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
* * * *
4586110 CTCCGCTATAATCTCAAGGAGATAAGATTTCTGGCTTCAATCTAATGTG
1 CTCCGCTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATC-----TG
* * * * *
4586159 ACCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTTAATCCG
1 --CT-C-C-GCTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTCAATCTG
* * *
4586208 CTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTG
1 CTCCGCTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
* * *
4586252 CTCCACTGTAATCTCAGGGAGATAAGAATT-CTGGCTTCGATCTG
1 CTCCGCTGTAATCTCAGGGAGATAAG-ATTACTAGCTTCAATCTG
4586296 CTCC
1 CTCC
4586300 ACTATTGCTT
Statistics
Matches: 254, Mismatches: 45, Indels: 66
0.70 0.12 0.18
Matches are distributed among these distances:
42 2 0.01
43 7 0.03
44 161 0.63
45 6 0.02
46 2 0.01
47 5 0.02
49 5 0.02
51 4 0.02
52 2 0.01
53 3 0.01
54 50 0.20
55 5 0.02
56 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
CTCCGCTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
Found at i:4586123 original size:142 final size:142
Alignment explanation
Indices: 4585867--4586295 Score: 705
Period size: 142 Copynumber: 3.0 Consensus size: 142
4585857 GAGATAAGAC
* * * * * *
4585867 CTGATGCGATCTACTCTACTGTAACTTCATAAAGATAAGATCCTTTATCTTAATCCACTCCGCTG
1 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
4585932 TAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
4585997 TCTGGCTTCAAT
131 TCTGGCTTCAAT
*
4586009 CTGATGCGATCTACTCTGCTGTAAATTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
4586074 TAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAAGGAGATAAGATT
66 TAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
4586139 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* * *
4586151 CTAATGTGACCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
4586216 TAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGAAT
66 TAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
*
4586281 TCTGGCTTCGAT
131 TCTGGCTTCAAT
4586293 CTG
1 CTG
4586296 CTCCACTATT
Statistics
Matches: 266, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 266 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (142 bp):
CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
TCTGGCTTCAAT
Found at i:4587606 original size:15 final size:14
Alignment explanation
Indices: 4587572--4587604 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4587562 CTCCATTTTT
4587572 ATTTTTTCATCATC
1 ATTTTTTCATCATC
4587586 ATTTTTTCAT--TC
1 ATTTTTTCATCATC
4587598 ATTTTTT
1 ATTTTTT
4587605 TTAGGAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.47
14 10 0.53
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTTTCATCATC
Found at i:4598752 original size:18 final size:18
Alignment explanation
Indices: 4598712--4598754 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4598702 TTAATTTAGA
4598712 TAAATAATATATATAAAG
1 TAAATAATATATATAAAG
* *
4598730 AAAATAATA-ATAATAATG
1 TAAATAATATAT-ATAAAG
4598748 TAAATAA
1 TAAATAA
4598755 CATACGTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
TAAATAATATATATAAAG
Found at i:4607021 original size:15 final size:16
Alignment explanation
Indices: 4606993--4607030 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
4606983 AAGGACAAAA
4606993 AGAAATTCCTTTACTT
1 AGAAATTCCTTTACTT
*
4607009 AGAATTTCC-TTACTT
1 AGAAATTCCTTTACTT
4607024 AGAAATT
1 AGAAATT
4607031 AAAAAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (16 bp):
AGAAATTCCTTTACTT
Found at i:4607271 original size:5 final size:5
Alignment explanation
Indices: 4607261--4607293 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
4607251 AAGACAAAGG
4607261 AGACT AGACT AGACT AGACT AGACT AGACT AGA
1 AGACT AGACT AGACT AGACT AGACT AGACT AGA
4607294 TTAAGGTCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.18
Consensus pattern (5 bp):
AGACT
Found at i:4623004 original size:2 final size:2
Alignment explanation
Indices: 4622999--4623034 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4622989 ATGCAAAATG
4622999 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4623035 CTTCATTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4631816 original size:21 final size:22
Alignment explanation
Indices: 4631765--4631804 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
4631755 AGGTAGTTTA
4631765 TATTT-TTTTCTTCTTTGTTAC
1 TATTTGTTTTCTTCTTTGTTAC
*
4631786 TATTTTTTTTC-TCTTTGTT
1 TATTTGTTTTCTTCTTTGTT
4631805 TGCTTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.75
Consensus pattern (22 bp):
TATTTGTTTTCTTCTTTGTTAC
Found at i:4632796 original size:26 final size:27
Alignment explanation
Indices: 4632756--4632822 Score: 84
Period size: 26 Copynumber: 2.5 Consensus size: 27
4632746 TATATATCAG
4632756 TTATTT-TTTTAAAACTAATTTTT-ATA
1 TTATTTATTTT-AAACTAATTTTTAATA
**
4632782 TTATTTATTTTAAACTTCTTTTTACATA
1 TTATTTATTTTAAACTAATTTTTA-ATA
4632810 TTATTTATTTTAA
1 TTATTTATTTTAA
4632823 GCCTTTTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 16 0.44
27 4 0.11
28 16 0.44
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (27 bp):
TTATTTATTTTAAACTAATTTTTAATA
Found at i:4632909 original size:26 final size:26
Alignment explanation
Indices: 4632774--4632963 Score: 137
Period size: 26 Copynumber: 7.5 Consensus size: 26
4632764 TTAAAACTAA
*
4632774 TTTT-TATATTATTTATTTTAAACTTCT
1 TTTTATATATTATTTATTTTAAA-TT-G
*
4632801 TTTTACATATTATTTATTTT-AA--G
1 TTTTATATATTATTTATTTTAAATTG
*
4632824 CCTTT-TATA-TA-TTATTTTAAATTG
1 -TTTTATATATTATTTATTTTAAATTG
* * * **
4632848 TCTTATATGTTATCTATTTTAAACCG
1 TTTTATATATTATTTATTTTAAATTG
* * *
4632874 CTTTGTATATTATTTATTTTAATTTG
1 TTTTATATATTATTTATTTTAAATTG
* * *
4632900 TTTTACATATTATTTACTTTAGATTG
1 TTTTATATATTATTTATTTTAAATTG
* *
4632926 -TTT-TATATTATTTACTTCAAATTG
1 TTTTATATATTATTTATTTTAAATTG
*
4632950 TTCTATATATTATT
1 TTTTATATATTATT
4632964 CTGTTTCGTT
Statistics
Matches: 125, Mismatches: 28, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
21 7 0.06
22 4 0.03
23 5 0.04
24 25 0.20
25 7 0.06
26 57 0.46
27 6 0.05
28 14 0.11
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.60
Consensus pattern (26 bp):
TTTTATATATTATTTATTTTAAATTG
Found at i:4632937 original size:50 final size:49
Alignment explanation
Indices: 4632775--4632963 Score: 177
Period size: 50 Copynumber: 3.8 Consensus size: 49
4632765 TAAAACTAAT
*
4632775 TTTTATATTATTTATTTTAAACTTCTTTTTACATATTATTTATTTTAAGCC-
1 TTTTATATTATTTATTTTAAA-TT-GTTTTACATATTATTTATTTTAA-CCG
* * * *
4632826 TTTTATA-TA-TTATTTTAAATTGTCTTATATGTTATCTATTTTAAACCG
1 TTTTATATTATTTATTTTAAATTGTTTTACATATTATTTATTTT-AACCG
* * **
4632874 CTTTGTATATTATTTATTTTAATTTGTTTTACATATTATTTACTTTAGATTG
1 -TTT-TATATTATTTATTTTAAATTGTTTTACATATTATTTATTTTA-ACCG
* * * *
4632926 TTTTATATTATTTACTTCAAATTGTTCTATATATTATT
1 TTTTATATTATTTATTTTAAATTGTTTTACATATTATT
4632964 CTGTTTCGTT
Statistics
Matches: 113, Mismatches: 18, Indels: 15
0.77 0.12 0.10
Matches are distributed among these distances:
47 18 0.16
48 4 0.04
49 13 0.12
50 36 0.32
51 13 0.12
52 29 0.26
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.60
Consensus pattern (49 bp):
TTTTATATTATTTATTTTAAATTGTTTTACATATTATTTATTTTAACCG
Found at i:4641060 original size:19 final size:20
Alignment explanation
Indices: 4641020--4641061 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
4641010 TTATAAAGAA
*
4641020 AAATGTAATAAAATTATAAT
1 AAATGTAATAAAATTAAAAT
4641040 AAAT-TAAT-AAATTAAACAT
1 AAATGTAATAAAATTAAA-AT
4641059 AAA
1 AAA
4641062 CGAATTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
AAATGTAATAAAATTAAAAT
Found at i:4642357 original size:19 final size:19
Alignment explanation
Indices: 4642333--4642372 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4642323 CTTTGAATCC
4642333 ATGAGAT-TGGAAAATTGAT
1 ATGAGATGTGG-AAATTGAT
*
4642352 ATGAGATGTGGTAATTGAT
1 ATGAGATGTGGAAATTGAT
4642371 AT
1 AT
4642373 TAAGATGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.35
Consensus pattern (19 bp):
ATGAGATGTGGAAATTGAT
Found at i:4647835 original size:25 final size:25
Alignment explanation
Indices: 4647801--4647852 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
4647791 GTATTTTATA
*
4647801 TTAATATTCAAATAATATGCAATGT
1 TTAATATTCAAATAATATACAATGT
4647826 TTAATATTCAAATAATATACAATGT
1 TTAATATTCAAATAATATACAATGT
4647851 TT
1 TT
4647853 GATCAATAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (25 bp):
TTAATATTCAAATAATATACAATGT
Found at i:4652988 original size:29 final size:30
Alignment explanation
Indices: 4652931--4652988 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
4652921 GGTGAATAGT
*
4652931 TTATAATTATATAAAATTTACAAATTAAAC
1 TTATAATTATATAAAATATACAAATTAAAC
*
4652961 TTATAA-TGTATAAAATATA-AAATATAAA
1 TTATAATTATATAAAATATACAAAT-TAAA
4652989 TAATACAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.16
29 15 0.60
30 6 0.24
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (30 bp):
TTATAATTATATAAAATATACAAATTAAAC
Found at i:4656677 original size:51 final size:51
Alignment explanation
Indices: 4656573--4656680 Score: 132
Period size: 51 Copynumber: 2.1 Consensus size: 51
4656563 CATGGTACAC
* *
4656573 GGTA-AAGGTATATAGTATAAGACCATGAATGAAAGACGCCATGGTAGCAA
1 GGTATAAGGTATATAGTATAAGACCATAAATGAAAGACGCCATGATAGCAA
* * *
4656623 GGTATAAGGTA-ATCAGTGTAAGACCATAAATGAAAGATGCTATGATAGTC-A
1 GGTATAAGGTATAT-AGTATAAGACCATAAATGAAAGACGCCATGATAG-CAA
4656674 GGTATAA
1 GGTATAA
4656681 TGAGTAAGAC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
50 6 0.12
51 43 0.86
52 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.23
Consensus pattern (51 bp):
GGTATAAGGTATATAGTATAAGACCATAAATGAAAGACGCCATGATAGCAA
Found at i:4667196 original size:10 final size:10
Alignment explanation
Indices: 4667178--4667226 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
4667168 CATTTTCCTC
*
4667178 TTCTCTTTTT
1 TTCTTTTTTT
4667188 TTCTTTTTTT
1 TTCTTTTTTT
4667198 TT-TTTTTTT
1 TTCTTTTTTT
*
4667207 TTTTTTTTTT
1 TTCTTTTTTT
*
4667217 TTCTGTTTTT
1 TTCTTTTTTT
4667227 GTCATTGCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
9 9 0.26
10 26 0.74
ACGTcount: A:0.00, C:0.08, G:0.02, T:0.90
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:4667226 original size:1 final size:1
Alignment explanation
Indices: 4667183--4667218 Score: 63
Period size: 1 Copynumber: 36.0 Consensus size: 1
4667173 TCCTCTTCTC
*
4667183 TTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4667219 CTGTTTTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:4673242 original size:7 final size:7
Alignment explanation
Indices: 4673228--4673336 Score: 168
Period size: 7 Copynumber: 15.7 Consensus size: 7
4673218 ATATTTAATT
4673228 TTTA-GG
1 TTTAGGG
4673234 TTTAGGG
1 TTTAGGG
4673241 TTTAGGG
1 TTTAGGG
4673248 TTTAGGG
1 TTTAGGG
4673255 TTTAGGG
1 TTTAGGG
4673262 TTTAGGG
1 TTTAGGG
4673269 TTTAGGG
1 TTTAGGG
4673276 TTTAGGG
1 TTTAGGG
***
4673283 TTTTAATT
1 -TTTAGGG
4673291 TTTA-GG
1 TTTAGGG
4673297 TTTAGGG
1 TTTAGGG
4673304 TTTAGGG
1 TTTAGGG
4673311 TTTAGGG
1 TTTAGGG
4673318 TTTAGGG
1 TTTAGGG
4673325 TTTAGGG
1 TTTAGGG
4673332 TTTAG
1 TTTAG
4673337 TCAATTATCT
Statistics
Matches: 95, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
6 8 0.08
7 83 0.87
8 4 0.04
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:4674741 original size:22 final size:22
Alignment explanation
Indices: 4674713--4674762 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
4674703 ACAAATCCTA
4674713 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
* *
4674735 TCTCAATTTCCTTTCAAAATTC
1 TCTCAATTTCCTTCCAAAATCC
4674757 TCTCAA
1 TCTCAA
4674763 ACTCTCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.40
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:4674768 original size:30 final size:30
Alignment explanation
Indices: 4674734--4674792 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
4674724 TTCCAAAATC
* *
4674734 CTCTCAATTTCCTTTCAAAATTCTCTCAAA
1 CTCTCAATTTCCTTCCAAAATCCTCTCAAA
4674764 CTCTCAATTTCCTTCCAAAATCCTCTCAA
1 CTCTCAATTTCCTTCCAAAATCCTCTCAA
4674793 TTTCCTTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (30 bp):
CTCTCAATTTCCTTCCAAAATCCTCTCAAA
Found at i:4674775 original size:52 final size:52
Alignment explanation
Indices: 4674713--4674815 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
4674703 ACAAATCCTA
* *
4674713 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTTCAAAATTCTCTCAAAC
1 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAAATCTCTCAAAC
4674765 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAAATCTCTCAAA
1 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAAATCTCTCAAA
4674816 TCCATATTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (52 bp):
TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAAATCTCTCAAAC
Found at i:4674790 original size:22 final size:22
Alignment explanation
Indices: 4674764--4674814 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
4674754 TTCTCTCAAA
4674764 CTCTCAATTTCCTTCC-AAAAT
1 CTCTCAATTTCCTTCCAAAAAT
4674785 CCTCTCAATTTCCTTCCAAAAAT
1 -CTCTCAATTTCCTTCCAAAAAT
4674808 CTCTCAA
1 CTCTCAA
4674815 ATCCATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAAAT
Found at i:4674876 original size:10 final size:10
Alignment explanation
Indices: 4674848--4674914 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
4674838 CCTCAATTTC
4674848 ATTTTTTTAAA
1 ATTTTTTT-AA
**
4674859 ATAATTTTAA
1 ATTTTTTTAA
*
4674869 ATTTTTTTAT
1 ATTTTTTTAA
4674879 ATTTTTTTAA
1 ATTTTTTTAA
** *
4674889 TATAATCTTAA
1 -ATTTTTTTAA
*
4674900 ATTTTTTTAT
1 ATTTTTTTAA
4674910 ATTTT
1 ATTTT
4674915 CATCAATGGC
Statistics
Matches: 42, Mismatches: 13, Indels: 3
0.72 0.22 0.05
Matches are distributed among these distances:
10 29 0.69
11 13 0.31
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:4674883 original size:31 final size:31
Alignment explanation
Indices: 4674848--4674914 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
4674838 CCTCAATTTC
*
4674848 ATTTTTTTAAAATAATTTTAAATTTTTTTAT
1 ATTTTTTTAAAATAATCTTAAATTTTTTTAT
*
4674879 ATTTTTTTAATATAATCTTAAATTTTTTTAT
1 ATTTTTTTAAAATAATCTTAAATTTTTTTAT
4674910 ATTTT
1 ATTTT
4674915 CATCAATGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (31 bp):
ATTTTTTTAAAATAATCTTAAATTTTTTTAT
Found at i:4675814 original size:7 final size:7
Alignment explanation
Indices: 4675798--4675842 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
4675788 AGTGGATTGA
*
4675798 TATTTAG
1 TATTTTG
4675805 TATTTTG
1 TATTTTG
4675812 TATTTTG
1 TATTTTG
4675819 TATTTTG
1 TATTTTG
4675826 TATTTTG
1 TATTTTG
*
4675833 TATTATG
1 TATTTTG
4675840 TAT
1 TAT
4675843 ATAACTAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (7 bp):
TATTTTG
Found at i:4682155 original size:11 final size:10
Alignment explanation
Indices: 4682139--4682181 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
4682129 TTTGGTCCTT
4682139 TACAAAAATAA
1 TACAAAAA-AA
4682150 TACAAAAAAA
1 TACAAAAAAA
4682160 TA-AAAAAAA
1 TACAAAAAAA
*
4682169 TATCAAAACAA
1 TA-CAAAAAAA
4682180 TA
1 TA
4682182 TAAATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 9 0.31
10 4 0.14
11 16 0.55
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.16
Consensus pattern (10 bp):
TACAAAAAAA
Found at i:4682175 original size:20 final size:19
Alignment explanation
Indices: 4682142--4682181 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4682132 GGTCCTTTAC
*
4682142 AAAAATAATACAAAAAAAT
1 AAAAAAAATACAAAAAAAT
*
4682161 AAAAAAAATATCAAAACAAT
1 AAAAAAAATA-CAAAAAAAT
4682181 A
1 A
4682182 TAAATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAAAAAATACAAAAAAAT
Found at i:4682577 original size:153 final size:154
Alignment explanation
Indices: 4682311--4682647 Score: 517
Period size: 153 Copynumber: 2.2 Consensus size: 154
4682301 ATTTTGACCT
* * *
4682311 TTTGTTCGTA-TTTTTT-TCAGATTTTATTACTTTTAAAAAATATACTATTTTATAATTTTTTTT
1 TTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTCAAAAAATATACTATTTTATAATTTTTATT
*
4682374 ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAA-T
66 ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATT
4682438 TTAAAAAAAC-ATTATTTCAGCCC
131 TTAAAAAAACTATTATTTCAGCCC
* *
4682461 TTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTCAATAAATATATATTATTTTCGT-A-TTTT
1 TTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTCAA-AAA-ATATACTATTTT-ATAATTTTT
4682524 ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAA
63 ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAA
*
4682589 ATTTTTAAAAAAACTCTTATTTCAGCCC
128 A-TTTTAAAAAAACTATTATTTCAGCCC
*
4682617 TTTGTTCGTATTTTTTCCT-GGATTTTATTAC
1 TTTGTTCGTATTTTTTTCTCGGATTTTATTAC
4682648 ATTATGTTTG
Statistics
Matches: 171, Mismatches: 8, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
150 10 0.06
151 6 0.04
152 18 0.11
153 71 0.42
154 12 0.07
155 24 0.14
156 30 0.18
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.54
Consensus pattern (154 bp):
TTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTCAAAAAATATACTATTTTATAATTTTTATT
ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATT
TTAAAAAAACTATTATTTCAGCCC
Found at i:4682658 original size:101 final size:100
Alignment explanation
Indices: 4682537--4682734 Score: 324
Period size: 101 Copynumber: 2.0 Consensus size: 100
4682527 ATTTTACATT
**
4682537 ATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTTTAAAAAAA
1 ATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAAT-AATTTAAAAAAAAA
* * *
4682602 CTCTTATTTCAGCCCTTTGTTCGTATTTTTTCCTGG
65 CCCTTATTTCAGCCCTTTATTCGGATTTTTTCCTGG
*
4682638 ATTTTATTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAATTTAAAAAAAAAC
1 ATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAATTTAAAAAAAAAC
*
4682703 CCTTATTTCGGCCCTTTATTCGGATTTTTTCC
66 CCTTATTTCAGCCCTTTATTCGGATTTTTTCC
4682735 CCAAAGTTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
100 41 0.46
101 49 0.54
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (100 bp):
ATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAATTTAAAAAAAAAC
CCTTATTTCAGCCCTTTATTCGGATTTTTTCCTGG
Found at i:4682840 original size:254 final size:253
Alignment explanation
Indices: 4682384--4682900 Score: 781
Period size: 254 Copynumber: 2.0 Consensus size: 253
4682374 ATTTTACATT
* *
4682384 ATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAAACA
1 ATTTTATTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAACA
* * * * ** * * *
4682449 TTATTTCAGCCCTTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTCAATAAATATATATTATT
66 TTATTTCAGCCCTTTATTCGGATTTTTTCCCCAAAGTTTATTACTTTCAATAAAAATATACTATT
*
4682514 TTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
131 TTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTG
* * *
4682579 TTTTAAATAAATTTTTAAAAAAACTCTTATTTCAGCCCTTTGTTCGTATTTTTTCCTGG
196 TTTTAAATAAA-TTTTAAAAAAACTCTTATTTCAGCCCTTTATTCGTATTTTTTCCCGA
4682638 ATTTTATTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAAT-AATTTAAAAAAAAA
1 ATTTTATTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTT--AAAAAAA
* *
4682702 CCCTTATTTCGGCCCTTTATTCGGATTTTTTCCCCAAAGTTTATTACTTT-AA-AAAAATATACT
64 -CATTATTTCAGCCCTTTATTCGGATTTTTTCCCCAAAGTTTATTACTTTCAATAAAAATATACT
* *
4682765 ATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTG
128 ATTTTCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTG
*
4682829 TGTGTTTTAAATAAATTTTAAAAAAACTCTTATTTCGGCCCTTTATTCGTATTTTTTCCCGA
192 TGTGTTTTAAATAAATTTTAAAAAAACTCTTATTTCAGCCCTTTATTCGTATTTTTTCCCGA
4682891 ATTTTATTAC
1 ATTTTATTAC
4682901 TTTCAATAAA
Statistics
Matches: 239, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
253 59 0.25
254 131 0.55
255 9 0.04
256 40 0.17
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (253 bp):
ATTTTATTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAACA
TTATTTCAGCCCTTTATTCGGATTTTTTCCCCAAAGTTTATTACTTTCAATAAAAATATACTATT
TTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTG
TTTTAAATAAATTTTAAAAAAACTCTTATTTCAGCCCTTTATTCGTATTTTTTCCCGA
Found at i:4683178 original size:17 final size:17
Alignment explanation
Indices: 4683156--4683191 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
4683146 AAAAATTATA
4683156 TTATTTTAGTATTATTT
1 TTATTTTAGTATTATTT
*
4683173 TTATTTTGGTATTATTT
1 TTATTTTAGTATTATTT
4683190 TT
1 TT
4683192 GTAAAAGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.72
Consensus pattern (17 bp):
TTATTTTAGTATTATTT
Found at i:4694149 original size:15 final size:15
Alignment explanation
Indices: 4694129--4694159 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4694119 ACAATAACAA
4694129 TGGCCCAAACTACAG
1 TGGCCCAAACTACAG
*
4694144 TGGCCCAAATTACAG
1 TGGCCCAAACTACAG
4694159 T
1 T
4694160 CAGAAACCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.19
Consensus pattern (15 bp):
TGGCCCAAACTACAG
Found at i:4695336 original size:20 final size:20
Alignment explanation
Indices: 4695313--4695364 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
4695303 TACGTATATA
*
4695313 TATATATATATTATACTTTC
1 TATATATATATTATAATTTC
* *
4695333 TATACATATTTTATAATTTC
1 TATATATATATTATAATTTC
4695353 TATATATATATT
1 TATATATATATT
4695365 TTTCTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.56
Consensus pattern (20 bp):
TATATATATATTATAATTTC
Found at i:4695412 original size:20 final size:20
Alignment explanation
Indices: 4695387--4695426 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4695377 CATGAATGTA
4695387 TTATATATAAATTTAT-TTTT
1 TTATATA-AAATTTATATTTT
*
4695407 TTATATAAATTTTATATTTT
1 TTATATAAAATTTATATTTT
4695427 CTCTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATATAAAATTTATATTTT
Found at i:4695426 original size:19 final size:18
Alignment explanation
Indices: 4695390--4695426 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
4695380 GAATGTATTA
*
4695390 TATATAAATTTATTTTTT
1 TATATAAATTTATATTTT
4695408 TATATAAATTTTATATTTT
1 TATATAAA-TTTATATTTT
4695427 CTCTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATATAAATTTATATTTT
Found at i:4706946 original size:19 final size:20
Alignment explanation
Indices: 4706922--4706966 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
4706912 GGGGGGAAAG
* *
4706922 TGGGAGAGAGTAAAAGT-TT
1 TGGGAGAAAGTAAAAATATT
4706941 TGGGAGAAAGTAAAAATATT
1 TGGGAGAAAGTAAAAATATT
4706961 TGGGAG
1 TGGGAG
4706967 TTTAGGGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (20 bp):
TGGGAGAAAGTAAAAATATT
Found at i:4715521 original size:15 final size:15
Alignment explanation
Indices: 4715487--4715520 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4715477 AAAACACAAC
*
4715487 TAAAATTAATAATAA
1 TAAAATGAATAATAA
4715502 TAAAATGAATAA-AA
1 TAAAATGAATAATAA
4715516 TAAAA
1 TAAAA
4715521 AATAACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
TAAAATGAATAATAA
Found at i:4715714 original size:23 final size:24
Alignment explanation
Indices: 4715687--4715733 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
4715677 ATGTTGCCTT
4715687 ATCTTCGACCGAC-CGACATGCAC
1 ATCTTCGACCGACACGACATGCAC
* * *
4715710 ATCTTTGACTGACACGATATGCAC
1 ATCTTCGACCGACACGACATGCAC
4715734 TTTTTTGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (24 bp):
ATCTTCGACCGACACGACATGCAC
Found at i:4727308 original size:38 final size:37
Alignment explanation
Indices: 4727251--4727396 Score: 127
Period size: 30 Copynumber: 4.2 Consensus size: 37
4727241 ATATTTTTAT
* *
4727251 TTTTTTATTTTTTTTAATTTTAAAATACTTTTAAAATAG
1 TTTTTTA-ATTTTTTAATTTTAAAATA-TTTTAAAATAA
* *
4727290 TTTTTTAA-TTTTTAA-ATT----T-TTTTAAAATAC
1 TTTTTTAATTTTTTAATTTTAAAATATTTTAAAATAA
4727320 TTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATAAA
1 TTTTTTAATTTTTTAATTTTAAAATA-TTTTAAAAT-AA
*
4727359 TTTTTTAA-TTTTT-GTTTT--AAT-TTTTAAAATAA
1 TTTTTTAATTTTTTAATTTTAAAATATTTTAAAATAA
4727391 TTTTTT
1 TTTTTT
4727397 GGTATTTATT
Statistics
Matches: 92, Mismatches: 6, Indels: 25
0.75 0.05 0.20
Matches are distributed among these distances:
30 18 0.20
31 7 0.08
32 11 0.12
33 9 0.10
35 3 0.03
36 3 0.03
37 11 0.12
38 14 0.15
39 16 0.17
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (37 bp):
TTTTTTAATTTTTTAATTTTAAAATATTTTAAAATAA
Found at i:4731875 original size:17 final size:17
Alignment explanation
Indices: 4731853--4731886 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4731843 TTCGTATATT
*
4731853 ATACTAATTATATCTAA
1 ATACTAAGTATATCTAA
4731870 ATACTAAGTATATCTAA
1 ATACTAAGTATATCTAA
4731887 GCGAGTCTAT
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:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (17 bp):
ATACTAAGTATATCTAA
Found at i:4734346 original size:16 final size:15
Alignment explanation
Indices: 4734325--4734389 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
4734315 AAGCCACCCC
4734325 TTTTATTTTATTTTAT
1 TTTTATTTTA-TTTAT
*
4734341 TTTTATATTA-TT-T
1 TTTTATTTTATTTAT
* *
4734354 TTTTATTTTACTAAT
1 TTTTATTTTATTTAT
*
4734369 TTTT-TTATTTTTTAT
1 TTTTATT-TTATTTAT
4734384 TTTTAT
1 TTTTAT
4734390 ACTTAAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
13 10 0.26
14 5 0.13
15 14 0.36
16 10 0.26
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATTTTATTTAT
Found at i:4734359 original size:19 final size:19
Alignment explanation
Indices: 4734335--4734384 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 19
4734325 TTTTATTTTA
4734335 TTTTATTTTTATATTATTT
1 TTTTATTTTTATATTATTT
4734354 TTTTA-TTTTACTA--ATTT
1 TTTTATTTTTA-TATTATTT
4734371 TTTTATTTTT-TATT
1 TTTTATTTTTATATT
4734385 TTTATACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
16 2 0.07
17 9 0.33
18 9 0.33
19 7 0.26
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATTTTTATATTATTT
Found at i:4734542 original size:22 final size:21
Alignment explanation
Indices: 4734501--4734548 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
4734491 TGAGTTTATT
*
4734501 TTTTTTCATTTTTTTGTTTTA
1 TTTTTTCATTTTTTTCTTTTA
4734522 TTTTTT-ATTTATCTTTCTTTTA
1 TTTTTTCATTT-T-TTTCTTTTA
*
4734544 ATTTT
1 TTTTT
4734549 GTTTTAGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 7 0.30
22 12 0.52
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTTTCATTTTTTTCTTTTA
Done.