Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 27 of 253
Found at i:7425470 original size:11 final size:11
Alignment explanation
Indices: 7425456--7425481 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7425446 TATATTTTCT
7425456 TTTTTCTGCAC
1 TTTTTCTGCAC
7425467 TTTTTCTGCAC
1 TTTTTCTGCAC
7425478 TTTT
1 TTTT
7425482 ATTTTTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.23, G:0.08, T:0.62
Consensus pattern (11 bp):
TTTTTCTGCAC
Found at i:7436685 original size:14 final size:14
Alignment explanation
Indices: 7436666--7436692 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7436656 TTTTCAAAAA
7436666 AAAAATTATTTTCC
1 AAAAATTATTTTCC
7436680 AAAAATTATTTTC
1 AAAAATTATTTTC
7436693 TATAAGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAAATTATTTTCC
Found at i:7444692 original size:28 final size:28
Alignment explanation
Indices: 7444647--7444776 Score: 147
Period size: 28 Copynumber: 4.6 Consensus size: 28
7444637 CAAAAATCCA
*
7444647 CATGGACTATCTTTCAAGT-AGAAGTTCG
1 CATGGACTATCTTTCAAGTAAG-AGTCCG
* *
7444675 TATGAACTATCTTTCAAGTAAGAGTCCG
1 CATGGACTATCTTTCAAGTAAGAGTCCG
* * *
7444703 TC-TGGTCTATCTTTCAAGTACGAGTCCA
1 -CATGGACTATCTTTCAAGTAAGAGTCCG
* **
7444731 CATGGACTATCTTTCAAGCAAGAGTTTG
1 CATGGACTATCTTTCAAGTAAGAGTCCG
7444759 CATGGACTATCTTTCAAG
1 CATGGACTATCTTTCAAG
7444777 CAAAAGTCAG
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
27 1 0.01
28 82 0.96
29 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (28 bp):
CATGGACTATCTTTCAAGTAAGAGTCCG
Found at i:7444898 original size:14 final size:14
Alignment explanation
Indices: 7444881--7444959 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
7444871 TCGCATGCAC
*
7444881 GAATTTGCATCTAT
1 GAATCTGCATCTAT
*
7444895 GAATCTGCATGTAT
1 GAATCTGCATCTAT
***
7444909 GAATCCATATCTAT
1 GAATCTGCATCTAT
* ** *
7444923 GATTCCACATGTAT
1 GAATCTGCATCTAT
* *
7444937 GAATTTGTATCTAT
1 GAATCTGCATCTAT
*
7444951 AAATCTGCA
1 GAATCTGCA
7444960 CGTATAAAAT
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
14 47 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (14 bp):
GAATCTGCATCTAT
Found at i:7444912 original size:28 final size:28
Alignment explanation
Indices: 7444881--7444964 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 28
7444871 TCGCATGCAC
*
7444881 GAATTTGCATCTATGAATCTGCATGTAT
1 GAATTTGTATCTATGAATCTGCATGTAT
*** * **
7444909 GAATCCATATCTATGATTCCACATGTAT
1 GAATTTGTATCTATGAATCTGCATGTAT
* *
7444937 GAATTTGTATCTATAAATCTGCACGTAT
1 GAATTTGTATCTATGAATCTGCATGTAT
7444965 AAAATTGTGA
Statistics
Matches: 41, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (28 bp):
GAATTTGTATCTATGAATCTGCATGTAT
Found at i:7446727 original size:10 final size:10
Alignment explanation
Indices: 7446709--7446758 Score: 55
Period size: 10 Copynumber: 4.7 Consensus size: 10
7446699 ATGATTGATT
*
7446709 TTTTTATATA
1 TTTTAATATA
7446719 TTTTAATATA
1 TTTTAATATA
*
7446729 TTATATTATATA
1 TT-T-TAATATA
7446741 TTTTAATATA
1 TTTTAATATA
7446751 TTTATAAT
1 TTT-TAAT
7446759 TTCTTAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 20 0.59
11 6 0.18
12 8 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTAATATA
Found at i:7448022 original size:23 final size:23
Alignment explanation
Indices: 7447994--7448044 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
7447984 ACAGGTCAAG
* *
7447994 TTTTAAATATTATTATAACACTA
1 TTTTAAATATTATTATAAAAATA
7448017 TTTTAAATATTATTATAAAAATA
1 TTTTAAATATTATTATAAAAATA
7448040 TTTTA
1 TTTTA
7448045 TTATTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTTAAATATTATTATAAAAATA
Found at i:7450667 original size:28 final size:28
Alignment explanation
Indices: 7450626--7450788 Score: 175
Period size: 28 Copynumber: 5.8 Consensus size: 28
7450616 TGAAGCAAAT
7450626 GTCCACATCG-ACTATCTTTCAAGTAGGA
1 GTCCACAT-GAACTATCTTTCAAGTAGGA
*
7450654 GTCCACGTGAACTATCTTTCAAGTAGGA
1 GTCCACATGAACTATCTTTCAAGTAGGA
* *
7450682 GTCCATATGAACTATTTTTCAAGTAGGA
1 GTCCACATGAACTATCTTTCAAGTAGGA
* * * * *
7450710 GTTCGCTTGGACTATCTTTCAAGTATGA
1 GTCCACATGAACTATCTTTCAAGTAGGA
* * *
7450738 GTCCACATGGACTATCTTTCAAGCAAGA
1 GTCCACATGAACTATCTTTCAAGTAGGA
*** *
7450766 GTCTGTATGGACTATCTTTCAAG
1 GTCCACATGAACTATCTTTCAAG
7450789 CAAAAGTCTG
Statistics
Matches: 115, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
27 1 0.01
28 114 0.99
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (28 bp):
GTCCACATGAACTATCTTTCAAGTAGGA
Found at i:7450740 original size:84 final size:84
Alignment explanation
Indices: 7450635--7450788 Score: 227
Period size: 84 Copynumber: 1.8 Consensus size: 84
7450625 TGTCCACATC
* * * *
7450635 GACTATCTTTCAAGTAGGAGTCCACGTGAACTATCTTTCAAGTAGGAGTCCATATGAACTATTTT
1 GACTATCTTTCAAGTAGGAGTCCACATGAACTATCTTTCAAGCAAGAGTCCATATGAACTATCTT
7450700 TCAAGTAGGAGTTCGCTTG
66 TCAAGTAGGAGTTCGCTTG
* * ** *
7450719 GACTATCTTTCAAGTATGAGTCCACATGGACTATCTTTCAAGCAAGAGTCTGTATGGACTATCTT
1 GACTATCTTTCAAGTAGGAGTCCACATGAACTATCTTTCAAGCAAGAGTCCATATGAACTATCTT
7450784 TCAAG
66 TCAAG
7450789 CAAAAGTCTG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 61 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (84 bp):
GACTATCTTTCAAGTAGGAGTCCACATGAACTATCTTTCAAGCAAGAGTCCATATGAACTATCTT
TCAAGTAGGAGTTCGCTTG
Found at i:7450921 original size:14 final size:14
Alignment explanation
Indices: 7450904--7450952 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
7450894 AATTCGCATA
7450904 TATGAATCCACATG
1 TATGAATCCACATG
* ** *
7450918 TATGAATTCGTATC
1 TATGAATCCACATG
*
7450932 TATGATTCCACATG
1 TATGAATCCACATG
7450946 TATGAAT
1 TATGAAT
7450953 TTGTATCTAT
Statistics
Matches: 25, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (14 bp):
TATGAATCCACATG
Found at i:7450946 original size:28 final size:28
Alignment explanation
Indices: 7450884--7450979 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 28
7450874 AGAATGAGTT
* * * *
7450884 CACATGCACGAATTCGCATATATGAATC
1 CACATGTATGAATTCGTATCTATGAATC
*
7450912 CACATGTATGAATTCGTATCTATGATTC
1 CACATGTATGAATTCGTATCTATGAATC
*
7450940 CACATGTATGAATTTGTATCTATGAATC
1 CACATGTATGAATTCGTATCTATGAATC
**
7450968 TGCATGTATGAA
1 CACATGTATGAA
7450980 ATCAATGCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (28 bp):
CACATGTATGAATTCGTATCTATGAATC
Found at i:7451869 original size:18 final size:18
Alignment explanation
Indices: 7451846--7451882 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
7451836 ACATGTCATA
7451846 TGCATGTCACCTAGTTAT
1 TGCATGTCACCTAGTTAT
7451864 TGCATGTCACCTAGTTAT
1 TGCATGTCACCTAGTTAT
7451882 T
1 T
7451883 CCCTAATGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (18 bp):
TGCATGTCACCTAGTTAT
Found at i:7453205 original size:29 final size:29
Alignment explanation
Indices: 7453159--7453215 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
7453149 TAATAATTCA
* * *
7453159 ACTCTTTTTGAAATATTGATGGTCAAATG
1 ACTCTTTTTCAAAAATTGAGGGTCAAATG
7453188 ACTCTTTTTCAAAAATTGAGGGTCAAAT
1 ACTCTTTTTCAAAAATTGAGGGTCAAAT
7453216 TTAGCTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (29 bp):
ACTCTTTTTCAAAAATTGAGGGTCAAATG
Found at i:7453569 original size:24 final size:26
Alignment explanation
Indices: 7453542--7453600 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
7453532 CCTATTTCAT
*
7453542 TAAAT-AAA-AAATTTTAAAATATAA
1 TAAATCAAATAAATTTAAAAATATAA
*
7453566 TAAATCAAATACATTTAAAAATATAA
1 TAAATCAAATAAATTTAAAAATATAA
7453592 -AAA-CAAATA
1 TAAATCAAATA
7453601 TTAAAACAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 11 0.35
25 6 0.19
26 14 0.45
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (26 bp):
TAAATCAAATAAATTTAAAAATATAA
Found at i:7455111 original size:5 final size:6
Alignment explanation
Indices: 7455096--7455134 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
7455086 AAAGCTTTGA
*
7455096 AAAAAT AAAAAT AAAAAT AAAAAC AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
7455135 TCCATTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:7462733 original size:46 final size:46
Alignment explanation
Indices: 7462666--7462757 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
7462656 CCCAAGTTTG
* *
7462666 TTATTGAATGCTCAAATACTTAGAAATAGAGAGTTCGATAGTGTAC
1 TTATTGAATGCTCAAATACTTAGAAATAGAGAGTGCAATAGTGTAC
7462712 TTATTGAATGCTCAAATACTTAGAAATAGAGAGTGCAATAGTGTAC
1 TTATTGAATGCTCAAATACTTAGAAATAGAGAGTGCAATAGTGTAC
7462758 CTTTTATCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (46 bp):
TTATTGAATGCTCAAATACTTAGAAATAGAGAGTGCAATAGTGTAC
Found at i:7464529 original size:16 final size:16
Alignment explanation
Indices: 7464508--7464554 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
7464498 GAGAGGAAAG
7464508 AAAATTAGAAAGATGA
1 AAAATTAGAAAGATGA
*
7464524 AAAATTA-AAGAGGTAGA
1 AAAATTAGAA-AGAT-GA
7464541 AAAA-TAGAAAGATG
1 AAAATTAGAAAGATG
7464555 GAAATATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 3 0.12
16 15 0.58
17 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (16 bp):
AAAATTAGAAAGATGA
Found at i:7478176 original size:85 final size:85
Alignment explanation
Indices: 7478033--7478203 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
7478023 GCAAAGTTTA
7478033 TTGCCAAGTGTTATTTCTGTGGCAAGAAAGGACATGTAGAGAATGATTGCAATAAGGGCATGACT
1 TTGCCAAGTGTTATTTCTGTGGCAAGAAAGGACATGTAGAGAATGATTGCAATAAGGGCATGACT
7478098 TGGTTTGAAAAGAAAAGTAC
66 TGGTTTGAAAAGAAAAGTAC
7478118 TTGCCAAGTGTTATTTCTGTGGCAAGAAAGGACATGTAGAGAATGATTGCAATAAGGGCATGACT
1 TTGCCAAGTGTTATTTCTGTGGCAAGAAAGGACATGTAGAGAATGATTGCAATAAGGGCATGACT
7478183 TGGTTTGAAAAGAAAAGTAC
66 TGGTTTGAAAAGAAAAGTAC
7478203 T
1 T
7478204 AACCTTTCTT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (85 bp):
TTGCCAAGTGTTATTTCTGTGGCAAGAAAGGACATGTAGAGAATGATTGCAATAAGGGCATGACT
TGGTTTGAAAAGAAAAGTAC
Found at i:7479207 original size:18 final size:18
Alignment explanation
Indices: 7479184--7479220 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7479174 TATAATTTGG
* *
7479184 TATTCGATTTATTTGAAT
1 TATTCGAGTTATTCGAAT
7479202 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
7479220 T
1 T
7479221 CAAAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:7484771 original size:16 final size:16
Alignment explanation
Indices: 7484742--7484782 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
7484732 AGGTTCAATT
* *
7484742 ATATTAATATTATTTA
1 ATATTAAAAATATTTA
*
7484758 ATTTTAAAAATATTTA
1 ATATTAAAAATATTTA
7484774 ATATTAAAA
1 ATATTAAAA
7484783 TAACACAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTAAAAATATTTA
Found at i:7487939 original size:16 final size:18
Alignment explanation
Indices: 7487915--7487951 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
7487905 ATAGTAAAAA
7487915 AATAATTTAT-TATTT-T
1 AATAATTTATATATTTAT
*
7487931 AATAGTTTATATATTTAT
1 AATAATTTATATATTTAT
7487949 AAT
1 AAT
7487952 TTTTAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 5 0.28
18 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
AATAATTTATATATTTAT
Found at i:7488587 original size:35 final size:35
Alignment explanation
Indices: 7488521--7488587 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
7488511 TCCTAATTTC
* *
7488521 AAAAGTTTTAATTTTATCTTAAAAAATAAATATAA
1 AAAAGTTTAAATTTAATCTTAAAAAATAAATATAA
7488556 AAAAGTATTAAATTTAAT-TTAATAAAA-AAATA
1 AAAAGT-TTAAATTTAATCTTAA-AAAATAAATA
7488588 CATTTCTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
35 15 0.54
36 13 0.46
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.37
Consensus pattern (35 bp):
AAAAGTTTAAATTTAATCTTAAAAAATAAATATAA
Found at i:7494092 original size:22 final size:23
Alignment explanation
Indices: 7494062--7494105 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
7494052 ATATTAAATA
7494062 ATAATTAAAATTATATATTTATG
1 ATAATTAAAATTATATATTTATG
*
7494085 ATAA-TAAATTTATATATTTAT
1 ATAATTAAAATTATATATTTAT
7494106 TAAATTGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATAATTAAAATTATATATTTATG
Found at i:7495406 original size:27 final size:28
Alignment explanation
Indices: 7495373--7495426 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
7495363 ATGCAAATTA
*
7495373 TTTTATTATATA-TAATTATTT-ATTTAT
1 TTTTATT-TATACGAATTATTTAATTTAT
7495400 TTTTATTTATACGAATTATTTAATTTA
1 TTTTATTTATACGAATTATTTAATTTA
7495427 CTGCGTGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 15 0.62
28 5 0.21
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTTATTTATACGAATTATTTAATTTAT
Found at i:7497690 original size:276 final size:277
Alignment explanation
Indices: 7497197--7497750 Score: 1002
Period size: 276 Copynumber: 2.0 Consensus size: 277
7497187 CCATTAGACA
*
7497197 CTTCATGGAACATTATAAATATTGAACCATCTAATCCGAACCCAATGCTTAGCCCGCTGGTTCTT
1 CTTCATGGAACATTATAAATATTGAACCATCTAATCCGAACCCAAGGCTTAGCCCGCTGGTTCTT
* *
7497262 GCAACCACCTTTATGAGGTGGTATCTAGCAGATTTGGGGTTTGATCTCAGCATATGCAGCTTTCG
66 GCAACCACCTTTATGAGGCGGTATCTAGCAGATTTGGGATTTGATCTCAGCATATGCAGCTTTCG
* * *
7497327 TTATAACAAAAGGAAGATTTAATCAGAACTTGCCTGCGTTGCTTACTCGGGCGACTTTATTGCAC
131 TTATAACAAAAGAAAGATTTAACCAGAACTTGCCTGAGTTGCTTACTCGGGCGACTTTATTGCAC
* *
7497392 TGTGCATTATACCTTTGAAGTAACAGAAGATGTAAAGGCACAGAAAGGAACAGAAGTGCAGAAAA
196 TGTGCATTATACCCTTGAAGTAACAGAAGATGTAAAGGCACAGAAAGAAACAGAAGTGCAGAAAA
7497457 GGC-AAAAATCAGAAAT
261 GGCAAAAAATCAGAAAT
* * *
7497473 CTTCATGGAACATTATGAATATTGAAGCATCTAATCCGAACCCACGGCTTAGCCCGCTGGTTCTT
1 CTTCATGGAACATTATAAATATTGAACCATCTAATCCGAACCCAAGGCTTAGCCCGCTGGTTCTT
7497538 GCAACCACCTTTATGAGGCGGTATCTAGCAGATTTGGGATTTGATCTCAGCATATGCAGCTTTCG
66 GCAACCACCTTTATGAGGCGGTATCTAGCAGATTTGGGATTTGATCTCAGCATATGCAGCTTTCG
7497603 TTATAACAAAAGAAAGATTTAACCAGAACTTGCCTGAGTTGCTTACTCGGGCGACTTTATTGCAC
131 TTATAACAAAAGAAAGATTTAACCAGAACTTGCCTGAGTTGCTTACTCGGGCGACTTTATTGCAC
7497668 TGTGCATTATACCCTTGAAGTAACAGAAGATGTAAAGGCACAGAAAGAAACAGAAGTGCAGAAAA
196 TGTGCATTATACCCTTGAAGTAACAGAAGATGTAAAGGCACAGAAAGAAACAGAAGTGCAGAAAA
7497733 GGCAAAAAATCAGAAAT
261 GGCAAAAAATCAGAAAT
7497750 C
1 C
7497751 GAGTCTTTTC
Statistics
Matches: 266, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
276 252 0.95
277 14 0.05
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (277 bp):
CTTCATGGAACATTATAAATATTGAACCATCTAATCCGAACCCAAGGCTTAGCCCGCTGGTTCTT
GCAACCACCTTTATGAGGCGGTATCTAGCAGATTTGGGATTTGATCTCAGCATATGCAGCTTTCG
TTATAACAAAAGAAAGATTTAACCAGAACTTGCCTGAGTTGCTTACTCGGGCGACTTTATTGCAC
TGTGCATTATACCCTTGAAGTAACAGAAGATGTAAAGGCACAGAAAGAAACAGAAGTGCAGAAAA
GGCAAAAAATCAGAAAT
Found at i:7499945 original size:45 final size:45
Alignment explanation
Indices: 7499882--7499973 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
7499872 TCCAAGTAAT
* *
7499882 AATTCAACGATTGGTACGATGAATCATTACCAATTGACGAATAAA
1 AATTCAACGATTGCTACGATGAACCATTACCAATTGACGAATAAA
* * *
7499927 AATTCAACGATTGCTACGATGGACCATTACCTATTGACGAGTAAA
1 AATTCAACGATTGCTACGATGAACCATTACCAATTGACGAATAAA
7499972 AA
1 AA
7499974 AACATACCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.26
Consensus pattern (45 bp):
AATTCAACGATTGCTACGATGAACCATTACCAATTGACGAATAAA
Found at i:7501003 original size:22 final size:22
Alignment explanation
Indices: 7500978--7501020 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7500968 TCCACAGGTA
*
7500978 ATTTTAAAATATATTTTAAAAT
1 ATTTTAAAATAAATTTTAAAAT
**
7501000 ATTTTACTATAAATTTTAAAA
1 ATTTTAAAATAAATTTTAAAA
7501021 AATTATAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTTAAAATAAATTTTAAAAT
Found at i:7502233 original size:29 final size:29
Alignment explanation
Indices: 7502195--7502282 Score: 158
Period size: 29 Copynumber: 3.0 Consensus size: 29
7502185 TGGAAAAGAA
7502195 AGGAGGTGATGTATTACGATGTTGAAAGC
1 AGGAGGTGATGTATTACGATGTTGAAAGC
*
7502224 AGGAGCTGATGTATTACGATGTTGAAAGC
1 AGGAGGTGATGTATTACGATGTTGAAAGC
*
7502253 AGGAGGTGATGTATTACAATGTTGAAAGC
1 AGGAGGTGATGTATTACGATGTTGAAAGC
7502282 A
1 A
7502283 ATACCTATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.33, C:0.08, G:0.32, T:0.27
Consensus pattern (29 bp):
AGGAGGTGATGTATTACGATGTTGAAAGC
Found at i:7510160 original size:15 final size:15
Alignment explanation
Indices: 7510142--7510171 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7510132 ATATTTTACT
7510142 ATTATGTCTTTTATG
1 ATTATGTCTTTTATG
7510157 ATTATGTCTTTTATG
1 ATTATGTCTTTTATG
7510172 TTTTGCATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (15 bp):
ATTATGTCTTTTATG
Found at i:7511718 original size:14 final size:15
Alignment explanation
Indices: 7511699--7511729 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
7511689 TTTAATTTTT
7511699 TATATAAAAAA-TAA
1 TATATAAAAAATTAA
7511713 TATATAAAAAATTAA
1 TATATAAAAAATTAA
7511728 TA
1 TA
7511730 CGAGTGGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TATATAAAAAATTAA
Found at i:7513148 original size:23 final size:23
Alignment explanation
Indices: 7513096--7513173 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
7513086 TGTGCGGATG
*
7513096 TCACTTTGCACCAAAGTGCCACTCA
1 TCAC-TTGCACCATAGTGCCACT-A
* * *
7513121 -AACTTGCACCATAGTGCCGCTT
1 TCACTTGCACCATAGTGCCACTA
* *
7513143 TCACTTGCATCGTAGTGCCACTA
1 TCACTTGCACCATAGTGCCACTA
7513166 TCACTTGC
1 TCACTTGC
7513174 GTGCATAGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 41 0.95
24 2 0.05
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.28
Consensus pattern (23 bp):
TCACTTGCACCATAGTGCCACTA
Found at i:7519798 original size:105 final size:105
Alignment explanation
Indices: 7519601--7519802 Score: 271
Period size: 105 Copynumber: 1.9 Consensus size: 105
7519591 TCACTTGATA
* * *
7519601 TTGTCACGTATACTATATTGATTGATGCACTTTGCACAGAAGGAATGATTTCTAAAGCTGTAGAG
1 TTGTCACGTATACTACATTGATTGATGCACGTTGCAAAGAAGGAATGATTTCTAAAGCTGTAGAG
* *
7519666 ATCGTTGACACGATGAGAAAGCAAGGCATTGAACCCAATG
66 ATCGTTGACACAATGAGAAAACAAGGCATTGAACCCAATG
* * * *
7519706 TTGTCACGTATACTACGTTGGTTGATGCACGTTGCAAAGAAGGGATGGTTTCTAAAGCTG-AGGA
1 TTGTCACGTATACTACATTGATTGATGCACGTTGCAAAGAAGGAATGATTTCTAAAGCTGTA-GA
* * * *
7519770 TATTGTTGACACAATGATAAAACGAGGCATTGA
65 GATCGTTGACACAATGAGAAAACAAGGCATTGA
7519803 GCCTGATGTT
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
104 1 0.01
105 82 0.99
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (105 bp):
TTGTCACGTATACTACATTGATTGATGCACGTTGCAAAGAAGGAATGATTTCTAAAGCTGTAGAG
ATCGTTGACACAATGAGAAAACAAGGCATTGAACCCAATG
Found at i:7522431 original size:32 final size:32
Alignment explanation
Indices: 7522390--7522454 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
7522380 CCATAATGTT
7522390 TATTCTATGAGCATCTTGACTAATTGCTTTTG
1 TATTCTATGAGCATCTTGACTAATTGCTTTTG
*
7522422 TATTCTATGAGCATCTTGATTAATTGCTTTTG
1 TATTCTATGAGCATCTTGACTAATTGCTTTTG
7522454 T
1 T
7522455 CAACTAGCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.14, G:0.15, T:0.49
Consensus pattern (32 bp):
TATTCTATGAGCATCTTGACTAATTGCTTTTG
Found at i:7525401 original size:7 final size:7
Alignment explanation
Indices: 7525389--7525429 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
7525379 CTAGCGAGGG
7525389 GGCTATT
1 GGCTATT
7525396 GGCTATT
1 GGCTATT
7525403 GGCTATT
1 GGCTATT
7525410 GGCTATT
1 GGCTATT
7525417 GGCTATT
1 GGCTATT
7525424 GGCTAT
1 GGCTAT
7525430 AGCACCCGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.15, C:0.15, G:0.29, T:0.41
Consensus pattern (7 bp):
GGCTATT
Found at i:7527633 original size:21 final size:21
Alignment explanation
Indices: 7527593--7527633 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7527583 ATTATTTATA
**
7527593 TTTTAATTAATCATGTTTTAG
1 TTTTAATTAATCATAATTTAG
*
7527614 TTTTAATTAATCTTAATTTA
1 TTTTAATTAATCATAATTTA
7527634 CTTAATTGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTTAATTAATCATAATTTAG
Found at i:7540760 original size:3 final size:3
Alignment explanation
Indices: 7540745--7540844 Score: 65
Period size: 3 Copynumber: 33.0 Consensus size: 3
7540735 TTTAAGATTT
* * ** * * * * * *
7540745 TTA TTA TTG TTA TTA TTA TTA TTA ATA CCA TCA TCA TCA TCA TCA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
7540793 TGA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA CCA GTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
7540839 TTA TTA
1 TTA TTA
7540845 AATTTTTTTA
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
3 80 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (3 bp):
TTA
Found at i:7543360 original size:13 final size:14
Alignment explanation
Indices: 7543321--7543362 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
7543311 GGGTAAACAG
7543321 TTAA-TTAATTAT-
1 TTAATTTAATTATA
7543333 TTAATTTAATTTATA
1 TTAATTTAA-TTATA
7543348 TT-ATTTAATTATA
1 TTAATTTAATTATA
7543361 TT
1 TT
7543363 GTACATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.15
13 11 0.41
14 10 0.37
15 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTAATTTAATTATA
Found at i:7545170 original size:17 final size:18
Alignment explanation
Indices: 7545136--7545181 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
7545126 CCGTTATGTC
7545136 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
7545151 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
7545168 CGCGACCGCGACCG
1 CGCGACCGCGACCG
7545182 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:7546118 original size:19 final size:19
Alignment explanation
Indices: 7546094--7546139 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
7546084 TTTTTTATTA
7546094 CTTTTTTTTTAACTTTTGT
1 CTTTTTTTTTAACTTTTGT
* * *
7546113 CTTTTTCTTTAATTTTTTT
1 CTTTTTTTTTAACTTTTGT
7546132 CTTTTTTT
1 CTTTTTTT
7546140 AAGTTTTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.78
Consensus pattern (19 bp):
CTTTTTTTTTAACTTTTGT
Found at i:7546155 original size:19 final size:18
Alignment explanation
Indices: 7546086--7546165 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 18
7546076 GCTTCTAATT
7546086 TTTTATTACTTTTTTTTTAA
1 TTTTA-TAC-TTTTTTTTAA
*
7546106 CTTTTGT-CTTTTTCTTTAA
1 -TTTTATACTTTTT-TTTAA
* *
7546125 TTTTTTTC-TTTTTTTAA
1 TTTTATACTTTTTTTTAA
*
7546142 GTTTTATACTTTTTCTT-A
1 -TTTTATACTTTTTTTTAA
7546160 TTTTAT
1 TTTTAT
7546166 TTTGTTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
17 11 0.22
18 21 0.42
19 13 0.26
20 1 0.02
21 4 0.08
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTATACTTTTTTTTAA
Found at i:7546226 original size:23 final size:24
Alignment explanation
Indices: 7546200--7546254 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 24
7546190 TTTGTTATTA
*
7546200 ATTTTAAAAAATTTGA-AATGTAT
1 ATTTTAAAAAATTTGATAATATAT
* * *
7546223 A-TTTGAAATATTTTATAATATAT
1 ATTTTAAAAAATTTGATAATATAT
7546246 ATTTTAAAA
1 ATTTTAAAA
7546255 TATTAAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 11 0.44
23 8 0.32
24 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (24 bp):
ATTTTAAAAAATTTGATAATATAT
Found at i:7546263 original size:21 final size:21
Alignment explanation
Indices: 7546200--7546315 Score: 85
Period size: 20 Copynumber: 5.4 Consensus size: 21
7546190 TTTGTTATTA
* *
7546200 ATTTTAAAAAATTTGAAATGTAT
1 ATTTTAAAATA-TT-AAATATAT
* *
7546223 ATTTGAAATATTTTATAATATAT
1 ATTTTAAA-ATATTA-AATATAT
7546246 ATTTTAAAATATTAAATAT-T
1 ATTTTAAAATATTAAATATAT
* *** *
7546266 ATTTTTAAATTATTTTTTA-AA
1 A-TTTTAAAATATTAAATATAT
7546287 ATTTTAAAATATTAAATATAT
1 ATTTTAAAATATTAAATATAT
7546308 -TTTTAAAA
1 ATTTTAAAA
7546316 AATATTTAAA
Statistics
Matches: 72, Mismatches: 16, Indels: 13
0.71 0.16 0.13
Matches are distributed among these distances:
20 23 0.32
21 20 0.28
22 6 0.08
23 22 0.31
24 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
ATTTTAAAATATTAAATATAT
Found at i:7546284 original size:33 final size:36
Alignment explanation
Indices: 7546233--7546300 Score: 97
Period size: 33 Copynumber: 2.0 Consensus size: 36
7546223 ATTTGAAATA
7546233 TTTTATAATATATATTTTAAAATATT-AAATATTAT
1 TTTTATAATATATATTTTAAAATATTAAAATATTAT
* *
7546268 TTTTA-AAT-TATTTTTTAAAATTTTAAAATATTA
1 TTTTATAATATATATTTTAAAATATTAAAATATTA
7546301 AATATATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 14 0.47
34 11 0.37
35 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (36 bp):
TTTTATAATATATATTTTAAAATATTAAAATATTAT
Found at i:7546529 original size:10 final size:10
Alignment explanation
Indices: 7546514--7546550 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
7546504 CTTGCTTCTG
7546514 ATTTTTTTAA
1 ATTTTTTTAA
*
7546524 ATTTTTTTAC
1 ATTTTTTTAA
*
7546534 TTTTTTTTAA
1 ATTTTTTTAA
7546544 ATTTTTT
1 ATTTTTT
7546551 CTTGTTCTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:7546540 original size:20 final size:20
Alignment explanation
Indices: 7546515--7546576 Score: 78
Period size: 19 Copynumber: 3.2 Consensus size: 20
7546505 TTGCTTCTGA
7546515 TTTTTTTAAATTTTTTTACT
1 TTTTTTTAAATTTTTTTACT
7546535 TTTTTTTAAA-TTTTTT-CT
1 TTTTTTTAAATTTTTTTACT
*
7546553 TGTTCTTT-AATTTTTTTA-T
1 T-TTTTTTAAATTTTTTTACT
7546572 TTTTT
1 TTTTT
7546577 AAGTTTTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 8 0.22
19 19 0.51
20 10 0.27
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTTTAAATTTTTTTACT
Found at i:7546575 original size:8 final size:8
Alignment explanation
Indices: 7546514--7546629 Score: 63
Period size: 8 Copynumber: 13.4 Consensus size: 8
7546504 CTTGCTTCTG
7546514 ATTTTTTT
1 ATTTTTTT
7546522 AAATTTTTTT
1 --ATTTTTTT
7546532 ACTTTTTTTT
1 A--TTTTTTT
*
7546542 AAATTTTTT
1 -ATTTTTTT
*
7546551 CTTGTTCTTT
1 ATT-TT-TTT
7546561 AATTTTTTT
1 -ATTTTTTT
*
7546570 ATTTTTTA
1 ATTTTTTT
* *
7546578 AGTTTTAT
1 ATTTTTTT
7546586 A-TTTTTT
1 ATTTTTTT
* *
7546593 CTTATTTT
1 ATTTTTTT
7546601 ATTTTATTT
1 ATTTT-TTT
*
7546610 ATTTATTT
1 ATTTTTTT
7546618 ATTTTATTT
1 ATTTT-TTT
7546627 ATT
1 ATT
7546630 ATTAATTTTA
Statistics
Matches: 82, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
7 5 0.06
8 30 0.37
9 24 0.29
10 20 0.24
11 3 0.04
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (8 bp):
ATTTTTTT
Found at i:7546575 original size:9 final size:9
Alignment explanation
Indices: 7546514--7546626 Score: 61
Period size: 9 Copynumber: 12.4 Consensus size: 9
7546504 CTTGCTTCTG
*
7546514 ATTTTTTTA
1 ATTTTTTTT
*
7546523 AATTTTTTT
1 ATTTTTTTT
7546532 ACTTTTTTTT
1 A-TTTTTTTT
**
7546542 AAATTTTTT
1 ATTTTTTTT
* *
7546551 CTTGTTCTTT
1 ATT-TTTTTT
*
7546561 AATTTTTTT
1 ATTTTTTTT
7546570 A--TTTTTT
1 ATTTTTTTT
** *
7546577 AAGTTTTAT
1 ATTTTTTTT
7546586 ATTTTTTCTT
1 ATTTTTT-TT
7546596 ATTTTATTTT
1 ATTTT-TTTT
*
7546606 A-TTTATTT
1 ATTTTTTTT
*
7546614 ATTTATTTT
1 ATTTTTTTT
7546623 ATTT
1 ATTT
7546627 ATTATTAATT
Statistics
Matches: 78, Mismatches: 19, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
7 7 0.09
8 4 0.05
9 42 0.54
10 23 0.29
11 2 0.03
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:7546614 original size:13 final size:14
Alignment explanation
Indices: 7546585--7546639 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 14
7546575 TTAAGTTTTA
7546585 TATTTT-TTCTTATTT
1 TATTTTATT-TTA-TT
7546600 TATTTTA-TTTATT
1 TATTTTATTTTATT
7546613 TA-TTTATTTTATT
1 TATTTTATTTTATT
7546626 TATTATTAATTTTA
1 TATT-TT-ATTTTA
7546640 ATAAATTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.11
13 12 0.34
14 4 0.11
15 9 0.26
16 6 0.17
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (14 bp):
TATTTTATTTTATT
Found at i:7546618 original size:17 final size:16
Alignment explanation
Indices: 7546598--7546639 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
7546588 TTTTTCTTAT
7546598 TTTATTTTATTTATTTA
1 TTTATTTTATTTA-TTA
7546615 TTTATTTTATTTATTA
1 TTTATTTTATTTATTA
*
7546631 TTAATTTTA
1 TTTATTTTA
7546640 ATAAATTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTTTATTTATTA
Found at i:7546659 original size:13 final size:13
Alignment explanation
Indices: 7546641--7546667 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7546631 TTAATTTTAA
7546641 TAAATTTGAAATG
1 TAAATTTGAAATG
7546654 TAAATTTGAAATG
1 TAAATTTGAAATG
7546667 T
1 T
7546668 TTTTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (13 bp):
TAAATTTGAAATG
Found at i:7546697 original size:20 final size:22
Alignment explanation
Indices: 7546668--7546769 Score: 92
Period size: 21 Copynumber: 4.7 Consensus size: 22
7546658 TTTGAAATGT
*
7546668 TTTTATATATTATTTT-AAA-A
1 TTTTAAATATTATTTTAAAATA
7546688 TTTTAAATATTATTTTAAAATTA
1 TTTTAAATATTATTTTAAAA-TA
7546711 TTTTTAAA-A--ATTTTAAATATA
1 -TTTTAAATATTATTTTAAA-ATA
*
7546732 TATTTAAA-ATTATTTTTTAAA-A
1 T-TTTAAATATTA-TTTTAAAATA
7546754 TTTTAAATATTATTTT
1 TTTTAAATATTATTTT
7546770 TTAAAAATAA
Statistics
Matches: 70, Mismatches: 2, Indels: 19
0.77 0.02 0.21
Matches are distributed among these distances:
20 16 0.23
21 30 0.43
22 7 0.10
23 4 0.06
24 13 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTAAATATTATTTTAAAATA
Found at i:7546726 original size:33 final size:32
Alignment explanation
Indices: 7546676--7546769 Score: 147
Period size: 33 Copynumber: 2.9 Consensus size: 32
7546666 GTTTTTATAT
7546676 ATTA-TTTTAAAATTTTAAATATTATTTTAAA
1 ATTATTTTTAAAATTTTAAATATTATTTTAAA
7546707 ATTATTTTTAAAAATTTTAAATA-TATATTTAAA
1 ATTATTTTT-AAAATTTTAAATATTAT-TTTAAA
7546740 ATTATTTTTTAAAATTTTAAATATTATTTT
1 ATTA-TTTTTAAAATTTTAAATATTATTTT
7546770 TTAAAAATAA
Statistics
Matches: 58, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
31 4 0.07
32 7 0.12
33 39 0.67
34 8 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
ATTATTTTTAAAATTTTAAATATTATTTTAAA
Found at i:7546770 original size:13 final size:12
Alignment explanation
Indices: 7546688--7546775 Score: 66
Period size: 12 Copynumber: 7.7 Consensus size: 12
7546678 TATTTTAAAA
7546688 TTTTAAATATTA-
1 TTTTAAA-ATTAT
7546700 TTTTAAAATTAT
1 TTTTAAAATTAT
7546712 TTTTAAAA--A-
1 TTTTAAAATTAT
7546721 TTTT-AAATATAT
1 TTTTAAAAT-TAT
*
7546733 ATTTAAAATTAT
1 TTTTAAAATTAT
*
7546745 TTTTTAAA--A-
1 TTTTAAAATTAT
7546754 TTTTAAATATTATT
1 TTTTAAA-ATTA-T
7546768 TTTTAAAA
1 TTTTAAAA
7546776 ATAAAATACA
Statistics
Matches: 61, Mismatches: 4, Indels: 21
0.71 0.05 0.24
Matches are distributed among these distances:
8 3 0.05
9 10 0.16
10 3 0.05
11 5 0.08
12 28 0.46
13 5 0.08
14 7 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:7546782 original size:21 final size:22
Alignment explanation
Indices: 7546740--7546800 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
7546730 TATATTTAAA
* *
7546740 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAATATAAAAT
7546762 ATTATTTTTTAAAA-ATAAAAT
1 ATTATTTTTTAAAATATAAAAT
*
7546783 A-CATTTTTTTAATAATAT
1 ATTA-TTTTTTAA-AATAT
7546801 GAAACATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 1 0.03
21 14 0.42
22 16 0.48
23 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATTTTTTAAAATATAAAAT
Found at i:7546915 original size:13 final size:13
Alignment explanation
Indices: 7546885--7546914 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7546875 TTTAAACATT
7546885 TAAAATTTTTAAA
1 TAAAATTTTTAAA
7546898 TAAAATTTTT-AA
1 TAAAATTTTTAAA
7546910 TAAAA
1 TAAAA
7546915 AATTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TAAAATTTTTAAA
Found at i:7547082 original size:22 final size:22
Alignment explanation
Indices: 7547056--7547116 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
7547046 TTAATGTTTA
*
7547056 AATATTATTAAAAA-ATATATTT
1 AATATT-TAAAAAATATATATTT
7547078 AATATTTAAAAAATATATATTT
1 AATATTTAAAAAATATATATTT
*
7547100 AAAATTTATAAGAAATA
1 AATATTTA-AA-AAATA
7547117 ATTTCAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 6 0.18
22 21 0.62
23 2 0.06
24 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
AATATTTAAAAAATATATATTT
Found at i:7547127 original size:34 final size:32
Alignment explanation
Indices: 7547088--7547150 Score: 108
Period size: 34 Copynumber: 1.9 Consensus size: 32
7547078 AATATTTAAA
7547088 AAATATATATTTAAAATTTATAAGAAATAATTTC
1 AAATATATATTTAAAATTT-TAA-AAATAATTTC
7547122 AAATATATATTTAAAATTTTAAAAATAAT
1 AAATATATATTTAAAATTTTAAAAATAAT
7547151 ATTTAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 7 0.24
33 3 0.10
34 19 0.66
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (32 bp):
AAATATATATTTAAAATTTTAAAAATAATTTC
Found at i:7547154 original size:21 final size:21
Alignment explanation
Indices: 7547122--7547182 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
7547112 AAATAATTTC
*
7547122 AAATATATATTTAAAATTTTAA
1 AAATA-ATATTTAAAATTTAAA
7547144 AAATAATATTTAAAATTTAAA
1 AAATAATATTTAAAATTTAAA
*
7547165 AAATTTATATTATAAAAT
1 AAA-TAATATT-TAAAAT
7547183 ATTTCAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 18 0.51
22 11 0.31
23 6 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATAATATTTAAAATTTAAA
Found at i:7547236 original size:9 final size:9
Alignment explanation
Indices: 7547222--7547254 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
7547212 AATTAATAAT
7547222 AAATAAATA
1 AAATAAATA
7547231 AAATAAATA
1 AAATAAATA
7547240 AACA-AAATA
1 AA-ATAAATA
7547249 AAATAA
1 AAATAA
7547255 GAAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.05
9 20 0.91
10 1 0.05
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAATAAATA
Found at i:7547259 original size:13 final size:13
Alignment explanation
Indices: 7547219--7547250 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7547209 TAAAATTAAT
*
7547219 AATAAATAAATAA
1 AATAAATAAACAA
7547232 AATAAATAAACAA
1 AATAAATAAACAA
7547245 AATAAA
1 AATAAA
7547251 ATAAGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (13 bp):
AATAAATAAACAA
Found at i:7547262 original size:14 final size:14
Alignment explanation
Indices: 7547222--7547254 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
7547212 AATTAATAAT
*
7547222 AAATAAATAAAAT-
1 AAATAAACAAAATA
7547235 AAATAAACAAAATA
1 AAATAAACAAAATA
7547249 AAATAA
1 AAATAA
7547255 GAAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (14 bp):
AAATAAACAAAATA
Found at i:7548446 original size:8 final size:8
Alignment explanation
Indices: 7548429--7548464 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
7548419 CTTTCTTTTC
7548429 TTTT-CTT
1 TTTTACTT
7548436 TTTTACTTT
1 TTTTAC-TT
7548445 TTTTACTT
1 TTTTACTT
7548453 TTTTACTT
1 TTTTACTT
7548461 TTTT
1 TTTT
7548465 GACTATCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 4 0.15
8 15 0.56
9 8 0.30
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTACTT
Found at i:7548446 original size:9 final size:9
Alignment explanation
Indices: 7548434--7548464 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
7548424 TTTTCTTTTC
7548434 TTTTTTACT
1 TTTTTTACT
7548443 TTTTTTAC-
1 TTTTTTACT
7548451 TTTTTTACT
1 TTTTTTACT
7548460 TTTTT
1 TTTTT
7548465 GACTATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTACT
Found at i:7548455 original size:17 final size:17
Alignment explanation
Indices: 7548423--7548464 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
7548413 CTGTTACTTT
*
7548423 CTTTTCTTTTCTTTTTTA
1 CTTTT-TTTACTTTTTTA
7548441 CTTTTTTTACTTTTTTA
1 CTTTTTTTACTTTTTTA
7548458 CTTTTTT
1 CTTTTTT
7548465 GACTATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (17 bp):
CTTTTTTTACTTTTTTA
Found at i:7548512 original size:18 final size:17
Alignment explanation
Indices: 7548477--7548531 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
7548467 CTATCTTTTC
*
7548477 TTTTCTTTTTTTTATATT
1 TTTTCTTTTATTT-TATT
7548495 TTTTCTTTTATGTTTATT
1 TTTTCTTTTAT-TTTATT
*
7548513 TATTTATTTTATTTTATT
1 T-TTTCTTTTATTTTATT
7548531 T
1 T
7548532 ATCTTATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 22 0.67
19 11 0.33
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTCTTTTATTTTATT
Found at i:7548518 original size:14 final size:13
Alignment explanation
Indices: 7548501--7548542 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
7548491 TATTTTTTCT
7548501 TTTATGTTTATTTA
1 TTTAT-TTTATTTA
7548515 TTTATTTTATTTTA
1 TTTATTTTA-TTTA
*
7548529 TTTATCTTATTTA
1 TTTATTTTATTTA
7548542 T
1 T
7548543 GATTAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:7548525 original size:9 final size:9
Alignment explanation
Indices: 7548501--7548542 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
7548491 TATTTTTTCT
7548501 TTTATGTTTA
1 TTTAT-TTTA
7548511 TTTA-TTTA
1 TTTATTTTA
7548519 TTTTATTTTA
1 -TTTATTTTA
*
7548529 TTTATCTTA
1 TTTATTTTA
7548538 TTTAT
1 TTTAT
7548543 GATTAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 4 0.14
9 17 0.59
10 8 0.28
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTATTTTA
Found at i:7548532 original size:18 final size:18
Alignment explanation
Indices: 7548482--7548540 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
7548472 TTTTCTTTTC
* *
7548482 TTTT-TTTTATATTTTTTC
1 TTTTATTTTAT-TTATTTA
7548500 TTTTATGTTTATTTATTTA
1 TTTTAT-TTTATTTATTTA
7548519 TTTTATTTTATTTATCTTA
1 TTTTATTTTATTTAT-TTA
7548538 TTT
1 TTT
7548541 ATGATTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
18 13 0.36
19 18 0.50
20 5 0.14
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTATTTTATTTATTTA
Found at i:7548581 original size:9 final size:9
Alignment explanation
Indices: 7548569--7548611 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
7548559 CATAAAATGT
*
7548569 ATATTTGAA
1 ATATTTTAA
7548578 ATATTTTATAA
1 ATA-TTT-TAA
7548589 TATATTTTAA
1 -ATATTTTAA
7548599 ATATTTTAA
1 ATATTTTAA
7548608 ATAT
1 ATAT
7548612 ATATTTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 16 0.53
10 6 0.20
11 5 0.17
12 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
ATATTTTAA
Found at i:7548592 original size:21 final size:20
Alignment explanation
Indices: 7548568--7548613 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
7548558 ACATAAAATG
7548568 TATATTTGAAATATTTTATAA
1 TATATTTGAAATATTTTA-AA
*
7548589 TATATTTTAAATATTTTAAA
1 TATATTTGAAATATTTTAAA
7548609 TATAT
1 TATAT
7548614 ATTTTTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TATATTTGAAATATTTTAAA
Found at i:7548655 original size:20 final size:20
Alignment explanation
Indices: 7548616--7548670 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
7548606 AAATATATAT
7548616 TTTTAAAGTATT-TTTCTAAA
1 TTTTAAA-TATTATTTCTAAA
*
7548636 TTTTAAATATTATTTTTAAA
1 TTTTAAATATTATTTCTAAA
** *
7548656 AATTAAAAATTATTT
1 TTTTAAATATTATTT
7548671 AAAAACAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTTAAATATTATTTCTAAA
Found at i:7548685 original size:24 final size:24
Alignment explanation
Indices: 7548658--7548707 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
7548648 TTTTTAAAAA
7548658 TTAAAAAT-TATTTAAAAACAATAT
1 TTAAAAATATATTT-AAAACAATAT
*
7548682 TT-AAAATATATTTAAAATAATAT
1 TTAAAAATATATTTAAAACAATAT
7548705 TTA
1 TTA
7548708 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TTAAAAATATATTTAAAACAATAT
Found at i:7548687 original size:12 final size:11
Alignment explanation
Indices: 7548658--7548707 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 11
7548648 TTTTTAAAAA
*
7548658 TTAAAAATTAT
1 TTAAAAAATAT
7548669 TTAAAAACAATAT
1 TT-AAAA-AATAT
*
7548682 TTAAAATATAT
1 TTAAAAAATAT
7548693 TTAAAATAATAT
1 TTAAAA-AATAT
7548705 TTA
1 TTA
7548708 TTATTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
11 12 0.36
12 15 0.45
13 6 0.18
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAAAAAATAT
Found at i:7548687 original size:23 final size:22
Alignment explanation
Indices: 7548662--7548752 Score: 95
Period size: 19 Copynumber: 4.2 Consensus size: 22
7548652 TAAAAATTAA
*
7548662 AAATTATTTAAAAACAATATTT
1 AAATTATTTAAAAATAATATTT
7548684 AAAATATATTT-AAAATAATATTT
1 -AAAT-TATTTAAAAATAATATTT
7548707 --ATTATTTAAAAAT-ATATTT
1 AAATTATTTAAAAATAATATTT
7548726 -AA-TATTTAAAAAGTAATATTT
1 AAATTATTTAAAAA-TAATATTT
7548747 GAAATT
1 -AAATT
7548753 TAGAAAAATA
Statistics
Matches: 59, Mismatches: 1, Indels: 15
0.79 0.01 0.20
Matches are distributed among these distances:
19 21 0.36
20 9 0.15
21 6 0.10
23 17 0.29
24 6 0.10
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATTATTTAAAAATAATATTT
Found at i:7548724 original size:12 final size:12
Alignment explanation
Indices: 7548658--7548727 Score: 57
Period size: 11 Copynumber: 6.3 Consensus size: 12
7548648 TTTTTAAAAA
7548658 TTAAAAAT-TAT
1 TTAAAAATATAT
*
7548669 TTAAAAACAATAT
1 TTAAAAA-TATAT
7548682 TT-AAAATATAT
1 TTAAAAATATAT
7548693 TT-AAAATAATAT
1 TTAAAAAT-ATAT
7548705 TT----AT-TAT
1 TTAAAAATATAT
7548712 TTAAAAATATAT
1 TTAAAAATATAT
7548724 TTAA
1 TTAA
7548728 TATTTAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
7 5 0.10
9 2 0.04
11 20 0.41
12 17 0.35
13 5 0.10
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAAAAATATAT
Found at i:7548779 original size:34 final size:35
Alignment explanation
Indices: 7548687--7548811 Score: 107
Period size: 34 Copynumber: 3.5 Consensus size: 35
7548677 AATATTTAAA
**
7548687 ATATATTT-AAAATA-ATATTTATTATTTAAAAATAT
1 ATATATTTAAAAATATATATTTAAAATTT-AAAA-AT
*
7548722 ATTTAATATTTAAAAAGTA-ATATTTGAAATTTAGAAAA-
1 A--T-ATATTTAAAAA-TATATATTTAAAATTTA-AAAAT
7548760 ATA-ATTTAAAAATATATATTTAAAATTTAAAAAT
1 ATATATTTAAAAATATATATTTAAAATTTAAAAAT
7548794 ATATATATTATAAAATAT
1 ATATAT-TTA-AAAATAT
7548812 TTCAAATATA
Statistics
Matches: 75, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
33 6 0.08
34 25 0.33
35 4 0.05
36 4 0.05
37 8 0.11
38 7 0.09
39 6 0.08
40 15 0.20
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (35 bp):
ATATATTTAAAAATATATATTTAAAATTTAAAAAT
Found at i:7548797 original size:19 final size:19
Alignment explanation
Indices: 7548667--7548797 Score: 76
Period size: 19 Copynumber: 6.7 Consensus size: 19
7548657 ATTAAAAATT
*
7548667 ATTTAAAAACAATATTTAAAA
1 ATTTAAAAA-TATATTT-AAA
* **
7548688 TATATTTAAAATAATATTTATT
1 -AT-TTAAAAAT-ATATTTAAA
*
7548710 ATTTAAAAATATATTTAAT
1 ATTTAAAAATATATTTAAA
*
7548729 ATTTAAAAAGTAATATTTGAA
1 ATTTAAAAA-T-ATATTTAAA
7548750 ATTTAGAAAA-ATAATTT--A
1 ATTTA-AAAATAT-ATTTAAA
*
7548768 A---AAATATATATTTAAA
1 ATTTAAAAATATATTTAAA
7548784 ATTTAAAAATATAT
1 ATTTAAAAATATAT
7548798 ATATTATAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 27
0.70 0.08 0.22
Matches are distributed among these distances:
14 7 0.08
15 3 0.03
16 2 0.02
18 2 0.02
19 28 0.32
20 12 0.14
21 14 0.16
22 7 0.08
23 12 0.14
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (19 bp):
ATTTAAAAATATATTTAAA
Found at i:7548821 original size:23 final size:22
Alignment explanation
Indices: 7548762--7548809 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 22
7548752 TTAGAAAAAT
7548762 AATTT-AAAAATATATATTTAA
1 AATTTAAAAAATATATATTTAA
7548783 AATTTAAAAATATATATATTATAA
1 AATTTAAAAA-ATATATATT-TAA
7548807 AAT
1 AAT
7548810 ATTTCAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 5 0.21
22 4 0.17
23 9 0.38
24 6 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTAAAAAATATATATTTAA
Found at i:7548900 original size:13 final size:14
Alignment explanation
Indices: 7548837--7548900 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 14
7548827 CAAGTTTTTC
*
7548837 ATAAAAAAATAAAG
1 ATAAAAAAAAAAAG
* * *
7548851 ATAAAAGACAAAAC
1 ATAAAAAAAAAAAG
*
7548865 ATAAAAAAAAAACG
1 ATAAAAAAAAAAAG
**
7548879 A-AAGTAAAAAAAG
1 ATAAAAAAAAAAAG
7548892 A-AAAAAAAA
1 ATAAAAAAAA
7548901 GTAACAGCAG
Statistics
Matches: 37, Mismatches: 13, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
13 16 0.43
14 21 0.57
ACGTcount: A:0.80, C:0.05, G:0.08, T:0.08
Consensus pattern (14 bp):
ATAAAAAAAAAAAG
Found at i:7549659 original size:22 final size:22
Alignment explanation
Indices: 7549599--7549660 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
7549589 TAAACACATA
* *
7549599 AATAAATAAAAATAATAATACT
1 AATAAAAAAAAAAAATAATACT
7549621 AATAAAAACATATAAAAATAATA-T
1 AATAAAAA-A-A-AAAAATAATACT
7549645 AATAAAAAAGAAAAAA
1 AATAAAAAA-AAAAAA
7549661 AAAAGAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 12 0.35
23 3 0.09
24 10 0.29
25 9 0.26
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (22 bp):
AATAAAAAAAAAAAATAATACT
Found at i:7549662 original size:25 final size:25
Alignment explanation
Indices: 7549606--7549663 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
7549596 ATAAATAAAT
*
7549606 AAAAATAATAATACTAATAAAAACA
1 AAAAAAAATAATACTAATAAAAACA
* * *
7549631 TATAAAAATAATA-TAATAAAAAAGA
1 AAAAAAAATAATACTAAT-AAAAACA
7549656 AAAAAAAA
1 AAAAAAAA
7549664 AGAAATTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (25 bp):
AAAAAAAATAATACTAATAAAAACA
Found at i:7552267 original size:22 final size:22
Alignment explanation
Indices: 7552219--7552261 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
7552209 TATTTAATTT
*
7552219 AAAAAATTTAATAATTATATTG
1 AAAAAATTTAATAATTATAGTG
7552241 AAAAAA-TTAATAATTA-AGTG
1 AAAAAATTTAATAATTATAGTG
7552261 A
1 A
7552262 CTAAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (22 bp):
AAAAAATTTAATAATTATAGTG
Found at i:7555131 original size:20 final size:21
Alignment explanation
Indices: 7555092--7555131 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7555082 CGTGTTTGCT
* *
7555092 TTCCGTTTAGCTCTTATGAGC
1 TTCCGTTTAACTCATATGAGC
7555113 TTCCG-TTAACTCATATGAG
1 TTCCGTTTAACTCATATGAG
7555132 TTTTAGTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (21 bp):
TTCCGTTTAACTCATATGAGC
Found at i:7555227 original size:39 final size:39
Alignment explanation
Indices: 7555173--7555272 Score: 146
Period size: 39 Copynumber: 2.6 Consensus size: 39
7555163 GCTTTAATGA
*
7555173 GCTTCAGTTAGCCTTCGGGCTTCCGTTTATCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
7555212 GCTTCAGTTAGCCTTCGGTCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* ** *
7555251 GATTCAACTAGACTTCGGGCTT
1 GCTTCAGTTAGCCTTCGGGCTT
7555273 TAGATCACGA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:7555920 original size:5 final size:5
Alignment explanation
Indices: 7555910--7555945 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
7555900 AACAAAATCG
* *
7555910 AACAA AACAA AACAA AACAG AACAA AACAA ATCAA A
1 AACAA AACAA AACAA AACAA AACAA AACAA AACAA A
7555946 CAGAGCAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.75, C:0.19, G:0.03, T:0.03
Consensus pattern (5 bp):
AACAA
Found at i:7555925 original size:20 final size:20
Alignment explanation
Indices: 7555900--7555949 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
7555890 ATGGTAGTGC
7555900 AACAAAATC-GAACAAAACAA
1 AACAAAA-CAGAACAAAACAA
7555920 AACAAAACAGAACAAAACAA
1 AACAAAACAGAACAAAACAA
*
7555940 ATC-AAACAGA
1 AACAAAACAGA
7555950 GCAGAACAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.70, C:0.20, G:0.06, T:0.04
Consensus pattern (20 bp):
AACAAAACAGAACAAAACAA
Found at i:7555942 original size:34 final size:34
Alignment explanation
Indices: 7555904--7555970 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
7555894 TAGTGCAACA
*
7555904 AAATCGAACAAAACAAAACAAAACAGAACAAAAC
1 AAATCAAACAAAACAAAACAAAACAGAACAAAAC
* * * * *
7555938 AAATCAAACAGAGCAGAACAGAACAGAAGAAAA
1 AAATCAAACAAAACAAAACAAAACAGAACAAAA
7555971 TAGAAAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.67, C:0.18, G:0.12, T:0.03
Consensus pattern (34 bp):
AAATCAAACAAAACAAAACAAAACAGAACAAAAC
Found at i:7557387 original size:260 final size:260
Alignment explanation
Indices: 7556904--7557388 Score: 717
Period size: 260 Copynumber: 1.9 Consensus size: 260
7556894 AATGGATAAT
* *
7556904 AAGATTCTCTTGTCTCGAAGAAATACAATATCACATCCAACACGTAGGACACGATATTTCAACCT
1 AAGATTCTCTTGTCTCGAAGAAATAAAATATCACATCCAACACGTAGGACACAATATTTCAACCT
* **
7556969 TCGATACCAAAATCGTCTCATAATTTCCAAAATTTATGTATTGAAATTTTAAGAAGGATATCCGA
66 TCGATACCAAAATCGTCTCATAATTTCCAAAATTTATGCATTGAAACCTTAAGAAGGATATCCGA
**
7557034 TCGTTCGGTCAAACGATAAATCAAAACCCAGTACGTAGGGCACAATTTCTCAAAAATTTCAAACA
131 TCGTTCGGTCAAACGATAAATCAAAACCCAACACGTAGGGCACAATTTCTCAAAAATTTCAAACA
* *
7557099 ACGGAACATTGCCTCTTTTTTAAAAAAAAGGGCCTTGAGCAAACATGCAATAATATGAAACGATC
196 ACGGAACATTGCCTCTTATGTAAAAAAAAGGGCCTTGAGCAAACATGCAATAATATGAAACGATC
* *
7557164 AAGATTCTCTTGTTTTGAAGAAATAAAATATCACATCCAACACGTAGGACACAATATTTCAAACC
1 AAGATTCTCTTGTCTCGAAGAAATAAAATATCACATCCAACACGTAGGACACAATATTTC-AACC
* * **
7557229 TTCGATATCAAAATCGTCTCATAATTTCC-AAATTTATGCATTGAAGCCTTAAGAAGGATATTTG
65 TTCGATACCAAAATCGTCTCATAATTTCCAAAATTTATGCATTGAAACCTTAAGAAGGATATCCG
* * *
7557293 GTCGTTCGGTCAATCGATAAATCGAAAA-CCAACACGTAGGGCACAATTTCCTC-GAAATTTCCA
130 ATCGTTCGGTCAAACGATAAATC-AAAACCCAACACGTAGGGCACAATTT-CTCAAAAATTT-CA
* *
7557356 AACAACGGAATATTTCCT-TTATGTCAAAAAAAA
192 AACAACGGAACATTGCCTCTTATGT-AAAAAAAA
7557389 TCCCTTTTTT
Statistics
Matches: 200, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
260 135 0.68
261 65 0.32
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.28
Consensus pattern (260 bp):
AAGATTCTCTTGTCTCGAAGAAATAAAATATCACATCCAACACGTAGGACACAATATTTCAACCT
TCGATACCAAAATCGTCTCATAATTTCCAAAATTTATGCATTGAAACCTTAAGAAGGATATCCGA
TCGTTCGGTCAAACGATAAATCAAAACCCAACACGTAGGGCACAATTTCTCAAAAATTTCAAACA
ACGGAACATTGCCTCTTATGTAAAAAAAAGGGCCTTGAGCAAACATGCAATAATATGAAACGATC
Found at i:7557714 original size:23 final size:23
Alignment explanation
Indices: 7557669--7557720 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
7557659 AAATGGTGAG
* * *
7557669 AATAATAATGATAATAACCATAT
1 AATAAGAATGACAATAACAATAT
*
7557692 AATAAGAATGACAATAATAATAT
1 AATAAGAATGACAATAACAATAT
*
7557715 TATAAG
1 AATAAG
7557721 TGAAAACCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.29
Consensus pattern (23 bp):
AATAAGAATGACAATAACAATAT
Found at i:7559767 original size:30 final size:30
Alignment explanation
Indices: 7559731--7559793 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
7559721 ACTTATTTTA
7559731 TTGTTAACTTTGTTATTATTTTAAAGACAT
1 TTGTTAACTTTGTTATTATTTTAAAGACAT
* * *
7559761 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAACTTTGTTATTATTTTAAAGACAT
7559791 TTG
1 TTG
7559794 CTTGTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTTAACTTTGTTATTATTTTAAAGACAT
Found at i:7562285 original size:52 final size:52
Alignment explanation
Indices: 7562228--7562331 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
7562218 TATAGTTTAA
7562228 CCTATTTTTAAATAGTAAAACAAGTCCTGCGAAGTCAATCCAAATTTAAACT
1 CCTATTTTTAAATAGTAAAACAAGTCCTGCGAAGTCAATCCAAATTTAAACT
*
7562280 CCTATTTTTAAATAGTAAAACAAGTCCTGTGAAGTCAATCCAAATTTAAACT
1 CCTATTTTTAAATAGTAAAACAAGTCCTGCGAAGTCAATCCAAATTTAAACT
7562332 ATCTAAACCC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (52 bp):
CCTATTTTTAAATAGTAAAACAAGTCCTGCGAAGTCAATCCAAATTTAAACT
Found at i:7562565 original size:21 final size:21
Alignment explanation
Indices: 7562541--7562609 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
7562531 ATTTTTTATA
7562541 AAAATATTTAAAATTTAAAAG
1 AAAATATTTAAAATTTAAAAG
* *
7562562 AAAATATATAAAAAATTT-ATA-
1 AAAATAT-T-TAAAATTTAAAAG
*
7562583 AAAAT-TTTAAAATATAAAAG
1 AAAATATTTAAAATTTAAAAG
7562603 AAAATAT
1 AAAATAT
7562610 AAATTATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 6 0.16
19 3 0.08
20 6 0.16
21 13 0.34
22 3 0.08
23 7 0.18
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (21 bp):
AAAATATTTAAAATTTAAAAG
Found at i:7562624 original size:42 final size:42
Alignment explanation
Indices: 7562535--7562631 Score: 137
Period size: 41 Copynumber: 2.3 Consensus size: 42
7562525 TAATCTATTT
*
7562535 TTTATAAAAATATTTAAAATTTAAAAGAAAATATATAAAAAA
1 TTTATAAAAATATTTAAAATATAAAAGAAAATATATAAAAAA
7562577 TTTATAAAAAT-TTTAAAATATAAAAGAAAATATA-AATTATAAA
1 TTTATAAAAATATTTAAAATATAAAAGAAAATATATAA--A-AAA
7562620 -TTATAAAAATAT
1 TTTATAAAAATAT
7562632 GTGTATCTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
40 2 0.04
41 22 0.44
42 22 0.44
43 4 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (42 bp):
TTTATAAAAATATTTAAAATATAAAAGAAAATATATAAAAAA
Found at i:7564805 original size:9 final size:9
Alignment explanation
Indices: 7564791--7564834 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
7564781 TTAATCATAA
7564791 AAAATAAAT
1 AAAATAAAT
7564800 AAAATAAAAT
1 AAAAT-AAAT
*
7564810 AAAATAAAC
1 AAAATAAAT
7564819 AAAATAAAT
1 AAAATAAAT
7564828 -AAATAAA
1 AAAATAAA
7564835 GATAAAAGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
8 7 0.22
9 16 0.50
10 9 0.28
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:7564806 original size:5 final size:5
Alignment explanation
Indices: 7564791--7564903 Score: 64
Period size: 5 Copynumber: 23.8 Consensus size: 5
7564781 TTAATCATAA
*
7564791 AAAAT -AAAT AAAAT AAAAT AAAAT -AAAC AAAAT -AAAT -AAAT AAAGAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT
* * * * *
7564838 AAAAG ACAA- AACAT -AAA- AAAAT AAAAAT AAACT AAAGT AAAA- AAAAGT
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA-T
* *
7564886 AAAA- AAAAA AAAAG AAAA
1 AAAAT AAAAT AAAAT AAAA
7564904 AGAAAAAGGA
Statistics
Matches: 86, Mismatches: 11, Indels: 22
0.72 0.09 0.18
Matches are distributed among these distances:
4 30 0.35
5 42 0.49
6 14 0.16
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (5 bp):
AAAAT
Found at i:7564807 original size:28 final size:27
Alignment explanation
Indices: 7564793--7564873 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 27
7564783 AATCATAAAA
7564793 AATAAATAAAATAAAATAAAATAAACAA
1 AATAAAT-AAATAAAATAAAATAAACAA
*
7564821 AATAAATAAATAAAGATAAAAGACAA-AA
1 AATAAATAAATAAA-ATAAAATA-AACAA
* * *
7564849 CATAAAAAAATAAAAATAAACTAAA
1 AATAAATAAAT-AAAATAAAATAAA
7564874 GTAAAAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
27 9 0.20
28 31 0.69
29 5 0.11
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (27 bp):
AATAAATAAATAAAATAAAATAAACAA
Found at i:7564808 original size:14 final size:14
Alignment explanation
Indices: 7564791--7564896 Score: 73
Period size: 14 Copynumber: 7.6 Consensus size: 14
7564781 TTAATCATAA
7564791 AAAAT-AAATAAAAT
1 AAAATAAAAT-AAAT
*
7564805 AAAATAAAATAAAC
1 AAAATAAAATAAAT
7564819 AAAAT-AAATAAAT
1 AAAATAAAATAAAT
*
7564832 AAAGATAAAAGACAA-
1 AAA-ATAAAATA-AAT
*
7564847 AACATAAAA-AAAT
1 AAAATAAAATAAAT
*
7564860 AAAAATAAACTAAAGT
1 -AAAATAAAATAAA-T
7564876 AAAA-AAAAGTAAA-
1 AAAATAAAA-TAAAT
7564889 AAAA-AAAA
1 AAAATAAAA
7564897 AAGAAAAAGA
Statistics
Matches: 76, Mismatches: 7, Indels: 19
0.75 0.07 0.19
Matches are distributed among these distances:
12 2 0.03
13 19 0.25
14 31 0.41
15 21 0.28
16 3 0.04
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:7564904 original size:15 final size:16
Alignment explanation
Indices: 7564871--7564910 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
7564861 AAAATAAACT
* *
7564871 AAAGTAAAAAAAAGTA
1 AAAGAAAAAAAAAGAA
7564887 AAA-AAAAAAAAAGAA
1 AAAGAAAAAAAAAGAA
7564902 AAAGAAAAA
1 AAAGAAAAA
7564911 GGAAGTAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (16 bp):
AAAGAAAAAAAAAGAA
Found at i:7565367 original size:21 final size:21
Alignment explanation
Indices: 7565342--7565381 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7565332 ATATTTAATT
*
7565342 TTGAAAAATTTAATAATTATA
1 TTGAAAAAATTAATAATTATA
7565363 TTGAAAAAATTAATAATTA
1 TTGAAAAAATTAATAATTA
7565382 AGTGACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
TTGAAAAAATTAATAATTATA
Found at i:7565392 original size:22 final size:22
Alignment explanation
Indices: 7565345--7565386 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
7565335 TTTAATTTTG
*
7565345 AAAAATTTAATAATTATATTGA
1 AAAAATTTAATAATTATAGTGA
7565367 AAAAA-TTAATAATTA-AGTGA
1 AAAAATTTAATAATTATAGTGA
7565387 CTAAAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (22 bp):
AAAAATTTAATAATTATAGTGA
Found at i:7566225 original size:5 final size:5
Alignment explanation
Indices: 7566189--7566224 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
7566179 AACAAAATCG
* *
7566189 AACAA AACAA AACAA AGCAA AACAA AACAA ATCAA A
1 AACAA AACAA AACAA AACAA AACAA AACAA AACAA A
7566225 TAGAGCAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.75, C:0.19, G:0.03, T:0.03
Consensus pattern (5 bp):
AACAA
Found at i:7566655 original size:20 final size:20
Alignment explanation
Indices: 7566632--7566691 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
7566622 AAATTTTAGG
*
7566632 ATTTATTTC-CATCTATCTTT
1 ATTTATTTCTAAT-TATCTTT
*
7566652 ATTTATCTCTAATTATCTTT
1 ATTTATTTCTAATTATCTTT
* *
7566672 ATTTATTTGTATTTATCTTT
1 ATTTATTTCTAATTATCTTT
7566692 TAGAATTTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 32 0.94
21 2 0.06
ACGTcount: A:0.22, C:0.13, G:0.02, T:0.63
Consensus pattern (20 bp):
ATTTATTTCTAATTATCTTT
Found at i:7566677 original size:10 final size:10
Alignment explanation
Indices: 7566645--7566691 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
7566635 TATTTCCATC
7566645 TATCTTTATT
1 TATCTTTATT
* *
7566655 TATCTCTAAT
1 TATCTTTATT
7566665 TATCTTTATT
1 TATCTTTATT
7566675 TAT-TTGTATT
1 TATCTT-TATT
7566685 TATCTTT
1 TATCTTT
7566692 TAGAATTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.87
11 2 0.06
ACGTcount: A:0.21, C:0.11, G:0.02, T:0.66
Consensus pattern (10 bp):
TATCTTTATT
Found at i:7567432 original size:17 final size:18
Alignment explanation
Indices: 7567400--7567433 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7567390 TTTTCCTCAT
7567400 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
7567418 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
7567434 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:7568569 original size:10 final size:10
Alignment explanation
Indices: 7568554--7568617 Score: 55
Period size: 9 Copynumber: 6.7 Consensus size: 10
7568544 AATTTAAAGG
7568554 AAAATATATA
1 AAAATATATA
7568564 AAAATATATA
1 AAAATATATA
* *
7568574 TAAAAT-TTTT
1 -AAAATATATA
7568584 AAAATATA-A
1 AAAATATATA
*
7568593 AAAAAAT-TA
1 AAAATATATA
*
7568602 TAAAT-TATA
1 AAAATATATA
7568611 AAAATAT
1 AAAATAT
7568618 GTGTATCTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
8 1 0.02
9 21 0.51
10 14 0.34
11 5 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATATATA
Found at i:7569183 original size:17 final size:17
Alignment explanation
Indices: 7569161--7569209 Score: 89
Period size: 17 Copynumber: 2.9 Consensus size: 17
7569151 AGTATTGAGG
7569161 ACCAAATATATTATTAT
1 ACCAAATATATTATTAT
7569178 ACCAAATATATTATTAT
1 ACCAAATATATTATTAT
*
7569195 ACCAAATGTATTATT
1 ACCAAATATATTATT
7569210 GTATTCTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (17 bp):
ACCAAATATATTATTAT
Found at i:7570764 original size:55 final size:55
Alignment explanation
Indices: 7570573--7570739 Score: 307
Period size: 57 Copynumber: 3.0 Consensus size: 55
7570563 AGAAAATAAG
7570573 AAGAAATAATGAAAATAAAGGAAAAAAGAAAAAAAATTATTGTTACAAATTTAAC
1 AAGAAATAATGAAAATAAAGGAAAAAAGAAAAAAAATTATTGTTACAAATTTAAC
7570628 AAGAAATAATGAAAATAAAGGAAAAAAGAATAAACAAATTATTGTTACAAATTTAAC
1 AAGAAATAATGAAAATAAAGGAAAAAAGAA-AAA-AAATTATTGTTACAAATTTAAC
*
7570685 AAGAAATAATGAAAATAAAGGAAAAAAGAAAAAAAATTATTGTTAAAAATTTAAC
1 AAGAAATAATGAAAATAAAGGAAAAAAGAAAAAAAATTATTGTTACAAATTTAAC
7570740 CACAATTAAT
Statistics
Matches: 109, Mismatches: 1, Indels: 4
0.96 0.01 0.04
Matches are distributed among these distances:
55 51 0.47
56 6 0.06
57 52 0.48
ACGTcount: A:0.63, C:0.04, G:0.11, T:0.22
Consensus pattern (55 bp):
AAGAAATAATGAAAATAAAGGAAAAAAGAAAAAAAATTATTGTTACAAATTTAAC
Found at i:7574398 original size:27 final size:26
Alignment explanation
Indices: 7574325--7574409 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 26
7574315 ATATTTTTTT
* *
7574325 TATAAAAAAATTTAAAATTTAAAAGAAAA
1 TATAAAAAAATATAAAA-TT-ATA-AAAA
* * *
7574354 TATATAAAAATATAAAATTTTTAAAA
1 TATAAAAAAATATAAAATTATAAAAA
7574380 TATAAAAGAAAT-TATAAATTATAAAAA
1 TATAAAA-AAATATA-AAATTATAAAAA
7574407 TAT
1 TAT
7574410 GTGTATCTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 12 0.26
27 17 0.37
28 2 0.04
29 15 0.33
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
TATAAAAAAATATAAAATTATAAAAA
Found at i:7574404 original size:26 final size:26
Alignment explanation
Indices: 7574325--7574405 Score: 67
Period size: 26 Copynumber: 3.0 Consensus size: 26
7574315 ATATTTTTTT
* *
7574325 TATAAAAAAATTTAAAATTTAAAAGAAAA
1 TATAAAAAAATATAAAATTT---ATAAAA
* *
7574354 TATATAAAAATATAAAATTTTTAAAA
1 TATAAAAAAATATAAAATTTATAAAA
7574380 TATAAAAGAAAT-TATAAA-TTATAAAA
1 TATAAAA-AAATATA-AAATTTATAAAA
7574406 ATATGTGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
26 19 0.43
27 7 0.16
29 18 0.41
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.32
Consensus pattern (26 bp):
TATAAAAAAATATAAAATTTATAAAA
Found at i:7576829 original size:70 final size:70
Alignment explanation
Indices: 7576746--7576888 Score: 286
Period size: 70 Copynumber: 2.0 Consensus size: 70
7576736 TAATAACTAT
7576746 AATTAATTTGCTCCTAATTTCAATATACATATTAGATACATTTTTAAAATAATGTTTTTCTTTCT
1 AATTAATTTGCTCCTAATTTCAATATACATATTAGATACATTTTTAAAATAATGTTTTTCTTTCT
7576811 TATAC
66 TATAC
7576816 AATTAATTTGCTCCTAATTTCAATATACATATTAGATACATTTTTAAAATAATGTTTTTCTTTCT
1 AATTAATTTGCTCCTAATTTCAATATACATATTAGATACATTTTTAAAATAATGTTTTTCTTTCT
7576881 TATAC
66 TATAC
7576886 AAT
1 AAT
7576889 ATCGAGGTAG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (70 bp):
AATTAATTTGCTCCTAATTTCAATATACATATTAGATACATTTTTAAAATAATGTTTTTCTTTCT
TATAC
Found at i:7579137 original size:15 final size:12
Alignment explanation
Indices: 7579101--7579133 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
7579091 ACATATTAAC
7579101 TAATAAATTTTA
1 TAATAAATTTTA
7579113 TAATAAATTTTA
1 TAATAAATTTTA
7579125 TAATAAATT
1 TAATAAATT
7579134 ATTTATACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TAATAAATTTTA
Found at i:7585903 original size:24 final size:24
Alignment explanation
Indices: 7585871--7585923 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
7585861 TAATTTGTGC
* *
7585871 ATATTAAAATAAAAACATATG-GAA
1 ATATCAAAAT-AAAACATATGAAAA
*
7585895 ATATCAAAATGAAACATATGAAAA
1 ATATCAAAATAAAACATATGAAAA
7585919 ATATC
1 ATATC
7585924 CAATTGGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.25
Consensus pattern (24 bp):
ATATCAAAATAAAACATATGAAAA
Found at i:7586334 original size:19 final size:20
Alignment explanation
Indices: 7586310--7586358 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
7586300 CTGTTACATA
7586310 GAAAATAACTT-GGTCAACG
1 GAAAATAACTTAGGTCAACG
7586329 GAAAATAACTTACAGGTCAACG
1 GAAAATAACTT--AGGTCAACG
*
7586351 TAAAATAA
1 GAAAATAA
7586359 GTCCATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 11 0.42
22 15 0.58
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.20
Consensus pattern (20 bp):
GAAAATAACTTAGGTCAACG
Found at i:7586526 original size:10 final size:10
Alignment explanation
Indices: 7586511--7586536 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7586501 TATTTTTATT
7586511 TTTAAAAATA
1 TTTAAAAATA
7586521 TTTAAAAATA
1 TTTAAAAATA
7586531 TTTAAA
1 TTTAAA
7586537 TATTAGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TTTAAAAATA
Found at i:7586581 original size:25 final size:27
Alignment explanation
Indices: 7586535--7586584 Score: 70
Period size: 25 Copynumber: 1.9 Consensus size: 27
7586525 AAAATATTTA
7586535 AATATTAGTATAAAATATTATATTTTT
1 AATATTAGTATAAAATATTATATTTTT
7586562 AATATTA-T-TAAACATA-TATATTT
1 AATATTAGTATAAA-ATATTATATTT
7586585 AATTATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 11 0.50
26 4 0.18
27 7 0.32
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (27 bp):
AATATTAGTATAAAATATTATATTTTT
Found at i:7588422 original size:90 final size:91
Alignment explanation
Indices: 7588319--7588548 Score: 281
Period size: 90 Copynumber: 2.5 Consensus size: 91
7588309 TTAAGTCCCA
* * *
7588319 TTTTTTTTTGCACTCAATTGGATACCTGAACTTTCAAGGTGTATCAAAAAGG-CTCTCAAACTTT
1 TTTTTTTTTGCACTCAATTGGATACTTGAACTTTCAAAGTGCATCAAAAAGGTC-CTCAAACTTT
* * * *
7588383 TT-AAAAAAA-GTAATTAAGCCTCTGC
65 TTCAAAAAAATGCAATTAACCCCCTAC
* * * *
7588408 TTTTTTTTTTGCACTCAATTGGGTACTTGAA-TATTCAAAATGCATTAAAAAGGTCCTCAAATTT
1 -TTTTTTTTTGCACTCAATTGGATACTTGAACT-TTCAAAGTGCATCAAAAAGGTCCTCAAACTT
7588472 TTTCAAAAAAATGCAATTAACCCCCTAC
64 TTTCAAAAAAATGCAATTAACCCCCTAC
* *
7588500 TTTTTTTTTGCACT-AACTGGATACTTGAACTGTCAAAGTGCATCAAAAA
1 TTTTTTTTTGCACTCAATTGGATACTTGAACTTTCAAAGTGCATCAAAAA
7588549 AGCCCTGTGA
Statistics
Matches: 119, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
89 1 0.01
90 83 0.70
91 23 0.19
92 12 0.10
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (91 bp):
TTTTTTTTTGCACTCAATTGGATACTTGAACTTTCAAAGTGCATCAAAAAGGTCCTCAAACTTTT
TCAAAAAAATGCAATTAACCCCCTAC
Found at i:7588719 original size:30 final size:29
Alignment explanation
Indices: 7588657--7588718 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
7588647 TAAAATCAAT
* **
7588657 AAAATATATAAAAATTATAAAATTTTATA
1 AAAATATAAAAAAATTATAAAATTGCATA
7588686 AAAATCATAAAAAAATTAT-AAATTGCATA
1 AAAAT-ATAAAAAAATTATAAAATTGCATA
7588715 AAAA
1 AAAA
7588719 AGGCCCTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (29 bp):
AAAATATAAAAAAATTATAAAATTGCATA
Found at i:7588938 original size:39 final size:40
Alignment explanation
Indices: 7588886--7588978 Score: 109
Period size: 39 Copynumber: 2.3 Consensus size: 40
7588876 GATACTATAA
7588886 TTTTTATATATTTT-TTACGAATCTTATATTTCTTTAC-ATT
1 TTTTTATA-ATTTTATTAC-AATCTTATATTTCTTTACTATT
* * *
7588926 TTTTTATAATTTTATTACAATTTTATATTTTTTTTCTATT
1 TTTTTATAATTTTATTACAATCTTATATTTCTTTACTATT
*
7588966 TTTATTAAAATTT
1 TTT-TTATAATTT
7588979 AATAATTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 20 0.43
40 18 0.39
41 8 0.17
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (40 bp):
TTTTTATAATTTTATTACAATCTTATATTTCTTTACTATT
Found at i:7588950 original size:29 final size:30
Alignment explanation
Indices: 7588918--7588978 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
7588908 CTTATATTTC
*
7588918 TTTACA-TTTTTTTATAATTTTATTACAAT
1 TTTACATTTTTTTTATAATTTTATTAAAAT
* * *
7588947 TTTATATTTTTTTTCTATTTTTATTAAAAT
1 TTTACATTTTTTTTATAATTTTATTAAAAT
7588977 TT
1 TT
7588979 AATAATTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (30 bp):
TTTACATTTTTTTTATAATTTTATTAAAAT
Found at i:7588955 original size:18 final size:17
Alignment explanation
Indices: 7588892--7588958 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 17
7588882 ATAATTTTTA
*
7588892 TATATTTTTTACGAATCT
1 TATATTTTTTAC-AATTT
*
7588910 TATATTTCTTTACATTTTTT
1 TATATTT-TTTACA--ATTT
7588930 TATAATTTTATTACAATTT
1 TAT-ATTTT-TTACAATTT
7588949 TATATTTTTT
1 TATATTTTTT
7588959 TTCTATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
17 2 0.05
18 13 0.32
19 11 0.27
20 6 0.15
21 9 0.22
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.64
Consensus pattern (17 bp):
TATATTTTTTACAATTT
Done.