Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 25 of 135
Found at i:10299640 original size:24 final size:26
Alignment explanation
Indices: 10299598--10299654 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
10299588 TAAAAGTTGA
10299598 TAAAAAAAATTTAATC-TTTAAAAAT
1 TAAAAAAAATTTAATCTTTTAAAAAT
10299623 TAAAAAAAA-TTAGA-CTTTTAAAAAT
1 TAAAAAAAATTTA-ATCTTTTAAAAAT
*
10299648 TTAAAAA
1 TAAAAAA
10299655 TAATATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (26 bp):
TAAAAAAAATTTAATCTTTTAAAAAT
Found at i:10320812 original size:30 final size:29
Alignment explanation
Indices: 10320778--10320838 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 29
10320768 GATAAAAATA
10320778 AATTTTAAT-TTTTAAAATGATTTATTTTAT
1 AATTTTAATATTTTAAAAT-A-TTATTTTAT
*
10320808 AATTTTAATAATTTTAATATATTATTTTAT
1 AATTTTAAT-ATTTTAAAATATTATTTTAT
10320838 A
1 A
10320839 TTATTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 19 0.68
31 1 0.04
32 8 0.29
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
AATTTTAATATTTTAAAATATTATTTTAT
Found at i:10321510 original size:39 final size:38
Alignment explanation
Indices: 10321435--10321525 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 38
10321425 AAGGAAAAGG
*
10321435 TATTCATGATTACCATCATGTCAATTTTTTAAAAAAAAA
1 TATTCATGATTA-CATCATGTCAATTTTCTAAAAAAAAA
* * ** *
10321474 TATTCATAATTACATCATGTCAGTTTTCCTCGAAAAATA
1 TATTCATGATTACATCATGTCAATTTT-CTAAAAAAAAA
10321513 TATTCATGATTAC
1 TATTCATGATTAC
10321526 CACGTATATA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 14 0.32
39 30 0.68
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (38 bp):
TATTCATGATTACATCATGTCAATTTTCTAAAAAAAAA
Found at i:10322800 original size:52 final size:52
Alignment explanation
Indices: 10322738--10322840 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
10322728 ATTGCATGGC
10322738 CGACACCCCCTGTTTCA-AAAAATAATTTCAAAATTTTTTGGTGTTGGCCATT
1 CGACACCCCCTGTTTCAGAAAAA-AATTTCAAAATTTTTTGGTGTTGGCCATT
* *
10322790 CGACACCCCCTGTTTGAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCCAT
1 CGACACCCCCTGTTTCAGAAAAAAATTTCAAAATTTTTTGGTGTTGGCCAT
10322841 CAAATGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 43 0.90
53 5 0.10
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (52 bp):
CGACACCCCCTGTTTCAGAAAAAAATTTCAAAATTTTTTGGTGTTGGCCATT
Found at i:10322901 original size:58 final size:59
Alignment explanation
Indices: 10322790--10323157 Score: 372
Period size: 58 Copynumber: 6.1 Consensus size: 59
10322780 GTTGGCCATT
*
10322790 CGACACCCCCTGTTT-GAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAAATGGC
1 CGACACCCCCTTTTTCGAGAAAAAAATTTC-AATTTTTTTGGTGTTGGCCATCAAATGGC
* * *
10322849 CAACACCCCCTTTTCTCGAGAAAAAAATTGC-A-TTTTTGGGTGTTGGCCATCAAATGGC
1 CGACACCCCCTTTT-TCGAGAAAAAAATTTCAATTTTTTTGGTGTTGGCCATCAAATGGC
* * *
10322907 CGACACCCTCTATTTC-AGAAAAAAA-TTCAAATTTTTTTGGTGTTAGCCATCAAATGGC
1 CGACACCCCCTTTTTCGAGAAAAAAATTTC-AATTTTTTTGGTGTTGGCCATCAAATGGC
* * * * * * *
10322965 TGACACCCCCTGTTCTCGAGAAAAAAATTAC-A-TTTTTGGGTGTTGGTCATTACATGGC
1 CGACACCCCCT-TTTTCGAGAAAAAAATTTCAATTTTTTTGGTGTTGGCCATCAAATGGC
* * *
10323023 CGACACCCCCTATTTTCAAGAAAAAAATTTCAAATTTTTTTTGTGTTGGCCATCAAATGGT
1 CGACACCCCCT-TTTTCGAGAAAAAAATTTC-AATTTTTTTGGTGTTGGCCATCAAATGGC
* * * *
10323084 CGACACTCCCTTTTCTCCAAAAAAAAATTTAAATTTTTTTCGTGTTGTGTGTTGGCCATCAAATG
1 CGACACCCCCTTTT-TCGAGAAAAAAATTTCAA---TTTT--T-TTG-GTGTTGGCCATCAAATG
10323149 GC
58 GC
10323151 CGACACC
1 CGACACC
10323158 AACTTCTCCT
Statistics
Matches: 252, Mismatches: 38, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
55 2 0.01
56 9 0.04
57 3 0.01
58 116 0.46
59 17 0.07
60 16 0.06
61 58 0.23
63 4 0.02
65 1 0.00
66 2 0.01
67 24 0.10
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (59 bp):
CGACACCCCCTTTTTCGAGAAAAAAATTTCAATTTTTTTGGTGTTGGCCATCAAATGGC
Found at i:10322942 original size:116 final size:117
Alignment explanation
Indices: 10322790--10323157 Score: 477
Period size: 116 Copynumber: 3.1 Consensus size: 117
10322780 GTTGGCCATT
* * *
10322790 CGACACCCCCTGTTTGAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCAACAC
1 CGACACCCCCTATTTCAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACAC
*
10322855 CCCCTTTTCTCGAGAAAAAAATTGCATTTTTGGGTGTTGGCCATCAAATGGC
66 CCCCTTTTCTCGAGAAAAAAATTACATTTTTGGGTGTTGGCCATCAAATGGC
* * *
10322907 CGACACCCTCTATTTCAGAAAAAAA-TTCAAATTTTTTTGGTGTTAGCCATCAAATGGCTGACAC
1 CGACACCCCCTATTTCAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACAC
* * * *
10322971 CCCCTGTTCTCGAGAAAAAAATTACATTTTTGGGTGTTGGTCATTACATGGC
66 CCCCTTTTCTCGAGAAAAAAATTACATTTTTGGGTGTTGGCCATCAAATGGC
* *
10323023 CGACACCCCCTATTTTCAAGAAAAAAATTTCAAATTTTTTTTGTGTTGGCCATCAAATGGTCGAC
1 CGACACCCCCTA-TTTC-AGAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGAC
* * * *
10323088 ACTCCCTTTTCTCCAAAAAAAAATTTAAATTTTTTTCGTGTTGTGTGTTGGCCATCAAATGGC
64 ACCCCCTTTTCTCGAGAAAAAAA-TTACA---TTTT--TG--G-GTGTTGGCCATCAAATGGC
10323151 CGACACC
1 CGACACC
10323158 AACTTCTCCT
Statistics
Matches: 215, Mismatches: 24, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
116 94 0.44
117 26 0.12
118 9 0.04
119 52 0.24
120 4 0.02
123 4 0.02
125 2 0.01
127 1 0.00
128 23 0.11
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (117 bp):
CGACACCCCCTATTTCAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACAC
CCCCTTTTCTCGAGAAAAAAATTACATTTTTGGGTGTTGGCCATCAAATGGC
Found at i:10326901 original size:12 final size:12
Alignment explanation
Indices: 10326884--10326910 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10326874 TATATTTGTG
10326884 TAAAAATTAATT
1 TAAAAATTAATT
10326896 TAAAAATTAATT
1 TAAAAATTAATT
10326908 TAA
1 TAA
10326911 GTTGAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAAATTAATT
Found at i:10327712 original size:25 final size:25
Alignment explanation
Indices: 10327684--10327790 Score: 116
Period size: 25 Copynumber: 4.4 Consensus size: 25
10327674 ACCAAAGTAC
10327684 TAACAGAGAGCACACACAGTGCTAA
1 TAACAGAGAGCACACACAGTGCTAA
* * *
10327709 TAACAGAGAGTACACAAAGTACTAA
1 TAACAGAGAGCACACACAGTGCTAA
10327734 T--CAGAGAGCACACACAGTGCTAA
1 TAACAGAGAGCACACACAGTGCTAA
* * *
10327757 TAACAAAGAGTACGAAAC-GTGCT-A
1 TAACAGAGAGCAC-ACACAGTGCTAA
10327781 -AACAGAGAGC
1 TAACAGAGAGC
10327791 TCGCTAGTGT
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
23 28 0.41
24 1 0.01
25 36 0.53
26 3 0.04
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.13
Consensus pattern (25 bp):
TAACAGAGAGCACACACAGTGCTAA
Found at i:10327723 original size:23 final size:23
Alignment explanation
Indices: 10327697--10327769 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
10327687 CAGAGAGCAC
10327697 ACACAGTGCTAATAACAGAGAGT
1 ACACAGTGCTAATAACAGAGAGT
* *
10327720 ACACAAAGTACTAAT--CAGAGAGCAC
1 ACAC--AGTGCTAATAACAGAGAG--T
*
10327745 ACACAGTGCTAATAACAAAGAGT
1 ACACAGTGCTAATAACAGAGAGT
10327768 AC
1 AC
10327770 GAAACGTGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
23 21 0.54
25 18 0.46
ACGTcount: A:0.47, C:0.21, G:0.18, T:0.15
Consensus pattern (23 bp):
ACACAGTGCTAATAACAGAGAGT
Found at i:10327752 original size:48 final size:46
Alignment explanation
Indices: 10327664--10327790 Score: 191
Period size: 48 Copynumber: 2.7 Consensus size: 46
10327654 ATACGGAACA
10327664 AACAGAGAGTACCAAAGTACTAACAGAGAGCACACACAGTGCTAAT
1 AACAGAGAGTACCAAAGTACTAACAGAGAGCACACACAGTGCTAAT
10327710 AACAGAGAGTACACAAAGTACTAATCAGAGAGCACACACAGTGCTAAT
1 AACAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACACACAGTGCTAAT
* * *
10327758 AACAAAGAGTACGAAACGTGCTAAACAGAGAGC
1 AACAGAGAGTACCAAA-GTACT-AACAGAGAGC
10327791 TCGCTAGTGT
Statistics
Matches: 74, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
46 12 0.16
47 14 0.19
48 46 0.62
49 2 0.03
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.13
Consensus pattern (46 bp):
AACAGAGAGTACCAAAGTACTAACAGAGAGCACACACAGTGCTAAT
Found at i:10327789 original size:23 final size:22
Alignment explanation
Indices: 10327663--10327789 Score: 78
Period size: 25 Copynumber: 5.5 Consensus size: 22
10327653 TATACGGAAC
*
10327663 AAACAGAGAGTACCAAA-GTACT
1 AAACAGAGAGTA-CAAACGTGCT
* *
10327685 -AACAGAGAGCACACACAGTGCT
1 AAACAGAGAGTACAAAC-GTGCT
* *
10327707 AATAACAGAGAGTACACAAAGTACT
1 -A-AACAGAGAGTACA-AACGTGCT
* * *
10327732 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGTACAAAC-GTGCT
*
10327755 AATAACAAAGAGTACGAAACGTGCT
1 -A-AACAGAGAGTAC-AAACGTGCT
10327780 AAACAGAGAG
1 AAACAGAGAG
10327790 CTCGCTAGTG
Statistics
Matches: 78, Mismatches: 17, Indels: 19
0.68 0.15 0.17
Matches are distributed among these distances:
20 3 0.04
21 10 0.13
22 5 0.06
23 23 0.29
24 3 0.04
25 30 0.38
26 4 0.05
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (22 bp):
AAACAGAGAGTACAAACGTGCT
Found at i:10329984 original size:83 final size:83
Alignment explanation
Indices: 10329603--10329960 Score: 626
Period size: 83 Copynumber: 4.3 Consensus size: 83
10329593 GTACAAATTA
*
10329603 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTCAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
*
10329668 ATATTTAAATAAATTTTT
66 ATATTTAAATAAAATTTT
10329686 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
* *
10329751 ATCTTTAAATAAAAATTT
66 ATATTTAAATAAAATTTT
*
10329769 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGATAATACAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
*
10329834 ATATTTAAATAAATTTTT
66 ATATTTAAATAAAATTTT
* *
10329852 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATATAACATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
* *
10329917 ATCTTTAAATAAAACTTT
66 ATATTTAAATAAAATTTT
10329935 TTATTATATTACAATTTTTATCATAT
1 TTATTATATTACAATTTTTATCATAT
10329961 TTTATATTTA
Statistics
Matches: 261, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 261 1.00
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.52
Consensus pattern (83 bp):
TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
ATATTTAAATAAAATTTT
Found at i:10330169 original size:20 final size:20
Alignment explanation
Indices: 10330146--10330191 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
10330136 CCGTTGACCA
10330146 CCGTTGACCGACTTTGTCCG
1 CCGTTGACCGACTTTGTCCG
*
10330166 CCGTTAACCGACTTTGTCCG
1 CCGTTGACCGACTTTGTCCG
10330186 CCGTTG
1 CCGTTG
10330192 GTCGACTTTC
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:0.11, C:0.35, G:0.24, T:0.30
Consensus pattern (20 bp):
CCGTTGACCGACTTTGTCCG
Found at i:10331060 original size:18 final size:19
Alignment explanation
Indices: 10331037--10331072 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10331027 TAAATTTTAT
10331037 TAATTATTGTTT-ATTTTC
1 TAATTATTGTTTAATTTTC
*
10331055 TAATTATTTTTTAATTTT
1 TAATTATTGTTTAATTTT
10331073 TCAGATGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (19 bp):
TAATTATTGTTTAATTTTC
Found at i:10332458 original size:30 final size:30
Alignment explanation
Indices: 10332396--10332487 Score: 105
Period size: 30 Copynumber: 3.1 Consensus size: 30
10332386 TCCCTTTACT
* * *
10332396 TTTTAAATTTAATTTGTAATTTCATTTTTA
1 TTTTAAATTTAATTTCTAATTTCATGTATA
*
10332426 TTTTAAATTTAATTTCAAATTTC-TGGTATA
1 TTTTAAATTTAATTTCTAATTTCAT-GTATA
* **
10332456 TTTTAATTTTTCTTTCTAATTTCATGTATA
1 TTTTAAATTTAATTTCTAATTTCATGTATA
10332486 TT
1 TT
10332488 CTAATTATTA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
29 1 0.02
30 50 0.96
31 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (30 bp):
TTTTAAATTTAATTTCTAATTTCATGTATA
Found at i:10333438 original size:61 final size:60
Alignment explanation
Indices: 10333314--10333639 Score: 354
Period size: 59 Copynumber: 5.5 Consensus size: 60
10333304 AGGAGAGGTT
**
10333314 GGTGTCGGCCATTTGATGGCCAACACC-AAAAAA-TTAAAATTTTTTTCTCGAGAATGGG
1 GGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTAAAATTTTTTTCTCGAGAAAAGG
*** * *
10333372 AGGTGTCGGCCATCAAATGGCCAACACCAAAAAAATTTGAATTTTTTTTCTCGAGAAAAGAG
1 -GGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTAAAATTTTTTTCTCGAGAAAAG-G
* **
10333434 GGTGTCGGCCATTTGATGACCAACACCCAAAAAAA-TTGGAA-TTTTTTCTCGAGAAAAGG
1 GGTGTCGGCCATTTGATGGCCAACA-CCAAAAAAATTTAAAATTTTTTTCTCGAGAAAAGG
* *
10333493 GGTGTCTGCCATTTGATGGCCAACA-CAAAAAAAATTAAAATTTTTTTCTCGAGAAATAGCG
1 GGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTAAAATTTTTTTCTCGAGAAA-AG-G
* * * *
10333554 GGTGTCGG-CATTTGATGACCAACACC-CAAAAATGT--AA-TTTTTT-T-GA-AATAGG
1 GGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTAAAATTTTTTTCTCGAGAAAAGG
*
10333606 GGTTGTCGGCCATTTGATGGCCAACACCCAAAAA
1 GG-TGTCGGCCATTTGATGGCCAACACCAAAAAA
10333640 TGTAATTTTT
Statistics
Matches: 230, Mismatches: 25, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
52 3 0.01
53 8 0.03
54 19 0.08
55 6 0.03
56 1 0.00
57 14 0.06
58 6 0.03
59 63 0.27
60 46 0.20
61 54 0.23
62 10 0.04
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (60 bp):
GGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTAAAATTTTTTTCTCGAGAAAAGG
Found at i:10333449 original size:120 final size:118
Alignment explanation
Indices: 10333314--10333632 Score: 364
Period size: 120 Copynumber: 2.7 Consensus size: 118
10333304 AGGAGAGGTT
* **
10333314 GGTGTCGGCCATTTGATGGCCAACACCAAAAAATTAAAATTTTTTTCTCGAGAATGGGAGGTGTC
1 GGTGTCGGCCATTTGATGACCAACACCAAAAAATTAAAA-TTTTTTCTCGAGAAAAGG-GGTGTC
* * *
10333379 GGCCATCAAATGGCCAACACCAAAAAAATTTGAATTTTTTTTCTCGAGAAA-AGAG
64 GGCCATCAAATGGCCAACA-CAAAAAAAATTAAAATTTTTTTCTCGAGAAATAGAG
**
10333434 GGTGTCGGCCATTTGATGACCAACACCCAAAAAAATTGGAATTTTTTCTCGAGAAAAGGGGTGTC
1 GGTGTCGGCCATTTGATGACCAACA-CC-AAAAAATTAAAATTTTTTCTCGAGAAAAGGGGTGTC
* *** *
10333499 TGCCATTTGATGGCCAACACAAAAAAAATTAAAATTTTTTTCTCGAGAAATAGCG
64 GGCCATCAAATGGCCAACACAAAAAAAATTAAAATTTTTTTCTCGAGAAATAGAG
* *
10333554 GGTGTCGG-CATTTGATGACCAACACCCAAAAATGT--AATTTTTT-T-GA-AATAGGGGTTGTC
1 GGTGTCGGCCATTTGATGACCAACACCAAAAAAT-TAAAATTTTTTCTCGAGAAAAGGGG-TGTC
***
10333613 GGCCATTTGATGGCCAACAC
64 GGCCATCAAATGGCCAACAC
10333633 CCAAAAATGT
Statistics
Matches: 178, Mismatches: 16, Indels: 16
0.85 0.08 0.08
Matches are distributed among these distances:
113 7 0.04
114 25 0.14
115 1 0.01
116 8 0.04
117 6 0.03
118 3 0.02
119 44 0.25
120 56 0.31
121 18 0.10
122 10 0.06
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (118 bp):
GGTGTCGGCCATTTGATGACCAACACCAAAAAATTAAAATTTTTTCTCGAGAAAAGGGGTGTCGG
CCATCAAATGGCCAACACAAAAAAAATTAAAATTTTTTTCTCGAGAAATAGAG
Found at i:10333671 original size:54 final size:54
Alignment explanation
Indices: 10333438--10333651 Score: 166
Period size: 54 Copynumber: 3.8 Consensus size: 54
10333428 AAAGAGGGTG
* * *
10333438 TCGGCCATTTGATGACCAACACCCAAAAAAATTGGAATTTTTTCTCGAGAAAAGGGGT-G
1 TCGGCCATTTGATGACCAACACCC--AAAAA-TGTAATTTTTT-T-GA-AATAGGGGTCA
* * ** *
10333497 TCTGCCATTTGATGGCCAACACAAAAAAAAT-TAAAATTTTTTTCTCGAGAAATAGCGGGT-G
1 TCGGCCATTTGATGACCAACAC-CCAAAAATGT--AA-TTTTTT-T---GAAATAG-GGGTCA
**
10333558 TCGG-CATTTGATGACCAACACCCAAAAATGTAATTTTTTTGAAATAGGGGTTG
1 TCGGCCATTTGATGACCAACACCCAAAAATGTAATTTTTTTGAAATAGGGGTCA
*
10333611 TCGGCCATTTGATGGCCAACACCCAAAAATGTAATTTTTTT
1 TCGGCCATTTGATGACCAACACCCAAAAATGTAATTTTTTT
10333652 TTTGAAATAG
Statistics
Matches: 133, Mismatches: 12, Indels: 25
0.78 0.07 0.15
Matches are distributed among these distances:
52 4 0.03
53 12 0.09
54 35 0.26
56 1 0.01
57 7 0.05
58 9 0.07
59 34 0.26
60 21 0.16
61 10 0.08
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (54 bp):
TCGGCCATTTGATGACCAACACCCAAAAATGTAATTTTTTTGAAATAGGGGTCA
Found at i:10333683 original size:43 final size:42
Alignment explanation
Indices: 10333622--10333739 Score: 157
Period size: 43 Copynumber: 2.8 Consensus size: 42
10333612 CGGCCATTTG
10333622 ATGGCCAACACCCAAAAATGTAATTTTTTTTTTGAAATAGGGC
1 ATGGCCAACACCCAAAAATGTAATTTTTTTTTTGAAATA-GGC
* * *
10333665 ATGGCCAACATCCAAAAATGCAA-TTTTTTTTTGAAATATGC
1 ATGGCCAACACCCAAAAATGTAATTTTTTTTTTGAAATAGGC
* *
10333706 ATGGCCGACACCCAAAAATTTTGAATTTTTTTTT
1 ATGGCCAACACCCAAAAA-TGT-AATTTTTTTTT
10333740 GACAGAAAAG
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
41 18 0.28
42 16 0.25
43 23 0.35
44 8 0.12
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (42 bp):
ATGGCCAACACCCAAAAATGTAATTTTTTTTTTGAAATAGGC
Found at i:10348686 original size:162 final size:161
Alignment explanation
Indices: 10348411--10348702 Score: 442
Period size: 162 Copynumber: 1.8 Consensus size: 161
10348401 TATGGGAAAT
* *
10348411 ACCCTTTATCTTTCTGTTTGTTATCCAAATTGTCTTTTGGAAACTGTAACATTACCCTTTTTAGG
1 ACCCTTTATCTTTCTGTTTGTTATCCAAATTGTCTTTTGGAAACTGTAACATCACACTTTTTAGG
* * * *
10348476 TGACATGCATGTTCTTGATCTCATTCTTAGAAGTTTCTGCTGACTGTTGGTAACTATTTGTGTGG
66 TGACATGAATGTTCTTGATCTCATTCTTAGAAATTTCTGCTAACTGTTGGTAACTATTGGTGTGG
10348541 TTACTCTTGGTTCTGAGCAAGTGGCAGTTCA
131 TTACTCTTGGTTCTGAGCAAGTGGCAGTTCA
* * * *
10348572 ACCCTCTTATCTTTCTGTTTGTTTTCCAAGTTGTGC-TTTGGAAACTGTACCATCACATTTTTTA
1 ACCCT-TTATCTTTCTGTTTGTTATCCAAATTGT-CTTTTGGAAACTGTAACATCACACTTTTTA
* * *
10348636 GGTGACATGAATGTTTTTTATCTCATTCTTAGAAATTTCTGCTAACTGTTGGTAGCTATTGGTGT
64 GGTGACATGAATGTTCTTGATCTCATTCTTAGAAATTTCTGCTAACTGTTGGTAACTATTGGTGT
10348701 GG
129 GG
10348703 ACCGTGTGGT
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
161 5 0.04
162 110 0.95
163 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (161 bp):
ACCCTTTATCTTTCTGTTTGTTATCCAAATTGTCTTTTGGAAACTGTAACATCACACTTTTTAGG
TGACATGAATGTTCTTGATCTCATTCTTAGAAATTTCTGCTAACTGTTGGTAACTATTGGTGTGG
TTACTCTTGGTTCTGAGCAAGTGGCAGTTCA
Found at i:10353484 original size:19 final size:19
Alignment explanation
Indices: 10353462--10353533 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
10353452 AAACCACTTC
* *
10353462 ATGTTTTAAGTAAGGTTTT
1 ATGTATTAAGTAATGTTTT
* *
10353481 ATGTATTAAGCAATTTTTT
1 ATGTATTAAGTAATGTTTT
*
10353500 CATGTTTTAAGTAATGTTTT
1 -ATGTATTAAGTAATGTTTT
10353520 ATGTATTAAGTAAT
1 ATGTATTAAGTAAT
10353534 TATCCCATGA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 28 0.64
20 16 0.36
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (19 bp):
ATGTATTAAGTAATGTTTT
Found at i:10353513 original size:39 final size:39
Alignment explanation
Indices: 10353459--10353534 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
10353449 TAGAAACCAC
10353459 TTCATGTTTTAAGTAAGGTTTTATGTATTAAGCAATTTT
1 TTCATGTTTTAAGTAAGGTTTTATGTATTAAGCAATTTT
* *
10353498 TTCATGTTTTAAGTAATGTTTTATGTATTAAGTAATT
1 TTCATGTTTTAAGTAAGGTTTTATGTATTAAGCAATT
10353535 ATCCCATGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.29, C:0.04, G:0.14, T:0.53
Consensus pattern (39 bp):
TTCATGTTTTAAGTAAGGTTTTATGTATTAAGCAATTTT
Found at i:10361036 original size:17 final size:19
Alignment explanation
Indices: 10360993--10361031 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
10360983 TATACTTAAA
*
10360993 TTTAATATCTAATATATAT
1 TTTAATTTCTAATATATAT
10361012 TTTAATTTCTAATATA-AT
1 TTTAATTTCTAATATATAT
10361030 TT
1 TT
10361032 GATTTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAATTTCTAATATATAT
Found at i:10362608 original size:41 final size:41
Alignment explanation
Indices: 10362562--10362644 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
10362552 AACATAATTA
*
10362562 TTTTATATAAGCAATGCATACTGCTCATTAGAATATGAACG
1 TTTTATACAAGCAATGCATACTGCTCATTAGAATATGAACG
*
10362603 TTTTATACAAGCAATGCATACTGCTTATTAGAATATGAACG
1 TTTTATACAAGCAATGCATACTGCTCATTAGAATATGAACG
10362644 T
1 T
10362645 AGAGAACGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (41 bp):
TTTTATACAAGCAATGCATACTGCTCATTAGAATATGAACG
Found at i:10362936 original size:65 final size:65
Alignment explanation
Indices: 10362839--10363013 Score: 183
Period size: 65 Copynumber: 2.7 Consensus size: 65
10362829 AAAGATAACA
* * ** * *
10362839 GGTGTGGCAAC-CGATTAGGTTGTTGACGAGTATAGTGACTTGACTAGTAAACACAAGTATGACG
1 GGTGTGGCAACTCGACTAGGTTGTTGACAAGTATAGTGACCCGACCAGTAAACACAAGCATGACG
* * * *
10362903 GGTGTGGCAACTTGACTAGGTTGTTGATAAGTATGGTGACCCGACCAGTGAACACAAGCATGACG
1 GGTGTGGCAACTCGACTAGGTTGTTGACAAGTATAGTGACCCGACCAGTAAACACAAGCATGACG
* * * * * * *
10362968 AGTGTGGCAACTCAAC-CGATTGGTGACGAGTATGGTGACCCGACCA
1 GGTGTGGCAACTCGACTAGGTTGTTGACAAGTATAGTGACCCGACCA
10363014 AGTTGTTAGC
Statistics
Matches: 92, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
64 36 0.39
65 56 0.61
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (65 bp):
GGTGTGGCAACTCGACTAGGTTGTTGACAAGTATAGTGACCCGACCAGTAAACACAAGCATGACG
Found at i:10363461 original size:9 final size:9
Alignment explanation
Indices: 10363418--10363704 Score: 63
Period size: 10 Copynumber: 30.4 Consensus size: 9
10363408 TCACCAAAAC
10363418 AAAATTAATA
1 AAAATT-ATA
*
10363428 TAAACTTATAA
1 -AAAATTAT-A
10363439 AAAAGTTATAA
1 AAAA-TTAT-A
*
10363450 AAAATCATA
1 AAAATTATA
10363459 AAAACTTATA
1 AAAA-TTATA
*
10363469 AATATTATA
1 AAAATTATA
10363478 AAAACTTATA
1 AAAA-TTATA
10363488 AAAA-TA-A
1 AAAATTATA
*
10363495 AATGTATT-TA
1 AA--AATTATA
10363505 AAATATT-TA
1 AAA-ATTATA
* *
10363514 AAATTTTCTA
1 AAA-ATTATA
* *
10363524 TAAACTTATG
1 -AAAATTATA
10363534 AAAATTATA
1 AAAATTATA
10363543 AAAA--A-A
1 AAAATTATA
*
10363549 AACATTCATA
1 AAAATT-ATA
10363559 AAAACTTATA
1 AAAA-TTATA
* **
10363569 AATATGGTA
1 AAAATTATA
*
10363578 AAAACTTCTA
1 AAAA-TTATA
*
10363588 AAAATATTTA
1 AAAAT-TATA
10363598 AAAATT-T-
1 AAAATTATA
* * *
10363605 -TACTTAAA
1 AAAATTATA
*
10363613 AAAATATTTA
1 AAAAT-TATA
10363623 AAAATTATA
1 AAAATTATA
* *
10363632 CTAATTTATA
1 -AAAATTATA
**
10363642 GTAATTATA
1 AAAATTATA
* *
10363651 ATAATTTATCC
1 A-AAATTAT-A
*
10363662 ATAATTATA
1 AAAATTATA
*
10363671 AAACTTATAA
1 AAAATTAT-A
10363681 AAAATTCATA
1 AAAATT-ATA
10363691 AAAACTTATA
1 AAAA-TTATA
10363701 AAAA
1 AAAA
10363705 ATTCTAAATA
Statistics
Matches: 202, Mismatches: 46, Indels: 57
0.66 0.15 0.19
Matches are distributed among these distances:
6 7 0.03
7 4 0.02
8 3 0.01
9 62 0.31
10 100 0.50
11 26 0.13
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (9 bp):
AAAATTATA
Found at i:10363469 original size:10 final size:10
Alignment explanation
Indices: 10363429--10363491 Score: 74
Period size: 10 Copynumber: 6.3 Consensus size: 10
10363419 AAATTAATAT
10363429 AAACTTATAAA
1 AAACTTAT-AA
*
10363440 AAAGTTATAA
1 AAACTTATAA
* *
10363450 AAAATCATAA
1 AAACTTATAA
10363460 AAACTTATAA
1 AAACTTATAA
*
10363470 ATA-TTATAA
1 AAACTTATAA
10363479 AAACTTATAA
1 AAACTTATAA
10363489 AAA
1 AAA
10363492 TAAAATGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
9 8 0.18
10 29 0.66
11 7 0.16
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (10 bp):
AAACTTATAA
Found at i:10363478 original size:19 final size:19
Alignment explanation
Indices: 10363433--10363492 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
10363423 TAATATAAAC
*
10363433 TTATAAAAAAGTTATAAAAAA
1 TTAT-AAAAACTTAT-AAAAA
* *
10363454 TCATAAAAACTTATAAATA
1 TTATAAAAACTTATAAAAA
10363473 TTATAAAAACTTATAAAAA
1 TTATAAAAACTTATAAAAA
10363492 T
1 T
10363493 AAAATGTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 22 0.65
20 9 0.26
21 3 0.09
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (19 bp):
TTATAAAAACTTATAAAAA
Found at i:10363696 original size:21 final size:20
Alignment explanation
Indices: 10363670--10363712 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
10363660 CCATAATTAT
10363670 AAAACTTATAAAAAATTCATA
1 AAAACTTATAAAAAATTC-TA
10363691 AAAACTTATAAAAAATTCTA
1 AAAACTTATAAAAAATTCTA
10363711 AA
1 AA
10363713 TAAGTTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAACTTATAAAAAATTCTA
Found at i:10366400 original size:8 final size:8
Alignment explanation
Indices: 10366387--10366414 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
10366377 AATATATATT
10366387 TAAAAATA
1 TAAAAATA
10366395 TAAAAATA
1 TAAAAATA
10366403 TAAAAATA
1 TAAAAATA
10366411 TAAA
1 TAAA
10366415 TTTACCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
TAAAAATA
Found at i:10366648 original size:29 final size:29
Alignment explanation
Indices: 10366616--10366677 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
10366606 TATACGTATT
*
10366616 TTTTAAAAATTT-AGAATTTAGTTTTTATA
1 TTTT-AAAATTTAAGAATTTAGTTTTTAGA
* **
10366645 TTTTTATTTTTAAGAATTTAGTTTTTAGA
1 TTTTAAAATTTAAGAATTTAGTTTTTAGA
10366674 TTTT
1 TTTT
10366678 TTAGATTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (29 bp):
TTTTAAAATTTAAGAATTTAGTTTTTAGA
Found at i:10366693 original size:30 final size:29
Alignment explanation
Indices: 10366628--10366695 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
10366618 TTAAAAATTT
* * *
10366628 AGAATTTAGTTTTTATATTTTTATTTTTA
1 AGAATTTAGTTTTTAGATTTTTAATTTGA
10366657 AGAATTTAGTTTTTAGATTTTTTAGATTTGA
1 AGAATTTAGTTTTTAGA-TTTTTA-ATTTGA
10366688 A-AATTTAG
1 AGAATTTAG
10366696 GTGTAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 16 0.47
30 13 0.38
31 5 0.15
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (29 bp):
AGAATTTAGTTTTTAGATTTTTAATTTGA
Found at i:10366989 original size:58 final size:59
Alignment explanation
Indices: 10366895--10367006 Score: 142
Period size: 59 Copynumber: 1.9 Consensus size: 59
10366885 TAAATCTCAA
* *
10366895 AATTATACATGAACTTTGATTTAATGTGCAATTGTATA-TAT-AAATTTTAATTTGGTGC
1 AATTATACATGAACTTTAATTTAATGTGCAAATGTATACT-TGAAATTTTAATTTGGTGC
*
10366953 AATTATACATGAAACTTTAATTGTGAT-T-CAAATGTATACTTGAAATTTTAATTT
1 AATTATACATG-AACTTTAATT-TAATGTGCAAATGTATACTTGAAATTTTAATTT
10367007 TGATTTAATC
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
58 21 0.45
59 23 0.49
60 3 0.06
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.45
Consensus pattern (59 bp):
AATTATACATGAACTTTAATTTAATGTGCAAATGTATACTTGAAATTTTAATTTGGTGC
Found at i:10368360 original size:9 final size:9
Alignment explanation
Indices: 10368346--10368373 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
10368336 GACAAGGGAC
10368346 CATCGGCGG
1 CATCGGCGG
10368355 CATCGGCGG
1 CATCGGCGG
10368364 CATCGGCGG
1 CATCGGCGG
10368373 C
1 C
10368374 GGCGGCCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.36, G:0.43, T:0.11
Consensus pattern (9 bp):
CATCGGCGG
Found at i:10372137 original size:18 final size:18
Alignment explanation
Indices: 10372105--10372156 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
10372095 TTGGGATGAG
10372105 AATAAATTT--TTAATTA
1 AATAAATTTAATTAATTA
*
10372121 AATAAATTTAATTAATTG
1 AATAAATTTAATTAATTA
*
10372139 AA-AATTTTAAATTAATTA
1 AATAAATTT-AATTAATTA
10372157 CAACTGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 9 0.30
17 5 0.17
18 16 0.53
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
AATAAATTTAATTAATTA
Found at i:10373570 original size:46 final size:46
Alignment explanation
Indices: 10373502--10373635 Score: 187
Period size: 46 Copynumber: 2.9 Consensus size: 46
10373492 AATTTATATT
* *
10373502 TCACAAGAACTATCTTTTACTTGATCGATTGACATTATAAAAATAGA
1 TCACAA-AACTCTCTTTTACTTGATCGATTGACATTATAAAAACAGA
* * *
10373549 TCACAAAACTCTCTTTTACTTGAGCAATTGACATTATAAAAACGGA
1 TCACAAAACTCTCTTTTACTTGATCGATTGACATTATAAAAACAGA
* * *
10373595 TCACAAAACCCTCTTTTACTTAATTGATTGACATTATAAAA
1 TCACAAAACTCTCTTTTACTTGATCGATTGACATTATAAAA
10373636 GAGTATTACT
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
46 71 0.92
47 6 0.08
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.34
Consensus pattern (46 bp):
TCACAAAACTCTCTTTTACTTGATCGATTGACATTATAAAAACAGA
Found at i:10379596 original size:28 final size:28
Alignment explanation
Indices: 10379546--10379626 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 28
10379536 GGCCCAAACC
* *
10379546 ATTTGAAAATTAAATTTATTTTAATCTTAA
1 ATTTG-AATTTAAATTTAATTTAAT-TTAA
* *
10379576 ATTT-ACTTTAAATTCAATTTAAATTTAA
1 ATTTGAATTTAAATTTAATTT-AATTTAA
10379604 ATTTGAATTT-AATTTAATTTAAT
1 ATTTGAATTTAAATTTAATTTAAT
10379627 ATTATTATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
27 3 0.07
28 29 0.67
29 7 0.16
30 4 0.09
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (28 bp):
ATTTGAATTTAAATTTAATTTAATTTAA
Found at i:10379602 original size:6 final size:6
Alignment explanation
Indices: 10379555--10379625 Score: 55
Period size: 6 Copynumber: 12.7 Consensus size: 6
10379545 CATTTGAAAA
* * *
10379555 TTAAAT TT--AT TTTAAT CTTAAAT TT-ACT TTAAA- TTCAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
10379600 TTAAAT TTGAAT TT-AAT TT-AAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAA
10379626 TATTATTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
4 4 0.08
5 18 0.34
6 26 0.49
7 5 0.09
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:10379602 original size:17 final size:17
Alignment explanation
Indices: 10379575--10379640 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
10379565 TTTAATCTTA
*
10379575 AATTTACTTTAAA-TTC
1 AATTTAATTTAAATTTC
*
10379591 AATTTAAATTTAAATTTG
1 AATTT-AATTTAAATTTC
10379609 AATTTAATTT-AATTT-
1 AATTTAATTTAAATTTC
10379624 AATATT-ATTATAAATTT
1 AAT-TTAATT-TAAATTT
10379641 AAAAAGAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
15 6 0.14
16 13 0.30
17 17 0.40
18 7 0.16
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (17 bp):
AATTTAATTTAAATTTC
Found at i:10379612 original size:12 final size:11
Alignment explanation
Indices: 10379552--10379626 Score: 73
Period size: 11 Copynumber: 6.8 Consensus size: 11
10379542 AACCATTTGA
*
10379552 AAATTAAATTT
1 AAATTTAATTT
*
10379563 -ATTTTAATCTT
1 AAATTTAAT-TT
*
10379574 AAATTTACTTT
1 AAATTTAATTT
*
10379585 AAATTCAATTT
1 AAATTTAATTT
10379596 AAATTTAAATTT
1 AAATTT-AATTT
*
10379608 GAATTTAATTT
1 AAATTTAATTT
10379619 -AATTTAAT
1 AAATTTAAT
10379627 ATTATTATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
10 14 0.26
11 23 0.43
12 16 0.30
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:10379619 original size:5 final size:5
Alignment explanation
Indices: 10379553--10379626 Score: 58
Period size: 5 Copynumber: 13.6 Consensus size: 5
10379543 ACCATTTGAA
* * * *
10379553 AATTA AATTT ATTTT AATCTT AAATTT ACTTT AAATTC AATTT AAATTT
1 AATTT AATTT AATTT AAT-TT -AATTT AATTT -AATTT AATTT -AATTT
10379602 AAATTT GAATTT AATTT AATTT AAT
1 -AATTT -AATTT AATTT AATTT AAT
10379627 ATTATTATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
5 31 0.54
6 23 0.40
7 3 0.05
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (5 bp):
AATTT
Found at i:10380405 original size:16 final size:16
Alignment explanation
Indices: 10380361--10380409 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
10380351 GAGCTAATGT
*
10380361 AAAATAATATTAAT-A
1 AAAATAACATTAATAA
* *
10380376 ATAATAACTTTTAATAA
1 AAAATAAC-ATTAATAA
10380393 AAAATAACATTAATAA
1 AAAATAACATTAATAA
10380409 A
1 A
10380410 TATGGGTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
15 6 0.22
16 13 0.48
17 8 0.30
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATAACATTAATAA
Found at i:10381649 original size:30 final size:30
Alignment explanation
Indices: 10381613--10381815 Score: 298
Period size: 30 Copynumber: 6.8 Consensus size: 30
10381603 AAACAATCCA
* *
10381613 AAAATTATATTTTGACCCCAAAACTTCTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
10381643 AAAATTACATTTTGACTCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
10381673 AAAATTATATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* **
10381703 AAAATCACATTTTGACCCTGAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
10381733 AAAATTATATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
10381763 AAAATTACATTTTGACCTCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
10381793 AAAATTACATTTTAACCCTAAAA
1 AAAATTACATTTTGACCCCAAAA
10381816 ATCCCCTAAA
Statistics
Matches: 155, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 155 1.00
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:10381855 original size:29 final size:29
Alignment explanation
Indices: 10381823--10381922 Score: 78
Period size: 30 Copynumber: 3.4 Consensus size: 29
10381813 AAAATCCCCT
*
10381823 AAATCCCATTTTTAACCCCGATTTCACCA
1 AAATACCATTTTTAACCCCGATTTCACCA
*** ***
10381852 AAATTTACCA-TTTT-ACCCTCGAAACCTTTA
1 AAA--TACCATTTTTAACCC-CGATTTCACCA
*
10381882 AAATTCCATTTTTAACCCCGATTTCACCA
1 AAATACCATTTTTAACCCCGATTTCACCA
10381911 AAATTACCATTT
1 AAA-TACCATTT
10381923 CACCCCCGGG
Statistics
Matches: 50, Mismatches: 15, Indels: 11
0.66 0.20 0.14
Matches are distributed among these distances:
28 4 0.08
29 19 0.38
30 23 0.46
31 4 0.08
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (29 bp):
AAATACCATTTTTAACCCCGATTTCACCA
Found at i:10381866 original size:30 final size:29
Alignment explanation
Indices: 10381832--10381922 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 29
10381822 TAAATCCCAT
10381832 TTTTAACCCCGATTTCACCAAAATTTACCA
1 TTTTAACCCCGATTTCACCAAAA-TTACCA
*** ***
10381862 TTTT-ACCCTCGAAACCTTTAAAATT-CCA
1 TTTTAACCC-CGATTTCACCAAAATTACCA
10381890 TTTTTAACCCCGATTTCACCAAAATTACCA
1 -TTTTAACCCCGATTTCACCAAAATTACCA
10381920 TTT
1 TTT
10381923 CACCCCCGGG
Statistics
Matches: 45, Mismatches: 12, Indels: 9
0.68 0.18 0.14
Matches are distributed among these distances:
28 3 0.07
29 23 0.51
30 19 0.42
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.36
Consensus pattern (29 bp):
TTTTAACCCCGATTTCACCAAAATTACCA
Found at i:10381958 original size:58 final size:59
Alignment explanation
Indices: 10381823--10381965 Score: 175
Period size: 58 Copynumber: 2.4 Consensus size: 59
10381813 AAAATCCCCT
* * *
10381823 AAATCCCATTTTTAACCCCGATTTCACCAAAATTTACCATTTTACCCTCGAAACCTTTA
1 AAATCCCATTTTTAACCCCGATTTCACCAAAATTTACCATTTCACCCCCGAAACCTATA
* * *
10381882 AAATTCCATTTTTAACCCCGATTTCACCAAAA-TTACCATTTCACCCCCGGGTATCC-AT-
1 AAATCCCATTTTTAACCCCGATTTCACCAAAATTTACCATTTCACCCCC--GAAACCTATA
* *
10381940 AAGTCCCATTTTTCACCCCGATTTCA
1 AAATCCCATTTTTAACCCCGATTTCA
10381966 TTATTTATCA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
58 37 0.51
59 32 0.44
60 4 0.05
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.33
Consensus pattern (59 bp):
AAATCCCATTTTTAACCCCGATTTCACCAAAATTTACCATTTCACCCCCGAAACCTATA
Found at i:10393056 original size:31 final size:31
Alignment explanation
Indices: 10393021--10393443 Score: 120
Period size: 31 Copynumber: 12.4 Consensus size: 31
10393011 TCTTCATCTC
*
10393021 TGAAATTGAAGTAAGAGCAACGTCATCCGCT
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCT
** **
10393052 TGAAATTGAAGT-AGAGCTGGATAACAAGTTTTCATCT
1 TGAAATTGAAGTAAGAGC-----AAC--GTCATCCCCT
*
10393089 CTGAAATTGAAGTAAGAGCAACGTTATCCCCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCCT
** *
10393121 TGAAATTGAAGTAGAGTGGATAACACGCTTTCAT-CTC-
1 TGAAATTGAAGTA-A---GAGCA-ACG---TCATCCCCT
*
10393158 TGAAATTGAAGTAAGAGCAATGTCATCCCCT
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCT
* * * * * **
10393189 TGGAATTTAAGTAAAGTGGATAACATGTCTTCATCT
1 TGAAATTGAAGT-AAG-AG-CAAC--GTCATCCCCT
*
10393225 CTGAAATTGAAGTAAGAGCAATGTCATCCCCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCCT
** *
10393257 TGAAATTGAAGTAGAGTGGATAACACGCTTTCAT-CTC-
1 TGAAATTGAAGTA-A---GAGCA-ACG---TCATCCCCT
* **
10393294 TGAAATTGAAGT-AGAGCTGGATAACAAGTCTTCATCT
1 TGAAATTGAAGTAAGAGC-----AAC--GTCATCCCCT
*
10393331 CTGAAATTGAAGTAAGAGCAATGTCATCCCCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCCT
* * * * **
10393363 TGAAATTTAAGTAAAGTGGATAACATGTCTTCATCT
1 TGAAATTGAAGT-AAG-AG-CAAC--GTCATCCCCT
*
10393399 CTGAAATTGAAGTAAGAGCAATGTCATCCCCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCCT
10393431 TGAAATTGAAGTA
1 TGAAATTGAAGTA
10393444 GAGTGGATAA
Statistics
Matches: 285, Mismatches: 57, Indels: 100
0.64 0.13 0.23
Matches are distributed among these distances:
29 4 0.01
30 7 0.02
31 72 0.25
32 40 0.14
33 5 0.02
34 13 0.05
35 15 0.05
36 30 0.11
37 53 0.19
38 29 0.10
39 17 0.06
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (31 bp):
TGAAATTGAAGTAAGAGCAACGTCATCCCCT
Found at i:10393168 original size:106 final size:105
Alignment explanation
Indices: 10393052--10393975 Score: 386
Period size: 106 Copynumber: 8.9 Consensus size: 105
10393042 GTCATCCGCT
10393052 TGAAATTGAAGTAGAGCTGGATAACAAGTTTTCATCTCTGAAATTGAAGTAAGAGCAACGTTATC
1 TGAAATTGAAGTAGAG-TGGATAACAAGTTTTCATCTCTGAAATTGAAGTAAGAGCAACGTTATC
*
10393117 CCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTC
65 CTCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTC
* * * * * * *
10393158 TGAAATTGAAGTA-A---G--AGCAA--TGTCATCCCCTTGGAATTTAAGTAAAGTGGATAACAT
1 TGAAATTGAAGTAGAGTGGATAACAAGTTTTCAT-CTC-TGAAATTGAAGT-AAG-AG-CAAC--
* * * * *
10393215 GTCT-TCATCTCTGAAATTGAAGTA-A---G--AGCA--ATGTCATCCCC
59 GT-TATCCTCT-TGAAATTGAAGTAGAGTGGATAACACGCTTTCAT-CTC
* *
10393256 TTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTGAAATTGAAGT-AGAGCTGGATAACA
1 -TGAAATTGAAGTAGAGTGGATAACAAGTTTTCATCTCTGAAATTGAAGTAAGAGC-----AAC-
* * * * *
10393320 AGTCT-TCATCTCTGAAATTGAAGTA-A---G--AGCA--ATGTCATCCCC
59 -GT-TATCCTCT-TGAAATTGAAGTAGAGTGGATAACACGCTTTCAT-CTC
* * * * * *
10393362 TTGAAATTTAAGTAAAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGTCATC
1 -TGAAATTGAAGTAGAGTGGATAACAAGTTTTCATCTCTGAAATTGAAGTAAGAGCAACGTTATC
*
10393427 CCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTC
65 CTCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTC
* *
10393468 TGAAATTGAAGTAGAGCTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATC
1 TGAAATTGAAGTAGAG-TGGATAACAAGTTTTCATCTCTGAAATTGAAGTAAGAGCAACGTTATC
* * *
10393533 TTCTTGAAATTGAAGTAAAGTTGGATAACAAG-TCTTCATCTC
65 CTCTTGAAATTGAAGTAGAG-TGGATAACACGCT-TTCATCTC
* * * * *
10393575 TGAAATTGAAGTA-AG-AG-TAACATTGTTTCTTATCCTCCTGAAATTGAAGTAAAATTGGATAT
1 TGAAATTGAAGTAGAGTGGATAACA-AGTTT-TCAT-CT-CTGAAATTGAAGTAAGA---G-CA-
* ***
10393637 CACGTCTTTAT-CTC-TGAAATTGAAGTAAGAG-CGACGTCAC-C---C--CT-
57 -ACG---TTATCCTCTTGAAATTGAAGT-AGAGTGGATAACACGCTTTCATCTC
* * *
10393681 TGAAATTAAAGTAGAGTGGATAACACGTCTTT-ATCTCTGAAATTGAAGTAAGAGCAACGTCATC
1 TGAAATTGAAGTAGAGTGGATAACAAGT-TTTCATCTCTGAAATTGAAGTAAGAGCAACGTTATC
* * * *
10393745 CCCTTGAAATTTAAGTAAAGTGGATAACATG-TCTTCATCTC
65 CTCTTGAAATTGAAGTAGAGTGGATAACACGCT-TTCATCTC
* * * **
10393786 TGAAATTGAAGTA-A---G--AGCAA--TGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAC
1 TGAAATTGAAGTAGAGTGGATAACAAGTTTTCAT-CTC-TGAAATTGAAGTA-A---GAGCA-AC
* * *
10393843 GCTT-TCATCTCTAAAATTGAAGTA-A----A-AGCAACG---TCATCCTC
59 G-TTATCCTCT-TGAAATTGAAGTAGAGTGGATAAC-ACGCTTTCAT-CTC
* *
10393884 TTGAAATTGAAGTAGAGTGGATAACACGTTTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATC
1 -TGAAATTGAAGTAGAGTGGATAACAAGTTTTCATCTCTGAAATTGAAGTAAGAGCAACGTTATC
* *
10393949 CTCTTGAAACTGAAGTAAAGTTGGATA
65 CTCTTGAAATTGAAGTAGAG-TGGATA
10393976 GCAAAGTATT
Statistics
Matches: 627, Mismatches: 95, Indels: 192
0.69 0.10 0.21
Matches are distributed among these distances:
96 5 0.01
97 21 0.03
98 24 0.04
99 89 0.14
100 25 0.04
101 8 0.01
102 8 0.01
103 13 0.02
104 23 0.04
105 105 0.17
106 192 0.31
107 73 0.12
108 4 0.01
109 8 0.01
110 1 0.00
111 1 0.00
113 7 0.01
114 12 0.02
115 5 0.01
116 3 0.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (105 bp):
TGAAATTGAAGTAGAGTGGATAACAAGTTTTCATCTCTGAAATTGAAGTAAGAGCAACGTTATCC
TCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTC
Found at i:10393186 original size:68 final size:68
Alignment explanation
Indices: 10392972--10393975 Score: 903
Period size: 68 Copynumber: 14.5 Consensus size: 68
10392962 GCAGGTCTTG
* * *
10392972 ACGTCATCCCCTTGAAATTTAAGTAAAGTGGATAACATG-TCTTCATCTCTGAAATTGAAGTAAG
1 ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCT-TTCATCTCTGAAATTGAAGTAAG
10393036 AGCA
65 AGCA
* * *
10393040 ACGTCATCCGCTTGAAATTGAAGTAGAGCTGGATAACAAGTTTTCATCTCTGAAATTGAAGTAAG
1 ACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGCTTTCATCTCTGAAATTGAAGTAAG
10393105 AGCA
65 AGCA
*
10393109 ACGTTATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTGAAATTGAAGTAAGA
1 ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTGAAATTGAAGTAAGA
10393174 GCA
66 GCA
* * * * *
10393177 ATGTCATCCCCTTGGAATTTAAGTAAAGTGGATAACATG-TCTTCATCTCTGAAATTGAAGTAAG
1 ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCT-TTCATCTCTGAAATTGAAGTAAG
10393241 AGCA
65 AGCA
*
10393245 ATGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTGAAATTGAAGT-AGA
1 ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTGAAATTGAAGTAAGA
10393309 GCTGGATA
66 GC-----A
* ** * * * * *
10393317 ACAAGTCTTCATCTCTGAAATTGAAGTA-A---G--AGCA--ATGTCATCCCCTTGAAATTTAAG
1 AC--GTCATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGCTTTCAT-CTC-TGAAATTGAAG
* *
10393374 TAAAGTGGATA
61 T-AAG-AG-CA
* ** * * * *
10393385 ACATGTCTTCATCTCTGAAATTGAAGTA-A---G--AGCA--ATGTCATCCCCTTGAAATTGAAG
1 AC--GTCATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGCTTTCAT-CTC-TGAAATTGAAG
**
10393442 TAGAGTGGATAA
61 TA-A---GAGCA
* *
10393454 CACGCTTTCAT-CTC-TGAAATTGAAGTAGAGCTGGATAACAAG-TCTTCATCTCTGAAATTGAA
1 -ACG---TCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGCT-TTCATCTCTGAAATTGAA
10393516 GTAAGAGCA
60 GTAAGAGCA
** * *
10393525 ACGTCATCTTCTTGAAATTGAAGTAAAGTTGGATAACAAG-TCTTCATCTCTGAAATTGAAGTAA
1 ACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGCT-TTCATCTCTGAAATTGAAGTAA
*
10393589 GAGTA
64 GAGCA
* * *
10393594 ACATTGTTTCTTATCCTCC-TGAAATTGAAGTAAAATTGGATATCACGTCTTT-ATCTCTGAAAT
1 AC---G--TC--ATCC-CCTTGAAATTGAAGT-AGAGTGGATAACACG-CTTTCATCTCTGAAAT
*
10393657 TGAAGTAAGAGCG
56 TGAAGTAAGAGCA
*
10393670 ACGTCA-CCCCTTGAAATTAAAGTAGAGTGGATAACACGTCTTT-ATCTCTGAAATTGAAGTAAG
1 ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG-CTTTCATCTCTGAAATTGAAGTAAG
10393733 AGCA
65 AGCA
* * *
10393737 ACGTCATCCCCTTGAAATTTAAGTAAAGTGGATAACATG-TCTTCATCTCTGAAATTGAAGTAAG
1 ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCT-TTCATCTCTGAAATTGAAGTAAG
10393801 AGCA
65 AGCA
* * *
10393805 ATGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTAAAATTGAAGTAAAA
1 ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTGAAATTGAAGTAAGA
10393870 GCA
66 GCA
* *
10393873 ACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTTTTCATCTCTGAAATTGAAGTAAGA
1 ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTGAAATTGAAGTAAGA
10393938 GCA
66 GCA
* * *
10393941 ACGTCATCCTCTTGAAACTGAAGTAAAGTTGGATA
1 ACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATA
10393976 GCAAAGTATT
Statistics
Matches: 808, Mismatches: 73, Indels: 109
0.82 0.07 0.11
Matches are distributed among these distances:
66 1 0.00
67 66 0.08
68 469 0.58
69 144 0.18
70 8 0.01
71 12 0.01
72 4 0.00
73 2 0.00
74 11 0.01
75 29 0.04
76 51 0.06
77 10 0.01
78 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (68 bp):
ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTGAAATTGAAGTAAGA
GCA
Found at i:10393317 original size:174 final size:174
Alignment explanation
Indices: 10393121--10393668 Score: 852
Period size: 174 Copynumber: 3.1 Consensus size: 174
10393111 GTTATCCCCT
*
10393121 TGAAATTGAAGTAGAG-TGGATAACACG-CTTTCATCTCTGAAATTGAAGTAAGAGCAATGTCAT
1 TGAAATTGAAGTAGAGCTGGATAACAAGTC-TTCATCTCTGAAATTGAAGTAAGAGCAATGTCAT
*
10393184 CCCCTTGGAATTTAAGTAAAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGT
65 CCCCTTGAAATTTAAGTAAAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGT
10393249 CATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTC
130 CATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTC
10393294 TGAAATTGAAGTAGAGCTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGTCATC
1 TGAAATTGAAGTAGAGCTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGTCATC
10393359 CCCTTGAAATTTAAGTAAAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGTC
66 CCCTTGAAATTTAAGTAAAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGTC
10393424 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTC
131 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTC
*
10393468 TGAAATTGAAGTAGAGCTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATC
1 TGAAATTGAAGTAGAGCTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGTCATC
** * * *
10393533 TTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGTAACAT
66 CCCTTGAAATTTAAGTAAAG-TGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAG---CAA
* * *
10393598 TGTTTCTTATCCTCC-TGAAATTGAAGTAAAATTGGATATCACGTCTTT-ATCTC
127 TG--TC--ATCC-CCTTGAAATTGAAGT-AGAGTGGATAACACG-CTTTCATCTC
10393651 TGAAATTGAAGTAAGAGC
1 TGAAATTGAAGT-AGAGC
10393669 GACGTCACCC
Statistics
Matches: 350, Mismatches: 11, Indels: 17
0.93 0.03 0.04
Matches are distributed among these distances:
173 16 0.05
174 234 0.67
175 38 0.11
178 4 0.01
180 2 0.01
182 16 0.05
183 31 0.09
184 9 0.03
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (174 bp):
TGAAATTGAAGTAGAGCTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGTCATC
CCCTTGAAATTTAAGTAAAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAATGTC
ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTC
Found at i:10393761 original size:31 final size:31
Alignment explanation
Indices: 10393651--10393966 Score: 116
Period size: 31 Copynumber: 9.5 Consensus size: 31
10393641 TCTTTATCTC
*
10393651 TGAAATTGAAGTAAGAGCGACGTCA-CCCCT
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCT
* ** * ***
10393681 TGAAATTAAAGTAGAGTGGATAACACGTCTTTATCT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT
10393717 CTGAAATTGAAGTAAGAGCAACGTCATCCCCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCCT
* * * * **
10393749 TGAAATTTAAGTAAAGTGGATAACATGTCTTCATCT
1 TGAAATTGAAGT-AAG-AG-CAAC--GTCATCCCCT
*
10393785 CTGAAATTGAAGTAAGAGCAATGTCATCCCCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCCT
** *
10393817 TGAAATTGAAGTAGAGTGGATAACACGCTTTCAT-CTC-
1 TGAAATTGAAGTA-A---GAGCA-ACG---TCATCCCCT
* * *
10393854 TAAAATTGAAGTAAAAGCAACGTCATCCTCT
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCT
** ** **
10393885 TGAAATTGAAGTAGAGTGGATAACACGTTTTCATCT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCATCCCCT
*
10393921 CTGAAATTGAAGTAAGAGCAACGTCATCCTCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCCCT
*
10393953 TGAAACTGAAGTAA
1 TGAAATTGAAGTAA
10393967 AGTTGGATAG
Statistics
Matches: 208, Mismatches: 49, Indels: 57
0.66 0.16 0.18
Matches are distributed among these distances:
29 4 0.02
30 15 0.07
31 50 0.24
32 32 0.15
33 9 0.04
34 7 0.03
35 11 0.05
36 26 0.12
37 48 0.23
38 2 0.01
39 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (31 bp):
TGAAATTGAAGTAAGAGCAACGTCATCCCCT
Found at i:10394308 original size:28 final size:28
Alignment explanation
Indices: 10394258--10394338 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 28
10394248 GGCCCAAACC
* *
10394258 ATTTGAAAATTAAATTTATTTTAATCTTAA
1 ATTTG-AATTTAAATTTAATTTAAT-TTAA
* *
10394288 ATTT-ACTTTAAATTCAATTTAAATTTAA
1 ATTTGAATTTAAATTTAATTT-AATTTAA
10394316 ATTTGAATTT-AATTTAATTTAAT
1 ATTTGAATTTAAATTTAATTTAAT
10394339 ATTATTATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
27 3 0.07
28 29 0.67
29 7 0.16
30 4 0.09
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (28 bp):
ATTTGAATTTAAATTTAATTTAATTTAA
Found at i:10394314 original size:6 final size:6
Alignment explanation
Indices: 10394267--10394337 Score: 55
Period size: 6 Copynumber: 12.7 Consensus size: 6
10394257 CATTTGAAAA
* * *
10394267 TTAAAT TT--AT TTTAAT CTTAAAT TT-ACT TTAAA- TTCAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
10394312 TTAAAT TTGAAT TT-AAT TT-AAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAA
10394338 TATTATTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
4 4 0.08
5 18 0.34
6 26 0.49
7 5 0.09
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:10394314 original size:17 final size:17
Alignment explanation
Indices: 10394287--10394352 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
10394277 TTTAATCTTA
*
10394287 AATTTACTTTAAA-TTC
1 AATTTAATTTAAATTTC
*
10394303 AATTTAAATTTAAATTTG
1 AATTT-AATTTAAATTTC
10394321 AATTTAATTT-AATTT-
1 AATTTAATTTAAATTTC
10394336 AATATT-ATTATAAATTT
1 AAT-TTAATT-TAAATTT
10394353 AAAAAGAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
15 6 0.14
16 13 0.30
17 17 0.40
18 7 0.16
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (17 bp):
AATTTAATTTAAATTTC
Found at i:10394324 original size:12 final size:11
Alignment explanation
Indices: 10394264--10394338 Score: 73
Period size: 11 Copynumber: 6.8 Consensus size: 11
10394254 AACCATTTGA
*
10394264 AAATTAAATTT
1 AAATTTAATTT
*
10394275 -ATTTTAATCTT
1 AAATTTAAT-TT
*
10394286 AAATTTACTTT
1 AAATTTAATTT
*
10394297 AAATTCAATTT
1 AAATTTAATTT
10394308 AAATTTAAATTT
1 AAATTT-AATTT
*
10394320 GAATTTAATTT
1 AAATTTAATTT
10394331 -AATTTAAT
1 AAATTTAAT
10394339 ATTATTATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
10 14 0.26
11 23 0.43
12 16 0.30
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:10394331 original size:5 final size:5
Alignment explanation
Indices: 10394265--10394338 Score: 58
Period size: 5 Copynumber: 13.6 Consensus size: 5
10394255 ACCATTTGAA
* * * *
10394265 AATTA AATTT ATTTT AATCTT AAATTT ACTTT AAATTC AATTT AAATTT
1 AATTT AATTT AATTT AAT-TT -AATTT AATTT -AATTT AATTT -AATTT
10394314 AAATTT GAATTT AATTT AATTT AAT
1 -AATTT -AATTT AATTT AATTT AAT
10394339 ATTATTATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
5 31 0.54
6 23 0.40
7 3 0.05
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (5 bp):
AATTT
Found at i:10395100 original size:16 final size:16
Alignment explanation
Indices: 10395056--10395104 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
10395046 GAGCTAATGT
*
10395056 AAAATAATATTAAT-A
1 AAAATAACATTAATAA
* *
10395071 ATAATAACTTTTAATAA
1 AAAATAAC-ATTAATAA
10395088 AAAATAACATTAATAA
1 AAAATAACATTAATAA
10395104 A
1 A
10395105 TATGGGTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
15 6 0.22
16 13 0.48
17 8 0.30
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATAACATTAATAA
Found at i:10396338 original size:30 final size:30
Alignment explanation
Indices: 10396299--10396505 Score: 299
Period size: 30 Copynumber: 6.9 Consensus size: 30
10396289 CCCTAAATAA
* * *
10396299 TCCAGAAATTATATTTTGACCCCAAAACTTC
1 TCCA-AAATTACATTTTGACCCTAAAACTTT
*
10396330 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
*
10396360 TCCAAAATTATATTTTGACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
*
10396390 TCCAAAATCACATTTTGACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
* *
10396420 TCCAAAATTATATTTTAACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
*
10396450 TCCAAAATTACATTTT-AACCTCAAAACTTT
1 TCCAAAATTACATTTTGACCCT-AAAACTTT
*
10396480 TCCAAAATTACATTTTAACCCTAAAA
1 TCCAAAATTACATTTTGACCCTAAAA
10396506 AATCTCCTAA
Statistics
Matches: 162, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
29 4 0.02
30 150 0.93
31 8 0.05
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCTAAAACTTT
Found at i:10398308 original size:13 final size:13
Alignment explanation
Indices: 10398292--10398346 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
10398282 TATTTTTGAG
*
10398292 AAGTGCTTTTAAA
1 AAGTACTTTTAAA
* *
10398305 AAGTACGTTAAAA
1 AAGTACTTTTAAA
*
10398318 AAGTAATTTTAAA
1 AAGTACTTTTAAA
10398331 AAGTACTTTTGAAA
1 AAGTACTTTT-AAA
10398345 AA
1 AA
10398347 TTTGGTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
13 29 0.85
14 5 0.15
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.33
Consensus pattern (13 bp):
AAGTACTTTTAAA
Found at i:10399801 original size:19 final size:18
Alignment explanation
Indices: 10399768--10399805 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
10399758 ATAACTTTTA
*
10399768 TTAAATAAATCTTAAAAT
1 TTAAATAAATATTAAAAT
10399786 TTAAATTAAATATTAAAAT
1 TTAAA-TAAATATTAAAAT
10399805 T
1 T
10399806 ATCAATACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAATAAATATTAAAAT
Found at i:10400730 original size:3 final size:3
Alignment explanation
Indices: 10400724--10400748 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10400714 GATGATCAGC
10400724 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
10400749 GTATGGTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10402648 original size:31 final size:31
Alignment explanation
Indices: 10402613--10402671 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
10402603 AATAAAAATG
*
10402613 TATAAATATATT-AAATATTAAAATAATATAA
1 TATAAATATATTAAAAAATTAAAA-AATATAA
*
10402644 TATAAATATTTTAAAAAATTAAAAAATA
1 TATAAATATATTAAAAAATTAAAAAATA
10402672 ATATGGTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 15 0.60
32 10 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (31 bp):
TATAAATATATTAAAAAATTAAAAAATATAA
Found at i:10403834 original size:19 final size:19
Alignment explanation
Indices: 10403806--10403843 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
10403796 AAAAACCAAA
*
10403806 TAAGCTCAAATCCT-AAAAC
1 TAAGCCCAAA-CCTCAAAAC
10403825 TAAGCCCAAACCTCAAAAC
1 TAAGCCCAAACCTCAAAAC
10403844 CTAACCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.47, C:0.32, G:0.05, T:0.16
Consensus pattern (19 bp):
TAAGCCCAAACCTCAAAAC
Found at i:10405656 original size:58 final size:57
Alignment explanation
Indices: 10405585--10405933 Score: 391
Period size: 58 Copynumber: 6.0 Consensus size: 57
10405575 GAAGAAACGA
* * * **
10405585 TGAAATCAGGGTTAAAAATGAGACTTTTGGATA-CCGGGGGTAAAATGGTAATTTTTGG
1 TGAAATTAGGGTT-AAAATG-GAATTTTGGAAAGTTGGGGGTAAAATGGTAATTTTTGG
* *
10405643 TAAAATTAGGGTTAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGG
1 TGAAATTAGGGTTAAAATGGAATTTTGGAAAG-TTGGGGGTAAAATGGTAATTTTTGG
*
10405701 TGAAA-TCGAGGTTAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAA-TTTTGG
1 TGAAATTAG-GGTTAAAATGGAATTTTGGAAAG-TTGGGGGTAAAATGGTAATTTTTGG
* * * *
10405758 TGAAA-TCGGGATTAAAAATGGAATTTTAGAGAGTTTGAGGGTAAAATGGTAATTTTTGG
1 TGAAATTAGGG-TT-AAAATGGAATTTTGGAAAG-TTGGGGGTAAAATGGTAATTTTTGG
* * * *
10405817 TGAAATTGGGGTTAAAATAGAATTATGGAAAGTTTAGGGGTAAAATGGTAATTTTTGG
1 TGAAATTAGGGTTAAAATGGAATTTTGGAAAG-TTGGGGGTAAAATGGTAATTTTTGG
** * *
10405875 TGAAATCGGGGTTAAAATAGAATTTTGGAAAGTTTTGGGGGTAGAATGGTAATTTTTGG
1 TGAAATTAGGGTTAAAATGGAATTTTGGAAAG--TTGGGGGTAAAATGGTAATTTTTGG
10405934 AAGTTTCAGG
Statistics
Matches: 259, Mismatches: 24, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
56 12 0.05
57 24 0.09
58 182 0.70
59 37 0.14
60 4 0.02
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.34
Consensus pattern (57 bp):
TGAAATTAGGGTTAAAATGGAATTTTGGAAAGTTGGGGGTAAAATGGTAATTTTTGG
Found at i:10405740 original size:116 final size:115
Alignment explanation
Indices: 10405620--10405933 Score: 443
Period size: 116 Copynumber: 2.7 Consensus size: 115
10405610 TTTGGATACC
*
10405620 GGGGGTAAAATGGTAATTTTTGGTAAAATTAGGGTTAAAATGGAATTTTGGAAAGTTTAGGGGTA
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAATGGAATTTTGGAAAGTTT-GGGGTA
* *
10405685 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGAATTTTGGAAAGTTT
65 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAATAGAATTATGGAAAGTTT
* * *
10405736 GGGGGTAAAATGGTAA-TTTTGGTGAAA-TCGGGATTAAAAATGGAATTTTAGAGAGTTTGAGGG
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTAGGG-TT-AAAATGGAATTTTGGAAAGTTTG-GGG
* *
10405799 TAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAATAGAATTATGGAAAGTTT
63 TAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATAGAATTATGGAAAGTTT
* ** *
10405852 AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATAGAATTTTGGAAAGTTTTGGGGGT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAATGGAATTTTGGAAAG-TTT-GGGGT
*
10405917 AGAATGGTAATTTTTGG
64 AAAATGGTAATTTTTGG
10405934 AAGTTTCAGG
Statistics
Matches: 176, Mismatches: 15, Indels: 13
0.86 0.07 0.06
Matches are distributed among these distances:
114 4 0.02
115 13 0.07
116 119 0.68
117 36 0.20
118 4 0.02
ACGTcount: A:0.34, C:0.01, G:0.31, T:0.35
Consensus pattern (115 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAATGGAATTTTGGAAAGTTTGGGGTAA
AATGGTAATTTTTGGTGAAATCGAGGTTAAAATAGAATTATGGAAAGTTT
Found at i:10405914 original size:29 final size:29
Alignment explanation
Indices: 10405620--10405989 Score: 204
Period size: 30 Copynumber: 12.7 Consensus size: 29
10405610 TTTGGATACC
* *
10405620 GGGGGTAAAATGGTAATTTTTGGTAAA-ATT
1 GGGGTTAAAATGGTAA-TTTTGG-AAAGTTT
*
10405650 AGGGTTAAAATGG-AATTTTGGAAAGTTT
1 GGGGTTAAAATGGTAATTTTGGAAAGTTT
*
10405678 AGGGG-TAAAATGGTAATTTTTGGTGAAA--TC
1 -GGGGTTAAAATGGTAA-TTTT-G-GAAAGTTT
*
10405708 GAGGTTAAAATGG-AATTTTGGAAAGTTT
1 GGGGTTAAAATGGTAATTTTGGAAAGTTT
* *
10405736 GGGGGTAAAATGGTAATTTTGGTGAAA--TC
1 GGGGTTAAAATGGTAATTTT-G-GAAAGTTT
* * *
10405765 GGGATTAAAAATGG-AATTTTAGAGAGTTT
1 GGGGTT-AAAATGGTAATTTTGGAAAGTTT
10405794 GAGGG-TAAAATGGTAATTTTTGGTGAAA--TT
1 G-GGGTTAAAATGGTAA-TTTT-G-GAAAGTTT
* *
10405824 GGGGTTAAAATAG-AATTATGGAAAGTTT
1 GGGGTTAAAATGGTAATTTTGGAAAGTTT
*
10405852 AGGGG-TAAAATGGTAATTTTTGGTGAAA--TC
1 -GGGGTTAAAATGGTAA-TTTT-G-GAAAGTTT
*
10405882 GGGGTTAAAATAG-AATTTTGGAAAGTTTT
1 GGGGTTAAAATGGTAATTTTGGAAAG-TTT
* *
10405911 GGGGGTAGAATGGTAATTTTTGG-AAGTTT
1 GGGGTTAAAATGGTAA-TTTTGGAAAGTTT
* * ** *
10405940 CAGGGTCAAAATTGG-AATTTTCTAAAATTTT
1 -GGGGTTAAAA-TGGTAATTTT-GGAAAGTTT
*
10405971 GGGGTCAAAAT-GTAATTTT
1 GGGGTTAAAATGGTAATTTT
10405990 TGGACTGTTT
Statistics
Matches: 265, Mismatches: 36, Indels: 79
0.70 0.09 0.21
Matches are distributed among these distances:
26 12 0.05
27 9 0.03
28 56 0.21
29 76 0.29
30 81 0.31
31 20 0.08
32 11 0.04
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.35
Consensus pattern (29 bp):
GGGGTTAAAATGGTAATTTTGGAAAGTTT
Found at i:10407237 original size:6 final size:6
Alignment explanation
Indices: 10407228--10407295 Score: 74
Period size: 6 Copynumber: 12.0 Consensus size: 6
10407218 TTAATATTAT
10407228 TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA TTTAAGA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA
* *
10407273 TTTAAA ATT-AA TTTAAA CTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
10407296 AAATCAAAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
4 3 0.06
5 11 0.21
6 38 0.72
7 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:10407237 original size:17 final size:16
Alignment explanation
Indices: 10407229--10407277 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
10407219 TAATATTATT
*
10407229 TTAAATTT-AATTAAA
1 TTAAATTTAAATTTAA
10407244 TTTAAATTTAAATTTAA
1 -TTAAATTTAAATTTAA
*
10407261 GATAAATTTAAATTTAA
1 -TTAAATTTAAATTTAA
10407278 AATTAATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 8 0.28
17 21 0.72
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TTAAATTTAAATTTAA
Found at i:10407252 original size:23 final size:23
Alignment explanation
Indices: 10407228--10407295 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
10407218 TTAATATTAT
10407228 TTTAAATTTAA-TTAAATTTAAA
1 TTTAAATTTAAGTTAAATTTAAA
*
10407250 TTTAAATTTAAGATAAATTTAAA
1 TTTAAATTTAAGTTAAATTTAAA
* * *
10407273 TTTAAAATTAATTTAAACTTAAA
1 TTTAAATTTAAGTTAAATTTAAA
10407296 AAATCAAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 11 0.28
23 29 0.73
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (23 bp):
TTTAAATTTAAGTTAAATTTAAA
Found at i:10407285 original size:17 final size:17
Alignment explanation
Indices: 10407246--10407296 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
10407236 TAATTAAATT
*
10407246 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAAAA
10407263 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
10407280 TTAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
10407297 AATCAAAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:10409327 original size:14 final size:14
Alignment explanation
Indices: 10409308--10409335 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10409298 TATATTAGTA
10409308 TTTTCTATTCTATT
1 TTTTCTATTCTATT
10409322 TTTTCTATTCTATT
1 TTTTCTATTCTATT
10409336 AGTGAGTCCT
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:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:10415502 original size:20 final size:21
Alignment explanation
Indices: 10415479--10415517 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10415469 TTTTTTTACT
10415479 TTATAAT-TATTTTTTAAAAA
1 TTATAATGTATTTTTTAAAAA
**
10415499 TTATCGTGTATTTTTTAAA
1 TTATAATGTATTTTTTAAA
10415518 TATTTTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (21 bp):
TTATAATGTATTTTTTAAAAA
Found at i:10417798 original size:35 final size:35
Alignment explanation
Indices: 10417752--10417824 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
10417742 TGATACCAAC
*
10417752 CTTGTAAATTCCTCCTCTCCAATGAATGGCAACGA
1 CTTGTAAATTCCTCCACTCCAATGAATGGCAACGA
*
10417787 CTTGTAAATTCCTCCACTCCAATGGATGGCAACGA
1 CTTGTAAATTCCTCCACTCCAATGAATGGCAACGA
10417822 CTT
1 CTT
10417825 CCCAAACATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (35 bp):
CTTGTAAATTCCTCCACTCCAATGAATGGCAACGA
Found at i:10427119 original size:4 final size:4
Alignment explanation
Indices: 10427110--10427141 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
10427100 ATATGCAGAC
10427110 AATA AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA
10427142 GTAATATAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:10431378 original size:17 final size:19
Alignment explanation
Indices: 10431340--10431380 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
10431330 TAATAAAAAT
*
10431340 ATTTATATTTAAGTTTTTA
1 ATTTATATTTAAGTTTTAA
10431359 ATTTATA-TTAA-TTTTAA
1 ATTTATATTTAAGTTTTAA
10431376 ATTTA
1 ATTTA
10431381 ATCTCTACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 4 0.19
19 7 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTATATTTAAGTTTTAA
Found at i:10432067 original size:33 final size:31
Alignment explanation
Indices: 10431991--10432087 Score: 95
Period size: 33 Copynumber: 2.9 Consensus size: 31
10431981 TAGTTTCAGT
** *
10431991 TTTCTAATTTTTTTTATATTTATAATTTTGAGA
1 TTTCTAAAATTTTTTATATTTATAA-TTT-AAA
*
10432024 TTTCTTAAATTATTTTATATTTATAATTTAAA
1 TTTCTAAAATT-TTTTATATTTATAATTTAAA
*
10432056 TTTTCTAAAATTTTATATATTTTATATATTTA
1 -TTTCTAAAATTTTTTATA-TTTATA-ATTTA
10432088 TTTTTTTTAG
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
32 8 0.15
33 27 0.50
34 19 0.35
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (31 bp):
TTTCTAAAATTTTTTATATTTATAATTTAAA
Found at i:10432968 original size:17 final size:17
Alignment explanation
Indices: 10432944--10432993 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
10432934 ATTTATTTAA
10432944 TAATTTTTATAATTTTC
1 TAATTTTTATAATTTTC
* *
10432961 TCCA-TTTTATAAGTTTC
1 T-AATTTTTATAATTTTC
10432978 TAATTTTTATAATTTT
1 TAATTTTTATAATTTT
10432994 TTTTATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 1 0.04
17 25 0.93
18 1 0.04
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (17 bp):
TAATTTTTATAATTTTC
Found at i:10433085 original size:28 final size:29
Alignment explanation
Indices: 10433020--10433092 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 29
10433010 TAATTTTTTA
*
10433020 AACTTTTTACAATATTTTAATAATTTCTAGT
1 AACTTTTT--AATATTTTAATAATTTATAGT
*
10433051 AA-TTTTTAATATTTTAATACTTTATAAG-
1 AACTTTTTAATATTTTAATAATTTAT-AGT
10433079 AACTTTTTAATATT
1 AACTTTTTAATATT
10433093 AGAAAATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 18 0.47
29 13 0.34
30 5 0.13
31 2 0.05
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (29 bp):
AACTTTTTAATATTTTAATAATTTATAGT
Found at i:10433374 original size:24 final size:25
Alignment explanation
Indices: 10433324--10433379 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
10433314 AGCCTCGTTG
*
10433324 ATTATATTTTATGATTTTTTATACA
1 ATTATATTTTATGATTTTTAATACA
10433349 ATTATATTTTAT-ATTTTTAA-ATCA
1 ATTATATTTTATGATTTTTAATA-CA
10433373 ATTATAT
1 ATTATAT
10433380 CAAACTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 1 0.03
24 16 0.55
25 12 0.41
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (25 bp):
ATTATATTTTATGATTTTTAATACA
Found at i:10437394 original size:14 final size:14
Alignment explanation
Indices: 10437375--10437404 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10437365 GATTAGTATG
10437375 TTAATTAAATAAGA
1 TTAATTAAATAAGA
10437389 TTAATTAAATAAGA
1 TTAATTAAATAAGA
10437403 TT
1 TT
10437405 GAACATACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (14 bp):
TTAATTAAATAAGA
Found at i:10439807 original size:2 final size:2
Alignment explanation
Indices: 10439800--10439824 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10439790 CTAATTATGC
10439800 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
10439825 ATATTCATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10440124 original size:4 final size:4
Alignment explanation
Indices: 10440115--10440139 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
10440105 TTCAATAATT
10440115 ATGG ATGG ATGG ATGG ATGG ATGG A
1 ATGG ATGG ATGG ATGG ATGG ATGG A
10440140 GGAGGCTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.24
Consensus pattern (4 bp):
ATGG
Found at i:10442157 original size:39 final size:39
Alignment explanation
Indices: 10442114--10442189 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
10442104 TTTTTATTAT
* *
10442114 AATTTAAATTTATAAATTTCATATATTATAATATTAACG
1 AATTTAAATTGATAAATTTCATATATCATAATATTAACG
** **
10442153 AATTTAGGTTGATATTTTTCATATATCATAATATTAA
1 AATTTAAATTGATAAATTTCATATATCATAATATTAA
10442190 TTACTTAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (39 bp):
AATTTAAATTGATAAATTTCATATATCATAATATTAACG
Found at i:10444011 original size:15 final size:16
Alignment explanation
Indices: 10443977--10444014 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
10443967 GAAGGTGGAT
*
10443977 GGGGACAAAATGAAATA
1 GGGGA-AAAATGAAAGA
10443994 GGGGAAAAATG-AAGA
1 GGGGAAAAATGAAAGA
10444009 GGGGAA
1 GGGGAA
10444015 TATAGGTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 6 0.30
17 5 0.25
ACGTcount: A:0.50, C:0.03, G:0.39, T:0.08
Consensus pattern (16 bp):
GGGGAAAAATGAAAGA
Found at i:10445910 original size:23 final size:24
Alignment explanation
Indices: 10445884--10445947 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
10445874 ACAGCCCAAA
*
10445884 CCCATTTAGCTAGACAATCT-AAG
1 CCCATTTAGCTAGACAAGCTCAAG
* * *
10445907 CCCACTTAACTTTGAC-AGCTCAAG
1 CCCATTTAGC-TAGACAAGCTCAAG
*
10445931 CCCATTTAGCTAAACAA
1 CCCATTTAGCTAGACAA
10445948 CAAAACAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
23 14 0.47
24 16 0.53
ACGTcount: A:0.34, C:0.30, G:0.11, T:0.25
Consensus pattern (24 bp):
CCCATTTAGCTAGACAAGCTCAAG
Found at i:10448893 original size:38 final size:38
Alignment explanation
Indices: 10448848--10448921 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
10448838 CATGGTTTAT
*
10448848 GATTTAGGATTTAATTTTGGGGTTAGAGATGATTATGG
1 GATTTAGGATTTAATTTTGCGGTTAGAGATGATTATGG
*
10448886 GATTTAGGATTTAATTTTGCGGTTAGAGATTATTAT
1 GATTTAGGATTTAATTTTGCGGTTAGAGATGATTAT
10448922 ATACACAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (38 bp):
GATTTAGGATTTAATTTTGCGGTTAGAGATGATTATGG
Found at i:10448911 original size:19 final size:19
Alignment explanation
Indices: 10448851--10448916 Score: 50
Period size: 19 Copynumber: 3.5 Consensus size: 19
10448841 GGTTTATGAT
10448851 TTAG-GATTTAATTTTGGGG
1 TTAGAGATTTAATTTT-GGG
* *
10448870 TTAGAGA--TGATTATGGG
1 TTAGAGATTTAATTTTGGG
10448887 ATTTAG-GATTTAATTTTGCGG
1 --TTAGAGATTTAATTTTG-GG
10448908 TTAGAGATT
1 TTAGAGATT
10448917 ATTATATACA
Statistics
Matches: 36, Mismatches: 4, Indels: 13
0.68 0.08 0.25
Matches are distributed among these distances:
17 3 0.08
18 7 0.19
19 12 0.33
20 12 0.33
21 2 0.06
ACGTcount: A:0.26, C:0.02, G:0.29, T:0.44
Consensus pattern (19 bp):
TTAGAGATTTAATTTTGGG
Found at i:10461011 original size:59 final size:59
Alignment explanation
Indices: 10460936--10461072 Score: 152
Period size: 58 Copynumber: 2.3 Consensus size: 59
10460926 TGGACTTTCG
* * **
10460936 GGGGGCAAAATGGTAATTTTTGGTAAAATC-GGGGTAAAAAATGAAATTTTGGAAAGTTTA
1 GGGGTCAAAAT-GTAATTTTTGGTAAAATCAAGGG-AAAAAATGAAATTTTGGAAAACTTA
* * * *
10460996 GGGGTCAAAATGTAA-TTTTGGTGAAATCAAGGGCAAAAATGGAATTTTGTAAAACTTA
1 GGGGTCAAAATGTAATTTTTGGTAAAATCAAGGGAAAAAATGAAATTTTGGAAAACTTA
* *
10461054 AGGGTTAAAATGTAATTTT
1 GGGGTCAAAATGTAATTTT
10461073 CAAAAAGTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
58 45 0.69
59 10 0.15
60 10 0.15
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.31
Consensus pattern (59 bp):
GGGGTCAAAATGTAATTTTTGGTAAAATCAAGGGAAAAAATGAAATTTTGGAAAACTTA
Found at i:10461034 original size:29 final size:29
Alignment explanation
Indices: 10461002--10461072 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
10460992 TTTAGGGGTC
*
10461002 AAAATGTAATTTTGGTGAAA-TCAAGGGCA
1 AAAATGTAATTTT-GTAAAACTCAAGGGCA
* * **
10461031 AAAATGGAATTTTGTAAAACTTAAGGGTT
1 AAAATGTAATTTTGTAAAACTCAAGGGCA
10461060 AAAATGTAATTTT
1 AAAATGTAATTTT
10461073 CAAAAAGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 5 0.14
29 30 0.86
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (29 bp):
AAAATGTAATTTTGTAAAACTCAAGGGCA
Found at i:10461078 original size:29 final size:29
Alignment explanation
Indices: 10461031--10461162 Score: 131
Period size: 30 Copynumber: 4.4 Consensus size: 29
10461021 ATCAAGGGCA
* * * *
10461031 AAAATGGAATTTTGTAAAACTTAAGGGTT
1 AAAATGTAATTTTGAAAAATTTTAGGGTT
*
10461060 AAAATGTAATTTTCAAAAAGTTTT-GGGTTT
1 AAAATGTAATTTTGAAAAA-TTTTAGGG-TT
* * *
10461090 AAAATATAATTTTGGAGAAATTTTGGGGTT
1 AAAATGTAATTTT-GAAAAATTTTAGGGTT
*
10461120 AAAATGTAATTTTTAAAAAGTTTTAGGGTT
1 AAAATGTAATTTTGAAAAA-TTTTAGGGTT
*
10461150 AAAATATAATTTT
1 AAAATGTAATTTT
10461163 AGAGAAGTTC
Statistics
Matches: 85, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
29 23 0.27
30 55 0.65
31 7 0.08
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.41
Consensus pattern (29 bp):
AAAATGTAATTTTGAAAAATTTTAGGGTT
Found at i:10461094 original size:30 final size:29
Alignment explanation
Indices: 10461055--10461214 Score: 137
Period size: 30 Copynumber: 5.3 Consensus size: 29
10461045 TAAAACTTAA
10461055 GGGTTAAAATGTAATTTTCAAAAAGTTTT
1 GGGTTAAAATGTAATTTTCAAAAAGTTTT
* * *
10461084 GGGTTTAAAATATAATTTTGGAGAAA-TTTT
1 GGG-TTAAAATGTAATTTT-CAAAAAGTTTT
*
10461114 GGGGTTAAAATGTAATTTTTAAAAAGTTTT
1 -GGGTTAAAATGTAATTTTCAAAAAGTTTT
* * *
10461144 AGGGTTAAAATATAATTTT-AGAGAAG-TTC
1 -GGGTTAAAATGTAATTTTCA-AAAAGTTTT
* * *
10461173 GAGAGTCAACATGTAATTTCCAAAAAGTTTT
1 G-G-GTTAAAATGTAATTTTCAAAAAGTTTT
10461204 GGGGTTAAAAT
1 -GGGTTAAAAT
10461215 ACTATTTTTG
Statistics
Matches: 103, Mismatches: 18, Indels: 19
0.74 0.13 0.14
Matches are distributed among these distances:
28 1 0.01
29 11 0.11
30 79 0.77
31 11 0.11
32 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (29 bp):
GGGTTAAAATGTAATTTTCAAAAAGTTTT
Found at i:10461127 original size:60 final size:59
Alignment explanation
Indices: 10461054--10461226 Score: 213
Period size: 60 Copynumber: 2.9 Consensus size: 59
10461044 GTAAAACTTA
* *
10461054 AGGGTTAAAATGTAATTTTCAAAAAGTTTTGGGTTTAAAATATAATTTTGGAGAAATTTTG
1 AGGGTTAAAATGTAATTTTCAAAAAGTTTTGGG-TTAAAATATAATTTTGGAG-AAGTTCG
* *
10461115 -GGGTTAAAATGTAATTTTTAAAAAGTTTTAGGGTTAAAATATAATTTTAGAGAAGTTCG
1 AGGGTTAAAATGTAATTTTCAAAAAGTTTT-GGGTTAAAATATAATTTTGGAGAAGTTCG
* * * * *
10461174 AGAGTCAACATGTAATTTCCAAAAAGTTTTGGGGTTAAAATACTATTTTTGGA
1 AGGGTTAAAATGTAATTTTCAAAAAGTTTT-GGGTTAAAATA-TAATTTTGGA
10461227 CAGTTTAGAG
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
59 5 0.05
60 81 0.84
61 11 0.11
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.39
Consensus pattern (59 bp):
AGGGTTAAAATGTAATTTTCAAAAAGTTTTGGGTTAAAATATAATTTTGGAGAAGTTCG
Found at i:10462442 original size:19 final size:18
Alignment explanation
Indices: 10462415--10462471 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
10462405 ACTAATGTTT
*
10462415 ATTATTGTTAATATTATTA
1 ATTAATGTT-ATATTATTA
*
10462434 ATTAATGTTGTCATTATTA
1 ATTAATGTTAT-ATTATTA
* *
10462453 A-TACTATTATATTATTA
1 ATTAATGTTATATTATTA
10462470 AT
1 AT
10462472 ATTATCTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 8 0.26
18 7 0.23
19 16 0.52
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (18 bp):
ATTAATGTTATATTATTA
Found at i:10462488 original size:16 final size:16
Alignment explanation
Indices: 10462464--10462495 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10462454 TACTATTATA
*
10462464 TTATTAATATTATCTT
1 TTATAAATATTATCTT
10462480 TTATAAATATTATCTT
1 TTATAAATATTATCTT
10462496 ATATTTAATA
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:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATAAATATTATCTT
Found at i:10465070 original size:17 final size:15
Alignment explanation
Indices: 10465050--10465100 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
10465040 AAAATCATAA
10465050 AATATAAATATTCAAGT
1 AATATAAATATT-AA-T
10465067 AATA-AAAGTATTAAT
1 AATATAAA-TATTAAT
*
10465082 GATATAAATAATTAAT
1 AATATAAAT-ATTAAT
10465098 AAT
1 AAT
10465101 TATCTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 5 0.17
16 16 0.55
17 8 0.28
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (15 bp):
AATATAAATATTAAT
Found at i:10468059 original size:31 final size:33
Alignment explanation
Indices: 10468024--10468095 Score: 94
Period size: 31 Copynumber: 2.2 Consensus size: 33
10468014 TTTCTATACT
*
10468024 TTTAATTTCATCAATTTTAG-TTAT-TGTATTC
1 TTTAATTTAATCAATTTTAGTTTATATGTATTC
* * *
10468055 TTTAAATTAATCAATTTTAGTTTATATGTTTTT
1 TTTAATTTAATCAATTTTAGTTTATATGTATTC
10468088 TTTAATTT
1 TTTAATTT
10468096 TAAAATTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 18 0.53
32 4 0.12
33 12 0.35
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (33 bp):
TTTAATTTAATCAATTTTAGTTTATATGTATTC
Found at i:10471862 original size:34 final size:32
Alignment explanation
Indices: 10471823--10471912 Score: 81
Period size: 34 Copynumber: 2.6 Consensus size: 32
10471813 AATAAAGATA
* *
10471823 TAAATTTAATTTTAAATTAAATTTATTTTGAATT
1 TAAATTTAA--TTAAATTAAATTTATTATAAATT
* * *
10471857 TAAATTTGCATAAAATTTGAATTTATTATAAATT
1 TAAATTT-AATTAAA-TTAAATTTATTATAAATT
10471891 TAAATTTAAAATTAAATTAAAT
1 TAAATTT--AATTAAATTAAAT
10471913 ATTTAAAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
33 4 0.09
34 34 0.77
35 6 0.14
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (32 bp):
TAAATTTAATTAAATTAAATTTATTATAAATT
Found at i:10471873 original size:17 final size:17
Alignment explanation
Indices: 10471823--10471898 Score: 68
Period size: 17 Copynumber: 4.5 Consensus size: 17
10471813 AATAAAGATA
*
10471823 TAAATTTAATTTTAAA-T
1 TAAATTT-ATTATAAATT
* *
10471840 TAAATTTATTTTGAATT
1 TAAATTTATTATAAATT
10471857 TAAATTTGCA-TA-AAATT
1 TAAATTT--ATTATAAATT
*
10471874 TGAATTTATTATAAATT
1 TAAATTTATTATAAATT
10471891 TAAATTTA
1 TAAATTTA
10471899 AAATTAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
15 1 0.02
16 9 0.18
17 37 0.76
18 1 0.02
19 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (17 bp):
TAAATTTATTATAAATT
Found at i:10471918 original size:19 final size:18
Alignment explanation
Indices: 10471885--10471922 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
10471875 GAATTTATTA
*
10471885 TAAATTTAAATTTAAAAT
1 TAAATTAAAATTTAAAAT
10471903 TAAATTAAATATTTAAAAT
1 TAAATTAAA-ATTTAAAAT
10471922 T
1 T
10471923 CATTTACAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAAAATTTAAAAT
Found at i:10477510 original size:20 final size:21
Alignment explanation
Indices: 10477470--10477510 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10477460 CGATAAGTTG
10477470 AACTAATAATCGAAAAGACTC
1 AACTAATAATCGAAAAGACTC
* *
10477491 AACTGATAATC-AAGAGACTC
1 AACTAATAATCGAAAAGACTC
10477511 GATTGGTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.49, C:0.20, G:0.12, T:0.20
Consensus pattern (21 bp):
AACTAATAATCGAAAAGACTC
Found at i:10478166 original size:23 final size:23
Alignment explanation
Indices: 10478140--10478209 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
10478130 TTCATTTAAC
10478140 TTAATCGAACATGTTCACGAACA
1 TTAATCGAACATGTTCACGAACA
* * *
10478163 TTAAACGAACATGTTTATGAACA
1 TTAATCGAACATGTTCACGAACA
*
10478186 TATAATTGAACATGTTCACGAACA
1 T-TAATCGAACATGTTCACGAACA
10478210 ATATTAATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 21 0.54
24 18 0.46
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:10478328 original size:12 final size:12
Alignment explanation
Indices: 10478299--10478343 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
10478289 ATTATTAATA
*
10478299 AATAAACGAGTC
1 AATAAACAAGTC
10478311 -ATAAACAAGTC
1 AATAAACAAGTC
*
10478322 AATAAACAAGCC
1 AATAAACAAGTC
10478334 AATAAACAAG
1 AATAAACAAG
10478344 CTTTTAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 10 0.33
12 20 0.67
ACGTcount: A:0.58, C:0.18, G:0.11, T:0.13
Consensus pattern (12 bp):
AATAAACAAGTC
Found at i:10490451 original size:30 final size:29
Alignment explanation
Indices: 10490415--10490638 Score: 112
Period size: 29 Copynumber: 7.7 Consensus size: 29
10490405 CTCGGGGGAC
10490415 AAAATGGTAATTTTGATGAAATCGAGGTTA
1 AAAATGGTAATTTTG-TGAAATCGAGGTTA
* *
10490445 AAAATGG-AATTTTG-GAAGATTCGGGGGT-
1 AAAATGGTAATTTTGTGAA-A-TCGAGGTTA
10490473 AAAATGGTAATTTTAGGTGAAATCGAGGTTA
1 AAAATGGTAATTTT--GTGAAATCGAGGTTA
* * * * * *
10490504 AAAATGG-GATTTAGGGAAGTTTG-GGAGT-
1 AAAATGGTAATTTTGTGAA-ATCGAGG-TTA
*
10490532 AAAATGGTAATTTTGGGTGAAATCGAGGTCA
1 AAAATGGTAATTTT--GTGAAATCGAGGTTA
* * * *
10490563 AAAAT-GAAATTTTG-GAAAATTTGGGGGT-
1 AAAATGGTAATTTTGTG-AAA-TCGAGGTTA
* *
10490591 AAAATGGTAATTTTGGGTGAAAT-TAGGTTT
1 AAAATGGTAATTTT--GTGAAATCGAGGTTA
10490621 AAAATGG-AATTTTG-GAAA
1 AAAATGGTAATTTTGTGAAA
10490639 GTTAGGGTCA
Statistics
Matches: 147, Mismatches: 26, Indels: 46
0.67 0.12 0.21
Matches are distributed among these distances:
26 4 0.03
27 5 0.03
28 30 0.20
29 46 0.31
30 34 0.23
31 24 0.16
32 4 0.03
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.32
Consensus pattern (29 bp):
AAAATGGTAATTTTGTGAAATCGAGGTTA
Found at i:10490469 original size:59 final size:59
Alignment explanation
Indices: 10490406--10490637 Score: 308
Period size: 59 Copynumber: 3.9 Consensus size: 59
10490396 TTTTAGACTC
* *
10490406 TCGGGGGACAAAATGGTAATTTT-GATGAAATCGAGGTTAAAAATGGAATTTTGGAAGAT
1 TCGGGGG-TAAAATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAGAT
* * *
10490465 TCGGGGGTAAAATGGTAATTTTAGGTGAAATCGAGGTTAAAAATGGGATTTAGGGAAG-T
1 TCGGGGGTAAAATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTT-TGGAAGAT
* * * * *
10490524 TTGGGAGTAAAATGGTAATTTTGGGTGAAATCGAGGTCAAAAATGAAATTTTGGAAAAT
1 TCGGGGGTAAAATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAGAT
* * *
10490583 TTGGGGGTAAAATGGTAATTTTGGGTGAAAT-TAGGTTTAAAATGGAATTTTGGAA
1 TCGGGGGTAAAATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTTGGAA
10490638 AGTTAGGGTC
Statistics
Matches: 153, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
58 38 0.25
59 110 0.72
60 5 0.03
ACGTcount: A:0.36, C:0.03, G:0.30, T:0.31
Consensus pattern (59 bp):
TCGGGGGTAAAATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAGAT
Found at i:10490662 original size:29 final size:30
Alignment explanation
Indices: 10490630--10490721 Score: 82
Period size: 29 Copynumber: 3.1 Consensus size: 30
10490620 TAAAATGGAA
*
10490630 TTTTGGAAAG-TTAGGGTCAAAATGTAATT
1 TTTTAGAAAGTTTAGGGTCAAAATGTAATT
* *
10490659 TTTTAGAAAGTTTTGGGGTCAAAGTGTAA--
1 TTTTAGAAAG-TTTAGGGTCAAAATGTAATT
* * *
10490688 TTTTAGAAAATTTTCGAGGTCAAAATATAATT
1 TTTTAG-AAAGTTTAG-GGTCAAAATGTAATT
10490720 TT
1 TT
10490722 AAAAAAGTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
29 19 0.38
30 14 0.28
31 15 0.30
32 2 0.04
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (30 bp):
TTTTAGAAAGTTTAGGGTCAAAATGTAATT
Found at i:10490681 original size:31 final size:30
Alignment explanation
Indices: 10490643--10490742 Score: 121
Period size: 31 Copynumber: 3.3 Consensus size: 30
10490633 TGGAAAGTTA
10490643 GGGTCAAAATGTAATTTTTTAGAAAGTTTTG
1 GGGTCAAAATGTAA-TTTTTAGAAAGTTTTG
* *
10490674 GGGTCAAAGTGTAA-TTTTAGAAAATTTTCG
1 GGGTCAAAATGTAATTTTTAGAAAGTTTT-G
* * * *
10490704 AGGTCAAAATATAATTTTAAAAAAGTTTTG
1 GGGTCAAAATGTAATTTTTAGAAAGTTTTG
10490734 GGGTCAAAA
1 GGGTCAAAA
10490743 CATATTCAGG
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
29 13 0.22
30 21 0.36
31 24 0.41
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (30 bp):
GGGTCAAAATGTAATTTTTAGAAAGTTTTG
Found at i:10490711 original size:30 final size:29
Alignment explanation
Indices: 10490643--10490742 Score: 119
Period size: 30 Copynumber: 3.3 Consensus size: 29
10490633 TGGAAAGTTA
*
10490643 GGGTCAAAATGTAATTTTTTAGAAAGTTTTG
1 GGGTCAAAATGTAA--TTTTAGAAAATTTTG
*
10490674 GGGTCAAAGTGTAATTTTAGAAAATTTTCG
1 GGGTCAAAATGTAATTTTAGAAAATTTT-G
* * *
10490704 AGGTCAAAATATAATTTTAAAAAAGTTTTG
1 GGGTCAAAATGTAATTTTAGAAAA-TTTTG
10490734 GGGTCAAAA
1 GGGTCAAAA
10490743 CATATTCAGG
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
29 13 0.22
30 30 0.50
31 17 0.28
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (29 bp):
GGGTCAAAATGTAATTTTAGAAAATTTTG
Found at i:10492387 original size:15 final size:15
Alignment explanation
Indices: 10492367--10492403 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
10492357 CCAATTGACC
10492367 TTTGTAATTTAGACA
1 TTTGTAATTTAGACA
*
10492382 TTTGTAA-TTGGACA
1 TTTGTAATTTAGACA
10492396 TTT-TAATT
1 TTTGTAATT
10492404 CAATTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 3 0.15
14 10 0.50
15 7 0.35
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (15 bp):
TTTGTAATTTAGACA
Found at i:10492454 original size:17 final size:17
Alignment explanation
Indices: 10492412--10492509 Score: 106
Period size: 17 Copynumber: 5.7 Consensus size: 17
10492402 TTCAATTTAT
* *
10492412 AATAATTTTAAATTTGAA
1 AATAAATTTAAACTT-AA
*
10492430 AATAAATTTAAACTCAA
1 AATAAATTTAAACTTAA
* *
10492447 ATTAAATTTAAATTTAA
1 AATAAATTTAAACTTAA
* *
10492464 AATAAACTTAAATTTAA
1 AATAAATTTAAACTTAA
* *
10492481 AACAAATTTAATCTTAA
1 AATAAATTTAAACTTAA
10492498 AATAAATTTAAA
1 AATAAATTTAAA
10492510 ATGAGTTTGG
Statistics
Matches: 66, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
17 54 0.82
18 12 0.18
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (17 bp):
AATAAATTTAAACTTAA
Found at i:10492457 original size:6 final size:6
Alignment explanation
Indices: 10492418--10492481 Score: 53
Period size: 6 Copynumber: 11.0 Consensus size: 6
10492408 TTATAATAAT
* * *
10492418 TTTAAA TTTGAAA -ATAAA TTTAAA CTCAAA -TTAAA TTTAAA TTTAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
10492465 -ATAAA CTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
10492482 ACAAATTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
5 11 0.24
6 32 0.70
7 3 0.07
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (6 bp):
TTTAAA
Found at i:10492459 original size:23 final size:23
Alignment explanation
Indices: 10492432--10492481 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
10492422 AATTTGAAAA
*
10492432 TAAATTTAAACTCAAA-TTAAATT
1 TAAATTTAAAAT-AAACTTAAATT
10492455 TAAATTTAAAATAAACTTAAATT
1 TAAATTTAAAATAAACTTAAATT
10492478 TAAA
1 TAAA
10492482 ACAAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATTTAAAATAAACTTAAATT
Found at i:10493176 original size:13 final size:13
Alignment explanation
Indices: 10493138--10493180 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
10493128 ATTTTAGTGA
*
10493138 TCAATGAATTAA-
1 TCAATTAATTAAT
10493150 TCGAATTAATTTAAT
1 TC-AATTAA-TTAAT
10493165 TCAATTAATTAAT
1 TCAATTAATTAAT
10493178 TCA
1 TCA
10493181 GTTTTAACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 2 0.07
13 13 0.48
14 10 0.37
15 2 0.07
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (13 bp):
TCAATTAATTAAT
Found at i:10493757 original size:22 final size:23
Alignment explanation
Indices: 10493700--10493759 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
10493690 GGCATCGAAG
**
10493700 TTAAATTATAATTTTTATGATAA
1 TTAAATTATAATTTTTAAAATAA
* *
10493723 TAAAAATATAATTTTTAAAAT-A
1 TTAAATTATAATTTTTAAAATAA
*
10493745 TTAAATTAAAATTTT
1 TTAAATTATAATTTT
10493760 ATCATTTTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 13 0.43
23 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAAATTATAATTTTTAAAATAA
Found at i:10500051 original size:29 final size:31
Alignment explanation
Indices: 10499999--10500073 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
10499989 ATTTTAAAAC
* *
10499999 TATATATTAATTTTACTTTAATATACAATTT
1 TATATATGAATTTTACATTAATATACAATTT
**
10500030 TATATATGAATTTTA-ATT-ATATGTAATTT
1 TATATATGAATTTTACATTAATATACAATTT
*
10500059 TATAAATGAAATTTT
1 TATATATG-AATTTT
10500074 TATTTGATCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 16 0.42
30 8 0.21
31 14 0.37
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (31 bp):
TATATATGAATTTTACATTAATATACAATTT
Found at i:10500073 original size:14 final size:13
Alignment explanation
Indices: 10500025--10500073 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
10500015 TTTAATATAC
10500025 AATTTTATATATG
1 AATTTTATATATG
10500038 AATTTTAATTATATG
1 AATTTT-A-TATATG
*
10500053 TAATTTTATAAATG
1 -AATTTTATATATG
10500067 AAATTTT
1 -AATTTT
10500074 TATTTGATCC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 6 0.19
14 12 0.39
15 7 0.23
16 6 0.19
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (13 bp):
AATTTTATATATG
Found at i:10512910 original size:13 final size:13
Alignment explanation
Indices: 10512889--10512936 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
10512879 AATATTCTAC
*
10512889 TTTTCCTTTACTT
1 TTTTACTTTACTT
10512902 TTTTACTTTACTTT
1 TTTTACTTTAC-TT
10512916 TTTTACTTT--TT
1 TTTTACTTTACTT
10512927 ATTTTACTTT
1 -TTTTACTTT
10512937 TATAGGAGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
11 2 0.06
12 9 0.28
13 10 0.31
14 11 0.34
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTACTTTACTT
Found at i:10515520 original size:14 final size:14
Alignment explanation
Indices: 10515501--10515529 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10515491 TTTTTAGGAG
10515501 GATAATGCATTTTA
1 GATAATGCATTTTA
10515515 GATAATGCATTTTA
1 GATAATGCATTTTA
10515529 G
1 G
10515530 CGTATTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (14 bp):
GATAATGCATTTTA
Found at i:10515789 original size:6 final size:6
Alignment explanation
Indices: 10515771--10515853 Score: 68
Period size: 6 Copynumber: 14.0 Consensus size: 6
10515761 TTAAATTGAT
*
10515771 TTTAAA TTT--A TTTGAA TTTAAA TTT--A TCTTAAA TTTAATTA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA--A TTTAAA
* *
10515818 TTT-AC CTTAAA TTTAAA TTTAAA TTTAAA TTATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
10515854 ACAAATTTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
4 6 0.10
5 5 0.08
6 40 0.63
7 6 0.10
8 6 0.10
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:10515853 original size:25 final size:23
Alignment explanation
Indices: 10515780--10515845 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 23
10515770 TTTTAAATTT
*
10515780 ATTTGAATTTAAATTT-ATCTTAA
1 ATTTAAATTTAAATTTAAT-TTAA
**
10515803 ATTTAATTATTTAAATTTACCTTAA
1 ATTTAA--ATTTAAATTTAATTTAA
10515828 ATTTAAATTTAAATTTAA
1 ATTTAAATTTAAATTTAA
10515846 ATTATAAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 16 0.44
25 20 0.56
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTAAATTTAAATTTAATTTAA
Found at i:10516585 original size:15 final size:16
Alignment explanation
Indices: 10516565--10516599 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10516555 TTCATTAGCA
10516565 TTAATAA-TAATATCT
1 TTAATAATTAATATCT
*
10516580 TTAATAATTAATATTT
1 TTAATAATTAATATCT
10516596 TTAA
1 TTAA
10516600 ATAAAGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATAATTAATATCT
Done.