Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 304 of 333
Found at i:100072192 original size:15 final size:15
Alignment explanation
Indices: 100072169--100072208 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
100072159 CAAGCCCAGA
100072169 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
100072184 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
100072199 ATAAGGAAAT
1 ATAAGGAAAT
100072209 ACCATTTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.55, C:0.10, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:100077014 original size:22 final size:22
Alignment explanation
Indices: 100076978--100077022 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
100076968 CAAACAACAG
*
100076978 TGTCAATCAGTGTATCA-AATTC
1 TGTCAATCAGAGTAT-ATAATTC
*
100077000 TGTCAATGAGAGTATATAATTC
1 TGTCAATCAGAGTATATAATTC
100077022 T
1 T
100077023 ATGCATGATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (22 bp):
TGTCAATCAGAGTATATAATTC
Found at i:100078801 original size:18 final size:18
Alignment explanation
Indices: 100078778--100078813 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
100078768 CTCTATTATA
* *
100078778 TAGGCTTTTGCTTTTGCT
1 TAGGCTTATGCTATTGCT
100078796 TAGGCTTATGCTATTGCT
1 TAGGCTTATGCTATTGCT
100078814 AGCTATTAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.17, G:0.22, T:0.50
Consensus pattern (18 bp):
TAGGCTTATGCTATTGCT
Found at i:100089856 original size:28 final size:28
Alignment explanation
Indices: 100089814--100089874 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
100089804 CTGGTTTAGC
*
100089814 TAGGGTTTCAGTTTCTGAAACCAAAGTT
1 TAGGGTTTCAATTTCTGAAACCAAAGTT
100089842 TAGGGTTTCAATTTCTGAAACCAAAGTT
1 TAGGGTTTCAATTTCTGAAACCAAAGTT
100089870 T-GGGT
1 TAGGGT
100089875 CATTTGAGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (28 bp):
TAGGGTTTCAATTTCTGAAACCAAAGTT
Found at i:100091511 original size:38 final size:39
Alignment explanation
Indices: 100091437--100091513 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
100091427 GTATTGTGTT
100091437 AATCTCTACATTTGCGTCATAATTTTTTTATCCAATACA
1 AATCTCTACATTTGCGTCATAATTTTTTTATCCAATACA
100091476 AATCTCTACATTTGCGTCATAA-TTTTTTATCCAATACA
1 AATCTCTACATTTGCGTCATAATTTTTTTATCCAATACA
100091514 TAAATTAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 16 0.42
39 22 0.58
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.43
Consensus pattern (39 bp):
AATCTCTACATTTGCGTCATAATTTTTTTATCCAATACA
Found at i:100095687 original size:22 final size:21
Alignment explanation
Indices: 100095662--100095705 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
100095652 AACATAACAA
100095662 TTTAATAATTAAATAAATTTTT
1 TTTAATAATTAAAT-AATTTTT
*
100095684 TTTAATAATTTAATAATTTTT
1 TTTAATAATTAAATAATTTTT
100095705 T
1 T
100095706 AAAATTAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTAATAATTAAATAATTTTT
Found at i:100098614 original size:43 final size:42
Alignment explanation
Indices: 100098548--100098628 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 42
100098538 TTTAGAAAAA
* * *
100098548 AAACGCCGGTAAAGACCAGGACCTTTATCGGCGCTTTTTTAAG
1 AAACGCCGCTAAAGAACAGGACCTTTAGCGGCG-TTTTTTAAG
* *
100098591 AAACGCCGCTAAGGAACATGACCTTTAGCGGCGTTTTT
1 AAACGCCGCTAAAGAACAGGACCTTTAGCGGCGTTTTT
100098629 CCCCAAAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 5 0.15
43 28 0.85
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACAGGACCTTTAGCGGCGTTTTTTAAG
Found at i:100098679 original size:42 final size:44
Alignment explanation
Indices: 100098591--100098688 Score: 128
Period size: 42 Copynumber: 2.3 Consensus size: 44
100098581 CTTTTTTAAG
* * * *
100098591 AAACGCCGCTAAGGAACATGACCTTTAGCGGCGTTTTTCCCCAA
1 AAACGCCGCTAACGAACATGACCTTTAACGACGTCTTTCCCCAA
*
100098635 AAACGCCGCTAACG-ACATGATCTTTAACGACG-CTTTCCCCAA
1 AAACGCCGCTAACGAACATGACCTTTAACGACGTCTTTCCCCAA
*
100098677 AAACGCCACTAA
1 AAACGCCGCTAA
100098689 AGACCATATA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
42 20 0.42
43 15 0.31
44 13 0.27
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (44 bp):
AAACGCCGCTAACGAACATGACCTTTAACGACGTCTTTCCCCAA
Found at i:100102841 original size:18 final size:18
Alignment explanation
Indices: 100102818--100102861 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
100102808 AGGGATTTTG
* *
100102818 GGGGAAATTTAG-GGATT
1 GGGGAAATGTAGAGAATT
100102835 AGGGGAAATGTAGAGAATT
1 -GGGGAAATGTAGAGAATT
100102854 GGGGAAAT
1 GGGGAAAT
100102862 CTGTTTTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.41, T:0.23
Consensus pattern (18 bp):
GGGGAAATGTAGAGAATT
Found at i:100103108 original size:74 final size:74
Alignment explanation
Indices: 100102991--100103290 Score: 503
Period size: 74 Copynumber: 4.0 Consensus size: 74
100102981 CGCCGTTTTC
100102991 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTCAATTTTCATATTTATTTTT
1 ATAGTGTTTTTTGTGGCGTTTTTT-AAAAAACGCCACTAATCTCTCAATTTTCATATTTATTTTT
*
100103056 ATTTGTTGTA
65 ATTTGTTATA
* *
100103066 ATAGTGTTTTTTGTGGCATTTTTTAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTTA
1 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAACGCCACTAATCTCTCAATTTTCATATTTATTTTTA
100103131 TTTGTTATA
66 TTTGTTATA
*
100103140 A-AGTGTTTTTTGTGGCGTTTTTTTTTAAAAACGCCACTAATCTCTCAATTTTCATATTTATTTT
1 ATAGTGTTTTTTGTGGCG--TTTTTTAAAAAACGCCACTAATCTCTCAATTTTCATATTTATTTT
100103204 TATTTGTTATA
64 TATTTGTTATA
* *
100103215 ATAGTGTTTTTTGTGGCGTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTTA
1 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAACGCCACTAATCTCTCAATTTTCATATTTATTTTTA
*
100103280 TTTGATATA
66 TTTGTTATA
100103289 AT
1 AT
100103291 TTGGAAGCCA
Statistics
Matches: 212, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
73 15 0.07
74 103 0.49
75 78 0.37
76 16 0.08
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (74 bp):
ATAGTGTTTTTTGTGGCGTTTTTTAAAAAACGCCACTAATCTCTCAATTTTCATATTTATTTTTA
TTTGTTATA
Found at i:100103176 original size:149 final size:148
Alignment explanation
Indices: 100102993--100103289 Score: 531
Period size: 149 Copynumber: 2.0 Consensus size: 148
100102983 CCGTTTTCAT
100102993 AGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTCAATTTTCATATTTATTTTTAT
1 AGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTCAATTTTCATATTTATTTTTAT
* *
100103058 TTGTTGTAATAGTGTTTTTTGTGGCATTTTTTAAAAAACGCCACTAATCTCTTAATTTTCATATT
66 TTGTTATAATAGTGTTTTTTGTGGCATTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATATT
*
100103123 TATTTTTATTTGTTATAA
131 TATTTTTATTTGATATAA
**
100103141 AGTGTTTTTTGTGGCGTTTTTTTTTAAAAACGCCACTAATCTCTCAATTTTCATATTTATTTTTA
1 AGTGTTTTTTGTGGCG-TTTTTTAAAAAAACGCCACTAATCTCTCAATTTTCATATTTATTTTTA
*
100103206 TTTGTTATAATAGTGTTTTTTGTGGCGTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATAT
65 TTTGTTATAATAGTGTTTTTTGTGGCATTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATAT
100103271 TTATTTTTATTTGATATAA
130 TTATTTTTATTTGATATAA
100103290 TTTGGAAGCC
Statistics
Matches: 142, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
148 16 0.11
149 126 0.89
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (148 bp):
AGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTCAATTTTCATATTTATTTTTAT
TTGTTATAATAGTGTTTTTTGTGGCATTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATATT
TATTTTTATTTGATATAA
Found at i:100103672 original size:46 final size:46
Alignment explanation
Indices: 100103620--100103759 Score: 253
Period size: 46 Copynumber: 3.0 Consensus size: 46
100103610 CTTCAAATAC
*
100103620 TAGTTAACTCTTAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
*
100103666 TAGTTAACTCATAAACCCTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
*
100103712 TAGTTAACTCATAAACCTTAAACCCCAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
100103758 TA
1 TA
100103760 AACCATAAAC
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 90 1.00
ACGTcount: A:0.43, C:0.27, G:0.02, T:0.28
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:100103687 original size:25 final size:25
Alignment explanation
Indices: 100103602--100103735 Score: 106
Period size: 25 Copynumber: 5.6 Consensus size: 25
100103592 CCCAAATTCA
*
100103602 TCATAAACCTTCAAA-TACTAGTTAAC
1 TCATAAACCTT-AAACCA-TAGTTAAC
* *
100103628 TCTTAAACCTTAAACCCTA---AAC
1 TCATAAACCTTAAACCATAGTTAAC
* *
100103650 -CATATATCTTAAACCATAGTTAAC
1 TCATAAACCTTAAACCATAGTTAAC
* *
100103674 TCATAAACCCTAAACCCTA---AAC
1 TCATAAACCTTAAACCATAGTTAAC
* *
100103696 -CATATATCTTAAACCATAGTTAAC
1 TCATAAACCTTAAACCATAGTTAAC
100103720 TCATAAACCTTAAACC
1 TCATAAACCTTAAACC
100103736 CCAAACCATA
Statistics
Matches: 82, Mismatches: 17, Indels: 19
0.69 0.14 0.16
Matches are distributed among these distances:
21 28 0.34
22 6 0.07
24 6 0.07
25 32 0.39
26 10 0.12
ACGTcount: A:0.43, C:0.27, G:0.02, T:0.28
Consensus pattern (25 bp):
TCATAAACCTTAAACCATAGTTAAC
Found at i:100103768 original size:14 final size:14
Alignment explanation
Indices: 100103631--100103774 Score: 63
Period size: 14 Copynumber: 9.7 Consensus size: 14
100103621 AGTTAACTCT
* *
100103631 TAAACCTTAAACCC
1 TAAACCATAAACCA
* * *
100103645 TAAACCATATATCT
1 TAAACCATAAACCA
100103659 TAAACCATAGTTAACTCA
1 TAAACCATA---AAC-CA
* *
100103677 TAAACCCTAAACCC
1 TAAACCATAAACCA
* * *
100103691 TAAACCATATATCT
1 TAAACCATAAACCA
100103705 TAAACCATAGTTAACTCA
1 TAAACCATA---AAC-CA
* *
100103723 TAAACCTTAAACCC
1 TAAACCATAAACCA
* * * *
100103737 CAAACCATATATCT
1 TAAACCATAAACCA
100103751 TAAACCATAAACCA
1 TAAACCATAAACCA
*
100103765 TAAACTATAA
1 TAAACCATAA
100103775 TGATAATTAA
Statistics
Matches: 94, Mismatches: 28, Indels: 16
0.68 0.20 0.12
Matches are distributed among these distances:
14 68 0.72
15 6 0.06
17 2 0.02
18 18 0.19
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (14 bp):
TAAACCATAAACCA
Found at i:100103992 original size:41 final size:41
Alignment explanation
Indices: 100103931--100104056 Score: 182
Period size: 41 Copynumber: 3.1 Consensus size: 41
100103921 GTTATATGAC
* *
100103931 TTTTAGCGTCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGACGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
100103972 TTTTAGCGACGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGACGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* * * *
100104013 TTTTAGCGGCGTTTTTACTAAAA-CTCCGCTATTGCTCTGGT
1 TTTTAGCGACGTTTTT-CCAAAAGCGCCGCTAATGCTCTGGT
100104054 TTT
1 TTT
100104057 AGTGGCGTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 73 0.94
42 5 0.06
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (41 bp):
TTTTAGCGACGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:100104068 original size:40 final size:40
Alignment explanation
Indices: 100103931--100104097 Score: 165
Period size: 41 Copynumber: 4.1 Consensus size: 40
100103921 GTTATATGAC
* * * *
100103931 TTTTAGCGTCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCTAAAA-CACCGCTAATGCTCTGGT
* * *
100103972 TTTTAGCGACGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCTAAAA-CACCGCTAATGCTCTGGT
* *
100104013 TTTTAGCGGCGTTTTTACTAAAACTCCGCTATTGCTCTGG-
1 TTTTAGCGGCGTTTTT-CTAAAACACCGCTAATGCTCTGGT
* * * *
100104053 TTTTAGTGGCGTTTTTGTTAAAACACCGCTATTGCTATGTGT
1 TTTTAGCGGCGTTTTT-CTAAAACACCGCTAATGCTCTG-GT
100104095 TTT
1 TTT
100104098 ACAATTTTTG
Statistics
Matches: 112, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
40 34 0.30
41 70 0.62
42 8 0.07
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.40
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTCTAAAACACCGCTAATGCTCTGGT
Found at i:100105670 original size:39 final size:39
Alignment explanation
Indices: 100105616--100105729 Score: 210
Period size: 39 Copynumber: 2.9 Consensus size: 39
100105606 ATTTGATGTG
100105616 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
100105655 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* *
100105694 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
100105730 ATATGTCTGG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:100105752 original size:39 final size:39
Alignment explanation
Indices: 100105616--100105777 Score: 200
Period size: 39 Copynumber: 4.2 Consensus size: 39
100105606 ATTTGATGTG
* *
100105616 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
* *
100105655 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
*
100105694 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
* * * * * * * *
100105733 TGTCTGGGCTAAAGTTCCGCAGGCTTCGAGCTGGTATTA
1 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
100105772 TA-CCGG
1 TATCCGG
100105778 GTTTAAATTC
Statistics
Matches: 109, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
38 3 0.03
39 106 0.97
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
Found at i:100106415 original size:31 final size:31
Alignment explanation
Indices: 100106377--100106439 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
100106367 ATTATTTGTG
100106377 ATGCTTAAAACTTACTAAGCTTTGAAAGCTT
1 ATGCTTAAAACTTACTAAGCTTTGAAAGCTT
100106408 ATGCTTAAAACTTACTAAGCTTTGAAAGCTT
1 ATGCTTAAAACTTACTAAGCTTTGAAAGCTT
100106439 A
1 A
100106440 CTTCTTTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (31 bp):
ATGCTTAAAACTTACTAAGCTTTGAAAGCTT
Found at i:100108159 original size:15 final size:15
Alignment explanation
Indices: 100108139--100108168 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
100108129 AACCATAAAT
*
100108139 CATAATTCCTAAACC
1 CATAATTCATAAACC
100108154 CATAATTCATAAACC
1 CATAATTCATAAACC
100108169 TTAAAATAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (15 bp):
CATAATTCATAAACC
Found at i:100108173 original size:22 final size:20
Alignment explanation
Indices: 100108120--100108169 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
100108110 CCTTAAACCT
100108120 TAAACCATAAACCATAAATCA
1 TAAACC-TAAACCATAAATCA
* *
100108141 TAATTCCTAAACCCATAATTCA
1 TAA-ACCTAAA-CCATAAATCA
100108163 TAAACCT
1 TAAACCT
100108170 TAAAATAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAACCTAAACCATAAATCA
Found at i:100108225 original size:14 final size:14
Alignment explanation
Indices: 100108192--100108225 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
100108182 TCCTAAAACT
*
100108192 TAAACACTAAACCC
1 TAAACTCTAAACCC
100108206 TAAACTCTAAACCC
1 TAAACTCTAAACCC
100108220 TAAACT
1 TAAACT
100108226 ATAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACTCTAAACCC
Found at i:100108818 original size:40 final size:40
Alignment explanation
Indices: 100108774--100108849 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
100108764 AAAAGGCGCT
* * *
100108774 GCTAATGGTCGACCTATAGCGGTGTTTTTAAAAAAGTTCC
1 GCTAATGCTCAACCTATAGCGGTATTTTTAAAAAAGTTCC
* *
100108814 GCTAATGCTCAATCTATAGCGGTATTTTTCAAAAAG
1 GCTAATGCTCAACCTATAGCGGTATTTTTAAAAAAG
100108850 AGTTAACATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (40 bp):
GCTAATGCTCAACCTATAGCGGTATTTTTAAAAAAGTTCC
Found at i:100108974 original size:40 final size:40
Alignment explanation
Indices: 100108889--100108977 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
100108879 AATTTTTTTG
* *
100108889 TGGCGTTTTTCAAAAAGCACTTCCAATGCTCGATCTATAG
1 TGGCGTTTTTCAAAAAGCACTGCCAATGCTCGATCTATAA
* * * *
100108929 CGGCGTTTTTCAAAAAGCGCTGCTAATGCTCGATCTGTAA
1 TGGCGTTTTTCAAAAAGCACTGCCAATGCTCGATCTATAA
100108969 TGGCGTTTT
1 TGGCGTTTT
100108978 AATCCAAACA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (40 bp):
TGGCGTTTTTCAAAAAGCACTGCCAATGCTCGATCTATAA
Found at i:100111649 original size:20 final size:21
Alignment explanation
Indices: 100111624--100111664 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
100111614 CTTTATAATT
100111624 TATTAT-TTTTTCAA-AATATA
1 TATTATATTTTT-AATAATATA
100111644 TATTATATTTTTAATAATATA
1 TATTATATTTTTAATAATATA
100111665 ATAAGTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTATATTTTTAATAATATA
Found at i:100118529 original size:3 final size:3
Alignment explanation
Indices: 100118521--100118658 Score: 87
Period size: 3 Copynumber: 47.0 Consensus size: 3
100118511 TATTTTTAAA
100118521 TAT TAT TAT TAT TAT TA- TATT TAT TA- TAT TA- TAT TAT TA- TATT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA-T
* * *
100118564 TAT TA- TAT TAT ATATT TAT TAC CAT TATT TATT TAT TAT TAT TAT TAA
1 TAT TAT TAT TAT -TA-T TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT
* * * * *
100118612 TAA CA- TAT TGT T-T T-T TTT TAT T-T TAT TAT TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
100118656 TAT
1 TAT
100118659 CATGGTACTA
Statistics
Matches: 111, Mismatches: 11, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
2 17 0.15
3 78 0.70
4 15 0.14
5 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:100118545 original size:31 final size:30
Alignment explanation
Indices: 100118510--100118581 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 30
100118500 GGGGGGAGTG
100118510 TTATTTTTAAATATTATTAT-TATTATTATAT
1 TTATTTTT-AATATTATTATAT-TTATTATAT
100118541 TTATTATATT-ATATTATTATATTTATTATAT
1 TTATT-T-TTAATATTATTATATTTATTATAT
*
100118572 TATATATTTA
1 T-TATTTTTA
100118582 TTACCATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
30 2 0.06
31 26 0.74
32 5 0.14
33 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
TTATTTTTAATATTATTATATTTATTATAT
Found at i:100118550 original size:17 final size:17
Alignment explanation
Indices: 100118520--100118610 Score: 95
Period size: 17 Copynumber: 5.5 Consensus size: 17
100118510 TTATTTTTAA
100118520 ATATTATTAT-TATTATT
1 ATATTATTATAT-TTATT
*
100118537 ATA-T-TTAT-TATATT
1 ATATTATTATATTTATT
100118551 ATATTATTATATTTATT
1 ATATTATTATATTTATT
100118568 ATATTA-TATATTTATT
1 ATATTATTATATTTATT
*
100118584 ACCATTATT-TATTTATT
1 A-TATTATTATATTTATT
100118601 ATTATTATTA
1 A-TATTATTA
100118611 ATAACATATT
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
14 7 0.11
15 6 0.10
16 16 0.25
17 33 0.52
18 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTATTATATTTATT
Found at i:100118555 original size:22 final size:22
Alignment explanation
Indices: 100118524--100118583 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
100118514 TTTTAAATAT
100118524 TATTATTATTATTATATTTATTA
1 TATTA-TATTATTATATTTATTA
100118547 TATTATATTATTATATTTATTA
1 TATTATATTATTATATTTATTA
100118569 TATTATA-TATT-TATT
1 TATTATATTATTATATT
100118584 ACCATTATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
20 4 0.11
21 4 0.11
22 24 0.65
23 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTATATTATTATATTTATTA
Found at i:100118590 original size:22 final size:21
Alignment explanation
Indices: 100118525--100118604 Score: 64
Period size: 20 Copynumber: 4.0 Consensus size: 21
100118515 TTTAAATATT
*
100118525 ATTATTATTATTATATTTATTAT
1 ATTA-TATTA-TATATTTATTAC
*
100118548 ATTATATTAT-TA--TATT-T
1 ATTATATTATATATTTATTAC
100118565 ATTATATTATATATTTATTACC
1 ATTATATTATATATTTATTA-C
*
100118587 ATTAT-TTATTTA-TTATTA
1 ATTATATTATATATTTATTA
100118605 TTATTAATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
17 11 0.22
18 6 0.12
20 12 0.24
21 7 0.14
22 10 0.20
23 4 0.08
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTATATTATATATTTATTAC
Found at i:100118812 original size:3 final size:3
Alignment explanation
Indices: 100118804--100118863 Score: 70
Period size: 3 Copynumber: 20.3 Consensus size: 3
100118794 TTTTTCCCTA
* * *
100118804 TAT TAT TAT TAT TTT TAT CAT T-T TCAT TTT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
100118848 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
100118864 GTCTTCTATT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.08
3 42 0.88
4 2 0.04
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:100119782 original size:125 final size:125
Alignment explanation
Indices: 100119558--100119787 Score: 309
Period size: 125 Copynumber: 1.8 Consensus size: 125
100119548 GGATTTCTAA
*
100119558 AAAATAAGAAAATATTTCGTGTTTAGAAATTCGAGAAATCATGCCCAATCGTGCTGGGTTTCAAT
1 AAAATAAGAAAATATTTCGTGTTTAGAAATTCGAGAAATCATGCCCAATCGTGCTGGGTTTCAAC
** * ** *
100119623 TTTTCGTTCAACCGAATAACTGAATATCCTTTTGAAATTTTGTCCATGTTTTCTTAAATT
66 TTACCATTCAACCGAATAACCAAATATCCCTTTGAAATTTTGTCCATGTTTTCTTAAATT
* * * * *
100119683 AAAATGAGACAATATTTTGTGTTTAGAAATTCGAGAAATCGTGCCCAATCGTGCTGGGTTTCGAC
1 AAAATAAGAAAATATTTCGTGTTTAGAAATTCGAGAAATCATGCCCAATCGTGCTGGGTTTCAAC
** *
100119748 TTACCATTTGACC-AGATAGCCAAATATCCCTTTGAAATTT
66 TTACCATTCAACCGA-ATAACCAAATATCCCTTTGAAATTT
100119788 CAAATGCATG
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
124 1 0.01
125 88 0.99
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (125 bp):
AAAATAAGAAAATATTTCGTGTTTAGAAATTCGAGAAATCATGCCCAATCGTGCTGGGTTTCAAC
TTACCATTCAACCGAATAACCAAATATCCCTTTGAAATTTTGTCCATGTTTTCTTAAATT
Found at i:100120125 original size:14 final size:14
Alignment explanation
Indices: 100120106--100120132 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
100120096 ACCGAAATGC
100120106 TTTATTAAAATGAG
1 TTTATTAAAATGAG
100120120 TTTATTAAAATGA
1 TTTATTAAAATGA
100120133 TCGATCACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (14 bp):
TTTATTAAAATGAG
Found at i:100122915 original size:53 final size:53
Alignment explanation
Indices: 100122779--100122924 Score: 213
Period size: 53 Copynumber: 2.7 Consensus size: 53
100122769 TGCACCCATT
**
100122779 TAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
*
100122832 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
* *
100122885 TAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 TAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
100122925 ACCGTGTAAG
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (53 bp):
TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
Found at i:100129025 original size:9 final size:9
Alignment explanation
Indices: 100129003--100129039 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
100128993 TTCGAAAAAA
100129003 AATTCGAGTT
1 AATTCGA-TT
100129013 AATTCGATT
1 AATTCGATT
100129022 AATTCGATT
1 AATTCGATT
*
100129031 AACTCGATT
1 AATTCGATT
100129040 CGAATAATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (9 bp):
AATTCGATT
Found at i:100134194 original size:20 final size:21
Alignment explanation
Indices: 100134142--100134202 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
100134132 AAGATAGGGG
*
100134142 CACATGCCCGTGTGGCTTGGGA
1 CACATGCCCGTGTGGCCT-GGA
**
100134164 CACGCGCCCGTGTGGCCTGGA
1 CACATGCCCGTGTGGCCTGGA
100134185 -ACATGCCCGTGTGGCCTG
1 CACATGCCCGTGTGGCCTG
100134203 CCCATTTGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 16 0.47
21 3 0.09
22 15 0.44
ACGTcount: A:0.11, C:0.33, G:0.36, T:0.20
Consensus pattern (21 bp):
CACATGCCCGTGTGGCCTGGA
Found at i:100136263 original size:13 final size:12
Alignment explanation
Indices: 100136246--100136270 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100136236 TATAACTTAT
100136246 TAAAAATATTTA
1 TAAAAATATTTA
100136258 TAAAAATATTTA
1 TAAAAATATTTA
100136270 T
1 T
100136271 GGCTCGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAAATATTTA
Found at i:100137939 original size:412 final size:412
Alignment explanation
Indices: 100137175--100137998 Score: 1639
Period size: 412 Copynumber: 2.0 Consensus size: 412
100137165 ATTCAGCTAA
100137175 AGGTAAATACCTTTTCCAGCTACCACTGAGCTTAGTATACAACACCTTAACATATCTTCCAAAAT
1 AGGTAAATACCTTTTCCAGCTACCACTGAGCTTAGTATACAACACCTTAACATATCTTCCAAAAT
100137240 TTGAATCAATCATTTTGATTGCCTGTCAGTTTGAGGATGAAAAGCTGTATTAAATTTTAATTTGG
66 TTGAATCAATCATTTTGATTGCCTGTCAGTTTGAGGATGAAAAGCTGTATTAAATTTTAATTTGG
100137305 TACCTAAATCTTCCTGTAGTTTACTCTAAAATCTCGAAGTAAACCTCAGATCTCGATTTGAAATA
131 TACCTAAATCTTCCTGTAGTTTACTCTAAAATCTCGAAGTAAACCTCAGATCTCGATTTGAAATA
*
100137370 ATTGATGTCGGCACCCCATGTAATCTCACAATTTCTGACACATATAATTTCGCTAATTTTTTAAG
196 ATTGATGTCGGCACCCCATGTAATCTCACAATTTCTGACACATATAATTTCGCTAATTTTTCAAG
100137435 CGAAAAATCTGTTCTAACCGGAATAAAATCCGCTGACTTAGTTAATCTGTCCACTATCACCCAAA
261 CGAAAAATCTGTTCTAACCGGAATAAAATCCGCTGACTTAGTTAATCTGTCCACTATCACCCAAA
100137500 TCGAATCTTTCTTCTTCGGAGTCACGGGCAACCCAGATACAAAATCCATCGTCACATGTTCCCAC
326 TCGAATCTTTCTTCTTCGGAGTCACGGGCAACCCAGATACAAAATCCATCGTCACATGTTCCCAC
100137565 TTCCATTCTGGAATCATTACAG
391 TTCCATTCTGGAATCATTACAG
100137587 AGGTAAATACCTTTTCCAGCTACCACTGAGCTTAGTATACAACACCTTAACATATCTTCCAAAAT
1 AGGTAAATACCTTTTCCAGCTACCACTGAGCTTAGTATACAACACCTTAACATATCTTCCAAAAT
100137652 TTGAATCAATCATTTTGATTGCCTGTCAGTTTGAGGATGAAAAGCTGTATTAAATTTTAATTTGG
66 TTGAATCAATCATTTTGATTGCCTGTCAGTTTGAGGATGAAAAGCTGTATTAAATTTTAATTTGG
100137717 TACCTAAATCTTCCTGTAGTTTACTCTAAAATCTCGAAGTAAACCTCAGATCTCGATTTGAAATA
131 TACCTAAATCTTCCTGTAGTTTACTCTAAAATCTCGAAGTAAACCTCAGATCTCGATTTGAAATA
100137782 ATTGATGTCGGCACCCCATGTAATCTCACAATTTCTGACACATATAATTTCGCTAATTTTTCAAG
196 ATTGATGTCGGCACCCCATGTAATCTCACAATTTCTGACACATATAATTTCGCTAATTTTTCAAG
100137847 CGAAAAATCTGTTCTAACCGGAATAAAATCCGCTGACTTAGTTAATCTGTCCACTATCACCCAAA
261 CGAAAAATCTGTTCTAACCGGAATAAAATCCGCTGACTTAGTTAATCTGTCCACTATCACCCAAA
100137912 TCGAATCTTTCTTCTTCGGAGTCACGGGCAACCCAGATACAAAATCCATCGTCACATGTTCCCAC
326 TCGAATCTTTCTTCTTCGGAGTCACGGGCAACCCAGATACAAAATCCATCGTCACATGTTCCCAC
100137977 TTCCATTCTGGAATCATTACAG
391 TTCCATTCTGGAATCATTACAG
100137999 GTTGTAGCAA
Statistics
Matches: 411, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
412 411 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.32
Consensus pattern (412 bp):
AGGTAAATACCTTTTCCAGCTACCACTGAGCTTAGTATACAACACCTTAACATATCTTCCAAAAT
TTGAATCAATCATTTTGATTGCCTGTCAGTTTGAGGATGAAAAGCTGTATTAAATTTTAATTTGG
TACCTAAATCTTCCTGTAGTTTACTCTAAAATCTCGAAGTAAACCTCAGATCTCGATTTGAAATA
ATTGATGTCGGCACCCCATGTAATCTCACAATTTCTGACACATATAATTTCGCTAATTTTTCAAG
CGAAAAATCTGTTCTAACCGGAATAAAATCCGCTGACTTAGTTAATCTGTCCACTATCACCCAAA
TCGAATCTTTCTTCTTCGGAGTCACGGGCAACCCAGATACAAAATCCATCGTCACATGTTCCCAC
TTCCATTCTGGAATCATTACAG
Found at i:100141975 original size:20 final size:20
Alignment explanation
Indices: 100141950--100142003 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
100141940 AAGGGCACAT
*
100141950 GCCCGTGTGGCTTGGAACAC
1 GCCCGTGTGGCCTGGAACAC
*
100141970 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAC
100141990 GCCCGTGTGGCCTG
1 GCCCGTGTGGCCTG
100142004 CCCATGTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.31, G:0.37, T:0.20
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAC
Found at i:100145682 original size:6 final size:6
Alignment explanation
Indices: 100145673--100145738 Score: 91
Period size: 6 Copynumber: 11.3 Consensus size: 6
100145663 AGTTAAAGGT
*
100145673 AAAATA AAAATA AAAAT- AAAATA AAAATA AAAATA AAAATA AAGATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
100145720 AAGAT- AAAATA AAATTA AA
1 AAAATA AAAATA AAAATA AA
100145739 CATCATTATC
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
5 9 0.16
6 46 0.84
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:100145692 original size:17 final size:17
Alignment explanation
Indices: 100145672--100145738 Score: 98
Period size: 17 Copynumber: 3.9 Consensus size: 17
100145662 AAGTTAAAGG
100145672 TAAAATAAAAATAAAAA
1 TAAAATAAAAATAAAAA
100145689 TAAAATAAAAATAAAAA
1 TAAAATAAAAATAAAAA
* *
100145706 TAAAAATAAAGATAAAGA
1 T-AAAATAAAAATAAAAA
*
100145724 TAAAATAAAATTAAA
1 TAAAATAAAAATAAA
100145739 CATCATTATC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
17 30 0.67
18 15 0.33
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (17 bp):
TAAAATAAAAATAAAAA
Found at i:100145692 original size:23 final size:23
Alignment explanation
Indices: 100145666--100145738 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
100145656 ATTTAAAAGT
*
100145666 TAAAGGTAAAATAAAAATAAAAA
1 TAAAGATAAAATAAAAATAAAAA
100145689 TAAA-ATAAAAATAAAAATAAAAA
1 TAAAGAT-AAAATAAAAATAAAAA
*
100145712 TAAAGATAAAGAT-AAAATAAAAT
1 TAAAGATAAA-ATAAAAATAAAAA
100145735 TAAA
1 TAAA
100145739 CATCATTATC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
22 1 0.02
23 40 0.89
24 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.19
Consensus pattern (23 bp):
TAAAGATAAAATAAAAATAAAAA
Found at i:100157246 original size:21 final size:21
Alignment explanation
Indices: 100157220--100157259 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
100157210 CCAAATTGAG
100157220 GACCCAATTCACGTGGCAATT
1 GACCCAATTCACGTGGCAATT
*
100157241 GACCCAATTCATGTGGCAA
1 GACCCAATTCACGTGGCAA
100157260 GTGGGAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (21 bp):
GACCCAATTCACGTGGCAATT
Found at i:100174502 original size:2 final size:2
Alignment explanation
Indices: 100174495--100174526 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
100174485 ACAAACTAAT
100174495 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
100174527 CCCTCCTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:100175623 original size:16 final size:17
Alignment explanation
Indices: 100175602--100175650 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
100175592 TATATTTATG
*
100175602 TATTTA-AATTTTATTT
1 TATTTATAATTTAATTT
100175618 TATTTATAATTTAATTT
1 TATTTATAATTTAATTT
*
100175635 AATTT-T--TTTAATTT
1 TATTTATAATTTAATTT
100175649 TA
1 TA
100175651 ATATCATACA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 9 0.31
16 7 0.24
17 13 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTATAATTTAATTT
Found at i:100181456 original size:20 final size:20
Alignment explanation
Indices: 100181415--100181456 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
100181405 ATGATATAAC
* *
100181415 ATGTGTAATAGTTGATATAT
1 ATGTGTAATAGCTGATAGAT
100181435 ATGTGTAATAGCT-ATAAGAT
1 ATGTGTAATAGCTGAT-AGAT
100181455 AT
1 AT
100181457 TTTATGTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (20 bp):
ATGTGTAATAGCTGATAGAT
Found at i:100186354 original size:25 final size:24
Alignment explanation
Indices: 100186320--100186369 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 24
100186310 TATATATATT
100186320 ATTTTAAAAGCTTTTCAAAATGACA
1 ATTTTAAAAGCTTTTCAAAAT-ACA
100186345 ATTTTAAAAGCTTTTCAAAATACA
1 ATTTTAAAAGCTTTTCAAAATACA
100186369 A
1 A
100186370 ATGGGATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (24 bp):
ATTTTAAAAGCTTTTCAAAATACA
Found at i:100186576 original size:28 final size:27
Alignment explanation
Indices: 100186526--100186581 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
100186516 CTTTTATTAA
*
100186526 TTTAATTTTAAATAAAATTAAAATCATG
1 TTTAATTTTAAATAAAATGAAAA-CATG
*
100186554 TTTAATATTTAATTAAAA-GAAAACATG
1 TTTAAT-TTTAAATAAAATGAAAACATG
100186581 T
1 T
100186582 CTACCCCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 10 0.40
29 10 0.40
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (27 bp):
TTTAATTTTAAATAAAATGAAAACATG
Found at i:100189276 original size:16 final size:15
Alignment explanation
Indices: 100189250--100189288 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
100189240 TAATGAAAAT
100189250 TAATTTT-TTTGAAA
1 TAATTTTATTTGAAA
100189264 CTAATTTTATTTGAAA
1 -TAATTTTATTTGAAA
*
100189280 TAATATTAT
1 TAATTTTAT
100189289 GTATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (15 bp):
TAATTTTATTTGAAA
Found at i:100189370 original size:20 final size:20
Alignment explanation
Indices: 100189347--100189385 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
100189337 TAATTATAAA
*
100189347 ATTTATTTATTACATTAATT
1 ATTTATTTATTACAATAATT
100189367 ATTTATTTATTACAATAAT
1 ATTTATTTATTACAATAAT
100189386 AAAACATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTATTTATTACAATAATT
Found at i:100192920 original size:18 final size:19
Alignment explanation
Indices: 100192897--100192934 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
100192887 GGGCAAAATG
100192897 TAATAGAC-AAAATTAATA
1 TAATAGACTAAAATTAATA
*
100192915 TAATAGACTAATATTAATA
1 TAATAGACTAAAATTAATA
100192934 T
1 T
100192935 TTCCTAACAT
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:0.05, G:0.05, T:0.34
Consensus pattern (19 bp):
TAATAGACTAAAATTAATA
Found at i:100196499 original size:38 final size:38
Alignment explanation
Indices: 100196437--100196510 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
100196427 TTTCTGATGT
100196437 AGAATATTTTTCGGTTAAGAAAAATCCTCTAGCTATTGC
1 AGAATATTTTTCGGTTAAGAAAAATCCTCTA-CTATTGC
* * *
100196476 AGAATA-TTTTCTGTTGAGGAAAATCCTCTACTATT
1 AGAATATTTTTCGGTTAAGAAAAATCCTCTACTATT
100196511 TATGGAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 5 0.16
38 21 0.66
39 6 0.19
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (38 bp):
AGAATATTTTTCGGTTAAGAAAAATCCTCTACTATTGC
Found at i:100202941 original size:20 final size:20
Alignment explanation
Indices: 100202902--100202941 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
100202892 TAAGGTGGCC
*
100202902 CGTTAACTAGACACGTTGGA
1 CGTTAACTAGACACGGTGGA
100202922 CGTTAACTAG-CTACGGTGGA
1 CGTTAACTAGAC-ACGGTGGA
100202942 AACTCAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (20 bp):
CGTTAACTAGACACGGTGGA
Found at i:100203716 original size:29 final size:29
Alignment explanation
Indices: 100203676--100203733 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
100203666 AACAACAAAG
100203676 TATTAGACATAGCAATTTAACCATGACAT
1 TATTAGACATAGCAATTTAACCATGACAT
100203705 TATTAGACATAGCAATTTAACCATGACAT
1 TATTAGACATAGCAATTTAACCATGACAT
100203734 AAGAATCGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.31
Consensus pattern (29 bp):
TATTAGACATAGCAATTTAACCATGACAT
Found at i:100204537 original size:23 final size:24
Alignment explanation
Indices: 100204509--100204568 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
100204499 GTTCGCATGT
* *
100204509 ACACATATATAGGATTTGCGTA-AT
1 ACACATATATAGG-TTTGCATATAC
*
100204533 A-ACATGTATAAGGTTTGCATATAC
1 ACACATATAT-AGGTTTGCATATAC
100204557 ACACATATATAG
1 ACACATATATAG
100204569 AGAGAGTTCG
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
23 14 0.48
24 8 0.28
25 7 0.24
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (24 bp):
ACACATATATAGGTTTGCATATAC
Found at i:100204649 original size:22 final size:23
Alignment explanation
Indices: 100204629--100204673 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
100204619 GGTTCGCATC
* *
100204629 ATAAACATGTATGGTTTGCATAT
1 ATAAGCATATATGGTTTGCATAT
100204652 ATAAGCATATAT-GTTTGCATAT
1 ATAAGCATATATGGTTTGCATAT
100204674 TTAATAGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (23 bp):
ATAAGCATATATGGTTTGCATAT
Found at i:100218573 original size:28 final size:28
Alignment explanation
Indices: 100218526--100218595 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
100218516 CACAACCATG
*
100218526 TGTCCCCTTTTATTTAGATTTTATAGTTT
1 TGTCCCCTTTT-TTTAGATTTTACAGTTT
*
100218555 TG-CCCCTATTTTTTGGATTTTACAGTTT
1 TGTCCCCT-TTTTTTAGATTTTACAGTTT
*
100218583 TGTCCCCTGTTTT
1 TGTCCCCTTTTTT
100218596 ACAAATTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 26 0.72
29 10 0.28
ACGTcount: A:0.13, C:0.19, G:0.13, T:0.56
Consensus pattern (28 bp):
TGTCCCCTTTTTTTAGATTTTACAGTTT
Found at i:100218916 original size:34 final size:34
Alignment explanation
Indices: 100218868--100218970 Score: 107
Period size: 34 Copynumber: 3.0 Consensus size: 34
100218858 AGCATGGCTT
* * **
100218868 TTGCCACTAAATTGAACAGTTATAAGCATATTAA
1 TTGCTACTATATTGAACTATTATAAGCATATTAA
**
100218902 TTGCTACTATATTGAACTATTATAAGCATATTGG
1 TTGCTACTATATTGAACTATTATAAGCATATTAA
* ** *
100218936 TTGCTACTGTATTGTTCTATTAAAAGCATAATTAA
1 TTGCTACTATATTGAACTATTATAAGCAT-ATTAA
100218971 ATACTATCGT
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
34 53 0.95
35 3 0.05
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.39
Consensus pattern (34 bp):
TTGCTACTATATTGAACTATTATAAGCATATTAA
Found at i:100219697 original size:25 final size:25
Alignment explanation
Indices: 100219669--100219737 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 25
100219659 TATATTGTTT
*
100219669 TATTTATTTTGTGGCATGAAACTCA
1 TATTTATTTTGTGGCATAAAACTCA
* * * *
100219694 TATTTAAGGTTTATAGCTTAAAACTCA
1 TATTT-A-TTTTGTGGCATAAAACTCA
100219721 TATTTATTTTGTGGCAT
1 TATTTATTTTGTGGCAT
100219738 TAGTTTTCTT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
25 12 0.36
26 2 0.06
27 19 0.58
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.46
Consensus pattern (25 bp):
TATTTATTTTGTGGCATAAAACTCA
Found at i:100220666 original size:35 final size:33
Alignment explanation
Indices: 100220597--100220675 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 33
100220587 AAAAATATTA
100220597 TTTATTATATTATTAATTTGACATTTAAATAAT
1 TTTATTATATTATTAATTTGACATTTAAATAAT
*
100220630 TTTATTTTATTATTAAATTTTGA-ATATTGAAA-AAT
1 TTTATTATATTATT-AA-TTTGACAT-TT-AAATAAT
*
100220665 TTCATTATATT
1 TTTATTATATT
100220676 TAAGTTTAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
33 13 0.33
34 4 0.10
35 19 0.49
36 3 0.08
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (33 bp):
TTTATTATATTATTAATTTGACATTTAAATAAT
Found at i:100224151 original size:22 final size:22
Alignment explanation
Indices: 100224126--100224172 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
100224116 AATGCCTACT
100224126 TTCGTTGATTCAACACAATTCC
1 TTCGTTGATTCAACACAATTCC
100224148 TTCGTTGATTCAACACAATTCC
1 TTCGTTGATTCAACACAATTCC
100224170 TTC
1 TTC
100224173 ATGTGATCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.38
Consensus pattern (22 bp):
TTCGTTGATTCAACACAATTCC
Found at i:100226718 original size:15 final size:14
Alignment explanation
Indices: 100226700--100226730 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
100226690 TTAATTTATT
100226700 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
100226715 TAATAATAATCTAA
1 TAATAATAATCTAA
100226729 TA
1 TA
100226731 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:100226741 original size:21 final size:20
Alignment explanation
Indices: 100226717--100226785 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
100226707 AATGCTAATA
100226717 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
100226738 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
100226757 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
100226778 ATAATAAT
1 ATAATAAT
100226786 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:100226797 original size:33 final size:32
Alignment explanation
Indices: 100226749--100226826 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 32
100226739 TAATGTTAAT
* *
100226749 TAATAATTATAATAATTTAATATAAAACC-ATAA
1 TAATAATCATTATAATTT-ATATAAAACCTA-AA
100226782 TAATAATCATTATAA--TATATAAAACCTAAA
1 TAATAATCATTATAATTTATATAAAACCTAAA
100226812 TAA-AATC-TT-TAATTT
1 TAATAATCATTATAATTT
100226827 TATTTCACCA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
27 3 0.08
28 2 0.05
29 5 0.12
30 15 0.38
31 2 0.05
33 13 0.32
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (32 bp):
TAATAATCATTATAATTTATATAAAACCTAAA
Found at i:100230140 original size:25 final size:25
Alignment explanation
Indices: 100230112--100230227 Score: 205
Period size: 25 Copynumber: 4.6 Consensus size: 25
100230102 CGAAATGACT
100230112 TGGCACTAAGTGTGCGGAAATTATA
1 TGGCACTAAGTGTGCGGAAATTATA
100230137 TGGCACTAAGTGTGCGGAAATTATA
1 TGGCACTAAGTGTGCGGAAATTATA
*
100230162 TGGCACTAAGTGTGCGGAAATTGTA
1 TGGCACTAAGTGTGCGGAAATTATA
*
100230187 TGGCACTAAGTGTGCGGAAATTTTA
1 TGGCACTAAGTGTGCGGAAATTATA
*
100230212 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
100230228 AATATATATA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 88 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (25 bp):
TGGCACTAAGTGTGCGGAAATTATA
Found at i:100237558 original size:25 final size:25
Alignment explanation
Indices: 100237530--100237620 Score: 146
Period size: 25 Copynumber: 3.6 Consensus size: 25
100237520 CGAAATGACT
* *
100237530 TGGCACTAAGTGTGAGGAAATTATA
1 TGGCACTAAGTGTGCGGAAATTGTA
*
100237555 TGGCACTAAGTGTGCGAAAATTGTA
1 TGGCACTAAGTGTGCGGAAATTGTA
100237580 TGGCACTAAGTGTGCGGAAATTGTA
1 TGGCACTAAGTGTGCGGAAATTGTA
*
100237605 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
100237621 AATATATATG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (25 bp):
TGGCACTAAGTGTGCGGAAATTGTA
Found at i:100240939 original size:18 final size:19
Alignment explanation
Indices: 100240902--100240942 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
100240892 ATTTAGAATC
100240902 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
100240921 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
100240939 AAAA
1 AAAA
100240943 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:100240944 original size:31 final size:31
Alignment explanation
Indices: 100240868--100240941 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
100240858 TCAAGTTATC
*
100240868 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAA
*
100240900 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAA
100240930 TTAAATATAAAA
1 TTAAATATAAAA
100240942 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAA
Found at i:100246231 original size:41 final size:41
Alignment explanation
Indices: 100246183--100246260 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
100246173 TTTTTTTAAC
* *
100246183 GGCGTTTTCAC-TAAAAACGCCATTATAGCTTAATTTTTTGT
1 GGCGTTTT-ACTTAAAAACGCCACTATAGATTAATTTTTTGT
*
100246224 GGCGTTTTACTTAAAAACGCCACTATTGATTAATTTT
1 GGCGTTTTACTTAAAAACGCCACTATAGATTAATTTT
100246261 AATTTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 2 0.06
41 31 0.94
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (41 bp):
GGCGTTTTACTTAAAAACGCCACTATAGATTAATTTTTTGT
Found at i:100246367 original size:22 final size:21
Alignment explanation
Indices: 100246342--100246382 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
100246332 TTTGGAATTT
*
100246342 TTTTTAATTTTAAATATTGAAC
1 TTTTTAA-TTAAAATATTGAAC
100246364 TTTTTAATTAAAATATTGA
1 TTTTTAATTAAAATATTGA
100246383 TTAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (21 bp):
TTTTTAATTAAAATATTGAAC
Found at i:100246402 original size:8 final size:8
Alignment explanation
Indices: 100246391--100246461 Score: 96
Period size: 8 Copynumber: 9.4 Consensus size: 8
100246381 GATTAAAATA
100246391 TTAAATTT
1 TTAAATTT
100246399 TT-AATTT
1 TTAAATTT
*
100246406 TTAATTTT
1 TTAAATTT
*
100246414 TTTAA-TT
1 TTAAATTT
100246421 TT-AATTT
1 TTAAATTT
100246428 TT-AATTT
1 TTAAATTT
100246435 TTAAATTT
1 TTAAATTT
100246443 TTAAATTT
1 TTAAATTT
100246451 TTAAATTT
1 TTAAATTT
100246459 TTA
1 TTA
100246462 TTTTTTGAGT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
6 2 0.04
7 22 0.39
8 33 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
TTAAATTT
Found at i:100246464 original size:22 final size:21
Alignment explanation
Indices: 100246395--100246466 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 21
100246385 AAAATATTAA
*
100246395 ATTTTTAATTTTTAATTTTTTT
1 ATTTTTAATTTTTAA-ATTTTT
*
100246417 AATTTTAATTTTT-AATTTTT
1 ATTTTTAATTTTTAAATTTTT
100246437 AAATTTTTAAATTTTTAAATTTTT
1 --ATTTTT-AATTTTTAAATTTTT
100246461 ATTTTT
1 ATTTTT
100246467 TGAGTTTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
20 5 0.12
21 1 0.02
22 23 0.53
23 7 0.16
24 7 0.16
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTTTAATTTTTAAATTTTT
Found at i:100247012 original size:15 final size:15
Alignment explanation
Indices: 100246989--100247039 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
100246979 ATACCCATGG
*
100246989 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
100247004 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
* *
100247019 CTAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
100247033 CCTTAAA
1 CCATAAA
100247040 TATTAAACCG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:100247218 original size:37 final size:37
Alignment explanation
Indices: 100247162--100247234 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
100247152 ATGTGATGTT
100247162 TTTTGGGGTTTAAGGTTTTAGAAGTTATAGTTTAGTA
1 TTTTGGGGTTTAAGGTTTTAGAAGTTATAGTTTAGTA
*
100247199 TTTTGGGGTTT-AGGTTTTTAGAGGTTATAGTTTAGT
1 TTTTGGGGTTTAAGG-TTTTAGAAGTTATAGTTTAGT
100247235 GTTCATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 3 0.09
37 31 0.91
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.51
Consensus pattern (37 bp):
TTTTGGGGTTTAAGGTTTTAGAAGTTATAGTTTAGTA
Found at i:100247335 original size:41 final size:41
Alignment explanation
Indices: 100247276--100247456 Score: 292
Period size: 41 Copynumber: 4.4 Consensus size: 41
100247266 GGAGTAATAT
100247276 GACTTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCC
1 GACTTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCC
* *
100247317 GACTTTTAGCGGCATTTTATTGAAAGCGCCGCTAATGCTCC
1 GACTTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCC
*
100247358 GACTTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTTC
1 GACTTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCC
* * *
100247399 GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCT
1 GACTTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCC
*
100247440 G-TTTTTAGCGGCGTTTT
1 GACTTTTAGCGGCGTTTT
100247457 TGGTGAAACG
Statistics
Matches: 130, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 15 0.12
41 115 0.88
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.33
Consensus pattern (41 bp):
GACTTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCC
Found at i:100247526 original size:12 final size:12
Alignment explanation
Indices: 100247511--100247537 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
100247501 GTTTTTTGAT
100247511 AAAACGCCGCTA
1 AAAACGCCGCTA
100247523 AAAACGCCGCTA
1 AAAACGCCGCTA
100247535 AAA
1 AAA
100247538 CCCTATTTTC
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:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:100252420 original size:5 final size:5
Alignment explanation
Indices: 100252412--100252486 Score: 150
Period size: 5 Copynumber: 15.0 Consensus size: 5
100252402 TTACTATACT
100252412 AGTGA AGTGA AGTGA AGTGA AGTGA AGTGA AGTGA AGTGA AGTGA AGTGA
1 AGTGA AGTGA AGTGA AGTGA AGTGA AGTGA AGTGA AGTGA AGTGA AGTGA
100252462 AGTGA AGTGA AGTGA AGTGA AGTGA
1 AGTGA AGTGA AGTGA AGTGA AGTGA
100252487 TGTCAGCTTA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 70 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (5 bp):
AGTGA
Found at i:100265933 original size:13 final size:13
Alignment explanation
Indices: 100265910--100265949 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 13
100265900 ATTTTATAAA
100265910 AAATCTTTTTTTTG
1 AAAT-TTTTTTTTG
100265924 AAATTTTTTTTTG
1 AAATTTTTTTTTG
100265937 AAATTTTATTTTT
1 AAATTTT-TTTTT
100265950 TTGCTGAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (13 bp):
AAATTTTTTTTTG
Found at i:100268799 original size:21 final size:21
Alignment explanation
Indices: 100268753--100268800 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
100268743 TATATCTAAA
*
100268753 AATTGTTATCATAATGTTTTT
1 AATTATTATCATAATGTTTTT
*
100268774 -CTTATTATCAATAAT-TTTTT
1 AATTATTATC-ATAATGTTTTT
100268794 AATTATT
1 AATTATT
100268801 TATTTGATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (21 bp):
AATTATTATCATAATGTTTTT
Found at i:100276096 original size:43 final size:43
Alignment explanation
Indices: 100276030--100276114 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
100276020 TCACTGCCAA
*
100276030 AAGCCAAACATTATTACATTATTATTACTAACTCAATGTAGGG
1 AAGCCAAACATTATTACATTATTATTACTAACTCAACGTAGGG
* *
100276073 AAGCTAAACATTATTACATTATTATTACTAACTGAACGTAGG
1 AAGCCAAACATTATTACATTATTATTACTAACTCAACGTAGG
100276115 AAAACAAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (43 bp):
AAGCCAAACATTATTACATTATTATTACTAACTCAACGTAGGG
Found at i:100277328 original size:27 final size:26
Alignment explanation
Indices: 100277291--100277342 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
100277281 CTTAAGACAA
** *
100277291 AAAAATTAAATTGATTTTATTTTATT
1 AAAAATTAAATAAATTATATTTTATT
100277317 AAAAATTAAAATAAATTATATTTTAT
1 AAAAATT-AAATAAATTATATTTTAT
100277343 CCAAAAGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
AAAAATTAAATAAATTATATTTTATT
Found at i:100278811 original size:16 final size:16
Alignment explanation
Indices: 100278780--100278816 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
100278770 ATATGAAGAA
100278780 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
100278796 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
100278812 TATTA
1 TATTA
100278817 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:100278851 original size:13 final size:13
Alignment explanation
Indices: 100278831--100278860 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
100278821 AAAATTGAAA
100278831 TATT-AAATAATT
1 TATTAAAATAATT
100278843 TATTAAAATAATT
1 TATTAAAATAATT
100278856 TATTA
1 TATTA
100278861 TATGATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TATTAAAATAATT
Found at i:100278895 original size:22 final size:23
Alignment explanation
Indices: 100278870--100278915 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
100278860 ATATGATTAA
100278870 ATATTTAAAATTAT-AATATTTT
1 ATATTTAAAATTATAAATATTTT
* *
100278892 ATATTTATAATTTTAAATATTTT
1 ATATTTAAAATTATAAATATTTT
100278915 A
1 A
100278916 AAAATAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATATTTAAAATTATAAATATTTT
Found at i:100279942 original size:21 final size:20
Alignment explanation
Indices: 100279913--100279959 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
100279903 ATTTATACAT
* *
100279913 ATAAATAAAAAACATAAAAAA
1 ATAATTAAAAAA-AGAAAAAA
100279934 ATAATTAAAAAAAGAAAAAA
1 ATAATTAAAAAAAGAAAAAA
100279954 A-AATTA
1 ATAATTA
100279960 CCCCAAAGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 5 0.21
20 8 0.33
21 11 0.46
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (20 bp):
ATAATTAAAAAAAGAAAAAA
Found at i:100281401 original size:22 final size:20
Alignment explanation
Indices: 100281343--100281410 Score: 52
Period size: 22 Copynumber: 3.5 Consensus size: 20
100281333 TTGCTTTCAT
*
100281343 CATTATTATTAT-TACTA-A
1 CATTTTTATTATATACTATA
* *
100281361 CATGTATA-TATATACTATA
1 CATTTTTATTATATACTATA
*
100281380 TATTTTTATTATATCACGTATA
1 CATTTTTATTATAT-AC-TATA
*
100281402 CGTTTTTAT
1 CATTTTTAT
100281411 ATGTACGCTA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
17 3 0.08
18 10 0.27
19 6 0.16
20 5 0.14
21 2 0.05
22 11 0.30
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.51
Consensus pattern (20 bp):
CATTTTTATTATATACTATA
Found at i:100296336 original size:22 final size:20
Alignment explanation
Indices: 100296278--100296345 Score: 52
Period size: 22 Copynumber: 3.5 Consensus size: 20
100296268 TTGCTTTCAT
*
100296278 CATTATTATTAT-TACTA-A
1 CATTTTTATTATATACTATA
* *
100296296 CATGTATA-TATATACTATA
1 CATTTTTATTATATACTATA
*
100296315 TATTTTTATTATATCACGTATA
1 CATTTTTATTATAT-AC-TATA
*
100296337 CGTTTTTAT
1 CATTTTTAT
100296346 ATGTACGCTA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
17 3 0.08
18 10 0.27
19 6 0.16
20 5 0.14
21 2 0.05
22 11 0.30
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.51
Consensus pattern (20 bp):
CATTTTTATTATATACTATA
Found at i:100302436 original size:3 final size:3
Alignment explanation
Indices: 100302428--100302468 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
100302418 TTTTAAGCAC
100302428 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
100302469 TTCGACCCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:100305228 original size:3 final size:3
Alignment explanation
Indices: 100305220--100305245 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
100305210 TGGTTATGGA
100305220 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
100305246 AAAATAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:100307597 original size:15 final size:14
Alignment explanation
Indices: 100307570--100307600 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
100307560 TTTGATCAAG
100307570 TAAAATTAAATTAA
1 TAAAATTAAATTAA
100307584 TAAAATTAAAATTAA
1 TAAAATT-AAATTAA
100307599 TA
1 TA
100307601 TGATATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAAATTAAATTAA
Found at i:100308051 original size:37 final size:36
Alignment explanation
Indices: 100307988--100308094 Score: 94
Period size: 37 Copynumber: 2.9 Consensus size: 36
100307978 ATTCTAAAAA
*
100307988 TAATATTATTTTAATAGTTTAATATTAAATTAAATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAAATT
* *
100308024 TAATACTTATCTTAATAGTATT-TTATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTAA-ATT
* * *
100308062 AAATTGATTATCTTAAT-GTTAAAT-TTAATTTAA
1 TAA-T-ATTATCTTAATAGTTTAATATTAAATTAA
100308095 TGTTACATTC
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
36 5 0.08
37 32 0.54
38 10 0.17
39 11 0.19
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAAATT
Found at i:100308063 original size:11 final size:11
Alignment explanation
Indices: 100307988--100308176 Score: 58
Period size: 11 Copynumber: 16.8 Consensus size: 11
100307978 ATTCTAAAAA
*
100307988 TAATATTATTT
1 TAATATTAATT
100307999 TAATAGTTTAATAT
1 TAATA--TTAAT-T
100308013 TAA-ATTAAATT
1 TAATATT-AATT
100308024 TAATACTT-ATCT
1 TAATA-TTAAT-T
*
100308036 TAATAGT-ATT
1 TAATATTAATT
100308046 T--TATTAATT
1 TAATATTAATT
100308055 TAATATTAAATT
1 TAATATT-AATT
* *
100308067 GATTATCTTAATGT
1 --TAATATTAAT-T
100308081 TAA-ATTTAATT
1 TAATA-TTAATT
*
100308092 TAATGTTACA-T
1 TAATATTA-ATT
* *
100308103 T-CTATTATTT
1 TAATATTAATT
*
100308113 TAATA-AAATT
1 TAATATTAATT
100308123 TAATATTAAATT
1 TAATATT-AATT
*
100308135 TAAT-CTAATAT
1 TAATATTAAT-T
* * *
100308146 CAAGATAAATAT
1 TAATATTAAT-T
100308158 T-ATATTAATT
1 TAATATTAATT
100308168 TAATATTAA
1 TAATATTAA
100308177 AGTAATTAAG
Statistics
Matches: 131, Mismatches: 23, Indels: 48
0.65 0.11 0.24
Matches are distributed among these distances:
8 3 0.02
9 4 0.03
10 21 0.16
11 48 0.37
12 35 0.27
13 10 0.08
14 10 0.08
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (11 bp):
TAATATTAATT
Found at i:100310568 original size:53 final size:53
Alignment explanation
Indices: 100310487--100310637 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
100310477 CTTACACGGT
* *
100310487 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
100310542 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACTGAATCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
100310595 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
100310638 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:100313376 original size:39 final size:39
Alignment explanation
Indices: 100313318--100313439 Score: 165
Period size: 39 Copynumber: 3.1 Consensus size: 39
100313308 TTTTGAGTAT
* * * *
100313318 TGTGATATAT-TCTTGAATGTTATGTGATTAAATATGTAT
1 TGTGATATATGT-TTAAATGTTATGTGATTATATGTGTAC
*
100313357 TGTGATATATGTTTAAATGTTATGTGATTGTATGTGTAC
1 TGTGATATATGTTTAAATGTTATGTGATTATATGTGTAC
* *
100313396 TGTGATATATGCTTAAATGTTACGTGATTATATGTGTAC
1 TGTGATATATGTTTAAATGTTATGTGATTATATGTGTAC
100313435 TGTGA
1 TGTGA
100313440 CAGCCCTAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 73 0.99
40 1 0.01
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.47
Consensus pattern (39 bp):
TGTGATATATGTTTAAATGTTATGTGATTATATGTGTAC
Found at i:100316321 original size:43 final size:43
Alignment explanation
Indices: 100316045--100316308 Score: 429
Period size: 43 Copynumber: 6.1 Consensus size: 43
100316035 GTTAAATCCC
* *
100316045 GCAGGCTTCGTACCGGTGATGTATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
100316088 GCAGGCTTCGTGGCGGTGATGTGTATTCGGGCTTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
100316131 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * **
100316174 GCAGGCTTCGTGTCGGTGATGTATATTCTAGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
100316217 GCAGGCTTCGTGCCGGTGATGTGTATTCGAGCCTTCGTACCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
100316260 GCAGGCTTCTTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
100316303 GCAGGC
1 GCAGGC
100316309 GTAATGCCGG
Statistics
Matches: 204, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 204 1.00
ACGTcount: A:0.12, C:0.25, G:0.33, T:0.31
Consensus pattern (43 bp):
GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:100316562 original size:20 final size:20
Alignment explanation
Indices: 100316537--100316585 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
100316527 AGTGTGAAAA
100316537 TGAGATG-AAAGAAAAGTGTT
1 TGAGATGTAAA-AAAAGTGTT
*
100316557 TGAGATGTATAAAAAGTGTT
1 TGAGATGTAAAAAAAGTGTT
100316577 TGAGATGTA
1 TGAGATGTA
100316586 TAATTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 25 0.93
21 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.31
Consensus pattern (20 bp):
TGAGATGTAAAAAAAGTGTT
Found at i:100316586 original size:20 final size:20
Alignment explanation
Indices: 100316548--100316588 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
100316538 GAGATGAAAG
100316548 AAAAGTGTTTGAGATGTATA
1 AAAAGTGTTTGAGATGTATA
100316568 AAAAGTGTTTGAGATGTATA
1 AAAAGTGTTTGAGATGTATA
100316588 A
1 A
100316589 TTATATACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.34
Consensus pattern (20 bp):
AAAAGTGTTTGAGATGTATA
Found at i:100320298 original size:28 final size:27
Alignment explanation
Indices: 100320234--100320298 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
100320224 ACACAAATTG
* * *
100320234 AAAATATAATAAAAAGTGATTATATTA
1 AAAATAAAATAAAAAGTAAATATATTA
* *
100320261 AAATTGAAAATAAAATGTAAATATGATTA
1 AAAAT-AAAATAAAAAGTAAATAT-ATTA
100320290 AAAATAAAA
1 AAAATAAAA
100320299 ATATATATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.13
28 18 0.60
29 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTAAATATATTA
Found at i:100321874 original size:22 final size:22
Alignment explanation
Indices: 100321823--100321883 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
100321813 ATAAGTAAAT
* *
100321823 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
100321844 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
100321866 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
100321884 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:100322100 original size:16 final size:16
Alignment explanation
Indices: 100322079--100322110 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
100322069 TTATAATAAT
100322079 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
100322095 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
100322111 GTAACAATAA
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:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:100322125 original size:12 final size:12
Alignment explanation
Indices: 100322102--100322150 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
100322092 ACAAGTGATG
*
100322102 ATAATAACAGTA
1 ATAATAATAGTA
*
100322114 ACAATAATAGTA
1 ATAATAATAGTA
100322126 ATAATATATTAGTA
1 ATAATA-A-TAGTA
100322140 ATACATAATAG
1 ATA-ATAATAG
100322151 AGTAGTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 15 0.48
13 4 0.13
14 9 0.29
15 3 0.10
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:100322243 original size:16 final size:15
Alignment explanation
Indices: 100322214--100322256 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
100322204 TATACGTATG
*
100322214 AAAAATAATGATAGT
1 AAAAATAATAATAGT
100322229 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
100322245 AATAATAATAAT
1 AAAAATAATAAT
100322257 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:100322363 original size:3 final size:3
Alignment explanation
Indices: 100322357--100322392 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
100322347 CCATATTATT
100322357 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
100322393 TAGAAATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:100323041 original size:25 final size:26
Alignment explanation
Indices: 100322985--100323054 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
100322975 CTCAAAAAAG
* *
100322985 AAAAAGAAAAATCCCCTCTTGAATCTC
1 AAAAA-AAAAATCTCTTCTTGAATCTC
100323012 AAAAAAAAAATCTCTTCTTGAATCTC
1 AAAAAAAAAATCTCTTCTTGAATCTC
100323038 -AAAAAAAAATCTCTTCT
1 AAAAAAAAAATCTCTTCT
100323055 CTCCAAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 17 0.41
26 19 0.46
27 5 0.12
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.27
Consensus pattern (26 bp):
AAAAAAAAAATCTCTTCTTGAATCTC
Found at i:100323713 original size:44 final size:44
Alignment explanation
Indices: 100323508--100323733 Score: 221
Period size: 44 Copynumber: 5.2 Consensus size: 44
100323498 TGAGTTCTTG
* *
100323508 ATCTGCT-TCTTCGATCTGTTCCCCATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * * *
100323551 ATCTGCTGTCTTC-AACTTGTTCCTTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
* *
100323595 ATCTGCTATCTTC-AACTTGTTCCCTATAAGCACAGGGATTCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
*** * * * *
100323637 ATGCTAAAATCTTCGATCTGCTTCACC-GTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTC-CCTATAAGCACAGGGATGCCAA
*
100323683 TTCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
100323727 ATCTGCT
1 ATCTGCT
100323734 GTTTTTAACT
Statistics
Matches: 150, Mismatches: 24, Indels: 17
0.79 0.13 0.09
Matches are distributed among these distances:
42 2 0.01
43 21 0.14
44 110 0.73
45 16 0.11
46 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
Found at i:100324274 original size:206 final size:202
Alignment explanation
Indices: 100323891--100324603 Score: 996
Period size: 206 Copynumber: 3.5 Consensus size: 202
100323881 GGGAACATCC
* * * *
100323891 GAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
*
100323956 ATCTTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGA
66 ATC-TGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGA
* *
100324021 GATGCCAGACTTCGATTTGCTCTCTGACAATACAGAGACCACAAATCATCTTAGATTTACTTCAT
130 GATGCCA-ACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT-CTTCAT
100324086 CATAATCACGT
193 C-TAATCACGT
* * * * *
100324097 GAAAGCCAAATCAGTTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
*
100324162 ATCTTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTTTCTGCTCTCCATTGAAGTGGA
66 ATC-TGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGA
* * * *
100324227 GATGCCGAACTTTGATTTGTTCTCTGACAATATAGAGACGGCAAATCATCTTAGA-TT-TGC-T-
130 GATGCC-AACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTCTTCATC
100324288 T--TCACGT
194 TAATCACGT
100324295 GAAAGCCAAATCAGCTATGTC-TTGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * * ** *
100324359 ATCTGCTTCAGTGA-AATCATCTGAATG-CGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
66 ATCTGCTTCAGT-ATAAACATCTGAAGGTC-AGATCTGCTATGTATCTGCTCTCCATTGAAGTGG
*
100324422 AGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCA
129 AGATGCC-AACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT-CTTCA
100324487 TCGTAATCACGT
192 TC-TAATCACGT
* *
100324499 GAAAGCCAAATCAGCTATATCTTTGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * *
100324564 ATCTGCTTCAGTAT-AACATCTGTAGGCCAGATCTGTTATG
66 ATCTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATG
100324604 CTGCGGCCTA
Statistics
Matches: 457, Mismatches: 36, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
195 1 0.00
196 101 0.22
197 45 0.10
198 26 0.06
199 2 0.00
200 2 0.00
202 2 0.00
203 2 0.00
204 47 0.10
205 57 0.12
206 171 0.37
207 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (202 bp):
GAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGAG
ATGCCAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTCTTCATCTA
ATCACGT
Found at i:100332376 original size:13 final size:15
Alignment explanation
Indices: 100332346--100332376 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
100332336 TTCCAGATTT
100332346 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
100332361 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
100332376 T
1 T
100332377 GGAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:100332462 original size:15 final size:14
Alignment explanation
Indices: 100332420--100332469 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
100332410 ATAATTTTGA
*
100332420 ATGCAAATGATGTG
1 ATGCAAATGATGAG
100332434 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
100332449 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
100332463 ATGCAAA
1 ATGCAAA
100332470 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:100336326 original size:22 final size:22
Alignment explanation
Indices: 100336275--100336335 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
100336265 ATAAGTAAAT
* *
100336275 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
100336296 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
100336318 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
100336336 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:100336433 original size:3 final size:3
Alignment explanation
Indices: 100336425--100336535 Score: 50
Period size: 3 Copynumber: 36.7 Consensus size: 3
100336415 TAAAGTATGC
* * *
100336425 TAA TAA TAA TAA TAA TAA TAA T-C TAT TAA GTTA TAA TGAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA T-AA TAA TAA
* * * * *
100336470 TGA TAA TGA TGA T-A TAT TAGA TAA TAA TAG TAA -AA TAA TAA GTAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA -TAA
* * *
100336515 CAA TGA TAAA TTA TAA TAA TA
1 TAA TAA T-AA TAA TAA TAA TA
100336536 GTGATGAGAA
Statistics
Matches: 81, Mismatches: 18, Indels: 18
0.69 0.15 0.15
Matches are distributed among these distances:
2 7 0.09
3 63 0.78
4 11 0.14
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:100336556 original size:16 final size:16
Alignment explanation
Indices: 100336535--100336566 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
100336525 TTATAATAAT
100336535 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
100336551 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
100336567 GTAACAATAG
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:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:100336945 original size:14 final size:16
Alignment explanation
Indices: 100336912--100336951 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
100336902 CATATATGAC
*
100336912 ATAAAAATATACACTA
1 ATAATAATATACACTA
100336928 ATAATAATATA-A-TA
1 ATAATAATATACACTA
100336942 ATAATAATAT
1 ATAATAATAT
100336952 TAAAATGCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.52
15 1 0.04
16 10 0.43
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAATAATATACACTA
Found at i:100337476 original size:24 final size:25
Alignment explanation
Indices: 100337422--100337488 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
100337412 ATCTCAAAAA
* *
100337422 AAAAGAAAAATCCCCTCTTGAATCTC
1 AAAA-AAAAATCTCTTCTTGAATCTC
100337448 AAAAAAAAATCTCTTCTTGAATCTC
1 AAAAAAAAATCTCTTCTTGAATCTC
100337473 -AAAAAAAATCTCTTCT
1 AAAAAAAAATCTCTTCT
100337489 CTCCAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
24 16 0.41
25 19 0.49
26 4 0.10
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.28
Consensus pattern (25 bp):
AAAAAAAAATCTCTTCTTGAATCTC
Found at i:100339346 original size:19 final size:18
Alignment explanation
Indices: 100339322--100339357 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
100339312 ACTTGAAGGC
100339322 TTTTTTTAAGTAATTCATA
1 TTTTTTTAA-TAATTCATA
100339341 TTTTTTTAATAATTCAT
1 TTTTTTTAATAATTCAT
100339358 TTTAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTTTTAATAATTCATA
Found at i:100342528 original size:15 final size:15
Alignment explanation
Indices: 100342508--100342537 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
100342498 TTTGGCTTGC
100342508 ATGCAAGTATTATTT
1 ATGCAAGTATTATTT
*
100342523 ATGCAATTATTATTT
1 ATGCAAGTATTATTT
100342538 TTTAATGATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (15 bp):
ATGCAAGTATTATTT
Found at i:100346341 original size:42 final size:42
Alignment explanation
Indices: 100346277--100346362 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
100346267 TGTTATTATT
100346277 TTTATCATTTCAGTCAAAATGTGCTGCTAAACTCTAGCATAC
1 TTTATCATTTCAGTCAAAATGTGCTGCTAAACTCTAGCATAC
*
100346319 TTTATCATTTCAGTCAACATGTGCTGCTAAACTCTAGCATAC
1 TTTATCATTTCAGTCAAAATGTGCTGCTAAACTCTAGCATAC
100346361 TT
1 TT
100346363 CGGTTGAATC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (42 bp):
TTTATCATTTCAGTCAAAATGTGCTGCTAAACTCTAGCATAC
Found at i:100349411 original size:19 final size:19
Alignment explanation
Indices: 100349387--100349424 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
100349377 GAGGCAGTAA
100349387 GAAGAAGTGAGAAATATAT
1 GAAGAAGTGAGAAATATAT
100349406 GAAGAAGTGAGAAATATAT
1 GAAGAAGTGAGAAATATAT
100349425 CCAGTAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (19 bp):
GAAGAAGTGAGAAATATAT
Found at i:100358843 original size:21 final size:22
Alignment explanation
Indices: 100358814--100358860 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
100358804 CAGAAGGAGT
*
100358814 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
100358836 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
100358857 GAGT
1 GAGT
100358861 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:100365044 original size:20 final size:22
Alignment explanation
Indices: 100365005--100365046 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
100364995 AAATATTTTT
100365005 TTAATATTTTTAACAATTGAAA
1 TTAATATTTTTAACAATTGAAA
*
100365027 TTAA-ATTTTTAA-ATTTGAAA
1 TTAATATTTTTAACAATTGAAA
100365047 AATAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (22 bp):
TTAATATTTTTAACAATTGAAA
Found at i:100365052 original size:21 final size:21
Alignment explanation
Indices: 100365010--100365054 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
100365000 TTTTTTTAAT
*
100365010 ATTTTTAACAATTGAAATTAA
1 ATTTTTAACAATTGAAAATAA
*
100365031 ATTTTTAA-ATTTGAAAAATAA
1 ATTTTTAACAATTG-AAAATAA
100365052 ATT
1 ATT
100365055 ATGACATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (21 bp):
ATTTTTAACAATTGAAAATAA
Done.