Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 105 of 318
Found at i:33987878 original size:52 final size:49
Alignment explanation
Indices: 33987793--33988155 Score: 422
Period size: 45 Copynumber: 7.6 Consensus size: 49
33987783 TTTGAGTACT
* ** *
33987793 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
33987839 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
33987891 TCTGA-CAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
33987936 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
33987988 TCTGATCAAGT---AATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
33988034 TCTGATCAA-TGACAAGTGAAAAGTGATAAGTGA-AGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * *
33988084 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTT-AGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
33988129 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
33988156 GCTGCACTTA
Statistics
Matches: 285, Mismatches: 11, Indels: 43
0.84 0.03 0.13
Matches are distributed among these distances:
45 87 0.31
46 63 0.22
47 1 0.00
48 4 0.01
49 5 0.02
50 28 0.10
51 23 0.08
52 74 0.26
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:33987922 original size:97 final size:98
Alignment explanation
Indices: 33987793--33988144 Score: 568
Period size: 97 Copynumber: 3.6 Consensus size: 98
33987783 TTTGAGTACT
* *
33987793 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
33987858 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
33987891 TCTGA-CAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
33987955 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * *
33987988 TCTGATCAAGTAATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAA-TGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
33988052 AAAAGTGATAAGTGA-AGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * *
33988084 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTT-AGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
33988145 AGTGATAAGT
Statistics
Matches: 239, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
95 18 0.08
96 53 0.22
97 115 0.48
98 53 0.22
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:33988207 original size:34 final size:35
Alignment explanation
Indices: 33988119--33988258 Score: 196
Period size: 34 Copynumber: 4.0 Consensus size: 35
33988109 TGATAGCTTA
33988119 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGA-AC-AAGTGATAAGTG
*
33988156 GCTGCACTTATCTGATCAAGAACAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAACAAGTGATAAGTG
*
33988191 GCTACAC-TATCTGATCAAGAAAAAAGTGAT-AGTG
1 GCTACACTTATCTGATCAAG-AACAAGTGATAAGTG
* *
33988225 GCTACACTTAT-TGATCAGGGACAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAACAAGTGATAAGTG
33988259 ATCATACGTA
Statistics
Matches: 94, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
33 8 0.09
34 34 0.36
35 30 0.32
36 2 0.02
37 20 0.21
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (35 bp):
GCTACACTTATCTGATCAAGAACAAGTGATAAGTG
Found at i:33988252 original size:68 final size:72
Alignment explanation
Indices: 33988119--33988258 Score: 216
Period size: 68 Copynumber: 2.0 Consensus size: 72
33988109 TGATAGCTTA
* *
33988119 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTGCACTTATCTGATCAAGAACAAGTG
1 GCTACACTTATCTGATCAAGAGAAAAAGTGATAAGTGGCTACACTTATCTGATCAAGAACAAGTG
33988184 ATAAGTG
66 ATAAGTG
* *
33988191 GCTACAC-TATCTGATCAAGA-AAAAAGTGAT-AGTGGCTACACTTAT-TGATCAGGGACAAGTG
1 GCTACACTTATCTGATCAAGAGAAAAAGTGATAAGTGGCTACACTTATCTGATCAAGAACAAGTG
33988252 ATAAGTG
66 ATAAGTG
33988259 ATCATACGTA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
68 21 0.33
69 14 0.22
70 9 0.14
71 13 0.20
72 7 0.11
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (72 bp):
GCTACACTTATCTGATCAAGAGAAAAAGTGATAAGTGGCTACACTTATCTGATCAAGAACAAGTG
ATAAGTG
Found at i:33991626 original size:42 final size:42
Alignment explanation
Indices: 33991566--33991666 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
33991556 GTCGCTAAAG
* * **
33991566 CGCCGCT-AAGACCATGACCTTTAGTGGCGCTTTTTTTCAAA
1 CGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTCACAAA
33991607 CGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTCACAAA
1 CGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTCACAAA
* * *
33991649 CTCCACTAAAAACAATGA
1 CGCCGCTAAAAACCATGA
33991667 TCTTAAAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
41 7 0.13
42 45 0.87
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (42 bp):
CGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTCACAAA
Found at i:34006231 original size:18 final size:18
Alignment explanation
Indices: 34006208--34006258 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
34006198 TCAATAATAT
34006208 TCATTTATTCAGTATCAG
1 TCATTTATTCAGTATCAG
** *
34006226 TCATTTATTTTGTAACAG
1 TCATTTATTCAGTATCAG
*
34006244 TCAATTATTCAGTAT
1 TCATTTATTCAGTAT
34006259 TAGACAATCT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (18 bp):
TCATTTATTCAGTATCAG
Found at i:34007616 original size:22 final size:22
Alignment explanation
Indices: 34007574--34007625 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
34007564 ACTATTATAA
* *
34007574 TATTTATTATTTATACATGTAT
1 TATTTATTATATACACATGTAT
34007596 GTATTTATTA-ATACACATGTAT
1 -TATTTATTATATACACATGTAT
34007618 TCATTTAT
1 T-ATTTAT
34007626 CACATCACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 16 0.62
23 9 0.35
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.54
Consensus pattern (22 bp):
TATTTATTATATACACATGTAT
Found at i:34011128 original size:3 final size:3
Alignment explanation
Indices: 34011120--34011171 Score: 52
Period size: 3 Copynumber: 16.7 Consensus size: 3
34011110 TATGTAAATA
* *
34011120 AAT AAT AAT AGAT AA- AAT AAT AAT AAT GAT AGT AAT AAT AAAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
34011166 ATAT AA
1 A-AT AA
34011172 GTAAAAGGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 2 0.05
3 30 0.73
4 9 0.22
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:34011141 original size:18 final size:18
Alignment explanation
Indices: 34011115--34011171 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
34011105 AAACATATGT
34011115 AAATAAATAATAATAGATA
1 AAAT-AATAATAATAGATA
34011134 AAATAATAATAAT-GATA
1 AAATAATAATAATAGATA
* *
34011151 GTAATAATAAATAATATATA
1 -AAATAAT-AATAATAGATA
34011171 A
1 A
34011172 GTAAAAGGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 4 0.12
18 15 0.47
19 10 0.31
20 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
AAATAATAATAATAGATA
Found at i:34015237 original size:10 final size:10
Alignment explanation
Indices: 34015222--34015271 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
34015212 TTTTTCAAAT
34015222 AATTATTAAA
1 AATTATTAAA
34015232 AATTA-TAGAA
1 AATTATTA-AA
*
34015242 AATTTTTAAA
1 AATTATTAAA
34015252 AATTATT-AA
1 AATTATTAAA
34015261 AATTAATTAAA
1 AATT-ATTAAA
34015272 GTTAAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.24
10 22 0.65
11 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
AATTATTAAA
Found at i:34015270 original size:20 final size:20
Alignment explanation
Indices: 34015222--34015271 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
34015212 TTTTTCAAAT
34015222 AATTATTAAAAATTATAGAA
1 AATTATTAAAAATTATAGAA
* *
34015242 AATTTTTAAAAATTAT-TAA
1 AATTATTAAAAATTATAGAA
34015261 AATTAATTAAA
1 AATT-ATTAAA
34015272 GTTAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AATTATTAAAAATTATAGAA
Found at i:34018918 original size:52 final size:49
Alignment explanation
Indices: 34018833--34019199 Score: 449
Period size: 46 Copynumber: 7.6 Consensus size: 49
34018823 TTTGAGTACT
* ** *
34018833 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
34018879 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
34018931 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
34018977 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
34019029 TCTGATCAAGT---AATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
34019075 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* ** *
34019127 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
34019173 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
34019200 GCTGCACTTA
Statistics
Matches: 291, Mismatches: 12, Indels: 36
0.86 0.04 0.11
Matches are distributed among these distances:
46 153 0.53
48 2 0.01
49 7 0.02
50 3 0.01
52 126 0.43
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:34018953 original size:98 final size:98
Alignment explanation
Indices: 34018833--34019188 Score: 595
Period size: 98 Copynumber: 3.6 Consensus size: 98
34018823 TTTGAGTACT
* *
34018833 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
34018898 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
34018931 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
34018996 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * *
34019029 TCTGATCAAGTAATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
34019094 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * * *
34019127 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
34019189 AGTGATAAGT
Statistics
Matches: 244, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 244 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (98 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:34019211 original size:37 final size:37
Alignment explanation
Indices: 34019163--34019308 Score: 224
Period size: 37 Copynumber: 4.0 Consensus size: 37
34019153 GATAGCTTTA
*
34019163 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
34019200 GCTGCACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
34019237 GCTACACTTATCTGATCAAGAAAAAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
34019274 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
34019309 ATCATACGTA
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
35 11 0.11
36 3 0.03
37 86 0.86
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:34023274 original size:42 final size:43
Alignment explanation
Indices: 34023214--34023315 Score: 136
Period size: 42 Copynumber: 2.4 Consensus size: 43
34023204 GTCGCTAAAG
* * *
34023214 CGCCGCT-AAGACCATGACCTTTAGTGGCGCTTTTTT-TCAAA
1 CGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTTCACAAA
34023255 CGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTTCACAAA
1 CGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTTCACAAA
* * *
34023298 CTCCACTAAAAACAATGA
1 CGCCGCTAAAAACCATGA
34023316 TCTTAAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 7 0.13
42 27 0.51
43 19 0.36
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
CGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTTCACAAA
Found at i:34023657 original size:17 final size:18
Alignment explanation
Indices: 34023630--34023663 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
34023620 ATGCCAAAAT
34023630 GTTGAACTCCATATTCCA
1 GTTGAACTCCATATTCCA
34023648 GTTG-ACTCCATATTCC
1 GTTGAACTCCATATTCC
34023664 CCCACATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (18 bp):
GTTGAACTCCATATTCCA
Found at i:34024976 original size:20 final size:20
Alignment explanation
Indices: 34024951--34024991 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
34024941 CAGGACAGAT
34024951 AGCAAAATTTTACCAATAAG
1 AGCAAAATTTTACCAATAAG
34024971 AGCAAAATTTTACCAATAAG
1 AGCAAAATTTTACCAATAAG
34024991 A
1 A
34024992 TTTATAGTAA
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:0.51, C:0.15, G:0.10, T:0.24
Consensus pattern (20 bp):
AGCAAAATTTTACCAATAAG
Found at i:34027554 original size:22 final size:21
Alignment explanation
Indices: 34027520--34027568 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
34027510 CATAAACACT
*
34027520 AACCCTTGAACCTTTAACCCC
1 AACCCTTGAACCTTAAACCCC
*
34027541 AAACCCTT-ACACCTTAAACTCC
1 -AACCCTTGA-ACCTTAAACCCC
34027563 AACCCT
1 AACCCT
34027569 AACCCCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.33, C:0.43, G:0.02, T:0.22
Consensus pattern (21 bp):
AACCCTTGAACCTTAAACCCC
Found at i:34027648 original size:21 final size:22
Alignment explanation
Indices: 34027624--34027704 Score: 94
Period size: 21 Copynumber: 3.6 Consensus size: 22
34027614 ACTCCTAAAC
34027624 CTTAAACCCTAAACT-ATATAT
1 CTTAAACCCTAAACTCATATAT
* * *
34027645 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCCTA---AACTCATATAT
34027670 CTTAAACCCTAAA-TCATATAT
1 CTTAAACCCTAAACTCATATAT
34027691 CTTAAACCCTAAAC
1 CTTAAACCCTAAAC
34027705 CTTAAACTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
21 29 0.59
22 2 0.04
24 4 0.08
25 14 0.29
ACGTcount: A:0.43, C:0.26, G:0.01, T:0.30
Consensus pattern (22 bp):
CTTAAACCCTAAACTCATATAT
Found at i:34027661 original size:46 final size:46
Alignment explanation
Indices: 34027608--34027698 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
34027598 CTTCAAATAC
*
34027608 TAGTTAACTCCTAAACCTTAAACCCTAAA-CTATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAATC-ATATATCTTAAACCA
34027654 TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAAACC
1 TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAAACC
34027699 CTAAACCTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 42 0.98
47 1 0.02
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.31
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAAACCA
Found at i:34027755 original size:25 final size:25
Alignment explanation
Indices: 34027721--34027770 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
34027711 CTATAATGAT
34027721 AATTAATTCGATATTTTAAATTCAA
1 AATTAATTCGATATTTTAAATTCAA
34027746 AATTAATTCGATATTTTAAATTCAA
1 AATTAATTCGATATTTTAAATTCAA
34027771 TACTATCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (25 bp):
AATTAATTCGATATTTTAAATTCAA
Found at i:34028077 original size:50 final size:50
Alignment explanation
Indices: 34028018--34028116 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
34028008 TAAGCAAGTC
*
34028018 TGGATATAGTTATTAAAATTATAATAAATAACTGAAAAAGACACTTAACT
1 TGGATATAGTTATTAAAATAATAATAAATAACTGAAAAAGACACTTAACT
*
34028068 TGGATATAGTTATTAAAATAATAATAAATAATTGAAAAAGACACTTAAC
1 TGGATATAGTTATTAAAATAATAATAAATAACTGAAAAAGACACTTAAC
34028117 ATTTTCTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (50 bp):
TGGATATAGTTATTAAAATAATAATAAATAACTGAAAAAGACACTTAACT
Found at i:34030017 original size:3 final size:3
Alignment explanation
Indices: 34030009--34030037 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34029999 TATATACATA
34030009 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34030038 ACAAAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:34033474 original size:43 final size:45
Alignment explanation
Indices: 34033392--34033486 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 45
34033382 CTGCTTAGGG
* * *
34033392 AGATAAGATCTTCAATCTTCAATCTGCTTTCTTACTACCTTAGAA
1 AGATAAGATCTTCAATCTTCAACCTACTCTCTTACTACCTTAGAA
** *
34033437 AGATAAGA-C-TCAATCTTCAACCTACTCTCTTGTTACCTTAGAG
1 AGATAAGATCTTCAATCTTCAACCTACTCTCTTACTACCTTAGAA
34033480 AGATAAG
1 AGATAAG
34033487 GCCTGAGGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
43 35 0.80
44 1 0.02
45 8 0.18
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.34
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTACTCTCTTACTACCTTAGAA
Found at i:34033482 original size:177 final size:177
Alignment explanation
Indices: 34033138--34034068 Score: 1058
Period size: 176 Copynumber: 5.3 Consensus size: 177
34033128 AATAGGACTG
* * * *
34033138 GTGGCTCAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCCTCAATCTGCTCCAC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
* * * * * *
34033203 AATTGCTTAGGGA-A-ACAGATCTTCAATCTTCAATCTACTTCCTTGCTACCTTAGGAAGATAAA
66 TACTGCTTAGGGAGATA-AGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTTAGGAAGATAAG
* * *
34033266 ACTACAAT-TGCCAACCTGCTCTTTTGCTACCTCAGAGAGATAAGACTTA
130 ACT-CAATCT-TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
* * * * *
34033315 GTGGCTAAAATCTACTCCATTGTCGGTACATGGAGATAAGATTCGCCATCTTCGATCTGCTCTAC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
* * *
34033380 TACTGCTTAGGGAGATAAGATCTTCAATCTTCAATCTGCTTTCTTACTACCTTAGAAAGATAAGA
66 TACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTTAGGAAGATAAGA
* * * *
34033445 CTCAATCTTCAACCTACTCTCTTGTTACCTTAGAGAGATAAGGCCT-
131 CTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
* * * * *
34033491 GAGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCTATCTCCGATCTGCTCCAC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
* * * *
34033556 TACTGCTTGGGGAGATAAGATCTTTAATCGTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGA
66 TACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTTAGGAAGATAAGA
** *
34033621 CAAAAAT-TACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
131 C-TCAATCT-TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
* * * * * *
34033669 ATGGCTAAAATCTGCTCCATTACATG-TACACGGAGATAAGATTCACCGTCTTCGATTTGCTCCA
1 GTGGCTAAAATCTGCTCCATTGC-CGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCA
* * *
34033733 CTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGTCTG-TTTCCTTGCTACCTCAGGAATATAA
65 CTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTT-CTTGCTACCTTAGGAAGATAA
* * * ** *
34033797 GACTCATTCTTCAACTTGCTCTCTTGCTACCTTAGAGAGGCAAGGC-TG
129 GACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
** ** * * * * **
34033845 GTGATTTGAATCTGCTCCATTGTCAATACATGGAGATAAGATTCACCATCTTCAATCCGCTCCGT
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
* ** * * **
34033910 TGCAACTTCAGGGAGATAAGATCTTCAAT-TTCTAGTTTGCTTTCTTGCTACC-CAAAAAGATAA
66 TACTGCTT-AGGGAGATAAGATCTTCAATCTTC-AGTCTGCTTTCTTGCTACCTTAGGAAGATAA
* *
34033973 GACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG-TTG
129 GACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
34034021 GTGG-TAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAT
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAT
34034069 ATTCAATTTA
Statistics
Matches: 637, Mismatches: 103, Indels: 30
0.83 0.13 0.04
Matches are distributed among these distances:
175 40 0.06
176 227 0.36
177 209 0.33
178 159 0.25
179 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (177 bp):
GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
TACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTTAGGAAGATAAGA
CTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTA
Found at i:34033799 original size:354 final size:349
Alignment explanation
Indices: 34033140--34034068 Score: 1120
Period size: 354 Copynumber: 2.6 Consensus size: 349
34033130 TAGGACTGGT
* *
34033140 GGCTCAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATC-CTCAATCTGCTCCACA
1 GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTC-CAATCTGCTCCACT
* * * *
34033204 ATTGCTTAGGGA-A-ACAGATCTTCAATCTTCAATCTACTTCCTTGCTACCTTAGGAAGATAAAA
65 ACTGCTTAGGGAGATA-AGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGA
* * * *
34033267 CTACAATTGCCAACCTGCTCTTTTGCTACCTCAGAGAGATAAGACTTAGTGGCTAAAATCTACTC
129 C-AAAATT-CCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAGTGGCTAAAATCTGCTC
* * * *
34033332 CATTGTCGGTACATGGAGATAAGATTCGCCATCTTCGATCTGCTCTACTACTGCTTAGGGAGATA
192 CATT-ACCGTACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
*
34033397 AGATCTTCAATCTTCAATCTGCTTTCTTACTACCTTAGAAAGATAAGACTCAATCTTCAACCTAC
256 AGATCTTCAATCTTCAATCTGCTTTCTTACTACCTCAGAAAGATAAGACTCAATCTTCAACCTAC
* *
34033462 TCTCTTGTTACCTTAGAGAGATAAGGCCTG
321 TCTCTTGCTACCTTAGAGAGACAAGG-CTG
* *
34033492 AGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCTATCTCCGATCTGCTCCACT
1 -GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTCCAATCTGCTCCACT
* * *
34033557 ACTGCTTGGGGAGATAAGATCTTTAATCGTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGAC
65 ACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGAC
*
34033622 AAAAATTACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAATGGCTAAAATCTGCTCC
130 -AAAATT-CCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAGTGGCTAAAATCTGCTCC
* * * *
34033687 ATTACATGTACACGGAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAA
193 ATTAC-CGTACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
* * * * * * * *
34033752 GATCTTCAATCTTTAGTCTG-TTTCCTTGCTACCTCAGGAATATAAGACTCATTCTTCAACTTGC
257 GATCTTCAATCTTCAATCTGCTTT-CTTACTACCTCAGAAAGATAAGACTCAATCTTCAACCTAC
*
34033816 TCTCTTGCTACCTTAGAGAGGCAAGGCTG
321 TCTCTTGCTACCTTAGAGAGACAAGGCTG
* * * * * * * **
34033845 GTGATTTGAATCTGCTCCATTGTCAATACATGGAGATAAGATTCACCATCTTCAATCCGCTCCGT
1 G-G-CTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTCCAATCTGCTCCAC
* ** * * * **
34033910 TGCAACTTCAGGGAGATAAGATCTTCAAT-TTCTAGTTTGCTTTCTTGCTACC-CAAAAAGATAA
64 TACTGCTT-AGGGAGATAAGATCTTCAATCTTC-AGTCTGCTTCCTTGCTACCTTAGGAAGATAA
** *
34033973 GAC-TCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG-TTGGTGG-TAAAATCTGC
127 GACAAAATTC--CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAGTGGCTAAAATCTGC
*
34034035 TCCATTGCCGATACATGGAGATAAGATTCACCAT
190 TCCATTACCG-TACATGGAGATAAGATTCACCAT
34034069 ATTCAATTTA
Statistics
Matches: 497, Mismatches: 67, Indels: 26
0.84 0.11 0.04
Matches are distributed among these distances:
350 1 0.00
351 39 0.08
352 9 0.02
353 110 0.22
354 302 0.61
355 36 0.07
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (349 bp):
GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTCCAATCTGCTCCACTA
CTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACA
AAATTCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAGTGGCTAAAATCTGCTCCATT
ACCGTACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
TTCAATCTTCAATCTGCTTTCTTACTACCTCAGAAAGATAAGACTCAATCTTCAACCTACTCTCT
TGCTACCTTAGAGAGACAAGGCTG
Found at i:34034144 original size:44 final size:44
Alignment explanation
Indices: 34034084--34034192 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
34034074 ATTTATTCTG
* *
34034084 CTGCAACTTCAAGGAGATAAGATCTT-CAAACTTCAG-TTACTCCA
1 CTGCAACTTCAGGGAGATAAGA-CTTGCAAA-TTCAGCCTACTCCA
* * * * *
34034128 CTGCAACCTCAGGGAGATAAGACTTGTATATTGAGCCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTTGCAAATTCAGCCTACTCCA
34034172 CTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAAG
34034193 GCTGGTGACT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 7 0.13
44 48 0.87
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGACTTGCAAATTCAGCCTACTCCA
Found at i:34034212 original size:44 final size:44
Alignment explanation
Indices: 34034123--34034215 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
34034113 ACTTCAGTTA
* * *
34034123 CTCCACTGCAACCTCAGGGAGATAAGACTTGTATATTGAGCCTG
1 CTCCACTGCAACCTCAGGGAGATAAGACTGGTATATTAAACCTG
* * * *
34034167 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGA-CTTAAATCTG
1 CTCCACTGCAACCTCAGGGAGATAAGACTGGT-ATATTAAACCTG
34034211 CTCCA
1 CTCCA
34034216 TTGCCGGTAC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 40 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (44 bp):
CTCCACTGCAACCTCAGGGAGATAAGACTGGTATATTAAACCTG
Found at i:34034579 original size:129 final size:129
Alignment explanation
Indices: 34034349--34034669 Score: 545
Period size: 129 Copynumber: 2.5 Consensus size: 129
34034339 TTCATGTATC
* * *
34034349 ATGCTTATGCCAAATAATTAGGATGCTATGATAAAAAATAAATCAAATACTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGTA
*
34034414 ACGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
66 ACGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
34034478 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGTA
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGTA
*
34034543 ATGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
66 ACGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
* * * * *
34034607 TTGCTTATGTCAAATAATTAGGATGCTATGATC-GAAATGAATCAAATGCTCCTAAATAGATGT
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGT
34034670 GTTATGAATA
Statistics
Matches: 182, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
128 26 0.14
129 156 0.86
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (129 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGTA
ACGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:34034672 original size:64 final size:64
Alignment explanation
Indices: 34034349--34034670 Score: 473
Period size: 64 Copynumber: 5.0 Consensus size: 64
34034339 TTCATGTATC
* ** * *
34034349 ATGCTTATGCCAAATAATTAGGATGCTATGATAAAAAATAAATCAAATACTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGAT-CGAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
34034414 ACGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* * * *
34034478 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAAATAAATCAAATACTCCTAACTAGATGTA
1 ATGCTTATGTCAAATAATTAGGATGCTATGATC-GAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
34034543 ATGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* *
34034607 TTGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAAATAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
34034671 TTATGAATAA
Statistics
Matches: 229, Mismatches: 27, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
64 143 0.62
65 86 0.38
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:34035804 original size:30 final size:29
Alignment explanation
Indices: 34035759--34035816 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
34035749 CTCATTTTCT
34035759 TTTTCTTTTTTAATTTTATTTCT-TTTTA
1 TTTTCTTTTTTAATTTTATTTCTCTTTTA
*
34035787 TTTTCTTTTTTTCAATTTTTTTTCTCTTTT
1 TTTTC-TTTTTT-AATTTTATTTCTCTTTT
34035817 TTTATTTCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 5 0.19
29 6 0.23
30 11 0.42
31 4 0.15
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTTCTTTTTTAATTTTATTTCTCTTTTA
Found at i:34035823 original size:19 final size:20
Alignment explanation
Indices: 34035781--34035820 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
34035771 ATTTTATTTC
34035781 TTTTTATTTTCTTTTTTTCAA
1 TTTTTATTTTCTTTTTTT-AA
34035802 TTTTT-TTTCTCTTTTTTTA
1 TTTTTATTT-TCTTTTTTTA
34035821 TTTCGATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTATTTTCTTTTTTTAA
Found at i:34035847 original size:15 final size:13
Alignment explanation
Indices: 34035802--34035850 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
34035792 TTTTTTTCAA
34035802 TTTTTTTTCTCTT
1 TTTTTTTTCTCTT
34035815 TTTTTATTTCGATCTT
1 TTTTT-TTTC--TCTT
*
34035831 TTTTCTTTCTCTAT
1 TTTTTTTTCTCT-T
34035845 TTTTTT
1 TTTTTT
34035851 AAGGTTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 8 0.27
14 10 0.33
15 4 0.13
16 8 0.27
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTTTTTCTCTT
Found at i:34036427 original size:26 final size:28
Alignment explanation
Indices: 34036373--34036427 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 28
34036363 ATGACATTTG
34036373 TTCTATTGTTTGCTTTTCTTTTTCTTTT
1 TTCTATTGTTTGCTTTTCTTTTTCTTTT
34036401 TTCTATT-TTTG-TATTT-TTTTTCTTTT
1 TTCTATTGTTTGCT-TTTCTTTTTCTTTT
34036427 T
1 T
34036428 GGATGCCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 12 0.46
27 7 0.27
28 7 0.27
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.78
Consensus pattern (28 bp):
TTCTATTGTTTGCTTTTCTTTTTCTTTT
Found at i:34040998 original size:25 final size:25
Alignment explanation
Indices: 34040956--34041004 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
34040946 CATAATAACA
*
34040956 AAGAATAAACAATATAC-ATGAAAG
1 AAGAACAAACAATATACAATGAAAG
34040980 AAGAACAAACCAATATACAATGAAA
1 AAGAACAAA-CAATATACAATGAAA
34041005 CTATATATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
25 8 0.36
26 6 0.27
ACGTcount: A:0.63, C:0.12, G:0.10, T:0.14
Consensus pattern (25 bp):
AAGAACAAACAATATACAATGAAAG
Found at i:34042125 original size:9 final size:9
Alignment explanation
Indices: 34042069--34042166 Score: 90
Period size: 9 Copynumber: 11.0 Consensus size: 9
34042059 AAAATGCTTG
34042069 ATTACCCGA
1 ATTACCCGA
**
34042078 ATTAAACGA
1 ATTACCCGA
* *
34042087 ATAACCTGA
1 ATTACCCGA
**
34042096 ATTAAACGA
1 ATTACCCGA
*
34042105 ATTAACCG-
1 ATTACCCGA
*
34042113 ATTACCCAA
1 ATTACCCGA
*
34042122 ATTACCCAA
1 ATTACCCGA
*
34042131 ATTACCCGG
1 ATTACCCGA
*
34042140 ATTGCCCGA
1 ATTACCCGA
34042149 ATTACCCGA
1 ATTACCCGA
34042158 ATTACCCGA
1 ATTACCCGA
34042167 TTTGAATCAC
Statistics
Matches: 70, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
8 6 0.09
9 64 0.91
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (9 bp):
ATTACCCGA
Found at i:34042236 original size:17 final size:17
Alignment explanation
Indices: 34042214--34042311 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
34042204 TTTGAATCAC
34042214 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
** *
34042231 TACATAAGTATATGAATCAC
1 TACATAA-T-TAAAAAT-AT
* *
34042251 TGCATAATTAAAAACAT
1 TACATAATTAAAAATAT
*** *
34042268 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
34042288 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
34042305 TACATAA
1 TACATAA
34042312 ATCTTGAAAT
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 22 0.39
18 9 0.16
19 10 0.18
20 15 0.27
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:34042293 original size:20 final size:19
Alignment explanation
Indices: 34042167--34042294 Score: 52
Period size: 20 Copynumber: 6.9 Consensus size: 19
34042157 AATTACCCGA
34042167 TTTGAATCACTACATAA--
1 TTTGAATCACTACATAAGT
** * * *
34042184 TTAAAAACATTAAATAAGT
1 TTTGAATCACTACATAAGT
34042203 CTTTGAATCACTACATAA-T
1 -TTTGAATCACTACATAAGT
*** *
34042222 TAAAAAT-ATTACATAAGT
1 TTTGAATCACTACATAAGT
* *
34042240 ATATGAATCACTGCATAA--
1 -TTTGAATCACTACATAAGT
** * *
34042258 TTAAAAACATTACATAAGT
1 TTTGAATCACTACATAAGT
34042277 CTTTGAATCACTACATAA
1 -TTTGAATCACTACATAA
34042295 TTAAAAACAT
Statistics
Matches: 74, Mismatches: 28, Indels: 15
0.63 0.24 0.13
Matches are distributed among these distances:
17 31 0.42
18 5 0.07
19 6 0.08
20 32 0.43
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (19 bp):
TTTGAATCACTACATAAGT
Found at i:34042333 original size:37 final size:37
Alignment explanation
Indices: 34042167--34042316 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
34042157 AATTACCCGA
*
34042167 TTTGAATCACTACATAATTAAAAACATTAAATAAGTC
1 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
* *
34042204 TTTGAATCACTACATAATTAAAAATATTACATAAGTA
1 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
* *
34042241 TATGAATCACTGCATAATTAAAAACATTACATAAGTC
1 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
*
34042278 TTTGAATCACTACATAATTAAAAACATTACATAAATC
1 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
34042315 TT
1 TT
34042317 GAAATTAACA
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.33
Consensus pattern (37 bp):
TTTGAATCACTACATAATTAAAAACATTACATAAGTC
Found at i:34043480 original size:28 final size:26
Alignment explanation
Indices: 34043440--34043497 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 26
34043430 GCTATGATAC
* *
34043440 TTTTGAAGGTTTTGGGAGATTTTGAAGA
1 TTTTAAAGGTTTTGAGAGA-TTTGAA-A
34043468 TTTTAAAGGTTTTGAGAGATTTGAAA
1 TTTTAAAGGTTTTGAGAGATTTGAAA
34043494 TTTT
1 TTTT
34043498 CAATTAGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.18
27 6 0.21
28 17 0.61
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (26 bp):
TTTTAAAGGTTTTGAGAGATTTGAAA
Found at i:34043675 original size:13 final size:13
Alignment explanation
Indices: 34043657--34043690 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34043647 ATTTGTATTG
*
34043657 GGTTGGGTAATTA
1 GGTTGGGTAAATA
*
34043670 GGTTGGGTAAATG
1 GGTTGGGTAAATA
34043683 GGTTGGGT
1 GGTTGGGT
34043691 TGGGTTGGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.35
Consensus pattern (13 bp):
GGTTGGGTAAATA
Found at i:34060810 original size:16 final size:17
Alignment explanation
Indices: 34060778--34060817 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
34060768 CTTGTTGTAA
34060778 TGGGC-TTGTTTGGATT
1 TGGGCTTTGTTTGGATT
*
34060794 TGGGCTTTGTTT-TATT
1 TGGGCTTTGTTTGGATT
34060810 TGGG-TTTG
1 TGGGCTTTG
34060818 GCATTTGGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 12 0.55
17 6 0.27
ACGTcount: A:0.05, C:0.05, G:0.35, T:0.55
Consensus pattern (17 bp):
TGGGCTTTGTTTGGATT
Found at i:34061283 original size:44 final size:45
Alignment explanation
Indices: 34061187--34061528 Score: 187
Period size: 44 Copynumber: 7.8 Consensus size: 45
34061177 ACCTGACACG
* * * * * *
34061187 ATCTCCTCTACTGTAACTTCAAAGAGATAAGATCCT-TTA-TTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGAT-CTACTAGCTTCA
* *
34061231 ATCCACTCCACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTACTAGCTTCA
* *
34061275 ATCTACTCCGCTGTAA-TCTCAGAGAGATAAGATCT-CTGGCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCTACTAGCTTCA
* * * * * *
34061319 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCT-ACTA-GCTTCA
* * * * * * *
34061365 GTCTACTCCATTGTAACCTCA-AGGTGATAAGA-C--CT-GATGCG
1 ATCTACTCCACTGTAACTTCAGA-GAGATAAGATCTACTAGCTTCA
** * *
34061406 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCT-TTA-TTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGAT-CTACTAGCTTCA
** * *
34061450 ATCCGCTCCACTGTAA-TCTCAGGGAGATAGGAT-TACTAGCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCTACTAGCTTCA
**
34061494 ATCTACTCCGTTGTAA-TCTCATG-GAGATAAGATCT
1 ATCTACTCCACTGTAACT-TCA-GAGAGATAAGATCT
34061529 GAAATTCTTT
Statistics
Matches: 226, Mismatches: 52, Indels: 39
0.71 0.16 0.12
Matches are distributed among these distances:
41 27 0.12
42 3 0.01
43 7 0.03
44 155 0.69
45 4 0.02
46 30 0.13
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (45 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTACTAGCTTCA
Found at i:34061466 original size:175 final size:175
Alignment explanation
Indices: 34061241--34061575 Score: 426
Period size: 175 Copynumber: 1.9 Consensus size: 175
34061231 ATCCACTCCA
* * *
34061241 CTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAG
1 CTGTAACTTCAGAGAGATAAGATTACTAGCTTCAATCCACTCCACTGTAATCTCAGAGAGATAAG
* *
34061306 ATCT-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
66 AT-TACTAGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCT-
* *
34061370 CT-CCATTGTAACCTCAAGGTGATAAGACCTGATGCGATCTACTCTG
129 CTCCCACTGTAACCTCAAGGAGATAAGACCTGATGCGATCTACTCTG
* * * *
34061416 CTGTAACTTCAGAGAGATAAGATCCT-TTA-TTTCAATCCGCTCCACTGTAATCTCAGGGAGATA
1 CTGTAACTTCAGAGAGATAAGAT--TACTAGCTTCAATCCACTCCACTGTAATCTCAGAGAGATA
* ** * * *
34061479 GGATTACTAGCTTCAATCTACTCCGTTGTAATCTCATGGAGATAAGATCTGAAATTCTTTGGTCT
64 AGATTACTAGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCT
* * *
34061544 GTCCCACTGTAATCTCAGGGAGATAAGACCTG
129 CTCCCACTGTAACCTCAAGGAGATAAGACCTG
34061576 TATAATAAAC
Statistics
Matches: 136, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
174 2 0.01
175 131 0.96
176 2 0.01
177 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (175 bp):
CTGTAACTTCAGAGAGATAAGATTACTAGCTTCAATCCACTCCACTGTAATCTCAGAGAGATAAG
ATTACTAGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTCT
CCCACTGTAACCTCAAGGAGATAAGACCTGATGCGATCTACTCTG
Found at i:34076147 original size:26 final size:26
Alignment explanation
Indices: 34076113--34076164 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
34076103 AAACTCTTCT
* *
34076113 AAAAC-AAAATTCAAGAGAAATTTTTA
1 AAAACAAAAACTCAA-AGAAAATTTTA
*
34076139 AAAAGAAAAACTCAAAGAAAATTTTA
1 AAAACAAAAACTCAAAGAAAATTTTA
34076165 TTAACTTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (26 bp):
AAAACAAAAACTCAAAGAAAATTTTA
Found at i:34076709 original size:14 final size:15
Alignment explanation
Indices: 34076690--34076729 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
34076680 AACATTATAT
34076690 ATTAATTTT-AATTA
1 ATTAATTTTCAATTA
34076704 ATTAATTTTTCAATTA
1 ATTAA-TTTTCAATTA
*
34076720 AATAATTTTC
1 ATTAATTTTC
34076730 TCAACTCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 9 0.39
16 9 0.39
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTAATTTTCAATTA
Found at i:34076720 original size:16 final size:16
Alignment explanation
Indices: 34076690--34076733 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
34076680 AACATTATAT
34076690 ATTAA-TTTT-AATTA
1 ATTAATTTTTCAATTA
34076704 ATTAATTTTTCAATTA
1 ATTAATTTTTCAATTA
*
34076720 AATAATTTTCTCAA
1 ATTAATTTT-TCAA
34076734 CTCGATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 5 0.19
15 4 0.15
16 13 0.50
17 4 0.15
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTAATTTTTCAATTA
Found at i:34077357 original size:105 final size:105
Alignment explanation
Indices: 34077175--34077369 Score: 282
Period size: 105 Copynumber: 1.9 Consensus size: 105
34077165 GACATACCAT
* ** *
34077175 TACGAAAGCTACTTGATCACTACTCATCCAATGACCTTGTCAAAAGTGTGTTACCTTCATAGAAT
1 TACGAAAGCTACTCGATCACTACTCATCCAATGACCTTACCAAAAGTGTGTTACCTTCATAGAAC
34077240 ATCCTTAATCTCTTTGGGATAAATCTATTCTCCCGAATGA
66 ATCCTTAATCTCTTTGGGATAAATCTATTCTCCCGAATGA
* * ** * *
34077280 TACGAAAGTTACTCGATCAGTACTTGTCCAATGACCTTACCATAAGTTTGTTACCTTCATAGAAC
1 TACGAAAGCTACTCGATCACTACTCATCCAATGACCTTACCAAAAGTGTGTTACCTTCATAGAAC
* *
34077345 ATCTTTAATCTCTTTTGGATAAATC
66 ATCCTTAATCTCTTTGGGATAAATC
34077370 CGTTCTCCTA
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
105 78 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (105 bp):
TACGAAAGCTACTCGATCACTACTCATCCAATGACCTTACCAAAAGTGTGTTACCTTCATAGAAC
ATCCTTAATCTCTTTGGGATAAATCTATTCTCCCGAATGA
Found at i:34078285 original size:22 final size:22
Alignment explanation
Indices: 34078260--34078303 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
34078250 CCTTAAAGTT
34078260 TAATT-AATTAAAATATTTAAAA
1 TAATTGAATTAAAA-ATTTAAAA
* *
34078282 TAATTGAGTTCAAAATTTAAAA
1 TAATTGAATTAAAAATTTAAAA
34078304 AAAAAATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (22 bp):
TAATTGAATTAAAAATTTAAAA
Found at i:34080047 original size:11 final size:11
Alignment explanation
Indices: 34080016--34080047 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
34080006 TGAAATTTTC
34080016 TCAAAATTCTA
1 TCAAAATTCTA
*
34080027 TCAAATTTCTA
1 TCAAAATTCTA
34080038 TCAAAATTCT
1 TCAAAATTCT
34080048 TTGTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:34080076 original size:15 final size:15
Alignment explanation
Indices: 34080056--34080087 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
34080046 CTTTGTTTAA
*
34080056 AATTTTTTTAAATTT
1 AATTTTTTTAAAATT
34080071 AATTTTTTTAAAATT
1 AATTTTTTTAAAATT
34080086 AA
1 AA
34080088 AAAAATCCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTTTTTAAAATT
Found at i:34080292 original size:48 final size:46
Alignment explanation
Indices: 34080188--34080314 Score: 139
Period size: 48 Copynumber: 2.7 Consensus size: 46
34080178 AATTTTAAAT
* * *
34080188 TTTCAATACTATTCGATATTATTTTAATTTATGCAAATTTAATTAAA
1 TTTCAATACTATTTGATATT-TTTTCATTTATGCAAATTTAATCAAA
*
34080235 TTTGTAATACTATTTGATATTTTATTCATTTATGC-AATTATAATCACAA
1 TTT-CAATACTATTTGATATTTT-TTCATTTATGCAAATT-TAATCA-AA
** *
34080284 TTTCAATACTGCTTGATTTTTTTTCATTTAT
1 TTTCAATACTATTTGATATTTTTTCATTTAT
34080315 AATGTTTGCA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
47 18 0.26
48 45 0.66
49 5 0.07
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (46 bp):
TTTCAATACTATTTGATATTTTTTCATTTATGCAAATTTAATCAAA
Found at i:34082306 original size:16 final size:16
Alignment explanation
Indices: 34082278--34082320 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
34082268 ATAAGCAAAT
*
34082278 TATAAA-CATATAAAA
1 TATAAATCAAATAAAA
34082293 TATAAATCAAATAAAA
1 TATAAATCAAATAAAA
*
34082309 TAAAAAT-AAATA
1 TATAAATCAAATA
34082321 TATTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (16 bp):
TATAAATCAAATAAAA
Found at i:34082601 original size:21 final size:20
Alignment explanation
Indices: 34082576--34082644 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
34082566 TAATAAAATT
34082576 TATAAACAAAATATATAATGA
1 TATAAACAAAATATATAAT-A
*
34082597 TATAAACAATATGATAGATAATA
1 TATAAACAA-A--ATATATAATA
*
34082620 TATAAA-ATAATATAT-ATA
1 TATAAACAAAATATATAATA
34082638 TAGTAAA
1 TA-TAAA
34082645 ATGTATGTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
18 5 0.12
19 9 0.22
21 10 0.24
22 2 0.05
23 7 0.17
24 8 0.20
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (20 bp):
TATAAACAAAATATATAATA
Found at i:34082675 original size:10 final size:10
Alignment explanation
Indices: 34082585--34082695 Score: 61
Period size: 10 Copynumber: 10.6 Consensus size: 10
34082575 TTATAAACAA
34082585 AATATATAAT
1 AATATATAAT
* *
34082595 GATATA-AAC
1 AATATATAAT
34082604 AATATGATAGAT
1 AATAT-ATA-AT
34082616 AATATATAA-
1 AATATATAAT
34082625 AATA-AT-AT
1 AATATATAAT
34082633 ATATATAGTAA-
1 A-ATATA-TAAT
*
34082644 AATGTATGTAATAT
1 AA--TATAT-A-AT
34082658 AATATATAAT
1 AATATATAAT
*
34082668 AATGTATAAT
1 AATATATAAT
34082678 AATATAATAAAT
1 AATAT-AT-AAT
34082690 AATATA
1 AATATA
34082696 CAAAGATTAA
Statistics
Matches: 78, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
7 1 0.01
8 3 0.04
9 13 0.17
10 24 0.31
11 11 0.14
12 23 0.29
13 1 0.01
14 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (10 bp):
AATATATAAT
Found at i:34088358 original size:126 final size:126
Alignment explanation
Indices: 34088133--34088501 Score: 612
Period size: 126 Copynumber: 2.9 Consensus size: 126
34088123 CTATAGTCTC
34088133 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* *
34088198 ACAGTTCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* * * *
34088259 ATTTTTCTACGAACTACTGTAGCGAAAGAACGTCCACGTGGGAGCTTTTTCCAGAAATTTTGTTG
1 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* * *
34088324 ACAGTGCATCCTGCTTGAAGCATTTTCAACACTATTTGTTCAGAAACATCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* *
34088385 ATTTTTCTACAAAATACTGTAGCAAAATAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* *
34088450 ATAGTGCATCCTGCTTGAAGCATTTTCTGACACTATTTGTCCAGAAACGTCT
66 ACAGTGCATCCTGCTTGAAGCATTTTC-GACACTATTTGTTCAGAAACGTCT
34088502 GCTTAGAATT
Statistics
Matches: 223, Mismatches: 19, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
126 202 0.91
127 21 0.09
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
Found at i:34088782 original size:20 final size:20
Alignment explanation
Indices: 34088759--34088831 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
34088749 TTGTGTATGT
34088759 ATCAATTAACCCTAAATTTA
1 ATCAATTAACCCTAAATTTA
* *
34088779 ATCAATTAACCCTAAACCCTAA
1 ATCAATTAACCCTAAA--TTTA
*
34088801 ATCAA-T--CCAT-AATTTA
1 ATCAATTAACCCTAAATTTA
34088817 ATCAATTAACCCTAA
1 ATCAATTAACCCTAA
34088832 TACCCTAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
16 7 0.17
17 1 0.02
18 2 0.05
19 6 0.15
20 17 0.41
21 1 0.02
22 7 0.17
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (20 bp):
ATCAATTAACCCTAAATTTA
Found at i:34088974 original size:22 final size:23
Alignment explanation
Indices: 34088939--34088989 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
34088929 ACTTAAAAAA
34088939 CCTAAACTCTTAAAAACCATAAC
1 CCTAAACTCTTAAAAACCATAAC
* *
34088962 TCTAAAC-CTTAAAAACCCTAAC
1 CCTAAACTCTTAAAAACCATAAC
34088984 CCTAAA
1 CCTAAA
34088990 TTAATTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (23 bp):
CCTAAACTCTTAAAAACCATAAC
Found at i:34093172 original size:21 final size:22
Alignment explanation
Indices: 34093148--34093194 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
34093138 CTTTGCTCAA
*
34093148 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
34093169 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
34093191 ACTC
1 ACTC
34093195 ACTCCTTCTG
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:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:34101167 original size:75 final size:75
Alignment explanation
Indices: 34101082--34101231 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
34101072 TAGAAGTAAT
34101082 TGTAGTCTTTGAGGAAACGATATCTGTCCTCACCATAGCTATACTATTAATTGATAGTTGCATTT
1 TGTAGTCTTTGAGGAAACGATATCTGTCCTCACCATAGCTATACTATTAATTGATAGTTGCATTT
34101147 GTCTTGGCTA
66 GTCTTGGCTA
34101157 TGTAGTCTTTGAGGAAACGATATCTGTCCTCACCATAGCTATACTATTAATTGATAGTTGCATTT
1 TGTAGTCTTTGAGGAAACGATATCTGTCCTCACCATAGCTATACTATTAATTGATAGTTGCATTT
34101222 GTCTTGGCTA
66 GTCTTGGCTA
34101232 ATTTATTAAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (75 bp):
TGTAGTCTTTGAGGAAACGATATCTGTCCTCACCATAGCTATACTATTAATTGATAGTTGCATTT
GTCTTGGCTA
Found at i:34105782 original size:17 final size:19
Alignment explanation
Indices: 34105755--34105794 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
34105745 AGGCCAATTT
*
34105755 GGGCTGTGTGGG-TTACAC
1 GGGCTGTGTGGGCCTACAC
34105773 GGGC-GTGTGGGCCTACAC
1 GGGCTGTGTGGGCCTACAC
34105791 GGGC
1 GGGC
34105795 AGGCCACATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.10, C:0.23, G:0.47, T:0.20
Consensus pattern (19 bp):
GGGCTGTGTGGGCCTACAC
Found at i:34110441 original size:24 final size:24
Alignment explanation
Indices: 34110414--34110465 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
34110404 TTAGCAAGTC
* *
34110414 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
34110438 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
34110462 AAAT
1 AAAT
34110466 CTTCTAGAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:34117775 original size:47 final size:48
Alignment explanation
Indices: 34117653--34117777 Score: 125
Period size: 47 Copynumber: 2.7 Consensus size: 48
34117643 CATTGGCTAA
* * *
34117653 CATCTCGA-GGCCGATGCATGTCTTAAACAT-GTCTTACACTAGCACT
1 CATCTCAATGGCCGATGCATGTCTCAGACATGGTCTTACACTAGCACT
* * * *
34117699 CGTCTCAAT-GCCGATGCCATGCCTCAGACATGGTCTTACACTGGCTCT
1 CATCTCAATGGCCGATG-CATGTCTCAGACATGGTCTTACACTAGCACT
*
34117747 CAT-T-ATGTGGCCGATGCATGTCTCAGACATG
1 CATCTCA-ATGGCCGATGCATGTCTCAGACATG
34117778 TCTAACAATG
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
46 14 0.22
47 27 0.42
48 23 0.36
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (48 bp):
CATCTCAATGGCCGATGCATGTCTCAGACATGGTCTTACACTAGCACT
Found at i:34121908 original size:24 final size:24
Alignment explanation
Indices: 34121880--34121931 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
34121870 TTAGCAAGTC
* *
34121880 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
34121904 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
34121928 AAAT
1 AAAT
34121932 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:34122543 original size:20 final size:21
Alignment explanation
Indices: 34122507--34122584 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
34122497 TGATATCCCC
34122507 TTATATTTTTTAGTATT-TCTCA
1 TTAT-TTTTTTA-TATTATCTCA
**
34122529 TTATTTTTTTATATTCCCTCA
1 TTATTTTTTTATATTATCTCA
*
34122550 -TATTTTTTTATTTTATCCTCA
1 TTATTTTTTTATATTAT-CTCA
*
34122571 TAATTTTTTATATA
1 TTATTTTTT-TATA
34122585 ATTTCAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
20 17 0.37
21 15 0.33
22 11 0.24
23 3 0.07
ACGTcount: A:0.23, C:0.12, G:0.01, T:0.64
Consensus pattern (21 bp):
TTATTTTTTTATATTATCTCA
Found at i:34123240 original size:10 final size:10
Alignment explanation
Indices: 34123227--34123282 Score: 58
Period size: 10 Copynumber: 5.5 Consensus size: 10
34123217 CAAAAATTTT
34123227 AAAAAAATAC
1 AAAAAAATAC
*
34123237 AAAAAATTAC
1 AAAAAAATAC
* *
34123247 GAGAAAATAC
1 AAAAAAATAC
* *
34123257 CAAAAAATAT
1 AAAAAAATAC
34123267 AAAAAAATAAC
1 AAAAAAAT-AC
34123278 AAAAA
1 AAAAA
34123283 TTATGAGGGA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
10 30 0.83
11 6 0.17
ACGTcount: A:0.75, C:0.09, G:0.04, T:0.12
Consensus pattern (10 bp):
AAAAAAATAC
Found at i:34123241 original size:20 final size:20
Alignment explanation
Indices: 34123218--34123286 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
34123208 AAGGAGCTCC
*
34123218 AAAAATTTTAAAAAAATACA
1 AAAAATTATAAAAAAATACA
** *
34123238 AAAAATTACGAGAAAATACCA
1 AAAAATTATAAAAAAATA-CA
34123259 AAAAA-TATAAAAAAATA-A
1 AAAAATTATAAAAAAATACA
34123277 CAAAAATTAT
1 -AAAAATTAT
34123287 GAGGGAATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 1 0.03
19 5 0.13
20 26 0.67
21 7 0.18
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (20 bp):
AAAAATTATAAAAAAATACA
Found at i:34136924 original size:21 final size:21
Alignment explanation
Indices: 34136876--34136937 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
34136866 CCTTCGAATG
*
34136876 AATCTCTTTTTGT-TATTTC-
1 AATCTCTTTTTTTGTATTTCA
* *
34136895 GAT-TTTTTTTTTGTATTTCA
1 AATCTCTTTTTTTGTATTTCA
*
34136915 AATCTCTTTTTTTGTATTCCA
1 AATCTCTTTTTTTGTATTTCA
34136936 AA
1 AA
34136938 ATAAAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 7 0.21
19 8 0.24
20 2 0.06
21 17 0.50
ACGTcount: A:0.19, C:0.13, G:0.06, T:0.61
Consensus pattern (21 bp):
AATCTCTTTTTTTGTATTTCA
Found at i:34137759 original size:44 final size:45
Alignment explanation
Indices: 34137708--34137852 Score: 143
Period size: 44 Copynumber: 3.1 Consensus size: 45
34137698 TCAGTTTGCT
*
34137708 CCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACT-TGTC
1 CCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACTCTGCC
** * *
34137752 CCACTGCAACTTCGGGGAGATAAGGTTTGTGATTTGTAGCTTCAA-TCTGCC
1 CCACTGCAACTTTAGGGAGATAA-------GACTTGTAACTTCAACTCTGCC
* *
34137803 CCACTGTAACTTTAGGGAGATAAGACTTGTAACTTCAAC-CTGCT
1 CCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACTCTGCC
34137847 CCACTG
1 CCACTG
34137853 TGATTTCCGG
Statistics
Matches: 81, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
44 44 0.54
50 1 0.01
51 36 0.44
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (45 bp):
CCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACTCTGCC
Found at i:34137853 original size:44 final size:44
Alignment explanation
Indices: 34137785--34137937 Score: 139
Period size: 44 Copynumber: 3.5 Consensus size: 44
34137775 GGTTTGTGAT
*
34137785 TTGTAGCTTCAATCTGCCCCACTGTAACTTTAGGGAGATAAGAC
1 TTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGAC
* * * * *
34137829 TTGTAACTTCAACCTGCTCCACTGTGA-TTTCCGGGAGATAAGGC
1 TTGTAGCTTCAATCTGCTCCACTGTAACTTT-AGGGAGATAAGAC
** * ** * *
34137873 TAATGGCTTTGATCTGCTCCACTGTAACTTCAGGGAGATAA-AA
1 TTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGAC
* *
34137916 TTGGTATCTTCAGTCTGCTCCA
1 TT-GTAGCTTCAATCTGCTCCA
34137938 ATGCCATTTT
Statistics
Matches: 81, Mismatches: 25, Indels: 6
0.72 0.22 0.05
Matches are distributed among these distances:
43 4 0.05
44 75 0.93
45 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (44 bp):
TTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGAC
Found at i:34137975 original size:88 final size:87
Alignment explanation
Indices: 34137932--34138445 Score: 658
Period size: 86 Copynumber: 5.9 Consensus size: 87
34137922 TCTTCAGTCT
* * * *
34137932 GCTCCAATGCCATTTTAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGAA
1 GCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGA
*
34137997 GATATGAACTATGGCTTCGAGCC
66 GATA-GAACTGTGGCTTCGAGCC
** *
34138020 GCTCTTACGCCATTTCAGGGAGAAGAGATTTGCAGCCTCGATCTACTCCGCTGAAACTTCAAGGA
1 GCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGA
**
34138085 GAT-CTACTGTGGCTTCGAGCC
66 GATAGAACTGTGGCTTCGAGCC
* * * *
34138106 ACT-CACATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTTAAAG
1 GCTCCA-ACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGG
* *
34138170 AGGTATGAACTGTGGCTTCGAGCA
65 AGATA-GAACTGTGGCTTCGAGCC
* * * * *
34138194 GCTCCTACGCAATTTGAGGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTTAAGG
1 GCTCCAACGCCATTTCA-GGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGG
* **
34138259 AGATACGAACTGTGGCATCGAGTA
65 AGATA-GAACTGTGGCTTCGAGCC
* * *
34138283 GCTCCAATGCCATTTCAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTTAAGGA
1 GCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGA
*
34138348 GATCTG--CTGTGGCTTCGAGCC
66 GAT-AGAACTGTGGCTTCGAGCC
* * *
34138369 GCTCCAACGCCATTTTAGGGAGAAGAGATTTGTAGCCCCGATCTACTCCACTGAAACTTCAAGGA
1 GCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGA
34138434 GATACGAACTGT
66 GATA-GAACTGT
34138446 TGATTTCAAC
Statistics
Matches: 370, Mismatches: 47, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
86 149 0.40
88 142 0.38
89 79 0.21
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (87 bp):
GCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGA
GATAGAACTGTGGCTTCGAGCC
Found at i:34138416 original size:263 final size:263
Alignment explanation
Indices: 34137949--34138445 Score: 771
Period size: 263 Copynumber: 1.9 Consensus size: 263
34137939 TGCCATTTTA
* *
34137949 GGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGAAGATATGAACTATGGCTT
1 GGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGAAGATACGAACTATGGCAT
* **
34138014 CGAGCCGCTCTTACGCCATTTCAGGGAGAAGAGATTTGCAGCCTCGATCTACTCCGCTGAAACTT
66 CGAGCAGCTCCAACGCCATTTCAGGGAGAAGAGATTTGCAGCCTCGATCTACTCCGCTGAAACTT
* *
34138079 CAAGGAGATCTACTGTGGCTTCGAGCCACTCACATGCCATTTCAGGGAGAAGAGATTTGTAGCCT
131 CAAGGAGATCTACTGTGGCTTCGAGCCACTCACACGCCATTTCAGGGAGAAGAGATTTGTAGCCC
* * * *
34138144 CGATCTACTCCGCTGAAACTTTAAAGAGGTATGAACTGTGGCTTCGAGCAGCTCCTACGCAATTT
196 CGATCTACTCCACTGAAACTTCAAAGAGATACGAACTGTGGCTTCGAGCAGCTCCTACGCAATTT
34138209 GAG
261 GAG
* * *
34138212 GGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTTAAGGAGATACGAACTGTGGCAT
1 GGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGAAGATACGAACTATGGCAT
* * * *
34138277 CGAGTAGCTCCAATGCCATTTCAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTT
66 CGAGCAGCTCCAACGCCATTTCAGGGAGAAGAGATTTGCAGCCTCGATCTACTCCGCTGAAACTT
* * * *
34138342 TAAGGAGATCTGCTGTGGCTTCGAGCCGCTC-CAACGCCATTTTAGGGAGAAGAGATTTGTAGCC
131 CAAGGAGATCTACTGTGGCTTCGAGCCACTCAC-ACGCCATTTCAGGGAGAAGAGATTTGTAGCC
*
34138406 CCGATCTACTCCACTGAAACTTCAAGGAGATACGAACTGT
195 CCGATCTACTCCACTGAAACTTCAAAGAGATACGAACTGT
34138446 TGATTTCAAC
Statistics
Matches: 210, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
262 1 0.00
263 209 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (263 bp):
GGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGAAGATACGAACTATGGCAT
CGAGCAGCTCCAACGCCATTTCAGGGAGAAGAGATTTGCAGCCTCGATCTACTCCGCTGAAACTT
CAAGGAGATCTACTGTGGCTTCGAGCCACTCACACGCCATTTCAGGGAGAAGAGATTTGTAGCCC
CGATCTACTCCACTGAAACTTCAAAGAGATACGAACTGTGGCTTCGAGCAGCTCCTACGCAATTT
GAG
Found at i:34138699 original size:131 final size:131
Alignment explanation
Indices: 34138450--34138813 Score: 482
Period size: 131 Copynumber: 2.8 Consensus size: 131
34138440 AACTGTTGAT
* * * * *
34138450 TTCAACCTGCTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATCTT-CTCCA--ATTGCT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAAT-TTGCTCCACTACTGGT
* * * * *
34138512 TAGGGAGACAAGATTCACCGTCTTTGATCTGTTCCACTGCAACTTCAGATAAACAAGCTCTACAA
65 TAGGGAGACAAGATTCGCCGTCTTCGATCTGTTCCACTACAACTTCAGAGAAACAAGATCTACAA
34138577 TC
130 TC
* *
34138579 TTCAGCCTACTCCACTACTGCTTAAGGAGATAGGATGGTGGCTTAAATTTGTTCCACTACTGGTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATTTGCTCCACTACTGGTT
* * * * **
34138644 CGGGAGACAAGATTCGCCGTCTTCGATCTGTTTCACTACAACTTCAGGGAGACAAGATCTGTAAT
66 AGGGAGACAAGATTCGCCGTCTTCGATCTGTTCCACTACAACTTCAGAGAAACAAGATCTACAAT
34138709 C
131 C
* * * *
34138710 TTCAGCCTACTCCACTACTGCTTAGGGAGATAAGATGGTGACTTAAATCTGCTCTACTACTGGTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATTTGCTCCACTACTGGTT
* *
34138775 AGGGAGACAAGATTTGCCGTCTTCGATCTGCTCCACTAC
66 AGGGAGACAAGATTCGCCGTCTTCGATCTGTTCCACTAC
34138814 TGCTTAGGGA
Statistics
Matches: 204, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
128 2 0.01
129 48 0.24
131 154 0.75
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (131 bp):
TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATTTGCTCCACTACTGGTT
AGGGAGACAAGATTCGCCGTCTTCGATCTGTTCCACTACAACTTCAGAGAAACAAGATCTACAAT
C
Found at i:34138814 original size:44 final size:44
Alignment explanation
Indices: 34138631--34138831 Score: 165
Period size: 44 Copynumber: 4.6 Consensus size: 44
34138621 TTAAATTTGT
* * * *
34138631 TCCACTACTGGTTCGGGAGACAAGATTCGCCGTCTTCGATCTGT
1 TCCACTACTGCTTAGGGAGACAAGATTTGCCGTCTTCGATCTGC
* ** * *** * *
34138675 TTCACTACAACTTCAGGGAGACAAGATCTGTAATCTTC-AGCCTAC
1 TCCACTACTGCTT-AGGGAGACAAGATTTGCCGTCTTCGA-TCTGC
* ** * **
34138720 TCCACTACTGCTTAGGGAGATAAGA--TGGTGACTTAAATCTGC
1 TCCACTACTGCTTAGGGAGACAAGATTTGCCGTCTTCGATCTGC
* *
34138762 TCTACTACTGGTTAGGGAGACAAGATTTGCCGTCTTCGATCTGC
1 TCCACTACTGCTTAGGGAGACAAGATTTGCCGTCTTCGATCTGC
*
34138806 TCCACTACTGCTTAGGGAGATAAGAT
1 TCCACTACTGCTTAGGGAGACAAGAT
34138832 CTGTGATTTC
Statistics
Matches: 117, Mismatches: 35, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
42 30 0.26
43 1 0.01
44 56 0.48
45 30 0.26
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (44 bp):
TCCACTACTGCTTAGGGAGACAAGATTTGCCGTCTTCGATCTGC
Found at i:34138996 original size:87 final size:87
Alignment explanation
Indices: 34138793--34139015 Score: 340
Period size: 88 Copynumber: 2.6 Consensus size: 87
34138783 AAGATTTGCC
*
34138793 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATTTCCAACCTGTTACCCTAC
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT-CAACCTGTTACCCTAC
*
34138858 TTCTTAAGGGGTTAAGGCTTACT
65 TGCTTAAGGGGTTAAGGCTTACT
* * * * *
34138881 GTCTTCGATGTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAGCTTGTTAGCCTAC
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAACCTGTTACCCTAC
*
34138946 TGCTT-GGGGGTTAAGGCTTACT
65 TGCTTAAGGGGTTAAGGCTTACT
*
34138968 GTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT
34139016 TCAATTTGCT
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
86 2 0.02
87 59 0.48
88 60 0.49
89 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (87 bp):
GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAACCTGTTACCCTACT
GCTTAAGGGGTTAAGGCTTACT
Found at i:34139266 original size:64 final size:64
Alignment explanation
Indices: 34139165--34139292 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
34139155 TCATGTACCT
*
34139165 ATGCTTATGCCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
34139229 ATGCTTATGTCAAATAATTAGGTTGCTATGATCGAAATGAATCAGATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
34139293 TTATGAATGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:34140053 original size:52 final size:54
Alignment explanation
Indices: 34139960--34140060 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 54
34139950 GCATAGTTCG
* *
34139960 AAATGAATAAATTATTCAAAGATTGCAAATGCAATAAGAAGG-AATTTAACTCA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTTAACTCA
* *
34140013 AAATGAATAAGTTAATCAAATATAGC-AATGCAATAAGAAGGAAATTTA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTTA
34140061 TTGGGACATA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 15 0.35
53 28 0.65
ACGTcount: A:0.52, C:0.08, G:0.14, T:0.26
Consensus pattern (54 bp):
AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTTAACTCA
Found at i:34148206 original size:42 final size:42
Alignment explanation
Indices: 34148145--34148305 Score: 171
Period size: 42 Copynumber: 3.7 Consensus size: 42
34148135 TCGTTTTCTC
** *
34148145 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAAT
* * *
34148187 GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATT
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAAT
* *
34148229 GATACCATGGCCCAGCTATGGTCTTACACGTAATCACATATCACAT-AT
1 GATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATAAT
34148277 CGATGCCATAGCCCAGCTATGGTCTTACA
1 -GATGCCATAGCCCAGCTATGGTCTTACA
34148306 TGAATCACAT
Statistics
Matches: 98, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
42 63 0.64
45 2 0.02
48 2 0.02
49 31 0.32
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAAT
Found at i:34148380 original size:47 final size:47
Alignment explanation
Indices: 34148239--34148403 Score: 163
Period size: 47 Copynumber: 3.5 Consensus size: 47
34148229 GATACCATGG
* * * * * *
34148239 CCCAGCTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAG
1 CCCAGATATGGTCTTATACGGAAGCACATAT--CATACCGATGCCATAT
* * * * *
34148288 CCCAGCTATGGTCTTACA-TGAATCACATATC-TCACTGATGCCATAT
1 CCCAGATATGGTCTTATACGGAAGCACATATCAT-ACCGATGCCATAT
* *
34148334 CCCAGATATGGTCTTATACGGTAGCATATATCATACCGATGCCATAT
1 CCCAGATATGGTCTTATACGGAAGCACATATCATACCGATGCCATAT
*
34148381 CCTAGATATGGTCTTATACGGAA
1 CCCAGATATGGTCTTATACGGAA
34148404 ATCACTTGTC
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 27 0.27
47 42 0.42
48 11 0.11
49 18 0.18
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (47 bp):
CCCAGATATGGTCTTATACGGAAGCACATATCATACCGATGCCATAT
Found at i:34148453 original size:31 final size:31
Alignment explanation
Indices: 34148418--34148566 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
34148408 CTTGTCACTT
*
34148418 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
34148449 GTAGCC-AGAGCTACCACTTTTCACTGATCAA
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
*
34148480 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** *
34148511 GTAGTAGAAGCTACCACTTTTCACTGCTCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
34148542 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
34148567 TGTCATTTTT
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
30 1 0.01
31 105 0.99
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:34148653 original size:50 final size:50
Alignment explanation
Indices: 34148542--34148718 Score: 282
Period size: 50 Copynumber: 3.5 Consensus size: 50
34148532 CACTGCTCAG
* * *
34148542 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
34148593 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
34148643 GTAGCTGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
34148693 GTAGCCAAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
34148719 GTTGCCATGG
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 92 0.79
51 24 0.21
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:34149604 original size:17 final size:17
Alignment explanation
Indices: 34149582--34149621 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
34149572 CATTTATTCT
34149582 ATAAGAAACTAGACTCA
1 ATAAGAAACTAGACTCA
*
34149599 ATAAGAAATTAGACTCA
1 ATAAGAAACTAGACTCA
34149616 ATAAGA
1 ATAAGA
34149622 TTTAATTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.20
Consensus pattern (17 bp):
ATAAGAAACTAGACTCA
Found at i:34151378 original size:30 final size:30
Alignment explanation
Indices: 34151344--34151404 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
34151334 CTTCATTTTG
34151344 TCACAAAACGGATGATGCTACACATGTGGC
1 TCACAAAACGGATGATGCTACACATGTGGC
34151374 TCACAAAACGGATGATGCTACACATGTGGC
1 TCACAAAACGGATGATGCTACACATGTGGC
34151404 T
1 T
34151405 GACTTATTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (30 bp):
TCACAAAACGGATGATGCTACACATGTGGC
Found at i:34151697 original size:40 final size:40
Alignment explanation
Indices: 34151609--34151785 Score: 203
Period size: 41 Copynumber: 4.4 Consensus size: 40
34151599 CATTTTACCA
* *
34151609 AAAACGCCGCTAAAAACGGAGCAATA-CTGGCGTTTTTTGTT
1 AAAACGCCGCTAAAAACAGAGCAATAGC-GGCGCTTTTTG-T
* * * *
34151650 AAAACGCCGCTAAAAATAGAGAAATAGCGGTGTTTTTTGT
1 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTTGT
* * *
34151690 AAAACGCCGCTAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTTGT
* * *
34151730 AAAACGCCGATAAAAACCAGAGTATTAGCGGCGCTTTTTGT
1 AAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTTTGT
*
34151771 AAAACACCGCTAAAA
1 AAAACGCCGCTAAAA
34151786 GTCATATAAC
Statistics
Matches: 117, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 48 0.41
41 68 0.58
42 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTTGT
Found at i:34151760 original size:81 final size:81
Alignment explanation
Indices: 34151609--34151785 Score: 214
Period size: 81 Copynumber: 2.2 Consensus size: 81
34151599 CATTTTACCA
* * * * *
34151609 AAAACGCCGCTAAAAACGGAGCAATACTGGCGTTTTTTGTTAAAACGCCGCTAAAAATAGAGAAA
1 AAAACGCCGCTAAAAACAGAGCAATACTGGCGTCTTTTGGTAAAACGCCGATAAAAACAGAGAAA
* *
34151674 TAGCGGTGTTTTTTGT
66 TAGCGGCGCTTTTTGT
* * *
34151690 AAAACGCCGCTAAAACCAGAGCATTAGC-GGCG-CTTTTGGTAAAACGCCGATAAAAACCAGAGT
1 AAAACGCCGCTAAAAACAGAGCAATA-CTGGCGTCTTTTGGTAAAACGCCGATAAAAA-CAGAGA
*
34151753 ATTAGCGGCGCTTTTTGT
64 AATAGCGGCGCTTTTTGT
*
34151771 AAAACACCGCTAAAA
1 AAAACGCCGCTAAAA
34151786 GTCATATAAC
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 21 0.26
81 60 0.73
82 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (81 bp):
AAAACGCCGCTAAAAACAGAGCAATACTGGCGTCTTTTGGTAAAACGCCGATAAAAACAGAGAAA
TAGCGGCGCTTTTTGT
Found at i:34152365 original size:21 final size:21
Alignment explanation
Indices: 34152341--34152394 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
34152331 GTTTAAGTGT
34152341 GGTTTAAGGGTT-GGGGTTTAA
1 GGTTTAAGGGTTAGGGG-TTAA
34152362 GGTTT-AGGTGTTAGGGGTTAA
1 GGTTTAAGG-GTTAGGGGTTAA
*
34152383 GGGTTAAGGGTT
1 GGTTTAAGGGTT
34152395 TCTGATTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 3 0.10
21 19 0.66
22 7 0.24
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (21 bp):
GGTTTAAGGGTTAGGGGTTAA
Found at i:34152366 original size:32 final size:32
Alignment explanation
Indices: 34152311--34152372 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
34152301 GAGTTACTAT
* *
34152311 TTTAAGGTTTAGGGATTATGGTTTAAGTGTGG
1 TTTAAGGGTTAGGGATTAAGGTTTAAGTGTGG
* * *
34152343 TTTAAGGGTTGGGGTTTAAGGTTTAGGTGT
1 TTTAAGGGTTAGGGATTAAGGTTTAAGTGT
34152373 TAGGGGTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (32 bp):
TTTAAGGGTTAGGGATTAAGGTTTAAGTGTGG
Found at i:34153362 original size:3 final size:3
Alignment explanation
Indices: 34153261--34153342 Score: 114
Period size: 3 Copynumber: 27.7 Consensus size: 3
34153251 AATAGATATT
* *
34153261 GAA G-A GAA GGA GAA CGAG GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
34153306 GAA GAA GAA GAA GAA GAA GAA GAA GAG GAA G-A GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
34153343 GGGGGAGGAG
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
2 4 0.06
3 64 0.91
4 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:34153671 original size:16 final size:16
Alignment explanation
Indices: 34153650--34153685 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
34153640 ATAGCTCCAC
34153650 TTAACGATGGGATTAA
1 TTAACGATGGGATTAA
34153666 TTAACGATGGGATTAA
1 TTAACGATGGGATTAA
34153682 TTAA
1 TTAA
34153686 AGTTGCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (16 bp):
TTAACGATGGGATTAA
Found at i:34158507 original size:32 final size:32
Alignment explanation
Indices: 34158471--34158541 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
34158461 TTGTTCGATT
*
34158471 TTGAAATTATTATGTTTTAAATTTGTTAGACA
1 TTGAAATTATTATGTTTTAAACTTGTTAGACA
* * * *
34158503 TTGAATTTATTATGTTTTAAGCTTGTTGGATA
1 TTGAAATTATTATGTTTTAAACTTGTTAGACA
34158535 TTGAAAT
1 TTGAAAT
34158542 GATTGACAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (32 bp):
TTGAAATTATTATGTTTTAAACTTGTTAGACA
Found at i:34159990 original size:15 final size:14
Alignment explanation
Indices: 34159960--34159997 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
34159950 CCAGAAAAGT
*
34159960 AAATCATTTTTCAA
1 AAATTATTTTTCAA
34159974 AAATTATTTTTCAA
1 AAATTATTTTTCAA
*
34159988 AAAATATTTT
1 AAATTATTTT
34159998 ACTGACAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:34166107 original size:39 final size:39
Alignment explanation
Indices: 34166042--34166234 Score: 262
Period size: 39 Copynumber: 4.9 Consensus size: 39
34166032 TCACACATTT
34166042 CCAACAC-AATTGCCTTCGGGACTTAGCCCGGATATAACA
1 CCAACACGAA-TGCCTTCGGGACTTAGCCCGGATATAACA
* * *
34166081 CCAGCACGAATGCCTTTGGGATTTAGCCCGGATATAACA
1 CCAACACGAATGCCTTCGGGACTTAGCCCGGATATAACA
* *
34166120 CCAACAAGAATGCCTTCGGGACATAGCCCGGATATAACA
1 CCAACACGAATGCCTTCGGGACTTAGCCCGGATATAACA
* * * *
34166159 CCAGCACGAATGCCTTTGGGACTTAACCCGAATATAACA
1 CCAACACGAATGCCTTCGGGACTTAGCCCGGATATAACA
* * *
34166198 TCAAAATGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CCAACACGAATGCCTTCGGGACTTAGCCCGGATATAA
34166235 ATCTCACACA
Statistics
Matches: 132, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 130 0.98
40 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (39 bp):
CCAACACGAATGCCTTCGGGACTTAGCCCGGATATAACA
Found at i:34166171 original size:78 final size:78
Alignment explanation
Indices: 34166052--34166234 Score: 305
Period size: 78 Copynumber: 2.3 Consensus size: 78
34166042 CCAACACAAT
* * *
34166052 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTTGGGATTTAGCCCGGATATA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTTGGGACTTAACCCGAATATA
34166117 ACACCAACAA-GAA
66 ACACCAA-AATGAA
*
34166130 TGCCTTCGGGACATAGCCCGGATATAACACCAGCACGAATGCCTTTGGGACTTAACCCGAATATA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTTGGGACTTAACCCGAATATA
*
34166195 ACATCAAAATGAA
66 ACACCAAAATGAA
34166208 TGCCTTCGGGACTTAGCCCGGATATAA
1 TGCCTTCGGGACTTAGCCCGGATATAA
34166235 ATCTCACACA
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
77 2 0.02
78 96 0.98
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (78 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTTGGGACTTAACCCGAATATA
ACACCAAAATGAA
Found at i:34168288 original size:2 final size:2
Alignment explanation
Indices: 34168283--34168307 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34168273 TATATATGTA
34168283 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
34168308 TCTATTGTTG
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:34177190 original size:22 final size:23
Alignment explanation
Indices: 34177142--34177193 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
34177132 ATGATAATCT
*
34177142 TTAATATATAATTATATCTATTA
1 TTAATTTATAATTATATCTATTA
34177165 -TAATTTATATATTA-ATCT-TTA
1 TTAATTTATA-ATTATATCTATTA
34177186 TTAATTTA
1 TTAATTTA
34177194 GCATAGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 3 0.12
22 19 0.73
23 4 0.15
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAATTTATAATTATATCTATTA
Found at i:34177218 original size:99 final size:99
Alignment explanation
Indices: 34177035--34177215 Score: 217
Period size: 99 Copynumber: 1.8 Consensus size: 99
34177025 TTAAAAAAAA
* *
34177035 GATAATTATTAATATATAATTATATCCATTATAATATATATTAATTATTATCAAATTTTAGTATT
1 GATAATTATTAATATATAATTATATCCATTATAATATATATTAATTATTATCAAATTTTAGCATA
** *
34177100 TTATTTGATAAGTTTTTAATAATAATAATAAGAT
66 GAATTGGATAAGTTTTTAATAATAATAATAAGAT
* *
34177134 GATAATCT-TTAATATATAATTATATCTATTATAATTTATATATTAATCT-TTAT-TAA-TTTAG
1 GATAAT-TATTAATATATAATTATATCCATTATAA--TATATATTAAT-TATTATCAAATTTTAG
*
34177195 CATAGAATTAGGATTAGTTTT
62 CATAGAATT-GGATAAGTTTT
34177216 AATCATATTT
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
99 41 0.59
100 12 0.17
101 15 0.22
102 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (99 bp):
GATAATTATTAATATATAATTATATCCATTATAATATATATTAATTATTATCAAATTTTAGCATA
GAATTGGATAAGTTTTTAATAATAATAATAAGAT
Found at i:34180087 original size:5 final size:5
Alignment explanation
Indices: 34180074--34180104 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
34180064 GCTCGTAATT
*
34180074 AAAAA AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
34180105 GAGCACCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:34183243 original size:17 final size:19
Alignment explanation
Indices: 34183202--34183243 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
34183192 CTAGTAATGT
34183202 TAAA-ATATATATAATATA
1 TAAATATATATATAATATA
*
34183220 TACATATATATATAA-A-A
1 TAAATATATATATAATATA
34183237 TAAATAT
1 TAAATAT
34183244 TGAAAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 7 0.33
18 4 0.19
19 10 0.48
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATATATATATAATATA
Found at i:34183392 original size:23 final size:25
Alignment explanation
Indices: 34183365--34183411 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
34183355 TATGAAAATA
*
34183365 ATACTATGT-ATAAAA-GTATATAT
1 ATACTATATAATAAAATGTATATAT
*
34183388 ATACTGTATAATAAAATGTATATA
1 ATACTATATAATAAAATGTATATA
34183412 CTAGTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 6 0.30
25 7 0.35
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (25 bp):
ATACTATATAATAAAATGTATATAT
Found at i:34183583 original size:3 final size:3
Alignment explanation
Indices: 34183532--34183574 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
34183522 AAGTACCTAT
* *
34183532 TAA TAA TAT TATA TAAA TAA TAA TAA TAA TAA TAA CAA TAA TA
1 TAA TAA TAA TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA
34183575 GCAATAATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
3 30 0.88
4 3 0.09
5 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:34183824 original size:3 final size:3
Alignment explanation
Indices: 34183816--34183974 Score: 189
Period size: 3 Copynumber: 52.3 Consensus size: 3
34183806 TAATATTATA
*
34183816 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
34183863 AAT AAT ATT AAGT -AT AGT -AT AAAT AAT ATGT ACAT AAC AGT AAT AAT
1 AAT AAT AAT AA-T AAT AAT AAT -AAT AAT A-AT A-AT AAT AAT AAT AAT
*
34183910 AAT AAGT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34183956 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
34183975 TAGAAATTCA
Statistics
Matches: 134, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
2 4 0.03
3 120 0.90
4 10 0.07
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:34184031 original size:16 final size:16
Alignment explanation
Indices: 34183998--34184030 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34183988 AACTAAACAT
*
34183998 AATATAATAATATTAA
1 AATAAAATAATATTAA
34184014 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
34184029 AA
1 AA
34184031 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:34186503 original size:148 final size:147
Alignment explanation
Indices: 34185851--34186676 Score: 913
Period size: 148 Copynumber: 5.5 Consensus size: 147
34185841 AATTGGAAAG
* * * ** *
34185851 CAGAAATTGAAAATACCTCAGCGTGCCCTGACGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
34185916 TTGAAAAACAGAAATTGAAATTACCTCAGCGCGTCCTGAGGCTCAACTCCCCTCTCGC-A-ATGA
66 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
34185979 GTTGATTTTTTTGAAAGA
130 GTTGATTTTTTTGAAAAA
* * *
34185997 CAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--A
* * * **
34186062 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAATTCATTTCTCGCAATATG
64 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
34186127 AGTTGAATTTTGAAACATAAATT-AAGAAA
129 AGTTG-ATTTT------T---TTGAA-AAA
* ** * ** ** *
34186156 CAAAAATTGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA---
* * * *
34186221 TTTTTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGC
63 -ATTTTGAAA-ACAGAAATTGAAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGC
34186285 AATATGAGTTGA--TTTTTG-AAAA
123 AATATGAGTTGATTTTTTTGAAAAA
* * * *
34186307 CATAAATTG-AAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
34186371 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
34186436 TCGATTTTTTTTTGAAAAA
131 TTGA--TTTTTTTGAAAAA
* *
34186455 CAGAAATTGAAAATACCTCA-CATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGAATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* * **
34186519 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
34186584 TTGA--ATTTTG-AAAA
131 TTGATTTTTTTGAAAAA
* * * *
34186598 TAGAAA-TAAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGAAT
1 CAGAAATTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
*
34186662 TTTGAAAATAGAAAT
65 TTTGAAAACAGAAAT
34186677 AAAAATATCA
Statistics
Matches: 584, Mismatches: 65, Indels: 64
0.82 0.09 0.09
Matches are distributed among these distances:
142 7 0.01
143 51 0.09
144 59 0.10
145 21 0.04
146 63 0.11
147 53 0.09
148 123 0.21
149 18 0.03
150 47 0.08
151 11 0.02
152 3 0.01
155 1 0.00
156 1 0.00
158 2 0.00
159 57 0.10
161 13 0.02
162 20 0.03
163 1 0.00
164 32 0.05
165 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (147 bp):
CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAAAA
Found at i:34186613 original size:220 final size:222
Alignment explanation
Indices: 34185846--34186664 Score: 1062
Period size: 220 Copynumber: 3.7 Consensus size: 222
34185836 GGCAAAATTG
* * * * * * **
34185846 GAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGACGCTCAACTCACCTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
* ** * *
34185911 GATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGCGTCCTGAGGCTCAACTCCCCTCTCGC-A
66 GAATTTTGAAAAACAGAAATAAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
*
34185975 -ATGAGTTGA--TTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACT
131 TATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACT
34186037 CATTTCTCGCAATATGAGTTGATTTTTTT
196 CATTTCTCGCAATATGAGTTGA--TTTTT
*
34186066 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAATTCATTTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
* * * *
34186131 GAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACCTCAGCGTGCCCCGAGGCTCAACT
66 GAATTTTG--A-A-AAA--CAGAAATAAAAA-T-----TACCTCAGCGTGTCCTGAGGCTCAACT
* *
34186196 CACCTCTCGCATTATGAGTTGATTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGA
119 CACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGT--
* **
34186261 AC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
182 -CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
* * *
34186302 GAAAACATAAATTGAAA-TACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTT
1 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
**
34186366 GAATTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
66 GAATTTTGAAAAACAGAAATAAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
* *
34186430 TATGAGTCGATTTTTTTTTGAAAAACAGAAATTGAAAATACCTCA-CATGTCTTGAGGCTCAACT
131 TATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACT
* *
34186494 CATTTCTCGCAATCTGAGTTGAATTTT
196 CATTTCTCGCAATATGAGTTGATTTTT
34186521 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
* * * ** *
34186586 GAATTTTG-AAAATAGAAATAAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAA
66 GAATTTTGAAAAACAGAAATAAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
*
34186650 TATGAGTTGAATTTT
131 TATGAGTTGATTTTT
34186665 GAAAATAGAA
Statistics
Matches: 522, Mismatches: 56, Indels: 42
0.84 0.09 0.07
Matches are distributed among these distances:
218 1 0.00
219 50 0.10
220 177 0.34
221 5 0.01
222 79 0.15
223 1 0.00
224 3 0.01
226 8 0.02
227 2 0.00
228 8 0.02
230 3 0.01
231 1 0.00
232 33 0.06
234 9 0.02
235 52 0.10
236 58 0.11
238 31 0.06
239 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (222 bp):
GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
GAATTTTGAAAAACAGAAATAAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACT
CATTTCTCGCAATATGAGTTGATTTTT
Found at i:34186677 original size:72 final size:72
Alignment explanation
Indices: 34186264--34186682 Score: 565
Period size: 72 Copynumber: 5.8 Consensus size: 72
34186254 CATGTGAACC
** * * *
34186264 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAATTGAAA-TACCTCAAC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTAAAATTACCTCAAC
34186328 GTGTCTT
66 GTGTCTT
* * * *
34186335 GAGGTTCAACTCATTACTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTAAAATTACCTCAAC
*
34186400 GTGTCCT
66 GTGTCTT
** * *
34186407 GAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTGAAAAACAGAAATTGAAAA-TAC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA----ATTTTG-AAAACAGAAATT-AAAATTAC
*
34186471 CTC-ACATGTCTT
60 CTCAACGTGTCTT
* *
34186483 GAGGCTCAACTCATTTCTCGCAATCTGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTAAAATTACCTCAAC
34186548 GTGTCTT
66 GTGTCTT
* *
34186555 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAGAAATAAAAATTACCTCAAC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTAAAATTACCTCAAC
34186620 GTGTCTT
66 GTGTCTT
* * *
34186627 GAGGCTCAACTCATTTCTCGTAATATGAGTTGAATTTTGAAAATAGAAATAAAAAT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTAAAAT
34186683 ATCAAAATAC
Statistics
Matches: 309, Mismatches: 30, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
70 3 0.01
71 67 0.22
72 178 0.58
76 40 0.13
77 18 0.06
78 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (72 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTAAAATTACCTCAAC
GTGTCTT
Found at i:34205402 original size:25 final size:25
Alignment explanation
Indices: 34205373--34205420 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34205363 TTATAATATG
* * *
34205373 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34205398 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34205421 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34205482 original size:20 final size:20
Alignment explanation
Indices: 34205457--34205503 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
34205447 ATTTTGATAA
34205457 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34205477 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34205497 ACATGAT
1 ACATGAT
34205504 GTGTTCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:34205627 original size:23 final size:24
Alignment explanation
Indices: 34205553--34205669 Score: 152
Period size: 24 Copynumber: 5.0 Consensus size: 24
34205543 GAGGAAGTGC
*
34205553 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
34205577 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
34205601 -AAAGGG-TTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
34205623 AAAAGGGCTT-TGCCCCATTTACT
1 AAAAGGGCTTATGCCCCAGTTATT
*
34205646 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34205670 ATGATAAAGC
Statistics
Matches: 82, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
22 16 0.20
23 29 0.35
24 31 0.38
25 6 0.07
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:34205627 original size:46 final size:46
Alignment explanation
Indices: 34205554--34205648 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 46
34205544 AGGAAGTGCA
*
34205554 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTT-TGCCCCAGTTACT
* *
34205601 AAAGGG-TTATGCCCCAGTTATTAAAAGGGCTTTGCCCCATTTACT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTGCCCCAGTTACT
34205646 AAA
1 AAA
34205649 AGAGGCTAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 14 0.31
46 25 0.56
47 6 0.13
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTGCCCCAGTTACT
Found at i:34205897 original size:31 final size:31
Alignment explanation
Indices: 34205862--34205925 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
34205852 CGTTTACAGT
*
34205862 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
** *
34205893 AAAGGCTTCGGCCCAATGTTATGAATTATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
34205924 AA
1 AA
34205926 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:34206851 original size:24 final size:24
Alignment explanation
Indices: 34206824--34206956 Score: 119
Period size: 24 Copynumber: 5.5 Consensus size: 24
34206814 GAAATGACTT
34206824 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* *
34206848 TGGCACTGTGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
34206872 CGGCACTATGTGTGC-AGATTTGTA
1 TGGCACTATGTGTGCGA-ATTTGAA
** *
34206896 TGGCACTATGTGCACGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
34206920 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
34206945 -GGCACTATGTGT
1 TGGCACTATGTGT
34206957 ATGGGTAAAC
Statistics
Matches: 86, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
23 1 0.01
24 82 0.95
25 2 0.02
26 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:34209771 original size:42 final size:42
Alignment explanation
Indices: 34209710--34209872 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 42
34209700 CTTCGTTTTC
**
34209710 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATCTTCACAT-A
* *
34209753 T-GATGCCATAGCCCAACTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATCTTCACATA
* * *
34209794 TCGATGCCATAGCCTATCTATGGTTTTACACATAATCACATATCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC---AT--C-T-TCACATA
34209843 TCGATGCCATAGCCCAACTATGGTCTTACA
1 TCGATGCCATAGCCCAACTATGGTCTTACA
34209873 AGAATCACAT
Statistics
Matches: 100, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.02
42 61 0.61
43 1 0.01
45 2 0.02
48 1 0.01
49 33 0.33
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATCTTCACATA
Found at i:34209853 original size:49 final size:48
Alignment explanation
Indices: 34209780--34209916 Score: 154
Period size: 49 Copynumber: 2.9 Consensus size: 48
34209770 TATGGTCTTA
* * * * *
34209780 CACATATTCATATATCGATGCCATAGCCTATCTATGGTTTTACACATAAT
1 CACATA-TCACATATCGATGCCATAGCCCAACTATGGTCTTACA-AGAAT
34209830 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACAAGAAT
1 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACAAGAAT
* * *
34209878 CACATATCTCA-CT-GATGCCATATCCCAGA-TATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCA-ACTATGGTCTTA
34209917 TACAGTAGCA
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
46 23 0.29
47 2 0.03
48 14 0.18
49 33 0.42
50 6 0.08
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.31
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACAAGAAT
Found at i:34209911 original size:46 final size:47
Alignment explanation
Indices: 34209812--34209963 Score: 155
Period size: 47 Copynumber: 3.2 Consensus size: 47
34209802 ATAGCCTATC
* * * * *
34209812 TATGGTTTTACACATAATCACATATCACATATCGATGCCATAGCCCA-A
1 TATGGTCTTACACAGAAGCACATATCAC--ACCGATGCCATATCCCAGA
* * *
34209860 CTATGGTCTTACA-AGAATCACATATCTCACTGATGCCATATCCCAGA
1 -TATGGTCTTACACAGAAGCACATATCACACCGATGCCATATCCCAGA
* * * *
34209907 TATGGTCTTATACAGTAGCATATATCACACCAATGCCATATCCCAGA
1 TATGGTCTTACACAGAAGCACATATCACACCGATGCCATATCCCAGA
34209954 TATGGTCTTA
1 TATGGTCTTA
34209964 TACACTACAA
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
46 25 0.28
47 39 0.44
48 13 0.15
49 11 0.12
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (47 bp):
TATGGTCTTACACAGAAGCACATATCACACCGATGCCATATCCCAGA
Found at i:34211375 original size:20 final size:21
Alignment explanation
Indices: 34211350--34211388 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34211340 TGAGCCCGTA
*
34211350 AGCCTATTG-GGCCCAATTTC
1 AGCCTATCGAGGCCCAATTTC
34211370 AGCCTATCGAGGCCCAATT
1 AGCCTATCGAGGCCCAATT
34211389 ACTGAAGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (21 bp):
AGCCTATCGAGGCCCAATTTC
Found at i:34211974 original size:42 final size:41
Alignment explanation
Indices: 34211913--34212073 Score: 135
Period size: 42 Copynumber: 3.7 Consensus size: 41
34211903 TCGTTTTCTC
** *
34211913 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACTTAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCAC-TAAT
*
34211955 GATGCCATAGCCCAGCTATGGTCTTACACATATTCA-TATAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACTA-AT
** * *
34211996 CGATGCCATAGCATAGCTATAGTCTTACACGTAATCAGATATCACATATT
1 -GATGCCATAGCCCAGCTATGGTCTTACAC---ATC---T-TCAC-TAAT
*
34212046 GATGCCATATCCCAGCTATGGTCTTACA
1 GATGCCATAGCCCAGCTATGGTCTTACA
34212074 AGAATCACAT
Statistics
Matches: 95, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
40 2 0.02
41 2 0.02
42 58 0.61
45 2 0.02
48 1 0.01
49 27 0.28
50 1 0.01
51 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (41 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACTAAT
Found at i:34212051 original size:49 final size:48
Alignment explanation
Indices: 34211981--34212086 Score: 122
Period size: 49 Copynumber: 2.2 Consensus size: 48
34211971 TATGGTCTTA
* * *
34211981 CACATATTCATATATCGATGCCATAGCATAGCTATAGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCACAGCTATAGTCTTACAAG-AAT
* * * * *
34212031 CAGATATCACATATTGATGCCATATCCCAGCTATGGTCTTACAAGAAT
1 CACATATCACATATCGATGCCATAGCACAGCTATAGTCTTACAAGAAT
34212079 CACATATC
1 CACATATC
34212087 TCACTGATGC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 10 0.21
49 32 0.68
50 5 0.11
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCACAGCTATAGTCTTACAAGAAT
Found at i:34212151 original size:47 final size:47
Alignment explanation
Indices: 34212046--34212171 Score: 182
Period size: 47 Copynumber: 2.7 Consensus size: 47
34212036 ATCACATATT
* * * * *
34212046 GATGCCATATCCCAGCTATGGTCTTACA-AGAATCACATATCTCACT
1 GATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACACC
* *
34212092 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACC
1 GATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACACC
34212139 GATGCCATATCCCAGATATGGTCTTATACAGAA
1 GATGCCATATCCCAGATATGGTCTTATACAGAA
34212172 ATCATTTGTC
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
46 26 0.37
47 45 0.63
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (47 bp):
GATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACACC
Found at i:34212232 original size:31 final size:31
Alignment explanation
Indices: 34212192--34212334 Score: 196
Period size: 31 Copynumber: 4.6 Consensus size: 31
34212182 ACTTGCAGCC
* *
34212192 GAAGCTACCACTATTCACTGAACAGGTAGCT
1 GAAGCTACCACTTTTCACTGATCAGGTAGCT
* *
34212223 GGAGCTACCATTTTTCACTGATCAGGTAGCT
1 GAAGCTACCACTTTTCACTGATCAGGTAGCT
* * *
34212254 GGAGCTGCCACTTTTCACTGATCAGGTAGCA
1 GAAGCTACCACTTTTCACTGATCAGGTAGCT
* * *
34212285 GAAGCTACCACTTTCCACTGATTAGGTAGCC
1 GAAGCTACCACTTTTCACTGATCAGGTAGCT
34212316 GAAGCTACCACTTTTCACT
1 GAAGCTACCACTTTTCACT
34212335 TGTCATTTGT
Statistics
Matches: 99, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 99 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (31 bp):
GAAGCTACCACTTTTCACTGATCAGGTAGCT
Found at i:34212416 original size:50 final size:51
Alignment explanation
Indices: 34212310--34212438 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
34212300 CACTGATTAG
* * *
34212310 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTAATCAGATAAGT
* *
34212361 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCTTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTAATCAGATAAGT
34212411 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
34212439 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 47 0.65
51 25 0.35
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTAATCAGATAAGT
Done.