Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 49 of 127
Found at i:9732236 original size:20 final size:20
Alignment explanation
Indices: 9732211--9732248 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9732201 ATTTTTTAAG
9732211 TTTTATTGTTTCAATTTTCT
1 TTTTATTGTTTCAATTTTCT
* *
9732231 TTTTATTTTTTTAATTTT
1 TTTTATTGTTTCAATTTT
9732249 TTTAGTTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTATTGTTTCAATTTTCT
Found at i:9740630 original size:14 final size:13
Alignment explanation
Indices: 9740605--9740629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9740595 GAAATTGGGG
9740605 TTTCCAAAAAAAT
1 TTTCCAAAAAAAT
9740618 TTTCCAAAAAAA
1 TTTCCAAAAAAA
9740630 AATTTGCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (13 bp):
TTTCCAAAAAAAT
Found at i:9741168 original size:43 final size:43
Alignment explanation
Indices: 9741121--9741423 Score: 261
Period size: 43 Copynumber: 7.0 Consensus size: 43
9741111 TAACATGAAA
* * *
9741121 GCTTCTATAAATAGATGTTCAACGACTTT-AGAAAATAAATAAG
1 GCTTCTCTAAATAGAGGCTCAACGACTTTGA-AAAATAAATAAG
* * * * *
9741164 GCTTCTCTAAACAAAGGCTCAATGACTTTGAAAAATAAACAAA
1 GCTTCTCTAAATAGAGGCTCAACGACTTTGAAAAATAAATAAG
* * * *
9741207 GCTCCTCTAAGTAGAGGTTTAACGACTTTGAAAAATAAATAAG
1 GCTTCTCTAAATAGAGGCTCAACGACTTTGAAAAATAAATAAG
* * *
9741250 G-TTCCTCTAAGTAGAGGCTTAACAACTTTGAAAAATAAATAAG
1 GCTT-CTCTAAATAGAGGCTCAACGACTTTGAAAAATAAATAAG
* * *
9741293 GC-TCGTTTAAGTAGAGGCTCAATGACTTTGAAAAATAAATAAG
1 GCTTC-TCTAAATAGAGGCTCAACGACTTTGAAAAATAAATAAG
* * * * * *
9741336 GTTTTTCTAAACAGAAGCTCAACAACTTTGAAAAATAAATAAA
1 GCTTCTCTAAATAGAGGCTCAACGACTTTGAAAAATAAATAAG
* * * ** * * *
9741379 ACTCTTTTTAAGCAGAGGCTTAACAATTTTGAAAAATAAATAAG
1 GCT-TCTCTAAATAGAGGCTCAACGACTTTGAAAAATAAATAAG
9741423 G
1 G
9741424 TTCATTAACA
Statistics
Matches: 212, Mismatches: 42, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
42 2 0.01
43 174 0.82
44 36 0.17
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (43 bp):
GCTTCTCTAAATAGAGGCTCAACGACTTTGAAAAATAAATAAG
Found at i:9741249 original size:86 final size:85
Alignment explanation
Indices: 9741139--9741426 Score: 328
Period size: 86 Copynumber: 3.3 Consensus size: 85
9741129 AAATAGATGT
**
9741139 TCAACGACTTT-AGAAAATAAATAAGGCTTCTCTAAACAAAGGCTCAATGACTTTGAAAAATAAA
1 TCAACGACTTTGA-AAAATAAATAAGG-TTCTCTAAACAAAGGCTCAACAACTTTGAAAAATAAA
* * *
9741203 CAAAGCTCCTCTAAGTAGAGGT
64 TAAAGCTCCTTTAAGTAGAGGC
* ** * *
9741225 TTAACGACTTTGAAAAATAAATAAGGTTCCTCTAAGTAGAGGCTTAACAACTTTGAAAAATAAAT
1 TCAACGACTTTGAAAAATAAATAAGGTT-CTCTAAACAAAGGCTCAACAACTTTGAAAAATAAAT
* *
9741290 AAGGCTCGTTTAAGTAGAGGC
65 AAAGCTCCTTTAAGTAGAGGC
* *
9741311 TCAATGACTTTGAAAAATAAATAAGGTTTTTCTAAACAGAA-GCTCAACAACTTTGAAAAATAAA
1 TCAACGACTTTGAAAAATAAATAAGG-TTCTCTAAACA-AAGGCTCAACAACTTTGAAAAATAAA
* * *
9741375 TAAAACTCTTTTTAAGCAGAGGC
64 TAAAGCTC-CTTTAAGTAGAGGC
* * *
9741398 TTAACAATTTTGAAAAATAAATAAGGTTC
1 TCAACGACTTTGAAAAATAAATAAGGTTC
9741427 ATTAACAATC
Statistics
Matches: 169, Mismatches: 28, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
85 2 0.01
86 129 0.76
87 38 0.22
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (85 bp):
TCAACGACTTTGAAAAATAAATAAGGTTCTCTAAACAAAGGCTCAACAACTTTGAAAAATAAATA
AAGCTCCTTTAAGTAGAGGC
Found at i:9741375 original size:129 final size:130
Alignment explanation
Indices: 9741152--9741423 Score: 323
Period size: 129 Copynumber: 2.1 Consensus size: 130
9741142 ACGACTTTAG
9741152 AAAATAAATAAGGCTTCTCTAAACAAAGGCTCAATGACTTTGAAAAATAAACAAAGCTCCTCTAA
1 AAAATAAATAAGGCTTCTCTAAACAAAGGCTCAATGACTTTGAAAAATAAACAAAGCTCCTCTAA
** * * * * *** *
9741217 GTAGAGGTTTAACGACTTTGAAAAATAAATAAGGTTC-CTCTAAGTAGAGGCTTAACAACTTTGA
66 ACAGAAGCTCAACAACTTTGAAAAATAAATAAAACTCTCTCTAAGCAGAGGCTTAACAACTTTGA
* ** * * * * **
9741281 AAAATAAATAAGGC-TCGTTTAAGTAGAGGCTCAATGACTTTGAAAAATAAATAAGGTTTTTCTA
1 AAAATAAATAAGGCTTC-TCTAAACAAAGGCTCAATGACTTTGAAAAATAAACAAAGCTCCTCTA
* * *
9741345 AACAGAAGCTCAACAACTTTGAAAAATAAATAAAACTCTTTTTAAGCAGAGGCTTAACAATTTTG
65 AACAGAAGCTCAACAACTTTGAAAAATAAATAAAACTCTCTCTAAGCAGAGGCTTAACAACTTTG
9741410 A
130 A
9741411 AAAATAAATAAGG
1 AAAATAAATAAGG
9741424 TTCATTAACA
Statistics
Matches: 119, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
128 2 0.02
129 81 0.68
130 36 0.30
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (130 bp):
AAAATAAATAAGGCTTCTCTAAACAAAGGCTCAATGACTTTGAAAAATAAACAAAGCTCCTCTAA
ACAGAAGCTCAACAACTTTGAAAAATAAATAAAACTCTCTCTAAGCAGAGGCTTAACAACTTTGA
Found at i:9741867 original size:23 final size:23
Alignment explanation
Indices: 9741841--9741910 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
9741831 TTTCACATAT
9741841 AAATTCAAAGGTTCTCATTCAAA
1 AAATTCAAAGGTTCTCATTCAAA
* * *
9741864 AAATTTAGAA-GTTCACA-TCCAA
1 AAATTCA-AAGGTTCTCATTCAAA
* * *
9741886 AATTTCTAAGCTTCTCATTCAAA
1 AAATTCAAAGGTTCTCATTCAAA
9741909 AA
1 AA
9741911 CTTTTGGTGA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
21 2 0.06
22 13 0.37
23 18 0.51
24 2 0.06
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (23 bp):
AAATTCAAAGGTTCTCATTCAAA
Found at i:9741908 original size:22 final size:21
Alignment explanation
Indices: 9741851--9741909 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
9741841 AAATTCAAAG
9741851 GTTCTCATTCAAAAAATTTAGAA
1 GTTCTCATTC--AAAATTTAGAA
* * **
9741874 GTTCACATCCAAAATTTCTAA
1 GTTCTCATTCAAAATTTAGAA
9741895 GCTTCTCATTCAAAA
1 G-TTCTCATTCAAAA
9741910 ACTTTTGGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 10 0.34
22 11 0.38
23 8 0.28
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (21 bp):
GTTCTCATTCAAAATTTAGAA
Found at i:9742024 original size:14 final size:14
Alignment explanation
Indices: 9742007--9742067 Score: 68
Period size: 14 Copynumber: 4.4 Consensus size: 14
9741997 AACCCAAAGA
9742007 CAAAAATTCTCATT
1 CAAAAATTCTCATT
* *
9742021 CAAAGATTTTCATT
1 CAAAAATTCTCATT
* *
9742035 TAAAAATTCTTATT
1 CAAAAATTCTCATT
*
9742049 CAAAGATTCTCATT
1 CAAAAATTCTCATT
*
9742063 TAAAA
1 CAAAA
9742068 TTCCTTAAAG
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.39
Consensus pattern (14 bp):
CAAAAATTCTCATT
Found at i:9742074 original size:28 final size:28
Alignment explanation
Indices: 9742008--9742067 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
9741998 ACCCAAAGAC
* *
9742008 AAAAATTCTCATTCAAAGATTTTCATTT
1 AAAAATTCTTATTCAAAGATTCTCATTT
9742036 AAAAATTCTTATTCAAAGATTCTCATTT
1 AAAAATTCTTATTCAAAGATTCTCATTT
9742064 AAAA
1 AAAA
9742068 TTCCTTAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.03, T:0.40
Consensus pattern (28 bp):
AAAAATTCTTATTCAAAGATTCTCATTT
Found at i:9743297 original size:17 final size:17
Alignment explanation
Indices: 9743275--9743362 Score: 99
Period size: 17 Copynumber: 5.1 Consensus size: 17
9743265 TTTTCACATA
*
9743275 TCACATTTCTCATTTTT
1 TCACATTTTTCATTTTT
9743292 TCACATTTTTCATTTTT
1 TCACATTTTTCATTTTT
9743309 TCACATTTTTCATTTGTTT
1 TCACATTTTTCA-TT-TTT
*
9743328 TCA-TTTTTTCCATTTGTT
1 TCACATTTTT-CATTT-TT
*
9743346 TCA-TTTTTTCATTTTT
1 TCACATTTTTCATTTTT
9743362 T
1 T
9743363 TCTTCATCCA
Statistics
Matches: 65, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
16 3 0.05
17 34 0.52
18 20 0.31
19 8 0.12
ACGTcount: A:0.15, C:0.17, G:0.02, T:0.66
Consensus pattern (17 bp):
TCACATTTTTCATTTTT
Found at i:9743302 original size:9 final size:9
Alignment explanation
Indices: 9743275--9743320 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
9743265 TTTTCACATA
*
9743275 TCACATTTC
1 TCACATTTT
*
9743284 TCA-TTTTT
1 TCACATTTT
9743292 TCACATTTT
1 TCACATTTT
*
9743301 TCA-TTTTT
1 TCACATTTT
9743309 TCACATTTT
1 TCACATTTT
9743318 TCA
1 TCA
9743321 TTTGTTTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
8 13 0.43
9 17 0.57
ACGTcount: A:0.20, C:0.22, G:0.00, T:0.59
Consensus pattern (9 bp):
TCACATTTT
Found at i:9743317 original size:26 final size:25
Alignment explanation
Indices: 9743284--9743362 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 25
9743274 ATCACATTTC
*
9743284 TCATTTTTTCACATTTTT-CATTTTT
1 TCATTTTTTCA-TTTTTTCCATTTTT
* *
9743309 TCACATTTTTCATTTGTTTTCATTTTT
1 TCA-TTTTTTCATTT-TTTCCATTTTT
9743336 TCCATTTGTTTCATTTTTT-CATTTTT
1 T-CATTT-TTTCATTTTTTCCATTTTT
9743362 T
1 T
9743363 TCTTCATCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
25 5 0.11
26 18 0.39
27 13 0.28
28 10 0.22
ACGTcount: A:0.14, C:0.15, G:0.03, T:0.68
Consensus pattern (25 bp):
TCATTTTTTCATTTTTTCCATTTTT
Found at i:9743350 original size:9 final size:8
Alignment explanation
Indices: 9743284--9743362 Score: 86
Period size: 9 Copynumber: 9.1 Consensus size: 8
9743274 ATCACATTTC
9743284 TCATTTTT
1 TCATTTTT
*
9743292 TCACATTTT
1 TCA-TTTTT
9743301 TCATTTTT
1 TCATTTTT
*
9743309 TCACATTTT
1 TCA-TTTTT
9743318 TCATTTGTTT
1 TCA-TT-TTT
9743328 TCATTTTT
1 TCATTTTT
9743336 TCCATTTGTT
1 T-CATTT-TT
9743346 TCATTTTT
1 TCATTTTT
9743354 TCATTTTT
1 TCATTTTT
9743362 T
1 T
9743363 TCTTCATCCA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
8 25 0.41
9 27 0.44
10 9 0.15
ACGTcount: A:0.14, C:0.15, G:0.03, T:0.68
Consensus pattern (8 bp):
TCATTTTT
Found at i:9746469 original size:2 final size:2
Alignment explanation
Indices: 9746462--9746494 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9746452 TTAGTTTGGT
9746462 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9746495 GATAGGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9749864 original size:8 final size:8
Alignment explanation
Indices: 9749843--9749904 Score: 61
Period size: 8 Copynumber: 7.2 Consensus size: 8
9749833 CGGTCTTCTC
*
9749843 TTTTTCTA
1 TTTTTTTA
9749851 TTTTTTTA
1 TTTTTTTA
*
9749859 TTTTTTTG
1 TTTTTTTA
9749867 TTTTATTGTA
1 TTTT-TT-TA
*
9749877 TTTTTATA
1 TTTTTTTA
9749885 TTTTTTTAA
1 TTTTTTT-A
9749894 TTTTTATTA
1 TTTTT-TTA
9749903 TT
1 TT
9749905 GTGTTTAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
8 26 0.58
9 12 0.27
10 7 0.16
ACGTcount: A:0.16, C:0.02, G:0.03, T:0.79
Consensus pattern (8 bp):
TTTTTTTA
Found at i:9753824 original size:16 final size:16
Alignment explanation
Indices: 9753799--9753829 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9753789 TCAATGAGCT
*
9753799 TTTTTTATATTTTTTA
1 TTTTTAATATTTTTTA
9753815 TTTTTAATATTTTTT
1 TTTTTAATATTTTTT
9753830 CTTTCTTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTAATATTTTTTA
Found at i:9754702 original size:17 final size:17
Alignment explanation
Indices: 9754670--9754709 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
9754660 TTTGTGAACA
*
9754670 TTTTTTTGAGTTTTTAT
1 TTTTTTTGAGTATTTAT
9754687 TTGTTTTTG-GTATTTAT
1 TT-TTTTTGAGTATTTAT
9754704 TTTTTT
1 TTTTTT
9754710 ATTGAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 11 0.52
18 6 0.29
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (17 bp):
TTTTTTTGAGTATTTAT
Found at i:9760239 original size:22 final size:22
Alignment explanation
Indices: 9760211--9760252 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9760201 ATTTTCTGTC
9760211 CTTAATTCCAGGGATACAAACG
1 CTTAATTCCAGGGATACAAACG
**
9760233 CTTAATTTTAGGGATACAAA
1 CTTAATTCCAGGGATACAAA
9760253 TATATATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (22 bp):
CTTAATTCCAGGGATACAAACG
Found at i:9763795 original size:25 final size:25
Alignment explanation
Indices: 9763761--9763811 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
9763751 TGCAGACCAA
9763761 AAAGGAAAAAATAAGACTATGAAAG
1 AAAGGAAAAAATAAGACTATGAAAG
9763786 AAAGGAAAAAATAAGACTATGAAAG
1 AAAGGAAAAAATAAGACTATGAAAG
9763811 A
1 A
9763812 CTTAACAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.65, C:0.04, G:0.20, T:0.12
Consensus pattern (25 bp):
AAAGGAAAAAATAAGACTATGAAAG
Found at i:9778043 original size:28 final size:28
Alignment explanation
Indices: 9778010--9778078 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
9778000 TCCAACAAAC
*
9778010 ACCTTGAATAATCTCTTACGGCAAAAAA
1 ACCTTGAATAATCTCTTACGACAAAAAA
*
9778038 GCCTTGAATAATCTCTTACGACAAAAAA
1 ACCTTGAATAATCTCTTACGACAAAAAA
*
9778066 ATCTTGAATAATC
1 ACCTTGAATAATC
9778079 CCCTCTAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (28 bp):
ACCTTGAATAATCTCTTACGACAAAAAA
Found at i:9787739 original size:25 final size:25
Alignment explanation
Indices: 9787707--9787779 Score: 123
Period size: 25 Copynumber: 3.0 Consensus size: 25
9787697 CACCCCTAGT
9787707 AAAATCCAGTTGATGCTATTGCCAA
1 AAAATCCAGTTGATGCTATTGCCAA
9787732 AAAATCCAGTTGATGCTATTGCC-A
1 AAAATCCAGTTGATGCTATTGCCAA
*
9787756 AAAATCCAATTGATGCTA-TGCCAA
1 AAAATCCAGTTGATGCTATTGCCAA
9787780 GTTAGCAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
23 4 0.09
24 19 0.41
25 23 0.50
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATCCAGTTGATGCTATTGCCAA
Found at i:9795239 original size:32 final size:34
Alignment explanation
Indices: 9795185--9795248 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 34
9795175 TTTCGACGTG
*
9795185 TGAAAAATAATTTTCTTGATTTT-TTTCATTTAA
1 TGAAAAATAATTTTCTTAATTTTATTTCATTTAA
* * *
9795218 TGAAAATTAGTTTT-TTAATTTTATTTTATTT
1 TGAAAAATAATTTTCTTAATTTTATTTCATTT
9795249 TTTAATGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 7 0.27
33 19 0.73
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (34 bp):
TGAAAAATAATTTTCTTAATTTTATTTCATTTAA
Found at i:9795249 original size:18 final size:20
Alignment explanation
Indices: 9795228--9795264 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
9795218 TGAAAATTAG
9795228 TTTTTTAAT-TTT-ATTTTA
1 TTTTTTAATGTTTCATTTTA
9795246 TTTTTTAATGTTTCATTTT
1 TTTTTTAATGTTTCATTTT
9795265 TTATTTGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTTTAATGTTTCATTTTA
Found at i:9795720 original size:18 final size:18
Alignment explanation
Indices: 9795697--9795739 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9795687 TTTTCTCATT
*
9795697 TTTATTACTT-ATTCTTAA
1 TTTATTACTTAATTATT-A
*
9795715 TTTATTAGTTAATTATTA
1 TTTATTACTTAATTATTA
9795733 TTTATTA
1 TTTATTA
9795740 TTTTATAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTATTACTTAATTATTA
Found at i:9796633 original size:17 final size:16
Alignment explanation
Indices: 9796611--9796663 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 16
9796601 ACTGCTTTAT
9796611 TTTTTTCTTTTCTTGTA
1 TTTTTT-TTTTCTTGTA
9796628 TTTTTTGTTTGTC-T-T-
1 TTTTTT-TTT-TCTTGTA
9796643 TTTTTTTTTT-TTGTA
1 TTTTTTTTTTCTTGTA
9796658 TTTTTT
1 TTTTTT
9796664 ATATTATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
13 2 0.06
14 4 0.13
15 12 0.39
16 1 0.03
17 10 0.32
18 2 0.06
ACGTcount: A:0.04, C:0.06, G:0.08, T:0.83
Consensus pattern (16 bp):
TTTTTTTTTTCTTGTA
Found at i:9798078 original size:18 final size:19
Alignment explanation
Indices: 9798055--9798090 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9798045 TGGCAGAAAT
9798055 AGTTTTT-TTTTTTTTTTA
1 AGTTTTTATTTTTTTTTTA
9798073 AGTTTTTATTTTTTTTTT
1 AGTTTTTATTTTTTTTTT
9798091 CACTTCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (19 bp):
AGTTTTTATTTTTTTTTTA
Found at i:9799161 original size:5 final size:5
Alignment explanation
Indices: 9799110--9799195 Score: 52
Period size: 5 Copynumber: 17.2 Consensus size: 5
9799100 TTTTTAAATA
* * * * * *
9799110 ATAAT AATACT ATAAT ATATT ATTAT ATTAAT ATACT ATACT CTAAT ATAAT
1 ATAAT -ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT ATAAT ATAAT ATAAT
**
9799162 ATAAT AATAAT A-AA- ATAAT ACCA- ATAAT ATAAT A
1 ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
9799196 ATACTAATAA
Statistics
Matches: 61, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
3 1 0.02
4 6 0.10
5 41 0.67
6 13 0.21
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:9799170 original size:3 final size:3
Alignment explanation
Indices: 9799153--9799212 Score: 56
Period size: 3 Copynumber: 21.3 Consensus size: 3
9799143 TACTATACTC
* *
9799153 TAA T-A TAA T-A TAA TAA TAA TAA -AA TAA TAC CAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9799197 TAC TAA TAA AAA TAA T
1 TAA TAA TAA TAA TAA T
9799213 CTTATTGACC
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
2 8 0.18
3 37 0.82
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:9799187 original size:9 final size:9
Alignment explanation
Indices: 9799153--9799205 Score: 51
Period size: 8 Copynumber: 6.3 Consensus size: 9
9799143 TACTATACTC
9799153 TAATA-TAA
1 TAATACTAA
*
9799161 T-ATAATAA
1 TAATACTAA
*
9799169 TAATA-AAA
1 TAATACTAA
*
9799177 TAATACCAA
1 TAATACTAA
9799186 TAATA-TAA
1 TAATACTAA
9799194 TAATACTAA
1 TAATACTAA
9799203 TAA
1 TAA
9799206 AAATAATCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
7 3 0.08
8 19 0.50
9 16 0.42
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (9 bp):
TAATACTAA
Found at i:9799203 original size:14 final size:14
Alignment explanation
Indices: 9799107--9799212 Score: 69
Period size: 14 Copynumber: 7.8 Consensus size: 14
9799097 TTTTTTTTAA
*
9799107 ATAATAATAATACT
1 ATAATAATAATAAT
* *
9799121 ATAAT-ATATTATT
1 ATAATAATAATAAT
* *
9799134 ATATTAAT-ATACT
1 ATAATAATAATAAT
*
9799147 ATACTCTAAT-ATAAT
1 ATA--ATAATAATAAT
*
9799162 ATAATAATAATAAA
1 ATAATAATAATAAT
**
9799176 ATAATACCAATAAT
1 ATAATAATAATAAT
*
9799190 ATAATAATACTAAT
1 ATAATAATAATAAT
9799204 A-AA-AATAAT
1 ATAATAATAAT
9799213 CTTATTGACC
Statistics
Matches: 72, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
12 5 0.07
13 22 0.31
14 34 0.47
15 11 0.15
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:9800062 original size:86 final size:84
Alignment explanation
Indices: 9799960--9800185 Score: 265
Period size: 86 Copynumber: 2.6 Consensus size: 84
9799950 GTAGGTTTCG
* * * * *
9799960 AGTTTCACAACGGTTCTAGATTTGTAAAGATGTAAGATTCGTAAGGATTTTCAGGTTCATAAGAA
1 AGTTTCGCAAAGGTTCTAGATTCGTAAAGATGCAAG-TTCGTAAGGATTTTCAGGTTCACAAGAA
9800025 AGAAAAATTTGC-AAGACTCCA
65 AG-AAAATTT-CAAAGACTCCA
* ** ** *
9800046 AGTTTCGCAAAGGTTCTAGAGTCACAAAGATGCAAGGTTCACAAGAATTTTCAGGTTCACAAGAA
1 AGTTTCGCAAAGGTTCTAGATTCGTAAAGATGCAA-GTTCGTAAGGATTTTCAGGTTCACAAGAA
9800111 AGAAAATTTCATAAGACTCCA
65 AGAAAATTTCA-AAGACTCCA
* * *
9800132 AGTTTCGCAAAGGTTCTAAATTCGTAAAGACTCCAAGTTCGTAAGGACTTTCAG
1 AGTTTCGCAAAGGTTCTAGATTCGTAAAGA-TGCAAGTTCGTAAGGATTTTCAG
9800186 ATTTCAAGTT
Statistics
Matches: 116, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
84 1 0.01
85 7 0.06
86 103 0.89
87 5 0.04
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (84 bp):
AGTTTCGCAAAGGTTCTAGATTCGTAAAGATGCAAGTTCGTAAGGATTTTCAGGTTCACAAGAAA
GAAAATTTCAAAGACTCCA
Found at i:9800172 original size:17 final size:17
Alignment explanation
Indices: 9800123--9800180 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
9800113 AAAATTTCAT
*
9800123 AAGACTCCAAGTTTCGCA
1 AAGACTCCAAG-TTCGTA
** * *
9800141 AAGGTTCTAAATTCGTA
1 AAGACTCCAAGTTCGTA
9800158 AAGACTCCAAGTTCGTA
1 AAGACTCCAAGTTCGTA
*
9800175 AGGACT
1 AAGACT
9800181 TTCAGATTTC
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
17 23 0.77
18 7 0.23
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (17 bp):
AAGACTCCAAGTTCGTA
Found at i:9801288 original size:24 final size:24
Alignment explanation
Indices: 9801236--9801303 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 24
9801226 TTTTTTTTTT
*
9801236 ATTTTTTTTATTTTGCTTTTTTGC
1 ATTTTTTTTATTTTGCTTTTTTAC
*
9801260 CTTTTTTTT-TTTATGC-TTTTTAC
1 ATTTTTTTTATTT-TGCTTTTTTAC
* *
9801283 ATTTTTATTCTTTT-CTTTTTT
1 ATTTTTTTTATTTTGCTTTTTT
9801304 TTTTTGAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
22 1 0.03
23 22 0.59
24 14 0.38
ACGTcount: A:0.09, C:0.10, G:0.04, T:0.76
Consensus pattern (24 bp):
ATTTTTTTTATTTTGCTTTTTTAC
Found at i:9801363 original size:9 final size:9
Alignment explanation
Indices: 9801349--9801380 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
9801339 CCTTTGTCTT
*
9801349 TTTTTTTTC
1 TTTTTTTTA
9801358 TTTTTTTTA
1 TTTTTTTTA
9801367 TTTTTTTTA
1 TTTTTTTTA
9801376 TTTTT
1 TTTTT
9801381 GCTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.06, C:0.03, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:9801799 original size:8 final size:8
Alignment explanation
Indices: 9801786--9801811 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
9801776 TGCCCTATCA
9801786 TTTTTTAT
1 TTTTTTAT
9801794 TTTTTTAT
1 TTTTTTAT
9801802 TTTTTTAT
1 TTTTTTAT
9801810 TT
1 TT
9801812 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTAT
Found at i:9806318 original size:20 final size:20
Alignment explanation
Indices: 9806290--9806330 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
9806280 CACCAATTTC
*
9806290 CCTTTTTTTTTTTATTTTAAA
1 CCTTTTTTATTTT-TTTTAAA
9806311 CCTTTTTTATTTTTTTTAAA
1 CCTTTTTTATTTTTTTTAAA
9806331 TAATAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.71
Consensus pattern (20 bp):
CCTTTTTTATTTTTTTTAAA
Found at i:9806335 original size:3 final size:3
Alignment explanation
Indices: 9806329--9806477 Score: 92
Period size: 3 Copynumber: 49.3 Consensus size: 3
9806319 ATTTTTTTTA
* * * *
9806329 AAT AAT AAT AAT AAT AAT ACT AAT AAAT TAT GTAC AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT
* * * * * *
9806375 AAT AAT AAT AAT AAT AAT ATAT CAT TAT ATT AAT ACAT TAC ACT CCAAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT A-AT AAT AAT --AAT
* *
9806424 -AT AAT -AT AAT AAT AAT AA- AAT AAT ACT AAT AAT -AT AAT AAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
9806468 AAT AAA AAT A
1 AAT AAT AAT A
9806478 GCTTTATTTA
Statistics
Matches: 112, Mismatches: 23, Indels: 22
0.71 0.15 0.14
Matches are distributed among these distances:
2 10 0.09
3 91 0.81
4 9 0.08
5 2 0.02
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:9806396 original size:28 final size:26
Alignment explanation
Indices: 9806329--9806474 Score: 66
Period size: 25 Copynumber: 5.5 Consensus size: 26
9806319 ATTTTTTTTA
*
9806329 AATAATAATAATAATAATACTAATAAAT
1 AATAATAATAA-AATAATAATAAT-AAT
* * * *
9806357 TATGTACAATATAATAATAATAATAAT
1 AAT-AATAATAAAATAATAATAATAAT
* * * *
9806384 AATAATAAT-ATATCATTATATTAAT
1 AATAATAATAAAATAATAATAATAAT
* * * *
9806409 ACATTACACTCCAATATAAT-ATAATAAT
1 A-ATAATAAT--AAAATAATAATAATAAT
*
9806437 AATAA-AATAATACTAATAAT-ATAAT
1 AATAATAATAA-AATAATAATAATAAT
*
9806462 AATACTAATAAAA
1 AATAATAATAAAA
9806475 ATAGCTTTAT
Statistics
Matches: 86, Mismatches: 24, Indels: 19
0.67 0.19 0.15
Matches are distributed among these distances:
24 2 0.02
25 26 0.30
26 18 0.21
27 8 0.09
28 21 0.24
29 11 0.13
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.34
Consensus pattern (26 bp):
AATAATAATAAAATAATAATAATAAT
Found at i:9806440 original size:11 final size:12
Alignment explanation
Indices: 9806424--9806477 Score: 60
Period size: 11 Copynumber: 4.8 Consensus size: 12
9806414 ACACTCCAAT
9806424 ATAAT-ATAATA
1 ATAATAATAATA
9806435 ATAATAA-AATA
1 ATAATAATAATA
*
9806446 ATACTAATAAT-
1 ATAATAATAATA
*
9806457 ATAATAATACTA
1 ATAATAATAATA
*
9806469 ATAAAAATA
1 ATAATAATA
9806478 GCTTTATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 24 0.67
12 12 0.33
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (12 bp):
ATAATAATAATA
Found at i:9806455 original size:17 final size:17
Alignment explanation
Indices: 9806433--9806472 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
9806423 TATAATATAA
9806433 TAATAATAAAATAATAC
1 TAATAATAAAATAATAC
*
9806450 TAATAATATAATAATAC
1 TAATAATAAAATAATAC
9806467 TAATAA
1 TAATAA
9806473 AAATAGCTTT
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:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
TAATAATAAAATAATAC
Found at i:9808221 original size:14 final size:13
Alignment explanation
Indices: 9808192--9808218 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9808182 TTATTTATTG
9808192 ATATTTTTAAAAA
1 ATATTTTTAAAAA
9808205 ATATTTTTAAAAA
1 ATATTTTTAAAAA
9808218 A
1 A
9808219 ATAAATGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTTTTAAAAA
Found at i:9808406 original size:15 final size:16
Alignment explanation
Indices: 9808384--9808418 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9808374 AAAATTTCAT
*
9808384 AATAAAAAAATTTTTA
1 AATAAAATAATTTTTA
*
9808400 AATAAAATTATTTTTA
1 AATAAAATAATTTTTA
9808416 AAT
1 AAT
9808419 CCTACCAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATAAAATAATTTTTA
Found at i:9808822 original size:38 final size:38
Alignment explanation
Indices: 9808742--9808822 Score: 137
Period size: 38 Copynumber: 2.1 Consensus size: 38
9808732 TTTAAGATCG
*
9808742 ATTTTCAATATTAAATTTACTAGGTAAATTACAAATCG
1 ATTTTCAATATTAAATTTACTAGGTAAATTACAAATCC
9808780 ATTTTCAATATTAAATTTACTAGGTAAATTACAAA-CAC
1 ATTTTCAATATTAAATTTACTAGGTAAATTACAAATC-C
9808818 ATTTT
1 ATTTT
9808823 AAGACTTGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
37 1 0.02
38 40 0.98
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.41
Consensus pattern (38 bp):
ATTTTCAATATTAAATTTACTAGGTAAATTACAAATCC
Found at i:9814369 original size:42 final size:44
Alignment explanation
Indices: 9814323--9814474 Score: 145
Period size: 43 Copynumber: 3.5 Consensus size: 44
9814313 TATGGATGAG
9814323 TTTTATATTTTTAAAAA-TTGTTGAACTTCT-ATGAGATGAGCC
1 TTTTATATTTTTAAAAAGTTGTTGAACTTCTGATGAGATGAGCC
* * ***
9814365 TTTTATATTTTTATAAAAGTTGTTG-AGTCTCTGTTGAGA-GAAATT
1 TTTTATATTTTTA-AAAAGTTGTTGAACT-TCTGATGAGATG-AGCC
* * * * *
9814410 TTTTGTATTTTT-AAAAGTTATTGAACCTCTGATGAAATAAGCC
1 TTTTATATTTTTAAAAAGTTGTTGAACTTCTGATGAGATGAGCC
9814453 -TTTATATTTTTAAAAAGTTGTT
1 TTTTATATTTTTAAAAAGTTGTT
9814475 AAGCCTCTAT
Statistics
Matches: 85, Mismatches: 17, Indels: 15
0.73 0.15 0.13
Matches are distributed among these distances:
42 23 0.27
43 34 0.40
44 11 0.13
45 17 0.20
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.47
Consensus pattern (44 bp):
TTTTATATTTTTAAAAAGTTGTTGAACTTCTGATGAGATGAGCC
Found at i:9814489 original size:43 final size:42
Alignment explanation
Indices: 9814324--9814544 Score: 127
Period size: 42 Copynumber: 5.2 Consensus size: 42
9814314 ATGGATGAGT
* **
9814324 TTTATATTTTTAAAAA-TTGTTGAA-CTTCTA-TGAGATGAGCC
1 TTTATATTTTTAAAAAGTTGTT-AAGCCTCTATTGA-AAAAGCC
* * * ***
9814365 TTTTATATTTTTATAAAAGTTGTTGAGTCTCTGTTGAGAGAAATTT
1 -TTTATATTTTTA-AAAAGTTGTTAAGCCTCTATTGA-A-AAAGCC
* *
9814411 TTTGTATTTTT-AAAAGTTATTGAA-CCTCTGA-TGAAATAAGCC
1 TTTATATTTTTAAAAAGTTGTT-AAGCCTCT-ATTGAAA-AAGCC
9814453 TTTATATTTTTAAAAAGTTGTTAAGCCTCTATTGAAAATAG-C
1 TTTATATTTTTAAAAAGTTGTTAAGCCTCTATTGAAAA-AGCC
* * * * *
9814495 TTTTTATATTTT-CAAAG-TGTTGAGCCTCTATTTAGAAAAGCT
1 TTTATAT-TTTTAAAAAGTTGTTAAGCCTCTATTGA-AAAAGCC
9814537 TTTATATT
1 TTTATATT
9814545 ATTCGAAAAG
Statistics
Matches: 139, Mismatches: 25, Indels: 31
0.71 0.13 0.16
Matches are distributed among these distances:
41 19 0.14
42 49 0.35
43 46 0.33
44 9 0.06
45 15 0.11
46 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (42 bp):
TTTATATTTTTAAAAAGTTGTTAAGCCTCTATTGAAAAAGCC
Found at i:9814499 original size:87 final size:87
Alignment explanation
Indices: 9814323--9814487 Score: 226
Period size: 87 Copynumber: 1.9 Consensus size: 87
9814313 TATGGATGAG
* * * *
9814323 TTTTATATTTTTAAAAATTGTTGAACTTCTATGAGATGAGCCTTTTATATTTTTATAAAAGTTGT
1 TTTTATATTTTTAAAAATTATTGAACCTCTATGAAATAAGCCTTTTATATTTTTATAAAAGTTGT
* * *
9814388 TGAGTCTCTGTTGAGAGAAATT
66 TAAGCCTCTATTGAGAGAAATT
* *
9814410 TTTTGTATTTTTAAAAGTTATTGAACCTCTGATGAAATAAGCC-TTTATATTTTTA-AAAAGTTG
1 TTTTATATTTTTAAAAATTATTGAACCTCT-ATGAAATAAGCCTTTTATATTTTTATAAAAGTTG
9814473 TTAAGCCTCTATTGA
65 TTAAGCCTCTATTGA
9814488 AAATAGCTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
86 20 0.29
87 38 0.56
88 10 0.15
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (87 bp):
TTTTATATTTTTAAAAATTATTGAACCTCTATGAAATAAGCCTTTTATATTTTTATAAAAGTTGT
TAAGCCTCTATTGAGAGAAATT
Found at i:9814537 original size:41 final size:41
Alignment explanation
Indices: 9814466--9814544 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 41
9814456 ATATTTTTAA
9814466 AAAGTTGTTAAGCCTCTATTGAAAATAGCTTTTTATATTTTC
1 AAAGTTGTTAAGCCTCTATTGAAAATAGC-TTTTATATTTTC
* *
9814508 AAAG-TGTTGAGCCTCTATTTAGAAA-AGCTTTTATATT
1 AAAGTTGTTAAGCCTCTATTGA-AAATAGCTTTTATATT
9814545 ATTCGAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 9 0.26
41 18 0.53
42 7 0.21
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (41 bp):
AAAGTTGTTAAGCCTCTATTGAAAATAGCTTTTATATTTTC
Found at i:9815749 original size:29 final size:28
Alignment explanation
Indices: 9815693--9815756 Score: 64
Period size: 29 Copynumber: 2.3 Consensus size: 28
9815683 CTCTTTGATA
*
9815693 AATTATTTTTTATTTTATTTCATTTTAT
1 AATTATTTTTTATTTTATTTCATGTTAT
9815721 AATTGATTTTTT-TTTGTATCTT-ATGTTAT
1 AATT-ATTTTTTATTT-TAT-TTCATGTTAT
9815750 --TTATTTT
1 AATTATTTT
9815757 CAATTGGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
26 5 0.16
27 2 0.06
28 7 0.22
29 16 0.50
30 2 0.06
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (28 bp):
AATTATTTTTTATTTTATTTCATGTTAT
Found at i:9816043 original size:17 final size:17
Alignment explanation
Indices: 9816013--9816047 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
9816003 AGAAAATTTT
9816013 ATAATAATTATTTTAAA
1 ATAATAATTATTTTAAA
*
9816030 ATAA-AATTATTTTTAA
1 ATAATAATTATTTTAAA
9816046 AT
1 AT
9816048 CCTACAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATAATAATTATTTTAAA
Found at i:9818030 original size:20 final size:21
Alignment explanation
Indices: 9818005--9818055 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
9817995 TCCTACATAG
*
9818005 GGGATCGATCACC-CAGGAAA
1 GGGATCGATCACCTCAAGAAA
*
9818025 GGGATCGATCCCCTCAAGAAA
1 GGGATCGATCACCTCAAGAAA
9818046 GGGATCGATC
1 GGGATCGATC
9818056 GGGTAAGGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.31, C:0.25, G:0.29, T:0.14
Consensus pattern (21 bp):
GGGATCGATCACCTCAAGAAA
Found at i:9819674 original size:19 final size:18
Alignment explanation
Indices: 9819639--9819681 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
9819629 GATTTGGTAA
*
9819639 TTTTTTTTTATTGTATTT
1 TTTTTTTTTATTCTATTT
9819657 CTTTTTTTTGT-TTCTATTT
1 -TTTTTTTT-TATTCTATTT
9819676 TTTTTT
1 TTTTTT
9819682 CATCTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 15 0.68
20 1 0.05
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTATTCTATTT
Found at i:9824490 original size:16 final size:17
Alignment explanation
Indices: 9824459--9824493 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
9824449 ATAGGATAAT
9824459 TTATTTGTTGATCAAAA
1 TTATTTGTTGATCAAAA
*
9824476 TTATTT-TTTATCAAAA
1 TTATTTGTTGATCAAAA
9824492 TT
1 TT
9824494 TATACAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (17 bp):
TTATTTGTTGATCAAAA
Found at i:9824496 original size:17 final size:18
Alignment explanation
Indices: 9824456--9824496 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
9824446 ATGATAGGAT
9824456 AATTTATTTGTTGATCAA
1 AATTTATTTGTTGATCAA
*
9824474 AA-TTATTT-TTTATCAA
1 AATTTATTTGTTGATCAA
9824490 AATTTAT
1 AATTTAT
9824497 ACAATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.43
17 10 0.48
18 2 0.10
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (18 bp):
AATTTATTTGTTGATCAA
Found at i:9825429 original size:24 final size:24
Alignment explanation
Indices: 9825397--9825445 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
9825387 CATTCCTTTT
*
9825397 CTTCCCTTGATAAAGCCTCAAAAC
1 CTTCCCTTGACAAAGCCTCAAAAC
*
9825421 CTTCCCTTGACAAAGCGTCAAAAC
1 CTTCCCTTGACAAAGCCTCAAAAC
9825445 C
1 C
9825446 AGAGTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.35, G:0.10, T:0.22
Consensus pattern (24 bp):
CTTCCCTTGACAAAGCCTCAAAAC
Found at i:9827700 original size:20 final size:20
Alignment explanation
Indices: 9827662--9827707 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
9827652 CCAATAAATC
* *
9827662 TTAAAT-AAAATTTATATTA
1 TTAAATAAAAAATTAAATTA
9827681 TTAAATAAAAAATTAAATTA
1 TTAAATAAAAAATTAAATTA
9827701 TTAAATA
1 TTAAATA
9827708 TATATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAATAAAAAATTAAATTA
Found at i:9833969 original size:23 final size:23
Alignment explanation
Indices: 9833930--9833974 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9833920 CGAACTGCTA
*
9833930 ACATAATTTATTATTTAATAAAT
1 ACATAATGTATTATTTAATAAAT
9833953 ACATAATCGTATT-TTTAATAAA
1 ACATAAT-GTATTATTTAATAAA
9833975 AGTGTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (23 bp):
ACATAATGTATTATTTAATAAAT
Found at i:9834227 original size:15 final size:16
Alignment explanation
Indices: 9834207--9834242 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
9834197 ATTCTTGACT
9834207 TATTTTTT-TTATCGA
1 TATTTTTTATTATCGA
*
9834222 TATTTTTTATTATCTA
1 TATTTTTTATTATCGA
9834238 TATTT
1 TATTT
9834243 ATAGTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (16 bp):
TATTTTTTATTATCGA
Found at i:9834319 original size:206 final size:204
Alignment explanation
Indices: 9833974--9834373 Score: 617
Period size: 206 Copynumber: 1.9 Consensus size: 204
9833964 TTTTTAATAA
*
9833974 AAGTGTTAATTGATATATAATTCTTGACTTTTTTTTTATTGATATTTTTTATTATCTATATTTAT
1 AAGTGTTAATTGATATATAATTCTTGACTTTTTTTTTATCGATATTTTTTATTATCTATATTTAT
* *
9834039 AATTTTTTAATTTTTTGGATTAAAAAATATCGATAAAGTTATTCTTAACTTGTTTCATTGCTTCC
66 AATTTTTTAATTTTTTGGATTAAAAAATATCGATAAAGCTATTCTTAACTTGTTTCATTACTTCC
* * *
9834104 ATTCTTCTTAATAC-T-GGAGTAATAAAAAA-AATGTAATTCAAATTTTTTATTTTAGATAATTT
131 ATCCTTCTTAATACTTAGGAGTAA-AAAAAAGAAAGTAATTCAAATTTTTCA--TTAGATAATTT
9834166 CATATTTTTAAC
193 CATATTTTTAAC
9834178 AAGTGTTAATTGATATATAATTCTTGACTTATTTTTTTTATCGATATTTTTTATTATCTATATTT
1 AAGTGTTAATTGATATATAATTCTTGAC-T-TTTTTTTTATCGATATTTTTTATTATCTATATTT
* * * * *
9834243 ATAGTTTTTTCATTTTTTGGATTAAAAGATGTCGATGAAGCTATTCTTAACTTGTTTCATTACTT
64 ATAATTTTTTAATTTTTTGGATTAAAAAATATCGATAAAGCTATTCTTAACTTGTTTCATTACTT
*
9834308 CCATCCTTCTTAATACTTAAGTAGTAAAAAAAAGAAAGTAATTCAAATTTTTCATTAGATAATTT
129 CCATCCTTCTTAATACTT-AGGAGTAAAAAAAAGAAAGTAATTCAAATTTTTCATTAGATAATTT
9834373 C
193 C
9834374 TCTAGAAGTT
Statistics
Matches: 178, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
204 28 0.16
205 1 0.01
206 106 0.60
207 13 0.07
208 6 0.03
209 24 0.13
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.50
Consensus pattern (204 bp):
AAGTGTTAATTGATATATAATTCTTGACTTTTTTTTTATCGATATTTTTTATTATCTATATTTAT
AATTTTTTAATTTTTTGGATTAAAAAATATCGATAAAGCTATTCTTAACTTGTTTCATTACTTCC
ATCCTTCTTAATACTTAGGAGTAAAAAAAAGAAAGTAATTCAAATTTTTCATTAGATAATTTCAT
ATTTTTAAC
Found at i:9834792 original size:24 final size:24
Alignment explanation
Indices: 9834765--9834810 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
9834755 ATATTTTAGA
9834765 TTTAATAAAAGCAAAAAA-AAATGC
1 TTTAATAAAAG-AAAAAATAAATGC
* *
9834789 TTTATTAAATGAAAAAATAAAT
1 TTTAATAAAAGAAAAAATAAAT
9834811 TTTGAAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (24 bp):
TTTAATAAAAGAAAAAATAAATGC
Found at i:9842099 original size:2 final size:2
Alignment explanation
Indices: 9842092--9842122 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9842082 TGGCAGTAGT
9842092 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9842123 GAAGCACGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9842191 original size:13 final size:15
Alignment explanation
Indices: 9842169--9842203 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9842159 GGACACTACA
* *
9842169 ATAAAAAAATTTTAT
1 ATAAAAATATTTAAT
9842184 ATAAAAATATTTAAT
1 ATAAAAATATTTAAT
9842199 ATAAA
1 ATAAA
9842204 TGTAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAAAAATATTTAAT
Found at i:9842539 original size:16 final size:17
Alignment explanation
Indices: 9842518--9842563 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
9842508 TTTCTTCTTC
9842518 TCTTTCTTCTTTCC-CT
1 TCTTTCTTCTTTCCTCT
*
9842534 TCTTTCTATCTTTCCTTT
1 TCTTTCT-TCTTTCCTCT
9842552 TCTTT-TTCTTTC
1 TCTTTCTTCTTTC
9842564 TGTCTTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 13 0.48
17 8 0.30
18 6 0.22
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.67
Consensus pattern (17 bp):
TCTTTCTTCTTTCCTCT
Found at i:9842908 original size:4 final size:4
Alignment explanation
Indices: 9842899--9842933 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
9842889 GCTTCATGGA
* *
9842899 TATG TATG TATG TATG TATG TATG TGTG TGTG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
9842934 ATATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:9842936 original size:2 final size:2
Alignment explanation
Indices: 9842931--9842960 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9842921 TGTGTGTGTG
9842931 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9842961 AGTAATACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9844394 original size:21 final size:22
Alignment explanation
Indices: 9844364--9844415 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
9844354 GATATTTCTA
9844364 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
9844384 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
9844406 AATATTTTAT
1 AATATTTTAT
9844416 TAATTTCGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:9856944 original size:20 final size:19
Alignment explanation
Indices: 9856891--9856948 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
9856881 TTTAATTCCA
*
9856891 TATATTTATATAATATATAAT
1 TATATTTA-A-AATAAATAAT
**
9856912 TATATTTTTAATAAATAAT
1 TATATTTAAAATAAATAAT
9856931 TATTATTTAAAATAAATA
1 TA-TATTTAAAATAAATA
9856949 TTCATATGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 11 0.35
20 13 0.42
21 7 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATTTAAAATAAATAAT
Found at i:9857892 original size:38 final size:39
Alignment explanation
Indices: 9857841--9857933 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 39
9857831 AAAATATTCA
9857841 TATTAAGAA-AATAATAATATTA-TAT-TAT-TTAAGATTAT
1 TATTAA-AATAATAATAATATTATTATATATATT-A-ATTAT
* * *
9857879 TGTTAAAATAATAAAAATATTATTATATATATTATTTAT
1 TATTAAAATAATAATAATATTATTATATATATTAATTAT
9857918 TATTAAAATAATAATA
1 TATTAAAATAATAATA
9857934 TAATACTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
37 2 0.04
38 17 0.37
39 21 0.46
40 4 0.09
41 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (39 bp):
TATTAAAATAATAATAATATTATTATATATATTAATTAT
Found at i:9858419 original size:17 final size:17
Alignment explanation
Indices: 9858387--9858434 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
9858377 TTTTATTTTT
* *
9858387 TATTGATCAATAAATTA
1 TATTTATCAATTAATTA
* *
9858404 TATTTATTAATTAATTT
1 TATTTATCAATTAATTA
*
9858421 TTTTTATCAATTAA
1 TATTTATCAATTAA
9858435 GTACCTAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (17 bp):
TATTTATCAATTAATTA
Found at i:9871079 original size:25 final size:24
Alignment explanation
Indices: 9871038--9871091 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
9871028 CAAATTAGGA
* *
9871038 AATCGAGTTGCATTAATGTAAGAG
1 AATCGAATTGCACTAATGTAAGAG
**
9871062 AATCGAATCTGCACTAATGTGGGAG
1 AATCGAAT-TGCACTAATGTAAGAG
9871087 AATCG
1 AATCG
9871092 GATTTCTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (24 bp):
AATCGAATTGCACTAATGTAAGAG
Found at i:9873103 original size:27 final size:26
Alignment explanation
Indices: 9873029--9873118 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 26
9873019 CTGATAGGTT
*
9873029 GGGTAGGTTGAGAATCTGGTTTAGAAG
1 GGGT-GGTTGAGAATCTGGTTTTGAAG
* *
9873056 GGGTGGTTGAGATTCTAGTTTTGAAG
1 GGGTGGTTGAGAATCTGGTTTTGAAG
*
9873082 GGGCTGGTTGGGAATCTGGTTTTGAAAG
1 GGG-TGGTTGAGAATCTGGTTTTG-AAG
*
9873110 GGTTGGTTG
1 GGGTGGTTG
9873119 GGAAATTGGC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 22 0.41
27 27 0.50
28 5 0.09
ACGTcount: A:0.19, C:0.04, G:0.42, T:0.34
Consensus pattern (26 bp):
GGGTGGTTGAGAATCTGGTTTTGAAG
Found at i:9874973 original size:23 final size:25
Alignment explanation
Indices: 9874960--9875008 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9874950 GAAATCAAGT
*
9874960 TGCACTAATGTAGGAGAATCGGATC
1 TGCACTAATGTAGGAGAATCAGATC
*
9874985 TGCACTAATGTAGGAGATTCAGAT
1 TGCACTAATGTAGGAGAATCAGAT
9875009 TTTTGTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.27
Consensus pattern (25 bp):
TGCACTAATGTAGGAGAATCAGATC
Found at i:9876802 original size:33 final size:33
Alignment explanation
Indices: 9876760--9876825 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
9876750 AAGGGGCTTG
9876760 AATCATACTATGTGTCAGGTGAACTTCAGCAAC
1 AATCATACTATGTGTCAGGTGAACTTCAGCAAC
* *
9876793 AATCATACTATGTGTTAGGTGAACTTCGGCAAC
1 AATCATACTATGTGTCAGGTGAACTTCAGCAAC
9876826 TAGACAGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (33 bp):
AATCATACTATGTGTCAGGTGAACTTCAGCAAC
Found at i:9891110 original size:21 final size:21
Alignment explanation
Indices: 9891084--9891124 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9891074 ACCATCAAAT
* *
9891084 TAGATTTTCAAATTAATTTAA
1 TAGATTCTCAAACTAATTTAA
*
9891105 TAGATTCTCAAGCTAATTTA
1 TAGATTCTCAAACTAATTTA
9891125 TTAAATCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (21 bp):
TAGATTCTCAAACTAATTTAA
Found at i:9895105 original size:20 final size:20
Alignment explanation
Indices: 9895060--9895116 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 20
9895050 TTTAATTGAT
* *
9895060 TTGACTTATTTAAAGTTTAA
1 TTGAGTTATTTTAAGTTTAA
**
9895080 TT-AGTTATTTTAAGTTTTG
1 TTGAGTTATTTTAAGTTTAA
*
9895099 TTGAGTTTAATTTAAGTT
1 TTGAG-TTATTTTAAGTT
9895117 GTTTAAGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 15 0.50
20 4 0.13
21 11 0.37
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.56
Consensus pattern (20 bp):
TTGAGTTATTTTAAGTTTAA
Found at i:9895249 original size:128 final size:128
Alignment explanation
Indices: 9895021--9895284 Score: 501
Period size: 128 Copynumber: 2.1 Consensus size: 128
9895011 CACATAGTTC
*
9895021 TTGCATGTCTAAGTATGTTAGATTAGGGTTTTAATTGATTTGACTTATTTAAAGTTTAATTAGTT
1 TTGCATGTCTAAGTATGTTAGATTAGGGTTTTAATTGATTTGAATTATTTAAAGTTTAATTAGTT
*
9895086 ATTTTAAGTTTTGTTGAGTTTAATTTAAGTTGTTTAAGTTATTACATTTTAGTTTAAGGTAAT
66 ATTTTAAGTTTTGTTGAGTTTAATTTAAATTGTTTAAGTTATTACATTTTAGTTTAAGGTAAT
9895149 TTGCATGTCTAAGTATGTTAGATTAGGGTTTTAATTGATTTGAATTATTTAAAGTTTAATTAGTT
1 TTGCATGTCTAAGTATGTTAGATTAGGGTTTTAATTGATTTGAATTATTTAAAGTTTAATTAGTT
*
9895214 ATTTTAAGTTTTGTTGAGTTTAATTTAAATTGTTTAAGTTATTACATTTTAGTTTAAGTTAAT
66 ATTTTAAGTTTTGTTGAGTTTAATTTAAATTGTTTAAGTTATTACATTTTAGTTTAAGGTAAT
9895277 TTGCATGT
1 TTGCATGT
9895285 GATTAAGTTT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 133 1.00
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.52
Consensus pattern (128 bp):
TTGCATGTCTAAGTATGTTAGATTAGGGTTTTAATTGATTTGAATTATTTAAAGTTTAATTAGTT
ATTTTAAGTTTTGTTGAGTTTAATTTAAATTGTTTAAGTTATTACATTTTAGTTTAAGGTAAT
Found at i:9896914 original size:18 final size:19
Alignment explanation
Indices: 9896870--9896914 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
9896860 AAGATTTGAT
*
9896870 TTTTTTTTAATTTTTACAG
1 TTTTTTTTAATTATTACAG
9896889 TTTTTTTT-ATTATTA-AG
1 TTTTTTTTAATTATTACAG
9896906 CTTTTTTTT
1 -TTTTTTTT
9896915 TATAGAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 2 0.08
18 14 0.58
19 8 0.33
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (19 bp):
TTTTTTTTAATTATTACAG
Found at i:9908974 original size:13 final size:13
Alignment explanation
Indices: 9908956--9908980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9908946 CATATATATT
9908956 TATTTTTTAATTA
1 TATTTTTTAATTA
9908969 TATTTTTTAATT
1 TATTTTTTAATT
9908981 TTTTTAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTTTTAATTA
Found at i:9912596 original size:37 final size:37
Alignment explanation
Indices: 9912555--9912626 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
9912545 ATCCATTTTT
**
9912555 TTATAATTTTTGTGTAACTAAATGGTTCTATTACATC
1 TTATAATTTTTGTACAACTAAATGGTTCTATTACATC
* *
9912592 TTATAATTTTTTTACAACTAGATGGTTCTATTACA
1 TTATAATTTTTGTACAACTAAATGGTTCTATTACA
9912627 CCTTGAACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.49
Consensus pattern (37 bp):
TTATAATTTTTGTACAACTAAATGGTTCTATTACATC
Found at i:9913608 original size:20 final size:21
Alignment explanation
Indices: 9913578--9913616 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9913568 CCTGCACTTT
*
9913578 AAATCAACAGATTCAAGCTAA
1 AAATCAACAGACTCAAGCTAA
9913599 AAAT-AACAGACTCAAGCT
1 AAATCAACAGACTCAAGCT
9913617 TAACAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.51, C:0.21, G:0.10, T:0.18
Consensus pattern (21 bp):
AAATCAACAGACTCAAGCTAA
Found at i:9914448 original size:44 final size:44
Alignment explanation
Indices: 9914390--9914534 Score: 143
Period size: 44 Copynumber: 3.3 Consensus size: 44
9914380 AAATATATAG
* * *
9914390 TACTTAAGATATATGTACAAAAAGATGTAACTATATATGCATAA
1 TACTTAAGACATATGTATAAATAGATGTAACTATATATGCATAA
* * * * *
9914434 TACTTAGGACATATGTATAAGTAGATGTAACTACATGTGCATGA
1 TACTTAAGACATATGTATAAATAGATGTAACTATATATGCATAA
* * * *
9914478 TATTTAAGATATATGTATACATAG-TGTAACTTATGTAT--ATAA
1 TACTTAAGACATATGTATAAATAGATGTAAC-TATATATGCATAA
*
9914520 TACTTAGGACATATG
1 TACTTAAGACATATG
9914535 AAATTTGATT
Statistics
Matches: 80, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
42 15 0.19
43 6 0.08
44 59 0.74
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (44 bp):
TACTTAAGACATATGTATAAATAGATGTAACTATATATGCATAA
Found at i:9916206 original size:28 final size:22
Alignment explanation
Indices: 9916152--9916198 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
9916142 CTAAAAATAC
9916152 TATATACATATCCTATAAGTAT
1 TATATACATATCCTATAAGTAT
*
9916174 TATATACATATCCTATAAGCAT
1 TATATACATATCCTATAAGTAT
9916196 TAT
1 TAT
9916199 GTTTATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.40
Consensus pattern (22 bp):
TATATACATATCCTATAAGTAT
Found at i:9916832 original size:27 final size:29
Alignment explanation
Indices: 9916797--9916853 Score: 91
Period size: 27 Copynumber: 2.0 Consensus size: 29
9916787 AAGTATATAA
*
9916797 TTTACATTAAACTTC-AAACCT-CTAAAT
1 TTTAAATTAAACTTCTAAACCTCCTAAAT
9916824 TTTAAATTAAACTTCTAAACCTCCTAAAT
1 TTTAAATTAAACTTCTAAACCTCCTAAAT
9916853 T
1 T
9916854 ACTCTTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 14 0.52
28 6 0.22
29 7 0.26
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.39
Consensus pattern (29 bp):
TTTAAATTAAACTTCTAAACCTCCTAAAT
Found at i:9916937 original size:22 final size:22
Alignment explanation
Indices: 9916912--9916963 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
9916902 GATGAGATGC
* *
9916912 ACATATACTTATATCTA-GATAT
1 ACATAT-CCTATAACTATGATAT
*
9916934 ACATATCCTATAACTATTATAT
1 ACATATCCTATAACTATGATAT
9916956 ACATATCC
1 ACATATCC
9916964 CAAAAAGTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.38
Consensus pattern (22 bp):
ACATATCCTATAACTATGATAT
Found at i:9917027 original size:22 final size:22
Alignment explanation
Indices: 9916930--9917028 Score: 74
Period size: 22 Copynumber: 4.5 Consensus size: 22
9916920 TTATATCTAG
* * **
9916930 ATATACATATCCTATAACTATT
1 ATATACATATCATATAAGTACA
* *
9916952 ATATACATATCCCA-AAAAGTACT
1 ATATACATAT--CATATAAGTACA
* * *
9916975 ATATATAAATCATATAAGTACT
1 ATATACATATCATATAAGTACA
*
9916997 ATATGCATATCATATAAGTACA
1 ATATACATATCATATAAGTACA
*
9917019 ATGTACATAT
1 ATATACATAT
9917029 ATTAAAAAAG
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
21 2 0.03
22 44 0.72
23 14 0.23
24 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.34
Consensus pattern (22 bp):
ATATACATATCATATAAGTACA
Found at i:9917486 original size:12 final size:12
Alignment explanation
Indices: 9917471--9917495 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9917461 ATATATATAT
9917471 ATACACACACAC
1 ATACACACACAC
9917483 ATACACACACAC
1 ATACACACACAC
9917495 A
1 A
9917496 CACATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.40, G:0.00, T:0.08
Consensus pattern (12 bp):
ATACACACACAC
Found at i:9917510 original size:16 final size:16
Alignment explanation
Indices: 9917467--9917511 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
9917457 ATATATATAT
9917467 ATATATACACACACAC
1 ATATATACACACACAC
* *
9917483 ATACACACACACACAC
1 ATATATACACACACAC
*
9917499 ATATATATACACA
1 ATATATACACACA
9917512 TATATATCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (16 bp):
ATATATACACACACAC
Found at i:9919198 original size:14 final size:15
Alignment explanation
Indices: 9919179--9919207 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9919169 TGAACTAATA
9919179 AAAATA-TTTAAAAT
1 AAAATATTTTAAAAT
9919193 AAAATATTTTAAAAT
1 AAAATATTTTAAAAT
9919208 TTTAATCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATATTTTAAAAT
Found at i:9920407 original size:43 final size:41
Alignment explanation
Indices: 9920341--9920428 Score: 106
Period size: 43 Copynumber: 2.1 Consensus size: 41
9920331 AAATTTATCT
* * *
9920341 AAAAAAAGTAAAAAAATAAAAAAGTTTTAAAAAA-GAAAGAA
1 AAAAAAAGTAAAAAAAAAAAAAAGCTTCAAAAAATGAAA-AA
*
9920382 AAAAAAATTAAAAAAAAAAGTAAAAGCTTCAAAAAATGAAAAA
1 AAAAAAAGTAAAAAAAAAA--AAAAGCTTCAAAAAATGAAAAA
9920425 AAAA
1 AAAA
9920429 GGGGTCACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
41 17 0.43
43 19 0.47
44 4 0.10
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (41 bp):
AAAAAAAGTAAAAAAAAAAAAAAGCTTCAAAAAATGAAAAA
Found at i:9923563 original size:2 final size:2
Alignment explanation
Indices: 9923558--9923588 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9923548 ACACGTGCGC
9923558 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9923589 AACCTAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9927671 original size:18 final size:18
Alignment explanation
Indices: 9927648--9927690 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
9927638 AATCCATGAT
9927648 TTATAATAAAATATTTAA
1 TTATAATAAAATATTTAA
9927666 TTATAATAAAATATTTAA
1 TTATAATAAAATATTTAA
9927684 -TATAATA
1 TTATAATA
9927691 TTTAAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTATAATAAAATATTTAA
Found at i:9927717 original size:28 final size:29
Alignment explanation
Indices: 9927677--9927739 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
9927667 TATAATAAAA
*
9927677 TATTTAATATAATATTTAAATT-TAAAATT
1 TATTTAATATAATATTCAAATTAT-AAATT
*
9927706 T-TTTAATGTAATATTCAAATTATAAATT
1 TATTTAATATAATATTCAAATTATAAATT
9927734 TATTTA
1 TATTTA
9927740 CTAATATGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 24 0.80
29 6 0.20
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (29 bp):
TATTTAATATAATATTCAAATTATAAATT
Found at i:9940377 original size:22 final size:22
Alignment explanation
Indices: 9940351--9940394 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9940341 TGTATATTTA
*
9940351 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
9940373 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
9940395 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:9940563 original size:23 final size:23
Alignment explanation
Indices: 9940543--9940627 Score: 116
Period size: 23 Copynumber: 3.6 Consensus size: 23
9940533 AAATTTTTCA
*
9940543 GCCTTCATTGCTGACTTTTTTAG
1 GCCTTCATTGCCGACTTTTTTAG
9940566 GCCTTCATTGCCGACTTTTTTAG
1 GCCTTCATTGCCGACTTTTTTAG
* * *
9940589 GCTTTCATTGCCGAATCCTGTTTAG
1 GCCTTCATTGCCG-A-CTTTTTTAG
9940614 GCCTTCATTGCCGA
1 GCCTTCATTGCCGA
9940628 ACCCTTTCAA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
23 34 0.62
24 2 0.04
25 19 0.35
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.41
Consensus pattern (23 bp):
GCCTTCATTGCCGACTTTTTTAG
Found at i:9944300 original size:22 final size:22
Alignment explanation
Indices: 9944274--9944317 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9944264 TGTATATTTA
*
9944274 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
9944296 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
9944318 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:9945706 original size:18 final size:19
Alignment explanation
Indices: 9945676--9945711 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9945666 AACAAGAAGA
*
9945676 TATACATGCAAAAGCATCT
1 TATACATGCAAAACCATCT
9945695 TATACA-GCAAAACCATC
1 TATACATGCAAAACCATC
9945712 AAATTAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.44, C:0.25, G:0.08, T:0.22
Consensus pattern (19 bp):
TATACATGCAAAACCATCT
Found at i:9954303 original size:59 final size:58
Alignment explanation
Indices: 9954183--9954436 Score: 212
Period size: 59 Copynumber: 4.3 Consensus size: 58
9954173 TTTGTATAGA
* * * * * * *
9954183 AAAAATTGAGAGTTTCAATTTTTTTC--CAAAAT-ATTTTTTAGAAACTTTAATTTCAAG
1 AAAAATTGATACTTTCAATTTTTCTCAAAAAAATAATTTTTGA-AAAC-TTATTTTTAAG
* * *
9954240 AAAAATTGATACTTTCAATTTTTTTTAAAAAAATCAACTTTTGAAAACTTATTTTTAAG
1 AAAAATTGATACTTTCAATTTTTCTCAAAAAAAT-AATTTTTGAAAACTTATTTTTAAG
*
9954299 AAAAATTGATA-TCTTCAACTTTTCCTCAAAAAAA-AATTTTTGAAAACTTATTTTTTAAG
1 AAAAATTGATACT-TTCAA-TTTTTCTCAAAAAAATAATTTTTGAAAACTTA-TTTTTAAG
* * * * * * * *
9954358 GAAAATTGCTACCTTCAACTTTTCCCAAAAAATATATTTTTTTAGAAAGCTTATTTTCAAG
1 AAAAATTGATACTTTCAATTTTTCTCAAAAAA-ATA-ATTTTT-GAAAACTTATTTTTAAG
*
9954419 GAAAATTGATACTTTCAA
1 AAAAATTGATACTTTCAA
9954437 CTTTCCTTAA
Statistics
Matches: 162, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
57 23 0.14
58 27 0.17
59 53 0.33
60 17 0.10
61 34 0.21
62 8 0.05
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.41
Consensus pattern (58 bp):
AAAAATTGATACTTTCAATTTTTCTCAAAAAAATAATTTTTGAAAACTTATTTTTAAG
Found at i:9954458 original size:60 final size:60
Alignment explanation
Indices: 9954215--9954461 Score: 224
Period size: 59 Copynumber: 4.2 Consensus size: 60
9954205 TTTCCAAAAT
* ** *
9954215 ATTTTTT-AGAAACTTTAATTTCAAGAAAAATTGATACTTTCAA-TTTTTTTTAAAAAAATCA
1 ATTTTTTGA-AAAC-TTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATAT-A
* * *
9954276 A-CTTTTGAAAACTTATTTTTAAGAAAAATTGATA-TCTTCAACTTTTCCTCAAAAA-A-A
1 ATTTTTTGAAAACTTATTTTCAAGAAAAATTGATACT-TTCAACTTTTCCTTAAAAATATA
* * * * * **
9954333 AATTTTTGAAAACTTATTTTTTAAGGAAAATTGCTACCTTCAACTTTTCCCAAAAAATATA
1 ATTTTTTGAAAACTTA-TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATA
* * *
9954394 TTTTTTTAGAAAGCTTATTTTCAAGGAAAATTGATACTTTCAAC-TTTCCTTAAAAATAT-
1 ATTTTTT-GAAAACTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATA
9954453 -TTTTTTGAA
1 ATTTTTTGAA
9954462 TTTTATTTAA
Statistics
Matches: 157, Mismatches: 20, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
57 5 0.03
58 20 0.13
59 60 0.38
60 32 0.20
61 32 0.20
62 8 0.05
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (60 bp):
ATTTTTTGAAAACTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATA
Found at i:9954546 original size:7 final size:7
Alignment explanation
Indices: 9954523--9954566 Score: 61
Period size: 7 Copynumber: 5.9 Consensus size: 7
9954513 TAATTTAATC
9954523 AATAAAT
1 AATAAAT
9954530 AATAATAAT
1 AAT-A-AAT
9954539 AATAAAT
1 AATAAAT
9954546 AAATAAAT
1 -AATAAAT
9954554 AATAAAT
1 AATAAAT
9954561 AATAAA
1 AATAAA
9954567 AAAAATATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 19 0.56
8 9 0.26
9 6 0.18
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AATAAAT
Found at i:9955400 original size:8 final size:8
Alignment explanation
Indices: 9955369--9955503 Score: 54
Period size: 8 Copynumber: 17.2 Consensus size: 8
9955359 AATAAATATT
9955369 AATAGATA
1 AATAGATA
9955377 AAT-GAT-
1 AATAGATA
9955383 AATATG-TA
1 AATA-GATA
9955391 AATAGATA
1 AATAGATA
9955399 AATA-ATAA
1 AATAGAT-A
*
9955407 TAATAGGTA
1 -AATAGATA
9955416 AAT-GATA
1 AATAGATA
*
9955423 ATATATAATA
1 A-ATA-GATA
* *
9955433 GATATATA
1 AATAGATA
*
9955441 AACAGATA
1 AATAGATA
*
9955449 AGTA-ATA
1 AATAGATA
* *
9955456 AAAAAATA
1 AATAGATA
*
9955464 TAGTA-AT-
1 -AATAGATA
9955471 AATAGATA
1 AATAGATA
*
9955479 AATAAAT-
1 AATAGATA
*
9955486 AATAAATA
1 AATAGATA
9955494 AATAGATA
1 AATAGATA
9955502 AA
1 AA
9955504 ATACAAAATA
Statistics
Matches: 95, Mismatches: 17, Indels: 30
0.67 0.12 0.21
Matches are distributed among these distances:
6 6 0.06
7 25 0.26
8 50 0.53
9 10 0.11
10 4 0.04
ACGTcount: A:0.61, C:0.01, G:0.10, T:0.28
Consensus pattern (8 bp):
AATAGATA
Found at i:9955417 original size:17 final size:17
Alignment explanation
Indices: 9955391--9955503 Score: 65
Period size: 17 Copynumber: 6.6 Consensus size: 17
9955381 ATAATATGTA
9955391 AATAGATAAATAATAAT
1 AATAGATAAATAATAAT
* *
9955408 AATAGGTAAATGATAAT
1 AATAGATAAATAATAAT
*
9955425 ATATA-ATAGAT-AT-AT
1 A-ATAGATAAATAATAAT
* *
9955440 AAACAGATAAGTAATAA-
1 -AATAGATAAATAATAAT
* *
9955457 AA-AAATATAGTAATAAT
1 AATAGATA-AATAATAAT
*
9955474 AGATAAATAAATAATAAAT
1 A-ATAGATAAATAAT-AAT
9955493 AAATAGATAAA
1 -AATAGATAAA
9955504 ATACAAAATA
Statistics
Matches: 75, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
15 8 0.11
16 17 0.23
17 23 0.31
18 10 0.13
19 16 0.21
20 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.27
Consensus pattern (17 bp):
AATAGATAAATAATAAT
Found at i:9955419 original size:39 final size:38
Alignment explanation
Indices: 9955358--9955441 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 38
9955348 AGAAAAAATA
* *
9955358 AAATAAATATTAATAGATAAATGATAATATGTAAATAGAT
1 AAAT-AATAATAATAGATAAATGATAATATAT-AATAGAT
*
9955398 AAATAATAATAATAGGTAAATGATAATATATAATAGAT
1 AAATAATAATAATAGATAAATGATAATATATAATAGAT
*
9955436 ATATAA
1 AAATAA
9955442 ACAGATAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 12 0.30
39 24 0.60
40 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (38 bp):
AAATAATAATAATAGATAAATGATAATATATAATAGAT
Found at i:9955482 original size:11 final size:11
Alignment explanation
Indices: 9955405--9955503 Score: 64
Period size: 11 Copynumber: 9.2 Consensus size: 11
9955395 GATAAATAAT
*
9955405 AATAATAGGTA
1 AATAATAGATA
*
9955416 AATGATA-ATA
1 AATAATAGATA
*
9955426 TATAATAGATA
1 AATAATAGATA
* *
9955437 TATAAACAGATA
1 AAT-AATAGATA
* * *
9955449 AGTAATAAAAA
1 AATAATAGATA
9955460 AAT-ATAG-T-
1 AATAATAGATA
9955468 AATAATAGATA
1 AATAATAGATA
9955479 AATAAATA-ATA
1 AAT-AATAGATA
9955490 AATAAATAGATA
1 AAT-AATAGATA
9955502 AA
1 AA
9955504 ATACAAAATA
Statistics
Matches: 68, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
8 3 0.04
9 4 0.06
10 11 0.16
11 33 0.49
12 17 0.25
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.27
Consensus pattern (11 bp):
AATAATAGATA
Found at i:9955488 original size:15 final size:15
Alignment explanation
Indices: 9955468--9955541 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 15
9955458 AAAATATAGT
*
9955468 AATAATAGATAAATA
1 AATAATAAATAAATA
9955483 AATAATAAATAAATA
1 AATAATAAATAAATA
* *
9955498 GAT-A-AAATACA-A
1 AATAATAAATAAATA
*
9955510 AAT-ATAAAAAAATA
1 AATAATAAATAAATA
9955524 AA-AATAAAATAAAATA
1 AATAAT-AAAT-AAATA
9955540 AA
1 AA
9955542 ACAAACGAGA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
12 4 0.09
13 11 0.23
14 6 0.13
15 19 0.40
16 7 0.15
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (15 bp):
AATAATAAATAAATA
Found at i:9955494 original size:38 final size:38
Alignment explanation
Indices: 9955391--9955495 Score: 90
Period size: 38 Copynumber: 2.7 Consensus size: 38
9955381 ATAATATGTA
*
9955391 AATAGATAAAT-AATAATAATAGGTAAATGATAATATATAAT
1 AATAGATAAATAAATAATAA-A--TAAA-GAAAATATATAAT
* * *
9955432 AGATATATAAACAGATAAGT-AATAAA-AAAATATAGTAAT
1 A-ATAGATAAATAAATAA-TAAATAAAGAAAATATA-TAAT
9955471 AATAGATAAATAAATAATAAATAAA
1 AATAGATAAATAAATAATAAATAAA
9955496 TAGATAAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
37 1 0.02
38 26 0.50
39 5 0.10
40 4 0.08
41 1 0.02
42 9 0.17
43 5 0.10
44 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.28
Consensus pattern (38 bp):
AATAGATAAATAAATAATAAATAAAGAAAATATATAAT
Found at i:9955520 original size:16 final size:17
Alignment explanation
Indices: 9955478--9955542 Score: 64
Period size: 16 Copynumber: 3.8 Consensus size: 17
9955468 AATAATAGAT
9955478 AAAT-AAATAATAAATAA
1 AAATAAAATAA-AAATAA
*
9955495 ATAGATAAAATACAAAATAT
1 A-A-ATAAAATA-AAAATAA
9955515 AAA-AAAATAAAAAT-A
1 AAATAAAATAAAAATAA
9955530 AAATAAAATAAAA
1 AAATAAAATAAAA
9955543 CAAACGAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
15 3 0.07
16 14 0.34
17 7 0.17
18 2 0.05
19 3 0.07
20 11 0.27
21 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (17 bp):
AAATAAAATAAAAATAA
Found at i:9955818 original size:43 final size:43
Alignment explanation
Indices: 9955757--9955987 Score: 168
Period size: 46 Copynumber: 5.2 Consensus size: 43
9955747 GTTCAATGAC
* * * *
9955757 ATAAACAAAGCTCTTCTAATCAAATTGCTTAACAACTTTGAAA
1 ATAAATAAAGCTCTTCTAATCAAATGGCTCAATAACTTTGAAA
* * *
9955800 ATAAATAAAGCTCCTCTAATAAGAAATCAAAGGCTCAATGACTTTGAAA
1 ATAAATAAAGCTCTTCTAAT--CAAAT----GGCTCAATAACTTTGAAA
*
9955849 GATAAATAAAGCTCTTCTAATCAGA-GGCTCAATAACTTTGAAA
1 -ATAAATAAAGCTCTTCTAATCAAATGGCTCAATAACTTTGAAA
* * * *
9955892 ATAAATAAACAAAGCTCTTATAATCAGA-GGCTCAACAACTTTGAAC
1 ATAAAT----AAAGCTCTTCTAATCAAATGGCTCAATAACTTTGAAA
* * *
9955938 ATAAAT--GGCT-TATCTAATCAGA-GGCTCAACAACTTTGGAAA
1 ATAAATAAAGCTCT-TCTAATCAAATGGCTCAATAACTTT-GAAA
9955979 ATAAATAAA
1 ATAAATAAA
9955988 TTCTTTAAGC
Statistics
Matches: 155, Mismatches: 18, Indels: 30
0.76 0.09 0.15
Matches are distributed among these distances:
39 1 0.01
40 26 0.17
41 9 0.06
42 6 0.04
43 35 0.23
45 4 0.03
46 39 0.25
48 2 0.01
49 14 0.09
50 19 0.12
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (43 bp):
ATAAATAAAGCTCTTCTAATCAAATGGCTCAATAACTTTGAAA
Found at i:9955916 original size:46 final size:42
Alignment explanation
Indices: 9955824--9955987 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 42
9955814 TCTAATAAGA
* * *
9955824 AATCAAAGGCTCAATGACTTTGAAAGATAAATAAAGCTCTTCT
1 AATCAGAGGCTCAATAACTTTGAAA-ATAAATAAAGCTCTTAT
9955867 AATCAGAGGCTCAATAACTTTGAAAATAAATAAACAAAGCTCTTAT
1 AATCAGAGGCTCAATAACTTTGAAAATAAAT----AAAGCTCTTAT
* * * *
9955913 AATCAGAGGCTCAACAACTTTGAACATAAAT--GGCT-TATCT
1 AATCAGAGGCTCAATAACTTTGAAAATAAATAAAGCTCT-TAT
*
9955953 AATCAGAGGCTCAACAACTTTGGAAAATAAATAAA
1 AATCAGAGGCTCAATAACTTT-GAAAATAAATAAA
9955988 TTCTTTAAGC
Statistics
Matches: 104, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
39 1 0.01
40 26 0.25
41 9 0.09
42 6 0.06
43 23 0.22
46 39 0.38
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (42 bp):
AATCAGAGGCTCAATAACTTTGAAAATAAATAAAGCTCTTAT
Found at i:9956082 original size:41 final size:41
Alignment explanation
Indices: 9955912--9956196 Score: 206
Period size: 41 Copynumber: 7.0 Consensus size: 41
9955902 AAAGCTCTTA
* * * * **
9955912 TAATCAGAGGCTCAACAACTTTG-AACATAAATGGCTTATC
1 TAATCAGAGGCACCACAACTTTGAAAAATAAATTGCTCCTC
* * * *** * *
9955952 TAATCAGAGGCTCAACAACTTTGGAAAATAAATAAATTCTT
1 TAATCAGAGGCACCACAACTTTGAAAAATAAATTGCTCCTC
* * ** * *
9955993 TAAGCAGAAGCACCATGAC-TTCAAAAATAAA-TGCTCCTT
1 TAATCAGAGGCACCACAACTTTGAAAAATAAATTGCTCCTC
*
9956032 TAAAT-AGAGGCACCACAACTTTGAAAAGTAAATTGCTCCTC
1 T-AATCAGAGGCACCACAACTTTGAAAAATAAATTGCTCCTC
*
9956073 TAATCAGAGGCATCACAACTTTGGAAAAATAAATTGC-CCTC
1 TAATCAGAGGCACCACAACTTT-GAAAAATAAATTGCTCCTC
* * *
9956114 TAAAT-AGAGGCAATCACGACTTTAAAAAATAAATTGCTCCTC
1 T-AATCAGAGGC-ACCACAACTTTGAAAAATAAATTGCTCCTC
** * *
9956156 TAAAT-AGAGGCAACCATGACTTTGAAAAGTAAATTACTCCT
1 T-AATCAGAGGC-ACCACAACTTTGAAAAATAAATTGCTCCT
9956197 TAAAAATCAT
Statistics
Matches: 202, Mismatches: 34, Indels: 16
0.80 0.13 0.06
Matches are distributed among these distances:
39 16 0.08
40 48 0.24
41 72 0.36
42 66 0.33
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.26
Consensus pattern (41 bp):
TAATCAGAGGCACCACAACTTTGAAAAATAAATTGCTCCTC
Found at i:9956130 original size:42 final size:41
Alignment explanation
Indices: 9956015--9956200 Score: 218
Period size: 42 Copynumber: 4.5 Consensus size: 41
9956005 CCATGACTTC
*
9956015 AAAAATAAA-TGCTCCTTTAAATAGAGGCACCACAACTTTG
1 AAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTG
* *
9956055 AAAAGTAAATTGCTCCTCT-AATCAGAGGCATCACAACTTTGG
1 AAAAATAAATTGCTCCTCTAAAT-AGAGGCACCACAACTTT-G
* * *
9956097 AAAAATAAATTGC-CCTCTAAATAGAGGCAATCACGACTTTA
1 AAAAATAAATTGCTCCTCTAAATAGAGGC-ACCACAACTTTG
**
9956138 AAAAATAAATTGCTCCTCTAAATAGAGGCAACCATGACTTTG
1 AAAAATAAATTGCTCCTCTAAATAGAGGC-ACCACAACTTTG
* *
9956180 AAAAGTAAATTACTCCT-TAAA
1 AAAAATAAATTGCTCCTCTAAA
9956201 AATCATGTCC
Statistics
Matches: 129, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
40 11 0.09
41 52 0.40
42 66 0.51
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (41 bp):
AAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTG
Found at i:9956183 original size:83 final size:83
Alignment explanation
Indices: 9956004--9956200 Score: 228
Period size: 83 Copynumber: 2.4 Consensus size: 83
9955994 AAGCAGAAGC
* * * *
9956004 ACCATGAC-TTCAAAAATAAA-TGCTCCTTTAAATAGAGGCACCACAACTTTGAAAAGTAAATTG
1 ACCATGACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTAAAAAATAAATTG
9956067 CTCCTCTAATCAGAGGCA
66 CTCCTCTAATCAGAGGCA
* * *
9956085 TCACA--ACTTTGGAAAAATAAATTGC-CCTCTAAATAGAGGCAATCACGACTTTAAAAAATAAA
1 AC-CATGACTTT-GAAAAATAAATTGCTCCTCTAAATAGAGGC-ACCACAACTTTAAAAAATAAA
9956147 TTGCTCCTCTAAAT-AGAGGCA
63 TTGCTCCTCT-AATCAGAGGCA
* *
9956168 ACCATGACTTTGAAAAGTAAATTACTCCT-TAAA
1 ACCATGACTTTGAAAAATAAATTGCTCCTCTAAA
9956201 AATCATGTCC
Statistics
Matches: 97, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
80 2 0.02
81 3 0.03
82 27 0.28
83 54 0.56
84 11 0.11
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (83 bp):
ACCATGACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTAAAAAATAAATTG
CTCCTCTAATCAGAGGCA
Found at i:9956531 original size:44 final size:44
Alignment explanation
Indices: 9956481--9956574 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 44
9956471 TCAAAAGTTC
* *
9956481 TCATTTGGCAAACTTGGA-ATTCATATCCAAAAA-TCTAAAGCTTT
1 TCATTTGG-AAACTTAGAGATTCACATCCAAAAATTC-AAAGCTTT
*
9956525 TCATTT-GAAATTTAGAGATTCACATCCAAAAATTCAAAGCTTT
1 TCATTTGGAAACTTAGAGATTCACATCCAAAAATTCAAAGCTTT
9956568 TCATTTG
1 TCATTTG
9956575 AGTTCAAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
42 7 0.16
43 29 0.66
44 8 0.18
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (44 bp):
TCATTTGGAAACTTAGAGATTCACATCCAAAAATTCAAAGCTTT
Found at i:9962166 original size:58 final size:59
Alignment explanation
Indices: 9962011--9962166 Score: 196
Period size: 57 Copynumber: 2.7 Consensus size: 59
9962001 TTTTGTACAG
** *
9962011 GAAAAATTGATACTTTCAACTTTTTTTC--AAAATATTTTTTAGAAACTTTAATTTCTA
1 GAAAAATTGATACTTTCAACTTTTTCCCAAAAAATATTTTTTAAAAACTTTAATTTCTA
* * *
9962068 GAAAAATTGATACTTTCAACTTTTTCCCAAAAAAGATTTTTGAAAAAC-TT-ATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCCCAAAAAATATTTTTTAAAAACTTTAATTTCT-A
* *
9962126 GGAAAATTGATACCTTCAA-TTTTTCCCAAAAAATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTTCCCAAAAAATATTTTTT
9962167 TGAATTTTAT
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
57 51 0.59
58 20 0.23
59 15 0.17
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.43
Consensus pattern (59 bp):
GAAAAATTGATACTTTCAACTTTTTCCCAAAAAATATTTTTTAAAAACTTTAATTTCTA
Found at i:9962237 original size:6 final size:5
Alignment explanation
Indices: 9962183--9962242 Score: 54
Period size: 5 Copynumber: 11.8 Consensus size: 5
9962173 TTATTTAAAG
9962183 AAAAT AAAAT -AAA- AAAAT AAAAT AAAAAT GAAAAT AAAAAT AAAGA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT -AAAAT AAA-AT
*
9962229 AAACT AAAAT AAAA
1 AAAAT AAAAT AAAA
9962243 AGTATTAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
4 6 0.13
5 24 0.52
6 16 0.35
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:9962243 original size:6 final size:6
Alignment explanation
Indices: 9962183--9962226 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
9962173 TTATTTAAAG
* *
9962183 AAAAT- AAAATA AAAAAA TAAAATA AAAATG AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA -AAAATA AAAATA AAAATA AAAATA AA
9962227 GAAAACTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
5 5 0.15
6 23 0.70
7 5 0.15
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:9963151 original size:8 final size:8
Alignment explanation
Indices: 9963120--9963254 Score: 54
Period size: 8 Copynumber: 17.2 Consensus size: 8
9963110 AAAATATATT
9963120 AATAGATA
1 AATAGATA
9963128 AAT-GAT-
1 AATAGATA
9963134 AATATG-TA
1 AATA-GATA
9963142 AATAGATA
1 AATAGATA
9963150 AATA-ATAA
1 AATAGAT-A
*
9963158 TAATAGGTA
1 -AATAGATA
9963167 AAT-GATA
1 AATAGATA
*
9963174 ATATATAATA
1 A-ATA-GATA
* *
9963184 GATATATA
1 AATAGATA
*
9963192 AACAGATA
1 AATAGATA
*
9963200 AGTA-ATA
1 AATAGATA
* *
9963207 AAAAAATA
1 AATAGATA
*
9963215 TAGTA-AT-
1 -AATAGATA
9963222 AATAGATA
1 AATAGATA
*
9963230 AATAAAT-
1 AATAGATA
*
9963237 AATAAATA
1 AATAGATA
9963245 AATAGATA
1 AATAGATA
9963253 AA
1 AA
9963255 ATACAAAAAT
Statistics
Matches: 95, Mismatches: 17, Indels: 30
0.67 0.12 0.21
Matches are distributed among these distances:
6 6 0.06
7 25 0.26
8 50 0.53
9 10 0.11
10 4 0.04
ACGTcount: A:0.61, C:0.01, G:0.10, T:0.28
Consensus pattern (8 bp):
AATAGATA
Found at i:9963162 original size:39 final size:38
Alignment explanation
Indices: 9963111--9963192 Score: 112
Period size: 39 Copynumber: 2.2 Consensus size: 38
9963101 ATAAAATAAA
* *
9963111 AAAT-ATATTAATAGATAAATGATAATATGTAAATAGAT
1 AAATAATAATAATAGATAAATGATAATATAT-AATAGAT
*
9963149 AAATAATAATAATAGGTAAATGATAATATATAATAGAT
1 AAATAATAATAATAGATAAATGATAATATATAATAGAT
*
9963187 ATATAA
1 AAATAA
9963193 ACAGATAAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 16 0.41
39 23 0.59
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (38 bp):
AAATAATAATAATAGATAAATGATAATATATAATAGAT
Found at i:9963168 original size:17 final size:17
Alignment explanation
Indices: 9963142--9963254 Score: 65
Period size: 17 Copynumber: 6.6 Consensus size: 17
9963132 ATAATATGTA
9963142 AATAGATAAATAATAAT
1 AATAGATAAATAATAAT
* *
9963159 AATAGGTAAATGATAAT
1 AATAGATAAATAATAAT
*
9963176 ATATA-ATAGAT-AT-AT
1 A-ATAGATAAATAATAAT
* *
9963191 AAACAGATAAGTAATAA-
1 -AATAGATAAATAATAAT
* *
9963208 AA-AAATATAGTAATAAT
1 AATAGATA-AATAATAAT
*
9963225 AGATAAATAAATAATAAAT
1 A-ATAGATAAATAAT-AAT
9963244 AAATAGATAAA
1 -AATAGATAAA
9963255 ATACAAAAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
15 8 0.11
16 17 0.23
17 23 0.31
18 10 0.13
19 16 0.21
20 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.27
Consensus pattern (17 bp):
AATAGATAAATAATAAT
Found at i:9963233 original size:11 final size:11
Alignment explanation
Indices: 9963156--9963254 Score: 64
Period size: 11 Copynumber: 9.2 Consensus size: 11
9963146 GATAAATAAT
*
9963156 AATAATAGGTA
1 AATAATAGATA
*
9963167 AATGATA-ATA
1 AATAATAGATA
*
9963177 TATAATAGATA
1 AATAATAGATA
* *
9963188 TATAAACAGATA
1 AAT-AATAGATA
* * *
9963200 AGTAATAAAAA
1 AATAATAGATA
9963211 AAT-ATAG-T-
1 AATAATAGATA
9963219 AATAATAGATA
1 AATAATAGATA
9963230 AATAAATA-ATA
1 AAT-AATAGATA
9963241 AATAAATAGATA
1 AAT-AATAGATA
9963253 AA
1 AA
9963255 ATACAAAAAT
Statistics
Matches: 68, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
8 3 0.04
9 4 0.06
10 11 0.16
11 33 0.49
12 17 0.25
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.27
Consensus pattern (11 bp):
AATAATAGATA
Found at i:9963239 original size:15 final size:15
Alignment explanation
Indices: 9963219--9963253 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9963209 AAAATATAGT
*
9963219 AATAATAGATAAATA
1 AATAATAAATAAATA
9963234 AATAATAAATAAATA
1 AATAATAAATAAATA
*
9963249 GATAA
1 AATAA
9963254 AATACAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AATAATAAATAAATA
Found at i:9963245 original size:38 final size:38
Alignment explanation
Indices: 9963142--9963246 Score: 90
Period size: 38 Copynumber: 2.7 Consensus size: 38
9963132 ATAATATGTA
*
9963142 AATAGATAAAT-AATAATAATAGGTAAATGATAATATATAAT
1 AATAGATAAATAAATAATAA-A--TAAA-GAAAATATATAAT
* * *
9963183 AGATATATAAACAGATAAGT-AATAAA-AAAATATAGTAAT
1 A-ATAGATAAATAAATAA-TAAATAAAGAAAATATA-TAAT
9963222 AATAGATAAATAAATAATAAATAAA
1 AATAGATAAATAAATAATAAATAAA
9963247 TAGATAAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
37 1 0.02
38 26 0.50
39 5 0.10
40 4 0.08
41 1 0.02
42 9 0.17
43 5 0.10
44 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.28
Consensus pattern (38 bp):
AATAGATAAATAAATAATAAATAAAGAAAATATATAAT
Done.