Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 43 of 105
Found at i:8133108 original size:12 final size:12
Alignment explanation
Indices: 8133093--8133183 Score: 57
Period size: 12 Copynumber: 7.8 Consensus size: 12
8133083 TAGGTTTGGT
8133093 TTTAGGGTTAGG
1 TTTAGGGTTAGG
8133105 TTTAGGGTT-GG
1 TTTAGGGTTAGG
* * * *
8133116 -GTCGGTTTGAAG
1 TTTAGGGTT-AGG
*
8133128 TCTA-GGTTAGGG
1 TTTAGGGTTA-GG
8133140 TTTAGGGTT-GG
1 TTTAGGGTTAGG
*
8133151 TTTGGGGTCTAGG
1 TTTAGGGT-TAGG
8133164 -TTAGGGTTAGG
1 TTTAGGGTTAGG
*
8133175 GTTAGGGTT
1 TTTAGGGTT
8133184 TAGGGTTTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
10 5 0.08
11 16 0.27
12 32 0.53
13 7 0.12
ACGTcount: A:0.13, C:0.03, G:0.44, T:0.40
Consensus pattern (12 bp):
TTTAGGGTTAGG
Found at i:8133146 original size:7 final size:7
Alignment explanation
Indices: 8133134--8133219 Score: 55
Period size: 6 Copynumber: 13.3 Consensus size: 7
8133124 GAAGTCTAGG
8133134 TTAGGGT
1 TTAGGGT
8133141 TTAGGG-
1 TTAGGGT
8133147 TT--GGT
1 TTAGGGT
*
8133152 TTGGGGT
1 TTAGGGT
*
8133159 CTA-GG-
1 TTAGGGT
8133164 TTAGGG-
1 TTAGGGT
8133170 TTAGGG-
1 TTAGGGT
8133176 TTAGGGT
1 TTAGGGT
8133183 TTAGGGT
1 TTAGGGT
**
8133190 TTAAGTTT
1 TT-AGGGT
8133198 TTA-GGT
1 TTAGGGT
8133204 TTAGGGCT
1 TTAGGG-T
8133212 TT-GGGT
1 TTAGGGT
8133218 TT
1 TT
8133220 TAAATGTGGT
Statistics
Matches: 64, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
4 2 0.03
5 4 0.06
6 25 0.39
7 25 0.39
8 8 0.12
ACGTcount: A:0.13, C:0.02, G:0.41, T:0.44
Consensus pattern (7 bp):
TTAGGGT
Found at i:8133161 original size:30 final size:29
Alignment explanation
Indices: 8133075--8133177 Score: 111
Period size: 30 Copynumber: 3.5 Consensus size: 29
8133065 TGAGGGAAGT
* *
8133075 TTAGGGTCTAGGTTTGGTTTTAGGGT-TAGG
1 TTAGGGT-TAGGGTTGG-TTTGGGGTCTAGG
* **
8133105 TTTAGGGTT-GGGTCGGTTTGAAGTCTAGG
1 -TTAGGGTTAGGGTTGGTTTGGGGTCTAGG
8133134 TTAGGGTTTAGGGTTGGTTTGGGGTCTAGG
1 TTAGGG-TTAGGGTTGGTTTGGGGTCTAGG
8133164 TTAGGGTTAGGGTT
1 TTAGGGTTAGGGTT
8133178 AGGGTTTAGG
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
28 11 0.18
29 19 0.31
30 24 0.39
31 7 0.11
ACGTcount: A:0.13, C:0.04, G:0.43, T:0.41
Consensus pattern (29 bp):
TTAGGGTTAGGGTTGGTTTGGGGTCTAGG
Found at i:8133173 original size:6 final size:6
Alignment explanation
Indices: 8133132--8133190 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
8133122 TTGAAGTCTA
* *
8133132 GGTTAG GGTTTAG GGTT-G GTTTGG GGTCTA- GGTTAG GGTTAG GGTTAG
1 GGTTAG GG-TTAG GGTTAG GGTTAG GGT-TAG GGTTAG GGTTAG GGTTAG
8133180 GGTTTAG GGTT
1 GG-TTAG GGTT
8133191 TAAGTTTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
5 6 0.13
6 26 0.58
7 13 0.29
ACGTcount: A:0.12, C:0.02, G:0.47, T:0.39
Consensus pattern (6 bp):
GGTTAG
Found at i:8133761 original size:21 final size:21
Alignment explanation
Indices: 8133716--8133791 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
8133706 AAATTTGATC
* **
8133716 AACAAAGTTAAAATTAGTC-A
1 AACAAAGTCAAAATTACACAA
*
8133736 AACAAAGTCAAAATTGCACAA
1 AACAAAGTCAAAATTACACAA
8133757 AACAAAGTCAAAATTACACAA
1 AACAAAGTCAAAATTACACAA
**
8133778 AACTTAGTCAAAAT
1 AACAAAGTCAAAAT
8133792 GGATAAAACT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 15 0.31
21 33 0.69
ACGTcount: A:0.57, C:0.16, G:0.08, T:0.20
Consensus pattern (21 bp):
AACAAAGTCAAAATTACACAA
Found at i:8135093 original size:3 final size:3
Alignment explanation
Indices: 8135085--8135122 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
8135075 AAAGTTATGC
8135085 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
8135123 GATGATGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:8135127 original size:3 final size:3
Alignment explanation
Indices: 8135121--8135152 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8135111 AATAATAATA
8135121 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
8135153 TTTAAAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:8137683 original size:19 final size:19
Alignment explanation
Indices: 8137659--8137698 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
8137649 AATACCACTA
8137659 AAGGGTATTTTAGTAATTT
1 AAGGGTATTTTAGTAATTT
*
8137678 AAGGGTATTTTAGTGATTT
1 AAGGGTATTTTAGTAATTT
8137697 AA
1 AA
8137699 CACCTTTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.45
Consensus pattern (19 bp):
AAGGGTATTTTAGTAATTT
Found at i:8138336 original size:9 final size:9
Alignment explanation
Indices: 8138322--8138355 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
8138312 ATAGTTGTTT
8138322 TTCTTTTTA
1 TTCTTTTTA
*
8138331 TTCTTTTTG
1 TTCTTTTTA
8138340 TT-TTTTTA
1 TTCTTTTTA
8138348 TTCTTTTT
1 TTCTTTTT
8138356 CTTTGCTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.06, C:0.09, G:0.03, T:0.82
Consensus pattern (9 bp):
TTCTTTTTA
Found at i:8141556 original size:37 final size:36
Alignment explanation
Indices: 8141515--8141787 Score: 124
Period size: 37 Copynumber: 7.6 Consensus size: 36
8141505 TGTGCATTAA
*
8141515 ATGGAATGCATGTATTATCTATTAATATATGTATGAG
1 ATGGAATACATGTATTATCTATT-ATATATGTATGAG
* *
8141552 ATGGAATACATGTA-T-T-TA-GATTTATG--TGAG
1 ATGGAATACATGTATTATCTATTATATATGTATGAG
* * * * * * *
8141582 ATGAAATGCATGTATTGTCTATTAAGATGTGTATAAA
1 ATGGAATACATGTATTATCTATT-ATATATGTATGAG
* * *
8141619 ATGGAATGCATGTA-TGTCTATTAT-GATGTACATGAG
1 ATGGAATACATGTATTATCTATTATATATGT--ATGAG
* *
8141655 ATGGATTACATCTATTATCTATTATGATATGCT-TGAG
1 ATGGAATACATGTATTATCTATTAT-ATATG-TATGAG
* * * *
8141692 ATAGACA-ACATGTATTATCTATT-TGATGTGCATGAA
1 ATGGA-ATACATGTATTATCTATTAT-ATATGTATGAG
* *
8141728 AT-GAGCTACATGTATTAT-T-TTTTATGATGTACATGAG
1 ATGGA-ATACATGTATTATCTATTATAT-ATGT--ATGAG
** *
8141765 ATGGAATGTATGTACTATCTATT
1 ATGGAATACATGTATTATCTATT
8141788 TAGATGTGGG
Statistics
Matches: 176, Mismatches: 37, Indels: 44
0.68 0.14 0.17
Matches are distributed among these distances:
30 16 0.09
31 1 0.01
32 7 0.04
33 2 0.01
34 9 0.05
35 12 0.07
36 45 0.26
37 75 0.43
38 3 0.02
39 5 0.03
40 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (36 bp):
ATGGAATACATGTATTATCTATTATATATGTATGAG
Found at i:8141765 original size:73 final size:73
Alignment explanation
Indices: 8141627--8141766 Score: 158
Period size: 73 Copynumber: 1.9 Consensus size: 73
8141617 AAATGGAATG
* * * * *
8141627 CATGTATGTCTATTATGATGTACATGAGATGGATTACATCTATTATCTATTATGATATGCTTGAG
1 CATGTATATCTATTATGATGTACATGAAATGGACTACATCTATTATCTATTATGATATACATGAG
8141692 ATAGACAA
66 ATAGACAA
* * * * *
8141700 CATGTATTATCTATT-TGATGTGCATGAAAT-GAGCTACATGTATTATTTTTTATGATGTACATG
1 CATGTA-TATCTATTATGATGTACATGAAATGGA-CTACATCTATTATCTATTATGATATACATG
8141763 AGAT
64 AGAT
8141767 GGAATGTATG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
72 2 0.04
73 46 0.84
74 7 0.13
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (73 bp):
CATGTATATCTATTATGATGTACATGAAATGGACTACATCTATTATCTATTATGATATACATGAG
ATAGACAA
Found at i:8143779 original size:30 final size:31
Alignment explanation
Indices: 8143734--8143794 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
8143724 TAATTGATTA
*
8143734 AATTTTGATTATTTGATTATTGTTTTTTATTG
1 AATTTTGA-TATTTGATTATTGTATTTTATTG
8143766 AATTTTG-TATTTGATTATTGTATTTTATT
1 AATTTTGATATTTGATTATTGTATTTTATT
8143795 AGATTGTGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 21 0.75
32 7 0.25
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (31 bp):
AATTTTGATATTTGATTATTGTATTTTATTG
Found at i:8147665 original size:14 final size:15
Alignment explanation
Indices: 8147638--8147674 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
8147628 CTGTTCCCTC
8147638 TCTCTCTTCTCCTTTT
1 TCTCTC-TCTCCTTTT
8147654 TCTCTCTC-CCTTTT
1 TCTCTCTCTCCTTTT
8147668 TCTCTCT
1 TCTCTCT
8147675 AGAAAAGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 13 0.62
15 2 0.10
16 6 0.29
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (15 bp):
TCTCTCTCTCCTTTT
Found at i:8148145 original size:7 final size:6
Alignment explanation
Indices: 8148111--8148160 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
8148101 CAACCATTTG
** *
8148111 ATTTTT -TTTTT ATTTTT ACATTT ATTTTA ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
8148158 ATT
1 ATT
8148161 AACAAAAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (6 bp):
ATTTTT
Found at i:8148481 original size:43 final size:43
Alignment explanation
Indices: 8148433--8148534 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 43
8148423 AGGCTTAGCA
* * *
8148433 ACTTTTGAGAAATAAAAAAG-CTCCTCTAAGTATAGACTCAATG
1 ACTTTTGA-AAATAAAAAAGCCTACTCTAAATAGAGACTCAATG
* *
8148476 ACTTTTGAAAAGTAAACAAGCCTACTCTAAATAGAGGCTCAATG
1 ACTTTTGAAAA-TAAAAAAGCCTACTCTAAATAGAGACTCAATG
8148520 AC-TTTGAAAAATAAA
1 ACTTTTG-AAAATAAA
8148535 TAAGGCTTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 3 0.06
43 23 0.45
44 25 0.49
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (43 bp):
ACTTTTGAAAATAAAAAAGCCTACTCTAAATAGAGACTCAATG
Found at i:8149635 original size:16 final size:17
Alignment explanation
Indices: 8149609--8149647 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
8149599 TTGAGTCTTC
8149609 TTTTTTCATTTTATTCA
1 TTTTTTCATTTTATTCA
* *
8149626 TTTTTT-ATTTTTTTTA
1 TTTTTTCATTTTATTCA
8149642 TTTTTT
1 TTTTTT
8149648 TAAGCATAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTCATTTTATTCA
Found at i:8152370 original size:288 final size:288
Alignment explanation
Indices: 8151854--8152404 Score: 714
Period size: 288 Copynumber: 1.9 Consensus size: 288
8151844 TTAGAACGGA
* * ** * * *
8151854 TGGCACCAATATTGAAGGATTTTGACAAGTACTGCTTAATTTTATCAAAAGCCTTTTGGCATTTC
1 TGGCACCAACATTGAAGGATTTTGAAAAGTACTAATTAATTTTATCAAAAACCTATTGGCATTCC
* * * * *
8151919 GCATTCTATTCTCCAAGATTATTCTTAGGAAGAAGCTTAAAATGGGATCACACTTATAGGTAAGC
66 GCATTCCATTCTCCAAGATTATTCTTAGAAAAAAGCTTAAAATAGGATCACACTTATAAGTAAGC
* * *
8151984 TAAAAAATGAACTGAAAAATGTAGTTTAGTCTACCCAGAAAGCTTCAAACTTCTTTCAATGTGCT
131 TAAAAAATAAACTGAAAAATGTAGTTCAATCTACCCAGAAAGCTTCAAACTTCTTTCAATGTGCT
** * * * *
8152049 TGGAGGTGACAAATTTTGAATAGCTCTTATTTTGTCAAAATCGACTTCAATCCCTCTTTCATTGA
196 TAAAGGTAACAAATTATGAATAGCTCTTATTTTGTCAAAATCAACTTCAATCCCTCTTTCACTGA
8152114 CCATAATTAAAGGTCTCCCTAAAACAGG
261 CCATAATTAAAGGTCTCCCTAAAACAGG
8152142 TGGCACCAACATTGAAGGA-TTTGAAAAGTACTAATTAATTTTATCAAAAACCTATTGGCATTCC
1 TGGCACCAACATTGAAGGATTTTGAAAAGTACTAATTAATTTTATCAAAAACCTATTGGCATTCC
* * * *
8152206 TCATTCCATTCTCTAGGATTATTCTT-GCAAAAAAGCTTAAAAATAGGATCACATTTATAAGTAA
66 GCATTCCATTCTCCAAGATTATTCTTAG-AAAAAAGCTT-AAAATAGGATCACACTTATAAGTAA
* * * * * * **
8152270 GCTGAGAAATAAACTGAGAAATGTAGTTCAATTTACCCAGAAGGCCTT-AAACTTTTTTTGATGT
129 GCTAAAAAATAAACTGAAAAATGTAGTTCAATCTACCCAGAAAG-CTTCAAACTTCTTTCAATGT
* * *
8152334 GCTTAAAGGTAACTAATTATGAATAGCT-TGTATTTTGTTAAAATCAACTTCAATCCCTCTTTTA
193 GCTTAAAGGTAACAAATTATGAATAGCTCT-TATTTTGTCAAAATCAACTTCAATCCCTCTTTCA
8152398 CTGACCA
257 CTGACCA
8152405 CGAAGCCTAT
Statistics
Matches: 223, Mismatches: 36, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
286 1 0.00
287 70 0.31
288 149 0.67
289 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (288 bp):
TGGCACCAACATTGAAGGATTTTGAAAAGTACTAATTAATTTTATCAAAAACCTATTGGCATTCC
GCATTCCATTCTCCAAGATTATTCTTAGAAAAAAGCTTAAAATAGGATCACACTTATAAGTAAGC
TAAAAAATAAACTGAAAAATGTAGTTCAATCTACCCAGAAAGCTTCAAACTTCTTTCAATGTGCT
TAAAGGTAACAAATTATGAATAGCTCTTATTTTGTCAAAATCAACTTCAATCCCTCTTTCACTGA
CCATAATTAAAGGTCTCCCTAAAACAGG
Found at i:8161318 original size:44 final size:44
Alignment explanation
Indices: 8161270--8161354 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
8161260 AATATCTCCA
* * * *
8161270 GGCATAATTTTCAAGACCTTCGGGCATGA-TCTCTAAGACCTTTG
1 GGCATAATCTTAAAAACCTTCGGGCATAATTCT-TAAGACCTTTG
*
8161314 GGCATAGTCTTAAAAACCTTCGGGCATAATTCTTAAGACCT
1 GGCATAATCTTAAAAACCTTCGGGCATAATTCTTAAGACCT
8161355 CCAGACATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 32 0.91
45 3 0.09
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
GGCATAATCTTAAAAACCTTCGGGCATAATTCTTAAGACCTTTG
Found at i:8161389 original size:22 final size:21
Alignment explanation
Indices: 8161265--8161390 Score: 72
Period size: 22 Copynumber: 5.8 Consensus size: 21
8161255 TTCCAAATAT
8161265 CTCCAGGCATAATTTTCAAGAC
1 CTCCAGGCATAATTTT-AAGAC
* * * *
8161287 CTTCGGGCATGATCTCTAAGAC
1 CTCCAGGCATAAT-TTTAAGAC
*** * * *
8161309 CTTTGGGCATAGTCTTAAAAAC
1 CTCCAGGCATAAT-TTTAAGAC
* *
8161331 CTTCGGGCATAATTCTTAAGAC
1 CTCCAGGCATAATT-TTAAGAC
* *
8161353 CTCCAGACATGATTTGTAAGAC
1 CTCCAGGCATAATTT-TAAGAC
*
8161375 CTCTAGGCATAATTTT
1 CTCCAGGCATAATTTT
8161391 TAAAAGCTTC
Statistics
Matches: 80, Mismatches: 21, Indels: 7
0.74 0.19 0.06
Matches are distributed among these distances:
21 3 0.04
22 75 0.94
23 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (21 bp):
CTCCAGGCATAATTTTAAGAC
Found at i:8162284 original size:72 final size:73
Alignment explanation
Indices: 8162187--8162325 Score: 219
Period size: 72 Copynumber: 1.9 Consensus size: 73
8162177 TAATATGAGC
*
8162187 CTTTTATATTTTTCAAAAGTTGTTAAGCCTCTATTGAGAAGAGCC-TTTATATTTTCCAAAAGTT
1 CTTTTATATATTTCAAAAGTTGTTAAGCCTCTATTGAGAAGAGCCTTTTATATTTTCC-AAAGTT
8162251 GTTGAGCAG
65 GTTGAGCAG
* * *
8162260 CTTTT-TATATTTCAAAAGTTGTTAAGCCTCTGTTGAGATGAGCCTTTTATATTTTTCAAAGTTG
1 CTTTTATATATTTCAAAAGTTGTTAAGCCTCTATTGAGAAGAGCCTTTTATATTTTCCAAAGTTG
8162324 TT
66 TT
8162326 AAGCCTCTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
72 45 0.74
73 16 0.26
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.45
Consensus pattern (73 bp):
CTTTTATATATTTCAAAAGTTGTTAAGCCTCTATTGAGAAGAGCCTTTTATATTTTCCAAAGTTG
TTGAGCAG
Found at i:8162347 original size:43 final size:43
Alignment explanation
Indices: 8162260--8162351 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
8162250 TGTTGAGCAG
** * **
8162260 CTTTTTATATTTCAAAAGTTGTTAAGCCTCTGTTGAGATGAGC
1 CTTTTTATATTTCAAAAGTTGTTAAGCCTCTAATGAAAAAAGC
*
8162303 CTTTTATATTTTTC-AAAGTTGTTAAGCCTCTAATGAAAAAAGC
1 CTTTT-TATATTTCAAAAGTTGTTAAGCCTCTAATGAAAAAAGC
8162346 CTTTTT
1 CTTTTT
8162352 TTTTCTACTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 1 0.02
43 34 0.81
44 7 0.17
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.43
Consensus pattern (43 bp):
CTTTTTATATTTCAAAAGTTGTTAAGCCTCTAATGAAAAAAGC
Found at i:8162712 original size:18 final size:18
Alignment explanation
Indices: 8162689--8162737 Score: 73
Period size: 17 Copynumber: 2.8 Consensus size: 18
8162679 AAATATTTGA
8162689 AATCTTTTGCAAATCTTG
1 AATCTTTTGCAAATCTTG
* *
8162707 AATCTTTGGGAAA-CTTG
1 AATCTTTTGCAAATCTTG
8162724 AATCTTTTGCAAAT
1 AATCTTTTGCAAAT
8162738 ATTTAAATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (18 bp):
AATCTTTTGCAAATCTTG
Found at i:8162910 original size:93 final size:93
Alignment explanation
Indices: 8162803--8162988 Score: 282
Period size: 93 Copynumber: 2.0 Consensus size: 93
8162793 ACAAATCTTG
* * ** *
8162803 AATTTTTTGCAAATCTTTACAATTGCAAGACTTTGAAATTCTTTGCGAACCTTTAAATTGTTATC
1 AATTTTTTGCAAATCTTTACAATTGCAAGACTTTGAAATTCTTTGCAAACCTTGAAATCATTACC
*
8162868 TTGAATATCTTACAAATCTTTGAATTTT
66 TTGAATACCTTACAAATCTTTGAATTTT
* *
8162896 AATTTTTTGCAAATCTTTACAATTGCGAGACTTTGAAATTCTTTGCAAACCTTGGAATCATTACC
1 AATTTTTTGCAAATCTTTACAATTGCAAGACTTTGAAATTCTTTGCAAACCTTGAAATCATTACC
* *
8162961 TTTAATCCCTTACAAATCTTTGAATTTT
66 TTGAATACCTTACAAATCTTTGAATTTT
8162989 TTGCAAATCT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 83 1.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.44
Consensus pattern (93 bp):
AATTTTTTGCAAATCTTTACAATTGCAAGACTTTGAAATTCTTTGCAAACCTTGAAATCATTACC
TTGAATACCTTACAAATCTTTGAATTTT
Found at i:8163051 original size:24 final size:26
Alignment explanation
Indices: 8163013--8163061 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
8163003 ATGTTTTCGA
*
8163013 AATCTTTATATCTTTTTT-AATCTTG
1 AATCTTGATATCTTTTTTAAATCTTG
8163038 AATCTTGA-ATCTTTTTTAAATCTT
1 AATCTTGATATCTTTTTTAAATCTT
8163062 TGATTTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.27, C:0.12, G:0.04, T:0.57
Consensus pattern (26 bp):
AATCTTGATATCTTTTTTAAATCTTG
Found at i:8163061 original size:18 final size:19
Alignment explanation
Indices: 8163038--8163085 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
8163028 TTTAATCTTG
8163038 AATCTTGAATCTTTTT-TA
1 AATCTTGAATCTTTTTGTA
8163056 AATCTTTG-AT-TTTTTGTA
1 AATC-TTGAATCTTTTTGTA
8163074 AATCTTGAATCT
1 AATCTTGAATCT
8163086 CTTGCGAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 8 0.31
18 14 0.54
19 4 0.15
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.54
Consensus pattern (19 bp):
AATCTTGAATCTTTTTGTA
Found at i:8163153 original size:19 final size:17
Alignment explanation
Indices: 8163128--8163206 Score: 86
Period size: 18 Copynumber: 4.4 Consensus size: 17
8163118 CCTAAACTCT
8163128 TTGAATTCTTTACAAATC
1 TTGAATT-TTTACAAATC
* *
8163146 TTGAAATTTTTTGCGAATC
1 TTG-AA-TTTTTACAAATC
*
8163165 TTGAATATTTTCCAAATC
1 TTGAAT-TTTTACAAATC
8163183 TTTGAATTTTTACAAATC
1 -TTGAATTTTTACAAATC
8163201 TTGAAT
1 TTGAAT
8163207 CTCTCGCGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
17 7 0.13
18 24 0.46
19 19 0.37
20 2 0.04
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.47
Consensus pattern (17 bp):
TTGAATTTTTACAAATC
Found at i:8163193 original size:123 final size:124
Alignment explanation
Indices: 8163037--8163281 Score: 375
Period size: 123 Copynumber: 2.0 Consensus size: 124
8163027 TTTTAATCTT
* ** * ** * *
8163037 GAATCTTGAATCTTTTTTAAATCTTTGATTTTTTGTAAATCTTGAATCTCTTGCGAACCTTTGAA
1 GAATCTTGAATATTTTCCAAATCTTTGAATTTTTACAAATCTTGAATCTCTCGCGAACCTTTCAA
*
8163102 TCATTATCTTGAATCCCCTA-AACTCTTTGAATTCTTTACAAATCTTGAAATTTTTTGC
66 TCATTATCTTGAATCCCCTACAAATCTTTGAATTCTTTACAAATCTTGAAATTTTTTGC
8163160 GAATCTTGAATATTTTCCAAATCTTTGAATTTTTACAAATCTTGAATCTCTCGCGAACCTTTCAA
1 GAATCTTGAATATTTTCCAAATCTTTGAATTTTTACAAATCTTGAATCTCTCGCGAACCTTTCAA
* * *
8163225 TCGTTATCTTGAATCCCCTACAAATCTTTGAGTTCTTTGCAAATCTTGAAATTTTTT
66 TCATTATCTTGAATCCCCTACAAATCTTTGAATTCTTTACAAATCTTGAAATTTTTT
8163282 ACAATTTTTT
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
123 76 0.70
124 33 0.30
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.44
Consensus pattern (124 bp):
GAATCTTGAATATTTTCCAAATCTTTGAATTTTTACAAATCTTGAATCTCTCGCGAACCTTTCAA
TCATTATCTTGAATCCCCTACAAATCTTTGAATTCTTTACAAATCTTGAAATTTTTTGC
Found at i:8163305 original size:123 final size:121
Alignment explanation
Indices: 8163037--8163320 Score: 365
Period size: 123 Copynumber: 2.3 Consensus size: 121
8163027 TTTTAATCTT
* ** * *
8163037 GAATCTTGAATCTTTTTTAAATCTTTGATTTTTTGTAAATCTTGAATCTCTTGCGAACCTTTGAA
1 GAATCTTGAATC--TTTTAAATCTTTGAATTTTTACAAATCTTGAATCTCTCGCGAACCTTTCAA
* *
8163102 TCATTATCTTGAATCCCCTAAACTCTTTGAATTCTTTACAAATCTTGAAATTTTTTGC
64 TCATTATCTTGAATCCCCTAAAATCTTTGAATTCTTTACAAATCTTGAAATTTTTTAC
*
8163160 GAATCTTGAATATTTTCCAAATCTTTGAATTTTTACAAATCTTGAATCTCTCGCGAACCTTTCAA
1 GAATCTTGAATCTTTT--AAATCTTTGAATTTTTACAAATCTTGAATCTCTCGCGAACCTTTCAA
* * *
8163225 TCGTTATCTTGAATCCCCTACAAATCTTTGAGTTCTTTGCAAATCTTGAAATTTTTTAC
64 TCATTATCTTGAATCCCCTA-AAATCTTTGAATTCTTTACAAATCTTGAAATTTTTTAC
* *
8163284 -AATTTTTTAATCTTTGTAAATC-TTGAATCTTTTACAA
1 GAA-TCTTGAATCTTT-TAAATCTTTGAAT-TTTTACAA
8163321 GTATTTAAAT
Statistics
Matches: 141, Mismatches: 14, Indels: 12
0.84 0.08 0.07
Matches are distributed among these distances:
121 4 0.03
122 6 0.04
123 87 0.62
124 43 0.30
125 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.09, T:0.45
Consensus pattern (121 bp):
GAATCTTGAATCTTTTAAATCTTTGAATTTTTACAAATCTTGAATCTCTCGCGAACCTTTCAATC
ATTATCTTGAATCCCCTAAAATCTTTGAATTCTTTACAAATCTTGAAATTTTTTAC
Found at i:8163328 original size:35 final size:36
Alignment explanation
Indices: 8163258--8163328 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
8163248 ATCTTTGAGT
* * *
8163258 TCTTTGCAAATCTTGAAATTTTTTACAATTTTTTAA
1 TCTTTGCAAATCTTGAAATCTTTTACAAGTATTTAA
*
8163294 TCTTTGTAAATCTTG-AATCTTTTACAAGTATTTAA
1 TCTTTGCAAATCTTGAAATCTTTTACAAGTATTTAA
8163329 ATTTTTTGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 17 0.55
36 14 0.45
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (36 bp):
TCTTTGCAAATCTTGAAATCTTTTACAAGTATTTAA
Found at i:8163335 original size:55 final size:55
Alignment explanation
Indices: 8163264--8163389 Score: 146
Period size: 55 Copynumber: 2.3 Consensus size: 55
8163254 GAGTTCTTTG
* * * **
8163264 CAAATCTTGAAATTTTTT-ACAATTTTTTAATCTTTGTAAATCTTGAATCTTTTA
1 CAAATATTTAAATTTTTTGTCAATTTTTTAATCTTTACAAATCTTGAATCTTTTA
* * * * *
8163318 CAAGTATTTAAATTTTTTGTGAATTTTTTAATCTTTACGAATCTTGAATTTTTTG
1 CAAATATTTAAATTTTTTGTCAATTTTTTAATCTTTACAAATCTTGAATCTTTTA
*
8163373 CAAATCTTTAAATTTTT
1 CAAATATTTAAATTTTT
8163390 GCAAATCTTG
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
54 15 0.25
55 44 0.75
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (55 bp):
CAAATATTTAAATTTTTTGTCAATTTTTTAATCTTTACAAATCTTGAATCTTTTA
Found at i:8163397 original size:36 final size:35
Alignment explanation
Indices: 8163351--8163491 Score: 117
Period size: 36 Copynumber: 3.9 Consensus size: 35
8163341 TTTTTTAATC
*
8163351 TTTACGAATCTTGAATTTTTTGCAAATCTTT-AAATT
1 TTTACAAATCTTGAATTTTTTG--AATCTTTGAAATT
* * *
8163387 TTTGCAAATCTTGAATCTTTTATGAATTTTTGAATTT
1 TTTACAAATCTTGAAT-TTTT-TGAATCTTTGAAATT
* *
8163424 TTTACGAATCTTGAATTTTTTAGAATC-TTG-AATA
1 TTTACAAATCTTGAATTTTTT-GAATCTTTGAAATT
* * *
8163458 TTTAGAGAACCTTGAACTTTTGTGAATCTTTGAA
1 TTTACA-AATCTTGAA-TTTTTTGAATCTTTGAA
8163492 TTCAATTTAT
Statistics
Matches: 84, Mismatches: 13, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
34 6 0.07
35 17 0.20
36 36 0.43
37 23 0.27
38 2 0.02
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (35 bp):
TTTACAAATCTTGAATTTTTTGAATCTTTGAAATT
Found at i:8163460 original size:19 final size:18
Alignment explanation
Indices: 8163351--8163456 Score: 115
Period size: 18 Copynumber: 5.9 Consensus size: 18
8163341 TTTTTTAATC
8163351 TTTACGAATCTTGAATTT
1 TTTACGAATCTTGAATTT
* * * *
8163369 TTTGCAAATCTTTAAATT
1 TTTACGAATCTTGAATTT
* * *
8163387 TTTGCAAATCTTGAATCT
1 TTTACGAATCTTGAATTT
* *
8163405 TTTATGAATTTTTGAATTT
1 TTTACGAA-TCTTGAATTT
8163424 TTTACGAATCTTGAATTT
1 TTTACGAATCTTGAATTT
8163442 TTTA-GAATCTTGAAT
1 TTTACGAATCTTGAAT
8163457 ATTTAGAGAA
Statistics
Matches: 73, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
17 11 0.15
18 47 0.64
19 15 0.21
ACGTcount: A:0.29, C:0.09, G:0.10, T:0.51
Consensus pattern (18 bp):
TTTACGAATCTTGAATTT
Found at i:8164688 original size:9 final size:9
Alignment explanation
Indices: 8164669--8164708 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
8164659 AATTAATTCC
8164669 TTTTC-TTT
1 TTTTCTTTT
8164677 TTTTCTTTT
1 TTTTCTTTT
8164686 TTTTCTTTT
1 TTTTCTTTT
8164695 TCTTTCTTTT
1 T-TTTCTTTT
8164705 TTTT
1 TTTT
8164709 TTCTTTCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 5 0.17
9 16 0.53
10 9 0.30
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:8164689 original size:10 final size:10
Alignment explanation
Indices: 8164674--8164714 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
8164664 ATTCCTTTTC
8164674 TTTTTTTC-T
1 TTTTTTTCTT
8164683 TTTTTTTCTT
1 TTTTTTTCTT
*
8164693 TTTCTTTCTTT
1 TTTTTTTC-TT
8164704 TTTTTTTCTT
1 TTTTTTTCTT
8164714 T
1 T
8164715 CATTCATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 8 0.29
10 11 0.39
11 9 0.32
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:8164694 original size:15 final size:15
Alignment explanation
Indices: 8164674--8164715 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
8164664 ATTCCTTTTC
8164674 TTTTTTTCTTT-TTT
1 TTTTTTTCTTTCTTT
8164688 TTCTTTTTCTTTCTTT
1 TT-TTTTTCTTTCTTT
8164704 TTTTTTTCTTTC
1 TTTTTTTCTTTC
8164716 ATTCATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.08
15 19 0.73
16 5 0.19
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTTTCTTTCTTT
Found at i:8164702 original size:19 final size:19
Alignment explanation
Indices: 8164669--8164726 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
8164659 AATTAATTCC
8164669 TTTTC-TTTT-TTTCTTTT
1 TTTTCTTTTTCTTTCTTTT
8164686 TTTTCTTTTTCTTTCTTTT
1 TTTTCTTTTTCTTTCTTTT
*
8164705 TTTT-TTCTTTCATTCATTTT
1 TTTTCTT-TTTCTTTC-TTTT
8164725 TT
1 TT
8164727 GTAGAAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
17 5 0.14
18 6 0.17
19 19 0.53
20 6 0.17
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTCTTTTTCTTTCTTTT
Found at i:8165229 original size:7 final size:7
Alignment explanation
Indices: 8165217--8165321 Score: 58
Period size: 7 Copynumber: 15.3 Consensus size: 7
8165207 TCTAGGTTAG
8165217 GGTTTTA
1 GGTTTTA
8165224 GGTTTTA
1 GGTTTTA
**
8165231 GG-CATA
1 GGTTTTA
* *
8165237 CGGGTTAA
1 -GGTTTTA
8165245 GGTTTTA
1 GGTTTTA
*
8165252 GG-GTTA
1 GGTTTTA
* *
8165258 GGGTTCA
1 GGTTTTA
8165265 -GTT-TA
1 GGTTTTA
*
8165270 GAGTTTAA
1 G-GTTTTA
8165278 GGTTTTA
1 GGTTTTA
*
8165285 GGATTTA
1 GGTTTTA
*
8165292 GG-GTTA
1 GGTTTTA
8165298 GGGTTTTA
1 -GGTTTTA
8165306 GGTTTTA
1 GGTTTTA
8165313 GGTTTTA
1 GGTTTTA
8165320 GG
1 GG
8165322 CATACAGGTT
Statistics
Matches: 73, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
5 1 0.01
6 12 0.16
7 54 0.74
8 6 0.08
ACGTcount: A:0.19, C:0.03, G:0.34, T:0.44
Consensus pattern (7 bp):
GGTTTTA
Found at i:8165248 original size:28 final size:27
Alignment explanation
Indices: 8165211--8165342 Score: 95
Period size: 28 Copynumber: 4.6 Consensus size: 27
8165201 TTGGTCTCTA
*
8165211 GGTTAGGGTTTTAGGTTTTAGGCATACG
1 GGTTAAGGTTTTAGGTTTTAGGCATA-G
*
8165239 GGTTAAGGTTTTAGG-GTTAGGGTTCAGTTTAG
1 GGTTAAGGTTTTAGGTTTTA-GG--CA---TAG
* * **
8165271 AGTTTAAGGTTTTAGGATTTAGGGTTAG
1 -GGTTAAGGTTTTAGGTTTTAGGCATAG
* *
8165299 GGTTTTAGGTTTTAGGTTTTAGGCATACA
1 GG-TTAAGGTTTTAGGTTTTAGGCATA-G
8165328 GGTTAAGGTTTTAGG
1 GGTTAAGGTTTTAGG
8165343 GTTAGGGTTC
Statistics
Matches: 81, Mismatches: 13, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
27 4 0.05
28 51 0.63
29 2 0.02
30 2 0.02
32 1 0.01
33 18 0.22
34 3 0.04
ACGTcount: A:0.20, C:0.04, G:0.34, T:0.42
Consensus pattern (27 bp):
GGTTAAGGTTTTAGGTTTTAGGCATAG
Found at i:8165315 original size:89 final size:89
Alignment explanation
Indices: 8165217--8165392 Score: 343
Period size: 89 Copynumber: 2.0 Consensus size: 89
8165207 TCTAGGTTAG
*
8165217 GGTTTTAGGTTTTAGGCATACGGGTTAAGGTTTTAGGGTTAGGGTTCAGTTTAGAGTTTAAGGTT
1 GGTTTTAGGTTTTAGGCATACAGGTTAAGGTTTTAGGGTTAGGGTTCAGTTTAGAGTTTAAGGTT
8165282 TTAGGATTTAGGGTTAGGGTTTTA
66 TTAGGATTTAGGGTTAGGGTTTTA
8165306 GGTTTTAGGTTTTAGGCATACAGGTTAAGGTTTTAGGGTTAGGGTTCAGTTTAGAGTTTAAGGTT
1 GGTTTTAGGTTTTAGGCATACAGGTTAAGGTTTTAGGGTTAGGGTTCAGTTTAGAGTTTAAGGTT
8165371 TTAGGATTTAGGGTTAGGGTTT
66 TTAGGATTTAGGGTTAGGGTTT
8165393 CATTTTGGGG
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 86 1.00
ACGTcount: A:0.20, C:0.03, G:0.34, T:0.43
Consensus pattern (89 bp):
GGTTTTAGGTTTTAGGCATACAGGTTAAGGTTTTAGGGTTAGGGTTCAGTTTAGAGTTTAAGGTT
TTAGGATTTAGGGTTAGGGTTTTA
Found at i:8165332 original size:35 final size:35
Alignment explanation
Indices: 8165266--8165351 Score: 93
Period size: 35 Copynumber: 2.4 Consensus size: 35
8165256 TAGGGTTCAG
** *
8165266 TTTAGAGTTTAAGGTTTTAGGATTTAGGGTTAGGGT
1 TTTAG-GTTTAAGGTTTTAGGATACAGGGTTAAGGT
*
8165302 TTTAGGTTTTAGGTTTTAGGCATACA-GGTTAAGGT
1 TTTAGGTTTAAGGTTTTAGG-ATACAGGGTTAAGGT
* *
8165337 TTTAGGGTTAGGGTT
1 TTTAGGTTTAAGGTT
8165352 CAGTTTAGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
35 34 0.81
36 8 0.19
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (35 bp):
TTTAGGTTTAAGGTTTTAGGATACAGGGTTAAGGT
Found at i:8165392 original size:28 final size:28
Alignment explanation
Indices: 8165267--8165392 Score: 112
Period size: 28 Copynumber: 4.3 Consensus size: 28
8165257 AGGGTTCAGT
*
8165267 TTAGAGTTTAAGGTTTTAGGATTTAGGG
1 TTAGGGTTTAAGGTTTTAGGATTTAGGG
* * *
8165295 TTAGGGTTTTAGGTTTTAGGTTTTAGGC
1 TTAGGGTTTAAGGTTTTAGGATTTAGGG
* * *
8165323 ATACAGG-TTAAGGTTTTAGG-GTTAGGG
1 TTA-GGGTTTAAGGTTTTAGGATTTAGGG
8165350 TTCAGTTTAGAGTTTAAGGTTTTAGGATTTAGGG
1 TT-AG----G-GTTTAAGGTTTTAGGATTTAGGG
8165384 TTAGGGTTT
1 TTAGGGTTT
8165393 CATTTTGGGG
Statistics
Matches: 77, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
27 6 0.08
28 43 0.56
29 3 0.04
31 1 0.01
32 1 0.01
33 15 0.19
34 8 0.10
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (28 bp):
TTAGGGTTTAAGGTTTTAGGATTTAGGG
Found at i:8165403 original size:13 final size:13
Alignment explanation
Indices: 8165387--8165418 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8165377 TTTAGGGTTA
*
8165387 GGGTTTCATTTTG
1 GGGTTTCAATTTG
8165400 GGGTTTCAATTTG
1 GGGTTTCAATTTG
8165413 GGGTTT
1 GGGTTT
8165419 GAAATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (13 bp):
GGGTTTCAATTTG
Found at i:8166514 original size:21 final size:23
Alignment explanation
Indices: 8166475--8166516 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
8166465 AATTAAGAAT
*
8166475 TTTTTTTCTTTTCTTCCTTCTTG
1 TTTTTTTCTCTTCTTCCTTCTTG
8166498 TTTTTTTC-CTTC-TCCTTCT
1 TTTTTTTCTCTTCTTCCTTCT
8166517 CTCCTCTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 3 0.17
23 8 0.44
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTTTTCTCTTCTTCCTTCTTG
Found at i:8169147 original size:4 final size:4
Alignment explanation
Indices: 8169138--8169197 Score: 61
Period size: 4 Copynumber: 14.8 Consensus size: 4
8169128 ATTTTTTCCT
* *
8169138 TTTA TTTA TTTA TTTA TTTA TTTA TTTTA TTT- TTAA TTT- TTTT TATTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA T-TTA
8169186 TTTTA TTTA TTT
1 -TTTA TTTA TTT
8169198 TTTTCAAGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
3 5 0.10
4 33 0.69
5 9 0.19
6 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:8169155 original size:12 final size:13
Alignment explanation
Indices: 8169123--8169201 Score: 87
Period size: 12 Copynumber: 6.4 Consensus size: 13
8169113 TTCAACTTGG
8169123 ATTTTATTT-TTT
1 ATTTTATTTATTT
*
8169135 CCTTTTATTTATTT
1 -ATTTTATTTATTT
8169149 A-TTTATTTATTT
1 ATTTTATTTATTT
*
8169161 ATTTTATTT-TTA
1 ATTTTATTTATTT
*
8169173 ATTTTTTTTA-TT
1 ATTTTATTTATTT
8169185 ATTTTATTTATTT
1 ATTTTATTTATTT
8169198 -TTTT
1 ATTTT
8169202 CAAGCATAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
12 36 0.64
13 17 0.30
14 3 0.05
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (13 bp):
ATTTTATTTATTT
Found at i:8173331 original size:6 final size:6
Alignment explanation
Indices: 8173312--8173387 Score: 52
Period size: 6 Copynumber: 12.8 Consensus size: 6
8173302 GGTTTCCATT
* * * *
8173312 TTTTTA TTTCTA TTTTTA TTTTTA TTTTTGA -TTTGA TTTTGA TTTGGT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT-A TTTTTA TTTTTA TTT-TTA
*
8173360 TTTTT- TTTTT- TTTTTG TGTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA T-TTTTA TTTTT
8173388 GTTTGTTTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
5 12 0.21
6 40 0.69
7 6 0.10
ACGTcount: A:0.11, C:0.01, G:0.09, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:8173339 original size:11 final size:11
Alignment explanation
Indices: 8173312--8173406 Score: 50
Period size: 12 Copynumber: 8.2 Consensus size: 11
8173302 GGTTTCCATT
8173312 TTTTTATTTCTA
1 TTTTTATTT-TA
8173324 TTTTTATTTTTA
1 TTTTTA-TTTTA
*
8173336 TTTTTGATTTGA
1 TTTTT-ATTTTA
*
8173348 TTTTGATTTGGT-
1 TTTTTATTT--TA
* *
8173360 TTTTTTTTTTT
1 TTTTTATTTTA
*
8173371 TTTTGTGTTTTA
1 TTTT-TATTTTA
* *
8173383 TTTTT-GTTTG
1 TTTTTATTTTA
8173393 TTTTTAGTTTTA
1 TTTTTA-TTTTA
8173405 TT
1 TT
8173407 ATTTTTAATT
Statistics
Matches: 64, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
10 9 0.14
11 9 0.14
12 42 0.66
13 4 0.06
ACGTcount: A:0.11, C:0.01, G:0.11, T:0.78
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:8173363 original size:35 final size:35
Alignment explanation
Indices: 8173324--8173406 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 35
8173314 TTTATTTCTA
8173324 TTTTTATTTTTATTTTTG-ATTTGA-TTTTGATTTGG
1 TTTTTATTTTTATTTTTGTATTTGATTTTTG-TTT-G
* * *
8173359 TTTTT-TTTTTTTTTTTGTGTTTTATTTTTGTTTG
1 TTTTTATTTTTATTTTTGTATTTGATTTTTGTTTG
*
8173393 TTTTTAGTTTTATT
1 TTTTTATTTTTATT
8173407 ATTTTTAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
34 17 0.43
35 18 0.45
36 5 0.12
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (35 bp):
TTTTTATTTTTATTTTTGTATTTGATTTTTGTTTG
Found at i:8173381 original size:17 final size:16
Alignment explanation
Indices: 8173330--8173403 Score: 66
Period size: 16 Copynumber: 4.6 Consensus size: 16
8173320 TCTATTTTTA
8173330 TTTTTATTTTTGATTTG
1 TTTTTATTTTTG-TTTG
* *
8173347 ATTTTGA-TTTGGTTT-
1 -TTTTTATTTTTGTTTG
8173362 TTTTT-TTTTT-TTTG
1 TTTTTATTTTTGTTTG
8173376 TGTTTTATTTTTGTTTG
1 T-TTTTATTTTTGTTTG
8173393 TTTTTAGTTTT
1 TTTTTA-TTTT
8173404 ATTATTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
13 3 0.07
14 8 0.17
15 4 0.09
16 13 0.28
17 13 0.28
18 5 0.11
ACGTcount: A:0.08, C:0.00, G:0.14, T:0.78
Consensus pattern (16 bp):
TTTTTATTTTTGTTTG
Found at i:8173386 original size:22 final size:21
Alignment explanation
Indices: 8173358--8173412 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
8173348 TTTTGATTTG
8173358 GTTTT-TTTTTTTT-TTTTGT-
1 GTTTTATTTTTTTTGTTTT-TA
8173377 GTTTTATTTTTGTTTGTTTTTA
1 GTTTTATTTTT-TTTGTTTTTA
*
8173399 GTTTTATTATTTTT
1 GTTTTATTTTTTTT
8173413 AATTTGTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 5 0.16
20 5 0.16
21 7 0.23
22 14 0.45
ACGTcount: A:0.07, C:0.00, G:0.11, T:0.82
Consensus pattern (21 bp):
GTTTTATTTTTTTTGTTTTTA
Found at i:8173518 original size:14 final size:13
Alignment explanation
Indices: 8173478--8173520 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
8173468 AGATTTTATA
8173478 ATTTGCATGTTTT
1 ATTTGCATGTTTT
8173491 ATTT--ATGATTTT
1 ATTTGCATG-TTTT
8173503 ATTTGCATGCTTTT
1 ATTTGCATG-TTTT
8173517 ATTT
1 ATTT
8173521 TAATATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 3 0.12
12 8 0.31
13 4 0.15
14 11 0.42
ACGTcount: A:0.19, C:0.07, G:0.12, T:0.63
Consensus pattern (13 bp):
ATTTGCATGTTTT
Found at i:8173752 original size:19 final size:18
Alignment explanation
Indices: 8173703--8173754 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 18
8173693 ATGATTTATT
*
8173703 TATATATTTGCATG-TTA
1 TATATTTTTGCATGATTA
* * *
8173720 TTTATTCTTACATGATTA
1 TATATTTTTGCATGATTA
8173738 TAATATTTTTGCATGAT
1 T-ATATTTTTGCATGAT
8173755 ATCCTTGCAT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
17 10 0.38
18 4 0.15
19 12 0.46
ACGTcount: A:0.29, C:0.08, G:0.10, T:0.54
Consensus pattern (18 bp):
TATATTTTTGCATGATTA
Found at i:8173821 original size:18 final size:19
Alignment explanation
Indices: 8173775--8173821 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
8173765 GATTCTTAGT
*
8173775 ATGATTT-TTATATTTGGC
1 ATGATTTATGATATTTGGC
8173793 ATGATACTTATGATATTT-GC
1 ATGAT--TTATGATATTTGGC
8173813 ATGATTTAT
1 ATGATTTAT
8173822 TACATGATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 9 0.36
20 9 0.36
21 7 0.28
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.51
Consensus pattern (19 bp):
ATGATTTATGATATTTGGC
Found at i:8180353 original size:22 final size:20
Alignment explanation
Indices: 8180328--8180395 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 20
8180318 TGACAAAATC
* *
8180328 AAAAATGAAAAGAAAACATAAA
1 AAAAAAGAAAAG-AAA-AGAAA
*
8180350 AAAAAAGAATAAGAAATGAAGA
1 AAAAAAGAA-AAGAAAAGAA-A
8180372 AAAAAAGAAAAGAAAAGAAA
1 AAAAAAGAAAAGAAAAGAAA
8180392 AAAA
1 AAAA
8180396 TTGATAGGGC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 5 0.12
21 11 0.28
22 21 0.52
23 3 0.08
ACGTcount: A:0.79, C:0.01, G:0.13, T:0.06
Consensus pattern (20 bp):
AAAAAAGAAAAGAAAAGAAA
Found at i:8182151 original size:43 final size:42
Alignment explanation
Indices: 8182078--8182216 Score: 153
Period size: 43 Copynumber: 3.3 Consensus size: 42
8182068 ATCATTTTTG
* * **
8182078 AAAGTTTCAAAGCCCCTCA-TAAGATGAGCATTTTAAATTTTTA
1 AAAGTTTCAAAGCCCCT-AGTGAG-GGAGCATTTTAAATTTTCC
*
8182121 AAAGTTTCAAAGCCCCTGGTGAGGGAAGCATTTTAAA-TTTCC
1 AAAGTTTCAAAGCCCCTAGTGAGGG-AGCATTTTAAATTTTCC
*
8182163 AAATTTTCAAAG-CCCTAGTGAGGGTAGCATTTT--ATTTTCC
1 AAAGTTTCAAAGCCCCTAGTGAGGG-AGCATTTTAAATTTTCC
8182203 AAAGTTTCAAAGCC
1 AAAGTTTCAAAGCC
8182217 GCTGTTAAGG
Statistics
Matches: 83, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
39 1 0.01
40 16 0.19
41 20 0.24
42 15 0.18
43 31 0.37
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (42 bp):
AAAGTTTCAAAGCCCCTAGTGAGGGAGCATTTTAAATTTTCC
Found at i:8182213 original size:40 final size:41
Alignment explanation
Indices: 8182104--8182216 Score: 147
Period size: 40 Copynumber: 2.7 Consensus size: 41
8182094 TCATAAGATG
** *
8182104 AGCATTTTAAATTTTTAAAAGTTTCAAAGCCCCTGGTGAGGGA
1 AGCATTTTAAA-TTTCCAAAGTTTCAAAG-CCCTAGTGAGGGA
* *
8182147 AGCATTTTAAATTTCCAAATTTTCAAAGCCCTAGTGAGGGT
1 AGCATTTTAAATTTCCAAAGTTTCAAAGCCCTAGTGAGGGA
*
8182188 AGCATTTT-ATTTTCCAAAGTTTCAAAGCC
1 AGCATTTTAAATTTCCAAAGTTTCAAAGCC
8182217 GCTGTTAAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 19 0.30
41 19 0.30
42 14 0.22
43 11 0.17
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (41 bp):
AGCATTTTAAATTTCCAAAGTTTCAAAGCCCTAGTGAGGGA
Found at i:8182522 original size:18 final size:18
Alignment explanation
Indices: 8182482--8182524 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
8182472 AATATTGTTC
8182482 TTTTTAGTTTTAATTTTT
1 TTTTTAGTTTTAATTTTT
* **
8182500 GTTTTAGTTTTGTTTTTAT
1 TTTTTAGTTTTAATTTT-T
8182519 TTTTTA
1 TTTTTA
8182525 TCTTTTGGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (18 bp):
TTTTTAGTTTTAATTTTT
Found at i:8183621 original size:24 final size:23
Alignment explanation
Indices: 8183593--8183648 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
8183583 GATATTTATA
8183593 ATTTGCATG-TTTATTTATGATTTT
1 ATTTGCATGCTTTATTT-TGA-TTT
8183617 ATTTGCATGCTTTTATTTTGATTT
1 ATTTGCATGC-TTTATTTTGATTT
8183641 -TTTGCATG
1 ATTTGCATG
8183649 AATATATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 8 0.27
24 12 0.40
25 3 0.10
26 7 0.23
ACGTcount: A:0.18, C:0.07, G:0.14, T:0.61
Consensus pattern (23 bp):
ATTTGCATGCTTTATTTTGATTT
Found at i:8183707 original size:25 final size:25
Alignment explanation
Indices: 8183678--8183762 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
8183668 TTTTGCATGA
8183678 ATTTGCATGATTTTTATAATATTTT
1 ATTTGCATGATTTTTATAATATTTT
* *
8183703 ATTTGCATG-CTTTTATTATGATTTT
1 ATTTGCATGATTTTTATAAT-ATTTT
** * *
8183728 -TTTGCATGAATAATTATAACA-TAT
1 ATTTGCATG-ATTTTTATAATATTTT
8183752 ATTTGCATGAT
1 ATTTGCATGAT
8183763 ATTTGTTAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
24 20 0.42
25 23 0.48
26 5 0.10
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (25 bp):
ATTTGCATGATTTTTATAATATTTT
Found at i:8183731 original size:24 final size:25
Alignment explanation
Indices: 8183678--8183736 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
8183668 TTTTGCATGA
*
8183678 ATTTGCATGATTTTTATAATATTTT
1 ATTTGCATGACTTTTATAATATTTT
*
8183703 ATTTGCATG-CTTTTATTATGATTTT
1 ATTTGCATGACTTTTATAAT-ATTTT
8183728 -TTTGCATGA
1 ATTTGCATGA
8183737 ATAATTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 16 0.53
25 14 0.47
ACGTcount: A:0.24, C:0.07, G:0.12, T:0.58
Consensus pattern (25 bp):
ATTTGCATGACTTTTATAATATTTT
Found at i:8186250 original size:20 final size:20
Alignment explanation
Indices: 8186210--8186251 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8186200 TGATATTTAA
*
8186210 TTAATTTATTGCATGATTGT
1 TTAATTTATTGCATGAGTGT
8186230 TTAATATTATTGCATG-GTGT
1 TTAAT-TTATTGCATGAGTGT
8186250 TT
1 TT
8186252 CTTTATAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.24, C:0.05, G:0.17, T:0.55
Consensus pattern (20 bp):
TTAATTTATTGCATGAGTGT
Found at i:8201743 original size:14 final size:14
Alignment explanation
Indices: 8201724--8201785 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
8201714 ATCGTCAAAC
*
8201724 TTATTTTAATTCAT
1 TTATTTTAATTTAT
8201738 TTA-TTTAATTT-T
1 TTATTTTAATTTAT
*
8201750 CTT-TTTCT-ATTTTT
1 -TTATTT-TAATTTAT
8201764 TTATTTTAATTTAT
1 TTATTTTAATTTAT
8201778 TTATTTTA
1 TTATTTTA
8201786 TTAAAAATAC
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
12 1 0.03
13 18 0.45
14 21 0.52
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (14 bp):
TTATTTTAATTTAT
Found at i:8201852 original size:15 final size:16
Alignment explanation
Indices: 8201823--8201852 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8201813 ACTAAAATAT
8201823 TTTTAAAATATTTTTC
1 TTTTAAAATATTTTTC
8201839 TTTTAAAA-ATTTTT
1 TTTTAAAATATTTTT
8201853 AAAAAATCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTAAAATATTTTTC
Found at i:8202393 original size:13 final size:13
Alignment explanation
Indices: 8202377--8202401 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8202367 TTATTTTTTA
8202377 TTAAAATTTTCAT
1 TTAAAATTTTCAT
8202390 TTAAAATTTTCA
1 TTAAAATTTTCA
8202402 CCATTTTAAA
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:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAAAATTTTCAT
Found at i:8202710 original size:2 final size:2
Alignment explanation
Indices: 8202703--8202727 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8202693 TAACTTTCAA
8202703 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 A
8202728 AATTGCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8205739 original size:28 final size:28
Alignment explanation
Indices: 8205708--8205767 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
8205698 GTCTAATCAA
8205708 TTAAAAAAAAAATTTTTACAAAAAAAAT
1 TTAAAAAAAAAATTTTTACAAAAAAAAT
** **
8205736 TTAATTAAAATTTTTTTACAAAAAAAAT
1 TTAAAAAAAAAATTTTTACAAAAAAAAT
8205764 TTAA
1 TTAA
8205768 TTAAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (28 bp):
TTAAAAAAAAAATTTTTACAAAAAAAAT
Found at i:8205768 original size:28 final size:28
Alignment explanation
Indices: 8205720--8205777 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
8205710 AAAAAAAAAA
8205720 TTTTTACAAAAAAAATTTAATTAAAATT
1 TTTTTACAAAAAAAATTTAATTAAAATT
8205748 TTTTTACAAAAAAAATTTAATTAAAATT
1 TTTTTACAAAAAAAATTTAATTAAAATT
8205776 TT
1 TT
8205778 ATCGATGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
TTTTTACAAAAAAAATTTAATTAAAATT
Found at i:8212466 original size:31 final size:30
Alignment explanation
Indices: 8212430--8212532 Score: 116
Period size: 31 Copynumber: 3.3 Consensus size: 30
8212420 TTTATACGAA
8212430 TTAAAATTTAATTTTTATATTAGCATGAAAT
1 TTAAAATTTAATTTTTATATT-GCATGAAAT
* * *
8212461 TTAAAATTTAATCTATGTATTCGCATGAAAT
1 TTAAAATTTAATTTTTATATT-GCATGAAAT
* * **
8212492 TTGAAATGTAATTTTTATACTTGCACAAAAT
1 TTAAAATTTAATTTTTATA-TTGCATGAAAT
8212523 TTAAAATTTA
1 TTAAAATTTA
8212533 GTTTCTTTAA
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
31 56 0.97
32 2 0.03
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.45
Consensus pattern (30 bp):
TTAAAATTTAATTTTTATATTGCATGAAAT
Found at i:8213482 original size:23 final size:21
Alignment explanation
Indices: 8213456--8213511 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
8213446 ATTAATAAAA
*
8213456 ATGATAGTAATAATAATATTATT
1 ATGATA-TAATAATAAT-TAATT
*
8213479 ATGATATTATTAATAATTAATT
1 ATGATA-TAATAATAATTAATT
8213501 AT-ATATAATAA
1 ATGATATAATAA
8213512 AAAACTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 5 0.17
21 3 0.10
22 6 0.21
23 15 0.52
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (21 bp):
ATGATATAATAATAATTAATT
Found at i:8219662 original size:49 final size:49
Alignment explanation
Indices: 8219586--8219685 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
8219576 AGAAAAGAAA
* *
8219586 TAGTAGTAAGAAAAATACAATGTAGATATTTCAGAATCTCCTATTTTCT
1 TAGTAGTAAGAAAAATACAATGAAGATATTTCAAAATCTCCTATTTTCT
*
8219635 TAGTAGTAAGAAAAATACCATGAAGATATTTCAAAATCTCCTATTTTCT
1 TAGTAGTAAGAAAAATACAATGAAGATATTTCAAAATCTCCTATTTTCT
8219684 TA
1 TA
8219686 AACTTCTGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (49 bp):
TAGTAGTAAGAAAAATACAATGAAGATATTTCAAAATCTCCTATTTTCT
Found at i:8223126 original size:13 final size:12
Alignment explanation
Indices: 8223108--8223145 Score: 58
Period size: 13 Copynumber: 3.0 Consensus size: 12
8223098 TCTTATCCTC
8223108 TCTTTTTCTTTTT
1 TCTTTTT-TTTTT
8223121 TCTTTTTTTTTGT
1 TCTTTTTTTTT-T
8223134 TCTTTTTTTTTT
1 TCTTTTTTTTTT
8223146 CACATTGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.87
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:8225577 original size:20 final size:21
Alignment explanation
Indices: 8225552--8225605 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
8225542 ACATGTTCAA
8225552 AATATATATAAAATAT-AAAT
1 AATATATATAAAATATCAAAT
8225572 AATATA-ATTAAAATATCAAAT
1 AATATATA-TAAAATATCAAAT
*
8225593 CATA-ATA-AAAATA
1 AATATATATAAAATA
8225606 AAAGTTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 7 0.23
20 15 0.50
21 8 0.27
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (21 bp):
AATATATATAAAATATCAAAT
Found at i:8225838 original size:21 final size:20
Alignment explanation
Indices: 8225812--8225852 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8225802 CACTTACAAA
*
8225812 TTTATTAATTTTAAGATAAAT
1 TTTATTAA-TTTAAGAGAAAT
*
8225833 TTTATTTATTTAAGAGAAAT
1 TTTATTAATTTAAGAGAAAT
8225853 AATAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (20 bp):
TTTATTAATTTAAGAGAAAT
Found at i:8235897 original size:76 final size:76
Alignment explanation
Indices: 8235814--8235966 Score: 198
Period size: 76 Copynumber: 2.0 Consensus size: 76
8235804 AAGGGCAATT
** * * **
8235814 TTCAACAACAATAGCCTTCAAATCTACTTTTTTTGTCTTTTGACTAAATTGTACAAACCCACACC
1 TTCAACAACAATAGCCTTCAAATCTACTTCCTTTGCCTCTTGACTAAATTACACAAACCCACACC
8235879 ACAACTTCTCA
66 ACAACTTCTCA
* * * * *
8235890 TTCAACAACAATAGCTTTCAAGTCTACTTCCTTTGCCTCTTGATTAAATTACACAGATCCACACC
1 TTCAACAACAATAGCCTTCAAATCTACTTCCTTTGCCTCTTGACTAAATTACACAAACCCACACC
*
8235955 ATAACTTCTCA
66 ACAACTTCTCA
8235966 T
1 T
8235967 CCCCTCACCC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
76 65 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (76 bp):
TTCAACAACAATAGCCTTCAAATCTACTTCCTTTGCCTCTTGACTAAATTACACAAACCCACACC
ACAACTTCTCA
Found at i:8240780 original size:17 final size:16
Alignment explanation
Indices: 8240758--8240805 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 16
8240748 AATAAATCAC
8240758 TTTAATATTTTTATATT
1 TTTAATATTTTTAT-TT
8240775 TTTAATATTTATTATTT
1 TTTAATATTT-TTATTT
8240792 TTTACATATCTTTT
1 TTTA-ATAT-TTTT
8240806 TGACATTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 16 0.57
18 10 0.36
19 2 0.07
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTAATATTTTTATTT
Found at i:8241932 original size:18 final size:19
Alignment explanation
Indices: 8241884--8241933 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
8241874 TCAATTATTT
*
8241884 TATAA-AAATTAAAATTGA
1 TATAATAAATTAAAAATGA
* *
8241902 TAAAAATATATTAAAAAT-A
1 T-ATAATAAATTAAAAATGA
8241921 TATAATAAATTAA
1 TATAATAAATTAA
8241934 TTGTTTGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
18 11 0.44
19 5 0.20
20 9 0.36
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
TATAATAAATTAAAAATGA
Found at i:8253516 original size:39 final size:39
Alignment explanation
Indices: 8253473--8253569 Score: 126
Period size: 42 Copynumber: 2.4 Consensus size: 39
8253463 AAATAGTATT
8253473 ATATTATTATTTTAATAATAAATAATAACAT-ATATAATA
1 ATATTATTATTTTAATAATAAATAATAA-ATCATATAATA
* *
8253512 ATATTTGTATTATTTTAATAATTAATATTAAATCATATAATA
1 ATA--T-TATTATTTTAATAATAAATAATAAATCATATAATA
8253554 ATATTATT-TTTTAATA
1 ATATTATTATTTTAATA
8253570 TGAATATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
38 8 0.15
39 7 0.13
40 1 0.02
41 3 0.06
42 33 0.63
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (39 bp):
ATATTATTATTTTAATAATAAATAATAAATCATATAATA
Found at i:8253528 original size:42 final size:42
Alignment explanation
Indices: 8253477--8253558 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
8253467 AGTATTATAT
8253477 TATTATTTTAATAATAAATAATAACAT-ATATAATAATATTTG
1 TATTATTTTAATAATAAATAATAA-ATCATATAATAATATTTG
* *
8253519 TATTATTTTAATAATTAATATTAAATCATATAATAATATT
1 TATTATTTTAATAATAAATAATAAATCATATAATAATATT
8253559 ATTTTTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (42 bp):
TATTATTTTAATAATAAATAATAAATCATATAATAATATTTG
Found at i:8253742 original size:17 final size:17
Alignment explanation
Indices: 8253720--8253752 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8253710 TAATATAAAA
8253720 TATAAATATTGTAATAG
1 TATAAATATTGTAATAG
*
8253737 TATAAATATTTTAATA
1 TATAAATATTGTAATA
8253753 ATAAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TATAAATATTGTAATAG
Found at i:8253758 original size:15 final size:16
Alignment explanation
Indices: 8253721--8253759 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
8253711 AATATAAAAT
8253721 ATAAATATTGTAATAG
1 ATAAATATTGTAATAG
*
8253737 TATAAATATTTTAATA-
1 -ATAAATATTGTAATAG
8253753 ATAAATA
1 ATAAATA
8253760 ATATTATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
17 14 0.67
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
ATAAATATTGTAATAG
Found at i:8253799 original size:26 final size:27
Alignment explanation
Indices: 8253747--8253799 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
8253737 TATAAATATT
***
8253747 TTAATAATAAATAATATTATGTTAATA
1 TTAATAATAAATAATATTATAAGAATA
*
8253774 TTAATAA-AAATAATATTTTAAGAATA
1 TTAATAATAAATAATATTATAAGAATA
8253800 GTAAACTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (27 bp):
TTAATAATAAATAATATTATAAGAATA
Found at i:8253827 original size:18 final size:19
Alignment explanation
Indices: 8253785--8253827 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
8253775 TAATAAAAAT
8253785 AATATTTTAAGAATAGTAA
1 AATATTTTAAGAATAGTAA
* **
8253804 ACTATTTTAA-AATTTTAA
1 AATATTTTAAGAATAGTAA
8253822 AATATT
1 AATATT
8253828 AATATAAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (19 bp):
AATATTTTAAGAATAGTAA
Found at i:8256551 original size:22 final size:24
Alignment explanation
Indices: 8256520--8256572 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
8256510 AAATAATTTT
*
8256520 TTTATATTTTTGATA-T-TTTTAA
1 TTTATTTTTTTGATATTATTTTAA
*
8256542 TTTA-TTTTTTGTTATTATTTTAA
1 TTTATTTTTTTGATATTATTTTAA
8256565 -TTATTTTT
1 TTTATTTTT
8256573 AAAGTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 8 0.31
22 8 0.31
23 10 0.38
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTATTTTTTTGATATTATTTTAA
Found at i:8256919 original size:14 final size:16
Alignment explanation
Indices: 8256895--8256944 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 16
8256885 TTCTACTAAG
8256895 AAATGAAAAAATAA-A
1 AAATGAAAAAATAATA
8256910 AAAT-AAAAAATAATAA
1 AAATGAAAAAATAAT-A
8256926 AAATGCAAAAAATTAATA
1 AAATG-AAAAAA-TAATA
8256944 A
1 A
8256945 CCAAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 9 0.30
15 4 0.13
16 5 0.17
18 8 0.27
19 4 0.13
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (16 bp):
AAATGAAAAAATAATA
Found at i:8257273 original size:27 final size:29
Alignment explanation
Indices: 8257229--8257282 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
8257219 TTTCTTAAAT
* *
8257229 AAAATAGAATAATCTTTGTTAAAAAAGAA
1 AAAAAAGAATAATCTTTGTAAAAAAAGAA
8257258 AAAAAAGAA-AAT-TTTGTAAAAAAAG
1 AAAAAAGAATAATCTTTGTAAAAAAAG
8257283 TGAAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
28 3 0.13
29 8 0.35
ACGTcount: A:0.63, C:0.02, G:0.11, T:0.24
Consensus pattern (29 bp):
AAAAAAGAATAATCTTTGTAAAAAAAGAA
Found at i:8266990 original size:46 final size:46
Alignment explanation
Indices: 8266918--8267011 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
8266908 CCTTGTTCGG
8266918 TAAAGATATTATATATAAAGACTTAATATCAAATTCTACTAAGATC
1 TAAAGATATTATATATAAAGACTTAATATCAAATTCTACTAAGATC
*
8266964 TAAAGATATTATATATAAAGAGTTAATATCAAATTCTACTAAGATC
1 TAAAGATATTATATATAAAGACTTAATATCAAATTCTACTAAGATC
8267010 TA
1 TA
8267012 TAAATGCTGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (46 bp):
TAAAGATATTATATATAAAGACTTAATATCAAATTCTACTAAGATC
Found at i:8268156 original size:24 final size:24
Alignment explanation
Indices: 8268111--8268156 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
8268101 ATAGAGAGAG
**
8268111 AAAAGGAAAAAAGATATTAAAAAT
1 AAAAGGAAAAAAGATAAAAAAAAT
8268135 AAAAGGAAGAAAAGA-AAAAAAA
1 AAAAGGAA-AAAAGATAAAAAAA
8268157 GAACTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (24 bp):
AAAAGGAAAAAAGATAAAAAAAAT
Found at i:8270324 original size:10 final size:10
Alignment explanation
Indices: 8270309--8270342 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
8270299 TTGTTACATG
*
8270309 TTTTGTTTGA
1 TTTTGTTTAA
8270319 TTTTGTTTAA
1 TTTTGTTTAA
*
8270329 TTTTATTTAA
1 TTTTGTTTAA
8270339 TTTT
1 TTTT
8270343 TTTCAGTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (10 bp):
TTTTGTTTAA
Found at i:8271175 original size:46 final size:46
Alignment explanation
Indices: 8271122--8271285 Score: 195
Period size: 46 Copynumber: 3.6 Consensus size: 46
8271112 TATTGAGCTT
* * *
8271122 AGGAGCCTTCTAGTTTGATTTTTATAGTTGTCGAGCCTCTAATGAG
1 AGGAGCCTTCTAGTTTGATTTTTAAAGTTGTTGAGCTTCTAATGAG
*
8271168 AGGAGCCTTCTAGTTTGCTTTTTAAAGTTGTTGAGCTTCTAATGAG
1 AGGAGCCTTCTAGTTTGATTTTTAAAGTTGTTGAGCTTCTAATGAG
* * * * * * *
8271214 AATGAACTTTC-AATATGATTTTTAAAGTTGTTAAGCTTTTAATGAG
1 -AGGAGCCTTCTAGTTTGATTTTTAAAGTTGTTGAGCTTCTAATGAG
* *
8271260 AGGAGACTTTTAGTTTGATTTTTAAA
1 AGGAGCCTTCTAGTTTGATTTTTAAA
8271286 ATTATCAAGC
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
45 5 0.05
46 85 0.88
47 7 0.07
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (46 bp):
AGGAGCCTTCTAGTTTGATTTTTAAAGTTGTTGAGCTTCTAATGAG
Found at i:8271301 original size:46 final size:46
Alignment explanation
Indices: 8271122--8271357 Score: 183
Period size: 46 Copynumber: 5.1 Consensus size: 46
8271112 TATTGAGCTT
* * * *
8271122 AGGAGCCTTCTAGTTTGATTTTTATAGTTGTCGAGCCTCTAATGAG
1 AGGAGACTTCTAGTTTGATTTTTAAAGTTGTCAAGCCTTTAATGAG
* * **
8271168 AGGAGCCTTCTAGTTTGCTTTTTAAAGTTGTTGAG-CTTCTAATGAG
1 AGGAGACTTCTAGTTTGATTTTTAAAGTTGTCAAGCCTT-TAATGAG
* * * * *
8271214 AATGA-ACTT-TCAATATGATTTTTAAAGTTGTTAAGCTTTTAATGAG
1 -AGGAGACTTCT-AGTTTGATTTTTAAAGTTGTCAAGCCTTTAATGAG
* * * *
8271260 AGGAGACTTTTAGTTTGATTTTTAAAATTATCAAGCCTTTAATGAT
1 AGGAGACTTCTAGTTTGATTTTTAAAGTTGTCAAGCCTTTAATGAG
** * * * **
8271306 ATAAGCCTT-TCAATTTAATTTTCCCAAGTTGTCAAGCCTTTAATGAG
1 AGGAGACTTCT-AGTTTGATTTT-TAAAGTTGTCAAGCCTTTAATGAG
8271353 AGGAG
1 AGGAG
8271358 CACAAAAAAA
Statistics
Matches: 151, Mismatches: 31, Indels: 15
0.77 0.16 0.08
Matches are distributed among these distances:
45 7 0.05
46 116 0.77
47 28 0.19
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.40
Consensus pattern (46 bp):
AGGAGACTTCTAGTTTGATTTTTAAAGTTGTCAAGCCTTTAATGAG
Found at i:8271303 original size:92 final size:91
Alignment explanation
Indices: 8271137--8271357 Score: 230
Period size: 92 Copynumber: 2.4 Consensus size: 91
8271127 CCTTCTAGTT
* * * * * * * **
8271137 TGATTTTTATAGTTGTCGAGCCTCTAATGAGAGGAGCCTTCTAGTTTGCTTTTTAAAGTTGTTGA
1 TGATTTTTAAAGTTGTCAAGCCTTTAATGAGAGGAGACTTCTAGTTTGATTTTTAAAATTATCAA
8271202 GCTTCTAATGAGAATGAA-CTTTCAATA
66 GCTTCTAATGA-AAT-AACCTTTCAATA
* * *
8271229 TGATTTTTAAAGTTGTTAAGCTTTTAATGAGAGGAGACTTTTAGTTTGATTTTTAAAATTATCAA
1 TGATTTTTAAAGTTGTCAAGCCTTTAATGAGAGGAGACTTCTAGTTTGATTTTTAAAATTATCAA
* *
8271294 GCCTT-TAATGATATAAGCCTTTCAATT
66 G-CTTCTAATGAAATAA-CCTTTCAATA
* **
8271321 TAATTTTCCCAAGTTGTCAAGCCTTTAATGAGAGGAG
1 TGATTTT-TAAAGTTGTCAAGCCTTTAATGAGAGGAG
8271358 CACAAAAAAA
Statistics
Matches: 106, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
90 2 0.02
91 2 0.02
92 74 0.70
93 28 0.26
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (91 bp):
TGATTTTTAAAGTTGTCAAGCCTTTAATGAGAGGAGACTTCTAGTTTGATTTTTAAAATTATCAA
GCTTCTAATGAAATAACCTTTCAATA
Found at i:8279346 original size:25 final size:25
Alignment explanation
Indices: 8279182--8279618 Score: 165
Period size: 25 Copynumber: 17.6 Consensus size: 25
8279172 GCATATGTAG
* * *
8279182 GTTTTAAGCCTATGGTCTTAATCGA
1 GTTTTAAGCCTATGGCCCTAATCAA
* * *
8279207 GTTATAAACCTATGGCCCTATTCAA
1 GTTTTAAGCCTATGGCCCTAATCAA
* * *
8279232 GTCTTAAGCCCT-TGGCCTTACTCAA
1 GTTTTAAG-CCTATGGCCCTAATCAA
* * *
8279257 GTTATAAACCTATGGCCC-AATCGA
1 GTTTTAAGCCTATGGCCCTAATCAA
* * **
8279281 GTCTTAAGCATATGGCACC-AATTGA
1 GTTTTAAGCCTATGGC-CCTAATCAA
* *
8279306 CTCTTTAAGTCTATGGCCCTAATCAA
1 GT-TTTAAGCCTATGGCCCTAATCAA
*
8279332 GTTTTAAGCCAATGGCCCTAATCAA
1 GTTTTAAGCCTATGGCCCTAATCAA
* ** * *
8279357 GTCTTAAG-CTAATGG-TATAGTTAA
1 GTTTTAAGCCT-ATGGCCCTAATCAA
* * * * *
8279381 ATCTTAAGCCTATAGCCCCAGTCAA
1 GTTTTAAGCCTATGGCCCTAATCAA
* * *
8279406 GTTATAAGCCCATGGCCCTAGTCAA
1 GTTTTAAGCCTATGGCCCTAATCAA
* * * * *
8279431 TTTTTTAGTCTATGGCCCTAACCGA
1 GTTTTAAGCCTATGGCCCTAATCAA
* * * * *
8279456 GTCTTAATCCTATAGCCCCAATCAT
1 GTTTTAAGCCTATGGCCCTAATCAA
** ** *
8279481 GTCATAAAACTATGGCGCC-AATCTA
1 GTTTTAAGCCTATGGC-CCTAATCAA
* * ** * *
8279506 GTTTTAAACCCATGATCCAAATCGA
1 GTTTTAAGCCTATGGCCCTAATCAA
*** *
8279531 GTTTTAAGCCTATGATACTAATTAA
1 GTTTTAAGCCTATGGCCCTAATCAA
* * * *
8279556 GTCTTAAGCCCATTG---TAGTCAA
1 GTTTTAAGCCTATGGCCCTAATCAA
* * *
8279578 GTCTTAAACCCATGGCCCTAAT-AGA
1 GTTTTAAGCCTATGGCCCTAATCA-A
*
8279603 GTGTTAAGCCTATGGC
1 GTTTTAAGCCTATGGC
8279619 TCCAGTTGAG
Statistics
Matches: 300, Mismatches: 98, Indels: 28
0.70 0.23 0.07
Matches are distributed among these distances:
22 18 0.06
24 38 0.13
25 223 0.74
26 21 0.07
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (25 bp):
GTTTTAAGCCTATGGCCCTAATCAA
Found at i:8279414 original size:74 final size:76
Alignment explanation
Indices: 8279253--8279430 Score: 184
Period size: 74 Copynumber: 2.4 Consensus size: 76
8279243 TTGGCCTTAC
* * * * * *
8279253 TCAAGTTATAAACCTATGGCCC-AATCGAGTCTTAAGCATATGGCACCAATTGACTCTTTAAGTC
1 TCAAGTTATAAGCCAATGGCCCTAATCAAGTCTTAAGCATATGGCACCAATTAAATCTTTAAGCC
* *
8279317 TATGGCCCTAA
66 TATAGCCCCAA
* * * *
8279328 TCAAGTTTTAAGCCAATGGCCCTAATCAAGTCTTAAGC-TAATGGTA-TAGTTAAATC-TTAAGC
1 TCAAGTTATAAGCCAATGGCCCTAATCAAGTCTTAAGCAT-ATGGCACCAATTAAATCTTTAAGC
*
8279390 CTATAGCCCCAG
65 CTATAGCCCCAA
* *
8279402 TCAAGTTATAAGCCCATGGCCCTAGTCAA
1 TCAAGTTATAAGCCAATGGCCCTAATCAA
8279431 TTTTTTAGTC
Statistics
Matches: 85, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
74 40 0.47
75 26 0.31
76 19 0.22
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (76 bp):
TCAAGTTATAAGCCAATGGCCCTAATCAAGTCTTAAGCATATGGCACCAATTAAATCTTTAAGCC
TATAGCCCCAA
Found at i:8279642 original size:25 final size:25
Alignment explanation
Indices: 8279581--8279642 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
8279571 TAGTCAAGTC
8279581 TTAAACCCATGGCCCTAATAGAGTG
1 TTAAACCCATGGCCCTAATAGAGTG
* * * * *
8279606 TTAAGCCTATGGCTCC-AGTTGAGTT
1 TTAAACCCATGGC-CCTAATAGAGTG
8279631 TTAAACCCATGG
1 TTAAACCCATGG
8279643 TCTTAATGAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
TTAAACCCATGGCCCTAATAGAGTG
Found at i:8279678 original size:50 final size:51
Alignment explanation
Indices: 8279581--8279694 Score: 126
Period size: 50 Copynumber: 2.3 Consensus size: 51
8279571 TAGTCAAGTC
* * * *
8279581 TTAAACCCATGGCCCTAATAGAGTGTTAAGCCTATGGCTCCAGTTGAG-TT
1 TTAAACCCATGGCCCTAATAGAGTCTTAAGCCTATGGATCCAATTGAGAAT
* *
8279631 TTAAACCCATGGTCTTAAT-GAAGTCTTAAGCCTAT-GATACCAATTGAGAAT
1 TTAAACCCATGGCCCTAATAG-AGTCTTAAGCCTATGGAT-CCAATTGAGAAT
*
8279682 TTAAAACCATGGC
1 TTAAACCCATGGC
8279695 ACCAAATGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
49 3 0.06
50 38 0.72
51 12 0.23
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (51 bp):
TTAAACCCATGGCCCTAATAGAGTCTTAAGCCTATGGATCCAATTGAGAAT
Found at i:8280512 original size:33 final size:33
Alignment explanation
Indices: 8280472--8280557 Score: 102
Period size: 33 Copynumber: 2.6 Consensus size: 33
8280462 CTCAACTTAA
*
8280472 GTCATTTTATTTTTAAACTTTGGCTCAATCTAG
1 GTCATTTTATTTTCAAACTTTGGCTCAATCTAG
* * * * *
8280505 GTTATTTTGTTTTCAGACTTTGGTTCAATTTAG
1 GTCATTTTATTTTCAAACTTTGGCTCAATCTAG
8280538 GTCA-TTTAGTTTTCAAACTT
1 GTCATTTTA-TTTTCAAACTT
8280558 CAACTTAGTC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
32 3 0.07
33 40 0.93
ACGTcount: A:0.22, C:0.13, G:0.14, T:0.51
Consensus pattern (33 bp):
GTCATTTTATTTTCAAACTTTGGCTCAATCTAG
Found at i:8280617 original size:30 final size:30
Alignment explanation
Indices: 8280543--8280637 Score: 102
Period size: 33 Copynumber: 3.1 Consensus size: 30
8280533 TTTAGGTCAT
*
8280543 TTAG-TTTTCAAACTTCAACTTAGTCTAGG
1 TTAGTTTTTCAAACTTCAACTTAATCTAGG
* **
8280572 TTATCTTAATTTCAAACTTCAGTTTAATCTAGG
1 TTA-GTT--TTTCAAACTTCAACTTAATCTAGG
* *
8280605 TTAGTTTTTCAAACTTCAACTCAATCCAGG
1 TTAGTTTTTCAAACTTCAACTTAATCTAGG
8280635 TTA
1 TTA
8280638 TATTGTTTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
29 3 0.06
30 23 0.43
31 1 0.02
32 2 0.04
33 24 0.45
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (30 bp):
TTAGTTTTTCAAACTTCAACTTAATCTAGG
Found at i:8280727 original size:33 final size:33
Alignment explanation
Indices: 8280664--8280752 Score: 83
Period size: 33 Copynumber: 2.7 Consensus size: 33
8280654 TGACTTAATT
* * * *
8280664 CAAGTTATTTTGTTTTCAGACTGT-AGCTTAGTC
1 CAAGTCATTTTATTTTCAAACT-TCAACTTAGTC
*
8280697 C-AGATCATTTTATTTTCAAACTTCAACTTAGTT
1 CAAG-TCATTTTATTTTCAAACTTCAACTTAGTC
* *
8280730 CAAGTTATTTTGTTTTCAAACTT
1 CAAGTCATTTTATTTTCAAACTT
8280753 AGGCACAATC
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
32 3 0.07
33 41 0.89
34 2 0.04
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (33 bp):
CAAGTCATTTTATTTTCAAACTTCAACTTAGTC
Found at i:8281349 original size:19 final size:20
Alignment explanation
Indices: 8281306--8281349 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
8281296 TTTCCCAAAA
*
8281306 AAAAAAAAAATAAGAGGAGC
1 AAAAAAAAAATAAGAGGAAC
8281326 AAAAAAAAAA-AAGAGAGAAC
1 AAAAAAAAAATAAGAG-GAAC
8281346 AAAA
1 AAAA
8281350 TGCACAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAATAAGAGGAAC
Found at i:8285089 original size:21 final size:22
Alignment explanation
Indices: 8285060--8285102 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
8285050 TGATTGTTTC
*
8285060 ATTTATTTTATATTACT-TTTT
1 ATTTATTTTATAATACTATTTT
*
8285081 ATTTTTTTTATAATACTATTTT
1 ATTTATTTTATAATACTATTTT
8285103 TTATAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (22 bp):
ATTTATTTTATAATACTATTTT
Found at i:8288504 original size:14 final size:14
Alignment explanation
Indices: 8288455--8288505 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
8288445 AAAAATAAAG
*
8288455 AAAAAAATAG-AAA
1 AAAAAAAAAGCAAA
*
8288468 CAAAAAAATAGCAAA
1 -AAAAAAAAAGCAAA
**
8288483 AAGCAAAAAGCAAA
1 AAAAAAAAAGCAAA
8288497 AAAAAAAAA
1 AAAAAAAAA
8288506 AAGATATTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 28 0.90
15 3 0.10
ACGTcount: A:0.80, C:0.08, G:0.08, T:0.04
Consensus pattern (14 bp):
AAAAAAAAAGCAAA
Found at i:8290784 original size:15 final size:16
Alignment explanation
Indices: 8290766--8290798 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8290756 TTATTGTTAC
*
8290766 TTTTGCC-TATTTGTT
1 TTTTGCCATATTTATT
8290781 TTTTGCCATATTTATT
1 TTTTGCCATATTTATT
8290797 TT
1 TT
8290799 ATTCCTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.12, C:0.12, G:0.09, T:0.67
Consensus pattern (16 bp):
TTTTGCCATATTTATT
Found at i:8291967 original size:43 final size:44
Alignment explanation
Indices: 8291914--8292000 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 44
8291904 AATCTATGAT
* *
8291914 CTTTCGGTGTGTA-TCACAAACCCTTGATGCGAATCTTAAGAACC
1 CTTTCGGTGTG-AGTCACAAACCCTCGAAGCGAATCTTAAGAACC
* * *
8291958 CTTT-GGTGTGAGTCATAAACCCTCGAAGTGAATCTTGAGAACC
1 CTTTCGGTGTGAGTCACAAACCCTCGAAGCGAATCTTAAGAACC
8292001 TTTTTTATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
42 1 0.03
43 32 0.86
44 4 0.11
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
CTTTCGGTGTGAGTCACAAACCCTCGAAGCGAATCTTAAGAACC
Found at i:8292031 original size:21 final size:24
Alignment explanation
Indices: 8291986--8292035 Score: 70
Period size: 21 Copynumber: 2.2 Consensus size: 24
8291976 ACCCTCGAAG
*
8291986 TGAATCTTGAGAACCTTTTTTATA
1 TGAATCTTGAGAACCTTTTTGATA
8292010 TGAATCTTGA-AA-C-TTTTGATA
1 TGAATCTTGAGAACCTTTTTGATA
8292031 TGAAT
1 TGAAT
8292036 TTAGGATCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 12 0.48
22 1 0.04
23 2 0.08
24 10 0.40
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (24 bp):
TGAATCTTGAGAACCTTTTTGATA
Found at i:8293383 original size:42 final size:40
Alignment explanation
Indices: 8293337--8293459 Score: 104
Period size: 42 Copynumber: 3.0 Consensus size: 40
8293327 TTTTGGTATA
* *
8293337 AATCTCAAACCTTTGATGTAAATCTTGAGAACTTTTCATGTG
1 AATCT-AAACCTTTGATGTAAATCCTGA-AACTTTTAATGTG
* * *
8293379 AATCTTGAATCTCTTGATGTAAATCCTGAATCTTTTAATGTG
1 AATC-TAAACCT-TTGATGTAAATCCTGAAACTTTTAATGTG
* * * *
8293421 AATATAGAATCCTTTGATGTGAATCC-CAAACTCTTAATG
1 AATCTA-AA-CCTTTGATGTAAATCCTGAAACTTTTAATG
8293460 CAAATCTCGA
Statistics
Matches: 65, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
41 11 0.17
42 36 0.55
43 18 0.28
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (40 bp):
AATCTAAACCTTTGATGTAAATCCTGAAACTTTTAATGTG
Found at i:8293419 original size:21 final size:21
Alignment explanation
Indices: 8293352--8293419 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
8293342 CAAACCTTTG
* *
8293352 ATGTAAATCTTGAGAACTTTTC
1 ATGTAAATCTTGA-ATCTTTTA
* * *
8293374 ATGTGAATCTTGAATCTCTTG
1 ATGTAAATCTTGAATCTTTTA
*
8293395 ATGTAAATCCTGAATCTTTTA
1 ATGTAAATCTTGAATCTTTTA
8293416 ATGT
1 ATGT
8293420 GAATATAGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
21 26 0.68
22 12 0.32
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (21 bp):
ATGTAAATCTTGAATCTTTTA
Found at i:8294840 original size:46 final size:46
Alignment explanation
Indices: 8294611--8294833 Score: 254
Period size: 46 Copynumber: 4.9 Consensus size: 46
8294601 TTTTGTTTAA
* * * * *
8294611 AAGAGTTTTTAAATTTATTTTCTAAAGTTGTAGAACCTCTGATGAG
1 AAGAGCTTTTAAATTTATTTTCAAAAGTTGTGGAGCCTCTAATGAG
* * *
8294657 AAGAGC-TTTAAATTTATTTTCAAAAATTATGGAGCCTTTAATGAG
1 AAGAGCTTTTAAATTTATTTTCAAAAGTTGTGGAGCCTCTAATGAG
* * * ** *
8294702 AGGAGCTTTTAAAATTATTTTCAAAAGTTTTAAAGCCTCTAATTAG
1 AAGAGCTTTTAAATTTATTTTCAAAAGTTGTGGAGCCTCTAATGAG
8294748 -AGAAGCTTTTAAATCTT-TTTTCAAAAGTTGTGGAGCCTCTAATGAG
1 AAG-AGCTTTTAAAT-TTATTTTCAAAAGTTGTGGAGCCTCTAATGAG
* * *
8294794 AAGAGATTTTAAATTTGTTTTCAAAAATTGTGGAGCCTCT
1 AAGAGCTTTTAAATTTATTTTCAAAAGTTGTGGAGCCTCT
8294834 GTTGAGAGTA
Statistics
Matches: 148, Mismatches: 24, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
45 40 0.27
46 104 0.70
47 4 0.03
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (46 bp):
AAGAGCTTTTAAATTTATTTTCAAAAGTTGTGGAGCCTCTAATGAG
Found at i:8295024 original size:6 final size:6
Alignment explanation
Indices: 8295005--8295078 Score: 50
Period size: 6 Copynumber: 12.5 Consensus size: 6
8294995 GAAAATAAAG
*
8295005 AAACAA AAATAA AAAC-A AAACAA ACAA-AA ACAAGCAA AAA-AGA AAACAA
1 AAACAA AAACAA AAACAA AAACAA A-AACAA A-AA-CAA AAACA-A AAACAA
* *
8295054 AAAC-A ATA-AA AAACAA CAACAA AAA
1 AAACAA AAACAA AAACAA AAACAA AAA
8295079 AATCTCGACA
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
5 12 0.22
6 34 0.63
7 5 0.09
8 3 0.06
ACGTcount: A:0.80, C:0.15, G:0.03, T:0.03
Consensus pattern (6 bp):
AAACAA
Found at i:8295036 original size:10 final size:10
Alignment explanation
Indices: 8295005--8295069 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
8294995 GAAAATAAAG
*
8295005 AAACAAAAAT
1 AAACAAAAAC
*
8295015 AAAAACAAAAC
1 AAACA-AAAAC
8295026 AAACAAAAAC
1 AAACAAAAAC
* *
8295036 AAGCAAAAAAGA
1 AAAC-AAAAA-C
8295048 AAACAAAAAC
1 AAACAAAAAC
8295058 AATA-AAAAAC
1 AA-ACAAAAAC
8295068 AA
1 AA
8295070 CAACAAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
10 22 0.50
11 19 0.43
12 3 0.07
ACGTcount: A:0.80, C:0.14, G:0.03, T:0.03
Consensus pattern (10 bp):
AAACAAAAAC
Found at i:8295043 original size:31 final size:32
Alignment explanation
Indices: 8295008--8295077 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
8294998 AATAAAGAAA
8295008 CAAAAATA-AAAAC-AAAACAA-ACAAAAACAAG
1 CAAAAA-AGAAAACAAAAACAATA-AAAAACAAG
8295039 CAAAAAAGAAAACAAAAACAATAAAAAACAA-
1 CAAAAAAGAAAACAAAAACAATAAAAAACAAG
8295070 CAACAAAA
1 CAA-AAAA
8295078 AAATCTCGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
30 1 0.03
31 14 0.40
32 19 0.54
33 1 0.03
ACGTcount: A:0.79, C:0.16, G:0.03, T:0.03
Consensus pattern (32 bp):
CAAAAAAGAAAACAAAAACAATAAAAAACAAG
Found at i:8295045 original size:32 final size:31
Alignment explanation
Indices: 8295006--8295080 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
8294996 AAAATAAAGA
*
8295006 AACAAAAATAAAAAC-AAAACAA-ACAAAAAC
1 AACAAAAAAAAAAACAAAAACAATA-AAAAAC
*
8295036 AAGCAAAAAAGAAAACAAAAACAATAAAAAAC
1 AA-CAAAAAAAAAAACAAAAACAATAAAAAAC
*
8295068 AACAACAAAAAAA
1 AACAAAAAAAAAA
8295081 TCTCGACATC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
30 2 0.05
31 20 0.53
32 15 0.39
33 1 0.03
ACGTcount: A:0.80, C:0.15, G:0.03, T:0.03
Consensus pattern (31 bp):
AACAAAAAAAAAAACAAAAACAATAAAAAAC
Found at i:8295051 original size:22 final size:21
Alignment explanation
Indices: 8295005--8295078 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
8294995 GAAAATAAAG
* *
8295005 AAACAAAAATAAAAACAAAAC-
1 AAACAAAAACAACAA-AAAACA
*
8295026 AAACAAAAACAAGCAAAAAAGA
1 AAACAAAAACAA-CAAAAAACA
*
8295048 AAACAAAAACAATAAAAAACA
1 AAACAAAAACAACAAAAAACA
8295069 ACAACAAAAA
1 A-AACAAAAA
8295079 AATCTCGACA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
21 23 0.51
22 22 0.49
ACGTcount: A:0.80, C:0.15, G:0.03, T:0.03
Consensus pattern (21 bp):
AAACAAAAACAACAAAAAACA
Found at i:8295066 original size:16 final size:15
Alignment explanation
Indices: 8295005--8295080 Score: 64
Period size: 16 Copynumber: 4.7 Consensus size: 15
8294995 GAAAATAAAG
*
8295005 AAACAAAAATAAAAACA
1 AAACAAAAA-AAACA-A
8295022 AAACAAACAAAAACAA
1 AAACAAA-AAAAACAA
*
8295038 GCAAA-AAAGAAAACAA
1 --AAACAAAAAAAACAA
8295054 AAACAATAAAAAACAA
1 AAACAA-AAAAAACAA
*
8295070 CAACAAAAAAA
1 AAACAAAAAAA
8295081 TCTCGACATC
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
14 3 0.06
15 7 0.14
16 21 0.42
17 14 0.28
18 5 0.10
ACGTcount: A:0.80, C:0.14, G:0.03, T:0.03
Consensus pattern (15 bp):
AAACAAAAAAAACAA
Found at i:8295479 original size:24 final size:24
Alignment explanation
Indices: 8295447--8295497 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
8295437 TAAACATAGC
8295447 CCATAATGCAACCCATTTTATGAA
1 CCATAATGCAACCCATTTTATGAA
8295471 CCATAATGCAACCCATTTTATGAA
1 CCATAATGCAACCCATTTTATGAA
8295495 CCA
1 CCA
8295498 AACAAATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (24 bp):
CCATAATGCAACCCATTTTATGAA
Found at i:8297064 original size:16 final size:16
Alignment explanation
Indices: 8297031--8297064 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
8297021 TTTTTTTGTC
8297031 TTTTTCTTTTTTCTTT
1 TTTTTCTTTTTTCTTT
8297047 TTTTTCTTTATTTCTTT
1 TTTTTCTTT-TTTCTTT
8297064 T
1 T
8297065 GCTTTATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTCTTTTTTCTTT
Found at i:8297064 original size:23 final size:23
Alignment explanation
Indices: 8297021--8297069 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
8297011 GTTTTATTAG
*
8297021 TTTTTTTGTCTTTTTCTTTTTTC
1 TTTTTTTGTCTTTTTCTTTTTGC
8297044 TTTTTTT-TCTTTATT-TCTTTTGC
1 TTTTTTTGTCTTT-TTCT-TTTTGC
8297067 TTT
1 TTT
8297070 ATTAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.82
Consensus pattern (23 bp):
TTTTTTTGTCTTTTTCTTTTTGC
Found at i:8298370 original size:20 final size:20
Alignment explanation
Indices: 8298345--8298382 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8298335 TTCTTTTTCT
*
8298345 TTTGTTTTATTTATTTATAC
1 TTTGTTTGATTTATTTATAC
*
8298365 TTTGTTTGCTTTATTTAT
1 TTTGTTTGATTTATTTAT
8298383 TTGTTTTATC
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:0.08, T:0.71
Consensus pattern (20 bp):
TTTGTTTGATTTATTTATAC
Found at i:8307530 original size:50 final size:48
Alignment explanation
Indices: 8307476--8307618 Score: 132
Period size: 50 Copynumber: 2.9 Consensus size: 48
8307466 TTAAAATCGT
8307476 ATAGCTTTTGTTTAATGGAGCCATTTTTAAGATGAGATTTTTAAAGCTAC
1 ATAGCTTTTGTTTAATGGAG-CATTTTT-AGATGAGATTTTTAAAGCTAC
* * * **
8307526 ATAGCCTTTGTTTAA-GGAGCATTTTCCCTAGATGAGAATTTTAAAGTTGT
1 ATAGCTTTTGTTTAATGGAGCATTTT---TAGATGAGATTTTTAAAGCTAC
*
8307576 ATAG-TCTTCGTTTAAAT-GAG-ATTTTTTAGATGAGATTTTTAAA
1 ATAGCT-TTTGTTT-AATGGAGCA-TTTTTAGATGAGATTTTTAAA
8307619 ATTGCATCAC
Statistics
Matches: 78, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
48 22 0.28
49 4 0.05
50 42 0.54
51 10 0.13
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (48 bp):
ATAGCTTTTGTTTAATGGAGCATTTTTAGATGAGATTTTTAAAGCTAC
Found at i:8307616 original size:13 final size:14
Alignment explanation
Indices: 8307586--8307620 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
8307576 ATAGTCTTCG
8307586 TTTAAATGAGATTT
1 TTTAAATGAGATTT
*
8307600 TTTAGATGAGATTT
1 TTTAAATGAGATTT
*
8307614 TTAAAAT
1 TTTAAAT
8307621 TGCATCACGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (14 bp):
TTTAAATGAGATTT
Found at i:8309998 original size:13 final size:13
Alignment explanation
Indices: 8309980--8310006 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8309970 TGTGTTTTTT
8309980 TAATGATATATTA
1 TAATGATATATTA
8309993 TAATGATATATTA
1 TAATGATATATTA
8310006 T
1 T
8310007 TTAGCAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TAATGATATATTA
Done.