Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 38 of 100
Found at i:7167751 original size:26 final size:26
Alignment explanation
Indices: 7167716--7167773 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
7167706 TAATAATAAT
* * *
7167716 AATAATAATAAATTATCATAAAAACA
1 AATAAAAATAAATCAACATAAAAACA
*
7167742 AATAAAAATAAATCAACATAAAATCA
1 AATAAAAATAAATCAACATAAAAACA
7167768 AA-AAAA
1 AATAAAA
7167774 TCAAAATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (26 bp):
AATAAAAATAAATCAACATAAAAACA
Found at i:7168653 original size:3 final size:3
Alignment explanation
Indices: 7168647--7168687 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
7168637 TTTTTTTGAC
7168647 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7168688 TGGACAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7168907 original size:42 final size:43
Alignment explanation
Indices: 7168858--7168960 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
7168848 AAATTGGAAG
** *
7168858 GCTTTTCTAAGCAAAGGCTTGATAACTTTTG-AAATTTTAAAA
1 GCTTTTCTAAGCAAAGGCTCAATAACTTTTGAAAATTTAAAAA
* * * *
7168900 GTTTTTCTAAGTAGAGACTCAATAACTTTTGAAAATTTAAAAA
1 GCTTTTCTAAGCAAAGGCTCAATAACTTTTGAAAATTTAAAAA
* *
7168943 GCTCTTCTAACCAAAGGC
1 GCTTTTCTAAGCAAAGGC
7168961 AATGAAACTT
Statistics
Matches: 47, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
42 25 0.53
43 22 0.47
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.35
Consensus pattern (43 bp):
GCTTTTCTAAGCAAAGGCTCAATAACTTTTGAAAATTTAAAAA
Found at i:7169037 original size:80 final size:80
Alignment explanation
Indices: 7168932--7169216 Score: 318
Period size: 80 Copynumber: 3.6 Consensus size: 80
7168922 TAACTTTTGA
* * * * * * *
7168932 AAATTTAAAAAGCTCTTCTAACCAAAGGCAATGAAACTTTAACTTTAAAAGGCTCTTTTGATCAG
1 AAATTCAAAAGGCTCCTCTAACCAAAGGCAATGAAACTTTAAATTAAAAAGGCTCATTTGACCAG
**
7168997 AGGTGATGAAACTTT
66 AGGCAATGAAACTTT
* * * * * * *
7169012 AAATTCAAAAGGCTCCTTTAACCAAAGACTATGAAACTTTAAATTCAAAAGGGTCCTTTAACCAG
1 AAATTCAAAAGGCTCCTCTAACCAAAGGCAATGAAACTTTAAATTAAAAAGGCTCATTTGACCAG
7169077 AGGCAATGAAACTTT
66 AGGCAATGAAACTTT
* * ** * *
7169092 GAATCCAAAAGGCTCCTCCGACCAAAGGCTATGAAACTTTAAATTAAAAAAGCTCATTTGACCAG
1 AAATTCAAAAGGCTCCTCTAACCAAAGGCAATGAAACTTTAAATTAAAAAGGCTCATTTGACCAG
7169157 AGGCAATGAAACTTT
66 AGGCAATGAAACTTT
* * * * * *
7169172 AAATTTAAAATGCTCCTCTAAACAGATGCAATAAAACTTTAAATT
1 AAATTCAAAAGGCTCCTCTAACCAAAGGCAATGAAACTTTAAATT
7169217 TTAAATATAA
Statistics
Matches: 169, Mismatches: 36, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 169 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (80 bp):
AAATTCAAAAGGCTCCTCTAACCAAAGGCAATGAAACTTTAAATTAAAAAGGCTCATTTGACCAG
AGGCAATGAAACTTT
Found at i:7169081 original size:120 final size:119
Alignment explanation
Indices: 7168932--7169213 Score: 305
Period size: 120 Copynumber: 2.4 Consensus size: 119
7168922 TAACTTTTGA
* * * * ** * ** * *
7168932 AAATTTAAAAAGCTCTTCTAACCAAAGGCAATGAAACTTTAACTTTAAAAGGCTCTTTTGATCAG
1 AAATTCAAAAGGCTCCTCTAACCAGAGGCAATGAAACTTTAA-TCCAAAAGGCTCCTCCGACCAA
* * * *
7168997 AGG-TGATGAAACTTTAAATTCAAAAGGCTCCTTTAACCAAAGACTATGAAACTTT
65 AGGCT-ATGAAACTTTAAATTAAAAAAGCTCATTTAACCAAAGACAATGAAACTTT
* *
7169052 AAATTCAAAAGGGTCCTTTAACCAGAGGCAATGAAACTTTGAATCCAAAAGGCTCCTCCGACCAA
1 AAATTCAAAAGGCTCCTCTAACCAGAGGCAATGAAACTTT-AATCCAAAAGGCTCCTCCGACCAA
* * *
7169117 AGGCTATGAAACTTTAAATTAAAAAAGCTCATTTGACCAGAGGCAATGAAACTTT
65 AGGCTATGAAACTTTAAATTAAAAAAGCTCATTTAACCAAAGACAATGAAACTTT
* * * * *
7169172 AAATTTAAAATGCTCCTCTAAACAGATGCAATAAAACTTTAA
1 AAATTCAAAAGGCTCCTCTAACCAGAGGCAATGAAACTTTAA
7169214 ATTTTAAATA
Statistics
Matches: 133, Mismatches: 27, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
119 2 0.02
120 128 0.96
121 3 0.02
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (119 bp):
AAATTCAAAAGGCTCCTCTAACCAGAGGCAATGAAACTTTAATCCAAAAGGCTCCTCCGACCAAA
GGCTATGAAACTTTAAATTAAAAAAGCTCATTTAACCAAAGACAATGAAACTTT
Found at i:7169217 original size:40 final size:40
Alignment explanation
Indices: 7168932--7169217 Score: 277
Period size: 40 Copynumber: 7.2 Consensus size: 40
7168922 TAACTTTTGA
* *
7168932 AAATTTAAAAAGCT-CTTCTAACCAAAGGCAATGAAACTTT
1 AAATTTAAAAGGCTCCTT-TAACCAGAGGCAATGAAACTTT
* * * * **
7168972 AACTTTAAAAGGCTCTTTTGATCAGAGGTGATGAAACTTT
1 AAATTTAAAAGGCTCCTTTAACCAGAGGCAATGAAACTTT
* * * *
7169012 AAATTCAAAAGGCTCCTTTAACCAAAGACTATGAAACTTT
1 AAATTTAAAAGGCTCCTTTAACCAGAGGCAATGAAACTTT
* *
7169052 AAATTCAAAAGGGTCCTTTAACCAGAGGCAATGAAACTTT
1 AAATTTAAAAGGCTCCTTTAACCAGAGGCAATGAAACTTT
* ** *** * *
7169092 GAATCCAAAAGGCTCCTCCGACCAAAGGCTATGAAACTTT
1 AAATTTAAAAGGCTCCTTTAACCAGAGGCAATGAAACTTT
* * * *
7169132 AAATTAAAAAAGCTCATTTGACCAGAGGCAATGAAACTTT
1 AAATTTAAAAGGCTCCTTTAACCAGAGGCAATGAAACTTT
* * * * *
7169172 AAATTTAAAATGCTCCTCTAAACAGATGCAATAAAACTTT
1 AAATTTAAAAGGCTCCTTTAACCAGAGGCAATGAAACTTT
7169212 AAATTT
1 AAATTT
7169218 TAAATATAAG
Statistics
Matches: 199, Mismatches: 46, Indels: 2
0.81 0.19 0.01
Matches are distributed among these distances:
40 197 0.99
41 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.28
Consensus pattern (40 bp):
AAATTTAAAAGGCTCCTTTAACCAGAGGCAATGAAACTTT
Found at i:7169371 original size:34 final size:34
Alignment explanation
Indices: 7169315--7169422 Score: 94
Period size: 34 Copynumber: 3.1 Consensus size: 34
7169305 AATTAAAAAA
* *
7169315 GCTCTTCTAACCAAAGGTTATGAAACTTTAAATG
1 GCTCATCTAACCAAAGGCTATGAAACTTTAAATG
* * * *
7169349 GCTCATCTGACCAGAGGCTATGACATTTTAAA-G
1 GCTCATCTAACCAAAGGCTATGAAACTTTAAATG
**
7169382 CAAGCTCAT-TCAACCAAAGGAAATGAAACTTTAAATG
1 ---GCTCATCT-AACCAAAGGCTATGAAACTTTAAATG
7169419 GCTC
1 GCTC
7169423 CTCTGGTAGC
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
33 1 0.02
34 30 0.53
35 1 0.02
36 24 0.42
37 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (34 bp):
GCTCATCTAACCAAAGGCTATGAAACTTTAAATG
Found at i:7169650 original size:34 final size:34
Alignment explanation
Indices: 7169550--7169650 Score: 121
Period size: 34 Copynumber: 3.0 Consensus size: 34
7169540 AATTAAAAAG
* * * **
7169550 CTCTTCTGACCAGAGACTATGAAACTTTAAATGG
1 CTCTTCTGACCAAAGGCAATGAAACTTTAAATTA
* *
7169584 CTCTTCTGACCAGAGGTAATGAAACTTTAAATTA
1 CTCTTCTGACCAAAGGCAATGAAACTTTAAATTA
* *
7169618 CTCTTTTGACTAAAGGCAATGAAACTTTAAATT
1 CTCTTCTGACCAAAGGCAATGAAACTTTAAATT
7169651 TAAAATGCTC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.33
Consensus pattern (34 bp):
CTCTTCTGACCAAAGGCAATGAAACTTTAAATTA
Found at i:7169679 original size:40 final size:40
Alignment explanation
Indices: 7169633--7169736 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
7169623 TTGACTAAAG
*
7169633 GCAATGAAACTTTAAATTTAAAATGCTCCTC-AGACCAGAA
1 GCAATGAAACTTTAAATTTAAAATGCTCATCTA-ACCAGAA
* * * *
7169673 GTAATGAAACTTTAAATTTAAAAGGCTCATCTAACTAGAG
1 GCAATGAAACTTTAAATTTAAAATGCTCATCTAACCAGAA
* *
7169713 GCCATGAAACTTTAAATTCAAAAT
1 GCAATGAAACTTTAAATTTAAAAT
7169737 CTGAGAGGTA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 53 0.98
41 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.28
Consensus pattern (40 bp):
GCAATGAAACTTTAAATTTAAAATGCTCATCTAACCAGAA
Found at i:7176919 original size:24 final size:23
Alignment explanation
Indices: 7176904--7176948 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
7176894 TATTTGTTTG
7176904 TTATTTATGTTATTTATTTTATTA
1 TTATTTATG-TATTTATTTTATTA
*
7176928 TTATTTATGTATTTCTTTTAT
1 TTATTTATGTATTTATTTTAT
7176949 CTTTCTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (23 bp):
TTATTTATGTATTTATTTTATTA
Found at i:7177003 original size:3 final size:3
Alignment explanation
Indices: 7176997--7177045 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
7176987 TTTTTTGGTG
7176997 ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7177044 AT
1 AT
7177046 TTTACTGTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:7177863 original size:17 final size:18
Alignment explanation
Indices: 7177841--7177876 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
7177831 CTTATTTTGA
*
7177841 TATTTTTGTTTT-TTATT
1 TATTTTTATTTTATTATT
7177858 TATTTTTATTTTATTATT
1 TATTTTTATTTTATTATT
7177876 T
1 T
7177877 CTAATGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (18 bp):
TATTTTTATTTTATTATT
Found at i:7178153 original size:15 final size:16
Alignment explanation
Indices: 7178125--7178159 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
7178115 TTTTTCAAAG
7178125 AAAAAAATCAATAAAAT
1 AAAAAAAT-AATAAAAT
7178142 AAAAAAAT-ATAAAAT
1 AAAAAAATAATAAAAT
7178157 AAA
1 AAA
7178160 TTTTGGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
17 8 0.44
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAAAATAATAAAAT
Found at i:7182199 original size:65 final size:62
Alignment explanation
Indices: 7182045--7182221 Score: 241
Period size: 65 Copynumber: 2.8 Consensus size: 62
7182035 AGGAAAAATA
* * * **
7182045 TTTTTTGGAAACTTTAATTTCGAA-AAAAATTGATACTTTCAACTTTT-CTCAAAAACCCTTT
1 TTTTTTTGAAACTTTATTTTC-AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACAATTT
* *
7182106 TTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACAATTT
1 TTTTTTTGAAACTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACAATTT
7182168 CATTTTTTTAGAAACTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTC
1 --TTTTTTT-GAAACTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTC
7182222 GAGAATATTT
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
60 2 0.02
61 39 0.38
62 12 0.12
64 7 0.07
65 42 0.41
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (62 bp):
TTTTTTTGAAACTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACAATTT
Found at i:7184688 original size:20 final size:20
Alignment explanation
Indices: 7184663--7184705 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
7184653 AAAAGAAAAT
7184663 AAATGATAAA-ATAAAAATAA
1 AAATGATAAATAT-AAAATAA
*
7184683 AAATGATAAATATGAAATAA
1 AAATGATAAATATAAAATAA
7184703 AAA
1 AAA
7184706 AATCTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (20 bp):
AAATGATAAATATAAAATAA
Found at i:7185109 original size:13 final size:13
Alignment explanation
Indices: 7185091--7185121 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
7185081 ACAGAGGTAA
7185091 TTTTTTGTTTTTT
1 TTTTTTGTTTTTT
7185104 TTTTTTGTTTTTT
1 TTTTTTGTTTTTT
7185117 TTTTT
1 TTTTT
7185122 ATCAAAGCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94
Consensus pattern (13 bp):
TTTTTTGTTTTTT
Found at i:7185109 original size:104 final size:105
Alignment explanation
Indices: 7184890--7185096 Score: 364
Period size: 104 Copynumber: 2.0 Consensus size: 105
7184880 CCATTTTGTT
*
7184890 TTGCCTTTTTTTTAAAAAAAATTTTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGA
1 TTGCTTTTTTTTTAAAAAAAA-TTTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGA
*
7184955 AACATAAACAAAGCTTCTCTAAACAGAGGTAATTTTTTTTC
65 AACATAAACAAAGCTCCTCTAAACAGAGGTAATTTTTTTTC
7184996 TTGCTTTTTTTTTAAAAAAAA-TTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAA
1 TTGCTTTTTTTTTAAAAAAAATTTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAA
7185060 ACATAAACAAAGCTCC-CTTAAACAGAGGTAATTTTTT
66 ACATAAACAAAGCTCCTC-TAAACAGAGGTAATTTTTT
7185097 GTTTTTTTTT
Statistics
Matches: 98, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
103 1 0.01
104 77 0.79
106 20 0.20
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.33
Consensus pattern (105 bp):
TTGCTTTTTTTTTAAAAAAAATTTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAA
ACATAAACAAAGCTCCTCTAAACAGAGGTAATTTTTTTTC
Found at i:7185194 original size:41 final size:40
Alignment explanation
Indices: 7185128--7185707 Score: 732
Period size: 41 Copynumber: 14.2 Consensus size: 40
7185118 TTTTATCAAA
* * * *
7185128 GCTCCTCTAAACAAAGGCTCAACGACTTTAGAAAGTAATTT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAGTAAATT
*
7185169 GCTCCTCTAAAGAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAGTAAATT
*
7185210 GCTCCTCTAAACAGAGGCACCACGTCTTTGAGAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAGTAAATT
*
7185251 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
* *
7185292 GCTCCTCT-AACAAAGGCACCATGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTT-GAAAGTAAATT
* *
7185333 GCTCTTTTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT--GAAAGTAAATT
** *
7185375 GCTCCTCTAAACAGAGGCACCACGACTTCAAAAATAAA-T
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATT
*
7185414 ACTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
*
7185455 GCTCCTCTAAACAGAGGCACCACGACTTTTAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTT-GAAAGTAAATT
* *
7185497 GCTTCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
* * *
7185538 GCTCCTCTAAACAGAGGTACCATGACTTTGAAAATTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
7185579 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
* *
7185620 GCTCCTCTAAACAGAGGTACCATGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
* * * ** * *
7185661 GCTTCTCTAAATAGAGGCAACAAAACTTTGGAAAATAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAGTAAATT
7185702 GCTCCT
1 GCTCCT
7185708 TGACAATCAT
Statistics
Matches: 477, Mismatches: 50, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
39 28 0.06
40 31 0.06
41 325 0.68
42 93 0.19
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.24
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATT
Found at i:7185689 original size:123 final size:123
Alignment explanation
Indices: 7185128--7185707 Score: 810
Period size: 123 Copynumber: 4.7 Consensus size: 123
7185118 TTTTATCAAA
* * * * * *
7185128 GCTCCTCTAAACAAAGGCTCAACGACTTT-AGAAAGTAATTTGCTCCTCTAAAGAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAAATAAATTGCTCCTCTAAACAGAGGCACCAC
* * *
7185192 GACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGTCTTTGAGAAGTAAATT
65 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
7185251 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCT-AACAAAGGCACCATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
* * *
7185315 ACTTTTGGAAAGTAAATTGCTCTTTTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
66 AC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGA-AAAGTAAATT
* *
7185375 GCTCCTCTAAACAGAGGCACCACGAC-TTCAAAAATAAA-TACTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
*
7185438 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTAAAAAGTAAATT
66 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
* * *
7185497 GCTTCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGTACCATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
*
7185562 ACTTTGAAAATTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
66 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * * * * * **
7185620 GCTCCTCTAAACAGAGGTACCATGACTTTGAAAAGTAAATTGCTTCTCTAAATAGAGGCAACAAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
*
7185685 ACTTTGGAAAA-TAAATGGCTCCT
66 ACTTT-GAAAAGTAAATTGCTCCT
7185708 TGACAATCAT
Statistics
Matches: 411, Mismatches: 38, Indels: 16
0.88 0.08 0.03
Matches are distributed among these distances:
122 95 0.23
123 211 0.51
124 105 0.26
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.24
Consensus pattern (123 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:7186741 original size:63 final size:63
Alignment explanation
Indices: 7186637--7186756 Score: 186
Period size: 63 Copynumber: 1.9 Consensus size: 63
7186627 GCTTATCAGC
* * *
7186637 ACTAACCATTTCAAAATAAATTTCATCTTCTATCACTTGGTCATCGTTCATAAGCTTCTCAAT
1 ACTAACCATTTCAAAATAAATTCCATCATCTATCACTTGGTCATAGTTCATAAGCTTCTCAAT
* * *
7186700 ACTAGCCATTTCAAAATAAATTCCATCATCTGTCACTTGGTCATAGTTTATAAGCTT
1 ACTAACCATTTCAAAATAAATTCCATCATCTATCACTTGGTCATAGTTCATAAGCTT
7186757 TTCAGCACCA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 51 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.38
Consensus pattern (63 bp):
ACTAACCATTTCAAAATAAATTCCATCATCTATCACTTGGTCATAGTTCATAAGCTTCTCAAT
Found at i:7187486 original size:11 final size:11
Alignment explanation
Indices: 7187470--7187509 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
7187460 CATTTTCTCA
7187470 TTTTTTCCTTCT
1 TTTTTTCCTT-T
7187482 TTTTTT-CTTT
1 TTTTTTCCTTT
*
7187492 TTTTTTCTTTT
1 TTTTTTCCTTT
7187503 TTTTTTC
1 TTTTTTC
7187510 ATCATCTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 7 0.27
11 13 0.50
12 6 0.23
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTCCTTT
Found at i:7187494 original size:21 final size:21
Alignment explanation
Indices: 7187470--7187509 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7187460 CATTTTCTCA
7187470 TTTTTTCCTTCTTTTTTTCTT
1 TTTTTTCCTTCTTTTTTTCTT
* *
7187491 TTTTTTTCTTTTTTTTTTC
1 TTTTTTCCTTCTTTTTTTC
7187510 ATCATCTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTTCCTTCTTTTTTTCTT
Found at i:7187506 original size:10 final size:10
Alignment explanation
Indices: 7187470--7187507 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
7187460 CATTTTCTCA
*
7187470 TTTTTTCCTT
1 TTTTTTTCTT
7187480 CTTTTTTTCTT
1 -TTTTTTTCTT
7187491 TTTTTTTCTT
1 TTTTTTTCTT
7187501 TTTTTTT
1 TTTTTTT
7187508 TCATCATCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:7187534 original size:20 final size:20
Alignment explanation
Indices: 7187496--7187534 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7187486 TTCTTTTTTT
*
7187496 TTCTTTTTTTTTTCATCATC
1 TTCTTTTTTTTTGCATCATC
7187516 TTCTTTTCTTTTTGC-TCAT
1 TTCTTTT-TTTTTGCATCAT
7187535 TTTTCATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.08, C:0.21, G:0.03, T:0.69
Consensus pattern (20 bp):
TTCTTTTTTTTTGCATCATC
Found at i:7192019 original size:58 final size:58
Alignment explanation
Indices: 7191955--7192149 Score: 255
Period size: 58 Copynumber: 3.2 Consensus size: 58
7191945 ATGTGCAGGG
7191955 AAAAATATTTTTTGGAAACTTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCCCC
1 AAAAATATTTTTTGGAAACTTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCCCC
* *
7192013 AAAAATACTTTTTGGAAACTTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA
1 AAAAATATTTTTTGGAAACTTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCC-C----C
* * *
7192076 AAAAATTCATTTTTTTGGAAACTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTC
1 AAAAA-T-A-TTTTTTGGAAACTTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCCCC
* *
7192137 GAGAATATTTTTT
1 AAAAATATTTTTT
7192150 TTGAAATTAT
Statistics
Matches: 120, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
58 61 0.51
59 2 0.02
60 1 0.01
61 3 0.03
63 5 0.04
64 1 0.01
65 1 0.01
66 46 0.38
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (58 bp):
AAAAATATTTTTTGGAAACTTTAATTTCGAGGAAAATTGATACTTTCAACTTTTCCCC
Found at i:7194605 original size:20 final size:20
Alignment explanation
Indices: 7194577--7194619 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
7194567 AAAAGAAAAT
7194577 AAATCATAAA-ATAAAAATAA
1 AAATCATAAATAT-AAAATAA
* *
7194597 AAATGATAAATATGAAATAA
1 AAATCATAAATATAAAATAA
7194617 AAA
1 AAA
7194620 AATCTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (20 bp):
AAATCATAAATATAAAATAA
Found at i:7199228 original size:17 final size:16
Alignment explanation
Indices: 7199200--7199242 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
7199190 TCTGATTATA
**
7199200 TATTTTTT-AAAATTT
1 TATTTTTTAAAAAAAT
7199215 TATTTTTTAGAAAAAAT
1 TATTTTTTA-AAAAAAT
7199232 TATTTTTTAAA
1 TATTTTTTAAA
7199243 TTATCCCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 8 0.33
16 2 0.08
17 14 0.58
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TATTTTTTAAAAAAAT
Found at i:7199399 original size:17 final size:17
Alignment explanation
Indices: 7199342--7199391 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
7199332 TTTATGCATA
*
7199342 TTATTTTTATTTTACAAAT
1 TTATTTTTATTTT--AACT
*
7199361 TTACATTTTATTTTAACT
1 TTA-TTTTTATTTTAACT
7199379 TTATTTTTATTTT
1 TTATTTTTATTTT
7199392 TTACTTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 9 0.33
18 6 0.22
19 3 0.11
20 9 0.33
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTTTTATTTTAACT
Found at i:7199421 original size:3 final size:3
Alignment explanation
Indices: 7199413--7199473 Score: 86
Period size: 3 Copynumber: 19.7 Consensus size: 3
7199403 TAAAAGAATA
* *
7199413 AAT AAT AAT AAC ACAA AATT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
7199460 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
7199474 AAATCATCAT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
3 49 0.92
4 4 0.08
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:7199509 original size:21 final size:20
Alignment explanation
Indices: 7199485--7199524 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7199475 AATCATCATG
7199485 ACAAGAAACAAAAAAATCAAC
1 ACAAGAAA-AAAAAAATCAAC
* *
7199506 ACAAGATAAATAAAATCAA
1 ACAAGAAAAAAAAAATCAA
7199525 AATTAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.70, C:0.15, G:0.05, T:0.10
Consensus pattern (20 bp):
ACAAGAAAAAAAAAATCAAC
Found at i:7207106 original size:13 final size:13
Alignment explanation
Indices: 7207088--7207113 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7207078 GAAAATATAT
7207088 TTATTTTTTATTA
1 TTATTTTTTATTA
7207101 TTATTTTTTATTA
1 TTATTTTTTATTA
7207114 GATAAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTTTTATTA
Found at i:7208401 original size:2 final size:2
Alignment explanation
Indices: 7208394--7208436 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
7208384 CACAAGAAAT
* *
7208394 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7208436 T
1 T
7208437 GTGTGTGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7208667 original size:76 final size:76
Alignment explanation
Indices: 7208587--7208739 Score: 177
Period size: 76 Copynumber: 2.0 Consensus size: 76
7208577 CAATTTGTTT
** * * *
7208587 TAAATTAAATG-CCTAATGTGATATCAGAG-TCATGATTT-TTTTCTATTGTCTTTTATTAATTT
1 TAAATTAAATGTCC-AACATGATATCAGAGCT-AGGATTTCTTTTC-ATTATATTTTATTAATTT
7208649 GTCATGTGAAAGGC
63 GTCATGTGAAAGGC
* * * *
7208663 TAAATTGAATGTCCAACATGATATTAGAGCTAGGATTTCTTTTCGTTATATTTTCTTAATTTGTC
1 TAAATTAAATGTCCAACATGATATCAGAGCTAGGATTTCTTTTCATTATATTTTATTAATTTGTC
7208728 ATGTGAAAGGC
66 ATGTGAAAGGC
7208739 T
1 T
7208740 TATTCTATCT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
76 57 0.88
77 8 0.12
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (76 bp):
TAAATTAAATGTCCAACATGATATCAGAGCTAGGATTTCTTTTCATTATATTTTATTAATTTGTC
ATGTGAAAGGC
Found at i:7209036 original size:21 final size:23
Alignment explanation
Indices: 7209012--7209059 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
7209002 ATATAAATAG
* *
7209012 ATATAAA-TAT-ATTTATTTTTA
1 ATATAAATTATAATTTAATTATA
7209033 ATATAAATTATAATTTAATTATA
1 ATATAAATTATAATTTAATTATA
7209056 ATAT
1 ATAT
7209060 CTTTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 3 0.13
23 13 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATAAATTATAATTTAATTATA
Found at i:7209091 original size:26 final size:25
Alignment explanation
Indices: 7209045--7209100 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
7209035 ATAAATTATA
* *
7209045 ATTTAATTATAATATCTTTATTATTT
1 ATTTAATTATAAGATCATTA-TATTT
7209071 ATTTAATTATAAAGAT-ATTATATTT
1 ATTTAATTAT-AAGATCATTATATTT
*
7209096 TTTTA
1 ATTTA
7209101 TTAAATTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 9 0.35
26 13 0.50
27 4 0.15
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (25 bp):
ATTTAATTATAAGATCATTATATTT
Found at i:7209486 original size:17 final size:17
Alignment explanation
Indices: 7209464--7209518 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
7209454 TATATTTTTA
7209464 ATAAAATATATATAAAT
1 ATAAAATATATATAAAT
*
7209481 ATAAAAT-TAAATAAAT
1 ATAAAATATATATAAAT
*
7209497 AATAAAATACTATATATAT
1 -ATAAAATA-TATATAAAT
7209516 ATA
1 ATA
7209519 TATATCAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.25
17 14 0.44
18 3 0.09
19 7 0.22
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAAATATATATAAAT
Found at i:7210200 original size:2 final size:2
Alignment explanation
Indices: 7210193--7210230 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
7210183 ATGGATAATA
* *
7210193 AT AT AT AT AT AT AT AT AT AT AT AT AA AT -T TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7210231 CTCAGAGTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7210461 original size:17 final size:17
Alignment explanation
Indices: 7210441--7210477 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
7210431 TATAAATAGG
7210441 AAAAAAATAAAAAATAA
1 AAAAAAATAAAAAATAA
*
7210458 AAAACAATAAAAAATAA
1 AAAAAAATAAAAAATAA
7210475 AAA
1 AAA
7210478 GGAAAAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAAAAATAAAAAATAA
Found at i:7210559 original size:17 final size:17
Alignment explanation
Indices: 7210509--7210561 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
7210499 TTAAAGTGAA
* *
7210509 AAAAAAAAAAACAAAAGA
1 AAAAAAAATAA-AAAAGT
**
7210527 AAAAAACAATTTAAAAGT
1 AAAAAA-AATAAAAAAGT
7210545 AAAAAAAATAAAAAAGT
1 AAAAAAAATAAAAAAGT
7210562 CACAAACAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 9 0.32
18 17 0.61
19 2 0.07
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.11
Consensus pattern (17 bp):
AAAAAAAATAAAAAAGT
Found at i:7216856 original size:14 final size:14
Alignment explanation
Indices: 7216831--7216864 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
7216821 TCACAACTCA
7216831 ATTTATATTGGTTTT
1 ATTTATATTGG-TTT
7216846 ATTTA-ATTGGTTT
1 ATTTATATTGGTTT
7216859 ATTTAT
1 ATTTAT
7216865 TACTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.44
14 5 0.28
15 5 0.28
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.65
Consensus pattern (14 bp):
ATTTATATTGGTTT
Found at i:7217685 original size:166 final size:166
Alignment explanation
Indices: 7217411--7217736 Score: 616
Period size: 166 Copynumber: 2.0 Consensus size: 166
7217401 TATGAATGTA
7217411 GACTCTTACTAGTGGTGACCTGATAACTAGGCATGTGTTAGTTAAGTAGCCAAGAGAGTTGACCT
1 GACTCTTACTAGTGGTGACCTGATAACTAGGCATGTGTTAGTTAAGTAGCCAAGAGAGTTGACCT
7217476 TATTAACTGAGTAAATAGGTATAACAAAAATATTAATTGCATTTATAATTTTTACTTGTAATACA
66 TATTAACTGAGTAAATAGGTATAACAAAAATATTAATTGCATTTATAATTTTTACTTGTAATACA
7217541 ATCTTTAAGATATATCTAAATGTATATTTGAAAGTC
131 ATCTTTAAGATATATCTAAATGTATATTTGAAAGTC
* *
7217577 GACTCTTACTAGTGGTGACCTGATAACTAGGCATGTGTTAGTTAGGTGGCCAAGAGAGTTGACCT
1 GACTCTTACTAGTGGTGACCTGATAACTAGGCATGTGTTAGTTAAGTAGCCAAGAGAGTTGACCT
*
7217642 TGTTAACTGAGTAAATAGGTATAACAAAAATATTAATTGCATTTATAATTTTTACTTGTAATACA
66 TATTAACTGAGTAAATAGGTATAACAAAAATATTAATTGCATTTATAATTTTTACTTGTAATACA
*
7217707 ATCTTTAAGATATATCTAAATGTATGTTTG
131 ATCTTTAAGATATATCTAAATGTATATTTG
7217737 CCAGATAAAG
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
166 156 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (166 bp):
GACTCTTACTAGTGGTGACCTGATAACTAGGCATGTGTTAGTTAAGTAGCCAAGAGAGTTGACCT
TATTAACTGAGTAAATAGGTATAACAAAAATATTAATTGCATTTATAATTTTTACTTGTAATACA
ATCTTTAAGATATATCTAAATGTATATTTGAAAGTC
Found at i:7222464 original size:27 final size:28
Alignment explanation
Indices: 7222433--7222495 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
7222423 ATATTATGAG
*
7222433 TTAA-TGTT-GAATTTTATTATTTATATT
1 TTAATTGTTGGAATTTTATTA-CTATATT
*
7222460 TTAATTTTTTGGAATTTTATTACTATATTT
1 TTAA-TTGTTGGAATTTTATTACTATA-TT
7222490 TTAATT
1 TTAATT
7222496 TTTTTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
27 4 0.13
29 9 0.30
30 17 0.57
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (28 bp):
TTAATTGTTGGAATTTTATTACTATATT
Found at i:7222497 original size:29 final size:30
Alignment explanation
Indices: 7222441--7222499 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
7222431 AGTTAATGTT
*
7222441 GAATTTTATTATTTATATTTTAATTTTTTG
1 GAATTTTATTATATATATTTTAATTTTTTG
7222471 GAATTTTATTACTATAT-TTTTAATTTTTT
1 GAATTTTATTA-TATATATTTTAATTTTTT
7222500 TTTTAAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (30 bp):
GAATTTTATTATATATATTTTAATTTTTTG
Found at i:7222816 original size:2 final size:2
Alignment explanation
Indices: 7222809--7222837 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7222799 AATACAAGTG
7222809 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 T
7222838 GATTTTGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7223038 original size:10 final size:10
Alignment explanation
Indices: 7223023--7223053 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
7223013 AAGTTGAAAC
7223023 AAATATATAT
1 AAATATATAT
7223033 AAATATATAT
1 AAATATATAT
*
7223043 ATATATATAT
1 AAATATATAT
7223053 A
1 A
7223054 GAGAGAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AAATATATAT
Found at i:7240692 original size:32 final size:33
Alignment explanation
Indices: 7240651--7240715 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
7240641 GACTTCTGAG
*
7240651 CTCAAAATAAAGAAACTTC-TTAGAATATGTTA
1 CTCAAAATAAACAAACTTCTTTAGAATATGTTA
7240683 CTCAAAATAAACAAACTTCTTTAGAATATGTTA
1 CTCAAAATAAACAAACTTCTTTAGAATATGTTA
7240716 AGTTTCAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.58
33 13 0.42
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (33 bp):
CTCAAAATAAACAAACTTCTTTAGAATATGTTA
Found at i:7244629 original size:2 final size:2
Alignment explanation
Indices: 7244622--7244658 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7244612 TTGTTAAACT
7244622 TA TA 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 TA TA T
7244659 TCCTACCTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7245252 original size:12 final size:12
Alignment explanation
Indices: 7245232--7245264 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7245222 ACTTTGTGTG
*
7245232 ATGACTATGACT
1 ATGAATATGACT
7245244 ATGAATATGACT
1 ATGAATATGACT
7245256 ATGAA-ATGA
1 ATGAATATGA
7245265 AGTGTGTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.30
Consensus pattern (12 bp):
ATGAATATGACT
Found at i:7246049 original size:31 final size:31
Alignment explanation
Indices: 7246013--7246076 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
7246003 ATATGAATAA
7246013 ATATGAATAACATGGATATACAAAAATAAAC
1 ATATGAATAACATGGATATACAAAAATAAAC
* * *
7246044 ATATGACTAGCATGGATATACATAAATAAAC
1 ATATGAATAACATGGATATACAAAAATAAAC
7246075 AT
1 AT
7246077 GACTAACATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.25
Consensus pattern (31 bp):
ATATGAATAACATGGATATACAAAAATAAAC
Found at i:7246091 original size:29 final size:29
Alignment explanation
Indices: 7246008--7246114 Score: 83
Period size: 31 Copynumber: 3.7 Consensus size: 29
7245998 ATACGATATG
* * ** *
7246008 AATAAATATGAATAACATGGATATACAAA
1 AATAAACATGACTAACATAAATATACATA
* **
7246037 AATAAACATATGACTAGCATGGATATACATA
1 AATAAAC--ATGACTAACATAAATATACATA
*
7246068 AATAAACATGACTAACATAAATATATAT-
1 AATAAACATGACTAACATAAATATACATA
* *
7246096 AA-AAACACGACTAAAATAA
1 AATAAACATGACTAACATAA
7246115 TAAATAATTA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
27 15 0.23
28 2 0.03
29 23 0.35
31 26 0.39
ACGTcount: A:0.57, C:0.11, G:0.08, T:0.23
Consensus pattern (29 bp):
AATAAACATGACTAACATAAATATACATA
Found at i:7253178 original size:20 final size:21
Alignment explanation
Indices: 7253132--7253193 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
7253122 TTTGATTCGA
7253132 TTTAAAATTAATAAAATATTATTT
1 TTTAAAA-T-ATAAAATATTA-TT
7253156 TTTAAAATATAAAATATTATT
1 TTTAAAATATAAAATATTATT
*
7253177 TTTTAAATAT-AAATATT
1 TTTAAAATATAAAATATT
7253194 TAAATTATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
20 7 0.19
21 11 0.30
22 11 0.30
23 1 0.03
24 7 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTAAAATATAAAATATTATT
Found at i:7253184 original size:21 final size:22
Alignment explanation
Indices: 7253132--7253193 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 22
7253122 TTTGATTCGA
7253132 TTTAAAATTAATAAAATATTATTT
1 TTTAAAA-T-ATAAAATATTATTT
7253156 TTTAAAATATAAAATATTATTT
1 TTTAAAATATAAAATATTATTT
7253178 TTT-AAATAT-AAATATT
1 TTTAAAATATAAAATATT
7253194 TAAATTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.18
21 6 0.16
22 17 0.45
23 1 0.03
24 7 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTAAAATATAAAATATTATTT
Found at i:7254755 original size:11 final size:10
Alignment explanation
Indices: 7254735--7254803 Score: 52
Period size: 11 Copynumber: 6.6 Consensus size: 10
7254725 GGATAAAATA
7254735 TTATTTATTT
1 TTATTTATTT
7254745 TTATCTTATTT
1 TTAT-TTATTT
7254756 TTA-TT-TTT
1 TTATTTATTT
*
7254764 GTATTTATATT
1 TTATTTAT-TT
*
7254775 TTATGGATATTT
1 TTAT--TTATTT
*
7254787 TAACTTTATTT
1 TTA-TTTATTT
7254798 TTATTT
1 TTATTT
7254804 TTATTCTTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
8 5 0.11
9 4 0.09
10 8 0.17
11 21 0.46
12 4 0.09
13 4 0.09
ACGTcount: A:0.22, C:0.03, G:0.04, T:0.71
Consensus pattern (10 bp):
TTATTTATTT
Found at i:7254763 original size:18 final size:18
Alignment explanation
Indices: 7254733--7254778 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
7254723 ATGGATAAAA
7254733 TATTATTTA-TTTT-TATCT
1 TATT-TTTATTTTTGTAT-T
7254751 TATTTTTATTTTTGTATT
1 TATTTTTATTTTTGTATT
7254769 TATATTTTAT
1 TAT-TTTTAT
7254779 GGATATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.16
18 12 0.48
19 9 0.36
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (18 bp):
TATTTTTATTTTTGTATT
Found at i:7254978 original size:23 final size:24
Alignment explanation
Indices: 7254935--7254983 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
7254925 ATTTCAAATA
7254935 AAAATATATTAATTCTAATTAATTT
1 AAAATATATTAATTCTAATT-ATTT
7254960 AAAATA-A-TAATT-TATATTATTT
1 AAAATATATTAATTCTA-ATTATTT
7254982 AA
1 AA
7254984 TAAAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 8 0.35
23 8 0.35
24 1 0.04
25 6 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
AAAATATATTAATTCTAATTATTT
Found at i:7260328 original size:11 final size:11
Alignment explanation
Indices: 7260314--7260339 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7260304 TAAAATTAAA
7260314 AAATATTTATT
1 AAATATTTATT
7260325 AAATATTTATT
1 AAATATTTATT
7260336 AAAT
1 AAAT
7260340 GAGTATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATATTTATT
Found at i:7260524 original size:29 final size:29
Alignment explanation
Indices: 7260462--7260548 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
7260452 TGTTCTTGTA
* ** *
7260462 TATATTCGTATTAATCGTATTTATTCGTA
1 TATATTCATATTAATCGTATTTATTTATG
*
7260491 CATATTCATATTAATCGTATTTATTTATG
1 TATATTCATATTAATCGTATTTATTTATG
* * **
7260520 TATATT-TTATTATTTTTATTTATTTATG
1 TATATTCATATTAATCGTATTTATTTATG
7260548 T
1 T
7260549 CACATTTAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 19 0.40
29 29 0.60
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (29 bp):
TATATTCATATTAATCGTATTTATTTATG
Found at i:7263211 original size:2 final size:2
Alignment explanation
Indices: 7263204--7263231 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7263194 ATTAATTAAC
7263204 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
7263232 ATAAGACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7263439 original size:3 final size:3
Alignment explanation
Indices: 7263431--7263461 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7263421 TTTCTTATAT
7263431 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7263462 AAACAAAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7269398 original size:22 final size:22
Alignment explanation
Indices: 7269372--7269433 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
7269362 GGTTCGGGTT
7269372 TAATTTATTAAATTTTAAAGTTA
1 TAATTTATTAAATTTTAAA-TTA
*
7269395 -AA-TTATTTAATTTTAAATTA
1 TAATTTATTAAATTTTAAATTA
**
7269415 TTTTTTATTAAAATTTTAA
1 TAATTTATT-AAATTTTAA
7269434 GTTTTTTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 3 0.09
21 14 0.44
22 7 0.22
23 8 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TAATTTATTAAATTTTAAATTA
Found at i:7271323 original size:622 final size:618
Alignment explanation
Indices: 7269774--7271933 Score: 2479
Period size: 621 Copynumber: 3.5 Consensus size: 618
7269764 GTATATCCAT
* **
7269774 CAAAGTGGACAAATTTCGTCAATATCTTATTCAAATTCTGATGAAGTATTGATG----A-ATTTG
1 CAAAGTGGACAAATTTCGTCAATATCTTATTCAAATTCTAATGAAGTATTGATGAACCACAAATG
* * *
7269834 AAAAAAAATCAAGCACTTTAGATCACAAGTGAAAATTGAATCTTAACAAAACCATCATGAAATTA
66 AAAAAAAATCAAGAAATTTAGGTCACAAGTGAAAATTGAATCTTAACAAAACCATCATGAAATTA
* * * *
7269899 TAATGGTACAATTTACTCAAAAAAATTGCTAATGACATTTATTTTAGGATATATGAACTCTCGTT
131 TAATGGTGCAATTTACTCAAAAAAATTGCTAATGACATTCATTCTAGGATATATGAACTCTCATT
* * * ** * *
7269964 CATGTACGCGAGTCCATTATTATTGTAAACACTTAATTTTGTTGAGATTAATTTGAGTTTATTCG
196 CATGTACGCGAGTCCATTATCACTGTAAACACTTAATTTTATCCAAATTAATTCGAGTTTATTCG
* * * * * *
7270029 ATTTTTAAACTTGATTTGAATGTTTTGATTTGAACCAGCTGAAGTGTTTAATTGAATTAAGTTTG
261 ATTTTTAAACCTGATCTGAACGTTTTAATTTGAGCCAGCTGAAGTGTTTAATTGAATTGAGTTTG
** * * * * ** **
7270094 TTTGAGCTTGCCTCGGATTAATC-TTTCTTTGACCGTTTTACATGAATTAAAGTCCAATTTAATT
326 TTTGAGCTTGTTTCGAATTAATCTTTTTTTTTACCATTTTACATGACCTAAAGTCCAATTCGATT
* *
7270158 TAATTTTGGATCAATCCAAAATTCAATCACTTGGACTTCAAAGCCTAATTGAAATCTAAAGTTCA
391 TAATTTTGGATCAATCCAAAATTCAATCACTTGGACTTCAAAGCC-AATTGAAGTCCAAAGTTCA
** * *
7270223 AAATTGAGCCTAAATTAAATTTTAAGGCCCAATATTATTATATCAAAATTAATTAAATTAATAAA
455 ATTTTGAGCCTAAATTAAATTTTAAGGCCCAATATCATTTTATCAAAATTAATTAAATTAATAAA
* * * * ****
7270288 AAATGAGTTAAATAAAAATTCTCGTTAAAAAAAAAAGTGAAAAAAAAAAGGGTTTTCTGCCATGG
520 AATTGAATTAAATAAAAATTATCGTTAAAAAAAAAAGAG-AAAAAAAAA-GCCAGT-TGCCATGG
* * * *
7270353 TAGCCTTTCTCTCATCCCTTTCTT--TATATTGCTTTTA
582 TAGCCTTTCCCTCAT-CCTTT-TTCCTAGATTGCCTTCA
* * * * *
7270390 CAAAGTGGACAAACTTCGTTAATATCCTATTCAAATTCTAATGAAGTATTGATGAATCACGAATG
1 CAAAGTGGACAAATTTCGTCAATATCTTATTCAAATTCTAATGAAGTATTGATGAACCACAAATG
* * * * *
7270455 AAAAAAAATCAAGCACTTTAGGTAATAAGTGAAAATTGAAAT-TTAACAAAACCATCATGGAATT
66 AAAAAAAATCAAGAAATTTAGGTCACAAGTGAAAATTG-AATCTTAACAAAACCATCATGAAATT
**
7270519 ATAATGGTGCAATTTACTTGAAAAAATTGCTAATGACATTCATTCTAGGATATATGAACTCTCAT
130 ATAATGGTGCAATTTACTCAAAAAAATTGCTAATGACATTCATTCTAGGATATATGAACTCTCAT
* * * * * * *
7270584 TCATGTACGCCAGTCCATTATCACTGTAGACATTTTATTTTATCTAGATTAATTCGAGTTTTTTC
195 TCATGTACGCGAGTCCATTATCACTGTAAACACTTAATTTTATCCAAATTAATTCGAGTTTATTC
* * * *
7270649 -AGTTTTTAAACCTAATCTGAACGTTTTGATTTGAGCCAGCTAAAGCGTTTAATTGAATTGAGTT
260 GA-TTTTTAAACCTGATCTGAACGTTTTAATTTGAGCCAGCTGAAGTGTTTAATTGAATTGAGTT
** * *
7270713 CATTTGAGTTTGTTTCGAATTAATCTTTTTTTTTTTTACCATTTTACATGACCTAAAGTCTAATT
324 TGTTTGAGCTTGTTTCGAATTAATC---TTTTTTTTTACCATTTTACATGACCTAAAGTCCAATT
*
7270778 CGATTTAATTTTGGATCGATCCAAAATTCAATCACTTGGACTTCAAAGCTCAATTGAAGTCCAAA
386 CGATTTAATTTTGGATCAATCCAAAATTCAATCACTTGGACTTCAAAGC-CAATTGAAGTCCAAA
7270843 GTTCAATTTTGAGCCTAAATTAAATTTTAAGGCCCAATATCATTTTATCAAAATTAATTAAATTA
450 GTTCAATTTTGAGCCTAAATTAAATTTTAAGGCCCAATATCATTTTATCAAAATTAATTAAATTA
* ** * * * **
7270908 ATAAAAATTAAATTAAATACAATTTTTTTTGTTAAAAGAAAAAGAGAAAAAATTAGCCAGTTGCC
515 ATAAAAATTGAATTAAATA-AA-AATTATCGTTAAAAAAAAAAGAGAAAAAAAAAGCCAGTTGCC
* * * *
7270973 ATGGCAGCCTTTCCCTTATCCTTTTTCCCAGATTACCTTCA
578 ATGGTAGCCTTTCCCTCATCCTTTTTCCTAGATTGCCTTCA
* * *
7271014 CAAAGT-GACAAATTTGGTCAATATTTTATTCAAATTCTAACGAAGTATTGATGAACCACAAATG
1 CAAAGTGGACAAATTTCGTCAATATCTTATTCAAATTCTAATGAAGTATTGATGAACCACAAATG
* * *
7271078 -AAAAAAATCAAGAAATTTAGGTCACGAGTGAAAATTGAATCTTAACAAATCCATCATGGAATTA
66 AAAAAAAATCAAGAAATTTAGGTCACAAGTGAAAATTGAATCTTAACAAAACCATCATGAAATTA
* *
7271142 TAATGGTGCAATTTACTCAAAAAAATTGCTAATGACATTCATTTTAGGATATATTAACTCAT-AT
131 TAATGGTGCAATTTACTCAAAAAAATTGCTAATGACATTCATTCTAGGATATATGAACTC-TCAT
* ** *
7271206 TCATGTACACGAGTCTTTTATCACTGTAAATACTTAATTTTATCCAAATTAATTCGAGTTTATTC
195 TCATGTACGCGAGTCCATTATCACTGTAAACACTTAATTTTATCCAAATTAATTCGAGTTTATTC
* * * *
7271271 -AGTTTTTAAACTTGATTTGAACATTTTAATTTGAGCCATCTGAAGTGTTTAATTGAATTGAGTT
260 GA-TTTTTAAACCTGATCTGAACGTTTTAATTTGAGCCAGCTGAAGTGTTTAATTGAATTGAGTT
* * *
7271335 TGTTTGAACTTGTTTCGAATTAAT-ATTTTTTTTACCATTTTACATAAGCC-AAAGTCCAATTCT
324 TGTTTGAGCTTGTTTCGAATTAATCTTTTTTTTTACCATTTTACATGA-CCTAAAGTCCAATTC-
** * *
7271398 G-TTTAATTTTGTTTTAATCCAAGATTCAATCACTTGGACTTCAAAGCCCAATTGAAGTCCAAAG
387 GATTTAATTTTGGATCAATCCAAAATTCAATCACTTGGACTTCAAAG-CCAATTGAAGTCCAAAG
* ** *
7271462 TCCAATTTTGAGCAC-AAATTAAATTTTAAAACCAAATATCATTTTATCAAAATTAATTAAATTA
451 TTCAATTTTGAGC-CTAAATTAAATTTTAAGGCCCAATATCATTTTATCAAAATTAATTAAATTA
* * * ** * * *
7271526 ATAAAAATTGAATTAAGTAAAAGTTATCGTTAAAAAAAAAAAAGAAAAAAAGGGTCAGCTGTCAT
515 ATAAAAATTGAATTAAATAAAAATTATCGTTAAAAAAAAAAGAGAAAAAAAAAGCCAGTTGCCAT
* * ** *
7271591 GATAGCC-TTCCCTCGTCCTCGTTCCTAGATTGTCTTCA
580 GGTAGCCTTTCCCTCATCCTTTTTCCTAGATTGCCTTCA
* * * * * * * *
7271629 TAAAGTGGACGAGTTTCGTTAATATCTTATCCAAAATT-TGATGAAATATTGATGAATCACAAAA
1 CAAAGTGGACAAATTTCGTCAATATCTTATTC-AAATTCTAATGAAGTATTGATGAA-C-C-ACA
** * * *
7271693 AAACAAAAAAAATTAAGAAATTTAGGTTACAAGTGAAAATTGAATCTTAAGAAAACCATCATGAA
62 AATGAAAAAAAATCAAGAAATTTAGGTCACAAGTGAAAATTGAATCTTAACAAAACCATCATGAA
* ** * * * *
7271758 ATTATAATGGTTCAATTTACTTTAAAAAATTTCTAATGACATTCATCCTAGTATATATGAATTCT
127 ATTATAATGGTGCAATTTACTCAAAAAAATTGCTAATGACATTCATTCTAGGATATATGAACTCT
* * * * * * * * * * *
7271823 CATTCGTGTATGCGAGTCCATTGTCACTGTAGATACTTAATTTTGTTCGAATTGATTCAAGTTTG
192 CATTCATGTACGCGAGTCCATTATCACTGTAAACACTTAATTTTATCCAAATTAATTCGAGTTTA
* * *
7271888 TTCGATTTTTAAACCTGATCTAAATGTTTTAATTTGAGCTAGCTGA
257 TTCGATTTTTAAACCTGATCTGAACGTTTTAATTTGAGCCAGCTGA
7271934 CCCCACATGC
Statistics
Matches: 1310, Mismatches: 204, Indels: 56
0.83 0.13 0.04
Matches are distributed among these distances:
615 29 0.02
616 121 0.09
617 8 0.01
618 164 0.13
619 10 0.01
620 199 0.15
621 248 0.19
622 247 0.19
623 56 0.04
624 34 0.03
625 167 0.13
626 10 0.01
627 17 0.01
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (618 bp):
CAAAGTGGACAAATTTCGTCAATATCTTATTCAAATTCTAATGAAGTATTGATGAACCACAAATG
AAAAAAAATCAAGAAATTTAGGTCACAAGTGAAAATTGAATCTTAACAAAACCATCATGAAATTA
TAATGGTGCAATTTACTCAAAAAAATTGCTAATGACATTCATTCTAGGATATATGAACTCTCATT
CATGTACGCGAGTCCATTATCACTGTAAACACTTAATTTTATCCAAATTAATTCGAGTTTATTCG
ATTTTTAAACCTGATCTGAACGTTTTAATTTGAGCCAGCTGAAGTGTTTAATTGAATTGAGTTTG
TTTGAGCTTGTTTCGAATTAATCTTTTTTTTTACCATTTTACATGACCTAAAGTCCAATTCGATT
TAATTTTGGATCAATCCAAAATTCAATCACTTGGACTTCAAAGCCAATTGAAGTCCAAAGTTCAA
TTTTGAGCCTAAATTAAATTTTAAGGCCCAATATCATTTTATCAAAATTAATTAAATTAATAAAA
ATTGAATTAAATAAAAATTATCGTTAAAAAAAAAAGAGAAAAAAAAAGCCAGTTGCCATGGTAGC
CTTTCCCTCATCCTTTTTCCTAGATTGCCTTCA
Found at i:7272968 original size:14 final size:14
Alignment explanation
Indices: 7272951--7272992 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
7272941 AAAAATAAAA
7272951 AAATAAAAAATGAT
1 AAATAAAAAATGAT
7272965 AAATAAAAAA-GAT
1 AAATAAAAAATGAT
*
7272978 --ATAAAAAATAAT
1 AAATAAAAAATGAT
7272990 AAA
1 AAA
7272993 AAGAACAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
11 8 0.33
12 2 0.08
13 3 0.12
14 11 0.46
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (14 bp):
AAATAAAAAATGAT
Found at i:7272968 original size:22 final size:22
Alignment explanation
Indices: 7272938--7273005 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
7272928 TGAAAAATGT
*
7272938 ATGAAAAATAAAAAAATAAAAA
1 ATGATAAATAAAAAAATAAAAA
7272960 ATGATAAATAAAAAAGATATAAAA
1 ATGATAAATAAAAAA-ATA-AAAA
*
7272984 A--AT-AATAAAAAGAACAAAAA
1 ATGATAAATAAAAA-AATAAAAA
7273004 AT
1 AT
7273006 CTTCAAGGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 5 0.12
21 10 0.25
22 17 0.43
23 3 0.08
24 5 0.12
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.16
Consensus pattern (22 bp):
ATGATAAATAAAAAAATAAAAA
Found at i:7274493 original size:29 final size:30
Alignment explanation
Indices: 7274428--7274498 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
7274418 TATTTGAAAT
* *
7274428 AAAAATTTATTGGGATACAAATCAAAAAAC
1 AAAAACTTATTTGGATACAAATCAAAAAAC
*
7274458 AAAAACTTATTTGGATAC-AAT-AAAAATAT
1 AAAAACTTATTTGGATACAAATCAAAAA-AC
*
7274487 ATAAACTTATTT
1 AAAAACTTATTT
7274499 AAGAAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 5 0.14
29 15 0.42
30 16 0.44
ACGTcount: A:0.54, C:0.08, G:0.07, T:0.31
Consensus pattern (30 bp):
AAAAACTTATTTGGATACAAATCAAAAAAC
Found at i:7278289 original size:34 final size:34
Alignment explanation
Indices: 7278240--7278304 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
7278230 AATTTAAAGT
7278240 TTTTTTGAATATATATTTTTAATAAATTATATAA
1 TTTTTTGAATATATATTTTTAATAAATTATATAA
* * *
7278274 TTTTTTGGATGTATATTTTTGATAAATTATA
1 TTTTTTGAATATATATTTTTAATAAATTATA
7278305 CTAAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (34 bp):
TTTTTTGAATATATATTTTTAATAAATTATATAA
Found at i:7278322 original size:18 final size:18
Alignment explanation
Indices: 7278299--7278334 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7278289 TTTTTGATAA
*
7278299 ATTATACTAAAAATATAT
1 ATTATACTAAAAACATAT
*
7278317 ATTATATTAAAAACATAT
1 ATTATACTAAAAACATAT
7278335 TCGAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (18 bp):
ATTATACTAAAAACATAT
Found at i:7278459 original size:33 final size:33
Alignment explanation
Indices: 7278422--7278504 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
7278412 AAAATATAAG
7278422 AATTTTAAAAT-TTTTCAAATATACAAATTCAAA
1 AATTTTAAAATATTTTC-AATATACAAATTCAAA
* * *
7278455 AATTTTTAAATATTTTCGATATACAAATTTAAA
1 AATTTTAAAATATTTTCAATATACAAATTCAAA
*
7278488 AATTTTTAAGATATTTT
1 AA-TTTTAAAATATTTT
7278505 GAATTTGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
33 26 0.60
34 17 0.40
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (33 bp):
AATTTTAAAATATTTTCAATATACAAATTCAAA
Found at i:7280558 original size:13 final size:12
Alignment explanation
Indices: 7280540--7280564 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7280530 TAATTTTTTA
7280540 AATTTTTTATTT
1 AATTTTTTATTT
7280552 AATTTTTTATTT
1 AATTTTTTATTT
7280564 A
1 A
7280565 TATATATTTA
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
AATTTTTTATTT
Found at i:7280595 original size:14 final size:14
Alignment explanation
Indices: 7280565--7280607 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
7280555 TTTTTATTTA
7280565 TATATATTTATATAAT
1 TATATATTTA-A-AAT
7280581 TATATATTTAAAAT
1 TATATATTTAAAAT
7280595 T-TATATTTTAAAA
1 TATATA-TTTAAAA
7280608 AAATTATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.15
14 11 0.42
15 1 0.04
16 10 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATATTTAAAAT
Found at i:7280609 original size:16 final size:15
Alignment explanation
Indices: 7280578--7280635 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
7280568 ATATTTATAT
7280578 AATTATATATTT-AAA
1 AATTATAT-TTTAAAA
*
7280593 ATTTATATTTTAAAAA
1 AATTATATTTT-AAAA
7280609 AATTATATTTTAAAA
1 AATTATATTTTAAAA
*
7280624 AATAATATTTTA
1 AATTATATTTTA
7280636 TTAATTTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 3 0.08
15 22 0.58
16 13 0.34
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTATATTTTAAAA
Found at i:7283758 original size:34 final size:33
Alignment explanation
Indices: 7283654--7283770 Score: 117
Period size: 34 Copynumber: 3.5 Consensus size: 33
7283644 TTACATTTTA
* * ** * *
7283654 AAAATGTTTAAAAATTTTTGGATTTACAAATTC
1 AAAATATTTAAAAATTTTTGAATTTGTATATTG
* *
7283687 AAAATATCTTAAAAATTTTTAAATTTGTATATCG
1 AAAATAT-TTAAAAATTTTTGAATTTGTATATTG
*
7283721 AAAATCTTTAAAAATTTTTGAATTTGTATATTTG
1 AAAATATTTAAAAATTTTTGAATTTGTATA-TTG
* *
7283755 AAAATTTTTTAAAATT
1 AAAATATTTAAAAATT
7283771 CTTATATTTT
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
33 28 0.41
34 41 0.59
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (33 bp):
AAAATATTTAAAAATTTTTGAATTTGTATATTG
Found at i:7283890 original size:18 final size:18
Alignment explanation
Indices: 7283864--7283899 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7283854 TTTTTGTCGA
*
7283864 ATATGTTTTTAATATAAT
1 ATATATTTTTAATATAAT
*
7283882 ATATATTTTTAGTATAAT
1 ATATATTTTTAATATAAT
7283900 TTATCAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
ATATATTTTTAATATAAT
Found at i:7283932 original size:34 final size:34
Alignment explanation
Indices: 7283894--7283958 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
7283884 ATATTTTTAG
7283894 TATAATTTATCAAAAATATACATCCAAAAAATTA
1 TATAATTTATCAAAAATATACATCCAAAAAATTA
* * *
7283928 TATAATTTATTAAAAATATATATTCAAAAAA
1 TATAATTTATCAAAAATATACATCCAAAAAA
7283959 CTTTAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (34 bp):
TATAATTTATCAAAAATATACATCCAAAAAATTA
Found at i:7287303 original size:1 final size:1
Alignment explanation
Indices: 7287270--7287294 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
7287260 CTCTTCTTCC
7287270 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
7287295 CTCTTTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:7288895 original size:2 final size:2
Alignment explanation
Indices: 7288888--7288913 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7288878 TATTAAAAAT
7288888 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
7288914 GAAAAATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7291374 original size:18 final size:18
Alignment explanation
Indices: 7291351--7291388 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
7291341 ATTATATTAT
7291351 TAGAAAAAACCAATCTTA
1 TAGAAAAAACCAATCTTA
*
7291369 TAGAAAAAATCAATCTTA
1 TAGAAAAAACCAATCTTA
7291387 TA
1 TA
7291389 TTACACATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.26
Consensus pattern (18 bp):
TAGAAAAAACCAATCTTA
Found at i:7296340 original size:3 final size:3
Alignment explanation
Indices: 7296332--7296369 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
7296322 TTCAATTGGA
7296332 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7296370 CAACAACAAC
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7298229 original size:22 final size:22
Alignment explanation
Indices: 7298184--7298238 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
7298174 GAATAAGCCC
* *
7298184 ATTTTA-TATTT-TTATTTTAT
1 ATTTTATTATTTATTAATATAT
7298204 -TTTTATTATTTATTAATATAT
1 ATTTTATTATTTATTAATATAT
7298225 ATTTTATTATTTAT
1 ATTTTATTATTTAT
7298239 CTATTAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 5 0.17
20 5 0.17
21 7 0.23
22 13 0.43
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
ATTTTATTATTTATTAATATAT
Found at i:7298244 original size:33 final size:32
Alignment explanation
Indices: 7298198--7298272 Score: 91
Period size: 33 Copynumber: 2.4 Consensus size: 32
7298188 TATATTTTTA
*
7298198 TTTTATTT-T-TATTATTTATTAATATATATT
1 TTTTATTTATCTATTAATTATTAATATATATT
* *
7298228 TTATTATTTATCTATTAATTATTAGTATGTATT
1 TT-TTATTTATCTATTAATTATTAATATATATT
*
7298261 TTTTTTTTATCT
1 TTTTATTTATCT
7298273 TGATTGATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 2 0.05
31 6 0.16
32 10 0.26
33 20 0.53
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (32 bp):
TTTTATTTATCTATTAATTATTAATATATATT
Found at i:7299030 original size:3 final size:3
Alignment explanation
Indices: 7299017--7299060 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
7299007 TTTTTCTTAT
*
7299017 TTA TTA ATA TTA TTA TT- TCT- TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
7299061 AATTAGAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:7299041 original size:20 final size:20
Alignment explanation
Indices: 7299016--7299053 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7299006 TTTTTTCTTA
7299016 TTTATTAATATTATTATTTC
1 TTTATTAATATTATTATTTC
*
7299036 TTTATTATTATTATTATT
1 TTTATTAATATTATTATT
7299054 ATTATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTATTAATATTATTATTTC
Found at i:7299043 original size:23 final size:23
Alignment explanation
Indices: 7299009--7299056 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
7298999 AAGGTTTTTT
7299009 TTTCTTATTTATTAATATTATTA
1 TTTCTTATTTATTAATATTATTA
*
7299032 TTTCTT-TATTATTATTATTATTA
1 TTTCTTAT-TTATTAATATTATTA
7299055 TT
1 TT
7299057 ATTAAATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTCTTATTTATTAATATTATTA
Found at i:7299065 original size:23 final size:23
Alignment explanation
Indices: 7299017--7299065 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
7299007 TTTTTCTTAT
**
7299017 TTATTAATATTATTATTTCTTTA
1 TTATTAATATTATTATTTCTAAA
*
7299040 TTATTATTATTATTATTAT-TAAA
1 TTATTAATATTATTATT-TCTAAA
7299063 TTA
1 TTA
7299066 GAATAATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
TTATTAATATTATTATTTCTAAA
Found at i:7299178 original size:57 final size:57
Alignment explanation
Indices: 7299118--7299475 Score: 345
Period size: 58 Copynumber: 6.2 Consensus size: 57
7299108 TTTTTAATGA
* *
7299118 TTTTCTT-AAAATAAAATTCTAAAAAAATTATTTTTGAGGAAAAGTTGAAAGCATAAA
1 TTTTCTTAAAAATAAAATTCTAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATAAT
* ** *
7299175 TTTTCTTTGAAAATAAGTTTTCT-AAAAAATATTTTCGAGGAAAAGTTGAAAGTATCAAT
1 TTTTC-TTAAAAATAA-AATTCTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTAT-AAT
** * * * *
7299234 TTTTCTTAAAAATAATTTTCT-GAAAAATATTTTTGAGGAAAAGGTAAAAATATCAAT
1 TTTTCTTAAAAATAAAATTCTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTAT-AAT
* * *
7299291 TTTCCTTAAAAATAAAATTTTTAAAAAATATTTTTGAGGAAAAG-TGAAAAGTATTAAT
1 TTTTCTTAAAAATAAAATTCTAAAAAAATATTTTTGAGGAAAAGTTG-AAAGTA-TAAT
* * * *
7299349 TTTTCTTAAAAATAAAGTTTTTAAAAAAATATTTTTGAGAAAAAATTGAAAGTATCAAT
1 TTTTCTTAAAAATAAA-ATTCTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTAT-AAT
* * * *
7299408 TTTTCTCT-AAATTAAAGTT-TCAGAAAAATA-TTTTGA-GAAAAGTTGAAAGTACCAAT
1 TTTTCT-TAAAAATAAAATTCT-AAAAAAATATTTTTGAGGAAAAGTTGAAAGTA-TAAT
7299464 TTTTCTTAAAAA
1 TTTTCTTAAAAA
7299476 AAATGTTTTA
Statistics
Matches: 257, Mismatches: 30, Indels: 29
0.81 0.09 0.09
Matches are distributed among these distances:
55 1 0.00
56 25 0.10
57 67 0.26
58 90 0.35
59 67 0.26
60 7 0.03
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.38
Consensus pattern (57 bp):
TTTTCTTAAAAATAAAATTCTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATAAT
Found at i:7299266 original size:115 final size:115
Alignment explanation
Indices: 7299118--7299492 Score: 410
Period size: 115 Copynumber: 3.2 Consensus size: 115
7299108 TTTTTAATGA
** *
7299118 TTTTCTT-AAAATAAAATTCTAAAAAAATTATTTTTGAGGAAAAGTTGAAAGCATAAATTTTCTT
1 TTTTCTTAAAAATAATTTTCTAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATAAATTTTCTT
7299182 TGAAAAT-AAGTTTTCTAAAAAATATTTTCGAGGAAAAGTTGAAAGTATCAAT
65 T-AAAATAAAGTTTTCTAAAAAATATTTT-GAGGAAAAGTTGAAAGTATCAAT
* * * * *
7299234 TTTTCTTAAAAATAATTTTCT-GAAAAATATTTTTGAGGAAAAGGTAAAAATATCAATTTTCCTT
1 TTTTCTTAAAAATAATTTTCTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATAAATTTT-CTT
* * *
7299298 AAAAATAAAATTTT-TAAAAAATATTTTTGAGGAAAAG-TGAAAAGTATTAAT
65 TAAAATAAAGTTTTCTAAAAAATA-TTTTGAGGAAAAGTTG-AAAGTATCAAT
* * *
7299349 TTTTCTTAAAAATAAAGTTTT-TAAAAAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTC
1 TTTTCTTAAAAAT-AA-TTTTCTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTAT-AAATTTTC
* * *
7299413 TCTAAATTAAAG-TTTC-AGAAAAATATTTTGA-GAAAAGTTGAAAGTACCAAT
63 TTTAAAATAAAGTTTTCTA-AAAAATATTTTGAGGAAAAGTTGAAAGTATCAAT
*
7299464 TTTTCTTAAAAAAAATGTTT-TAAAGAAAA
1 TTTTCTTAAAAATAAT-TTTCTAAA-AAAA
7299493 GTTGAAAGTA
Statistics
Matches: 219, Mismatches: 26, Indels: 29
0.80 0.09 0.11
Matches are distributed among these distances:
113 1 0.00
114 11 0.05
115 105 0.48
116 40 0.18
117 57 0.26
118 5 0.02
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (115 bp):
TTTTCTTAAAAATAATTTTCTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATAAATTTTCTTT
AAAATAAAGTTTTCTAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAAT
Found at i:7299267 original size:15 final size:15
Alignment explanation
Indices: 7299232--7299267 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7299222 GAAAGTATCA
*
7299232 ATTTTTCTTAAAAAT
1 ATTTTTCTGAAAAAT
*
7299247 AATTTTCTGAAAAAT
1 ATTTTTCTGAAAAAT
7299262 ATTTTT
1 ATTTTT
7299268 GAGGAAAAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (15 bp):
ATTTTTCTGAAAAAT
Found at i:7299670 original size:23 final size:23
Alignment explanation
Indices: 7299628--7299671 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
7299618 TGAATCATTA
* **
7299628 TTCTTTTTTTTTTTCCATTTTAT
1 TTCTTTTTCTTTTTAAATTTTAT
7299651 TTCTTTTTCTTTTTAAATTTT
1 TTCTTTTTCTTTTTAAATTTT
7299672 TTTAATGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (23 bp):
TTCTTTTTCTTTTTAAATTTTAT
Found at i:7301922 original size:5 final size:5
Alignment explanation
Indices: 7301897--7301964 Score: 72
Period size: 5 Copynumber: 13.8 Consensus size: 5
7301887 TATTATGCTT
*
7301897 AAAA- AAAAG AAAA- AAATG AAAAG AAAATG AAAAG AAAATG AAAA- AAAA-
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG AAAA-G AAAAG AAAAG
7301945 AAAAG AAAAAG AAAAG AAAA
1 AAAAG -AAAAG AAAAG AAAA
7301965 AGGGAATAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
4 15 0.27
5 26 0.46
6 15 0.27
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.04
Consensus pattern (5 bp):
AAAAG
Found at i:7301923 original size:11 final size:11
Alignment explanation
Indices: 7301909--7301964 Score: 82
Period size: 11 Copynumber: 5.4 Consensus size: 11
7301899 AAAAAAGAAA
7301909 AAAATGAAAAG
1 AAAATGAAAAG
7301920 AAAATGAAAAG
1 AAAATGAAAAG
7301931 AAAATGAAAA-
1 AAAATGAAAAG
7301941 AAAA--AAAAG
1 AAAATGAAAAG
*
7301950 AAAAAGAAAAG
1 AAAATGAAAAG
7301961 AAAA
1 AAAA
7301965 AGGGAATAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.10
9 4 0.10
10 4 0.10
11 30 0.71
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.05
Consensus pattern (11 bp):
AAAATGAAAAG
Found at i:7301929 original size:19 final size:19
Alignment explanation
Indices: 7301897--7301965 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
7301887 TATTATGCTT
* *
7301897 AAAAAAAAGAAA-AAAATG
1 AAAAAAAAAAAAGAAAAAG
*
7301915 AAAAGAAAATGAAAAGAAAATG
1 AAAA-AAAA--AAAAGAAAAAG
7301937 AAAAAAAAAAAAGAAAAAG
1 AAAAAAAAAAAAGAAAAAG
7301956 AAAAGAAAAA
1 AAAA-AAAAA
7301966 GGGAATAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 4 0.09
19 18 0.41
20 5 0.11
21 7 0.16
22 10 0.23
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (19 bp):
AAAAAAAAAAAAGAAAAAG
Found at i:7301965 original size:11 final size:11
Alignment explanation
Indices: 7301900--7301966 Score: 72
Period size: 11 Copynumber: 6.5 Consensus size: 11
7301890 TATGCTTAAA
7301900 AAAAAG-AAA-
1 AAAAAGAAAAG
*
7301909 AAAATGAAAAG
1 AAAAAGAAAAG
*
7301920 AAAATGAAAAG
1 AAAAAGAAAAG
*
7301931 AAAATG-AAA-
1 AAAAAGAAAAG
7301940 AAAAA-AAAAG
1 AAAAAGAAAAG
7301950 AAAAAGAAAAG
1 AAAAAGAAAAG
7301961 AAAAAG
1 AAAAAG
7301967 GGAATAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
9 12 0.24
10 11 0.22
11 28 0.55
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:7301966 original size:6 final size:6
Alignment explanation
Indices: 7301900--7301966 Score: 57
Period size: 6 Copynumber: 11.0 Consensus size: 6
7301890 TATGCTTAAA
* * * *
7301900 AAAAAG AAAAAA ATGAAAAG AAAATG -AAAAG AAAATG AAAAAAA AAAAAG
1 AAAAAG AAAAAG A--AAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG
7301950 AAAAAG -AAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG
7301967 GGAATAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
5 9 0.19
6 30 0.62
7 4 0.08
8 5 0.10
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:7301977 original size:30 final size:30
Alignment explanation
Indices: 7301900--7301966 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
7301890 TATGCTTAAA
* *
7301900 AAAAAGAAAAAAATGAAAAGAAAATGAAAAG
1 AAAAAGAAAAAAA-AAAAAGAAAAAGAAAAG
*
7301931 AAAATGAAAAAAAAAAAAGAAAAAGAAAAG
1 AAAAAGAAAAAAAAAAAAGAAAAAGAAAAG
7301961 AAAAAG
1 AAAAAG
7301967 GGAATAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 20 0.62
31 12 0.38
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (30 bp):
AAAAAGAAAAAAAAAAAAGAAAAAGAAAAG
Found at i:7301977 original size:36 final size:37
Alignment explanation
Indices: 7301899--7301978 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 37
7301889 TTATGCTTAA
7301899 AAAAAAGAAAAAAATGAAAAGAAAATGAAAAGAAAAT
1 AAAAAAGAAAAAAATGAAAAGAAAATGAAAAGAAAAT
* **
7301936 GAAAAA-AAAAAAA-GAAAAAGAAAA-GAAAAAGGGAAT
1 AAAAAAGAAAAAAATG-AAAAGAAAATG-AAAAGAAAAT
7301972 AAAAAAG
1 AAAAAAG
7301979 GAGAACTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
35 2 0.06
36 29 0.81
37 5 0.14
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (37 bp):
AAAAAAGAAAAAAATGAAAAGAAAATGAAAAGAAAAT
Found at i:7303036 original size:44 final size:44
Alignment explanation
Indices: 7302970--7303314 Score: 455
Period size: 44 Copynumber: 7.9 Consensus size: 44
7302960 CAAAGAGCAA
*
7302970 TTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
** * *
7303014 TTTA-TTTTTCAAAAGTTATTGAGCCTCTGCTTAGAAGAGCTTTG
1 TTTATTTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
* * * *
7303058 TTTATTTTACTAAAAGTCGTTGAGCCTCTGTTTAGAGGAGTTTTG
1 TTTATTTT-TTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
7303103 TTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
* * * * *
7303147 TTTATTTTTCCAAAGTCCTGGAGCCTCTGATTAAAAGAGCTTTG
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
* *
7303191 TTTATTTTTTCAAAGTCGTTAAGCCTCTGATTAGAAGAGCTTTAG
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT-G
* *
7303236 -TTA-TTTTTCAAAGTTG-TGAGCCTCTGATTAGAGAAGCTTTG
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
* *
7303277 TTTATTTTTTCAAAGTGGTTGAGCCTCTGCTTAGAGGA
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGA
7303315 ACTTAATCAA
Statistics
Matches: 262, Mismatches: 32, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.00
42 24 0.09
43 30 0.11
44 166 0.63
45 40 0.15
46 1 0.00
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.43
Consensus pattern (44 bp):
TTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
Found at i:7303541 original size:14 final size:13
Alignment explanation
Indices: 7303515--7303564 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
7303505 TGTATTTTTA
7303515 TTTTATT-TTATT
1 TTTTATTATTATT
7303527 TCTTTATTATTATT
1 T-TTTATTATTATT
* *
7303541 TATTAATATATATT
1 TTTTATTAT-TATT
7303555 TTTTATTATT
1 TTTTATTATT
7303565 TATCTATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 1 0.03
13 13 0.42
14 17 0.55
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTATTATTATT
Found at i:7303573 original size:35 final size:35
Alignment explanation
Indices: 7303520--7303593 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
7303510 TTTTATTTTA
* *
7303520 TTTTATTTCTTTATTATTATTTATTAATATATATT
1 TTTTATTTATTTATTATTAATTATTAATATATATT
*
7303555 TTTTA-TTATTTATCTATTAATTATTAATATGTATT
1 TTTTATTTATTTAT-TATTAATTATTAATATATATT
7303590 TTTT
1 TTTT
7303594 TGATTTTATC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 7 0.20
35 28 0.80
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (35 bp):
TTTTATTTATTTATTATTAATTATTAATATATATT
Found at i:7303602 original size:35 final size:35
Alignment explanation
Indices: 7303529--7303613 Score: 102
Period size: 35 Copynumber: 2.4 Consensus size: 35
7303519 ATTTTATTTC
* *
7303529 TTTAT-TATTATTTATTAATATATATTTTTTATTA
1 TTTATCTATTAATTATTAATATATATTTTTTATGA
*
7303563 TTTATCTATTAATTATTAATATGTATTTTTT-TGA
1 TTTATCTATTAATTATTAATATATATTTTTTATGA
7303597 TTTTATCTTGATTAATT
1 -TTTATC-T-ATTAATT
7303614 TTCAGCTAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
34 7 0.16
35 29 0.66
36 1 0.02
37 7 0.16
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (35 bp):
TTTATCTATTAATTATTAATATATATTTTTTATGA
Found at i:7303697 original size:13 final size:13
Alignment explanation
Indices: 7303679--7303704 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7303669 GCAGAATTGG
7303679 GATTGAATTCAAA
1 GATTGAATTCAAA
7303692 GATTGAATTCAAA
1 GATTGAATTCAAA
7303705 TCCCAAAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
GATTGAATTCAAA
Found at i:7304285 original size:3 final size:3
Alignment explanation
Indices: 7304279--7304318 Score: 55
Period size: 3 Copynumber: 13.0 Consensus size: 3
7304269 TTTTTCTTAT
7304279 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTGA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA TTA
7304319 GAATAATTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 26 0.76
4 6 0.18
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:7304346 original size:5 final size:5
Alignment explanation
Indices: 7304336--7304368 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
7304326 TTGGTATTCC
7304336 TTATT TTATTT TTATT TTATT TTATT TTATT TT
1 TTATT TTA-TT TTATT TTATT TTATT TTATT TT
7304369 TTTAATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:7304468 original size:58 final size:58
Alignment explanation
Indices: 7304399--7304685 Score: 305
Period size: 58 Copynumber: 5.0 Consensus size: 58
7304389 AATATTCTAA
**
7304399 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTT
1 AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTT
* * *
7304457 AAAAAATATTTTCGAAAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAA-TTTTCT
1 AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTT
* * * * * * **
7304514 AAAAAATATTTCTGAGAAAAAGGTAAAAGAATCAATTTTTCTTGAAAATAAAATTTTT
1 AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTT
* * * *
7304572 AAAAAATATTTTTGAAAAAAAGTTGAAAATATCAATTTTCCTCGCAAATAAAG--TTTC
1 AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGTTTTTT
* * * * *
7304629 AGAAAAATA-TTTTGAAAAAAAATT-AGAAGTACCAATTTTTCTTAAAAAAAATGTTTT
1 A-AAAAATATTTTTGAAAAAAAGTTGA-AAGTATCAATTTTCCTTGAAAATAA-GTTTT
7304686 AAGAAAAAGT
Statistics
Matches: 188, Mismatches: 34, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
56 3 0.02
57 83 0.44
58 98 0.52
59 4 0.02
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (58 bp):
AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTT
Found at i:7304621 original size:115 final size:114
Alignment explanation
Indices: 7304384--7304692 Score: 363
Period size: 115 Copynumber: 2.7 Consensus size: 114
7304374 TGATTTTCTT
* * * *
7304384 CAAATAATATTCTAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATA
1 CAAATAATTTTCT--AAAAAATA-TTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTGAAAATA
** * * *
7304449 AGTTTTTTAAAAAATATTTTCGAAAAAAAGTTGAAAGTATCAATTTTCTTTG
63 AAATTTTTAAAAAATATTTTCGAAAAAAAGTTGAAAATATCAATTTTCCTCG
* * *
7304501 AAAATAATTTTCTAAAAAATATTTCTGAGAAAAAGGTAAAAGAATCAATTTTTCTTGAAAATAAA
1 CAAATAATTTTCTAAAAAATATTT-TGAGAAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAA
*
7304566 ATTTTTAAAAAATATTTTTGAAAAAAAGTTGAAAATATCAATTTTCCTCG
65 ATTTTTAAAAAATATTTTCGAAAAAAAGTTGAAAATATCAATTTTCCTCG
* * * * *
7304616 CAAATAAAGTTTC-AGAAAAATATTTTGAAAAAAAATTAGAAGTACCAATTTTTCTT-AAAA-AA
1 CAAAT-AATTTTCTA-AAAAATATTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAA
7304678 AATGTTTTAAGAAAA
64 AAT-TTTTAA-AAAA
7304693 AGTTGAAAGT
Statistics
Matches: 166, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
113 5 0.03
114 13 0.08
115 121 0.73
116 16 0.10
117 11 0.07
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (114 bp):
CAAATAATTTTCTAAAAAATATTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAAA
TTTTTAAAAAATATTTTCGAAAAAAAGTTGAAAATATCAATTTTCCTCG
Found at i:7304693 original size:58 final size:55
Alignment explanation
Indices: 7304399--7304692 Score: 259
Period size: 57 Copynumber: 5.1 Consensus size: 55
7304389 AATATTCTAA
** * **
7304399 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTT
1 AAAAAATA-TTTTGAAAAAAAGTTGAAAGTATCAATTTTTCTT-AAAA-AAAATTTTT
* *
7304457 AAAAAATATTTTCGAAAAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAATTTTCT
1 AAAAAATATTTT-GAAAAAAAGTTGAAAGTATCAATTTTTC-TTAAAAAAAATTTT-T
* * * *
7304514 AAAAAATATTTCTGAGAAAAAGGTAAAAGAATCAATTTTTCTTGAAAATAAAATTTTT
1 AAAAAATATTT-TGAAAAAAAGTTGAAAGTATCAATTTTTCTT-AAAA-AAAATTTTT
* * ** * * *
7304572 AAAAAATATTTTTGAAAAAAAGTTGAAAATATCAATTTTCCTCGCAAATAAAGTTTC
1 AAAAAATA-TTTTGAAAAAAAGTTGAAAGTATCAATTTTTCT-TAAAAAAAATTTTT
* *
7304629 AGAAAAATATTTTGAAAAAAAATT-AGAAGTACCAATTTTTCTTAAAAAAAATGTTTT
1 A-AAAAATATTTTGAAAAAAAGTTGA-AAGTATCAATTTTTCTTAAAAAAAAT-TTTT
7304686 AAGAAAA
1 AA-AAAA
7304693 AGTTGAAAGT
Statistics
Matches: 190, Mismatches: 33, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
56 13 0.07
57 85 0.45
58 82 0.43
59 10 0.05
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (55 bp):
AAAAAATATTTTGAAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAAAATTTTT
Found at i:7306692 original size:27 final size:26
Alignment explanation
Indices: 7306654--7306707 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 26
7306644 TTTTTTGGGT
7306654 AAAAAAAAAGAAAAGAGATTAATTGA
1 AAAAAAAAAGAAAAGAGATTAATTGA
7306680 AAAAAAAACAGAAAAGAGATTAATTGA
1 AAAAAAAA-AGAAAAGAGATTAATTGA
7306707 A
1 A
7306708 GTTATTTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.69, C:0.02, G:0.15, T:0.15
Consensus pattern (26 bp):
AAAAAAAAAGAAAAGAGATTAATTGA
Found at i:7307132 original size:17 final size:18
Alignment explanation
Indices: 7307110--7307147 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
7307100 TTTTCGATAA
7307110 ATTATATTA-AAATGTAT
1 ATTATATTACAAATGTAT
7307127 ATTATATTACAAATGTAT
1 ATTATATTACAAATGTAT
7307145 ATT
1 ATT
7307148 CAAAAGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (18 bp):
ATTATATTACAAATGTAT
Found at i:7313328 original size:2 final size:2
Alignment explanation
Indices: 7313323--7313356 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7313313 AATTTAAAGC
7313323 TA TA 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 TA TA
7313357 CATCCAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7316239 original size:2 final size:2
Alignment explanation
Indices: 7316232--7316261 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7316222 TAAATTGAAG
*
7316232 AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7316262 TCCATATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:7317186 original size:19 final size:20
Alignment explanation
Indices: 7317145--7317188 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
7317135 TGATTATTTA
*
7317145 GTAATTGTTTATATATGAAT
1 GTAATAGTTTATATATGAAT
*
7317165 GTAATAGTTTAT-TATGATT
1 GTAATAGTTTATATATGAAT
7317184 GTAAT
1 GTAAT
7317189 TTGTAATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (20 bp):
GTAATAGTTTATATATGAAT
Found at i:7319151 original size:19 final size:21
Alignment explanation
Indices: 7319109--7319149 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
7319099 TTTAATATAT
7319109 TAATTAATAATTTTATAATAAA
1 TAATTAAT-ATTTTATAATAAA
*
7319131 TAATTAAT-TTTTCTAATAA
1 TAATTAATATTTTATAATAA
7319150 TACCATTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATTAATATTTTATAATAAA
Found at i:7319597 original size:12 final size:12
Alignment explanation
Indices: 7319580--7319611 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
7319570 ACATGATATG
7319580 ATTAATCTTAGA
1 ATTAATCTTAGA
7319592 ATTAATCTTAGA
1 ATTAATCTTAGA
7319604 ATTAATCT
1 ATTAATCT
7319612 CGATGTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (12 bp):
ATTAATCTTAGA
Found at i:7323966 original size:3 final size:3
Alignment explanation
Indices: 7323958--7323996 Score: 53
Period size: 3 Copynumber: 12.7 Consensus size: 3
7323948 TTCAATTGGA
7323958 AAT AAT AAT AA- ACAGT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT A-A-T AAT AAT AAT AAT AAT AAT AAT AA
7323997 ACACTTTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 1 0.03
3 30 0.91
4 1 0.03
5 1 0.03
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:7327103 original size:2 final size:2
Alignment explanation
Indices: 7327096--7327124 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7327086 CTGCATTTAT
7327096 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
7327125 TTGGTGTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7329818 original size:2 final size:2
Alignment explanation
Indices: 7329802--7329839 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
7329792 AAAATTTTAG
* *
7329802 AT AT A- AT AA AT AT AT AT AA 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 AT AT AT AT A
7329840 CTAAAAACCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:7329822 original size:10 final size:10
Alignment explanation
Indices: 7329802--7329839 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
7329792 AAAATTTTAG
7329802 ATATA-ATAA
1 ATATATATAA
7329811 ATATATATAA
1 ATATATATAA
*
7329821 ATATATATAT
1 ATATATATAA
7329831 ATATATATA
1 ATATATATA
7329840 CTAAAAACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
9 5 0.19
10 22 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATATATATAA
Found at i:7330976 original size:21 final size:21
Alignment explanation
Indices: 7330952--7331006 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
7330942 CCCGATTGCA
*
7330952 GGGCTTCCATCGCCCCAGATG
1 GGGCTCCCATCGCCCCAGATG
7330973 GGGCTCCCATCGCCCCAGATG
1 GGGCTCCCATCGCCCCAGATG
7330994 GGGCTCCCATCGC
1 GGGCTCCCATCGC
7331007 ACCAAAGAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.13, C:0.42, G:0.29, T:0.16
Consensus pattern (21 bp):
GGGCTCCCATCGCCCCAGATG
Found at i:7338324 original size:17 final size:16
Alignment explanation
Indices: 7338297--7338335 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
7338287 CTCATTTCAA
7338297 CTACTTGAACTT-GACT
1 CTACTTGAACTTAG-CT
7338313 CTACTCTGAACTTAGCT
1 CTACT-TGAACTTAGCT
7338330 CTACTT
1 CTACTT
7338336 ATTTTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.29
17 14 0.67
18 1 0.05
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.38
Consensus pattern (16 bp):
CTACTTGAACTTAGCT
Found at i:7338816 original size:26 final size:26
Alignment explanation
Indices: 7338787--7338841 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
7338777 AAATAATTTT
7338787 TAATAAATATATACAAAA-ATTATGTA
1 TAATAAATATATA-AAAATATTATGTA
* * *
7338813 TAATAATTTTTTAAAAATATTATGTA
1 TAATAAATATATAAAAATATTATGTA
7338839 TAA
1 TAA
7338842 AGAGAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (26 bp):
TAATAAATATATAAAAATATTATGTA
Found at i:7339176 original size:24 final size:24
Alignment explanation
Indices: 7339117--7339176 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
7339107 TATTATTTCT
*
7339117 ATAAAAAATAATTAAATATAAAAAA
1 ATAAAAAA-AATGAAATATAAAAAA
* ** * *
7339142 ATCAACTAAATGAAGTTTAAAAAA
1 ATAAAAAAAATGAAATATAAAAAA
7339166 ATAAAAAAAAT
1 ATAAAAAAAAT
7339177 ATAATAGAGA
Statistics
Matches: 26, Mismatches: 9, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.23
Consensus pattern (24 bp):
ATAAAAAAAATGAAATATAAAAAA
Found at i:7341351 original size:20 final size:20
Alignment explanation
Indices: 7341312--7341380 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
7341302 AATAATACAT
*
7341312 TAATAAATAATAT-TAAAATA
1 TAATAAATAATATAT-TAATA
7341332 TAATAAATAATATATTAATA
1 TAATAAATAATATATTAATA
*
7341352 -AATATTATAATAATTATTAATA
1 TAATA-AATAAT-A-TATTAATA
*
7341374 TTATAAA
1 TAATAAA
7341381 AAACAGATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 4 0.10
20 22 0.55
21 2 0.05
22 9 0.22
23 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAATAAATAATATATTAATA
Done.