Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 19 of 135
Found at i:7683638 original size:16 final size:17
Alignment explanation
Indices: 7683617--7683649 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7683607 TCTCAAGAAA
7683617 TTTTAA-AATTTTTATT
1 TTTTAACAATTTTTATT
*
7683633 TTTTAACTATTTTTATT
1 TTTTAACAATTTTTATT
7683650 AAATTCACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTAACAATTTTTATT
Found at i:7684459 original size:30 final size:30
Alignment explanation
Indices: 7684423--7684487 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
7684413 ATTTATTTTA
7684423 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
7684453 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
7684483 TTGTT
1 TTGTT
7684488 TGTTAAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:7698063 original size:31 final size:29
Alignment explanation
Indices: 7698011--7698093 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 29
7698001 TACTTTATAA
* *
7698011 AATTTTAAATTAATAAT-AAAATTATATTTT
1 AATTTTAAAAT-ATAATAAAAATT-TAATTT
7698041 AGATTTTAAAATATAATAAAAATTTAATTT
1 A-ATTTTAAAATATAATAAAAATTTAATTT
*
7698071 AATTCTCTAAAA-ATTATAAAAAT
1 AATT-T-TAAAATATAATAAAAAT
7698094 ATGGATTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
29 3 0.07
30 23 0.50
31 20 0.43
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (29 bp):
AATTTTAAAATATAATAAAAATTTAATTT
Found at i:7701345 original size:23 final size:22
Alignment explanation
Indices: 7701296--7701375 Score: 133
Period size: 22 Copynumber: 3.6 Consensus size: 22
7701286 GTAACTAAAT
7701296 TATGTTTGAATTGAATGTTGTA
1 TATGTTTGAATTGAATGTTGTA
7701318 TATGTTTGAATTGAATGTTCGTA
1 TATGTTTGAATTGAATGTT-GTA
*
7701341 TATGTTCGAATTGAATGTTGTA
1 TATGTTTGAATTGAATGTTGTA
*
7701363 TATGTGTGAATTG
1 TATGTTTGAATTG
7701376 TATAAATGTC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
22 33 0.61
23 21 0.39
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (22 bp):
TATGTTTGAATTGAATGTTGTA
Found at i:7701711 original size:25 final size:24
Alignment explanation
Indices: 7701677--7701729 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
7701667 ACAGACCGCA
7701677 GCTCTTTATGAGCGTCCCGATATAG
1 GCTCTTTATGAGCGTCCCGATAT-G
* *
7701702 GCTCTTTATGAGCTTCCTGATATG
1 GCTCTTTATGAGCGTCCCGATATG
7701726 GCTC
1 GCTC
7701730 GTTTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCCCGATATG
Found at i:7705289 original size:101 final size:101
Alignment explanation
Indices: 7705114--7705520 Score: 584
Period size: 101 Copynumber: 4.0 Consensus size: 101
7705104 AATTGATGGA
* * * * *
7705114 TAAGACCATGATTGGACCATGGA-AATGTTTAAATGTAAGACCATAGCTGGGCTATGACATTTTA
1 TAAGACCATGGTTGGACCAT-GACAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATTCTG
* * *
7705178 ATGAAAAGACCATAACTGAGTTATAGCACTATGAACG
65 ATGATAAGACCATAACTGGGTTATGGCACTATGAACG
* * *
7705215 TAAGACCATGGTTGGACTATGACAGTGTTTATATGTAAGACCATAGCTGGGCTTTGGCATTCTGA
1 TAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATTCTGA
* * *
7705280 TGATAAGACCATAACTGGGTTATGGAACTGTGAACT
66 TGATAAGACCATAACTGGGTTATGGCACTATGAACG
* *
7705316 TAAAACCATGGTTAGACCATGACAGTGTTTATATGTAAGACCATAGCTGGGCTAT-AGCATTCTG
1 TAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGCTGGGCTATGA-CATTCTG
7705380 ATGATAAGACCATAACTGGGTTATGGCACTATGAACG
65 ATGATAAGACCATAACTGGGTTATGGCACTATGAACG
* *
7705417 TAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATTTTGA
1 TAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATTCTGA
* * * *
7705482 TAATAAGATCATAACTGGGTTATGGCACTACGAATG
66 TGATAAGACCATAACTGGGTTATGGCACTATGAACG
7705518 TAA
1 TAA
7705521 TGGATAAATT
Statistics
Matches: 273, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
100 2 0.01
101 270 0.99
102 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATTCTGA
TGATAAGACCATAACTGGGTTATGGCACTATGAACG
Found at i:7709868 original size:7 final size:7
Alignment explanation
Indices: 7709856--7709882 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
7709846 TATAAAATAA
7709856 ATATTTT
1 ATATTTT
7709863 ATATTTT
1 ATATTTT
7709870 ATATTTT
1 ATATTTT
7709877 ATATTT
1 ATATTT
7709883 AAATTAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATATTTT
Found at i:7712042 original size:16 final size:17
Alignment explanation
Indices: 7712023--7712059 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
7712013 AGGTTGACTT
7712023 TAAAATTTTA-AATAAA
1 TAAAATTTTACAATAAA
*
7712039 T-AAATTTTACGATAAA
1 TAAAATTTTACAATAAA
7712055 TAAAA
1 TAAAA
7712060 ATTACTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 7 0.39
17 3 0.17
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (17 bp):
TAAAATTTTACAATAAA
Found at i:7712045 original size:15 final size:16
Alignment explanation
Indices: 7712025--7712058 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7712015 GTTGACTTTA
7712025 AAATTTTA-AATAAAT
1 AAATTTTACAATAAAT
*
7712040 AAATTTTACGATAAAT
1 AAATTTTACAATAAAT
7712056 AAA
1 AAA
7712059 AATTACTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (16 bp):
AAATTTTACAATAAAT
Found at i:7712551 original size:21 final size:22
Alignment explanation
Indices: 7712527--7712573 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
7712517 TTTTTTTTTC
* *
7712527 ATTTTCATT-TTTATTTTTTGG
1 ATTTTCATTATTCATTTTTAGG
*
7712548 A-TTTCATTATTCCTTTTTAGG
1 ATTTTCATTATTCATTTTTAGG
7712569 ATTTT
1 ATTTT
7712574 TTTTGCTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 7 0.33
21 11 0.52
22 3 0.14
ACGTcount: A:0.17, C:0.09, G:0.09, T:0.66
Consensus pattern (22 bp):
ATTTTCATTATTCATTTTTAGG
Found at i:7732974 original size:46 final size:46
Alignment explanation
Indices: 7732838--7732976 Score: 192
Period size: 46 Copynumber: 3.0 Consensus size: 46
7732828 ACATTGCTAT
* *
7732838 AACTCAGTATGGTTTTCTTCACAGAAATACCATACCTACTATTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* * *
7732884 AACTCTA-TATGGTTTTCTTCACTGAAACAACATATCTACTTTTCAC
1 AACTC-AGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
*
7732930 AACTCAGTATGGTTTTCTTCGCTGAAATACCATACCTA-TGTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACT-TTTCAC
7732976 A
1 A
7732977 CTTTGCCAAG
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
45 2 0.02
46 78 0.96
47 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
Found at i:7734244 original size:16 final size:17
Alignment explanation
Indices: 7734198--7734245 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
7734188 AAATTCTTTT
7734198 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
7734215 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
7734232 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
7734246 TTCTAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:7740155 original size:67 final size:67
Alignment explanation
Indices: 7740047--7740178 Score: 212
Period size: 67 Copynumber: 2.0 Consensus size: 67
7740037 GTTTATATTA
*
7740047 CAGGGGATTTAGCCTGAACTGGTAATCCCGCTGTAAGAAATGAGGCTCGCGGGAGTGTGCTCTCT
1 CAGGGGATTTAGCCTGAACTAGTAATCCCGCTGTAAGAAATGAGGCTCGCGGGAGTGTGCTCTCT
7740112 TG
66 TG
* * *
7740114 CAGGGGATTTAGCCT-AGACTAGTAATCCTGCTGTAATAAATGAGGTTCGCGGGAGTGTGCTCTC
1 CAGGGGATTTAGCCTGA-ACTAGTAATCCCGCTGTAAGAAATGAGGCTCGCGGGAGTGTGCTCTC
7740178 T
65 T
7740179 GAATTGAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 1 0.02
67 59 0.98
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (67 bp):
CAGGGGATTTAGCCTGAACTAGTAATCCCGCTGTAAGAAATGAGGCTCGCGGGAGTGTGCTCTCT
TG
Found at i:7742207 original size:62 final size:62
Alignment explanation
Indices: 7742110--7742252 Score: 250
Period size: 62 Copynumber: 2.3 Consensus size: 62
7742100 AATTCAGATT
*
7742110 ACCCGTCCGGGCTAAATCTAATTTACACATATTCTTCGGGAGGGCTATATCAGGATAGGACC
1 ACCCGTCCGGGCTAAATCCAATTTACACATATTCTTCGGGAGGGCTATATCAGGATAGGACC
* *
7742172 ACCCGTCCAGGCTAAATCCAATTTACACATATTCTTCGGGAGGGCTATATCAGGATAGGATC
1 ACCCGTCCGGGCTAAATCCAATTTACACATATTCTTCGGGAGGGCTATATCAGGATAGGACC
*
7742234 ACCCGTCCGGGCTAGATCC
1 ACCCGTCCGGGCTAAATCC
7742253 TTTTTACCGT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 76 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (62 bp):
ACCCGTCCGGGCTAAATCCAATTTACACATATTCTTCGGGAGGGCTATATCAGGATAGGACC
Found at i:7744401 original size:26 final size:24
Alignment explanation
Indices: 7744371--7744431 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
7744361 GAGCCATGAT
*
7744371 CGGTAAGCTCAT-TCCGAGCTGATAAA
1 CGGTAAGCTCATGT-AGAGCTG--AAA
*
7744397 CGGTAATCTC-TGTAGAGCTGAAA
1 CGGTAAGCTCATGTAGAGCTGAAA
7744420 CGGTAAGCTCAT
1 CGGTAAGCTCAT
7744432 ACAAGCTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 12 0.40
24 1 0.03
25 7 0.23
26 10 0.33
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (24 bp):
CGGTAAGCTCATGTAGAGCTGAAA
Found at i:7753570 original size:16 final size:16
Alignment explanation
Indices: 7753535--7753586 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
7753525 TTTGGTTCGC
* *
7753535 TGTATTGGATTAAAGT
1 TGTATTGGATTAGAGG
7753551 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
7753567 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
7753583 TGTA
1 TGTA
7753587 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:7753633 original size:45 final size:44
Alignment explanation
Indices: 7753567--7753661 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 44
7753557 GGATTAGAGG
*
7753567 TGTAATGGAATAGAGGTGTAATAGCAAAT-CAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCCAA-TGTTTGGTTGAA
* *
7753612 TGTAATGGAATAGAGGCGTAATAGTAATCCTATGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCCAATGTTTGGTTGAA
7753656 TGTAAT
1 TGTAAT
7753662 AGAGGTGTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 21 0.46
45 25 0.54
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCCAATGTTTGGTTGAA
Found at i:7753843 original size:18 final size:17
Alignment explanation
Indices: 7753822--7753856 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7753812 TTATTATTAA
*
7753822 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
7753840 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7753857 TCTNNNNNNN
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7757199 original size:15 final size:15
Alignment explanation
Indices: 7757179--7757214 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
7757169 ATAATATGTA
7757179 TAATTGACCTAAAAT
1 TAATTGACCTAAAAT
7757194 TAATTGACCTAAAAT
1 TAATTGACCTAAAAT
7757209 TAATTG
1 TAATTG
7757215 TTGGTATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (15 bp):
TAATTGACCTAAAAT
Found at i:7761919 original size:11 final size:11
Alignment explanation
Indices: 7761878--7761921 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
7761868 ATGTTGGTAC
* *
7761878 TATTATGTTGT
1 TATTATTTTAT
7761889 TATTATTTTAT
1 TATTATTTTAT
7761900 TATTAATTTTAT
1 TATT-ATTTTAT
7761912 TATTATTTTA
1 TATTATTTTA
7761922 GAGGCATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 19 0.63
12 11 0.37
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:7765164 original size:18 final size:18
Alignment explanation
Indices: 7765123--7765167 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
7765113 ATTTTGAAAA
*
7765123 TGGTCAAAATTATGTTCC
1 TGGTCAAAATTATATTCC
*
7765141 TAGTCAAAATTATAATT-C
1 TGGTCAAAATTAT-ATTCC
7765159 TGGTCAAAA
1 TGGTCAAAA
7765168 GTGGCTTGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (18 bp):
TGGTCAAAATTATATTCC
Found at i:7765351 original size:18 final size:18
Alignment explanation
Indices: 7765330--7765374 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
7765320 TTGATAGTGC
*
7765330 TGTTGGGCCGAATGATGG
1 TGTTGGGCCGAAGGATGG
7765348 TGTTGGGCCGAAGGATGG
1 TGTTGGGCCGAAGGATGG
*
7765366 TATTGGGCC
1 TGTTGGGCC
7765375 AAATATTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.13, G:0.44, T:0.27
Consensus pattern (18 bp):
TGTTGGGCCGAAGGATGG
Found at i:7774558 original size:11 final size:11
Alignment explanation
Indices: 7774535--7774569 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
7774525 TCTCTCTCTC
*
7774535 TTTTTT-TTGT
1 TTTTTTGTTTT
7774545 TTTTTTGTTTT
1 TTTTTTGTTTT
7774556 TTTTTTGTTTT
1 TTTTTTGTTTT
7774567 TTT
1 TTT
7774570 ATCTTCTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 6 0.26
11 17 0.74
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:7782660 original size:201 final size:201
Alignment explanation
Indices: 7782315--7782718 Score: 799
Period size: 201 Copynumber: 2.0 Consensus size: 201
7782305 ATGTATTATA
7782315 ATCAAACAATATAATTATAGTTGATATTTAATTTTTATTACGAAAATTTAAATGAAAAAAATTGA
1 ATCAAACAATATAATTATAGTTGATATTTAATTTTTATTACGAAAATTTAAATGAAAAAAATTGA
7782380 AAAACCTAAAAAAGAAAATTTTAATTTAATTTTAACCTAAAGGAAAAGGGAATAGAGTGGGATAT
66 AAAACCTAAAAAAGAAAATTTTAATTTAATTTTAACCTAAAGGAAAAGGGAATAGAGTGGGATAT
7782445 GTTAAAGCAAATAGCGAAGAGGAAGGGGGTGAAGTGGGACCTCCATTTTCCAAAGTGGAGCAAAT
131 GTTAAAGCAAATAGCGAAGAGGAAGGGGGTGAAGTGGGACCTCCATTTTCCAAAGTGGAGCAAAT
7782510 TTAGTC
196 TTAGTC
*
7782516 ATCAAACAATATAATTTTAGTTGATATTTAATTTTTATTACGAAAATTTAAATGAAAAAAATTGA
1 ATCAAACAATATAATTATAGTTGATATTTAATTTTTATTACGAAAATTTAAATGAAAAAAATTGA
7782581 AAAACCTAAAAAAGAAAATTTTAATTTAATTTTAACCTAAAGGAAAAGGGAATAGAGTGGGATAT
66 AAAACCTAAAAAAGAAAATTTTAATTTAATTTTAACCTAAAGGAAAAGGGAATAGAGTGGGATAT
7782646 GTTAAAGCAAATAGCGAAGAGGAAGGGGGTGAAGTGGGACCTCCATTTTCCAAAGTGGAGCAAAT
131 GTTAAAGCAAATAGCGAAGAGGAAGGGGGTGAAGTGGGACCTCCATTTTCCAAAGTGGAGCAAAT
7782711 TTAGTC
196 TTAGTC
7782717 AT
1 AT
7782719 AGGAAGTGGA
Statistics
Matches: 202, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 202 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (201 bp):
ATCAAACAATATAATTATAGTTGATATTTAATTTTTATTACGAAAATTTAAATGAAAAAAATTGA
AAAACCTAAAAAAGAAAATTTTAATTTAATTTTAACCTAAAGGAAAAGGGAATAGAGTGGGATAT
GTTAAAGCAAATAGCGAAGAGGAAGGGGGTGAAGTGGGACCTCCATTTTCCAAAGTGGAGCAAAT
TTAGTC
Found at i:7788470 original size:17 final size:17
Alignment explanation
Indices: 7788440--7788473 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
7788430 TAATTGAAAT
7788440 ATATATTATATTTAACA
1 ATATATTATATTTAACA
7788457 ATATGATTAT-TTTAACA
1 ATAT-ATTATATTTAACA
7788474 TAATATAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (17 bp):
ATATATTATATTTAACA
Found at i:7791374 original size:13 final size:13
Alignment explanation
Indices: 7791356--7791383 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7791346 CAACTCATAC
7791356 AGTATTTGGTCTA
1 AGTATTTGGTCTA
7791369 AGTATTTGGTCTA
1 AGTATTTGGTCTA
7791382 AG
1 AG
7791384 AGTTAAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (13 bp):
AGTATTTGGTCTA
Found at i:7798595 original size:119 final size:119
Alignment explanation
Indices: 7798448--7798700 Score: 472
Period size: 119 Copynumber: 2.1 Consensus size: 119
7798438 TGAAGATTAT
**
7798448 ATATA-TATATATATATAATTATATTAGGCGAGTGTTTGAATTGGTGGAGCCAAATGGTTTGATG
1 ATATAGTATATATACCTAATTATATTAGGCGAGTGTTTGAATTGGTGGAGCCAAATGGTTTGATG
7798512 GCCACGAATTCATGAGTTGAATAGGAGTGCGCATTATTTGATGAATTGATGTGA
66 GCCACGAATTCATGAGTTGAATAGGAGTGCGCATTATTTGATGAATTGATGTGA
*
7798566 ATATAGTATATATACCTATTTATATTAGGCGAGTGTTTGAATTGGTGGAGCCAAATGGTTTGATG
1 ATATAGTATATATACCTAATTATATTAGGCGAGTGTTTGAATTGGTGGAGCCAAATGGTTTGATG
7798631 GCCACGAATTCATGAGTTGAATAGGAGTGCGCATTATTTGATGAATTGATGTGA
66 GCCACGAATTCATGAGTTGAATAGGAGTGCGCATTATTTGATGAATTGATGTGA
7798685 ATATAGTATATATACC
1 ATATAGTATATATACC
7798701 GTATGTGGAT
Statistics
Matches: 131, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
118 5 0.04
119 126 0.96
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.36
Consensus pattern (119 bp):
ATATAGTATATATACCTAATTATATTAGGCGAGTGTTTGAATTGGTGGAGCCAAATGGTTTGATG
GCCACGAATTCATGAGTTGAATAGGAGTGCGCATTATTTGATGAATTGATGTGA
Found at i:7816791 original size:24 final size:23
Alignment explanation
Indices: 7816760--7816839 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 23
7816750 CCAATTATCC
7816760 GGAAGCTCATACGAGCCATAATTG
1 GGAAGCTCATACGAGCCA-AATTG
* *
7816784 GGAAGCTCA-AGAGAGCTAAATTTG
1 GGAAGCTCATA-CGAGCCAAA-TTG
* * *
7816808 GGAAGCTCATGCAAACCAATATTG
1 GGAAGCTCATACGAGCCAA-ATTG
7816832 GGAAGCTC
1 GGAAGCTC
7816840 CGAAGAGCCA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
23 3 0.07
24 41 0.91
25 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (23 bp):
GGAAGCTCATACGAGCCAAATTG
Found at i:7816896 original size:25 final size:25
Alignment explanation
Indices: 7816833--7816947 Score: 63
Period size: 25 Copynumber: 4.6 Consensus size: 25
7816823 CCAATATTGG
**
7816833 GAAGCTCCGAAGAGCCACTAATCGA
1 GAAGCTCATAAGAGCCACTAATCGA
* *
7816858 GAAGCTTATGAGAGCCA-TATATCGA
1 GAAGCTCATAAGAGCCACTA-ATCGA
* * * * *
7816883 TATGCTCATAAGAGCTAAATAA-CGG
1 GAAGCTCATAAGAGC-CACTAATCGA
* ** * *
7816908 GAAGCTCATGAGAGCCAAGAATTGG
1 GAAGCTCATAAGAGCCACTAATCGA
*
7816933 GACGCTCATAAGAGC
1 GAAGCTCATAAGAGC
7816948 GATGGTGTGT
Statistics
Matches: 68, Mismatches: 18, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
24 6 0.09
25 58 0.85
26 2 0.03
27 2 0.03
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (25 bp):
GAAGCTCATAAGAGCCACTAATCGA
Found at i:7822445 original size:25 final size:25
Alignment explanation
Indices: 7822388--7822445 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
7822378 TATATTTGCA
*
7822388 ACATATTTCACATTCTATTTTCAAT
1 ACATATTTCACATTCCATTTTCAAT
7822413 ACACTATTTCAC-TTCCATTTCTC-AT
1 ACA-TATTTCACATTCCATTT-TCAAT
7822438 ACCATATT
1 A-CATATT
7822446 ATTTCAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
25 17 0.59
26 12 0.41
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (25 bp):
ACATATTTCACATTCCATTTTCAAT
Found at i:7822630 original size:37 final size:37
Alignment explanation
Indices: 7822578--7822683 Score: 131
Period size: 37 Copynumber: 2.8 Consensus size: 37
7822568 TTTGAAGTAA
*
7822578 TAAATTAACACCCAGTGTCTCATCGACTAAACCGAAG
1 TAAATTGACACCCAGTGTCTCATCGACTAAACCGAAG
* * * *
7822615 TAAATTGACATCCAGTGCCTCATCGAATTAATCCGAAG
1 TAAATTGACACCCAGTGTCTCATCG-ACTAAACCGAAG
7822653 TAGTAGATTGACACCCAGTGTCTCATCGACT
1 TA--A-ATTGACACCCAGTGTCTCATCGACT
7822684 CAAAGTCGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
37 22 0.39
38 12 0.21
40 3 0.05
41 20 0.35
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (37 bp):
TAAATTGACACCCAGTGTCTCATCGACTAAACCGAAG
Found at i:7822671 original size:41 final size:38
Alignment explanation
Indices: 7822547--7822681 Score: 128
Period size: 40 Copynumber: 3.4 Consensus size: 38
7822537 CCAGTTTGGT
* * ** *
7822547 ACCCAGTGCTTCATTGAATAATTTGAAGTAATAAATTAAC
1 ACCCAGTGCCTCATCGAATAATCCGAAGT-AT-AATTGAC
* * *
7822587 ACCCAGTGTCTCATCGACTAAACCGAAGTA-AATTGAC
1 ACCCAGTGCCTCATCGAATAATCCGAAGTATAATTGAC
*
7822624 ATCCAGTGCCTCATCGAATTAATCCGAAGTAGTAGATTGAC
1 ACCCAGTGCCTCATCGAA-TAATCCGAAGTA-TA-ATTGAC
*
7822665 ACCCAGTGTCTCATCGA
1 ACCCAGTGCCTCATCGA
7822682 CTCAAAGTCG
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
37 21 0.27
38 11 0.14
39 1 0.01
40 23 0.30
41 21 0.27
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (38 bp):
ACCCAGTGCCTCATCGAATAATCCGAAGTATAATTGAC
Found at i:7832152 original size:36 final size:36
Alignment explanation
Indices: 7832104--7832177 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
7832094 AGATACCCAG
*
7832104 ACAATGAACCAAGGACATAAATATCCTGCATTGACA
1 ACAATGAACCAAGGACATAAACATCCTGCATTGACA
*
7832140 ACAATGATCCAAGGACATAAACATCCTGCATTGACA
1 ACAATGAACCAAGGACATAAACATCCTGCATTGACA
7832176 AC
1 AC
7832178 TTATGTCTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.43, C:0.24, G:0.14, T:0.19
Consensus pattern (36 bp):
ACAATGAACCAAGGACATAAACATCCTGCATTGACA
Found at i:7841510 original size:2 final size:2
Alignment explanation
Indices: 7841503--7841538 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7841493 AACAAAATTA
7841503 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7841539 TTTTTTGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7841618 original size:2 final size:2
Alignment explanation
Indices: 7841611--7841639 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7841601 NNNNNNNNNN
7841611 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
7841640 TCTTTTGAAC
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:7866789 original size:5 final size:5
Alignment explanation
Indices: 7866779--7866809 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
7866769 TGCCTTATTT
*
7866779 GGAGA GGAGA GGAGG GGAGA GGAGA GGAGA G
1 GGAGA GGAGA GGAGA GGAGA GGAGA GGAGA G
7866810 TATAGTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (5 bp):
GGAGA
Found at i:7869628 original size:18 final size:18
Alignment explanation
Indices: 7869594--7869630 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7869584 ACTTTGAAAC
* *
7869594 AAACAATATATTGTAAAT
1 AAACAATATAATATAAAT
7869612 AAACAATATAATATAAAT
1 AAACAATATAATATAAAT
7869630 A
1 A
7869631 GTAAAACATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (18 bp):
AAACAATATAATATAAAT
Found at i:7870818 original size:27 final size:27
Alignment explanation
Indices: 7870780--7870883 Score: 154
Period size: 27 Copynumber: 3.9 Consensus size: 27
7870770 AAAAAATGGG
7870780 TCGAGCCTGTCAGATAGGCGCGACTAA
1 TCGAGCCTGTCAGATAGGCGCGACTAA
*
7870807 TCGAGCCTGTCAGATAGGCGTGACTAA
1 TCGAGCCTGTCAGATAGGCGCGACTAA
*
7870834 TCGAGCCTGTCAAATAGGCGCGACTAA
1 TCGAGCCTGTCAGATAGGCGCGACTAA
** * *
7870861 TCGCTCCTGACAGGTAGGCGCGA
1 TCGAGCCTGTCAGATAGGCGCGA
7870884 ATGGTGCTGT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.25, C:0.26, G:0.30, T:0.19
Consensus pattern (27 bp):
TCGAGCCTGTCAGATAGGCGCGACTAA
Found at i:7871058 original size:20 final size:23
Alignment explanation
Indices: 7871010--7871058 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 23
7871000 CCTCATCCGG
7871010 AAGAGAGAAAGAAAAGAGAGAAAT
1 AAGA-AGAAAGAAAAGAGAGAAAT
*
7871034 GAGAAGAAA-AAAAGA-AG-AAT
1 AAGAAGAAAGAAAAGAGAGAAAT
7871054 AAGAA
1 AAGAA
7871059 TAAGAAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 7 0.30
21 2 0.09
22 6 0.26
23 5 0.22
24 3 0.13
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (23 bp):
AAGAAGAAAGAAAAGAGAGAAAT
Found at i:7871237 original size:60 final size:60
Alignment explanation
Indices: 7871172--7871290 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 60
7871162 TTGTTTTTTA
* * *
7871172 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAACTT-TTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAATAATTTAGGATTAAGTTATAAA-TTATTGTGTTTG
7871232 TAATTATTTTAAAATTAATTTATTAATAATTTAGGATTAAGTTATAAATTATTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAATAATTTAGGATTAAGTTATAAATTATTGTGTTT
7871291 AGTTTAATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 2 0.04
60 53 0.96
ACGTcount: A:0.35, C:0.01, G:0.11, T:0.53
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAATAATTTAGGATTAAGTTATAAATTATTGTGTTTG
Found at i:7871893 original size:21 final size:21
Alignment explanation
Indices: 7871856--7871895 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7871846 TGACAAATGC
*
7871856 TTTTATTAAAATTATTTAAAA
1 TTTTATTAAAATAATTTAAAA
7871877 TTTTAATTAAAA-AATTTAA
1 TTTT-ATTAAAATAATTTAA
7871896 CACCCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTATTAAAATAATTTAAAA
Found at i:7872432 original size:18 final size:19
Alignment explanation
Indices: 7872392--7872432 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
7872382 ATTGTTTAGA
*
7872392 TATTATATAATTTTTATTT
1 TATTATATAATTTTTATTC
7872411 TATTAT-TAA-TTTTACTTC
1 TATTATATAATTTTTA-TTC
7872429 TATT
1 TATT
7872433 TTAGACGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTATATAATTTTTATTC
Found at i:7881476 original size:18 final size:19
Alignment explanation
Indices: 7881437--7881476 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
7881427 CATTAGATTA
*
7881437 AATATTTAGATGAATTGAT
1 AATATTTAGATGAATGGAT
*
7881456 AATATTTA-ATTAATGGAT
1 AATATTTAGATGAATGGAT
7881474 AAT
1 AAT
7881477 GAGAAACGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (19 bp):
AATATTTAGATGAATGGAT
Found at i:7887120 original size:34 final size:35
Alignment explanation
Indices: 7887076--7887142 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
7887066 CAGTAAAATA
7887076 TTTTCCGTAAAATGATTT-CTGAAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
* *
7887110 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
7887143 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:7888906 original size:17 final size:18
Alignment explanation
Indices: 7888873--7888907 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7888863 CTGTTTTTTT
7888873 TAATTTTATTAAATAATA
1 TAATTTTATTAAATAATA
*
7888891 TAATTTT-TTTAATAATA
1 TAATTTTATTAAATAATA
7888908 AAATGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATTTTATTAAATAATA
Found at i:7913843 original size:23 final size:23
Alignment explanation
Indices: 7913788--7913843 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
7913778 AAAAAACCAA
*
7913788 ATTTT-TTCGATTTAATCAGTTT
1 ATTTTGTTCAATTTAATCAGTTT
** *
7913810 -TCATGTTCAATTTAATTAGTTT
1 ATTTTGTTCAATTTAATCAGTTT
7913832 ATTTTGTTCAAT
1 ATTTTGTTCAAT
7913844 ATACTAAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
21 2 0.08
22 15 0.58
23 9 0.35
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.57
Consensus pattern (23 bp):
ATTTTGTTCAATTTAATCAGTTT
Found at i:7924171 original size:72 final size:70
Alignment explanation
Indices: 7924095--7924243 Score: 194
Period size: 71 Copynumber: 2.1 Consensus size: 70
7924085 CTTTGTGAGT
*
7924095 AAATTAAT-TTAAATAAAAAAAGAATATATACTATAACAATATATCACGTAAATTCAAAAAAAAA
1 AAATTAATATT-AAT-AAAAAACAATATATACTA-AACAATATATCACGTAAATTCAAAAAAAAA
7924159 GATTATGG
63 GATTATGG
* * **
7924167 AAATT-ATGCATTCATTAATTACAATATATACTAAACAATATATCACGTAAATTCAAAAAAAAAG
1 AAATTAAT--ATTAATAAAAAACAATATATACTAAACAATATATCACGTAAATTCAAAAAAAAAG
7924231 ATTATGG
64 ATTATGG
7924238 AAATTA
1 AAATTA
7924244 TGCATTCATT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
71 45 0.66
72 19 0.28
73 2 0.03
74 2 0.03
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.30
Consensus pattern (70 bp):
AAATTAATATTAATAAAAAACAATATATACTAAACAATATATCACGTAAATTCAAAAAAAAAGAT
TATGG
Found at i:7924216 original size:71 final size:72
Alignment explanation
Indices: 7924117--7924260 Score: 281
Period size: 71 Copynumber: 2.0 Consensus size: 72
7924107 ATAAAAAAAG
7924117 AATATATACTATAACAATATATCACGTAAATTCAAAAAAAAAGATTATGGAAATTATGCATTCAT
1 AATATATACTATAACAATATATCACGTAAATTCAAAAAAAAAGATTATGGAAATTATGCATTCAT
7924182 TAATTAC
66 TAATTAC
7924189 AATATATACTA-AACAATATATCACGTAAATTCAAAAAAAAAGATTATGGAAATTATGCATTCAT
1 AATATATACTATAACAATATATCACGTAAATTCAAAAAAAAAGATTATGGAAATTATGCATTCAT
7924253 TAATTAC
66 TAATTAC
7924260 A
1 A
7924261 TGTTTTTATT
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 61 0.85
72 11 0.15
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (72 bp):
AATATATACTATAACAATATATCACGTAAATTCAAAAAAAAAGATTATGGAAATTATGCATTCAT
TAATTAC
Found at i:7935324 original size:20 final size:19
Alignment explanation
Indices: 7935276--7935324 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 19
7935266 ACAAATTTTT
*
7935276 TTATTAA-TT-TTTAATAT
1 TTATTAATTTATTTAATAA
*
7935293 TTA-TAATATATTTAAGTAA
1 TTATTAATTTATTTAA-TAA
7935312 TTATTAATTTATT
1 TTATTAATTTATT
7935325 CATTTTAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 3 0.12
17 4 0.16
18 5 0.20
19 5 0.20
20 8 0.32
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTATTAATTTATTTAATAA
Found at i:7941274 original size:16 final size:15
Alignment explanation
Indices: 7941227--7941277 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
7941217 AATACTTTAA
7941227 AATTATAAAA-AAAA-
1 AATT-TAAAATAAAAT
*
7941241 AATTTTAAAATAACAT
1 AA-TTTAAAATAAAAT
7941257 AATTTAAAATTAAAAT
1 AATTTAAAA-TAAAAT
7941273 AATTT
1 AATTT
7941278 TTTTTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 7 0.23
15 12 0.39
16 12 0.39
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
AATTTAAAATAAAAT
Found at i:7948911 original size:23 final size:24
Alignment explanation
Indices: 7948881--7948949 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
7948871 CATTATTGGG
7948881 AAAGGATGAATTGACGG-AAATGT
1 AAAGGATGAATTGACGGAAAATGT
7948904 AAAGGATGAATTGA-GGAAAAATGT
1 AAAGGATGAATTGACGG-AAAATGT
* * *
7948928 AAATGATAAATTGACGGCAAAT
1 AAAGGATGAATTGACGGAAAAT
7948950 TGTCTAAGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
22 2 0.05
23 14 0.35
24 22 0.55
25 2 0.05
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (24 bp):
AAAGGATGAATTGACGGAAAATGT
Found at i:7959999 original size:26 final size:24
Alignment explanation
Indices: 7959951--7959999 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
7959941 ATTAGTTTAT
*
7959951 TAATATTTTAATTTGATTTTTAAA
1 TAATATTTTAATTTGATTATTAAA
*
7959975 TAATATTTTATTATTTTATTATTAA
1 TAATATTTTA--ATTTGATTATTAA
7960000 TTTATTTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
26 11 0.52
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
TAATATTTTAATTTGATTATTAAA
Found at i:7961704 original size:40 final size:40
Alignment explanation
Indices: 7961628--7961714 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
7961618 AATTATGGAA
* * *
7961628 TACTGAATATTGTTTTGAGTACTGAGTTTAATTGTGAAGT
1 TACTGAATATTGTTATGAGTACTGAGTTGAACTGTGAAGT
* * *
7961668 TACTGAATATTGTTATGTGTATTGCA-TTGAACTGTGAATT
1 TACTGAATATTGTTATGAGTACTG-AGTTGAACTGTGAAGT
7961708 TACTGAA
1 TACTGAA
7961715 GTAATAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.44
Consensus pattern (40 bp):
TACTGAATATTGTTATGAGTACTGAGTTGAACTGTGAAGT
Found at i:7962120 original size:45 final size:45
Alignment explanation
Indices: 7962066--7962163 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
7962056 ATGTGTCGAC
*
7962066 TACTGTTACTGTTACCA-ATTCGACACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTA-CAGATTCAACACTTTGTGTGTCGAATACTGT
* *
7962111 TATTGTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGT
7962156 TACTGTTA
1 TACTGTTA
7962164 TTGCTACCGT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 2 0.04
45 46 0.96
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.43
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGT
Found at i:7962264 original size:141 final size:141
Alignment explanation
Indices: 7961887--7962319 Score: 582
Period size: 141 Copynumber: 3.0 Consensus size: 141
7961877 TTTTGTCGGC
* * * *
7961887 TTACTGATTAGGCACTTATGTGCCGACTACTATTATTGTTACCGATTTGACACTTTGTGTGTCGA
1 TTACTGATTAGGCACTTATGTGCTGACTACTGTTACTGTTACCAATTTGACACTTTGTGTGTCG-
7961952 ATACTATTACTGTTACTGTTACTGTTATAGATTCAACACTTTGTGTGTTGAATACTGTTTTAGTT
65 --A--A-TACTGTTACTGTTACTGTTATAGATTCAACACTTTGTGTGTTGAATAC-----T-GTT
*
7962017 ACTGTTACTGCTACCGTTACTGA
119 ACTGTTATTGCTACCGTTACTGA
*
7962040 TTACTGATTAGGCA-TTATGTG-TCGACTACTGTTACTGTTACCAATTCGACACTTTGTGTGTCG
1 TTACTGATTAGGCACTTATGTGCT-GACTACTGTTACTGTTACCAATTTGACACTTTGTGTGTCG
* *
7962103 AATACTGTTATTGTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTGTTACTGTTATTGC
65 AATACTGTTACTGTTACTGTTATAGATTCAACACTTTGTGTGTTGAATACTGTTACTGTTATTGC
7962168 TACCGTTACTGA
130 TACCGTTACTGA
* * * *
7962180 TTACTGATCAGGCACTTATGTGCTGACTACTGTTACTGTTACTAATTTGACACTTTATGTTTCGA
1 TTACTGATTAGGCACTTATGTGCTGACTACTGTTACTGTTACCAATTTGACACTTTGTGTGTCGA
* * * *
7962245 ATACTGTTACCGTTGCTGTTATAGATTCAACACTTTGTGTGTTGAATACTGTTACTATTATTGTT
66 ATACTGTTACTGTTACTGTTATAGATTCAACACTTTGTGTGTTGAATACTGTTACTGTTATTGCT
*
7962310 ACTGTTACTG
131 ACCGTTACTG
7962320 CTACCGTTAC
Statistics
Matches: 257, Mismatches: 20, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
140 38 0.15
141 113 0.44
142 1 0.00
146 46 0.18
147 1 0.00
149 1 0.00
152 43 0.17
153 14 0.05
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (141 bp):
TTACTGATTAGGCACTTATGTGCTGACTACTGTTACTGTTACCAATTTGACACTTTGTGTGTCGA
ATACTGTTACTGTTACTGTTATAGATTCAACACTTTGTGTGTTGAATACTGTTACTGTTATTGCT
ACCGTTACTGA
Found at i:7964663 original size:5 final size:5
Alignment explanation
Indices: 7964653--7964677 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7964643 TTAAAGTGAT
7964653 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
7964678 CTATTATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:7965558 original size:25 final size:25
Alignment explanation
Indices: 7965493--7965559 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
7965483 TTCAGCTCTT
* *
7965493 ATGAGCTTCCCAATACTTAGCTCGC
1 ATGAGCTTCCCATTATTTAGCTCGC
*
7965518 ATGAGGTTCCCATTATTTAGCTCGC
1 ATGAGCTTCCCATTATTTAGCTCGC
*
7965543 ATGAGCTTCCCGTTATT
1 ATGAGCTTCCCATTATT
7965560 CAACTCGGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (25 bp):
ATGAGCTTCCCATTATTTAGCTCGC
Found at i:7965566 original size:25 final size:25
Alignment explanation
Indices: 7965493--7965575 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
7965483 TTCAGCTCTT
* *
7965493 ATGAGCTTCCCAATACTT-AGCTCGC
1 ATGAGCTTCCCATTA-TTCAACTCGC
* * *
7965518 ATGAGGTTCCCATTATTTAGCTCGC
1 ATGAGCTTCCCATTATTCAACTCGC
* *
7965543 ATGAGCTTCCCGTTATTCAACTCGG
1 ATGAGCTTCCCATTATTCAACTCGC
*
7965568 AAGAGCTT
1 ATGAGCTT
7965576 ATTGTTTACA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 2 0.04
25 47 0.96
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCATTATTCAACTCGC
Found at i:7968753 original size:19 final size:19
Alignment explanation
Indices: 7968729--7968789 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
7968719 TCTAATTAAG
7968729 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
7968748 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
* *
7968766 TAATAACTATATTTTAAAT
1 TAATAACTCTATTTTAATT
7968785 TAATA
1 TAATA
7968790 GAAATACCAG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:7968758 original size:18 final size:18
Alignment explanation
Indices: 7968737--7968789 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
7968727 AGTAATAACT
7968737 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
* *
7968755 CTATTCTCATTTAAT-AA
1 CTATTTTAATTTAATAAA
*
7968772 CTATATTTTAAATTAATA
1 C--TATTTTAATTTAATA
7968790 GAAATACCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 3 0.11
18 13 0.48
19 11 0.41
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
CTATTTTAATTTAATAAA
Found at i:7969378 original size:11 final size:11
Alignment explanation
Indices: 7969362--7969391 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
7969352 GGCTGTGTCA
*
7969362 GTTTTTTTTTT
1 GTTTTTTTTCT
7969373 GTTTTTTTTCT
1 GTTTTTTTTCT
7969384 GTTTTTTT
1 GTTTTTTT
7969392 GGTATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (11 bp):
GTTTTTTTTCT
Found at i:7969460 original size:26 final size:27
Alignment explanation
Indices: 7969394--7969461 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 27
7969384 GTTTTTTTGG
***
7969394 TATATTTTAGTAAATAAAAAAATTTAT
1 TATATTTTAGTAAATAAAAAAAGGGAT
* *
7969421 AATATTTTAATAAAT-AAAAAAGGGAT
1 TATATTTTAGTAAATAAAAAAAGGGAT
*
7969447 TATATTTTGGTAAAT
1 TATATTTTAGTAAAT
7969462 TTTTATTTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
26 20 0.61
27 13 0.39
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (27 bp):
TATATTTTAGTAAATAAAAAAAGGGAT
Found at i:7973396 original size:3 final size:3
Alignment explanation
Indices: 7973388--7973420 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
7973378 TCTCCATGAC
7973388 TAT TAT TAT TAT TAT TAT TAT TAAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
7973421 GCTGTAGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:7981532 original size:96 final size:96
Alignment explanation
Indices: 7981405--7982213 Score: 879
Period size: 96 Copynumber: 8.4 Consensus size: 96
7981395 GTAGTGATAA
* * * * * * * *
7981405 GGAGGTGGTGGAGGAGGTGACTTATAATAGTAAGGTGGCGGGGG--TGATGGAGAAGGAGGTGGT
1 GGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGGGGACT-A-GGTGAAGGTGGTGGT
7981468 GGTGATTTGTAGTAGTAAGGAGGAGGGGGTGAT
64 GGTGATTTGTAGTAGTAAGGAGGAGGGGGTGAT
* * * * * *
7981501 GGAGACGGTGGAGGAGGAGATTTGTAGTAGTATGGAGGTGGTGG--TGAGG-GAGATGGTGGTGG
1 GGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGGGGACT-AGGTGA-A-GGTGGTGG
* * * *
7981563 TGGTGACTTGTAAG-AGTATGGTGG-TGGGG-GACT
63 TGGTGATTTGT-AGTAGTAAGGAGGAGGGGGTGA-T
* *
7981596 AGGAGATGGTGGAGGCGGTGACTTGTAGTAGTATGGTGGTGGGGGACTAGGTGAAGGGGGTGGTG
1 -GGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGGGGACTAGGTGAAGGTGGTGGTG
* * * * *
7981661 GTGACTTGTAGTAGTACGG-TGATGGTG-GACT
65 GTGATTTGTAGTAGTAAGGAGGAGGGGGTGA-T
* * * * * *
7981692 AGGAGATGGTGGAGGTGGGGACCTGTAGTAATATGGTGGTGGAGGG-CTAGGAGATGGTGGGGGT
1 -GGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGG-GGGACTAGGTGAAGGTGGTGGT
* * *
7981756 GGTGATTTGTAGTAGTATGGTGG-TGGGG-GACT
64 GGTGATTTGTAGTAGTAAGGAGGAGGGGGTGA-T
* * * * *
7981788 AGGGGATGGTGGAGGTGGAGACTTGTAGTAGTAGGGTGGTGGAGGACTAGGTGAAGGTGGGGGTG
1 -GGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGGGGACTAGGTGAAGGTGGTGGTG
* *
7981853 GTGATTTGTAGTAGTAAGGAGGAGGTGGTGAG
65 GTGATTTGTAGTAGTAAGGAGGAGGGGGTGAT
*
7981885 GGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGAGGACTAGGTGAAGGTGGTGGTGG
1 GGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGGGGACTAGGTGAAGGTGGTGGTGG
* *
7981950 TGATTTGTAGTAGTAAGGAGGAGGTGGTGAG
66 TGATTTGTAGTAGTAAGGAGGAGGGGGTGAT
* *
7981981 GGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGGGGACTAGGTGAGGGTGGGGGTGG
1 GGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGGGGACTAGGTGAAGGTGGTGGTGG
* * * * *
7982046 AGACTTGTAATAGTAAGGAGGAGGTGGTGAA
66 TGATTTGTAGTAGTAAGGAGGAGGGGGTGAT
* *
7982077 GGAGATGGTGGAGGTGGTGAGTTGTAGTAGTATGGTGGTGGGGGACTAGGTGAAGGGGGTGGTGG
1 GGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGGGGACTAGGTGAAGGTGGTGGTGG
* * *
7982142 TGATTTGTAATAGTAAGGAGGAGGTGGTGAG
66 TGATTTGTAGTAGTAAGGAGGAGGGGGTGAT
* * *
7982173 GGAGATGGTGGAGGTGGAGACTTGTAGTAGTAAGGAGGTGG
1 GGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGG
7982214 TGAATTGTAA
Statistics
Matches: 626, Mismatches: 72, Indels: 30
0.86 0.10 0.04
Matches are distributed among these distances:
94 4 0.01
95 13 0.02
96 591 0.94
97 13 0.02
98 5 0.01
ACGTcount: A:0.21, C:0.03, G:0.51, T:0.25
Consensus pattern (96 bp):
GGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGGGGACTAGGTGAAGGTGGTGGTGG
TGATTTGTAGTAGTAAGGAGGAGGGGGTGAT
Found at i:7981583 original size:27 final size:26
Alignment explanation
Indices: 7981553--7981643 Score: 88
Period size: 27 Copynumber: 3.7 Consensus size: 26
7981543 GGTGAGGGAG
7981553 ATGGTGGTGGTGGTGACTTGTAAGAGT
1 ATGGTGGTGG-GGTGACTTGTAAGAGT
*
7981580 ATGGTGGTGGGG-GAC---TAGGAG-
1 ATGGTGGTGGGGTGACTTGTAAGAGT
*
7981601 ATGGTGGAGGCGGTGACTTGT-AGTAGT
1 ATGGTGGTGG-GGTGACTTGTAAG-AGT
7981628 ATGGTGGTGGGG-GACT
1 ATGGTGGTGGGGTGACT
7981644 AGGTGAAGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
21 9 0.17
22 7 0.13
23 3 0.06
25 8 0.15
26 7 0.13
27 19 0.36
ACGTcount: A:0.18, C:0.05, G:0.49, T:0.27
Consensus pattern (26 bp):
ATGGTGGTGGGGTGACTTGTAAGAGT
Found at i:7982205 original size:48 final size:48
Alignment explanation
Indices: 7981400--7982215 Score: 623
Period size: 48 Copynumber: 17.0 Consensus size: 48
7981390 GACTAGTAGT
* * * * * * *
7981400 GATAAGGAGGTGGTGGAGGAGGTGACTTATAATAGTAAGGTGGCGG-G
1 GATAGGGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGTG
* * * * * * * * *
7981447 GGTGATGGAGAAGGAGGTGGTGGTGATTTGTAGTAGTAAGGAGGAGG-G
1 GAT-AGGGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGTG
* * * * * * *
7981495 GGTGATGGAGACGGTGGAGGAGGAGATTTGTAGTAGTATGGAGGTGGTG
1 GAT-AGGGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGTG
* *
7981544 G-TGAGGGAGATGGTGGTGGTGGTGACTTGTAAG-AGTATGGTGGTGGGG
1 GAT-AGGGAGATGGTGGAGGTGGTGACTTGT-AGTAGTATGGTGGTGGTG
* *
7981592 GACTA-GGAGATGGTGGAGGCGGTGACTTGTAGTAGTATGGTGGTGGGG
1 GA-TAGGGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGTG
* * * *
7981640 GACTAGGTGA-A-GGGGGTGGTGGTGACTTGTAGTAGTACGGTGATGGTG
1 GA-TAGG-GAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGTG
* * * *
7981688 GACTA-GGAGATGGTGGAGGTGGGGACCTGTAGTAATATGGTGGTGGAGG
1 GA-TAGGGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGG-TG
* * * *
7981737 GCTA-GGAGATGGTGGGGGTGGTGATTTGTAGTAGTATGGTGGTGGGG
1 GATAGGGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGTG
* * *
7981784 GACTAGGG-GATGGTGGAGGTGGAGACTTGTAGTAGTAGGGTGGTGGAG
1 GA-TAGGGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGTG
* * * * *
7981832 GACTAGGTGA-A-GGTGGGGGTGGTGATTTGTAGTAGTAAGGAGGAGGTG
1 GA-TAGG-GAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGTG
*
7981880 G-TGAGGGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGAG
1 GAT-AGGGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGTG
* * * * *
7981928 GACTAGGTGA-A-GGTGGTGGTGGTGATTTGTAGTAGTAAGGAGGAGGTG
1 GA-TAGG-GAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGTG
*
7981976 G-TGAGGGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGGG
1 GAT-AGGGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGTG
* * * * * *
7982024 GACTAGGTGAG--GGTGGGGGTGGAGACTTGTAATAGTAAGGAGGAGGTG
1 GA-TAGG-GAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGTG
* * *
7982072 G-TGAAGGAGATGGTGGAGGTGGTGAGTTGTAGTAGTATGGTGGTGGGG
1 GAT-AGGGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGTG
* * * * * * *
7982120 GACTAGGTGA-A-GGGGGTGGTGGTGATTTGTAATAGTAAGGAGGAGGTG
1 GA-TAGG-GAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGTG
* * *
7982168 G-TGAGGGAGATGGTGGAGGTGGAGACTTGTAGTAGTAAGGAGGTGGTG
1 GAT-AGGGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGTG
7982216 AATTGTAATA
Statistics
Matches: 622, Mismatches: 111, Indels: 71
0.77 0.14 0.09
Matches are distributed among these distances:
46 15 0.02
47 23 0.04
48 548 0.88
49 23 0.04
50 13 0.02
ACGTcount: A:0.21, C:0.03, G:0.51, T:0.25
Consensus pattern (48 bp):
GATAGGGAGATGGTGGAGGTGGTGACTTGTAGTAGTATGGTGGTGGTG
Found at i:7982215 original size:27 final size:24
Alignment explanation
Indices: 7982182--7982233 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
7982172 GGGAGATGGT
* * *
7982182 GGAGGTGGAGACTTGTAGTAGTAA
1 GGAGGTGGTGAATTGTAATAGTAA
7982206 GGAGGTGGTGAATTGTAATAGTAA
1 GGAGGTGGTGAATTGTAATAGTAA
7982230 GGAG
1 GGAG
7982234 AATAATGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.02, G:0.42, T:0.25
Consensus pattern (24 bp):
GGAGGTGGTGAATTGTAATAGTAA
Found at i:7996456 original size:5 final size:5
Alignment explanation
Indices: 7996413--7996455 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
7996403 GGAAAAACCC
* *
7996413 AACAG AACAA AACAA AACAA AACAA AACAA AACAA AACCA AAC
1 AACAA AACAA AACAA AACAA AACAA AACAA AACAA AACAA AAC
7996456 CTAGCTTGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.74, C:0.23, G:0.02, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:7998099 original size:4 final size:4
Alignment explanation
Indices: 7998090--7998149 Score: 120
Period size: 4 Copynumber: 15.0 Consensus size: 4
7998080 ATTAAGTATC
7998090 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7998138 ATGT ATGT ATGT
1 ATGT ATGT ATGT
7998150 GTAACGATTG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:8000638 original size:13 final size:13
Alignment explanation
Indices: 8000620--8000645 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8000610 AATAGAAATC
8000620 ATAAAAATAAAAA
1 ATAAAAATAAAAA
8000633 ATAAAAATAAAAA
1 ATAAAAATAAAAA
8000646 CAAATACATT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAATAAAAA
Found at i:8011909 original size:22 final size:22
Alignment explanation
Indices: 8011879--8011924 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
8011869 ATTACGGATG
*
8011879 TTAACTATTACTATTTTTTATC
1 TTAACTATTACAATTTTTTATC
* * *
8011901 TTAATTATTTCAATTTTTTTTC
1 TTAACTATTACAATTTTTTATC
8011923 TT
1 TT
8011925 TTTATATATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (22 bp):
TTAACTATTACAATTTTTTATC
Found at i:8012435 original size:20 final size:20
Alignment explanation
Indices: 8012412--8012555 Score: 110
Period size: 20 Copynumber: 7.2 Consensus size: 20
8012402 GTTCAGTGGT
* * *
8012412 TTTATCAAAATATTTAAGGA
1 TTTACCAAAATATCTAACGA
* **
8012432 TTTACCAATATATCTAATTA
1 TTTACCAAAATATCTAACGA
* *
8012452 TTTATCAATATATCTAACGA
1 TTTACCAAAATATCTAACGA
* * *
8012472 TTTACCAAAATTTCTATCGT
1 TTTACCAAAATATCTAACGA
* *
8012492 TTTACCAATATATCTAA-TA
1 TTTACCAAAATATCTAACGA
* * * *
8012511 GTTTATCAACATTTCTAAGGA
1 -TTTACCAAAATATCTAACGA
*
8012532 TTTACCAAAATATCTAACAA
1 TTTACCAAAATATCTAACGA
8012552 TTTA
1 TTTA
8012556 TTAAATTTTT
Statistics
Matches: 95, Mismatches: 27, Indels: 4
0.75 0.21 0.03
Matches are distributed among these distances:
20 94 0.99
21 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTACCAAAATATCTAACGA
Found at i:8012482 original size:60 final size:61
Alignment explanation
Indices: 8012412--8012555 Score: 179
Period size: 60 Copynumber: 2.4 Consensus size: 61
8012402 GTTCAGTGGT
* * *
8012412 TTTATCAAAATATT-TAAGGATTTACCAATATATCTAATTA-TTTATCAATATATCTAACGA
1 TTTACCAAAATATTCTAACGATTTACCAATATATCTAA-TAGTTTATCAACATATCTAACGA
* * * *
8012472 TTTACCAAAAT-TTCTATCGTTTTACCAATATATCTAATAGTTTATCAACATTTCTAAGGA
1 TTTACCAAAATATTCTAACGATTTACCAATATATCTAATAGTTTATCAACATATCTAACGA
*
8012532 TTTACCAAAATA-TCTAACAATTTA
1 TTTACCAAAATATTCTAACGATTTA
8012556 TTAAATTTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
59 4 0.06
60 67 0.94
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.41
Consensus pattern (61 bp):
TTTACCAAAATATTCTAACGATTTACCAATATATCTAATAGTTTATCAACATATCTAACGA
Found at i:8012501 original size:40 final size:40
Alignment explanation
Indices: 8012431--8012555 Score: 124
Period size: 40 Copynumber: 3.1 Consensus size: 40
8012421 ATATTTAAGG
* * ** * *
8012431 ATTTACCAATATATCTAATTATTTATCAATATATCTAACG
1 ATTTACCAAAATTTCTAACGATTTACCAATATATCTAACA
* * *
8012471 ATTTACCAAAATTTCTATCGTTTTACCAATATATCTAATA
1 ATTTACCAAAATTTCTAACGATTTACCAATATATCTAACA
* * * * *
8012511 GTTTATCAACATTTCTAAGGATTTACCAAAATATCTAACA
1 ATTTACCAAAATTTCTAACGATTTACCAATATATCTAACA
8012551 ATTTA
1 ATTTA
8012556 TTAAATTTTT
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (40 bp):
ATTTACCAAAATTTCTAACGATTTACCAATATATCTAACA
Found at i:8012821 original size:20 final size:20
Alignment explanation
Indices: 8012778--8012825 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
8012768 TTTCTAAGGA
* *
8012778 TTTATCAAAATATCTATATG
1 TTTACCAAAACATCTATATG
8012798 TTTACCAAAACATCTATCAT-
1 TTTACCAAAACATCTAT-ATG
8012818 TTTACCAA
1 TTTACCAA
8012826 TATTTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.40
Consensus pattern (20 bp):
TTTACCAAAACATCTATATG
Found at i:8012841 original size:20 final size:19
Alignment explanation
Indices: 8012818--8012879 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
8012808 CATCTATCAT
8012818 TTTACCAATATTTATAAAA
1 TTTACCAATATTTATAAAA
*
8012837 CTTTACCAGA-ATTTATAAGA
1 -TTTACCA-ATATTTATAAAA
8012857 TTTCACCAATATTT-TCAAAA
1 TTT-ACCAATATTTAT-AAAA
8012877 TTT
1 TTT
8012880 CAAAACCATG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
19 5 0.14
20 30 0.83
21 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.42
Consensus pattern (19 bp):
TTTACCAATATTTATAAAA
Found at i:8012948 original size:20 final size:21
Alignment explanation
Indices: 8012925--8012968 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
8012915 GTTCTATAAC
8012925 TTTAAC-AAAATATCTAACCA
1 TTTAACTAAAATATCTAACCA
* *
8012945 TTT-ACTAATATTTCTAACCA
1 TTTAACTAAAATATCTAACCA
8012965 TTTA
1 TTTA
8012969 CCAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (21 bp):
TTTAACTAAAATATCTAACCA
Found at i:8012969 original size:20 final size:20
Alignment explanation
Indices: 8012937--8012977 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
8012927 TAACAAAATA
*
8012937 TCTAACCATTTACTAATATT
1 TCTAACCATTTACCAATATT
8012957 TCTAACCATTTACCAATATT
1 TCTAACCATTTACCAATATT
8012977 T
1 T
8012978 TTAAGAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (20 bp):
TCTAACCATTTACCAATATT
Found at i:8013118 original size:20 final size:20
Alignment explanation
Indices: 8013093--8013144 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
8013083 TATCAATTAC
* * *
8013093 CAAAATTTCTATCACTTTAT
1 CAAAATTTCTAACAATTTAA
*
8013113 CAAAATATCTAACAATTTAA
1 CAAAATTTCTAACAATTTAA
*
8013133 CAATATTTCTAA
1 CAAAATTTCTAA
8013145 ATATTTCCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.38
Consensus pattern (20 bp):
CAAAATTTCTAACAATTTAA
Found at i:8013224 original size:20 final size:20
Alignment explanation
Indices: 8013200--8013371 Score: 107
Period size: 20 Copynumber: 8.7 Consensus size: 20
8013190 TATCTCCAAG
*
8013200 GATTTACCAAAATATCTAAC
1 GATTTACCAAAATATCTAAT
* * *
8013220 AATTTACCTATATATCTAAT
1 GATTTACCAAAATATCTAAT
* * *
8013240 GGTTCACTAAAA-ATTCTAAT
1 GATTTACCAAAATA-TCTAAT
** * * *
8013260 GATTTACTGATATATCGAAC
1 GATTTACCAAAATATCTAAT
* * * *
8013280 AAATTACCAAAATTTATAA-
1 GATTTACCAAAATATCTAAT
* *
8013299 GGTTTACCAAAACATCTAAT
1 GATTTACCAAAATATCTAAT
8013319 GATTTACCAAAAT-TCGTAAT
1 GATTTACCAAAATATC-TAAT
* * *
8013339 GTTTTATCAAAATATCTAAC
1 GATTTACCAAAATATCTAAT
*
8013359 AATTTACCAAAAT
1 GATTTACCAAAAT
8013372 TTTTATGGAT
Statistics
Matches: 109, Mismatches: 38, Indels: 10
0.69 0.24 0.06
Matches are distributed among these distances:
19 16 0.15
20 90 0.83
21 3 0.03
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (20 bp):
GATTTACCAAAATATCTAAT
Found at i:8013326 original size:39 final size:39
Alignment explanation
Indices: 8013277--8013388 Score: 116
Period size: 40 Copynumber: 2.8 Consensus size: 39
8013267 TGATATATCG
*
8013277 AACAAATTACCAAAATTTATAAGGTTTACCAAAACATCT
1 AACAATTTACCAAAATTTATAAGGTTTACCAAAACATCT
** ** * * *
8013316 AATGATTTACCAAAATTCGTAATGTTTTATCAAAATATCT
1 AACAATTTACCAAAATTTATAA-GGTTTACCAAAACATCT
* *
8013356 AACAATTTACCAAAATTTTTATGGATTTACCAA
1 AACAATTTACCAAAATTTATAAGG-TTTACCAA
8013389 TATTTATGTT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
39 18 0.32
40 38 0.68
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (39 bp):
AACAATTTACCAAAATTTATAAGGTTTACCAAAACATCT
Found at i:8013510 original size:20 final size:20
Alignment explanation
Indices: 8013487--8013593 Score: 135
Period size: 20 Copynumber: 5.3 Consensus size: 20
8013477 TTTCTACGAC
* *
8013487 TTTACCAAAATATATAATGA
1 TTTACCAATATATCTAATGA
8013507 TTTACCAA-AGTATCTAATGA
1 TTTACCAATA-TATCTAATGA
*
8013527 TTTACCAATATATCTAACGA
1 TTTACCAATATATCTAATGA
* * **
8013547 TTTTCCAATATTTCTAACAA
1 TTTACCAATATATCTAATGA
8013567 TTTACCAATATATCTAATGA
1 TTTACCAATATATCTAATGA
8013587 TTTACCA
1 TTTACCA
8013594 TTTACCAAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 1 0.01
20 74 0.97
21 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (20 bp):
TTTACCAATATATCTAATGA
Found at i:8013513 original size:40 final size:40
Alignment explanation
Indices: 8013468--8013593 Score: 155
Period size: 40 Copynumber: 3.1 Consensus size: 40
8013458 GTCTTAACAA
* *
8013468 TTACCAAAATTTCT-ACGACTTTACCAAAATATATAATGAT
1 TTACCAAAATTTCTAACGA-TTTACCAATATATCTAATGAT
* * * *
8013508 TTACCAAAGTATCTAATGATTTACCAATATATCTAACGAT
1 TTACCAAAATTTCTAACGATTTACCAATATATCTAATGAT
* * *
8013548 TTTCCAATATTTCTAACAATTTACCAATATATCTAATGAT
1 TTACCAAAATTTCTAACGATTTACCAATATATCTAATGAT
8013588 TTACCA
1 TTACCA
8013594 TTTACCAAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 68 0.96
41 3 0.04
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (40 bp):
TTACCAAAATTTCTAACGATTTACCAATATATCTAATGAT
Found at i:8013637 original size:40 final size:40
Alignment explanation
Indices: 8013593--8013689 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
8013583 ATGATTTACC
* * *
8013593 ATTTACCAAAATTTTTAAGGACTTACCAAAATATTTGACA
1 ATTTACCAAAATTTCTAAGGACTTACCAAAATATCTAACA
* ** * *
8013633 ATTTACTACTATTTCTAAGGATTTACCAATATATCTAACA
1 ATTTACCAAAATTTCTAAGGACTTACCAAAATATCTAACA
**
8013673 ATTTGTCAAAATTTCTA
1 ATTTACCAAAATTTCTA
8013690 TAGATTTACA
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (40 bp):
ATTTACCAAAATTTCTAAGGACTTACCAAAATATCTAACA
Found at i:8013676 original size:20 final size:20
Alignment explanation
Indices: 8013615--8013676 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 20
8013605 TTTTAAGGAC
* * *
8013615 TTACCAAAATATTTGACAAT
1 TTACCAATATATCTAACAAT
* * * **
8013635 TTACTACTATTTCTAAGGAT
1 TTACCAATATATCTAACAAT
8013655 TTACCAATATATCTAACAAT
1 TTACCAATATATCTAACAAT
8013675 TT
1 TT
8013677 GTCAAAATTT
Statistics
Matches: 29, Mismatches: 13, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (20 bp):
TTACCAATATATCTAACAAT
Found at i:8013740 original size:20 final size:19
Alignment explanation
Indices: 8013717--8013755 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
8013707 ATGAGACTTC
8013717 ACCAAAATTTCCAAGATTTT
1 ACCAAAATTTCCAA-ATTTT
*
8013737 ACCAATATTTCCAAATTTT
1 ACCAAAATTTCCAAATTTT
8013756 CTAACCCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (19 bp):
ACCAAAATTTCCAAATTTT
Found at i:8013888 original size:20 final size:20
Alignment explanation
Indices: 8013843--8013912 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
8013833 TATTTCTTTG
* * *
8013843 GATTTACCAAAATATCTA-A
1 GATTTACCAATATTTATATA
* *
8013862 GACTTTACCAATATTTGTATT
1 GA-TTTACCAATATTTATATA
*
8013883 GATTTACCAATTTTTATATA
1 GATTTACCAATATTTATATA
8013903 GATTTACCAA
1 GATTTACCAA
8013913 AATATCTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.05
20 38 0.90
21 2 0.05
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.41
Consensus pattern (20 bp):
GATTTACCAATATTTATATA
Found at i:8030877 original size:176 final size:177
Alignment explanation
Indices: 8030670--8031036 Score: 709
Period size: 176 Copynumber: 2.1 Consensus size: 177
8030660 TAATACATTT
*
8030670 ATAACATATAAATTAATTTTTATACTAATTTTTTTCCATAACTTAAAAAAATAGGATTTAAATAA
1 ATAATATATAAATTAATTTTTATACTAATTTTTTTCCATAACTTAAAAAAATAGGATTTAAATAA
8030735 TATAATTTTTTGTTATAACATTATAGAATACACATAAATTATTTTTATAATATAATTTTTTAGGA
66 TATAATTTTTTGTTATAACATTATAGAATACACATAAATTATTTTTATAATATAATTTTTTAGGA
8030800 TTTATAATAAATCTTTGTCATAACCATCCCAAATACCATACATGCTC
131 TTTATAATAAATCTTTGTCATAACCATCCCAAATACCATACATGCTC
8030847 ATAATATATAAATTAA-TTTTATACTAATTTTTTTCCATAACTTAAAAAAATAGGATTTAAATAA
1 ATAATATATAAATTAATTTTTATACTAATTTTTTTCCATAACTTAAAAAAATAGGATTTAAATAA
8030911 TATAATTTTTTGTTATAACATTATAGAATACACATAAATTATTTTTATAATATAATTTTTTAGGA
66 TATAATTTTTTGTTATAACATTATAGAATACACATAAATTATTTTTATAATATAATTTTTTAGGA
8030976 TTTATAATAAATCTTTGTCATAACCATCCCAAATACCATACATGCTC
131 TTTATAATAAATCTTTGTCATAACCATCCCAAATACCATACATGCTC
*
8031023 ATAATATAAAAATT
1 ATAATATATAAATT
8031037 GATAACTTGA
Statistics
Matches: 188, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
176 173 0.92
177 15 0.08
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (177 bp):
ATAATATATAAATTAATTTTTATACTAATTTTTTTCCATAACTTAAAAAAATAGGATTTAAATAA
TATAATTTTTTGTTATAACATTATAGAATACACATAAATTATTTTTATAATATAATTTTTTAGGA
TTTATAATAAATCTTTGTCATAACCATCCCAAATACCATACATGCTC
Found at i:8040105 original size:24 final size:24
Alignment explanation
Indices: 8040055--8040106 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
8040045 AGTCAAAGTC
** *
8040055 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
8040079 AAATATATTATACTCATAAATATT
1 AAATATATTATACTAATAAATACT
8040103 AAAT
1 AAAT
8040107 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:8075193 original size:3 final size:3
Alignment explanation
Indices: 8075185--8075214 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8075175 TTTAGCCTCA
8075185 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
8075215 ATTGCTTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:8077540 original size:52 final size:52
Alignment explanation
Indices: 8077453--8077567 Score: 178
Period size: 52 Copynumber: 2.2 Consensus size: 52
8077443 TCATACATAA
* * *
8077453 AGCTTTGACAGTGAAATAATAACAGCATGTTTGATTCATTGTAATGTAATGG
1 AGCTTTGATAGTGAAATAATAACAGCATGTTTGATTCATTGTAATGCAATAG
*
8077505 AGAC-TTGATAGTGAAATAATAACAGTATGTTTGATTCATTGTAATGCAATAG
1 AG-CTTTGATAGTGAAATAATAACAGCATGTTTGATTCATTGTAATGCAATAG
8077557 AGCTTTGATAG
1 AGCTTTGATAG
8077568 ACGTAAGCAT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
51 1 0.02
52 55 0.96
53 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.35
Consensus pattern (52 bp):
AGCTTTGATAGTGAAATAATAACAGCATGTTTGATTCATTGTAATGCAATAG
Found at i:8080712 original size:82 final size:80
Alignment explanation
Indices: 8080573--8080781 Score: 323
Period size: 82 Copynumber: 2.6 Consensus size: 80
8080563 AAAAAAAGTA
*
8080573 AATTAAAGTTAGAAAATAAGTAAAAAAGTGTAATAAATGGTAATCCTAATAACATTTTTCTATAA
1 AATTAAAGTTAAAAAATAA--AAAAAAGTGTAATAAATGGTAATCCTAATAACATTTTTCTATAA
8080638 AAAGTAATTTCCTTCCC
64 AAAGTAATTTCCTTCCC
* *
8080655 AATTAAAGTTAAAAAATAAAAAAAAAAGTGTAATAAATGGCAATCCTAATAATATTTTTCTATAA
1 AATTAAAGTTAAAAAAT--AAAAAAAAGTGTAATAAATGGTAATCCTAATAACATTTTTCTATAA
*
8080720 AAAGTCATTTCCTTCCC
64 AAAGTAATTTCCTTCCC
*
8080737 AATTAAAGTTAAAAAAT--AAATAAGTGTAATAAATGGTAATCCTAA
1 AATTAAAGTTAAAAAATAAAAAAAAGTGTAATAAATGGTAATCCTAA
8080782 GTCATTTCCT
Statistics
Matches: 119, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
78 26 0.22
82 91 0.76
84 2 0.02
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.32
Consensus pattern (80 bp):
AATTAAAGTTAAAAAATAAAAAAAAGTGTAATAAATGGTAATCCTAATAACATTTTTCTATAAAA
AGTAATTTCCTTCCC
Found at i:8080785 original size:59 final size:59
Alignment explanation
Indices: 8080716--8080875 Score: 205
Period size: 59 Copynumber: 2.7 Consensus size: 59
8080706 ATATTTTTCT
* *
8080716 ATAAAAAGTCATTTCCTTCCCAATTAAAGTTAAAAAATAAATAAGTGTAATAAATGGTA
1 ATAACAAGTCATTTCCTTCCCAATTAAAGTTAAAAAATAAATAAGTGTAATAAATGATA
* * *
8080775 AT-CCTAAGTCATTTCCTCCCCAATTAAAGTTAAAAAATAGATAAGTGTAATAAATGATA
1 ATAAC-AAGTCATTTCCTTCCCAATTAAAGTTAAAAAATAAATAAGTGTAATAAATGATA
** * * *
8080834 ATAACATTTTCCTATCCTTCCCAATTAAAGATAAAAAATAAA
1 ATAACA-AGTCATTTCCTTCCCAATTAAAGTTAAAAAATAAA
8080876 AAATAAAAAG
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
59 56 0.66
60 29 0.34
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (59 bp):
ATAACAAGTCATTTCCTTCCCAATTAAAGTTAAAAAATAAATAAGTGTAATAAATGATA
Found at i:8084821 original size:12 final size:12
Alignment explanation
Indices: 8084804--8084828 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8084794 TGTTATTTCG
8084804 GGTCGGTTAACC
1 GGTCGGTTAACC
8084816 GGTCGGTTAACC
1 GGTCGGTTAACC
8084828 G
1 G
8084829 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:8089673 original size:22 final size:21
Alignment explanation
Indices: 8089645--8089698 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
8089635 AGAAATATAT
*
8089645 AAATATATAAATATATTCAAAA
1 AAATATATAAATAAATT-AAAA
*
8089667 AAATATA-ATAATAAATTTAAA
1 AAATATATA-AATAAATTAAAA
*
8089688 ATATATATAAA
1 AAATATATAAA
8089699 AATAAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATATATAAATAAATTAAAA
Found at i:8089708 original size:31 final size:34
Alignment explanation
Indices: 8089637--8089709 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 34
8089627 AAATTCAAAG
8089637 AAATATATAAATATATAAATATATTCAAAAAAATA
1 AAATA-ATAAATATATAAATATATTCAAAAAAATA
* * *
8089672 TAATAATAAATTTA-AAATATA-T-ATAAAAATA
1 AAATAATAAATATATAAATATATTCAAAAAAATA
8089703 AAATAAT
1 AAATAAT
8089710 TGAATTTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
31 14 0.41
32 1 0.03
33 7 0.21
34 8 0.24
35 4 0.12
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (34 bp):
AAATAATAAATATATAAATATATTCAAAAAAATA
Found at i:8097915 original size:24 final size:24
Alignment explanation
Indices: 8097867--8097915 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
8097857 AAATAAAATA
* *
8097867 ATATTAAATTATAATTTTATCATT
1 ATATTAAATTATAATTTCATAATT
* *
8097891 ATATTAATTTATAGTTTCATAATT
1 ATATTAAATTATAATTTCATAATT
8097915 A
1 A
8097916 AATATATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
ATATTAAATTATAATTTCATAATT
Found at i:8108034 original size:13 final size:13
Alignment explanation
Indices: 8108016--8108055 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
8108006 AGATCTTCAT
8108016 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
8108029 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
8108042 TTCTTTTGAAAAG
1 TGCTTTTGAAAAG
8108055 T
1 T
8108056 TTGGTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:8111040 original size:6 final size:6
Alignment explanation
Indices: 8111021--8111063 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
8111011 AATATAATAG
* *
8111021 AATATT AATCTT AATATT AA-ATT TATATT AATATT AATATT AA
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AA
8111064 ATAAAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (6 bp):
AATATT
Found at i:8111049 original size:23 final size:23
Alignment explanation
Indices: 8111022--8111065 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
8111012 ATATAATAGA
*
8111022 ATATTAATCTTAATATTAAATTT
1 ATATTAATATTAATATTAAATTT
8111045 ATATTAATATTAATATTAAAT
1 ATATTAATATTAATATTAAAT
8111066 AAAAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATTAATATTAATATTAAATTT
Found at i:8115597 original size:21 final size:21
Alignment explanation
Indices: 8115538--8115599 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
8115528 CAGAAGCAGT
* * *
8115538 ATACAACACATAAAGTACCTA
1 ATACGACACATATAGTGCCTA
* ** *
8115559 AAACGACACACGTTGTGCCTA
1 ATACGACACATATAGTGCCTA
8115580 ATACGACACATATAGTGCCT
1 ATACGACACATATAGTGCCT
8115600 GATCGGCAAA
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.40, C:0.26, G:0.13, T:0.21
Consensus pattern (21 bp):
ATACGACACATATAGTGCCTA
Found at i:8116740 original size:21 final size:21
Alignment explanation
Indices: 8116716--8116761 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
8116706 AAAATCTTAT
*
8116716 AATATA-ATTATTTAATTAATA
1 AATATATATTACTTAA-TAATA
*
8116737 AATATATTTTACTTAATAATA
1 AATATATATTACTTAATAATA
8116758 AATA
1 AATA
8116762 ATAAATATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATATATTACTTAATAATA
Found at i:8116785 original size:30 final size:28
Alignment explanation
Indices: 8116732--8116799 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 28
8116722 ATTATTTAAT
8116732 TAATAAATATATTTTACTTAATAATAAA
1 TAATAAATATATTTTACTTAATAATAAA
* *
8116760 TAATAAATATCTATTTACTTAAATAATAAG
1 TAATAAATATAT-TTTACTT-AATAATAAA
8116790 TAATTAAATA
1 TAA-TAAATA
8116800 AATCTATTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 11 0.31
29 7 0.20
30 11 0.31
31 6 0.17
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (28 bp):
TAATAAATATATTTTACTTAATAATAAA
Found at i:8118803 original size:101 final size:104
Alignment explanation
Indices: 8118627--8118835 Score: 397
Period size: 101 Copynumber: 2.0 Consensus size: 104
8118617 ACCAAGTCCC
8118627 TATACATGCCATATAAATCAAAAACTTGTTTAACAAAATCTACCGGAGTAAATCCGGATAGTGTG
1 TATACATGCCATATAAATCAAAAACTTGTTTAACAAAATCTACCGGAGTAAATCCGGATAGTGTG
8118692 ATGTAGATCCGATCCTCCGAATATATAT-A-TATATATA
66 ATGTAGATCCGATCCTCCGAATATATATAATTATATATA
8118729 TATACATGCCATA-AAATCAAAAACTTGTTTAACAAAATCTACCGGAGTAAATCCGGATAGTGTG
1 TATACATGCCATATAAATCAAAAACTTGTTTAACAAAATCTACCGGAGTAAATCCGGATAGTGTG
8118793 ATGTAGATCCGATCCTCCGAATATATATAATTATATATA
66 ATGTAGATCCGATCCTCCGAATATATATAATTATATATA
8118832 TATA
1 TATA
8118836 TATATATATA
Statistics
Matches: 105, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
101 79 0.75
102 14 0.13
103 12 0.11
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (104 bp):
TATACATGCCATATAAATCAAAAACTTGTTTAACAAAATCTACCGGAGTAAATCCGGATAGTGTG
ATGTAGATCCGATCCTCCGAATATATATAATTATATATA
Found at i:8118820 original size:2 final size:2
Alignment explanation
Indices: 8118813--8118850 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
8118803 GATCCTCCGA
8118813 AT AT AT AT A- AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8118851 CACTATACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8121802 original size:9 final size:9
Alignment explanation
Indices: 8121788--8121816 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
8121778 GAATGTGAAA
8121788 TGAATTGGT
1 TGAATTGGT
8121797 TGAATTGGT
1 TGAATTGGT
8121806 TGAATTGGT
1 TGAATTGGT
8121815 TG
1 TG
8121817 TGATTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (9 bp):
TGAATTGGT
Found at i:8123795 original size:468 final size:461
Alignment explanation
Indices: 8122881--8123810 Score: 1693
Period size: 468 Copynumber: 2.0 Consensus size: 461
8122871 GCTGATTTTT
8122881 TATTGTCTAGCCGTCCAGCCCATATAATTTGGGCCTAATTGCCTTTTAAATCCCTCCTTATTAGT
1 TATTGTCTAGCCGTCCAGCCCATATAATTTGGGCCTAATTGCCTTTTAAATCCCTCCTTATTAGT
8122946 CACTTAAGCTATTTAATCACAATTTAACAAATTTTGTACTATTTTCAATTTAGTCCTTTTTAATT
66 CACTTAAGCTATTTAATCACAATTTAACAAATTTTGTACTATTTTCAATTTAGTCCTTTTTAATT
**
8123011 AATTGACTATCCAAACGTTAAAATTTTGTAACGAAACTTATATAATAACTCAATGACACTCCATA
131 AATTGACTATCCAAACGTTAAAATTTTCAAACGAAACTTATATAATAACTCAATGACACTCCATA
* * *
8123076 AATATTTATAAAAATATTTATGGCTTGGTTTATAAACTCGAGGTCTCGATACCTCATTTTAGACC
196 AATACTTATAAAAATATTTATGACTCGGTTTATAAACTCGAGGTCTCGATACCTCATTTTAGACC
8123141 CAATTTACCTATTAAATTTTTTTTAAATCACAAAATTCACTAATTTAAAAATTCTTCTAAATCCA
261 CAATTTACCTATTAAATTTTTTTTAAATCACAAAATTCACTAATTTAAAAATTCTTCTAAATCCA
8123206 TACTTGACCCATAATTATTAGTTTATTAAATTTTAAGACTCATTGGTCGGATTTAGTGATCTCGA
326 TACTTGACCCATAATTATTAGTTTATTAAATTTTAAGACTCATTGGTCGGATTTAGTGATCTCGA
8123271 ATCATTGTTTTCGACACTATTAGAAATTAGGCTGTTACAGTCAGCACTAGTGACAGGGAATGTCA
391 ATCATTGTTTTCGACACTATTAGAAATTAGGCTGTTACAGTCAGCACTAGTGACAGGGAATGTCA
8123336 ATGCCA
456 ATGCCA
8123342 TATTGTCTAGCCGTCCAGCCCATATAATTTGGGCCTAATTGCCTTTTAAATCCCTCCTTATTAGT
1 TATTGTCTAGCCGTCCAGCCCATATAATTTGGGCCTAATTGCCTTTTAAATCCCTCCTTATTAGT
8123407 CACTTAAGCTATTTAATCACAATTTAACAAATTTTGTACTATTTTCAATTTAGTCCTTTTTAATT
66 CACTTAAGCTATTTAATCACAATTTAACAAATTTTGTACTATTTTCAATTTAGTCCTTTTTAATT
* * *
8123472 AATTGACTATCCAAACGTTAACATTTTCAAACGAAACTTTTATACTAACTCAATGACACTCCATA
131 AATTGACTATCCAAACGTTAAAATTTTCAAACGAAACTTATATAATAACTCAATGACACTCCATA
8123537 AATACTTATAAAAATATTTATGACTCGGCTTATGAATTTGAGATA-TCGAGGTCTCGA-ACCTCA
196 AATACTTATAAAAATATTTATGACTCGG-TT-T--A--T-A-A-ACTCGAGGTCTCGATACCTCA
8123600 TTTTAGACCCAATTTACCTATTAAATTTTTTTTAAATCACAAAATTCACTAATTTAAAAATTCTT
252 TTTTAGACCCAATTTACCTATTAAATTTTTTTTAAATCACAAAATTCACTAATTTAAAAATTCTT
8123665 CTAAATCCATACTTGACCCATAATTATTAGTTTATTAAATTTTAAGACTCATTGGTCGGATTTAG
317 CTAAATCCATACTTGACCCATAATTATTAGTTTATTAAATTTTAAGACTCATTGGTCGGATTTAG
8123730 TGATCTCGAATCATTGTTTTCGACACTATTAGAAATTAGGCTGTTACAGTCAGCACTAGTGACAG
382 TGATCTCGAATCATTGTTTTCGACACTATTAGAAATTAGGCTGTTACAGTCAGCACTAGTGACAG
8123795 GGAATGTCAATGCCA
447 GGAATGTCAATGCCA
8123810 T
1 T
8123811 TGGCCCAAAG
Statistics
Matches: 452, Mismatches: 8, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
461 215 0.48
462 2 0.00
463 1 0.00
465 1 0.00
467 1 0.00
468 218 0.48
469 13 0.03
470 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (461 bp):
TATTGTCTAGCCGTCCAGCCCATATAATTTGGGCCTAATTGCCTTTTAAATCCCTCCTTATTAGT
CACTTAAGCTATTTAATCACAATTTAACAAATTTTGTACTATTTTCAATTTAGTCCTTTTTAATT
AATTGACTATCCAAACGTTAAAATTTTCAAACGAAACTTATATAATAACTCAATGACACTCCATA
AATACTTATAAAAATATTTATGACTCGGTTTATAAACTCGAGGTCTCGATACCTCATTTTAGACC
CAATTTACCTATTAAATTTTTTTTAAATCACAAAATTCACTAATTTAAAAATTCTTCTAAATCCA
TACTTGACCCATAATTATTAGTTTATTAAATTTTAAGACTCATTGGTCGGATTTAGTGATCTCGA
ATCATTGTTTTCGACACTATTAGAAATTAGGCTGTTACAGTCAGCACTAGTGACAGGGAATGTCA
ATGCCA
Found at i:8130197 original size:30 final size:29
Alignment explanation
Indices: 8130146--8130288 Score: 114
Period size: 29 Copynumber: 4.8 Consensus size: 29
8130136 ACTTAATTAA
* *
8130146 AAAATTATAATTTAATTATTAAATTATTT
1 AAAATTTTTATTTAATTATTAAATTATTT
* *
8130175 AAAATTTTTATTTAAGTTATTAAACT-GTT
1 AAAATTTTTATTTAA-TTATTAAATTATTT
* *
8130204 AAAATTTAGTCTGATTTTAATCACTT-AATTA--A
1 AAAATTT--T-T-A-TTTAATTA-TTAAATTATTT
* *
8130236 AAAATTATAATTTAATTATTAAATTATTT
1 AAAATTTTTATTTAATTATTAAATTATTT
8130265 AAAATTTTTATTTAAGTTATTAAA
1 AAAATTTTTATTTAA-TTATTAAA
8130289 CTGTTAAAAT
Statistics
Matches: 89, Mismatches: 13, Indels: 23
0.71 0.10 0.18
Matches are distributed among these distances:
26 2 0.02
27 12 0.13
28 1 0.01
29 35 0.39
30 18 0.20
31 1 0.01
32 7 0.08
33 6 0.07
34 7 0.08
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (29 bp):
AAAATTTTTATTTAATTATTAAATTATTT
Found at i:8130233 original size:90 final size:91
Alignment explanation
Indices: 8130114--8130299 Score: 365
Period size: 90 Copynumber: 2.1 Consensus size: 91
8130104 TATCTCCTTC
8130114 AAATTTAGTCTGAGTTTTAATCACTTAATTAAAAAATTATAATTTAATTATTAAATTATTTAAAA
1 AAATTTAGTCTGAGTTTTAATCACTTAATTAAAAAATTATAATTTAATTATTAAATTATTTAAAA
8130179 TTTTTATTTAAGTTATTAAACTGTTA
66 TTTTTATTTAAGTTATTAAACTGTTA
8130205 AAATTTAGTCTGA-TTTTAATCACTTAATTAAAAAATTATAATTTAATTATTAAATTATTTAAAA
1 AAATTTAGTCTGAGTTTTAATCACTTAATTAAAAAATTATAATTTAATTATTAAATTATTTAAAA
8130269 TTTTTATTTAAGTTATTAAACTGTTA
66 TTTTTATTTAAGTTATTAAACTGTTA
8130295 AAATT
1 AAATT
8130300 GATGTTATAT
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 82 0.86
91 13 0.14
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.48
Consensus pattern (91 bp):
AAATTTAGTCTGAGTTTTAATCACTTAATTAAAAAATTATAATTTAATTATTAAATTATTTAAAA
TTTTTATTTAAGTTATTAAACTGTTA
Found at i:8131887 original size:27 final size:29
Alignment explanation
Indices: 8131826--8131890 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
8131816 TGTAAAATTG
**
8131826 AAATTTAGTCCATATATTTTTTATTTCTA
1 AAATTTAGTCCATATATTTTAAATTTCTA
8131855 AGAATTTAGTCC-TAT-TTTTCAAATTTC-A
1 A-AATTTAGTCCATATATTTT-AAATTTCTA
8131883 AAATTTAG
1 AAATTTAG
8131891 GCTCAAAGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 7 0.22
28 6 0.19
29 9 0.28
30 10 0.31
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (29 bp):
AAATTTAGTCCATATATTTTAAATTTCTA
Found at i:8146531 original size:33 final size:36
Alignment explanation
Indices: 8146494--8146570 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 36
8146484 ATAACCCAGT
*
8146494 TATGGTCTTTTCA-TTAAA-A-TGTCATAGCCCAAC
1 TATGGTCTTTACATTTAAACATTGTCATAGCCCAAC
* *
8146527 TATGGTC-TTACATTTAAACATTGTCATGGTCCAAC
1 TATGGTCTTTACATTTAAACATTGTCATAGCCCAAC
*
8146562 CATGGTCTT
1 TATGGTCTT
8146571 ATCTGTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 4 0.11
33 12 0.33
34 1 0.03
35 18 0.50
36 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (36 bp):
TATGGTCTTTACATTTAAACATTGTCATAGCCCAAC
Found at i:8147847 original size:4 final size:4
Alignment explanation
Indices: 8147838--8147941 Score: 199
Period size: 4 Copynumber: 26.0 Consensus size: 4
8147828 TATTTTTGAA
8147838 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
8147886 TATG TATG TATG TATG TATG TATG TATG TATG TATG TACG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
8147934 TATG TATG
1 TATG TATG
8147942 CTATATTCGT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 98 1.00
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:8152732 original size:14 final size:14
Alignment explanation
Indices: 8152715--8152758 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
8152705 GAAATTATTT
8152715 TTTTAATATTAAAA
1 TTTTAATATTAAAA
* *
8152729 TTTTAATTTTTAAA
1 TTTTAATATTAAAA
*
8152743 TTTCAAATATTAAAA
1 TTT-TAATATTAAAA
8152758 T
1 T
8152759 AAATTAATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTAATATTAAAA
Found at i:8153249 original size:13 final size:13
Alignment explanation
Indices: 8153233--8153261 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8153223 AAAATAAATT
8153233 AAATAAATTGTTG
1 AAATAAATTGTTG
8153246 AAATAAATTGTTG
1 AAATAAATTGTTG
8153259 AAA
1 AAA
8153262 GTTTTTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (13 bp):
AAATAAATTGTTG
Found at i:8156160 original size:33 final size:34
Alignment explanation
Indices: 8156096--8156162 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
8156086 CTTTGTATGA
*
8156096 TAAAAAATAAAAATAAAAATTATTATAATCATTT
1 TAAAAAATAAAAATAAAAATTATAATAATCATTT
** *
8156130 TAAAAAATAAAAATATCATTTATAAT-ATCATTT
1 TAAAAAATAAAAATAAAAATTATAATAATCATTT
8156163 CACCACCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 7 0.24
34 22 0.76
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.37
Consensus pattern (34 bp):
TAAAAAATAAAAATAAAAATTATAATAATCATTT
Found at i:8159288 original size:24 final size:24
Alignment explanation
Indices: 8159260--8159306 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
8159250 CTATCATTCT
*
8159260 AATTACTTACACTTAATCTCGTCC
1 AATTACTTACACTTAATCGCGTCC
8159284 AATTACTTACACTTAATCGCGTC
1 AATTACTTACACTTAATCGCGTC
8159307 ACATCATTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (24 bp):
AATTACTTACACTTAATCGCGTCC
Found at i:8159454 original size:29 final size:28
Alignment explanation
Indices: 8159422--8159507 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 28
8159412 CAGAATAGAG
*
8159422 TAGCACTGAAGTG-TAATGCCAAAACAAAA
1 TAGCACTAAAGTGCTAAT--CAAAACAAAA
*
8159451 TAGCACTAAAGTGCTTAATCAAAACATAA
1 TAGCACTAAAGTGC-TAATCAAAACAAAA
*
8159480 TAGCACCAAAGTGC-AATAACAAAACAAA
1 TAGCACTAAAGTGCTAAT--CAAAACAAA
8159508 GAGCGCGCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
27 3 0.06
29 42 0.86
31 4 0.08
ACGTcount: A:0.51, C:0.19, G:0.13, T:0.17
Consensus pattern (28 bp):
TAGCACTAAAGTGCTAATCAAAACAAAA
Found at i:8171028 original size:126 final size:126
Alignment explanation
Indices: 8170803--8171225 Score: 704
Period size: 126 Copynumber: 3.4 Consensus size: 126
8170793 TTAGGCCAAA
* * * * * *
8170803 CAGGAGCTACTAAAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
1 CAGGAGCTACTATAGCAAAAGAGCGTCCACGTAGGAGCTTCTTTTAGTACTTTTGTTGACAAAGC
8170868 ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGCAATTATTTTTT
66 ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGCAATTATTTTTT
* *
8170929 CAGGAGCTACTATAGCAAAAGAGCGTCTACGTAGGAGTTTCTTTTAGTACTTTTGTTGACAAAGC
1 CAGGAGCTACTATAGCAAAAGAGCGTCCACGTAGGAGCTTCTTTTAGTACTTTTGTTGACAAAGC
8170994 ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGCAATTATTTTTT
66 ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGCAATTATTTTTT
* *
8171055 CAGGAGCTACTATAGCAAAAGAGCGTCTACGTAGGAGTTTCTTTTAGTACTTTTGTTGACAAAGC
1 CAGGAGCTACTATAGCAAAAGAGCGTCCACGTAGGAGCTTCTTTTAGTACTTTTGTTGACAAAGC
* *
8171120 ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTT
66 ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGCAATTATTTTTT
* * *
8171181 CAAGAGCTACTATAGCAAAAAAGCGTCCACGTGGGAGCTT-TTTTA
1 CAGGAGCTACTATAGCAAAAGAGCGTCCACGTAGGAGCTTCTTTTA
8171226 AATTAACACT
Statistics
Matches: 282, Mismatches: 15, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
125 5 0.02
126 277 0.98
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (126 bp):
CAGGAGCTACTATAGCAAAAGAGCGTCCACGTAGGAGCTTCTTTTAGTACTTTTGTTGACAAAGC
ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGCAATTATTTTTT
Found at i:8173422 original size:23 final size:23
Alignment explanation
Indices: 8173372--8173676 Score: 102
Period size: 23 Copynumber: 13.5 Consensus size: 23
8173362 ATATGTTAAT
* *
8173372 TATGCAAACCCTACATA-TG-CA
1 TATGCGAACCCTACATATTGTAA
*
8173393 TATGCGAACACTACATATTGTAA
1 TATGCGAACCCTACATATTGTAA
**
8173416 TATGCGAACCCTGTATATT-T-A
1 TATGCGAACCCTACATATTGTAA
* * * * *
8173437 TCATGCGAGCTCTATACA-TGTATT
1 T-ATGCGAACCCTACATATTGTA-A
* * *
8173461 TATGCAAACCGTACA-AGTAGTAA
1 TATGCGAACCCTACATA-TTGTAA
8173484 TATGCGAACCCTACATATTGTAA
1 TATGCGAACCCTACATATTGTAA
* * *
8173507 TATGTGAACCCT--GT-TTGTTTA
1 TATGCGAACCCTACATATTG-TAA
* * * *
8173528 TCATGCGAGCCCTATACA-TGTATT
1 T-ATGCGAACCCTACATATTGTA-A
* * * *
8173552 TATGCAAATCGTACA-ACTAGTAA
1 TATGCGAACCCTACATA-TTGTAA
*
8173575 TATGTGAACCCTACATATTGTAA
1 TATGCGAACCCTACATATTGTAA
* * *
8173598 TATGTGAACCCT--GT-TTGTTTA
1 TATGCGAACCCTACATATTG-TAA
* * *
8173619 TCATGCGAGCCCTATATA-TGTATT
1 T-ATGCGAACCCTACATATTGTA-A
* *
8173643 TATGTGAACCCTACA-AGTAGTAA
1 TATGCGAACCCTACATA-TTGTAA
8173666 TATGCGAACCC
1 TATGCGAACCC
8173677 CGTATGTTTA
Statistics
Matches: 203, Mismatches: 55, Indels: 50
0.66 0.18 0.16
Matches are distributed among these distances:
20 6 0.03
21 26 0.13
22 37 0.18
23 115 0.57
24 19 0.09
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (23 bp):
TATGCGAACCCTACATATTGTAA
Found at i:8173498 original size:91 final size:91
Alignment explanation
Indices: 8173347--8173676 Score: 463
Period size: 91 Copynumber: 3.7 Consensus size: 91
8173337 CCCATATGAA
* * * * *
8173347 TATCTTGCGAGCCCTAT--ATGTTAATTATGCAAACCCTAC-A-TA-TGCATATGCGAACACTAC
1 TATCATGCGAGCCCTATACATG-TATTTATGCAAACCGTACAAGTAGT-AATATGCGAACCCTAC
* * *
8173407 ATATTGTAATATGCGAACCCTGTATATT
64 ATATTGTAATATGTGAACCCTGTTTGTT
*
8173435 TATCATGCGAGCTCTATACATGTATTTATGCAAACCGTACAAGTAGTAATATGCGAACCCTACAT
1 TATCATGCGAGCCCTATACATGTATTTATGCAAACCGTACAAGTAGTAATATGCGAACCCTACAT
8173500 ATTGTAATATGTGAACCCTGTTTGTT
66 ATTGTAATATGTGAACCCTGTTTGTT
* * *
8173526 TATCATGCGAGCCCTATACATGTATTTATGCAAATCGTACAACTAGTAATATGTGAACCCTACAT
1 TATCATGCGAGCCCTATACATGTATTTATGCAAACCGTACAAGTAGTAATATGCGAACCCTACAT
8173591 ATTGTAATATGTGAACCCTGTTTGTT
66 ATTGTAATATGTGAACCCTGTTTGTT
* ** *
8173617 TATCATGCGAGCCCTATATATGTATTTATGTGAACCCTACAAGTAGTAATATGCGAACCC
1 TATCATGCGAGCCCTATACATGTATTTATGCAAACCGTACAAGTAGTAATATGCGAACCC
8173677 CGTATGTTTA
Statistics
Matches: 217, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
88 15 0.07
89 16 0.07
90 4 0.02
91 181 0.83
92 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (91 bp):
TATCATGCGAGCCCTATACATGTATTTATGCAAACCGTACAAGTAGTAATATGCGAACCCTACAT
ATTGTAATATGTGAACCCTGTTTGTT
Done.