Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 194 of 216
Found at i:60402542 original size:18 final size:17
Alignment explanation
Indices: 60402512--60402545 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
60402502 ATAACTATAG
60402512 TTTAAATTATAATTATT
1 TTTAAATTATAATTATT
60402529 TTTAAATGTATAATTAT
1 TTTAAAT-TATAATTAT
60402546 CACCACTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTAAATTATAATTATT
Found at i:60403788 original size:15 final size:15
Alignment explanation
Indices: 60403768--60403800 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
60403758 ATAATAAAAA
60403768 ATTAATT-TTAATAAT
1 ATTAATTATT-ATAAT
60403783 ATTAATTATTATAAT
1 ATTAATTATTATAAT
60403798 ATT
1 ATT
60403801 TAAAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTAATTATTATAAT
Found at i:60404224 original size:18 final size:20
Alignment explanation
Indices: 60404203--60404245 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
60404193 TTAAAATATT
*
60404203 ATAATAGAAAA-T-TTTTAA
1 ATAATAAAAAAGTATTTTAA
60404221 ATAATAAAAAAGTATTTTAA
1 ATAATAAAAAAGTATTTTAA
60404241 A-AATA
1 ATAATA
60404246 TTCAACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 10 0.45
19 5 0.23
20 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
ATAATAAAAAAGTATTTTAA
Found at i:60406798 original size:76 final size:76
Alignment explanation
Indices: 60406672--60406827 Score: 267
Period size: 76 Copynumber: 2.1 Consensus size: 76
60406662 TTTACATTTT
*
60406672 TTAATATTTATAACACCTTACACTCGACTCGAAAGATGACCGGATGCATGATGTCACATCGACTA
1 TTAATATTTATAACACCTTACACTCGACTCGAAAGATGACCAGATGCATGATGTCACATCGACTA
60406737 CCAAACTAACC
66 CCAAACTAACC
* * * *
60406748 TTAATATTTATAACACCTTATACTCGACTCGAAAGCTGACTAGATGCATGATGTCACATCGTCTA
1 TTAATATTTATAACACCTTACACTCGACTCGAAAGATGACCAGATGCATGATGTCACATCGACTA
60406813 CCAAACTAACC
66 CCAAACTAACC
60406824 TTAA
1 TTAA
60406828 GTAAGTTGAA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (76 bp):
TTAATATTTATAACACCTTACACTCGACTCGAAAGATGACCAGATGCATGATGTCACATCGACTA
CCAAACTAACC
Found at i:60407795 original size:43 final size:43
Alignment explanation
Indices: 60407712--60407795 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
60407702 TTTCACATTA
*
60407712 ATAACATCTACATTAATAACAACATAAGATCATCAATTCATCT
1 ATAACATCTACATTAATAACAACATAAGATAATCAATTCATCT
* *
60407755 ATAACATCTAGATTACT-ACAACATCAAG-TAATCAACTTCAT
1 ATAACATCTACATTAATAACAACAT-AAGATAATCAA-TTCAT
60407796 GCATATTACC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 13 0.36
43 23 0.64
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (43 bp):
ATAACATCTACATTAATAACAACATAAGATAATCAATTCATCT
Found at i:60408952 original size:18 final size:19
Alignment explanation
Indices: 60408926--60408963 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
60408916 TATTTTGCCC
* *
60408926 AAACCAAAAA-CATTGTCA
1 AAACAAAAAATCAATGTCA
60408944 AAACAAAAAATCAATGTCA
1 AAACAAAAAATCAATGTCA
60408963 A
1 A
60408964 TAACTACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.61, C:0.18, G:0.05, T:0.16
Consensus pattern (19 bp):
AAACAAAAAATCAATGTCA
Found at i:60411368 original size:25 final size:24
Alignment explanation
Indices: 60411340--60411386 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
60411330 AGTGTCCTGA
60411340 TTAAAGGCTCTTTGCGAGCTTCCCG
1 TTAAAGGCTCTTTG-GAGCTTCCCG
*
60411365 TTAATGGCTCTTTGGAGCTTCC
1 TTAAAGGCTCTTTGGAGCTTCC
60411387 TGATATTCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.36
Consensus pattern (24 bp):
TTAAAGGCTCTTTGGAGCTTCCCG
Found at i:60411398 original size:24 final size:25
Alignment explanation
Indices: 60411346--60411398 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
60411336 CTGATTAAAG
* *
60411346 GCTCTTTGCGAGCTTCCCGTTAATG
1 GCTCTTTGCGAGCTTCCCGATAATC
* *
60411371 GCTCTTTG-GAGCTTCCTGATATTC
1 GCTCTTTGCGAGCTTCCCGATAATC
60411395 GCTC
1 GCTC
60411399 GCTTGAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.11, C:0.28, G:0.23, T:0.38
Consensus pattern (25 bp):
GCTCTTTGCGAGCTTCCCGATAATC
Found at i:60413508 original size:26 final size:26
Alignment explanation
Indices: 60413472--60413547 Score: 125
Period size: 26 Copynumber: 2.9 Consensus size: 26
60413462 CCATGATTTA
* *
60413472 ATTATGATTAATTAATTATAATTAGT
1 ATTAAGATTAATTAATTATAATTAGC
*
60413498 ATTACGATTAATTAATTATAATTAGC
1 ATTAAGATTAATTAATTATAATTAGC
60413524 ATTAAGATTAATTAATTATAATTA
1 ATTAAGATTAATTAATTATAATTA
60413548 AAGTAAGTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.46
Consensus pattern (26 bp):
ATTAAGATTAATTAATTATAATTAGC
Found at i:60416197 original size:51 final size:52
Alignment explanation
Indices: 60416133--60416415 Score: 272
Period size: 51 Copynumber: 5.6 Consensus size: 52
60416123 AAAGTGATGG
* * *
60416133 TCACGTGTGTAGTACTATGGGCAGGCTACTATGCGTACCAGATAGT-TTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATCGA
* * ** * *
60416184 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTGTCGGATGGTAAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATCGA
* * * * *
60416235 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TGATGGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATCGA
* * * * *
60416285 TCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTGCCGGATAGT-TTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATCGA
* *** * * *
60416336 TCATGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGGATGGTAAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATCGA
* *
60416387 TCACATGTGTAGTACTATGTGTAGGCTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTAC
60416416 AATATGAACC
Statistics
Matches: 188, Mismatches: 39, Indels: 10
0.79 0.16 0.04
Matches are distributed among these distances:
49 3 0.02
50 38 0.20
51 144 0.77
52 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (52 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATCGA
Found at i:60416344 original size:101 final size:101
Alignment explanation
Indices: 60416133--60416415 Score: 347
Period size: 101 Copynumber: 2.8 Consensus size: 101
60416123 AAAGTGATGG
* * * * * *
60416133 TCACGTGTGTAGTACTATGGGCAGGCTACTATGCGTACCAGATAGTTTCGATCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAT-GGTCACATGTGTAGTA
* * * * *
60416198 CTATGTGCAGGCTACTATGTGTGTCGGATGGTAATGG
65 CTATGTGTAGGCTACTATGCGTGCCGGATAGTAATGA
*
60416235 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TGATGGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT-AT-GGTCACATGTGTAGT
*
60416298 ACTATGTGTAGGCTACTATGCGTGCCGGATAGT-TTCGA
64 ACTATGTGTAGGCTACTATGCGTGCCGGATAGTAAT-GA
* * * *
60416336 TCATGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT-ATGGTCACATGTGTAGTA
60416401 CTATGTGTAGGCTAC
65 CTATGTGTAGGCTAC
60416416 AATATGAACC
Statistics
Matches: 157, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
100 2 0.01
101 84 0.54
102 68 0.43
103 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTATGGTCACATGTGTAGTAC
TATGTGTAGGCTACTATGCGTGCCGGATAGTAATGA
Found at i:60416414 original size:152 final size:152
Alignment explanation
Indices: 60416138--60416415 Score: 457
Period size: 152 Copynumber: 1.8 Consensus size: 152
60416128 GATGGTCACG
60416138 TGTGTAGTACTATGGGCAGGCTACTATGCGTACCAGATAGTTTCGATCACATGTGTAGTACTATG
1 TGTGTAGTACTATGGGCAGGCTACTATGCGTACCAGATAGTTTCGATCACATGTGTAGTACTATG
** * *
60416203 TGCAGGCTACTATGTGTGTCGGATGGTAATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACG
66 TGCAGGCTACTACATGTATCGGATGGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTACG
60416268 TGTACCGGAATGATGGGTCGCA
131 TGTACCGGAATGATGGGTCGCA
* * * * **
60416290 TGTGTAGTACTATGTGTAGGCTACTATGCGTGCCGGATAGTTTCGATCATGTGTGTAGTACTATG
1 TGTGTAGTACTATGGGCAGGCTACTATGCGTACCAGATAGTTTCGATCACATGTGTAGTACTATG
*
60416355 TGCAGGCTACTACATGTATCGGATGGTAATGGTCACATGTGTAGTACTATGTGTAGGCTAC
66 TGCAGGCTACTACATGTATCGGATGGTAATGGTCACATGTGTAGTACTATGTGCAGGCTAC
60416416 AATATGAACC
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
152 115 1.00
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.32
Consensus pattern (152 bp):
TGTGTAGTACTATGGGCAGGCTACTATGCGTACCAGATAGTTTCGATCACATGTGTAGTACTATG
TGCAGGCTACTACATGTATCGGATGGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTACG
TGTACCGGAATGATGGGTCGCA
Found at i:60422729 original size:17 final size:17
Alignment explanation
Indices: 60422707--60422740 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
60422697 ACGATTCACA
60422707 ATAACCCAAACAACATC
1 ATAACCCAAACAACATC
60422724 ATAACCCAAACAACATC
1 ATAACCCAAACAACATC
60422741 TTTCTTCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.35, G:0.00, T:0.12
Consensus pattern (17 bp):
ATAACCCAAACAACATC
Found at i:60423687 original size:11 final size:11
Alignment explanation
Indices: 60423671--60423696 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60423661 CTGATCAAAG
60423671 CTTTGTTGATA
1 CTTTGTTGATA
60423682 CTTTGTTGATA
1 CTTTGTTGATA
60423693 CTTT
1 CTTT
60423697 TCAGTCAACG
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:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (11 bp):
CTTTGTTGATA
Found at i:60424607 original size:5 final size:5
Alignment explanation
Indices: 60424599--60424625 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
60424589 TATAATTTTT
60424599 TTAAA TTAAA TTAAA TTAAA TTAAA TT
1 TTAAA TTAAA TTAAA TTAAA TTAAA TT
60424626 TTAATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TTAAA
Found at i:60437242 original size:3 final size:3
Alignment explanation
Indices: 60437234--60437261 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
60437224 TTAAGTATGT
60437234 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
60437262 AACAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:60437298 original size:4 final size:4
Alignment explanation
Indices: 60437289--60437313 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
60437279 AAAAGGAAAT
60437289 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
60437314 AAGAATAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:60445207 original size:69 final size:69
Alignment explanation
Indices: 60445122--60445331 Score: 197
Period size: 69 Copynumber: 3.3 Consensus size: 69
60445112 TAAATTCATA
* *
60445122 TAAGAATTTGAGTAAATTATAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAA
1 TAAGAATTTTATTAAATTATAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAA
60445187 TTAT
66 TTAT
** * * *
60445191 TAAGAATTTTATTAAATTATA-TATTTTA-ATTAT-A----A-TATATTTA-ATAA-TA-ATT-A
1 TAAGAATTTTATTAAATTATAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAA
*
60445244 -TGT
66 TTAT
*
60445247 T---AATTTATATT---TTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
1 TAAGAATTT-TATTAAATTATAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
60445306 ATTAT
65 ATTAT
60445311 TAAGAATTTTATTAAATTATA
1 TAAGAATTTTATTAAATTATA
60445332 TATTTTAATT
Statistics
Matches: 105, Mismatches: 16, Indels: 40
0.65 0.10 0.25
Matches are distributed among these distances:
51 4 0.04
52 5 0.05
53 10 0.10
54 5 0.05
56 3 0.03
57 1 0.01
58 4 0.04
59 7 0.07
60 8 0.08
61 7 0.07
62 4 0.04
63 1 0.01
64 3 0.03
66 5 0.05
67 10 0.10
68 5 0.05
69 23 0.22
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (69 bp):
TAAGAATTTTATTAAATTATAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAA
TTAT
Found at i:60445214 original size:61 final size:61
Alignment explanation
Indices: 60445148--60445335 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
60445138 TTATAGTATC
60445148 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * ** * * * * *
60445209 ATATATTTTAATTAT-AATATATTTAATAATAATTATGTTAA-T-TT-A-TATTTTA-CAGTATC
1 ATATATTATGATT-TCAGTA-AATTAAT-ATAAGAATATTAATTATTAAGAATTTTATTA-AATT
60445268 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATT
60445329 ATATATT
1 ATATATT
60445336 TTAATTATAA
Statistics
Matches: 95, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
57 10 0.11
58 9 0.09
59 24 0.25
60 2 0.02
61 31 0.33
62 9 0.09
63 10 0.11
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (61 bp):
ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:60445235 original size:15 final size:15
Alignment explanation
Indices: 60445200--60445361 Score: 58
Period size: 15 Copynumber: 10.9 Consensus size: 15
60445190 TTAAGAATTT
*
60445200 TATTAAATTAT-ATA
1 TATTTAATTATAATA
60445214 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
60445228 TATTTAATAATAAT-
1 TATTTAATTATAATA
60445242 TATGTTAATT-T-ATA
1 TAT-TTAATTATAATA
* *
60445256 T-TTTACAGTATCATA
1 TATTTA-ATTATAATA
* *
60445271 TATTATGATT-TCAGTA
1 TATT-TAATTAT-AATA
* *
60445287 -AATTAA-TATAAGA
1 TATTTAATTATAATA
*
60445300 -ATATTAATTATTAAGA
1 TAT-TTAATTA-TAATA
* *
60445316 -ATTTTATTAAATTATA
1 TATTTAATT--ATAATA
60445332 TATTTTAATTATAATA
1 TA-TTTAATTATAATA
*
60445348 TATTTAATAATAAT
1 TATTTAATTATAAT
60445362 TATGTTTAAA
Statistics
Matches: 111, Mismatches: 19, Indels: 35
0.67 0.12 0.21
Matches are distributed among these distances:
12 3 0.03
13 17 0.15
14 18 0.16
15 41 0.37
16 23 0.21
17 3 0.03
18 6 0.05
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:60445283 original size:120 final size:120
Alignment explanation
Indices: 60445142--60445367 Score: 452
Period size: 120 Copynumber: 1.9 Consensus size: 120
60445132 AGTAAATTAT
60445142 AGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
60445207 TTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTAC
66 TTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTAC
60445262 AGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
60445327 TTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TTATATATTTTAATTATAATATATTTAATAATAATTATGTT
60445368 TAAATATGAT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 106 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
TTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTAC
Found at i:60445350 original size:16 final size:16
Alignment explanation
Indices: 60445329--60445370 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
60445319 TTATTAAATT
*
60445329 ATATATTTTAATTATA
1 ATATATTTTAATAATA
60445345 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
60445360 AT-TATGTTTAA
1 ATATAT-TTTAA
60445371 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:60445606 original size:45 final size:44
Alignment explanation
Indices: 60445515--60445606 Score: 112
Period size: 45 Copynumber: 2.1 Consensus size: 44
60445505 ACCTCTATTC
* * *
60445515 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCAATA
*** *
60445559 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTAATCCAATA
60445604 CAT
1 CAT
60445607 CTCTAATCCA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCAATA
Found at i:60445610 original size:16 final size:16
Alignment explanation
Indices: 60445586--60445637 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
60445576 GATTTGCTAT
60445586 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
60445602 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
60445618 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
60445634 TACA
1 TACA
60445638 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:60446257 original size:82 final size:82
Alignment explanation
Indices: 60446153--60446343 Score: 292
Period size: 82 Copynumber: 2.3 Consensus size: 82
60446143 GACTTTAAGT
*
60446153 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGATC
1 CTAGCAGGCTATGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGATC
*
60446218 TGAATCAGGTTATAAAC
66 TGAATCAGGCTATAAAC
*
60446235 CTAGCAGGCTATGTGCCGGTGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGATC
1 CTAGCAGGCTATGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGATC
* **
60446300 TGAATCATGCTATAAGT
66 TGAATCAGGCTATAAAC
* * *
60446317 TTAGCAGGTTATGTGCCGTTGAATCTG
1 CTAGCAGGCTATGTGCCGGTG-ATCTG
60446344 TTTAAATTAA
Statistics
Matches: 98, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
82 94 0.96
83 4 0.04
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (82 bp):
CTAGCAGGCTATGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGATC
TGAATCAGGCTATAAAC
Found at i:60446334 original size:41 final size:41
Alignment explanation
Indices: 60446153--60446306 Score: 290
Period size: 41 Copynumber: 3.8 Consensus size: 41
60446143 GACTTTAAGT
60446153 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
60446194 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
60446235 CTAGCAGGCTATGTGCCGGTGATTTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
60446276 CTAGCAGGCTACGTGCCGGTGATCTGAATCA
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCA
60446307 TGCTATAAGT
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 109 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:60454098 original size:35 final size:34
Alignment explanation
Indices: 60454050--60454116 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
60454040 CGTGGTTCTC
* *
60454050 TTTCTTTTTCTTCTTTCTCTT-TTTCTTTCTCAAA
1 TTTCTTTTGCTTCTCTCT-TTCTTTCTTTCTCAAA
*
60454084 TTTCGTTTTGCTTCTCTGTTTCTTTCTTTCTCA
1 TTTC-TTTTGCTTCTCTCTTTCTTTCTTTCTCA
60454117 TATCTATTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 6 0.21
35 22 0.79
ACGTcount: A:0.06, C:0.24, G:0.04, T:0.66
Consensus pattern (34 bp):
TTTCTTTTGCTTCTCTCTTTCTTTCTTTCTCAAA
Found at i:60454161 original size:5 final size:5
Alignment explanation
Indices: 60454142--60454187 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
60454132 TTGTTTTATA
*
60454142 AATAT -ATAGT AATAT AATAT AATAT ATTAAT AATAT AATAT AATAT
1 AATAT AATA-T AATAT AATAT AATAT AAT-AT AATAT AATAT AATAT
60454188 TAAAAACATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
4 3 0.08
5 26 0.72
6 7 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (5 bp):
AATAT
Found at i:60454175 original size:21 final size:20
Alignment explanation
Indices: 60454142--60454187 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
60454132 TTGTTTTATA
*
60454142 AATATATAGTAATATAATAT
1 AATATATAATAATATAATAT
60454162 AATATATTAATAATATAATAT
1 AATATA-TAATAATATAATAT
60454183 AATAT
1 AATAT
60454188 TAAAAACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
AATATATAATAATATAATAT
Found at i:60454658 original size:35 final size:35
Alignment explanation
Indices: 60454612--60454683 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
60454602 TATTTACGGC
60454612 TCAGTTTATAATATCGAGGTCTCAATACCTCGTTT
1 TCAGTTTATAATATCGAGGTCTCAATACCTCGTTT
60454647 TCAGTTTATAATATCGAGGTCTCAATACCTCGTTT
1 TCAGTTTATAATATCGAGGTCTCAATACCTCGTTT
60454682 TC
1 TC
60454684 GACCCAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (35 bp):
TCAGTTTATAATATCGAGGTCTCAATACCTCGTTT
Found at i:60456723 original size:16 final size:17
Alignment explanation
Indices: 60456691--60456727 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
60456681 TTTTATTTTT
*
60456691 ATTTTTGAAACACGAAA
1 ATTTTTAAAACACGAAA
60456708 ATTTTTAAAACA-GAAA
1 ATTTTTAAAACACGAAA
60456724 ATTT
1 ATTT
60456728 GTTTTTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (17 bp):
ATTTTTAAAACACGAAA
Found at i:60456745 original size:20 final size:19
Alignment explanation
Indices: 60456709--60456751 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
60456699 AACACGAAAA
60456709 TTTTTAAAACAGAAAATTT
1 TTTTTAAAACAGAAAATTT
*
60456728 GTTTTTGAAAACA-TAAATTT
1 -TTTTT-AAAACAGAAAATTT
60456748 TTTT
1 TTTT
60456752 GATAAATACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.49
Consensus pattern (19 bp):
TTTTTAAAACAGAAAATTT
Found at i:60456886 original size:23 final size:23
Alignment explanation
Indices: 60456860--60456954 Score: 131
Period size: 23 Copynumber: 4.2 Consensus size: 23
60456850 TTTTTGTTTT
60456860 TTTTTCATTTTAAAACACGAAAA
1 TTTTTCATTTTAAAACACGAAAA
*
60456883 TTTTTCATTTGAAAACACGAAAA
1 TTTTTCATTTTAAAACACGAAAA
* *
60456906 TTTTTCATTTTAAAACGCG-GAA
1 TTTTTCATTTTAAAACACGAAAA
*
60456928 TTTTT-TTTTTAAAACACGAAAA
1 TTTTTCATTTTAAAACACGAAAA
*
60456950 CTTTT
1 TTTTT
60456955 GAAAACGCGA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.17
22 13 0.21
23 39 0.62
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (23 bp):
TTTTTCATTTTAAAACACGAAAA
Found at i:60456959 original size:18 final size:18
Alignment explanation
Indices: 60456933--60456967 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60456923 CGGAATTTTT
*
60456933 TTTTTAAAACACGAAAAC
1 TTTTGAAAACACGAAAAC
*
60456951 TTTTGAAAACGCGAAAA
1 TTTTGAAAACACGAAAA
60456968 GTCAAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (18 bp):
TTTTGAAAACACGAAAAC
Found at i:60457650 original size:6 final size:6
Alignment explanation
Indices: 60457641--60457706 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
60457631 TTTTTAATTT
* * *
60457641 TTTTTC TTTTTCTC TTTTTC TTCTAT- TTTTTC TTTCTA TTTTTC TTTTT-
1 TTTTTC -TTTT-TC TTTTTC TT-TTTC TTTTTC TTTTTC TTTTTC TTTTTC
*
60457690 TTTTCC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTT
60457707 TCTTCTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
5 6 0.13
6 29 0.62
7 10 0.21
8 2 0.04
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:60457658 original size:17 final size:16
Alignment explanation
Indices: 60457638--60457716 Score: 79
Period size: 17 Copynumber: 4.9 Consensus size: 16
60457628 GTTTTTTTAA
60457638 TTTTTTTTCTTTTTCT
1 TTTTTTTTCTTTTTCT
* *
60457654 CTTTTTCTTCTATTT-T
1 -TTTTTTTTCTTTTTCT
* * *
60457670 TTCTTTCTATTTTTCT
1 TTTTTTTTCTTTTTCT
60457686 TTTTTTTTCCTTTTTCT
1 TTTTTTTT-CTTTTTCT
*
60457703 TTTTTCTTCTTTTT
1 TTTTTTTTCTTTTT
60457717 TAGGCCGAAC
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
15 9 0.18
16 14 0.29
17 26 0.53
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTTCTTTTTCT
Found at i:60457669 original size:24 final size:23
Alignment explanation
Indices: 60457640--60457717 Score: 95
Period size: 24 Copynumber: 3.3 Consensus size: 23
60457630 TTTTTTAATT
60457640 TTTTTTCTTTTTCTCTTTTTCTTC
1 TTTTTTCTTTTTCT-TTTTTCTTC
* *
60457664 TATTTTT-TCTTTCTATTTTTCTTT
1 T-TTTTTCTTTTTCT-TTTTTCTTC
60457688 TTTTTTCCTTTTTCTTTTTTCTTC
1 TTTTTT-CTTTTTCTTTTTTCTTC
60457712 TTTTTT
1 TTTTTT
60457718 AGGCCGAACC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
23 5 0.11
24 30 0.65
25 11 0.24
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTTTCTTTTTCTTTTTTCTTC
Found at i:60457672 original size:12 final size:11
Alignment explanation
Indices: 60457650--60457717 Score: 57
Period size: 12 Copynumber: 5.8 Consensus size: 11
60457640 TTTTTTCTTT
*
60457650 TTCTCTTTTTC
1 TTCTTTTTTTC
60457661 TTCTATTTTTTC
1 TTCT-TTTTTTC
*
60457673 TTTCTATTTTTC
1 -TTCTTTTTTTC
60457685 TT-TTTTTTTCC
1 TTCTTTTTTT-C
*
60457696 TTTTTCTTTTTTC
1 -TTCT-TTTTTTC
60457709 TTCTTTTTT
1 TTCTTTTTT
60457718 AGGCCGAACC
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
10 6 0.13
11 12 0.26
12 17 0.36
13 6 0.13
14 6 0.13
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (11 bp):
TTCTTTTTTTC
Found at i:60457847 original size:15 final size:15
Alignment explanation
Indices: 60457827--60457859 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
60457817 CTCTTCTTTC
60457827 TTTTTGGTTGCTATT
1 TTTTTGGTTGCTATT
*
60457842 TTTTTGGTTGCTGTT
1 TTTTTGGTTGCTATT
60457857 TTT
1 TTT
60457860 GTTTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.03, C:0.06, G:0.21, T:0.70
Consensus pattern (15 bp):
TTTTTGGTTGCTATT
Found at i:60458316 original size:30 final size:28
Alignment explanation
Indices: 60458268--60458383 Score: 90
Period size: 30 Copynumber: 3.9 Consensus size: 28
60458258 ATATGGGCCA
* *
60458268 AAATGCAATTTCTTGAAAGTTTAGGGGTT
1 AAATGAAATTT-TAGAAAGTTTAGGGGTT
*
60458297 AAAGTGAAATTTTGAGAAAGTTTAAGGGTT
1 AAA-TGAAATTTT-AGAAAGTTTAGGGGTT
* * *
60458327 GAAATGTAATTTTAGAAAAGTTT-GTGGTCA
1 -AAATGAAATTTTAG-AAAGTTTAGGGGT-T
*
60458357 AAATGTAAATTTTAAAAAGGTTTAGGG
1 AAATG-AAATTTTAGAAA-GTTTAGGG
60458384 TCAAAATGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
29 17 0.25
30 47 0.68
31 5 0.07
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (28 bp):
AAATGAAATTTTAGAAAGTTTAGGGGTT
Found at i:60458386 original size:30 final size:30
Alignment explanation
Indices: 60458328--60458405 Score: 108
Period size: 30 Copynumber: 2.6 Consensus size: 30
60458318 TTAAGGGTTG
60458328 AAATGT-AATTTTAGAAAA-GTTTGTGGTCA
1 AAATGTAAATTTTA-AAAAGGTTTGTGGTCA
60458357 AAATGTAAATTTTAAAAAGGTTTAG-GGTCA
1 AAATGTAAATTTTAAAAAGGTTT-GTGGTCA
*
60458387 AAATGTAAATTTCAAAAAG
1 AAATGTAAATTTTAAAAAG
60458406 TACAGGGGTC
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
29 10 0.22
30 34 0.76
31 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (30 bp):
AAATGTAAATTTTAAAAAGGTTTGTGGTCA
Found at i:60458415 original size:30 final size:30
Alignment explanation
Indices: 60458352--60458421 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
60458342 AAAAGTTTGT
* **
60458352 GGTCAAAATGTAAATTTTAAAAAGGTTTAG
1 GGTCAAAATGTAAATTTCAAAAAGGTACAG
60458382 GGTCAAAATGTAAATTTCAAAAA-GTACAGG
1 GGTCAAAATGTAAATTTCAAAAAGGTACA-G
60458412 GGTCAAAATG
1 GGTCAAAATG
60458422 CTTTTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 3 0.08
30 33 0.92
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.27
Consensus pattern (30 bp):
GGTCAAAATGTAAATTTCAAAAAGGTACAG
Found at i:60458713 original size:75 final size:76
Alignment explanation
Indices: 60458614--60460880 Score: 1988
Period size: 75 Copynumber: 29.7 Consensus size: 76
60458604 GCGACTCAAA
* *
60458614 GCTCAACTCACCTCTCGAAATATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAGAAATACCTC
1 GCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAACAGAAATTTAAAA-AAATACCTC
*
60458678 AGCATGA-CCGAG
64 AGCGTGACCCGAG
* * * * *
60458690 ACTCAACTCACCTCTGTATTATGAGTTGA-TTTTTGAAAAATATAAATTGAAAAGAAATACCTCG
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAACAGAAATTTAAAA-AAATACCTCA
*
60458754 GCCTACGACCCGAG
65 GCGT--GACCCGAG
* * *
60458768 GATCAACTCACC-CTCGCAGTATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAGAAATACCTC
1 GCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAACAGAAATTTAAAA-AAATACCTC
* ** ** *
60458831 GGTATGGTCCGAA
64 AGCGTGACCCGAG
* * *
60458844 GCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTTTTTATGAAAACAGAAATTTAAAATATAAT
1 GCTCAACTCACCTCT-GTATTATGAGTTGA--TTTTTTGA--AAAACAGAAATTT--AA-A-AA-
*
60458909 AATACCTCAGCGTGACCCGGG
56 AATACCTCAGCGTGACCCGAG
* * * **
60458930 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAA-AAAAATAGAAATTAAAAATACC
1 GCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAACAGAAAT-TTAA--AAAAATACC
60458993 TCAGCGTGACCCGAG
62 TCAGCGTGACCCGAG
*** * *
60459008 GCTCAACTCACCTCTCGTATTATGAGTTGA-TTTAAAAAAAGACATAAA-TT--AAAAATACATC
1 GCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAA-ACAGAAATTTAAAAAAATACCTC
60459069 AGCGTGACCCGAG
64 AGCGTGACCCGAG
**** *
60459082 GCTCAACTCACCTCTGTATTATGAGTTGATTTAAAAAAAAGACATAAA-TT--AAAAATACCTCA
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAA-ACAGAAATTTAAAAAAATACCTCA
60459144 GCGTGACCCGAG
65 GCGTGACCCGAG
*
60459156 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTAAAAAAGCAGAAATTT--AAAAATACCTCA
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAA-CAGAAATTTAAAAAAATACCTCA
60459219 GCGTGACCCGAG
65 GCGTGACCCGAG
60459231 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTTGAAAAA-AGAAAAAATTT--AAAAATAC
1 GCTCAACTCACCTCTGTATTATGAGTTGA--TTTTTTGAAAAACAG---AAATTTAAAAAAATAC
*
60459293 CTCAGTGTGA-CCGAG
61 CTCAGCGTGACCCGAG
*** ** * * *** * *
60459308 GCTCAACTCACCTCTGTATTATGAGTTGATACCTCAGTG-TGACCCG-AGGCT---CAACTCACC
1 GCTCAACTCACCTCTGTATTATGAGTTGAT---TTTTTGAAAAACAGAAATTTAAAAAAAT-ACC
* ** * *
60459368 TCTGTATTA--TGA-
62 TCAGCGTGACCCGAG
** ** * * ** ** ** * *** *** * **** **
60459380 G-TTGA-T--TTTTTG-A-AAAAAGCAGA-AATTTAAAAATACCTCAGCGTGACCCGA-GGCTCA
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAA-ACAGAAATTTAAAAAAATACCTCA
* * *
60459437 AC-TCACCTCTGTAT
65 GCGTGACC-C-G-AG
** * ** * ** * * ** ** ** ** * ** * ****
60459451 TATGAGTTGAGTTTTTGAAAAAACAG-AAATTAAATT-AAAAA-A-ATACCTCAGCGTA-ACC-C
1 GCTCAACTCA-CCTCTGTATTATGAGTTGATT-TTTTGAAAAACAGAAATTTAAAAAAATACCTC
* *
60459510 -GAG-G-CTC-A-
64 AGCGTGACCCGAG
* * ** * * ***
60459518 ACTCACCTC-TGTAT-TATGAGTTGA-TT--TTTTGAAAAAAAGCAGAAATTTAAAAAAAATACC
1 GCTCAACTCACCTCTGTATTA--TGAGTTGATTTTTTGAAAAA-CAGAAATTT-AAAAAAATACC
60459578 TCAGCGTGACCCGAG
62 TCAGCGTGACCCGAG
*
60459593 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCATAAATTT--AAAAATACCTC
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAAAA-CAGAAATTTAAAAAAATACCTC
60459656 AGCGTGACCCGAG
64 AGCGTGACCCGAG
* *
60459669 ACTCAACTCACCTCTGTATTATGAGTTGATTTTTTAAAAAAGCAGAAATTT--AAAAATACCTCA
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAA-CAGAAATTTAAAAAAATACCTCA
60459732 GCGTGACCCGAG
65 GCGTGACCCGAG
60459744 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTTGAAAAAAGCAGAAATTT--AAAAATACC
1 GCTCAACTCACCTCTGTATTATGAGTTGA--TTTTTTG-AAAAA-CAGAAATTTAAAAAAATACC
*
60459807 TCAGTGTGACCCGAG
62 TCAGCGTGACCCGAG
60459822 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAGCAGAAATTT--AAAAATACCTCA
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAA-CAGAAATTTAAAAAAATACCTCA
60459885 GCGTGACCCGAG
65 GCGTGACCCGAG
*
60459897 GCTCAACTCACCTCTGTATTATGAGTTGAGTTTTTGAAAAACAGAAATTAAATTAAAAAAATACC
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAACAGAAA-T---TTAAAAAAATACC
*
60459962 TCAGCGTAACCCGAG
62 TCAGCGTGACCCGAG
60459977 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAAGCAGAAATTTAAAAAAATACCT
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG--AAAAA-CAGAAATTTAAAAAAATACCT
*
60460042 -AGCATGACCCGAG
63 CAGCGTGACCCGAG
*
60460055 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGTAGAAATTT---AAAATACCTC
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAAAA-CAGAAATTTAAAAAAATACCTC
60460117 AGCGTGACCCGAG
64 AGCGTGACCCGAG
*
60460130 GCT-AACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTAAATTAAAAAATACC
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAAAACAGAAATT---TAAAAAAATACC
60460194 TCAGCGTGACCCGAG
62 TCAGCGTGACCCGAG
* *
60460209 GCTCAACTCACCTCTGTATTATGAGTTGCTTTTTTGAAAAAATAGAAATTTAAAAAAATACCTCA
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAAAACAGAAATTTAAAAAAATACCTCA
60460274 GCGTGACCCGAG
65 GCGTGACCCGAG
60460286 GCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTGAAAAAAGCAGAAATTT--AAAAATACCTC
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAAAA-CAGAAATTTAAAAAAATACCTC
60460348 AGCGTGACCCGAG
64 AGCGTGACCCGAG
*
60460361 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTAAATTAAAAAATACC
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAAAACAGAAATT---TAAAAAAATACC
60460426 TCAGCGTGACCCGAG
62 TCAGCGTGACCCGAG
60460441 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAA-AGCAAAATTTAAAAAAATACCTC
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAACAG--AAATTTAAAAAAATACCTC
60460505 AGCGTGACCCGAG
64 AGCGTGACCCGAG
*
60460518 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGAGAAATTT--AAAAATA-CTCA
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAAAACAGAAATTTAAAAAAATACCTCA
60460580 GCGTGACCCGAG
65 GCGTGACCCGAG
60460592 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTAAATTAAAAAAATAC
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAAAACAGAAA-T---TTAAAAAAATAC
*
60460657 CTCA-AGTGA-CCGAG
61 CTCAGCGTGACCCGAG
*
60460671 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAAAGAAATTTAAAAAAATACCTCA
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAAAACAGAAATTTAAAAAAATACCTCA
60460736 GCGTGACCCGAG
65 GCGTGACCCGAG
60460748 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAA-TT-AAAAAATACCTCA
1 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAAAACAGAAATTTAAAAAAATACCTCA
60460811 GCGTGACCCGAG
65 GCGTGACCCGAG
*
60460823 GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAAACAGAATTTTAAAAA
1 GCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTTG--AAAAACAGAAATTTAAAAA
60460881 TATTTCTTGA
Statistics
Matches: 1885, Mismatches: 187, Indels: 235
0.82 0.08 0.10
Matches are distributed among these distances:
62 1 0.00
63 1 0.00
64 11 0.01
65 8 0.00
66 10 0.01
67 7 0.00
68 7 0.00
69 4 0.00
70 3 0.00
71 5 0.00
72 4 0.00
73 30 0.02
74 251 0.13
75 419 0.22
76 143 0.08
77 288 0.15
78 285 0.15
79 125 0.07
80 195 0.10
81 8 0.00
82 19 0.01
83 12 0.01
84 2 0.00
85 2 0.00
86 45 0.02
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (76 bp):
GCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAAAATACCTCAG
CGTGACCCGAG
Found at i:60458804 original size:78 final size:78
Alignment explanation
Indices: 60458614--60459264 Score: 535
Period size: 78 Copynumber: 8.4 Consensus size: 78
60458604 GCGACTCAAA
* *
60458614 GCTCAACTCACCTCTCGAAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGAAATACCTCA
*
60458679 GCAT-GA-CCGAG
66 GCCTAGACCCGAG
* * * * * *
60458690 ACTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAATATAAATTGAAAAGAAATACCTCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGAAATACCTCA
60458754 GCCTACGACCCGAG
66 GCCTA-GACCCGAG
* * *
60458768 GATCAACTCACC-CTCGCAGTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTC-
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGAAATACCTCA
* ** *
60458831 G-GTATGGTCCGAA
66 GCCTA-GACCCGAG
* * *
60458844 GCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTTTTTATGAAAACAGAAATTTAAAATATAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGA--AAAACAGAAA-TTGAAA-A-GA-
* *
60458909 AATACCTCAGCGT-GACCCGGG
57 AATACCTCAGCCTAGACCCGAG
* * *
60458930 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-AAAAATAGAAATTAAAAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA--AGAAATACCT
*
60458994 CAGCGT-GACCCGAG
64 CAGCCTAGACCCGAG
* * *** * *
60459008 GCTCAACTCACCTCTCGTATTATGAGTTGATTTAAAAAAAGACATAAATT---AA-AAATACATC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ACAGAAATTGAAAAGAAATACCTC
*
60459069 AGCGT-GACCCGAG
65 AGCCTAGACCCGAG
* * * * * *
60459082 GCTCAACTCACCTCT-GTATTATGAGTTGA--TTTAAAAAAAAGACA-T-AAATTAAAAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA--AGAAATACCT
*
60459142 CAGCGT-GACCCGAG
64 CAGCCTAGACCCGAG
* * * *
60459156 GCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTAAAAAAGCAGAAATT--TAA-AAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAA-CAGAAATTGAAAAGAAATACCT
*
60459217 CAGCGT-GACCCGAG
64 CAGCCTAGACCCGAG
* *
60459231 GCTCAACTCACCTCT-GTATTATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
60459265 TTTGAAAAAA
Statistics
Matches: 495, Mismatches: 51, Indels: 60
0.82 0.08 0.10
Matches are distributed among these distances:
69 1 0.00
70 4 0.01
71 7 0.01
73 15 0.03
74 91 0.18
75 98 0.20
76 33 0.07
77 31 0.06
78 118 0.24
79 8 0.02
80 17 0.03
81 4 0.01
82 10 0.02
83 11 0.02
84 1 0.00
85 1 0.00
86 42 0.08
87 1 0.00
88 2 0.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (78 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGAAATACCTCA
GCCTAGACCCGAG
Found at i:60459343 original size:47 final size:48
Alignment explanation
Indices: 60459289--60459385 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
60459279 AAATTTAAAA
60459289 ATACCTCAGTGTGA-CCGAGGCTCAACTCACCTCTGTATTATGAGTTG
1 ATACCTCAGTGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTG
60459336 ATACCTCAGTGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTG
1 ATACCTCAGTGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTG
60459384 AT
1 AT
60459386 TTTTTGAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 14 0.29
48 35 0.71
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.30
Consensus pattern (48 bp):
ATACCTCAGTGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTG
Found at i:60459369 original size:152 final size:145
Alignment explanation
Indices: 60458900--60460854 Score: 1858
Period size: 153 Copynumber: 12.9 Consensus size: 145
60458890 CAGAAATTTA
* * * *
60458900 AAATATAATAATACCTCAGCGTGACCCGGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAAT-TAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTT
*
60458965 GAAAAAAAAAATAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTA
64 G-AAAAAAGAA-A-AAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTA
*
60459030 TGAGTTGATTTAAAAAAAGACAT
125 TGAGTTGATTT--AAAAAGACAG
* **
60459053 AAATTAAAAATACATCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTAAA
1 AAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGA
*
60459117 AAAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGT
66 AAAAAGA-AAAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGT
60459182 TGATTTTTTAAAAA-AGCAG
130 TGA---TTTAAAAAGA-CAG
60459201 AAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTT
1 AAA-TTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA---TTT
*
60459266 TTGAAAAAAGAAAAAATTTAAAAATACCTCAGTGTGA-CCGAGGCTCAACTCACCTCTGTATTAT
62 TTGAAAAAAGAAAAAA-TTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTAT
* **** *
60459330 GAGTTGATACCTCAGTGTGACCCG
126 GAGTTGAT---TTAAAAAGA-CAG
*** * * * ** * * * ** *****
60459354 AGGCT-CAACTCACCTCTGTATTA--TGA-G-T----TGA--T-T-T-TT-TGA--AAAAAGCAG
1 AAATTAAAAAT-ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTG
** *
60459402 AAATTTA-AAAAT---------ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAG
65 AAA-AAAGAAAAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAG
60459457 TTGAGTTTTTGAAAAA-ACAG
129 TTGA---TTT-AAAAAGACAG
*
60459477 AAATTAAATTAAAAAAATACCTCAGCGTAACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
1 -----AAATT--AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
* *
60459542 TTTTTTGAAAAAAAGCAGAAATTTAAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTC
59 -TTTTTG-AAAAAAG-AAAAAATT---AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTC
*
60459607 TGTATTATGAGTTGATTTTTTGAAAAA-AGCAT
118 TGTATTATGAGTTGA---TTT-AAAAAGA-CAG
* *
60459639 AAATTTAAAAATACCTCAGCGTGACCCGAGACTCAACTCACCTCTGTATTATGAGTTGATTTTTT
1 AAA-TTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTG
* *
60459704 AAAAAAGCAGAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAG
65 AAAAAAG-AAAAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAG
60459769 TTGATTTTTTTTGAAAAA-AGCAG
129 TTGA-----TTT-AAAAAGA-CAG
*
60459792 AAATTTAAAAATACCTCAGTGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTT
1 AAA-TTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTT
* *
60459857 G-AAAAAGCAGAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGA
64 GAAAAAAG-AAAAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGA
* *
60459921 GTTGAGTTTTTGAAAAACAGAAATT
128 GTTGA---TTT--AAAA-AGACA-G
*
60459946 AAATTAAAAAAATACCTCAGCGTAACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT
1 AAATT--AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTT
* * *
60460011 TGAAAAAAAGCAGAAATTTAAAAAAATACCT-AGCATGACCCGAGGCTCAACTCACCTCTGTATT
63 TG-AAAAAAG-AAAAAATT--AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATT
*
60460075 ATGAGTTGATTTTTTGAAAAA-AGTAG
124 ATGAGTTGA---TTT-AAAAAGA-CAG
*
60460101 AAATTTAAAATACCTCAGCGTGACCCGAGGCT-AACTCACCTCTGTATTATGAGTTGATTTTTTG
1 AAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTG
60460165 AAAAAACAGAAATTAAATTAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTA
65 -AAAAA-AGAAA--AAATT-AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTA
* *
60460230 TGAGTTGCTTTTTTGAAAAA-ATAG
125 TGAGTTG---ATTT-AAAAAGACAG
60460254 AAATTTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTT
1 AAA-TT--AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTT
* *
60460319 TGAAAAAAGCAGAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATG
63 TGAAAAAAG-AAAAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATG
60460384 AGTTGATTTTTTGAAAAA-ACAG
127 AGTTGA---TTT-AAAAAGACAG
60460406 AAATTAAATTAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAT
1 -----AAATT-AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-
* *
60460471 TTTTTGAAAAAAGCAAAATTTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTA
59 TTTTTGAAAAAAGAAAAAATT--AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTA
*
60460536 TTATGAGTTGATTTTTTGAAAAA-AGAG
122 TTATGAGTTGA---TTT-AAAAAGACAG
60460563 AAATTTAAAAATA-CTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTT
1 AAA-TTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTT
*
60460627 GAAAAAACAGAAATTAAATTAAAAAAATACCTCA-AGTGA-CCGAGGCTCAACTCACCTCTGTAT
64 G-AAAAA-AGAAA--AAATT--AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTAT
*
60460690 TATGAGTTGATTTTTTGAAAAA-AAAG
123 TATGAGTTGA---TTT-AAAAAGACAG
60460716 AAATTTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTT
1 AAA-TT--AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTT
* *
60460781 TTGAAAAAA-CAGAAATTAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTAT
62 TTGAAAAAAGAAAAAATT-AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTAT
60460845 GAGTTGATTT
126 GAGTTGATTT
60460855 TTTTGAAAAA
Statistics
Matches: 1578, Mismatches: 113, Indels: 226
0.82 0.06 0.12
Matches are distributed among these distances:
123 13 0.01
124 36 0.02
125 1 0.00
127 1 0.00
128 2 0.00
130 8 0.01
131 3 0.00
132 2 0.00
133 9 0.01
134 2 0.00
136 1 0.00
138 5 0.00
139 2 0.00
140 2 0.00
141 2 0.00
142 2 0.00
143 2 0.00
144 5 0.00
146 1 0.00
147 17 0.01
148 58 0.04
149 69 0.04
150 22 0.01
151 134 0.08
152 243 0.15
153 293 0.19
154 88 0.06
155 166 0.11
156 152 0.10
157 118 0.07
158 48 0.03
159 10 0.01
161 59 0.04
162 2 0.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (145 bp):
AAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGA
AAAAAGAAAAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTT
GATTTAAAAAGACAG
Found at i:60460196 original size:232 final size:235
Alignment explanation
Indices: 60459336--60460871 Score: 2690
Period size: 232 Copynumber: 6.6 Consensus size: 235
60459326 TTATGAGTTG
*
60459336 ATACCTCAGTGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCA
1 ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCA
*
60459401 GAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAGTTTT
66 GAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT
*
60459466 TGAAAAAACAGAAATTAAATTAAAAAAATACCTCAGCGTAACCCGAGGCTCAACTCACCTCTGTA
131 TGAAAAAACAGAAATTAAATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTA
60459531 TTATGAGTTGATTTTTTGAAAAAAAGCAGAAATTTAAAAAAA
196 TTATGAGTTGATTTTTTG-AAAAAAGCAGAAATTT-AAAAAA
60459573 ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCA
1 ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCA
* *
60459638 TAAATTTAAAAATACCTCAGCGTGACCCGAGACTCAACTCACCTCTGTATTATGAGTTGATTTTT
66 GAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT
60459703 T-AAAAAAGCAGAAA-T---TT--AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGT
131 TGAAAAAA-CAGAAATTAAATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGT
60459761 ATTATGAGTTGATTTTTTTTGAAAAAAGCAGAAATTT--AAAA
195 ATTATGAGTTGA--TTTTTTGAAAAAAGCAGAAATTTAAAAAA
*
60459802 ATACCTCAGTGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAAAAGCA
1 ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCA
*
60459866 GAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAGTTTT
66 GAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT
*
60459931 TG-AAAAACAGAAATTAAATTAAAAAAATACCTCAGCGTAACCCGAGGCTCAACTCACCTCTGTA
131 TGAAAAAACAGAAATTAAATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTA
60459995 TTATGAGTTGATTTTTTGAAAAAAAGCAGAAATTTAAAAAA
196 TTATGAGTTGATTTTTTG-AAAAAAGCAGAAATTTAAAAAA
* *
60460036 ATACCT-AGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGTA
1 ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCA
60460100 GAAATTT-AAAATACCTCAGCGTGACCCGAGGCT-AACTCACCTCTGTATTATGAGTTGATTTTT
66 GAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT
60460163 TGAAAAAACAGAAATTAAATT-AAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTA
131 TGAAAAAACAGAAATTAAATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTA
* *
60460227 TTATGAGTTGCTTTTTTGAAAAAA-TAGAAATTTAAAAAA
196 TTATGAGTTGATTTTTTGAAAAAAGCAGAAATTTAAAAAA
60460266 ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTGAAAAAAGCA
1 ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCA
60460330 GAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT
66 GAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT
60460395 TGAAAAAACAGAAATTAAATT-AAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTA
131 TGAAAAAACAGAAATTAAATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTA
60460459 TTATGAGTTGATTTTTTGAAAAAAGCA-AAATTTAAAAAA
196 TTATGAGTTGATTTTTTGAAAAAAGCAGAAATTTAAAAAA
60460498 ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAG-A
1 ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCA
60460562 GAAATTTAAAAATA-CTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT
66 GAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT
*
60460626 TGAAAAAACAGAAATTAAATTAAAAAAATACCTCA-AGTGA-CCGAGGCTCAACTCACCTCTGTA
131 TGAAAAAACAGAAATTAAATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTA
*
60460689 TTATGAGTTGATTTTTTGAAAAAA-AAGAAATTTAAAAAA
196 TTATGAGTTGATTTTTTGAAAAAAGCAGAAATTTAAAAAA
60460728 ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAA-CA
1 ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCA
*
60460792 GAAATTAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT
66 GAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTT
60460857 TTGAAAAAAACAGAA
130 TTG-AAAAAACAGAA
60460872 TTTTAAAAAT
Statistics
Matches: 1249, Mismatches: 24, Indels: 56
0.94 0.02 0.04
Matches are distributed among these distances:
227 6 0.00
228 77 0.06
229 60 0.05
230 176 0.14
231 254 0.20
232 335 0.27
233 177 0.14
234 24 0.02
236 7 0.01
237 133 0.11
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (235 bp):
ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCA
GAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT
TGAAAAAACAGAAATTAAATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTA
TTATGAGTTGATTTTTTGAAAAAAGCAGAAATTTAAAAAA
Found at i:60461761 original size:8 final size:8
Alignment explanation
Indices: 60461748--60461827 Score: 67
Period size: 8 Copynumber: 9.9 Consensus size: 8
60461738 CTTTCCTTTG
60461748 TTTTTTCT
1 TTTTTTCT
60461756 TTTTTTCT
1 TTTTTTCT
60461764 TTTTTTCT
1 TTTTTTCT
60461772 TTTGTTT-T
1 TTT-TTTCT
*
60461780 TTGTTTTGT
1 TT-TTTTCT
*
60461789 TTTTTTGT
1 TTTTTTCT
60461797 TGTTTTT-T
1 T-TTTTTCT
60461805 TTGTTTT-T
1 TT-TTTTCT
* *
60461813 TGTTTACT
1 TTTTTTCT
60461821 TTTTTTC
1 TTTTTTC
60461828 AGGCATAATA
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
7 4 0.06
8 46 0.74
9 12 0.19
ACGTcount: A:0.01, C:0.06, G:0.09, T:0.84
Consensus pattern (8 bp):
TTTTTTCT
Found at i:60461770 original size:28 final size:28
Alignment explanation
Indices: 60461727--60461794 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
60461717 TTCATCTTGA
60461727 TTTTTCTTTTTCTTTCCTTTGTTTTTTCTT
1 TTTTTC-TTTT-TTTCCTTTGTTTTTTCTT
* *
60461757 TTTTTCTTTTTTTCTTTTGTTTTTTGTT
1 TTTTTCTTTTTTTCCTTTGTTTTTTCTT
*
60461785 TTGTT-TTTTT
1 TTTTTCTTTTT
60461795 GTTGTTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.14
28 20 0.57
29 4 0.11
30 6 0.17
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (28 bp):
TTTTTCTTTTTTTCCTTTGTTTTTTCTT
Found at i:60461774 original size:13 final size:12
Alignment explanation
Indices: 60461727--60461826 Score: 67
Period size: 12 Copynumber: 8.1 Consensus size: 12
60461717 TTCATCTTGA
60461727 TTTTTCTTTTTCT
1 TTTTTCTTTTT-T
*
60461740 TTCCTTTGTTTTTT
1 TT--TTTCTTTTTT
* *
60461754 CTTTT-TTTCTT
1 TTTTTCTTTTTT
*
60461765 TTTTTCTTTTGT
1 TTTTTCTTTTTT
*
60461777 TTTTTGTTTTGTT
1 TTTTTCTTTT-TT
* *
60461790 TTTTTGTTGTTT
1 TTTTTCTTTTTT
*
60461802 TTTTTGTTTTTT
1 TTTTTCTTTTTT
* *
60461814 GTTTACTTTTTT
1 TTTTTCTTTTTT
60461826 T
1 T
60461827 CAGGCATAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
11 9 0.13
12 38 0.55
13 12 0.17
14 2 0.03
15 8 0.12
ACGTcount: A:0.01, C:0.08, G:0.08, T:0.83
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:60461781 original size:12 final size:11
Alignment explanation
Indices: 60461744--60461813 Score: 70
Period size: 12 Copynumber: 5.9 Consensus size: 11
60461734 TTTTCTTTCC
60461744 TTTGTTTTTTCT
1 TTTGTTTTTT-T
60461756 TTT-TTTCTTTT
1 TTTGTTT-TTTT
*
60461767 TTTCTTTTGTTT
1 TTTGTTTT-TTT
60461779 TTTGTTTTGTTTT
1 TTTG-TTT-TTTT
60461792 TTTGTTGTTTTT
1 TTTGTT-TTTTT
60461804 TTTGTTTTTT
1 TTTGTTTTTT
60461814 GTTTACTTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
11 12 0.24
12 27 0.53
13 11 0.22
14 1 0.02
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (11 bp):
TTTGTTTTTTT
Found at i:60461792 original size:32 final size:32
Alignment explanation
Indices: 60461750--60461826 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
60461740 TTCCTTTGTT
* * *
60461750 TTTTCTTTTTTTCTTTTTTTCTTTTGTTTTTTG
1 TTTTGTTTTTTTGTTGTTTT-TTTTGTTTTTTG
60461783 TTTTGTTTTTTTGTTGTTTTTTTTGTTTTTTG
1 TTTTGTTTTTTTGTTGTTTTTTTTGTTTTTTG
**
60461815 TTTACTTTTTTT
1 TTTTGTTTTTTT
60461827 CAGGCATAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 22 0.56
33 17 0.44
ACGTcount: A:0.01, C:0.05, G:0.09, T:0.84
Consensus pattern (32 bp):
TTTTGTTTTTTTGTTGTTTTTTTTGTTTTTTG
Found at i:60461801 original size:16 final size:17
Alignment explanation
Indices: 60461734--60461823 Score: 80
Period size: 16 Copynumber: 5.5 Consensus size: 17
60461724 TGATTTTTCT
**
60461734 TTTTCTTTCCTTTGTT-
1 TTTTCTTTTGTTTGTTG
* *
60461750 TTTTCTTTT-TTTCTTT
1 TTTTCTTTTGTTTGTTG
*
60461766 TTTTCTTTTGTTTTTTG
1 TTTTCTTTTGTTTGTTG
*
60461783 TTTTGTTTT-TTTGTTG
1 TTTTCTTTTGTTTGTTG
*
60461799 TTTT-TTTTGTTTTTTG
1 TTTTCTTTTGTTTGTTG
*
60461815 TTTACTTTT
1 TTTTCTTTT
60461824 TTTCAGGCAT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
15 9 0.15
16 36 0.58
17 17 0.27
ACGTcount: A:0.01, C:0.08, G:0.09, T:0.82
Consensus pattern (17 bp):
TTTTCTTTTGTTTGTTG
Found at i:60461826 original size:1 final size:1
Alignment explanation
Indices: 60461748--60461813 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
60461738 CTTTCCTTTG
* * * * * * * * *
60461748 TTTTTTCTTTTTTTCTTTTTTTCTTTTGTTTTTTGTTTTGTTTTTTTGTTGTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
60461813 T
1 T
60461814 GTTTACTTTT
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (1 bp):
T
Found at i:60461826 original size:20 final size:19
Alignment explanation
Indices: 60461739--60461817 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 19
60461729 TTTCTTTTTC
* *
60461739 TTTCCTTTGTTTTTTCTTTT
1 TTTCTTTTGTTTTTT-GTTT
*
60461759 TTTCTTTTTTTCTTTTGTTT
1 TTTCTTTTGTT-TTTTGTTT
*
60461779 TTTGTTTTGTTTTTTTGTTGT
1 TTTCTTTTG-TTTTTTGTT-T
60461800 TTT-TTTTGTTTTTTGTTT
1 TTTCTTTTGTTTTTTGTTT
60461818 ACTTTTTTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.02
19 9 0.18
20 31 0.61
21 10 0.20
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.84
Consensus pattern (19 bp):
TTTCTTTTGTTTTTTGTTT
Found at i:60469220 original size:17 final size:15
Alignment explanation
Indices: 60469167--60469220 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
60469157 CTTTTTCCTT
60469167 TTTTGAAAACACGAAAA
1 TTTT-AAAACAC-AAAA
*
60469184 TTTTAAAATACAAGAA
1 TTTTAAAACACAA-AA
60469200 TTTTAGAAACACAAAA
1 TTTTA-AAACACAAAA
60469216 CTTTT
1 -TTTT
60469221 TTTAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 2 0.06
16 15 0.47
17 15 0.47
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.31
Consensus pattern (15 bp):
TTTTAAAACACAAAA
Found at i:60469259 original size:16 final size:16
Alignment explanation
Indices: 60469228--60469258 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60469218 TTTTTTAAAA
60469228 AAAACATGAAGATTTT
1 AAAACATGAAGATTTT
60469244 AAAACATG-AGATTTT
1 AAAACATGAAGATTTT
60469259 TTATTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.32
Consensus pattern (16 bp):
AAAACATGAAGATTTT
Found at i:60469298 original size:20 final size:21
Alignment explanation
Indices: 60469263--60469303 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
60469253 GATTTTTTAT
60469263 TTTTATTTTTGAAAACACGAA
1 TTTTATTTTTGAAAACACGAA
60469284 TTTTATTTTTG-AAACACGAA
1 TTTTATTTTTGAAAACACGAA
60469304 AATTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
TTTTATTTTTGAAAACACGAA
Found at i:60469316 original size:37 final size:37
Alignment explanation
Indices: 60469267--60469346 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
60469257 TTTTATTTTT
*
60469267 ATTTTTGAAAACACG-AATTTTATTTTTGAAACACGA-AA
1 ATTTTTGAAAACA-GAAAATTTATTTTTGAAA-AC-ATAA
*
60469305 ATTTTT-AAAACAGAAAATTTGTTTTTGAAAACATAA
1 ATTTTTGAAAACAGAAAATTTATTTTTGAAAACATAA
60469341 ATTTTT
1 ATTTTT
60469347 TTGATAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
35 1 0.03
36 11 0.29
37 20 0.53
38 6 0.16
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.41
Consensus pattern (37 bp):
ATTTTTGAAAACAGAAAATTTATTTTTGAAAACATAA
Found at i:60469320 original size:16 final size:17
Alignment explanation
Indices: 60469288--60469324 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
60469278 CACGAATTTT
*
60469288 ATTTTTGAAACACGAAA
1 ATTTTTAAAACACGAAA
60469305 ATTTTTAAAACA-GAAA
1 ATTTTTAAAACACGAAA
60469321 ATTT
1 ATTT
60469325 GTTTTTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (17 bp):
ATTTTTAAAACACGAAA
Found at i:60469342 original size:20 final size:19
Alignment explanation
Indices: 60469306--60469348 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
60469296 AACACGAAAA
60469306 TTTTTAAAACAGAAAATTT
1 TTTTTAAAACAGAAAATTT
*
60469325 GTTTTTGAAAACA-TAAATTT
1 -TTTTT-AAAACAGAAAATTT
60469345 TTTT
1 TTTT
60469349 GATAAAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.49
Consensus pattern (19 bp):
TTTTTAAAACAGAAAATTT
Found at i:60469490 original size:23 final size:23
Alignment explanation
Indices: 60469460--60469553 Score: 131
Period size: 23 Copynumber: 4.2 Consensus size: 23
60469450 TTTTGTTTTT
60469460 TTTTTCATTTTAAAACACGAAAA
1 TTTTTCATTTTAAAACACGAAAA
*
60469483 TTTTTCATTTGAAAACACGAAAA
1 TTTTTCATTTTAAAACACGAAAA
* *
60469506 TTTTTCATTTTAAAACGCG-GAA
1 TTTTTCATTTTAAAACACGAAAA
60469528 TTTTT--TTTTAAAACACGAAAA
1 TTTTTCATTTTAAAACACGAAAA
*
60469549 CTTTT
1 TTTTT
60469554 GAAAATGCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
20 11 0.17
21 6 0.10
22 7 0.11
23 39 0.62
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.41
Consensus pattern (23 bp):
TTTTTCATTTTAAAACACGAAAA
Found at i:60470250 original size:6 final size:6
Alignment explanation
Indices: 60470241--60470307 Score: 50
Period size: 6 Copynumber: 10.8 Consensus size: 6
60470231 TTTTTAATTT
*
60470241 TTTTTC TTTTTCTC TTTTTC TTCTAT- TTTTTC TTTCTAT- TTTTTC TTTTT-
1 TTTTTC -TTTT-TC TTTTTC TT-TTTC TTTTTC TTT-T-TC TTTTTC TTTTTC
*
60470291 TTTTCC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTT
60470308 TCTTCTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
5 7 0.14
6 25 0.51
7 14 0.29
8 3 0.06
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:60470258 original size:13 final size:11
Alignment explanation
Indices: 60470238--60470318 Score: 63
Period size: 13 Copynumber: 6.5 Consensus size: 11
60470228 GTTTTTTTAA
60470238 TTTTTTTTCTTT
1 TTTTTTTTC-TT
60470250 TTCTCTTTTTCTT
1 TT-T-TTTTTCTT
*
60470263 CTATTTTTTCTT
1 -TTTTTTTTCTT
60470275 TCTATTTTTTCTT
1 T-T-TTTTTTCTT
*
60470288 TTTTTTTCCTTT
1 TTTTTTTTC-TT
60470300 TTCTTTTTTCTT
1 TT-TTTTTTCTT
60470312 CTTTTTT
1 -TTTTTT
60470319 AGGCCGAACC
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
11 7 0.12
12 21 0.37
13 22 0.39
14 7 0.12
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:60470269 original size:24 final size:23
Alignment explanation
Indices: 60470240--60470318 Score: 95
Period size: 24 Copynumber: 3.3 Consensus size: 23
60470230 TTTTTTAATT
60470240 TTTTTTCTTTTTCTCTTTTTCTTC
1 TTTTTTCTTTTTCT-TTTTTCTTC
* * *
60470264 TATTTTTTCTTTCTATTTTTTCTTT
1 --TTTTTTCTTTTTCTTTTTTCTTC
60470289 TTTTTTCCTTTTTCTTTTTTCTTC
1 TTTTTT-CTTTTTCTTTTTTCTTC
60470313 TTTTTT
1 TTTTTT
60470319 AGGCCGAACC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
23 6 0.13
24 20 0.43
25 8 0.17
26 12 0.26
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTTTCTTTTTCTTTTTTCTTC
Found at i:60470318 original size:17 final size:17
Alignment explanation
Indices: 60470238--60470318 Score: 80
Period size: 17 Copynumber: 4.9 Consensus size: 17
60470228 GTTTTTTTAA
60470238 TTTTTT-TTC-TTTTTC
1 TTTTTTCTTCTTTTTTC
*
60470253 TCTTTTTCTTCTATTTT-
1 T-TTTTTCTTCTTTTTTC
* *
60470270 TTCTTTC-TATTTTTTC
1 TTTTTTCTTCTTTTTTC
* *
60470286 TTTTTTTTTCCTTTTTC
1 TTTTTTCTTCTTTTTTC
60470303 TTTTTTCTTCTTTTTT
1 TTTTTTCTTCTTTTTT
60470319 AGGCCGAACC
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
15 7 0.14
16 15 0.29
17 25 0.49
18 4 0.08
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTTCTTCTTTTTTC
Found at i:60470448 original size:15 final size:15
Alignment explanation
Indices: 60470428--60470460 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
60470418 CTCTTCTTTC
60470428 TTTTTGGTTGCTATT
1 TTTTTGGTTGCTATT
*
60470443 TTTTTGGTTGCTGTT
1 TTTTTGGTTGCTATT
60470458 TTT
1 TTT
60470461 GTTTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.03, C:0.06, G:0.21, T:0.70
Consensus pattern (15 bp):
TTTTTGGTTGCTATT
Found at i:60470944 original size:30 final size:28
Alignment explanation
Indices: 60470872--60471027 Score: 127
Period size: 30 Copynumber: 5.2 Consensus size: 28
60470862 AAATATGGAC
*
60470872 CAAAATGTAATTTCTTGAAAGTTTAGGGGT
1 CAAAATGTAATTT-TAGAAAGTTTA-GGGT
* * *
60470902 TAAAGTGAAATTTTAAGAAAGTTTAAGGGT
1 CAAAATGTAATTTT-AGAAAGTTT-AGGGT
**
60470932 TGAAATGTAATTTTAGAAAAGTTT-GTGGT
1 CAAAATGTAATTTTAG-AAAGTTTAG-GGT
*
60470961 CAAAATGTAAATTTTAAAAAGGTTTAGGGT
1 CAAAATGT-AATTTTAGAAA-GTTTAGGGT
*
60470991 CAAAATGTAAATTTT-GAAAAGTATAGGGGT
1 CAAAATGT-AATTTTAG-AAAGTTTA-GGGT
60471021 CAAAATG
1 CAAAATG
60471028 CATTTTTTTA
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
28 1 0.01
29 19 0.18
30 83 0.79
31 2 0.02
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.34
Consensus pattern (28 bp):
CAAAATGTAATTTTAGAAAGTTTAGGGT
Found at i:60470953 original size:60 final size:59
Alignment explanation
Indices: 60470872--60471027 Score: 176
Period size: 60 Copynumber: 2.6 Consensus size: 59
60470862 AAATATGGAC
* *
60470872 CAAAATGTAATTTCTTG-AAAGTTTAGGGGTTAAAGTG-AAATTTTAAGAAA-GTTTAAGGGT
1 CAAAATGTAA-TT-TTGAAAAGTTTAGGGGTCAAAATGTAAATTTTAA-AAAGGTTT-AGGGT
** *
60470932 TGAAATGTAATTTTAGAAAAGTTT-GTGGTCAAAATGTAAATTTTAAAAAGGTTTAGGGT
1 CAAAATGTAATTTT-GAAAAGTTTAGGGGTCAAAATGTAAATTTTAAAAAGGTTTAGGGT
*
60470991 CAAAATGTAAATTTTGAAAAGTATAGGGGTCAAAATG
1 CAAAATGT-AATTTTGAAAAGTTTAGGGGTCAAAATG
60471028 CATTTTTTTA
Statistics
Matches: 81, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
58 2 0.02
59 34 0.42
60 45 0.56
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.34
Consensus pattern (59 bp):
CAAAATGTAATTTTGAAAAGTTTAGGGGTCAAAATGTAAATTTTAAAAAGGTTTAGGGT
Found at i:60470966 original size:29 final size:29
Alignment explanation
Indices: 60470852--60471027 Score: 114
Period size: 30 Copynumber: 5.9 Consensus size: 29
60470842 TCGAAAGTGC
* * **
60470852 AATTTTAGAAAAATATGGACCAAAATGT-
1 AATTTTAGAAAAGTTTGGGTCAAAATGTA
* * *
60470880 AATTTCTTG-AAAGTTTAGGGGTTAAAGTG-A
1 AATTT-TAGAAAAGTTT--GGGTCAAAATGTA
**
60470910 AATTTTA-AGAAAGTTTAAGGGTTGAAATGT-
1 AATTTTAGA-AAAGTTT--GGGTCAAAATGTA
60470940 AATTTTAGAAAAGTTTGTGGTCAAAATGTA
1 AATTTTAGAAAAGTTTG-GGTCAAAATGTA
60470970 AATTTTA-AAAAGGTTTAGGGTCAAAATGTA
1 AATTTTAGAAAA-GTTT-GGGTCAAAATGTA
*
60471000 AATTTT-GAAAAGTATAGGGGTCAAAATG
1 AATTTTAGAAAAGT-T-TGGGTCAAAATG
60471028 CATTTTTTTA
Statistics
Matches: 119, Mismatches: 14, Indels: 28
0.74 0.09 0.17
Matches are distributed among these distances:
28 11 0.09
29 18 0.15
30 88 0.74
31 2 0.02
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (29 bp):
AATTTTAGAAAAGTTTGGGTCAAAATGTA
Found at i:60474429 original size:13 final size:13
Alignment explanation
Indices: 60474411--60474437 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60474401 TTCATTTTAG
60474411 TAATATTATATTT
1 TAATATTATATTT
60474424 TAATATTATATTT
1 TAATATTATATTT
60474437 T
1 T
60474438 TAAAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TAATATTATATTT
Found at i:60476175 original size:18 final size:19
Alignment explanation
Indices: 60476152--60476213 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
60476142 ATAATCAAAT
60476152 ATAATAAT-GTCAATAACA
1 ATAATAATAGTCAATAACA
*
60476170 ATAATAAATAGT-AATAAAA
1 ATAAT-AATAGTCAATAACA
*
60476189 ATAAAAATAGTCAATTAATCA
1 ATAATAATAGTCAA-TAA-CA
60476210 ATAA
1 ATAA
60476214 ATTAATGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
18 11 0.31
19 15 0.42
20 5 0.14
21 5 0.14
ACGTcount: A:0.61, C:0.06, G:0.05, T:0.27
Consensus pattern (19 bp):
ATAATAATAGTCAATAACA
Found at i:60485113 original size:16 final size:16
Alignment explanation
Indices: 60485092--60485136 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
60485082 TGTATTGGAT
*
60485092 TAGAGGCGTAATAGAA
1 TAGAGGTGTAATAGAA
*
60485108 TAGAGGTGTAATGGAA
1 TAGAGGTGTAATAGAA
60485124 TAGAGGTGTAATA
1 TAGAGGTGTAATA
60485137 AGAAATCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.40, C:0.02, G:0.33, T:0.24
Consensus pattern (16 bp):
TAGAGGTGTAATAGAA
Found at i:60485179 original size:44 final size:44
Alignment explanation
Indices: 60485114--60485203 Score: 119
Period size: 43 Copynumber: 2.0 Consensus size: 44
60485104 AGAATAGAGG
*
60485114 TGTAATGGAATAGAGGTGTAATAAGAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAAT-AGAAATCAACTGTTTGGTTGAA
* ***
60485159 TGTAAT-GAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
60485202 TG
1 TG
60485204 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 20 0.50
44 14 0.35
45 6 0.15
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:60485218 original size:39 final size:39
Alignment explanation
Indices: 60485117--60485220 Score: 118
Period size: 43 Copynumber: 2.5 Consensus size: 39
60485107 ATAGAGGTGT
60485117 AATGGAATAGAGGTGTAATAAGAAATCAACTGTTTGGTTG
1 AATGGAATAGAGGTGTAAT-AGAAATCAACTGTTTGGTTG
* * ***
60485157 AATGTAATGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTG
1 AATG----GAATAGAGGTGTAATAGAAATCAACTGTTTGGTTG
60485200 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGTGTAATAG
60485221 CATAATGAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
39 16 0.30
40 4 0.07
43 20 0.37
44 14 0.26
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.32
Consensus pattern (39 bp):
AATGGAATAGAGGTGTAATAGAAATCAACTGTTTGGTTG
Found at i:60485385 original size:16 final size:16
Alignment explanation
Indices: 60485348--60485389 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
60485338 TTAATCATAT
*
60485348 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
60485364 TT-AAATATATTATAA
1 TTAAAATATATTATAA
60485379 TTAAAATATAT
1 TTAAAATATAT
60485390 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:60485396 original size:14 final size:15
Alignment explanation
Indices: 60485357--60485398 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
60485347 TTTAAACATA
*
60485357 ATTATTATTAAATAT
1 ATTATAATTAAATAT
60485372 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
60485386 A-TATAATTTAATA
1 ATTATAATTAAATA
60485399 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:60485449 original size:61 final size:61
Alignment explanation
Indices: 60485383--60485570 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
60485373 TTATAATTAA
60485383 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * *
60485444 AATATATGATACT-ATAAAATT-TAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
* *
60485503 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTGTATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
60485564 AATATAT
1 AATATAT
60485571 GATACTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 32 0.33
60 20 0.21
61 39 0.40
62 3 0.03
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:60485495 original size:120 final size:120
Alignment explanation
Indices: 60485351--60485642 Score: 491
Period size: 120 Copynumber: 2.4 Consensus size: 120
60485341 ATCATATTTA
60485351 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
60485416 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAA-ATTTAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAGA--TAAATTG
*
60485471 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
60485536 TATTCTTGTATGAATTTACTCAAATCATAATATATGATACTATAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAGATAAATTG
* * *
60485591 AA-ATGATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
60485643 TAAAATAATT
Statistics
Matches: 164, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
119 52 0.32
120 111 0.68
121 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAGATAAATTG
Found at i:60485516 original size:14 final size:15
Alignment explanation
Indices: 60485467--60485518 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
60485457 ATAAAATTTA
60485467 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
60485482 TATTAAATATATTAT
1 AATTAAATATATTAT
60485497 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
60485510 AATTTAATA
1 AATTAAATA
60485519 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:60485569 original size:59 final size:59
Alignment explanation
Indices: 60485386--60485569 Score: 173
Period size: 59 Copynumber: 3.1 Consensus size: 59
60485376 TAATTAAAAT
*
60485386 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * *
60485445 ATAT-ATGATACTATAAAATT-TAAATTAACATAATTATTATTAAAT-ATATTATAATTAAA--A
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-TTAA-TATTCTTATATGA-ATT-TACTCAAATCA
60485505 T-
58 TA
*
60485506 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTGTATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
60485565 ATATA
1 ATATA
60485570 TGATACTATA
Statistics
Matches: 95, Mismatches: 16, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 6 0.06
57 11 0.12
58 8 0.08
59 22 0.23
60 6 0.06
61 17 0.18
62 7 0.07
63 12 0.13
64 6 0.06
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
Found at i:60485634 original size:18 final size:17
Alignment explanation
Indices: 60485607--60485641 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60485597 TTAATATTAA
*
60485607 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60485625 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60485642 TTAAAATAAT
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:60485688 original size:101 final size:92
Alignment explanation
Indices: 60485668--60485865 Score: 301
Period size: 91 Copynumber: 2.2 Consensus size: 92
60485658 TAATAAATTA
* * *
60485668 TCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAAT
1 TCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAAT
60485733 TTCATAAAA-TTATTGATAATAATTGT
66 TTCATAAAATTTATTGATAATAATTGT
* *
60485759 TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAAT
1 TCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAAT
* * *
60485824 TTCATAAAA-TTCTTAATAATAAAATGT
66 TTCATAAAATTTATTGATAAT-AATTGT
60485851 TCTTATATGAATTTA
1 TCTTATATGAATTTA
60485866 CTAAAATCAA
Statistics
Matches: 98, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 78 0.80
92 20 0.20
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (92 bp):
TCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAAT
TTCATAAAATTTATTGATAATAATTGT
Found at i:60485712 original size:26 final size:28
Alignment explanation
Indices: 60485683--60485743 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
60485673 TATGAATTTG
*
60485683 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
60485709 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
60485737 TAAAATT
1 TATAATT
60485744 ATTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:60485746 original size:44 final size:42
Alignment explanation
Indices: 60485683--60485825 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 42
60485673 TATGAATTTG
60485683 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTA-ATATAATTTAATAAT-ATA
* ** *
60485727 TATAATTTCATAA-AATTATTGA-TAATAATTGTTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-ATTAAT-A-TAAT-TTA-AT-AATATA
* *
60485774 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATT-AATATAATTTAATAAT-ATA
60485818 TATAATTT
1 TATAATTT
60485826 CATAAAATTC
Statistics
Matches: 77, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
43 5 0.06
44 29 0.38
45 9 0.12
46 9 0.12
47 19 0.25
48 6 0.08
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (42 bp):
TATAATTTAAAATAATTATTATTAATATAATTTAATAATATA
Found at i:60485840 original size:47 final size:47
Alignment explanation
Indices: 60485690--60485846 Score: 128
Period size: 47 Copynumber: 3.4 Consensus size: 47
60485680 TTGTATAATT
* * * * *
60485690 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
* * * * *
60485737 TAAAATTATTGATAAT-AAT-T-GTTCTTAT-ATGAATTTATACAATT--
1 TAAAATTATTAATAATAAATATAATT-TAATAATG-ATATATA-ATTTCA
* *
60485781 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
*
60485828 TAAAATTCTTAATAATAAA
1 TAAAATTATTAATAATAAA
60485847 ATGTTCTTAT
Statistics
Matches: 81, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
44 17 0.21
45 16 0.20
46 15 0.19
47 33 0.41
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (47 bp):
TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
Found at i:60488971 original size:33 final size:33
Alignment explanation
Indices: 60488932--60489007 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
60488922 ATTATAAAGC
*
60488932 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
60488965 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
60488998 ATGTATAATT
1 ATGTATAATT
60489008 CAAGTTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:60489105 original size:37 final size:37
Alignment explanation
Indices: 60489050--60489132 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 37
60489040 GTATAAATAT
* *
60489050 ATTGATTAGTTCATTAAAGCATGTTCAAAGTTTTAAC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
*
60489087 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
60489124 ATTGATTAG
1 ATTGATTAG
60489133 ATTATTTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (37 bp):
ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
Found at i:60490390 original size:69 final size:69
Alignment explanation
Indices: 60490279--60490415 Score: 202
Period size: 69 Copynumber: 2.0 Consensus size: 69
60490269 TGATTTCCAT
*
60490279 TTTCATATTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACAATCAAAACAACTGCCAGA
1 TTTCATATTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACAATCAAAACAACTGCCAGA
60490344 ACAG
66 ACAG
* * * * * * *
60490348 TTTCATCTTCTACTCACTAACAAATTAATAACATTTTCCAGCAGACTATCAAAACAATTTCCAGA
1 TTTCATATTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACAATCAAAACAACTGCCAGA
60490413 ACA
66 ACA
60490416 AACCAACAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (69 bp):
TTTCATATTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACAATCAAAACAACTGCCAGA
ACAG
Found at i:60500118 original size:25 final size:25
Alignment explanation
Indices: 60500090--60500144 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
60500080 AAGTTCCTTT
60500090 TGTACAACGTAGTTTACCTCCTATA
1 TGTACAACGTAGTTTACCTCCTATA
60500115 TGTACAACGTAGTTTACCTCCTATA
1 TGTACAACGTAGTTTACCTCCTATA
60500140 TGTAC
1 TGTAC
60500145 GGCCTGTCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (25 bp):
TGTACAACGTAGTTTACCTCCTATA
Found at i:60501061 original size:21 final size:21
Alignment explanation
Indices: 60501035--60501075 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
60501025 CATCTCCTAT
60501035 GGCACACTCCTCAGTCCCATC
1 GGCACACTCCTCAGTCCCATC
60501056 GGCACACTCCTCAGTCCCAT
1 GGCACACTCCTCAGTCCCAT
60501076 TTCATCTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.46, G:0.15, T:0.20
Consensus pattern (21 bp):
GGCACACTCCTCAGTCCCATC
Found at i:60524625 original size:42 final size:42
Alignment explanation
Indices: 60524579--60524693 Score: 146
Period size: 42 Copynumber: 2.8 Consensus size: 42
60524569 CCCGATATAA
* *
60524579 TAAATATTTTTTTTAATGTTAAAATATTTTTTACATACTTTT
1 TAAATATTTTTTTTAATTTTAAAATATTTTTTAAATACTTTT
* *
60524621 TAAAT-TTTTTTTAAAATTTTAAAATATTTTTAAAATACTTTT
1 TAAATATTTTTTT-TAATTTTAAAATATTTTTTAAATACTTTT
*
60524663 T-TA-ATTTTTTTTAATTTTAAAATACTTTTTT
1 TAAATATTTTTTTTAATTTTAAAATA-TTTTTT
60524694 TTAATTTTTG
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
40 12 0.19
41 20 0.32
42 31 0.49
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (42 bp):
TAAATATTTTTTTTAATTTTAAAATATTTTTTAAATACTTTT
Found at i:60524640 original size:19 final size:19
Alignment explanation
Indices: 60524618--60524656 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
60524608 TTTACATACT
* *
60524618 TTTTAAATTTTTTTTAAAA
1 TTTTAAAATATTTTTAAAA
60524637 TTTTAAAATATTTTTAAAA
1 TTTTAAAATATTTTTAAAA
60524656 T
1 T
60524657 ACTTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAAAATATTTTTAAAA
Found at i:60524712 original size:21 final size:20
Alignment explanation
Indices: 60524580--60524701 Score: 79
Period size: 21 Copynumber: 6.0 Consensus size: 20
60524570 CCGATATAAT
*
60524580 AAATATTTTTTTTAATGTTA
1 AAATATTTTTTTTAATTTTA
* * *
60524600 AAATATTTTTTACATACTTTTT
1 AAATATTTTTT--TTAATTTTA
*
60524622 AAAT-TTTTTTTAAAATTTTA
1 AAATATTTTTTT-TAATTTTA
** *
60524642 AAATA-TTTTTAAAATACTTTT
1 AAATATTTTTTTTAAT--TTTA
**
60524663 TTA-ATTTTTTTTAATTTTA
1 AAATATTTTTTTTAATTTTA
60524682 AAATACTTTTTTTTAATTTT
1 AAATA-TTTTTTTTAATTTT
60524702 TGAAAATTTT
Statistics
Matches: 76, Mismatches: 17, Indels: 17
0.69 0.15 0.15
Matches are distributed among these distances:
19 8 0.11
20 27 0.36
21 32 0.42
22 9 0.12
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (20 bp):
AAATATTTTTTTTAATTTTA
Found at i:60528068 original size:106 final size:106
Alignment explanation
Indices: 60527944--60528210 Score: 448
Period size: 106 Copynumber: 2.5 Consensus size: 106
60527934 CAATTGTGGA
* *
60527944 TGTACTTCCTTTCTTTCCAAACAATCATGAAAAAGTTATCGCATGGTTGCTACTTTATTTTGATT
1 TGTACTTCCTTTCTTTCCAAACAATCATGAAAAAGTTATCACATGGTTGCTGCTTTATTTTGATT
*
60528009 CATTCCAACATATATTCTGAATCAGCTTAGTGTTCTATTTT
66 CATTCCAACATATATTCTGAATCAGCTTAGTGTTCTACTTT
* *
60528050 TGTACTTCCTTTCTTTCCAAACAATCATGAAAAATTTATCACATGGTTGCTGCTTTGTTTTGATT
1 TGTACTTCCTTTCTTTCCAAACAATCATGAAAAAGTTATCACATGGTTGCTGCTTTATTTTGATT
60528115 CATTCCAACATATATTCTGAATCAGCTTAGTGTTCTACTTT
66 CATTCCAACATATATTCTGAATCAGCTTAGTGTTCTACTTT
* *
60528156 TGTACTCCCTTTCTTTCCAAACACA-AATG-AAAAGTTATCACATGGTTGCTGCTTT
1 TGTACTTCCTTTCTTTCCAAACA-ATCATGAAAAAGTTATCACATGGTTGCTGCTTT
60528211 CACTTGCTCT
Statistics
Matches: 152, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
105 25 0.16
106 126 0.83
107 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (106 bp):
TGTACTTCCTTTCTTTCCAAACAATCATGAAAAAGTTATCACATGGTTGCTGCTTTATTTTGATT
CATTCCAACATATATTCTGAATCAGCTTAGTGTTCTACTTT
Found at i:60532171 original size:91 final size:91
Alignment explanation
Indices: 60532042--60532249 Score: 310
Period size: 91 Copynumber: 2.3 Consensus size: 91
60532032 TTGATTTTAG
* *
60532042 TAAATTCATATAAGAACATTTTATTATTAAGAACTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAACTTTATGAAATTATATATCATTATTAAATTAT
* *
60532107 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* *
60532134 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAACTTTATGAAATTATATATCATTATTAAATTATA
60532199 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * *
60532225 CAAATTCATATAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
60532250 GTTATAATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
91 87 0.82
92 19 0.18
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAACTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:60532224 original size:44 final size:43
Alignment explanation
Indices: 60532082--60532224 Score: 105
Period size: 44 Copynumber: 3.2 Consensus size: 43
60532072 GAACTTTATG
*
60532082 AAATTATATATCATTATTAAATTATATTTAAT-ATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATT-ATTATTTT
* ** ** *
60532126 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATTATTATT-TT
60532173 AAATTATATATTATTATTAAATTATATGTAATAATTATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATTATTATTTT
60532217 AAATTATA
1 AAATTATA
60532225 CAAATTCATA
Statistics
Matches: 74, Mismatches: 13, Indels: 24
0.67 0.12 0.22
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 20 0.27
45 12 0.16
46 11 0.15
47 11 0.15
48 4 0.05
49 6 0.08
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATTATTATTTT
Found at i:60532374 original size:66 final size:63
Alignment explanation
Indices: 60532303--60532499 Score: 173
Period size: 66 Copynumber: 3.2 Consensus size: 63
60532293 AAATATATTT
60532303 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
60532368 G
63 G
* * * * * *
60532369 AATATTAATTATTAAGAATT-TTATTAA--ATTATATATTTTAATTAT-AATAAA-T--T-T---
1 AATATTAATTATTTA-AATTATTTTTAAGTATCATATATTATGATT-TGAGTAAATTCATATAAG
* *
60532423 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
60532488 G
63 G
60532489 AATATTAATTA
1 AATATTAATTA
60532500 CTAAGAATTT
Statistics
Matches: 100, Mismatches: 15, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
54 14 0.14
55 3 0.03
56 4 0.04
57 2 0.02
58 2 0.02
59 18 0.18
60 2 0.02
61 18 0.18
62 2 0.02
63 2 0.02
64 4 0.04
65 2 0.02
66 27 0.27
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.48
Consensus pattern (63 bp):
AATATTAATTATTTAAATTATTTTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:60532389 original size:120 final size:120
Alignment explanation
Indices: 60532265--60532562 Score: 499
Period size: 120 Copynumber: 2.5 Consensus size: 120
60532255 AATTATTTTA
* * * *
60532265 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
* *
60532329 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTACTAAG
* *
60532385 AATTTTATTAAATTATATATTTTAATTATAATAAATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
60532450 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTACTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTACTAAG
60532505 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
60532563 ATGATTAAAT
Statistics
Matches: 166, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
120 159 0.96
121 7 0.04
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTACTAAG
Found at i:60532405 original size:61 final size:61
Alignment explanation
Indices: 60532338--60532525 Score: 192
Period size: 61 Copynumber: 3.1 Consensus size: 61
60532328 TTATAGTATC
60532338 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
60532399 ATATATTTTAATTAT-AATAAATTTA-ATAATAATTATGTTAA-T-TT-A-TATTTTA-CAGTAT
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TA--TTAATTATTAAGAATTTTATTA-AAT
*
60532457 C
61 T
*
60532458 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTACTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
60532519 ATATATT
1 ATATATT
60532526 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 4 0.04
58 3 0.03
59 30 0.31
60 14 0.15
61 38 0.40
62 3 0.03
63 4 0.04
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:60532540 original size:16 final size:16
Alignment explanation
Indices: 60532519--60532560 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
60532509 TTATTAAATT
*
60532519 ATATATTTTAATTATA
1 ATATATTTTAATAATA
60532535 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
60532550 AT-TATGTTTAA
1 ATATAT-TTTAA
60532561 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:60532545 original size:15 final size:15
Alignment explanation
Indices: 60532510--60532551 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
60532500 CTAAGAATTT
*
60532510 TATTAAATTAT-ATA
1 TATTTAATTATAATA
60532524 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
60532538 TATTTAATAATAAT
1 TATTTAATTATAAT
60532552 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:60532793 original size:45 final size:44
Alignment explanation
Indices: 60532686--60532795 Score: 113
Period size: 45 Copynumber: 2.6 Consensus size: 44
60532676 GTTTCCATTA
60532686 TGCTATTACACCTCTA-TTC----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTTCATTACATTCAACCAAACACAAGAT
* * * * ***
60532725 TACTATTACGCCTATATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTTCATTACATTCAACCAAACACAAGA-T
60532770 TGCTATTACACCTCTATTTCATTACA
1 TGCTATTACACCTCTATTTCATTACA
60532796 CCTCTATTCC
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
39 13 0.24
40 2 0.04
44 16 0.30
45 23 0.43
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTTCATTACATTCAACCAAACACAAGAT
Found at i:60532795 original size:16 final size:16
Alignment explanation
Indices: 60532774--60532827 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
60532764 TTGATTTGCT
*
60532774 ATTACACCTCTATTTC
1 ATTACACCTCTATTCC
60532790 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
60532806 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
60532822 AATACA
1 ATTACA
60532828 GCAAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.28, C:0.33, G:0.02, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:60534183 original size:30 final size:31
Alignment explanation
Indices: 60534147--60534204 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
60534137 GCTCGGTGTT
* *
60534147 TTAAAT-AAAATTTTTAAATAATTTAATAAC
1 TTAAATAAAAACTTTCAAATAATTTAATAAC
*
60534177 TTAAATAAAAACTTTCAAATAGTTTAAT
1 TTAAATAAAAACTTTCAAATAATTTAAT
60534205 GACAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (31 bp):
TTAAATAAAAACTTTCAAATAATTTAATAAC
Found at i:60538462 original size:27 final size:27
Alignment explanation
Indices: 60538399--60538468 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
60538389 GTGGAGGGAC
* *
60538399 TGCCACAGGCGGCACCAATGGTGCCAG
1 TGCCACAGGCGGCACCAAAGGTGCAAG
* * * * *
60538426 TGGCAGAGGCAGCACCAAAGTTGCAAT
1 TGCCACAGGCGGCACCAAAGGTGCAAG
60538453 TGCCACAGGCGGCACC
1 TGCCACAGGCGGCACC
60538469 TCCCATTTAT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.31, G:0.31, T:0.11
Consensus pattern (27 bp):
TGCCACAGGCGGCACCAAAGGTGCAAG
Found at i:60539050 original size:161 final size:162
Alignment explanation
Indices: 60538840--60539206 Score: 564
Period size: 161 Copynumber: 2.3 Consensus size: 162
60538830 GCGGCACCCC
* * *
60538840 CTTTGTTCGTATTTTT-TTCTTTTTTTCGGATTTTATTACTTTTAAAAAATATACTATTTTTGTA
1 CTTTGTTCGTATTTTTCTTTTTTTTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTTGTA
*
60538904 TTTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAATGTATTATTGTT-GTGTG-TTTTTA
66 TTTTATTATTTTATATTATTTTAGTAAATAAAGTTTGAAATGTATTATT-TTAGTGTGTTTTTTA
* * *
60538967 T-ATAAATTTAGT-AAAAAGTCCTTATTTTGGCA
130 TAAAAAAATTAGTGAAAAA-CCCTTATTTTGGCA
* *
60538999 CTTTGTTCGTATTTTTCTATTTTTTTTTCAAATTTTATTACTTTCAAAAAATATATTATTTTTGT
1 CTTTGTTCGTATTTTTCT-TTTTTTTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTTGT
*
60539064 ATTTTATTATTTTATATTATTTTAGTAAATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTA
65 ATTTTATTATTTTATATTATTTTAGTAAATAAAGTTTGAAATGTATTATTTTAGTGTGTTTTTTA
*
60539129 TAAAAAAATTAGTGAAAAACCCTTATTTTGGCC
130 TAAAAAAATTAGTGAAAAACCCTTATTTTGGCA
60539162 CTTTGTTCGTATTTTTCTTTTTTTTTTTCAGATTTTATTACTTTC
1 CTTTGTTCGTATTTTTC-TTTTTTTTTTCAGATTTTATTACTTTC
60539207 CGTAAATTTA
Statistics
Matches: 189, Mismatches: 12, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
159 16 0.08
160 3 0.02
161 94 0.50
162 7 0.04
163 63 0.33
164 6 0.03
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.57
Consensus pattern (162 bp):
CTTTGTTCGTATTTTTCTTTTTTTTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTTGTA
TTTTATTATTTTATATTATTTTAGTAAATAAAGTTTGAAATGTATTATTTTAGTGTGTTTTTTAT
AAAAAAATTAGTGAAAAACCCTTATTTTGGCA
Found at i:60539232 original size:34 final size:32
Alignment explanation
Indices: 60539194--60539256 Score: 81
Period size: 34 Copynumber: 1.9 Consensus size: 32
60539184 TTTTTTCAGA
60539194 TTTTATTACTTTCCGTAAATTTATTGTTTTCGTT
1 TTTTATTACTTTCCGT-AATTTATT-TTTTCGTT
* * *
60539228 TTTTATTTCTTTTCGTATTTTATTTTTTC
1 TTTTATTACTTTCCGTAATTTATTTTTTC
60539257 ATAAACATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 5 0.19
33 7 0.27
34 14 0.54
ACGTcount: A:0.14, C:0.11, G:0.06, T:0.68
Consensus pattern (32 bp):
TTTTATTACTTTCCGTAATTTATTTTTTCGTT
Found at i:60539242 original size:17 final size:17
Alignment explanation
Indices: 60539193--60539252 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
60539183 TTTTTTTCAG
* *
60539193 ATTTTATTACTTTCCGT
1 ATTTTATTTCTTTTCGT
* *
60539210 AAATTTA-TTGTTTTCGT
1 -ATTTTATTTCTTTTCGT
*
60539227 TTTTTATTTCTTTTCGT
1 ATTTTATTTCTTTTCGT
60539244 ATTTTATTT
1 ATTTTATTT
60539253 TTTCATAAAC
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
16 4 0.12
17 24 0.73
18 5 0.15
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (17 bp):
ATTTTATTTCTTTTCGT
Found at i:60545138 original size:329 final size:329
Alignment explanation
Indices: 60544540--60545200 Score: 1295
Period size: 329 Copynumber: 2.0 Consensus size: 329
60544530 CTTTTTTTCT
*
60544540 ATTTGATAGTTGTTGCTTAGGAGGGCTTCATCTCTGTAGTTTTAGCTTATTAACTGTGAATTCTC
1 ATTTGATAGTTGTTGCTTAGGAGGGCTTCATCTCTGTAGTTTTAGCTTATTAACTATGAATTCTC
60544605 CTAAAGTTTATTAAATTATTACATGGAAAATTGAAGGAGCTTGGGAACTGAAATAGGGTAAAGTA
66 CTAAAGTTTATTAAATTATTACATGGAAAATTGAAGGAGCTTGGGAACTGAAATAGGGTAAAGTA
60544670 GTAAAAAATGTTTGTGCCACTTTGTTCTAGAATGAAGAGGATGATGAAACACCATTCATGGTATG
131 GTAAAAAATGTTTGTGCCACTTTGTTCTAGAATGAAGAGGATGATGAAACACCATTCATGGTATG
60544735 GACCCACTGTTATAATATGGATTTGTTTTCACCCTATAAAGTGTTTCTCTTGATCCTAAGCTTTC
196 GACCCACTGTTATAATATGGATTTGTTTTCACCCTATAAAGTGTTTCTCTTGATCCTAAGCTTTC
60544800 CTGAAGTGGTTTCTCAATTGTAGTAACAATTGAACTTACATTGGTAAATTTGAAAAGTGTATGGG
261 CTGAAGTGGTTTCTCAATTGTAGTAACAATTGAACTTACATTGGTAAATTTGAAAAGTGTATGGG
60544865 TTAA
326 TTAA
60544869 ATTTGATAGTTGTTGCTTAGGAGGGCTTCATCTCTGTAGTTTTAGCTTATTAACTATGAATTCTC
1 ATTTGATAGTTGTTGCTTAGGAGGGCTTCATCTCTGTAGTTTTAGCTTATTAACTATGAATTCTC
*
60544934 CTAAATTTTATTAAATTATTACATGGAAAATTGAAGGAGCTTGGGAACTGAAATAGGGTAAAGTA
66 CTAAAGTTTATTAAATTATTACATGGAAAATTGAAGGAGCTTGGGAACTGAAATAGGGTAAAGTA
60544999 GTAAAAAATGTTTGTGCCACTTTGTTCTAGAATGAAGAGGATGATGAAACACCATTCATGGTATG
131 GTAAAAAATGTTTGTGCCACTTTGTTCTAGAATGAAGAGGATGATGAAACACCATTCATGGTATG
*
60545064 GACCCGCTGTTATAATATGGATTTGTTTTCACCCTATAAAGTGTTTCTCTTGATCCTAAGCTTTC
196 GACCCACTGTTATAATATGGATTTGTTTTCACCCTATAAAGTGTTTCTCTTGATCCTAAGCTTTC
60545129 CTGAAGTGGTTTCTCAATTGTAGTAACAATTGAACTTACATTGGTAAATTTGAAAAGTGTATGGG
261 CTGAAGTGGTTTCTCAATTGTAGTAACAATTGAACTTACATTGGTAAATTTGAAAAGTGTATGGG
60545194 TTAA
326 TTAA
60545198 ATT
1 ATT
60545201 GTTTGAAATA
Statistics
Matches: 329, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
329 329 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.37
Consensus pattern (329 bp):
ATTTGATAGTTGTTGCTTAGGAGGGCTTCATCTCTGTAGTTTTAGCTTATTAACTATGAATTCTC
CTAAAGTTTATTAAATTATTACATGGAAAATTGAAGGAGCTTGGGAACTGAAATAGGGTAAAGTA
GTAAAAAATGTTTGTGCCACTTTGTTCTAGAATGAAGAGGATGATGAAACACCATTCATGGTATG
GACCCACTGTTATAATATGGATTTGTTTTCACCCTATAAAGTGTTTCTCTTGATCCTAAGCTTTC
CTGAAGTGGTTTCTCAATTGTAGTAACAATTGAACTTACATTGGTAAATTTGAAAAGTGTATGGG
TTAA
Found at i:60549784 original size:91 final size:92
Alignment explanation
Indices: 60549670--60549877 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 92
60549660 TTGATTTTAC
* * * *
60549670 TAAATTGATATAAGAACATTTATTATTAAGAATTTTATGAAA-TT-ATATATCACTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTAATAT-TAACTATTAAATTA
* *
60549733 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
*
60549761 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTAATATTAATTATTAAATTAT
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTAATATTAACTATTAAATTAT
60549826 ATGTAATAATTATTATTTTAAATTATA
66 ATGTAATAATTATTATTTTAAATTATA
* * * *
60549853 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
60549878 GTTATAATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
91 39 0.38
92 57 0.55
93 7 0.07
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTAATATTAACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:60549840 original size:24 final size:25
Alignment explanation
Indices: 60549805--60549852 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
60549795 TTATGAAATT
60549805 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
60549829 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
60549853 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:60550052 original size:15 final size:15
Alignment explanation
Indices: 60550017--60550059 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
60550007 TTAAGAATTT
*
60550017 TATTAAATTAT-ATA
1 TATTTAATTATAATA
60550031 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
60550045 TATTTAATAATAATA
1 TATTTAATTATAATA
60550060 ATTATGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.32
14 5 0.20
15 12 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:60550055 original size:18 final size:18
Alignment explanation
Indices: 60550026--60550070 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
60550016 TTATTAAATT
*
60550026 ATATATTT--TAATTATA
1 ATATATTTAATAATAATA
60550042 ATATATTTAATAATAATA
1 ATATATTTAATAATAATA
60550060 AT-TATGTTAAT
1 ATATAT-TTAAT
60550071 TTATATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 8 0.32
17 3 0.12
18 14 0.56
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATATATTTAATAATAATA
Found at i:60550175 original size:15 final size:15
Alignment explanation
Indices: 60550140--60550191 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
60550130 TTAAGAATTT
*
60550140 TATTAAATTAT-ATA
1 TATTTAATTATAATA
60550154 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
60550168 TATTTAATAATAAT-
1 TATTTAATTATAATA
60550182 TATGTTAATT
1 TAT-TTAATT
60550192 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:60550224 original size:120 final size:120
Alignment explanation
Indices: 60549893--60550307 Score: 685
Period size: 120 Copynumber: 3.4 Consensus size: 120
60549883 AATTATTTTA
* * *
60549893 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
* *
60549955 TTTATAGTATCATATATTATGATTGGAGTAAATTCATATAAGAATATTAATT-TTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
60550012 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATAATTATGTTAATTTATAT
1 AATTTTATTAAATTATATATTTTAATTATAATATA-TT--TAATAATAATTATGTTAATTTATAT
* *
60550077 TTTACAGTATCATATATTATTATTTGAGTAAATTCATGTAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
60550135 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
60550200 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
60550255 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
60550308 TAAATATGAT
Statistics
Matches: 280, Mismatches: 9, Indels: 13
0.93 0.03 0.04
Matches are distributed among these distances:
119 33 0.12
120 136 0.49
121 6 0.02
122 63 0.22
123 42 0.15
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:60550290 original size:16 final size:16
Alignment explanation
Indices: 60550269--60550310 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
60550259 TTATTAAATT
*
60550269 ATATATTTTAATTATA
1 ATATATTTTAATAATA
60550285 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
60550300 AT-TATGTTTAA
1 ATATAT-TTTAA
60550311 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:60550295 original size:15 final size:15
Alignment explanation
Indices: 60550260--60550301 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
60550250 TTAAGAATTT
*
60550260 TATTAAATTAT-ATA
1 TATTTAATTATAATA
60550274 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
60550288 TATTTAATAATAAT
1 TATTTAATTATAAT
60550302 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:60550441 original size:18 final size:17
Alignment explanation
Indices: 60550413--60550447 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60550403 ATTATTAAGA
*
60550413 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
60550430 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
60550448 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:60550530 original size:157 final size:157
Alignment explanation
Indices: 60550244--60550560 Score: 571
Period size: 157 Copynumber: 2.0 Consensus size: 157
60550234 ATAAGAATAT
*
60550244 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
60550309 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTGAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
60550374 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
60550401 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
60550466 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAATAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
60550531 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
60550558 TAA
1 TAA
60550561 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Done.