Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 283 of 325
Found at i:87588879 original size:30 final size:29
Alignment explanation
Indices: 87588825--87588883 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
87588815 TATTTACTTA
87588825 TCATTTTTATATATAAATTCATTTTATTT
1 TCATTTTTATATATAAATTCATTTTATTT
*
87588854 TCATTTTT-TTTATAAATTTCTATTTTATTT
1 TCATTTTTATATATAAA-TTC-ATTTTATTT
87588884 GTTTATTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 7 0.26
29 11 0.41
30 9 0.33
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (29 bp):
TCATTTTTATATATAAATTCATTTTATTT
Found at i:87589065 original size:2 final size:2
Alignment explanation
Indices: 87589060--87589104 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
87589050 TATAGATTGT
87589060 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87589102 TA T
1 TA T
87589105 TCCTTTGTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:87593851 original size:13 final size:14
Alignment explanation
Indices: 87593833--87593868 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
87593823 TTTCATTTTC
87593833 TTTTTCTTT-ATAT
1 TTTTTCTTTAATAT
87593846 TTTTTCTTTAATAT
1 TTTTTCTTTAATAT
87593860 TTTTATCTT
1 TTTT-TCTT
87593869 ATTAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.43
14 8 0.38
15 4 0.19
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTCTTTAATAT
Found at i:87595689 original size:25 final size:25
Alignment explanation
Indices: 87595654--87595726 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
87595644 CAACTCATGA
87595654 AAGCATACCGATTTACAGCTCGTG-
1 AAGCATACCGATTTACAGCTCGTGT
* *
87595678 AGAGCATACCGATCTACAGCTCGAGT
1 A-AGCATACCGATTTACAGCTCGTGT
* * *
87595704 AACCATATCGATTCACAGCTCGT
1 AAGCATACCGATTTACAGCTCGT
87595727 ATGACCATAC
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
24 1 0.03
25 38 0.95
26 1 0.03
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (25 bp):
AAGCATACCGATTTACAGCTCGTGT
Found at i:87595733 original size:25 final size:25
Alignment explanation
Indices: 87595657--87595736 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
87595647 CTCATGAAAG
* *
87595657 CATACCGATTTACAGCTCGTGA-GAG
1 CATACCGATTCACAGCTCGT-ATGAC
*
87595682 CATACCGA-TCTACAGCTCG-AGTAAC
1 CATACCGATTC-ACAGCTCGTA-TGAC
*
87595707 CATATCGATTCACAGCTCGTATGAC
1 CATACCGATTCACAGCTCGTATGAC
87595732 CATAC
1 CATAC
87595737 ATGTATAGGA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 39 0.89
26 3 0.07
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (25 bp):
CATACCGATTCACAGCTCGTATGAC
Found at i:87597168 original size:21 final size:21
Alignment explanation
Indices: 87597142--87597181 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
87597132 CTACAGTGTT
87597142 GAAAATTTTC-AATGTTTTCTG
1 GAAAATTTTCTAA-GTTTTCTG
87597163 GAAAATTTTCTAAGTTTTC
1 GAAAATTTTCTAAGTTTTC
87597182 GATTTATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
GAAAATTTTCTAAGTTTTCTG
Found at i:87613442 original size:22 final size:20
Alignment explanation
Indices: 87613404--87613448 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
87613394 TTATATAGTG
*
87613404 TATTATATATAATTTTTATA
1 TATTATATATAATTTTTAAA
*
87613424 TATTATATATATGTGTTTTAAA
1 TATTATATATA-AT-TTTTAAA
87613446 TAT
1 TAT
87613449 CATGTGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 1 0.05
22 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TATTATATATAATTTTTAAA
Found at i:87613463 original size:2 final size:2
Alignment explanation
Indices: 87613456--87613482 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
87613446 TATCATGTGT
87613456 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
87613483 TATGCATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87613464 original size:16 final size:15
Alignment explanation
Indices: 87613427--87613482 Score: 58
Period size: 16 Copynumber: 3.6 Consensus size: 15
87613417 TTTTATATAT
*
87613427 TATATATATGTGTTT
1 TATATATATGTGTTA
*
87613442 TAAATATCATGTGTTA
1 TATATAT-ATGTGTTA
* *
87613458 TATATATATATATATA
1 TATATATATGTGT-TA
87613474 TATATATAT
1 TATATATAT
87613483 TATGCATATG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 10 0.29
16 24 0.71
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (15 bp):
TATATATATGTGTTA
Found at i:87613895 original size:14 final size:14
Alignment explanation
Indices: 87613873--87613902 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
87613863 AAATACCATA
*
87613873 ATATTTATATGTAT
1 ATATATATATGTAT
87613887 ATATATATATGTAT
1 ATATATATATGTAT
87613901 AT
1 AT
87613903 TCTTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (14 bp):
ATATATATATGTAT
Found at i:87613994 original size:2 final size:2
Alignment explanation
Indices: 87613989--87614060 Score: 92
Period size: 2 Copynumber: 35.5 Consensus size: 2
87613979 ATATATGTTT
*
87613989 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
87614031 TA TA TA TC TC TA GTA TA TA TA -A GTA TA TA T
1 TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA T
87614061 TTATGTAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
1 1 0.02
2 59 0.94
3 3 0.05
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:87620420 original size:36 final size:37
Alignment explanation
Indices: 87620373--87620455 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 37
87620363 GCAGAGGATT
87620373 AATATTCTGCAACAGTC-AGGATTTTCCTCAACCAAA
1 AATATTCTGCAACAGTCAAGGATTTTCCTCAACCAAA
*
87620409 AATATTCTGCAACAGTCAGAGGATTTTCCTCAACCGAA
1 AATATTCTGCAACAGTCA-AGGATTTTCCTCAACCAAA
*
87620447 AACATTCTG
1 AATATTCTG
87620456 AAAAACAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 17 0.40
38 26 0.60
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (37 bp):
AATATTCTGCAACAGTCAAGGATTTTCCTCAACCAAA
Found at i:87623048 original size:16 final size:16
Alignment explanation
Indices: 87623024--87623054 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87623014 ACATCTACAT
87623024 TCAGCCATAGAATAAC
1 TCAGCCATAGAATAAC
*
87623040 TCAGTCATAGAATAA
1 TCAGCCATAGAATAA
87623055 TTCATCATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (16 bp):
TCAGCCATAGAATAAC
Found at i:87625890 original size:19 final size:19
Alignment explanation
Indices: 87625866--87625905 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
87625856 ATAATAACAA
* *
87625866 AAAATTTCAAAATAATTTT
1 AAAATTTAAAAATAATATT
87625885 AAAATTTAAAAATAATATT
1 AAAATTTAAAAATAATATT
87625904 AA
1 AA
87625906 TTTTAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTTAAAAATAATATT
Found at i:87627285 original size:115 final size:115
Alignment explanation
Indices: 87626894--87627298 Score: 605
Period size: 115 Copynumber: 3.5 Consensus size: 115
87626884 CATTCAGAAA
* * * * *
87626894 ACTTCAAATAAAAAAATATGATATTCTAAACCAGAACCAGTCTGGGTATTAAAAAATTAAATCTC
1 ACTTCAAAT-AAAAAATATGATAATCTAAACCAGAACCAGTCCGGATATGAAAAAATTAAATCCC
* * *
87626959 AAAAATTCTAAACATGGAAGCGCCTAAGCTTAACAAATCCAAATCCAAGAA
65 AAAAATTCTAAACACGAAAGCGCCTAAGCTTAACAAATCCAAATCCAAGAT
* * *
87627010 ACTTCAAATAAGAAGTATGATAATCTAAACCAGACCCAGTCCGGATATG-AAAAATTAAATCCCA
1 ACTTCAAATAAAAAATATGATAATCTAAACCAGAACCAGTCCGGATATGAAAAAATTAAATCCCA
*
87627074 AAAATTCTAAATACGAAAGCGCCTAAGCTTAACAAATCCAAATCCAAGAT
66 AAAATTCTAAACACGAAAGCGCCTAAGCTTAACAAATCCAAATCCAAGAT
* *
87627124 ACTTCAAATAAAAAATTTGATAATCTAAACCAGACCCAGTCCGGATATGAAAAAATTAAATCCCA
1 ACTTCAAATAAAAAATATGATAATCTAAACCAGAACCAGTCCGGATATGAAAAAATTAAATCCCA
*
87627189 AAAATTCTAAACACGAAAGCGCCTAAGCTTAACAAATCCAAATCCTAGAT
66 AAAATTCTAAACACGAAAGCGCCTAAGCTTAACAAATCCAAATCCAAGAT
* * * *
87627239 ACTCCAAATAAAAAATATGATAATCTAAACCAGAATCAATCTGGATATGATAAACAATTA
1 ACTTCAAATAAAAAATATGATAATCTAAACCAGAACCAGTCCGGATATGA-AAA-AATTA
87627299 TGATAATCTA
Statistics
Matches: 263, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
114 106 0.40
115 140 0.53
116 12 0.05
117 5 0.02
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (115 bp):
ACTTCAAATAAAAAATATGATAATCTAAACCAGAACCAGTCCGGATATGAAAAAATTAAATCCCA
AAAATTCTAAACACGAAAGCGCCTAAGCTTAACAAATCCAAATCCAAGAT
Found at i:87630330 original size:9 final size:9
Alignment explanation
Indices: 87630316--87630401 Score: 102
Period size: 9 Copynumber: 9.6 Consensus size: 9
87630306 ATAAGTATAA
87630316 AATTAACCG
1 AATTAACCG
87630325 AATTAACCG
1 AATTAACCG
*
87630334 AATTAATCG
1 AATTAACCG
87630343 AATTAACCG
1 AATTAACCG
*
87630352 AATT-ACCTA
1 AATTAACC-G
* *
87630361 AATTATCCA
1 AATTAACCG
87630370 AATTAACCG
1 AATTAACCG
*
87630379 AATTAACCA
1 AATTAACCG
*
87630388 AATTAACGG
1 AATTAACCG
87630397 AATTA
1 AATTA
87630402 TTTGTAAAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
8 3 0.05
9 61 0.92
10 2 0.03
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:87630436 original size:5 final size:6
Alignment explanation
Indices: 87630421--87630461 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
87630411 AAGTATATGT
*
87630421 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
87630462 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:87631994 original size:16 final size:17
Alignment explanation
Indices: 87631962--87631994 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
87631952 TATATATGTA
87631962 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
87631979 TAATAATTAT-TAAAAT
1 TAATAAATATATAAAAT
87631995 CTATAAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:87632320 original size:17 final size:17
Alignment explanation
Indices: 87632298--87632330 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
87632288 AACTAGTATA
87632298 ATAATAATTAATATATG
1 ATAATAATTAATATATG
87632315 ATAATAATTAATATAT
1 ATAATAATTAATATAT
87632331 TATGTACTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
ATAATAATTAATATATG
Found at i:87632516 original size:22 final size:22
Alignment explanation
Indices: 87632472--87632534 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
87632462 TGTTTCCTTG
* *
87632472 TATAATTACATAATGA-TA-TA
1 TATAATTACATATTTATTATTA
*
87632492 TATAAATTATATATTT-TTATTA
1 TAT-AATTACATATTTATTATTA
87632514 TATAATTACATATTTATTATT
1 TATAATTACATATTTATTATT
87632535 TTATTTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 3 0.09
21 22 0.63
22 10 0.29
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (22 bp):
TATAATTACATATTTATTATTA
Found at i:87632788 original size:21 final size:23
Alignment explanation
Indices: 87632750--87632812 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 23
87632740 TGAATTGAAA
* * *
87632750 ATATAATATATTTTATAAGTATT
1 ATATTATATATATAATAAGTATT
*
87632773 A-A-TATATATATAATAATTATT
1 ATATTATATATATAATAAGTATT
*
87632794 ATATTATAGATTATAATAA
1 ATATTATATA-TATAATAA
87632813 AAATATAACA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 16 0.50
22 2 0.06
23 6 0.19
24 8 0.25
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (23 bp):
ATATTATATATATAATAAGTATT
Found at i:87633531 original size:19 final size:18
Alignment explanation
Indices: 87633490--87633550 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 18
87633480 ATTTAAATCT
* *
87633490 AAAACTATAAAAAGTTTA
1 AAAATTATAAAAAATTTA
*
87633508 GAAATTATAAAAAATATTA
1 AAAATTATAAAAAAT-TTA
*
87633527 AAAATTATTTAAAAATTATA
1 AAAATTA-TAAAAAATT-TA
87633547 AAAA
1 AAAA
87633551 AAATTCAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 12 0.34
19 10 0.29
20 13 0.37
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAATTATAAAAAATTTA
Found at i:87633548 original size:9 final size:9
Alignment explanation
Indices: 87633490--87633550 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
87633480 ATTTAAATCT
*
87633490 AAAACTATA
1 AAAATTATA
87633499 AAAAGTT-TA
1 AAAA-TTATA
*
87633508 GAAATTATA
1 AAAATTATA
*
87633517 AAAAATATTA
1 AAAATTA-TA
87633527 AAAATTATTTA
1 AAAATTA--TA
87633538 AAAATTATA
1 AAAATTATA
87633547 AAAA
1 AAAA
87633551 AAATTCAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
8 2 0.05
9 22 0.51
10 9 0.21
11 10 0.23
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAATTATA
Found at i:87633552 original size:11 final size:10
Alignment explanation
Indices: 87633509--87633551 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
87633499 AAAAGTTTAG
87633509 AAATTATAAA
1 AAATTATAAA
*
87633519 AAA-TATTAA
1 AAATTATAAA
*
87633528 AAATTATTTAA
1 AAATTA-TAAA
87633539 AAATTATAAA
1 AAATTATAAA
87633549 AAA
1 AAA
87633552 AATTCAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 8 0.28
10 11 0.38
11 10 0.34
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATTATAAA
Found at i:87634531 original size:14 final size:14
Alignment explanation
Indices: 87634512--87634551 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
87634502 AGGCCCACCC
87634512 ATATTAATTTTTTT
1 ATATTAATTTTTTT
87634526 ATATT-ATTATTTTT
1 ATATTAATT-TTTTT
87634540 ATA-TAATTTTTT
1 ATATTAATTTTTT
87634552 AAAATATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATATTAATTTTTTT
Found at i:87641547 original size:42 final size:42
Alignment explanation
Indices: 87641468--87641547 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
87641458 ATTTTTTGGA
*
87641468 AAATAATATCTTTAAACTTATGTCAAGACATGCATAAAGCAC
1 AAATAATATCTTTAAACTTATGTCAAGAAATGCATAAAGCAC
* * * *
87641510 AAATATTATCTTTAAGCTTATGTCAATAAATGTATAAA
1 AAATAATATCTTTAAACTTATGTCAAGAAATGCATAAA
87641548 AACAAAAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (42 bp):
AAATAATATCTTTAAACTTATGTCAAGAAATGCATAAAGCAC
Found at i:87643543 original size:24 final size:24
Alignment explanation
Indices: 87643511--87643567 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
87643501 CCAATATGAG
87643511 AATAGTTATCAAATTCATGCCTCA
1 AATAGTTATCAAATTCATGCCTCA
*
87643535 AATAGTTATCAAATTCATGTCTCA
1 AATAGTTATCAAATTCATGCCTCA
87643559 AATAGTTAT
1 AATAGTTAT
87643568 TTAACCCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (24 bp):
AATAGTTATCAAATTCATGCCTCA
Found at i:87645068 original size:35 final size:35
Alignment explanation
Indices: 87645022--87645127 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
87645012 CACTTGCCTC
87645022 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
87645057 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
87645092 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
87645127 T
1 T
87645128 CACACACCCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.16, C:0.49, G:0.12, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:87645564 original size:33 final size:33
Alignment explanation
Indices: 87645527--87645601 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
87645517 AGAGGGGAAG
*
87645527 CAAAAAAAAAAATCCAGCAAAAAA-TTCCAGCA
1 CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
**
87645559 CCAAAAAAAAATTTCCAGAAAAAAATTTCCAGCA
1 -CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
87645593 -AAAAAAAAA
1 CAAAAAAAAA
87645602 CCAAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 9 0.24
33 21 0.55
34 8 0.21
ACGTcount: A:0.64, C:0.19, G:0.05, T:0.12
Consensus pattern (33 bp):
CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
Found at i:87645883 original size:11 final size:11
Alignment explanation
Indices: 87645858--87645906 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
87645848 CGACCGGATT
*
87645858 TCCCTTC-CCC
1 TCCCTTCTCTC
87645868 TCCCTTCTCTC
1 TCCCTTCTCTC
87645879 TCCCTTCTCTC
1 TCCCTTCTCTC
87645890 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
87645901 TTCCTT
1 TCCCTT
87645907 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 10 0.29
11 20 0.59
12 4 0.12
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:87646648 original size:2 final size:2
Alignment explanation
Indices: 87646631--87646671 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
87646621 GTGTATATTT
* *
87646631 TA TA TA CA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87646672 TTGCACATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:87655933 original size:134 final size:137
Alignment explanation
Indices: 87655692--87655975 Score: 511
Period size: 134 Copynumber: 2.1 Consensus size: 137
87655682 GAGTAGTCTC
87655692 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
87655757 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCT-TGG-CCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
87655820 ACTGTTA
131 ACTGTTA
*
87655827 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
87655891 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
87655956 ACTGTTA
131 ACTGTTA
**
87655963 CCTGAATGGGCTT
1 CCCAAATGGGCTT
87655976 AGGCCCAATA
Statistics
Matches: 143, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
134 95 0.66
135 23 0.16
136 25 0.17
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:87659684 original size:26 final size:26
Alignment explanation
Indices: 87659655--87659764 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
87659645 TGATACAAAT
87659655 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
87659681 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87659707 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87659733 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87659759 TGATAA
1 TGATAA
87659765 GAATTTCATG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87661790 original size:136 final size:137
Alignment explanation
Indices: 87661545--87661830 Score: 502
Period size: 136 Copynumber: 2.1 Consensus size: 137
87661535 GAGTAGTCTC
87661545 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * *
87661610 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
*
87661675 ACTGTTA
131 ACTATTA
*
87661682 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
87661746 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
87661811 ACTATTA
131 ACTATTA
**
87661818 CCTGAATGGGCTT
1 CCCAAATGGGCTT
87661831 AGGCCCAATA
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 122 0.86
137 20 0.14
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
ACTATTA
Found at i:87662649 original size:9 final size:9
Alignment explanation
Indices: 87662637--87662862 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
87662627 TATTTGATAT
*
87662637 CATAATTTA
1 CATAACTTA
87662646 CATAACTTA
1 CATAACTTA
* *
87662655 TATAACATA
1 CATAACTTA
*
87662664 TATAACTTA
1 CATAACTTA
87662673 CATAACTTA
1 CATAACTTA
* *
87662682 TATAACCTA
1 CATAACTTA
87662691 CATAACTTA
1 CATAACTTA
*
87662700 TATAACTTA
1 CATAACTTA
*
87662709 TATAACTTA
1 CATAACTTA
* *
87662718 GATAA-ATA
1 CATAACTTA
*
87662726 TATAACTTA
1 CATAACTTA
87662735 CATAACTTA
1 CATAACTTA
87662744 CATAATGCTTA
1 CATAA--CTTA
* *
87662755 AATATATTTTATA
1 CATA-A--CT-TA
*
87662768 TCATAATTTA
1 -CATAACTTA
87662778 CATAACTTA
1 CATAACTTA
87662787 CATAACTTA
1 CATAACTTA
*
87662796 TATAACTTA
1 CATAACTTA
* *
87662805 GATAA-ATA
1 CATAACTTA
* *
87662813 TATAATTTA
1 CATAACTTA
*
87662822 CATAA-ATA
1 CATAACTTA
* * *
87662830 TATATCATA
1 CATAACTTA
*
87662839 TCATAAATTA
1 -CATAACTTA
87662849 CATAACTTA
1 CATAACTTA
87662858 CATAA
1 CATAA
87662863 TACTTAAATA
Statistics
Matches: 174, Mismatches: 34, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
8 17 0.10
9 132 0.76
10 7 0.04
11 9 0.05
12 3 0.02
13 3 0.02
14 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:87662659 original size:18 final size:18
Alignment explanation
Indices: 87662637--87662862 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
87662627 TATTTGATAT
* *
87662637 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
87662655 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
87662673 CATAACTTATATAACCTA
1 CATAACTTATATAACTTA
87662691 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
87662709 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
87662726 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
87662744 CATAATGCTTAAATATATTTTATA
1 CATAA--CTT--ATATA-ACT-TA
* *
87662768 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
87662787 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
87662805 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
87662822 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
87662839 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
87662858 CATAA
1 CATAA
87662863 TACTTAAATA
Statistics
Matches: 164, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
17 38 0.23
18 94 0.57
19 10 0.06
20 4 0.02
21 4 0.02
22 4 0.02
23 3 0.02
24 2 0.01
25 5 0.03
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:87662850 original size:114 final size:114
Alignment explanation
Indices: 87662665--87662886 Score: 304
Period size: 114 Copynumber: 1.9 Consensus size: 114
87662655 TATAACATAT
* * *
87662665 ATAACTTACATAACTTATATAACCTACATAACTTATATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTATATAACCTACATAACATATATAACTTACATAAATTAGATAAATATATA
* * * *
87662730 ACTTACATAACTTACATAATGCTTAAATATATTTTATATCATAATTTAC
66 AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * * *
87662779 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTATATAACCTACATAACATATATAACTTACATAAATTAGATA-AATAT-A
87662842 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
64 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
87662887 CATAACTAGT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
112 5 0.05
113 18 0.19
114 71 0.76
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTATATAACCTACATAACATATATAACTTACATAAATTAGATAAATATATA
AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:87668537 original size:21 final size:21
Alignment explanation
Indices: 87668504--87668554 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
87668494 ACAACTTAGA
*
87668504 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
87668525 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
87668546 GCAGAGGCA
1 GCAGAGGCA
87668555 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:87668855 original size:32 final size:33
Alignment explanation
Indices: 87668792--87668855 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
87668782 TTAGAATTAA
* *
87668792 TATTTTTGGTTGTATTTTTTATGTTAAATTTGC
1 TATTTTTGGCTGTATTTTTTATATTAAATTTGC
*
87668825 TATTTTTGGCTGTA-TTTTTATATTATATTTG
1 TATTTTTGGCTGTATTTTTTATATTAAATTTG
87668856 TTGTATTTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.19, C:0.03, G:0.14, T:0.64
Consensus pattern (33 bp):
TATTTTTGGCTGTATTTTTTATATTAAATTTGC
Found at i:87668865 original size:32 final size:32
Alignment explanation
Indices: 87668796--87668874 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
87668786 AATTAATATT
* *
87668796 TTTGGTTGTATTTTTTATGTTAAATTTGCTATT
1 TTTGGTTGTA-TTTTTATATTAAATTTGCTATA
* * * *
87668829 TTTGGCTGTATTTTTATATTATATTTGTTGTA
1 TTTGGTTGTATTTTTATATTAAATTTGCTATA
*
87668861 TTTGGTTGGATTTT
1 TTTGGTTGTATTTT
87668875 AATGCAGGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 29 0.76
33 9 0.24
ACGTcount: A:0.16, C:0.03, G:0.18, T:0.63
Consensus pattern (32 bp):
TTTGGTTGTATTTTTATATTAAATTTGCTATA
Found at i:87669017 original size:43 final size:43
Alignment explanation
Indices: 87668948--87669233 Score: 420
Period size: 43 Copynumber: 6.7 Consensus size: 43
87668938 TGTAAAAAAG
* **
87668948 CGCCGCTAAAA-CCTTGACGTTTAGCGGCGCTTTACATACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
*
87668990 CGCCG-TAAAAAGACTTGACCTTTAGCGGCGCTTTTA-CCACAAA
1 CGCCGCT-AAAAGCCTTGACCTTTAGCGGCGC-TTTACCCACAAA
* * *
87669033 CGCCACTAAAAGACTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
*
87669076 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
*
87669119 CGCCGCTAAAAGCCTTGACC-TTAGCGGCGCTTTTA-CCAGAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGC-TTTACCCACAAA
*
87669161 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
87669204 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG
87669234 TTTTTTTCCA
Statistics
Matches: 224, Mismatches: 12, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
41 1 0.00
42 51 0.23
43 167 0.75
44 5 0.02
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.23
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
Found at i:87669178 original size:128 final size:129
Alignment explanation
Indices: 87668948--87669238 Score: 471
Period size: 128 Copynumber: 2.3 Consensus size: 129
87668938 TGTAAAAAAG
* * *
87668948 CGCCGCTAAAA-CCTTGACGTTTAGCGGCGCTTTACATACAAACGCCGTAAAAAGACTTGACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCACACAAACGCCGTAAAAAGACTTGACCTT
87669012 TAGCGGCGCTTTTACCACAAACGCCACTAAAAGACTTGACCTTTAGCGGCGCTTTTCCCACAAA
66 TAGCGGCGCTTTTACCACAAACGCCACTAAAAGACTTGACCTTTAGCGGCGCTTTTCCCACAAA
* *
87669076 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCT-AAAAGCCTTGACC-
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCACACAAACGCCG-TAAAAAGACTTGACCT
* * *
87669139 TTAGCGGCGCTTTTACCAGAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
65 TTAGCGGCGCTTTTACCACAAACGCCACTAAAAGACTTGACCTTTAGCGGCGCTTTTCCCACAAA
*
87669204 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
87669239 TTCCAATAAA
Statistics
Matches: 152, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
128 107 0.70
129 44 0.29
130 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (129 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCACACAAACGCCGTAAAAAGACTTGACCTT
TAGCGGCGCTTTTACCACAAACGCCACTAAAAGACTTGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:87669192 original size:85 final size:86
Alignment explanation
Indices: 87668948--87669238 Score: 455
Period size: 85 Copynumber: 3.4 Consensus size: 86
87668938 TGTAAAAAAG
* * *
87668948 CGCCGCTAAAA-CCTTGACGTTTAGCGGCGC-TTTACATACAAACGCCG-TAAAAAGACTTGACC
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTAC-CACAAACGCCGCT-AAAAGCCTTGACC
*
87669010 TTTAGCGGCGCTTTTACCACAAA
64 TTTAGCGGCGCTTTTCCCACAAA
* * *
87669033 CGCCACTAAAAGACTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
87669098 TAGCGGCGCTTTTCCCACAAA
66 TAGCGGCGCTTTTCCCACAAA
*
87669119 CGCCGCTAAAAGCCTTGACC-TTAGCGGCGCTTTTACCAGAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
87669183 TAGCGGCGCTTTTCCCACAAA
66 TAGCGGCGCTTTTCCCACAAA
*
87669204 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
87669239 TTCCAATAAA
Statistics
Matches: 190, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
85 93 0.49
86 92 0.48
87 5 0.03
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (86 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
TAGCGGCGCTTTTCCCACAAA
Found at i:87672066 original size:2 final size:2
Alignment explanation
Indices: 87672059--87672095 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
87672049 TGAAAATCTA
87672059 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
87672096 GCCAAGATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:87672274 original size:15 final size:15
Alignment explanation
Indices: 87672252--87672284 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
87672242 AATTTGATTT
*
87672252 TTAAAATTTATA-TA
1 TTAAAAATTATACTA
87672266 TTAAAAATTATACTA
1 TTAAAAATTATACTA
87672281 TTAA
1 TTAA
87672285 GTTAAAAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAAAATTATACTA
Found at i:87673913 original size:6 final size:6
Alignment explanation
Indices: 87673904--87673945 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
87673894 GCGATGGGCA
87673904 TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG
1 TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG
87673946 AGTAGGATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.00, G:0.67, T:0.17
Consensus pattern (6 bp):
TGGGAG
Found at i:87680181 original size:41 final size:41
Alignment explanation
Indices: 87680131--87680213 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
87680121 GTGTTGGAGG
*
87680131 TATGTTAAATAAGTTCTGACAAGTATAATAATGTGTTATGA
1 TATGTTAAATAAGTTCCGACAAGTATAATAATGTGTTATGA
87680172 TATGTTAAATAAGTTCCGACAAGTATAATAATGTGTTATGA
1 TATGTTAAATAAGTTCCGACAAGTATAATAATGTGTTATGA
87680213 T
1 T
87680214 TTGCTATAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (41 bp):
TATGTTAAATAAGTTCCGACAAGTATAATAATGTGTTATGA
Found at i:87681391 original size:18 final size:18
Alignment explanation
Indices: 87681368--87681417 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
87681358 TGGCCAGTCT
*
87681368 GTATGGGCCCACACGCTC
1 GTATGGGCCCACACGCCC
* *
87681386 GTATGGGCCTACACACCC
1 GTATGGGCCCACACGCCC
*
87681404 GTGT-GGCCCACACG
1 GTATGGGCCCACACG
87681418 ATCCAAATTG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.18, C:0.38, G:0.28, T:0.16
Consensus pattern (18 bp):
GTATGGGCCCACACGCCC
Found at i:87688247 original size:19 final size:21
Alignment explanation
Indices: 87688209--87688248 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
87688199 AACTCTAATG
*
87688209 TTGCAACATTACAGGCCTGTA
1 TTGCAACATTACACGCCTGTA
87688230 TTGCAACA-TA-ACGCCTGTA
1 TTGCAACATTACACGCCTGTA
87688249 CAGCCCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 2 0.11
21 8 0.44
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (21 bp):
TTGCAACATTACACGCCTGTA
Found at i:87690766 original size:15 final size:15
Alignment explanation
Indices: 87690746--87690775 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87690736 AATTATAAGT
*
87690746 ACATACTCTCAACTA
1 ACATACACTCAACTA
87690761 ACATACACTCAACTA
1 ACATACACTCAACTA
87690776 TCAAAGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.23
Consensus pattern (15 bp):
ACATACACTCAACTA
Found at i:87696691 original size:18 final size:18
Alignment explanation
Indices: 87696655--87696690 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
87696645 ACTAAATTTG
87696655 TCATTATACCCTTTTTTT
1 TCATTATACCCTTTTTTT
87696673 TCATTATA-CCTTTTTTT
1 TCATTATACCCTTTTTTT
87696690 T
1 T
87696691 TAACTACCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (18 bp):
TCATTATACCCTTTTTTT
Found at i:87696883 original size:20 final size:19
Alignment explanation
Indices: 87696841--87696907 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
87696831 TATTTAAAAA
* *
87696841 TAAAAATACATAAATAGTTT
1 TAAAAATACATAAA-AATAT
87696861 TAAAAATACATAAAAACTAT
1 TAAAAATACATAAAAA-TAT
*
87696881 TAAAAAAACCA-AAAAATAT
1 TAAAAATA-CATAAAAATAT
87696900 TAAAAATA
1 TAAAAATA
87696908 TTTTTTTCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 11 0.27
20 28 0.68
21 2 0.05
ACGTcount: A:0.66, C:0.07, G:0.01, T:0.25
Consensus pattern (19 bp):
TAAAAATACATAAAAATAT
Found at i:87700783 original size:19 final size:18
Alignment explanation
Indices: 87700711--87700783 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 18
87700701 GATGAAAACC
87700711 ATTAATTAAATTAATTATA-
1 ATTAA-TAAATTAATTA-AG
*
87700730 ATTAATATATATTATTTAAG
1 ATTAATA-A-ATTAATTAAG
87700750 -TTAAT-AATTAATTAAG
1 ATTAATAAATTAATTAAG
87700766 ATTAACTAAATTAATTAA
1 ATTAA-TAAATTAATTAA
87700784 ACTTTAAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
16 9 0.20
17 5 0.11
18 3 0.07
19 22 0.48
20 7 0.15
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (18 bp):
ATTAATAAATTAATTAAG
Found at i:87708688 original size:39 final size:39
Alignment explanation
Indices: 87708641--87708861 Score: 309
Period size: 39 Copynumber: 5.6 Consensus size: 39
87708631 AATGTTCGAG
87708641 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
87708680 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
87708719 TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
87708757 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
87708796 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
87708836 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
87708862 GTTTGAACGA
Statistics
Matches: 164, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
38 38 0.23
39 88 0.54
40 38 0.23
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:87708778 original size:77 final size:78
Alignment explanation
Indices: 87708641--87708861 Score: 309
Period size: 77 Copynumber: 2.8 Consensus size: 78
87708631 AATGTTCGAG
87708641 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
* *
87708706 ATTGGGCGAGTTA
66 ATTGGGCAAATTA
87708719 TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
* *
87708783 ATTGTGCAAATTG
66 ATTGGGCAAATTA
* ** * ** * *
87708796 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
87708861 C
64 C
87708862 GTTTGAACGA
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
77 58 0.45
78 42 0.33
79 19 0.15
80 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
ATTGGGCAAATTA
Found at i:87716159 original size:39 final size:39
Alignment explanation
Indices: 87716112--87716294 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
87716102 AATGTTCGAG
87716112 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
87716151 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
87716190 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
87716229 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
87716269 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
87716295 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:87721508 original size:17 final size:17
Alignment explanation
Indices: 87721486--87721520 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
87721476 CCCAACAAGG
87721486 TAAACCCCACTTAATGT
1 TAAACCCCACTTAATGT
87721503 TAAACCCCACTTAATGT
1 TAAACCCCACTTAATGT
87721520 T
1 T
87721521 CTTACTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.29, G:0.06, T:0.31
Consensus pattern (17 bp):
TAAACCCCACTTAATGT
Found at i:87727466 original size:40 final size:40
Alignment explanation
Indices: 87727388--87727466 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
87727378 ACACACCATG
* *
87727388 TGGGGATAAAATCGACCCACCCAGCCCTACAAATCAAGTA
1 TGGGGATAAAATCAACCCACCCAGCCCTACAAACCAAGTA
* *
87727428 TGGGGATAAAATCAACCCATCCAGCCCTACACACCAAGT
1 TGGGGATAAAATCAACCCACCCAGCCCTACAAACCAAGT
87727467 GGTACTGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.37, C:0.32, G:0.16, T:0.15
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCCAGCCCTACAAACCAAGTA
Found at i:87733737 original size:40 final size:40
Alignment explanation
Indices: 87733682--87733760 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
87733672 AAATACCATG
*
87733682 TGGGGATAAAATCGACCCACCCAATCCTACACACCAAGTA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCAAGTA
* *
87733722 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAGT
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCAAGT
87733761 GGTAATGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.33, G:0.16, T:0.15
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAACCCTACACACCAAGTA
Found at i:87740828 original size:40 final size:40
Alignment explanation
Indices: 87740750--87740828 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
87740740 ACATACCATG
*
87740750 TGGGGATAAAATCGACCCACCCAGCCCTACAAATCAAGTA
1 TGGGGATAAAATCGACCCACCCAGCCCTACAAACCAAGTA
* * *
87740790 TGGGGATAAAATTGACCCATCCAGCCCTACACACCAAGT
1 TGGGGATAAAATCGACCCACCCAGCCCTACAAACCAAGT
87740829 GGTACTGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.30, G:0.18, T:0.16
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAGCCCTACAAACCAAGTA
Found at i:87744732 original size:3 final size:3
Alignment explanation
Indices: 87744724--87744752 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
87744714 ATTTACTCAA
87744724 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
87744753 AAAGAATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:87746858 original size:18 final size:17
Alignment explanation
Indices: 87746831--87746867 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
87746821 GTTTAGAATA
87746831 TTTTTATATTATGTAAT
1 TTTTTATATTATGTAAT
87746848 TTTTATATATTATGTAAT
1 TTTT-TATATTATGTAAT
87746866 TT
1 TT
87746868 ATACCACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (17 bp):
TTTTTATATTATGTAAT
Found at i:87763620 original size:2 final size:2
Alignment explanation
Indices: 87763613--87763675 Score: 112
Period size: 2 Copynumber: 32.5 Consensus size: 2
87763603 TGGCAGCACC
87763613 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87763653 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
87763676 TTATTTGGTG
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 57 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:87764120 original size:38 final size:38
Alignment explanation
Indices: 87764077--87764149 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
87764067 ATGCAGCACA
87764077 AACTATTTTAAATATATACTTAAAAAAATTAAAATCAC
1 AACTATTTTAAATATATACTTAAAAAAATTAAAATCAC
87764115 AACTATTTTAAATATATACTTAAAAAAATTAAAAT
1 AACTATTTTAAATATATACTTAAAAAAATTAAAAT
87764150 TATTTTTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (38 bp):
AACTATTTTAAATATATACTTAAAAAAATTAAAATCAC
Found at i:87765231 original size:20 final size:20
Alignment explanation
Indices: 87765206--87765246 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
87765196 AAAATAAAAA
*
87765206 TAAAAATACATAAATAAATTT
1 TAAAAA-ACAAAAATAAATTT
*
87765227 TAAAAAATAAAAATAAATTT
1 TAAAAAACAAAAATAAATTT
87765247 ATATTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAAACAAAAATAAATTT
Found at i:87771691 original size:17 final size:18
Alignment explanation
Indices: 87771671--87771706 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
87771661 ATTCTTTCAC
87771671 TATC-TAAATATGTTCTA
1 TATCTTAAATATGTTCTA
87771688 TATCTTTAAATATGTTCTA
1 TATC-TTAAATATGTTCTA
87771707 ACTCATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
19 13 0.76
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (18 bp):
TATCTTAAATATGTTCTA
Found at i:87772574 original size:14 final size:14
Alignment explanation
Indices: 87772555--87772584 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
87772545 CCTTTTTTGG
87772555 AAAAAAAACCAAGA
1 AAAAAAAACCAAGA
*
87772569 AAAAAAAACGAAGA
1 AAAAAAAACCAAGA
87772583 AA
1 AA
87772585 GACCTTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.10, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAACCAAGA
Found at i:87775634 original size:2 final size:2
Alignment explanation
Indices: 87775627--87775657 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
87775617 TACCCTTTTA
*
87775627 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
87775658 GATAAAATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:87777821 original size:15 final size:15
Alignment explanation
Indices: 87777803--87777832 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87777793 TACACCTAAA
*
87777803 TTTATGTTAATTAGC
1 TTTAGGTTAATTAGC
87777818 TTTAGGTTAATTAGC
1 TTTAGGTTAATTAGC
87777833 ACTAAATAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.50
Consensus pattern (15 bp):
TTTAGGTTAATTAGC
Found at i:87779174 original size:22 final size:22
Alignment explanation
Indices: 87779149--87779190 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
87779139 ATTTTAAAAA
*
87779149 TATTTAATTTCTTAACATTTAC
1 TATTTAATTTCTTAAAATTTAC
* *
87779171 TATTTTATTTTTTAAAATTT
1 TATTTAATTTCTTAAAATTT
87779191 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTAATTTCTTAAAATTTAC
Found at i:87785878 original size:18 final size:18
Alignment explanation
Indices: 87785855--87785890 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
87785845 AAACCTAAAA
87785855 GAAGCCACATAATGACAT
1 GAAGCCACATAATGACAT
87785873 GAAGCCACATAATGACAT
1 GAAGCCACATAATGACAT
87785891 AACACATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (18 bp):
GAAGCCACATAATGACAT
Found at i:87788439 original size:63 final size:63
Alignment explanation
Indices: 87788304--87788456 Score: 171
Period size: 63 Copynumber: 2.4 Consensus size: 63
87788294 CGTGTGGTTA
* * * * * * *
87788304 CAAACAGTGTGTCACACGGCCTGGACACATGCCTATGTCTTTGGCTCATGTGGTCTAAAAACG
1 CAAACAGTGAGTCACACGGCCTGGACACACGCCTATGACCTTGGCCCATATGGTCCAAAAACG
* * * ***
87788367 CAAATAGTGAGTCACACGGCCTGGACACACGTCTATGACCTTGGCCCATATGGTCCATAGGGG
1 CAAACAGTGAGTCACACGGCCTGGACACACGCCTATGACCTTGGCCCATATGGTCCAAAAACG
* *
87788430 TAAACAGTGAGTCACACGGCCTAGACA
1 CAAACAGTGAGTCACACGGCCTGGACA
87788457 TATGCCCGTG
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 74 1.00
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (63 bp):
CAAACAGTGAGTCACACGGCCTGGACACACGCCTATGACCTTGGCCCATATGGTCCAAAAACG
Found at i:87789058 original size:11 final size:10
Alignment explanation
Indices: 87789040--87789099 Score: 54
Period size: 11 Copynumber: 6.0 Consensus size: 10
87789030 AAATCAGAAC
87789040 AAAA-AAAGA
1 AAAAGAAAGA
87789049 AGAAAGAAAGA
1 A-AAAGAAAGA
87789060 AAAAGAAAAGA
1 AAAAG-AAAGA
*
87789071 AAAA-AAA-T
1 AAAAGAAAGA
87789079 AAAAGAAAAGA
1 AAAAG-AAAGA
*
87789090 AAAGGAAAGA
1 AAAAGAAAGA
87789100 CCATTAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
8 4 0.10
9 4 0.10
10 15 0.36
11 19 0.45
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:87789070 original size:5 final size:5
Alignment explanation
Indices: 87789051--87789099 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
87789041 AAAAAAGAAG
* *
87789051 AAAG- AAAGAA AAAGA AAAGA AAA-A AAATA AAAGA AAAGA AAAGG AAAGA
1 AAAGA AAAG-A AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
87789100 CCATTAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
4 8 0.21
5 27 0.69
6 4 0.10
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:87790061 original size:17 final size:17
Alignment explanation
Indices: 87790024--87790063 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
87790014 TAGGTAGTAG
87790024 AAGAAAAAGAAGAGAGA
1 AAGAAAAAGAAGAGAGA
*
87790041 AAGAAGAAGAAGAG-GA
1 AAGAAAAAGAAGAGAGA
87790057 TAAGAAA
1 -AAGAAA
87790064 TTAAGATGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.03
Consensus pattern (17 bp):
AAGAAAAAGAAGAGAGA
Found at i:87791915 original size:15 final size:15
Alignment explanation
Indices: 87791895--87791925 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
87791885 TGCAGTTTGA
87791895 GGGCTACTAAAAGTG
1 GGGCTACTAAAAGTG
87791910 GGGCTACTAAAAGTG
1 GGGCTACTAAAAGTG
87791925 G
1 G
87791926 AAAGAGAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.19
Consensus pattern (15 bp):
GGGCTACTAAAAGTG
Found at i:87792381 original size:5 final size:5
Alignment explanation
Indices: 87792371--87792400 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
87792361 TCAAATGTAG
87792371 ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT
87792401 CATGTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:87796221 original size:27 final size:27
Alignment explanation
Indices: 87796151--87796224 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
87796141 TTAAACATGG
* * *
87796151 GGTAGTTCGCTAGGACAACAAACACAG
1 GGTAGTTCACTAGGACAATAAACACAA
** *
87796178 GGTAG-TCTGTCAAGACAATAAACACAA
1 GGTAGTTCACT-AGGACAATAAACACAA
87796205 GGTAGTTCACTAGGACAATA
1 GGTAGTTCACTAGGACAATA
87796225 GATATGGGGT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.08
27 31 0.84
28 3 0.08
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (27 bp):
GGTAGTTCACTAGGACAATAAACACAA
Found at i:87796321 original size:27 final size:27
Alignment explanation
Indices: 87796282--87796333 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
87796272 GATAATAAAA
* * * *
87796282 ATGGTGTATTTCGTTGGGGTAGTAATC
1 ATGGGGTAGTTCGTTGAGATAGTAATC
87796309 ATGGGGTAGTTCGTTGAGATAGTAA
1 ATGGGGTAGTTCGTTGAGATAGTAA
87796334 AAATATGGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.23, C:0.06, G:0.35, T:0.37
Consensus pattern (27 bp):
ATGGGGTAGTTCGTTGAGATAGTAATC
Found at i:87796386 original size:27 final size:27
Alignment explanation
Indices: 87796326--87796397 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
87796316 AGTTCGTTGA
* *
87796326 GATAGTAAAAATATGGTAGTCCATCGG
1 GATAGTAAAAATAAGGTAGTCCACCGG
**
87796353 GCCAGTAAAAATAAGGTAGTCCACCGG
1 GATAGTAAAAATAAGGTAGTCCACCGG
* *
87796380 GATAGTAAACACAAGGTA
1 GATAGTAAAAATAAGGTA
87796398 ATCTGTTGGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.19
Consensus pattern (27 bp):
GATAGTAAAAATAAGGTAGTCCACCGG
Found at i:87796480 original size:27 final size:27
Alignment explanation
Indices: 87796414--87796468 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
87796404 TGGAACAGTT
*
87796414 ACACGGGGTAGTCCATCGAGACAGTAA
1 ACACGGGGTAGTCCATCAAGACAGTAA
*
87796441 ACACGGGGTAGTCTATCAAGACAGTAA
1 ACACGGGGTAGTCCATCAAGACAGTAA
87796468 A
1 A
87796469 ATTGGGGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.16
Consensus pattern (27 bp):
ACACGGGGTAGTCCATCAAGACAGTAA
Found at i:87804057 original size:19 final size:18
Alignment explanation
Indices: 87804001--87804115 Score: 85
Period size: 17 Copynumber: 6.5 Consensus size: 18
87803991 TTTCTAGTTC
*
87804001 TTTTATATATTTTTATAAA
1 TTTT-TATATATTTATAAA
* *
87804020 --TTTATAAATCTATAAA
1 TTTTTATATATTTATAAA
* *
87804036 TTTTTATTTATTATATATA
1 TTTTTATATATT-TATAAA
87804055 TTTTTATATATTTATAAA
1 TTTTTATATATTTATAAA
* * *
87804073 TCTTCA-ATATTTGTAAA
1 TTTTTATATATTTATAAA
* * *
87804090 TGTATATATATTT-TATA
1 TTTTTATATATTTATAAA
87804107 TTTTTATAT
1 TTTTTATAT
87804116 TTTTTCAAAA
Statistics
Matches: 74, Mismatches: 18, Indels: 10
0.73 0.18 0.10
Matches are distributed among these distances:
16 11 0.15
17 25 0.34
18 22 0.30
19 16 0.22
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTTATATATTTATAAA
Found at i:87804068 original size:8 final size:8
Alignment explanation
Indices: 87804006--87804117 Score: 54
Period size: 8 Copynumber: 14.1 Consensus size: 8
87803996 AGTTCTTTTA
*
87804006 TATATTTT
1 TATATATT
*
87804014 TATAAATT
1 TATATATT
* *
87804022 TATAAATC
1 TATATATT
*
87804030 TATAAATT
1 TATATATT
87804038 T-T-TATT
1 TATATATT
*
87804044 TAT-TATA
1 TATATATT
*
87804051 TATATTTT
1 TATATATT
87804059 TATATATT
1 TATATATT
*
87804067 TATAAATCT
1 TATATAT-T
87804076 TCA-ATATT
1 T-ATATATT
* *
87804084 TGTAAATGT
1 TATATAT-T
87804093 ATATATATT
1 -TATATATT
87804102 T-TATATT
1 TATATATT
*
87804109 TTTATATT
1 TATATATT
87804117 T
1 T
87804118 TTTCAAAACA
Statistics
Matches: 81, Mismatches: 15, Indels: 16
0.72 0.13 0.14
Matches are distributed among these distances:
6 4 0.05
7 15 0.19
8 49 0.60
9 7 0.09
10 6 0.07
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.59
Consensus pattern (8 bp):
TATATATT
Found at i:87804068 original size:45 final size:45
Alignment explanation
Indices: 87804004--87804114 Score: 136
Period size: 45 Copynumber: 2.5 Consensus size: 45
87803994 CTAGTTCTTT
* * **
87804004 TATATATTTTTATAAATTTATAAATCTATAAATTTTTATTTAT-TA
1 TATATATTTTTATATATTTATAAATCT-TAAATATTTATAAATGTA
* *
87804049 TATATATTTTTATATATTTATAAATCTTCAATATTTGTAAATGTA
1 TATATATTTTTATATATTTATAAATCTTAAATATTTATAAATGTA
*
87804094 TATATA-TTTTATATTTTTATA
1 TATATATTTTTATATATTTATA
87804115 TTTTTTCAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
44 24 0.41
45 34 0.59
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (45 bp):
TATATATTTTTATATATTTATAAATCTTAAATATTTATAAATGTA
Found at i:87812419 original size:10 final size:10
Alignment explanation
Indices: 87812406--87812448 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
87812396 TTTATAATTC
87812406 TTTTCTTATT
1 TTTTCTTATT
*
87812416 TTTTTTTATT
1 TTTTCTTATT
*
87812426 TTTCCTTATT
1 TTTTCTTATT
*
87812436 TTCTCTTATT
1 TTTTCTTATT
87812446 TTT
1 TTT
87812449 AAAATTTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTCTTATT
Found at i:87814129 original size:22 final size:22
Alignment explanation
Indices: 87814089--87814130 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
87814079 TGGCCACCCA
*
87814089 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
87814111 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
87814131 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:87814255 original size:20 final size:20
Alignment explanation
Indices: 87814196--87814264 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 20
87814186 AGGGGGTGGG
*
87814196 TTTTGGTTTTTTGGAGGAGGAT
1 TTTTTGTTTTTTGGA-GAGG-T
*
87814218 TGTTCTT-TGTTTTGGGAGAGGT
1 T-TT-TTGT-TTTTTGGAGAGGT
87814240 TTTTTGTTTTTTGGAG-GTGT
1 TTTTTGTTTTTTGGAGAG-GT
87814260 TTTTT
1 TTTTT
87814265 TTTGTTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
19 1 0.03
20 17 0.44
21 3 0.08
22 3 0.08
23 7 0.18
24 8 0.21
ACGTcount: A:0.09, C:0.01, G:0.32, T:0.58
Consensus pattern (20 bp):
TTTTTGTTTTTTGGAGAGGT
Found at i:87814633 original size:9 final size:10
Alignment explanation
Indices: 87814606--87814674 Score: 58
Period size: 9 Copynumber: 7.2 Consensus size: 10
87814596 AGAGCTTTGT
87814606 TTTACTATT-
1 TTTACTATTA
87814615 TTTACTATTA
1 TTTACTATTA
87814625 TTTA-TATTA
1 TTTACTATTA
*
87814634 -TTATTATTA
1 TTTACTATTA
87814643 TTT-CTCATGTA
1 TTTACT-AT-TA
* *
87814654 TATATTATTA
1 TTTACTATTA
87814664 TTTA-TATTA
1 TTTACTATTA
87814673 TT
1 TT
87814675 ATTATATTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
8 3 0.06
9 27 0.54
10 13 0.26
11 6 0.12
12 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTACTATTA
Found at i:87814659 original size:21 final size:18
Alignment explanation
Indices: 87814606--87814688 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
87814596 AGAGCTTTGT
* *
87814606 TTTACTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
87814625 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
87814643 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
87814664 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
87814681 TTATATAT
1 TT-TATAT
87814689 GCCCTCTCCA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.46
19 9 0.16
20 5 0.09
21 12 0.21
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:87815082 original size:20 final size:21
Alignment explanation
Indices: 87815023--87815082 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 21
87815013 ATTATTATTA
* * *
87815023 TTATATAGTAGTGTGTATTTCT
1 TTATATA-TAGTATATATTTAT
*
87815045 ATTATATACA-TATATATTTAT
1 -TTATATATAGTATATATTTAT
87815066 TTATATATAGTAT-TATT
1 TTATATATAGTATATATT
87815083 GTTCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 12 0.39
21 11 0.35
22 1 0.03
23 7 0.23
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.55
Consensus pattern (21 bp):
TTATATATAGTATATATTTAT
Found at i:87815754 original size:57 final size:57
Alignment explanation
Indices: 87815685--87815796 Score: 215
Period size: 57 Copynumber: 2.0 Consensus size: 57
87815675 GGTGCTAATC
*
87815685 CTTCCTCGTGCGTAACCGACTCCCGAACTCATTTTCTGATTTTCGTAGACCAAAATT
1 CTTCCTCGTGCGTAACCAACTCCCGAACTCATTTTCTGATTTTCGTAGACCAAAATT
87815742 CTTCCTCGTGCGTAACCAACTCCCGAACTCATTTTCTGATTTTCGTAGACCAAAA
1 CTTCCTCGTGCGTAACCAACTCCCGAACTCATTTTCTGATTTTCGTAGACCAAAA
87815797 ATTATCGTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.32
Consensus pattern (57 bp):
CTTCCTCGTGCGTAACCAACTCCCGAACTCATTTTCTGATTTTCGTAGACCAAAATT
Found at i:87817585 original size:19 final size:19
Alignment explanation
Indices: 87817563--87817609 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
87817553 CTTCCTTTCT
87817563 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
87817582 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
*
87817601 TTTGTATTA
1 TTTGCATTA
87817610 AACTTTCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:87820360 original size:6 final size:6
Alignment explanation
Indices: 87820349--87820386 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
87820339 GGAGTTATAT
*
87820349 GGCAAA GGCAAA GGAAAA GGCAAA GGCAAA GGCAAA GG
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GG
87820387 TAAAAAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.13, G:0.37, T:0.00
Consensus pattern (6 bp):
GGCAAA
Found at i:87820369 original size:12 final size:12
Alignment explanation
Indices: 87820352--87820391 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
87820342 GTTATATGGC
87820352 AAAGGCAAAGGA
1 AAAGGCAAAGGA
*
87820364 AAAGGCAAAGGC
1 AAAGGCAAAGGA
87820376 AAAGGCAAAGGTA
1 AAAGGCAAAGG-A
87820389 AAA
1 AAA
87820392 AAACACACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 22 0.88
13 3 0.12
ACGTcount: A:0.57, C:0.10, G:0.30, T:0.03
Consensus pattern (12 bp):
AAAGGCAAAGGA
Found at i:87821685 original size:66 final size:66
Alignment explanation
Indices: 87821585--87821711 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
87821575 CATTCATATA
**
87821585 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTGTTTGACACATT
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
87821650 C
66 C
*
87821651 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACA
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACA
87821712 TAAGCATAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (66 bp):
ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
C
Found at i:87821891 original size:44 final size:43
Alignment explanation
Indices: 87821826--87822716 Score: 417
Period size: 44 Copynumber: 20.5 Consensus size: 43
87821816 AGATCCTAAC
*
87821826 CCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGAA-GGTCTTAAA
* * * * * * *
87821870 CCCCTAATC-GATAGGGTAACAGACCGAA-TTGCAGATCTT-AT
1 CCCCTAAGCAG-TAGGGAAACAGATCGAAGATGAAGGTCTTAAA
*
87821911 CTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTT-AA
1 C-CCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGTCTTAAA
* *
87821954 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGAT-TTAAC
1 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AGG-TCTTAAA
* * * * * * *
87821998 CCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACAAGCCTTAAC
1 CCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGA-AGGTCTTAAA
* * * * * *
87822041 CCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGATCATAAC
1 CCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-AGGTCTTAAA
* *
87822086 CCCCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGAA-GGTCTTAAA
* * * * * * * *
87822130 CCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGATCTT-AT
1 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGTCTTAAA
*
87822171 CTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTT-AA
1 C-CCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGTCTTAAA
* * *
87822214 CCCCTAAGCAGTA-GGAAACAGATCGAAGATGATGGGCTTTAA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGTCTTAAA
* * * * * *
87822256 CCCTCTAAGCAGTAGGGTAACA-AGC-CAGATTTACAAGCCTT-AA
1 CCC-CTAAGCAGTAGGGAAACAGATCGAAGA-TGA-AGGTCTTAAA
* * * * *
87822299 CCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGATCTTAAC
1 CCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-AGGTCTTAAA
* * * * *
87822344 CCCCTAAGCAGTAAGGAAACAGATCAAAGATGATGGGCTTTAAC
1 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGTC-TTAAA
* * * * * *
87822388 CCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAGCCTTAAA
1 CCCCTAAGCAGTAGGGAAACAGA-TCGAAGATGA-AGGTCTTAAA
* * * * * *
87822431 CCCCTAAGCAGTAGGGTAACTG-GCTGAAGATTTACAGATCTTAAC
1 CCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-AGGTCTTAAA
** * * * *
87822476 CCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAAC
1 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGTC-TTAAA
* * * * ***
87822520 CCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAACCTTAAA
1 CCCCTAAGCAGTAGGGAAACAGA-TCGAAGATGA-AGGTCTTAAA
** * * ** *
87822563 CCCCTAAGCAGTAGGTTAACA-AGCTGAAGATTTACAAATCTTAAC
1 CCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-AGGTCTTAAA
* * * * * * *
87822608 CCCCTAACCAGTAGGGTAACAGGTTGAA-TTTACAGATCTT-AA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AGGTCTTAAA
* * * *
87822650 CCCCTTAAGCAGTTGGGAAATAGATCGAAGATGATGGGCCTTAAA
1 CCCC-TAAGCAGTAGGGAAACAGATCGAAGATGA-AGGTCTTAAA
* * *
87822695 TCCCTAAGTAGTAGGGTAACAG
1 CCCCTAAGCAGTAGGGAAACAG
87822717 GCTGGAAATT
Statistics
Matches: 657, Mismatches: 146, Indels: 88
0.74 0.16 0.10
Matches are distributed among these distances:
41 27 0.04
42 135 0.21
43 179 0.27
44 180 0.27
45 134 0.20
46 2 0.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (43 bp):
CCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGTCTTAAA
Found at i:87821927 original size:42 final size:42
Alignment explanation
Indices: 87821775--87822679 Score: 379
Period size: 43 Copynumber: 20.8 Consensus size: 42
87821765 ATTCACAAGC
* * * * *
87821775 CTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGAT
1 CTTAA-CCCCTAAGCAGTAGGGAAACAGACCGAAG--TTGCAGAT
* * ** * *
87821820 CCTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAA-CCCCTAAGCAGTAGGGAAACAGACCGAAGTTGCA-GAT
* *
87821864 CTTAAACCCCTAATC-GATAGGGTAACAGACCGAA-TTGCAGAT
1 CTT-AACCCCTAAGCAG-TAGGGAAACAGACCGAAGTTGCAGAT
* * * *
87821906 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
1 CTTAAC-CCCTAAGCAGTAGGGAAACAGACCGAAGTTGCAGAT
* *
87821949 CTTAACCCCTAAGCAGTAGGGAAACAGATCGAAGATGATG-GGAT
1 CTTAACCCCTAAGCAGTAGGGAAACAGACCGAAG-T--TGCAGAT
* * * * *
87821993 -TTAACCCCCTAAGCAGTAGGGTAACA-AGCCAAATTTACA-AGC
1 CTTAA-CCCCTAAGCAGTAGGGAAACAGA-CCGAAGTTGCAGA-T
* * * *
87822035 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGAT
1 CTTAA-CCCCTAAGCAGTAGGGAAACAGACCGAAG--TTGCAGAT
* * * ** * *
87822080 CATAACCCCCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAA-CCCCTAAGCAGTAGGGAAACAGACCGAAGTTGCA-GAT
* * *
87822124 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGAT
1 CTT-AACCCCTAAGCAGTAGGGAAACAGACCGAAGTTGCAGAT
* * * *
87822166 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
1 CTTAAC-CCCTAAGCAGTAGGGAAACAGACCGAAGTTGCAGAT
* * **
87822209 CTTAACCCCTAAGCAGTA-GGAAACAGATCGAAGATG-ATGGG
1 CTTAACCCCTAAGCAGTAGGGAAACAGACCGAAGTTGCA-GAT
* * * *
87822250 CTTTAACCCTCTAAGCAGTAGGGTAACA-AGCC-AGATTTACA-AGC
1 C-TTAACCC-CTAAGCAGTAGGGAAACAGA-CCGA-AGTTGCAGA-T
* * * *
87822294 CTTAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGAT
1 CTTAACCCCTAAGCAGTAGGGAAACAGACCGAAG--TTGCAGAT
* * * * **
87822338 CTTAACCCCCTAAGCAGTAAGGAAACAGATCAAAGATG-ATGGG
1 CTTAA-CCCCTAAGCAGTAGGGAAACAGACCGAAGTTGCA-GAT
* * * *
87822381 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTACA-AGC
1 C-TTAA-CCCCTAAGCAGTAGGGAAACAGA-CCGAAGTTGCAGA-T
* * * * *
87822425 CTTAAACCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTACAGAT
1 CTT-AACCCCTAAGCAGTAGGGAAACAGACCGAAG--TTGCAGAT
*** ** **
87822470 CTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATG-ATGGG
1 CTTAA-CCCCTAAGCAGTAGGGAAACAGACCGAAGTTGCA-GAT
* * * * *
87822513 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTACAAAC
1 C-TTAA-CCCCTAAGCAGTAGGGAAACAGA-CCGAAGTTGCAGAT
** * * *
87822557 CTTAAACCCCTAAGCAGTAGGTTAACA-AGCTGAAGATTTACAAAT
1 CTT-AACCCCTAAGCAGTAGGGAAACAGA-CCGAAG--TTGCAGAT
* * *** * *
87822602 CTTAACCCCCTAACCAGTAGGGTAACAGGTTGAATTTACAGAT
1 CTTAA-CCCCTAAGCAGTAGGGAAACAGACCGAAGTTGCAGAT
* * *
87822645 CTTAACCCCTTAAGCAGTTGGGAAATAGATCGAAG
1 CTTAACCCC-TAAGCAGTAGGGAAACAGACCGAAG
87822680 ATGATGGGCC
Statistics
Matches: 658, Mismatches: 145, Indels: 116
0.72 0.16 0.13
Matches are distributed among these distances:
40 1 0.00
41 26 0.04
42 128 0.19
43 177 0.27
44 166 0.25
45 158 0.24
46 2 0.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (42 bp):
CTTAACCCCTAAGCAGTAGGGAAACAGACCGAAGTTGCAGAT
Found at i:87821930 original size:86 final size:87
Alignment explanation
Indices: 87821775--87822629 Score: 535
Period size: 86 Copynumber: 9.8 Consensus size: 87
87821765 ATTCACAAGC
* * * * * *
87821775 CTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCCTAACCCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGA-TTGCAGATCTTAACCCCCTAAGCAGTAG
87821840 GGAAACAGATCGAAGACGAAGGGT
65 GGAAACAGATCGAAGACGAA-GGT
* * *
87821864 CTTAAACCCCTAATC-GATAGGGTAACAGACCG-A-ATTGCAGATCTTATCTCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAG-TAGGGTAACAGACCGAAGATTGCAGATCTTAACCCCCTAAGCAGTAG
* *
87821926 GGAAACAGATCGAAGATGAAGAT
65 GGAAACAGATCGAAGACGAAGGT
* * *
87821949 CTT-AACCCCTAAGCAGTAGGGAAACAGATCGAAGATGATG-GGAT-TTAACCCCCTAAGCAGTA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGAT--TGCAGATCTTAACCCCCTAAGCAGTA
* * * * *
87822011 GGGTAACA-AGCCAAATTTAC-AA-GC
64 GGGAAACAGA-TCGAA--GACGAAGGT
* * * * * *
87822035 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCATAACCCCCTAAGTAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGA-TTGCAGATCTTAACCCCCTAAGCAGTAG
87822100 GGAAACAGATCGAAGACGAAGGGT
65 GGAAACAGATCGAAGACGAA-GGT
* * * *
87822124 CTTAAACCCCTAATCGGTAGGGTAACAGACCG-A-ATTGCAGATCTTATCTCCCTAAGCAGTAGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGATTGCAGATCTTAACCCCCTAAGCAGTAGG
* *
87822187 GAAACAGATCGAAGATGAAGAT
66 GAAACAGATCGAAGACGAAGGT
* * ** *
87822209 CTT-AACCCCTAAGCAGTA-GGAAACAGATCGAAGA-TG-ATGGGCTTTAACCCTCTAAGCAGTA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGATTGCA-GATC-TTAACCCCCTAAGCAGTA
* * ** *
87822270 GGGTAACA-AGCCAGATTTAC-AA-GC
64 GGGAAACAGA-TC-GA-AGACGAAGGT
* * * *
87822294 CTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGA-TTGCAGATCTTAACCCCCTAAGCAGTAG
* * * *
87822358 GGAAACAGATCAAAGATGATGGG
65 GGAAACAGATCGAAGACGAAGGT
* * * * *
87822381 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACA-AGCCTTAAACCCCTAAGCAGT
1 C-TTAAACCCCTAAGCAGTAGGGTAACAGA-CCGAAGATTGCAGA-TCTTAACCCCCTAAGCAGT
* * * ** *
87822443 AGGGTAACTG-GCTGAAGATTTACAGAT
63 AGGGAAACAGATC-GAAGA-CGA-AGGT
* * ** * * **
87822470 CTTAACCCCCTAAGCAGTAGGGAAACAGA-TAAAAAATG-ATGGGCTTTAACCCCCTAAGCAGTA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGATTGCA-GATC-TTAACCCCCTAAGCAGTA
* * * **
87822533 GGGTAACA-AGCCGAATTTAC-AA-AC
64 GGGAAACAGA-TCGAA--GACGAAGGT
* * * * *
87822557 CTTAAACCCCTAAGCAGTAGGTTAACA-AGCTGAAGATTTACAAATCTTAACCCCCTAACCAGTA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGA-CCGAAGA-TTGCAGATCTTAACCCCCTAAGCAGTA
*
87822621 GGGTAACAG
64 GGGAAACAG
87822630 GTTGAATTTA
Statistics
Matches: 591, Mismatches: 123, Indels: 104
0.72 0.15 0.13
Matches are distributed among these distances:
83 11 0.02
84 42 0.07
85 56 0.09
86 140 0.24
87 127 0.21
88 97 0.16
89 115 0.19
90 2 0.00
91 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (87 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGATTGCAGATCTTAACCCCCTAAGCAGTAGG
GAAACAGATCGAAGACGAAGGT
Found at i:87822147 original size:132 final size:131
Alignment explanation
Indices: 87821763--87822629 Score: 1059
Period size: 132 Copynumber: 6.6 Consensus size: 131
87821753 TAGAATCAGT
* * * *
87821763 GAATTCACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCCTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * *
87821828 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATC-GATAGGGTAAC-A
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGG-CTTAAACCCCTAAGCAG-TAGGGTAACAA
87821891 GACC
129 G-CC
* * * * * * *
87821895 GAA-TTGC-AGATCTTATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAA-
1 GAATTTACAAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAAC
* *
87821954 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGATTTAACCCCCTAAGCAGTAGGGTAACA
64 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGG-CTTAAACCCCTAAGCAGTAGGGTAACA
87822019 AGCC
128 AGCC
* *
87822023 AAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCATAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * * * *
87822088 CCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAAC-AG
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGG-CTTAAACCCCTAAGCAGTAGGGTAACAAG
87822152 ACC
130 -CC
* * * * * * *
87822155 GAA-TTGC-AGATCTTATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAA-
1 GAATTTACAAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAAC
*
87822214 CCCCTAAGCAGTA-GGAAACAGATCGAAGATGATGGGCTTTAACCCTCTAAGCAGTAGGGTAACA
64 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTAAACCC-CTAAGCAGTAGGGTAACA
87822278 AGCC
128 AGCC
87822282 -AGATTTACAAGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
1 GA-ATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACC
* * *
87822345 CCCTAAGCAGTAAGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAA
65 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGC-TTAAACCCCTAAGCAGTAGGGTAACAA
87822410 GCC
129 GCC
* *
87822413 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
** * *
87822478 CCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGC-TTAAACCCCTAAGCAGTAGGGTAACAAG
87822543 CC
130 CC
* * * * *
87822545 GAATTTACAAACCTTAAACCCCTAAGCAGTAGGTTAACAAGCTGAAGATTTACAAATCTTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* *
87822610 CCTAACCAGTAGGGTAACAG
66 CCTAAGCAGTAGGGAAACAG
87822630 GTTGAATTTA
Statistics
Matches: 639, Mismatches: 70, Indels: 52
0.84 0.09 0.07
Matches are distributed among these distances:
126 9 0.01
127 63 0.10
128 85 0.13
129 62 0.10
130 31 0.05
131 131 0.21
132 258 0.40
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (131 bp):
GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTAAACCCCTAAGCAGTAGGGTAACAAGC
C
Found at i:87822661 original size:175 final size:175
Alignment explanation
Indices: 87822383--87822715 Score: 463
Period size: 175 Copynumber: 1.9 Consensus size: 175
87822373 ATGATGGGCT
* * *
87822383 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGT
1 TTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAACCAGTAGGGT
*
87822448 AACTGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGG
66 AACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGG
* *
87822513 CTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACC
131 CCTTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACC
* * * *
87822558 TTAAACCCCTAAGCAGTAGGTTAACAAGCTGAAGATTTACAAATCTTAACCCCCTAACCAGTAGG
1 TTAAACCCCTAAGCAGTAGGGTAACAAGCCG-A-ATTTACAAACCTTAAACCCCTAACCAGTAGG
* * * * ** *
87822623 GTAACAGGTTG-A-ATTTACAGATCTTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGATGATG
64 GTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATG
* *
87822686 GGCCTTAAATCCCTAAGTAGTAGGGTAACA
129 GGCCTTAAACCCCTAAGCAGTAGGGTAACA
87822716 GGCTGGAAAT
Statistics
Matches: 137, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
175 99 0.72
176 2 0.01
177 36 0.26
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (175 bp):
TTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAACCAGTAGGGT
AACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGG
CCTTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACC
Found at i:87822853 original size:68 final size:68
Alignment explanation
Indices: 87822734--87822932 Score: 260
Period size: 68 Copynumber: 2.9 Consensus size: 68
87822724 ATTACAAATT
* *
87822734 TCTTTTTCCTTGAAATGACATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA-GA
1 TCTTTTTCC-TGAAATGGCATTGGAGCAGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGGA
* *
87822798 GGATC
65 -AACC
* *
87822803 T-TTTCTTCCTGAAATGGCGTTGGAGCAGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGGA
1 TCTTT-TTCCTGAAATGGCATTGGAGCAGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGGA
87822867 AACC
65 AACC
** *
87822871 TCTTTTTCCAAAAATGGCATTGGAG-AGGTTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
1 TCTTTTTCCTGAAATGGCATTGGAGCA-GCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
87822933 TAAAAGAAGA
Statistics
Matches: 115, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
67 1 0.01
68 104 0.90
69 10 0.09
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (68 bp):
TCTTTTTCCTGAAATGGCATTGGAGCAGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGGAA
ACC
Found at i:87823092 original size:44 final size:44
Alignment explanation
Indices: 87823044--87824072 Score: 502
Period size: 44 Copynumber: 23.6 Consensus size: 44
87823034 GATTTCAGCA
*
87823044 TGGCATCCCTATGCTTATAGGGAACAAGTTGAAAGCAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATT
* * * * *
87823088 TGGCATCCCTGTGCTTATAGGGAAC-GGATCG-AAGATAGCAAATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAG-CAGCAGATT
* * * ** * * *
87823132 TGACATTCCTGTGCTTATAGTGAAGTAGATCG-AAG-ATTTCAG-CT
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAGCA--GCAGATT
*
87823176 TGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAGCAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATT
* * * *
87823220 TGGCATCCCTGTGCTTATAGGGAAC-AGATCAAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAG-CAGCAGATT
* * * * ** * ****
87823264 TGACATTCCTGTGCTTACAGTGAAGTAGATCGAAAATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAGCAGCAG-ATT
*
87823308 TGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAGCAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATT
* * * * * *
87823352 TGGCATCCCTGTGCTTATAGGGAA-TAGATCAAAGATAGTAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAG-CAGCAGATT
* * * * ** ****
87823396 TGACATTCCTGTGCTTACAGTGAAGTAGATTGAAAATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAGCAGCAG-ATT
*
87823440 TGGCATCCCTGTGCTT-TA-GG-A-AA----CAAGCAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATT
* * * *
87823476 TGGCATCCCCGTGCTTATAGGGAAC-AGATCG-AAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAG-CAGCAGATT
* * * * * * * **
87823520 TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAG-ATTTCA-ACA
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAAGCA--GCAGATT
* *
87823564 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATT
* * * *
87823608 TGGCATCCCTGTGCTTATAGGGAACAAATCG-AAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAG-CAGCAGATT
* * * * * * *
87823652 TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAG-ATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAAGCA--GCAG-ATT
* *
87823696 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATT
* * * * *
87823740 TGGCATCCCTATGCTTATAGGGAAC-GGATCG-AAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAG-CAGCAGATT
* * * * * * *
87823784 TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAG-ATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAAGCA--GCAG-ATT
* * *
87823828 TGGCATCCCTGGGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATT
* *
87823872 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATT
* * * *
87823916 TGGCATCCCTGTGCTTATAGGGAAC-GGATCG-AAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAG-CAGCAGATT
* * * * ** * *
87823960 TGACATTCCTGTGCTTACAGTGAAGTAGATCG-AA-CATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAGCA--GCAG-ATT
* *
87824004 TGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATT
*
87824048 TGGCATCCATGTGCTTATAGGGAAC
1 TGGCATCCCTGTGCTTATAGGGAAC
87824073 GGATCGAAGA
Statistics
Matches: 743, Mismatches: 174, Indels: 136
0.71 0.17 0.13
Matches are distributed among these distances:
34 1 0.00
35 5 0.01
36 15 0.02
37 2 0.00
38 2 0.00
39 2 0.00
40 1 0.00
41 1 0.00
42 5 0.01
43 67 0.09
44 569 0.77
45 61 0.08
46 12 0.02
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATT
Found at i:87823147 original size:88 final size:86
Alignment explanation
Indices: 87823044--87824108 Score: 591
Period size: 88 Copynumber: 12.2 Consensus size: 86
87823034 GATTTCAGCA
*
87823044 TGGCATCCCTATGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAAC-AGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGG
*
87823109 GAACGGATCGAAGATAGCAAATC
65 GAAC-GATCGAAGATAGCAGATC
* * * * * * *
87823132 TGACATTCCTGTGCTTATAGTGAAGTAGATCG-AAG-ATTTCAG-CTTGGCATCCCTGTGCTTAT
1 TGGCATCCCTGTGCTTATAGGGAA-CAG-TTGAAAGCA--GCAGATTTGGCATCCCTGTGCTTAT
* * * * *
87823194 AGGAAACAAGTTGAA-AGCAGCAGATT
62 AGGGAACGA-TCGAAGA-TAGCAGATC
* * * * * * * *
87823220 TGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGTTGAAAG-CAGCAGATTTGGCATCCCTGTGCTTATAGG
* * **
87823285 GAAGTAGATCGAAAATTTCAG--C
65 GAA--CGATCGAAGATAGCAGATC
*
87823307 ATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAG
1 -TGGCATCCCTGTGCTTATAGGGAAC-AGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAG
* * *
87823372 GGAATAGATCAAAGATAGTAGATC
64 GGAA-CGATCGAAGATAGCAGATC
* * * * * ****
87823396 TGACATTCCTGTGCTTACAGTGAAGTAGATTGAAAATTTCAGCA--TGGCATCCCTGTGCTT-TA
1 TGGCATCCCTGTGCTTATAGGGAA-CAG-TTGAAAGCAGCAG-ATTTGGCATCCCTGTGCTTATA
* *
87823458 -GGAA--A-C-AAG-CAGCAGATT
63 GGGAACGATCGAAGATAGCAGATC
* * * * * * *
87823476 TGGCATCCCCGTGCTTATAGGGAACAGATCG-AAGATAGCAGATCTGACATTCCTGTGCTTACAG
1 TGGCATCCCTGTGCTTATAGGGAACAG-TTGAAAG-CAGCAGATTTGGCATCCCTGTGCTTATAG
* * **
87823540 TGAAGCAGATCAAAGATTTCA-A-C
64 GGAA-C-GATCGAAGATAGCAGATC
* *
87823563 ATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAG
1 -TGGCATCCCTGTGCTTATAGGGAAC-AGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAG
*
87823628 GGAACAAATCGAAGATAGCAGATC
64 GGAAC-GATCGAAGATAGCAGATC
* * * * * * *
87823652 TGACATTCCTGTGCTTACAGTGAAGCAGATCAAAG-ATTTCAGCA--TGGCATCCCTGTGCTTAT
1 TGGCATCCCTGTGCTTATAGGGAA-CAGTTGAAAGCA--GCAG-ATTTGGCATCCCTGTGCTTAT
* * * * * *
87823714 AGGGAACAAGTTGAAAACATCAGATT
62 AGGGAACGA-TCGAAGATAGCAGATC
* * * * * * * *
87823740 TGGCATCCCTATGCTTATAGGGAACGGATCG-AAGATAGCAGATCTGACATTCCTGTGCTTACAG
1 TGGCATCCCTGTGCTTATAGGGAACAG-TTGAAAG-CAGCAGATTTGGCATCCCTGTGCTTATAG
* * **
87823804 TGAAGCAGATCAAAGATTTCAG--C
64 GGAA-C-GATCGAAGATAGCAGATC
* * *
87823827 ATGGCATCCCTGGGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAG
1 -TGGCATCCCTGTGCTTATAGGGAAC-AGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAG
* * * * * *
87823892 GGAACAAGTTGAAAACAACAGATT
64 GGAACGA-TCGAAGATAGCAGATC
* * * * * * *
87823916 TGGCATCCCTGTGCTTATAGGGAACGGATCG-AAGATAGCAGATCTGACATTCCTGTGCTTACAG
1 TGGCATCCCTGTGCTTATAGGGAACAG-TTGAAAG-CAGCAGATTTGGCATCCCTGTGCTTATAG
* * * **
87823980 TGAAGTAGATCGAACATTTCAG--C
64 GGAA--CGATCGAAGATAGCAGATC
* * *
87824003 ATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCATGTGCTTATAG
1 -TGGCATCCCTGTGCTTATAGGGAAC-AGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAG
*
87824068 GGAACGGATCGAAGATAGCAAATC
64 GGAAC-GATCGAAGATAGCAGATC
* *
87824092 TGACATTCCTGTGCTTA
1 TGGCATCCCTGTGCTTA
87824109 CAGTGAAGCA
Statistics
Matches: 728, Mismatches: 184, Indels: 130
0.70 0.18 0.12
Matches are distributed among these distances:
78 3 0.00
79 9 0.01
80 39 0.05
81 4 0.01
82 4 0.01
83 1 0.00
86 7 0.01
87 71 0.10
88 517 0.71
89 67 0.09
90 6 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (86 bp):
TGGCATCCCTGTGCTTATAGGGAACAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGG
AACGATCGAAGATAGCAGATC
Found at i:87823223 original size:132 final size:132
Alignment explanation
Indices: 87822986--87823897 Score: 1471
Period size: 132 Copynumber: 7.0 Consensus size: 132
87822976 GGAGCAGACT
87822986 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
* *
87823051 CCTATGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACGGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
87823116 TC
131 TC
* * *
87823118 GAAGATAGCAAATCTGACATTCCTGTGCTTATAGTGAAGTAGATCGAAGATTTCAGCTTGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
*
87823183 CCTGTGCTTATAGGAAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
87823248 TC
131 TC
* *
87823250 AAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAAATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
* *
87823315 CCTGTGCTTATAGGAAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAATAGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
87823380 TC
131 TC
* * * *
87823382 AAAGATAGTAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATTGAAAATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
* *
87823447 CCTGTGCTT-TA-GG-A-AA----CAAGCAGCAGATTTGGCATCCCCGTGCTTATAGGGAACAGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
87823504 TC
131 TC
* * *
87823506 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAACATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
* * *
87823571 CCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAA
66 CCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
87823636 TC
131 TC
* *
87823638 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
* * * *
87823703 CCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTATGCTTATAGGGAACGGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
87823768 TC
131 TC
* *
87823770 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
* * *
87823835 CCTGGGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACA
66 CCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACA
87823898 AGTTGAAAAC
Statistics
Matches: 735, Mismatches: 37, Indels: 16
0.93 0.05 0.02
Matches are distributed among these distances:
124 107 0.15
125 2 0.00
126 2 0.00
127 1 0.00
128 4 0.01
129 1 0.00
130 1 0.00
131 2 0.00
132 615 0.84
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
CCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
TC
Found at i:87823976 original size:132 final size:130
Alignment explanation
Indices: 87822990--87824083 Score: 1261
Period size: 132 Copynumber: 8.4 Consensus size: 130
87822980 CAGACTGAAG
87822990 ATAGCAGATCTGACATTCCTGTGCTTACAGTGAA-GTAGATCGAAGATTTCAGCATGGCATCCCT
1 ATAGCAGATCTGACATTCCTGTGCTTACAGTGAACG--GATCGAAGATTTCAGCATGGCATCCCT
* * *
87823054 ATGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACGGATCG
64 GTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAG-TCG
*
87823119 AAG
128 AAA
* * *
87823122 ATAGCAAATCTGACATTCCTGTGCTTATAGTGAA-GTAGATCGAAGATTTCAGCTTGGCATCCCT
1 ATAGCAGATCTGACATTCCTGTGCTTACAGTGAACG--GATCGAAGATTTCAGCATGGCATCCCT
* *
87823186 GTGCTTATAGGAAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATC-
64 GTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAG-TCG
87823250 AAA
128 AAA
*
87823253 GATAGCAGATCTGACATTCCTGTGCTTACAGTGAA-GTAGATCGAAAATTTCAGCATGGCATCCC
1 -ATAGCAGATCTGACATTCCTGTGCTTACAGTGAACG--GATCGAAGATTTCAGCATGGCATCCC
* * *
87823317 TGTGCTTATAGGAAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAATAGATC
63 TGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAG-TC
87823382 -AAA
127 GAAA
* * *
87823385 GATAGTAGATCTGACATTCCTGTGCTTACAGTGAA-GTAGATTGAAAATTTCAGCATGGCATCCC
1 -ATAGCAGATCTGACATTCCTGTGCTTACAGTGAACG--GATCGAAGATTTCAGCATGGCATCCC
* *
87823449 TGTGCTT-TAGGAAACAA---G----CAGCAGATTTGGCATCCCCGTGCTTATAGGGAACAGATC
63 TGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAG-TC
*
87823506 GAAG
127 GAAA
* * *
87823510 ATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAACATGGCATCCCTG
1 ATAGCAGATCTGACATTCCTGTGCTTACAGTGAA-CGGATCGAAGATTTCAGCATGGCATCCCTG
* *
87823575 TGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAATCGA
65 TGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC-AGTCGA
*
87823640 AG
129 AA
* *
87823642 ATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTG
1 ATAGCAGATCTGACATTCCTGTGCTTACAGTGAA-CGGATCGAAGATTTCAGCATGGCATCCCTG
* * *
87823707 TGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTATGCTTATAGGGAACGGATCGA
65 TGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAG-TCGA
*
87823772 AG
129 AA
* *
87823774 ATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTG
1 ATAGCAGATCTGACATTCCTGTGCTTACAGTGAA-CGGATCGAAGATTTCAGCATGGCATCCCTG
* * *
87823839 GGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGTTGA
65 TGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC-AGTCGA
87823904 AA
129 AA
* * * * * * * ** * *
87823906 ACAACAGATTTGGCATCCCTGTGCTTATAGGGAACGGATCGAAGATAGCAG-ATCTGACATTCCT
1 ATAGCAGATCTGACATTCCTGTGCTTACAGTGAACGGATCGAAGATTTCAGCA--TGGCATCCCT
* * ** * * *** *
87823970 GTGCTTACAGTGAAGTAGATCGAACATTTCAGCA--TGACATCCCTGTGCTTATAGGGAACAAGT
64 GTGCTTATAGGGAACAAG-TTGAAAACAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAAC-AGT
*
87824033 TGAAA
126 CGAAA
* * * * *
87824038 ACAGCAGATTTGGCA-TCCATGTGCTTATAGGGAACGGATCGAAGAT
1 ATAGCAGATCTGACATTCC-TGTGCTTACAGTGAACGGATCGAAGAT
87824084 AGCAAATCTG
Statistics
Matches: 881, Mismatches: 61, Indels: 40
0.90 0.06 0.04
Matches are distributed among these distances:
124 99 0.11
125 11 0.01
128 2 0.00
130 1 0.00
131 27 0.03
132 729 0.83
133 11 0.01
134 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (130 bp):
ATAGCAGATCTGACATTCCTGTGCTTACAGTGAACGGATCGAAGATTTCAGCATGGCATCCCTGT
GCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGTCGAAA
Found at i:87824084 original size:132 final size:132
Alignment explanation
Indices: 87823875--87824122 Score: 460
Period size: 132 Copynumber: 1.9 Consensus size: 132
87823865 TCAGATTTGG
*
87823875 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCATGTGCTTATAGGGAA
* *
87823940 CGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAACATTTCAGCAT
66 CGGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAACATTTCAGCAT
87824005 GA
131 GA
*
87824007 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCATGTGCTTATAGGGAA
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCATGTGCTTATAGGGAA
87824072 CGGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATC
66 CGGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATC
87824123 AAAGATAGCA
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 112 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCATGTGCTTATAGGGAA
CGGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAACATTTCAGCAT
GA
Found at i:87824488 original size:22 final size:22
Alignment explanation
Indices: 87824436--87824493 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 22
87824426 TAAATAAAAA
*
87824436 CCTTGGCCACCTACTCCACCAC
1 CCTTGGCCACCAACTCCACCAC
*
87824458 CTTTGTTGGCCACCAACTCCACCAC
1 C---CTTGGCCACCAACTCCACCAC
87824483 CCTTGGCCACC
1 CCTTGGCCACC
87824494 TAAACCACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 10 0.33
25 20 0.67
ACGTcount: A:0.17, C:0.50, G:0.12, T:0.21
Consensus pattern (22 bp):
CCTTGGCCACCAACTCCACCAC
Found at i:87824501 original size:22 final size:22
Alignment explanation
Indices: 87824436--87824502 Score: 64
Period size: 25 Copynumber: 2.9 Consensus size: 22
87824426 TAAATAAAAA
*
87824436 CCTTGGCCACCTACTCCACCAC
1 CCTTGGCCACCTAATCCACCAC
*
87824458 CTTTGTTGGCCACC-AACTCCACCAC
1 C---CTTGGCCACCTAA-TCCACCAC
*
87824483 CCTTGGCCACCTAAACCACC
1 CCTTGGCCACCTAATCCACC
87824503 CCAACCACTC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
22 15 0.42
23 2 0.06
24 1 0.03
25 18 0.50
ACGTcount: A:0.21, C:0.49, G:0.10, T:0.19
Consensus pattern (22 bp):
CCTTGGCCACCTAATCCACCAC
Found at i:87825006 original size:9 final size:10
Alignment explanation
Indices: 87824979--87825047 Score: 58
Period size: 9 Copynumber: 7.2 Consensus size: 10
87824969 AGAGCTTTGT
87824979 TTTACTATT-
1 TTTACTATTA
87824988 TTTACTATTA
1 TTTACTATTA
87824998 TTTA-TATTA
1 TTTACTATTA
*
87825007 -TTATTATTA
1 TTTACTATTA
87825016 TTT-CTCATGTA
1 TTTACT-AT-TA
* *
87825027 TATATTATTA
1 TTTACTATTA
87825037 TTTA-TATTA
1 TTTACTATTA
87825046 TT
1 TT
87825048 ATTATATTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
8 3 0.06
9 27 0.54
10 13 0.26
11 6 0.12
12 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTACTATTA
Found at i:87825032 original size:21 final size:18
Alignment explanation
Indices: 87824979--87825061 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
87824969 AGAGCTTTGT
* *
87824979 TTTACTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
87824998 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
87825016 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
87825037 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
87825054 TTATATAT
1 TT-TATAT
87825062 GCCCTCTCCA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.46
19 9 0.16
20 5 0.09
21 12 0.21
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:87825451 original size:20 final size:21
Alignment explanation
Indices: 87825392--87825451 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 21
87825382 ATTATTATTA
* * *
87825392 TTATATAGTAGTGTGTATTTCT
1 TTATATA-TAGTATATATTTAT
*
87825414 ATTATATACA-TATATATTTAT
1 -TTATATATAGTATATATTTAT
87825435 TTATATATAGTAT-TATT
1 TTATATATAGTATATATT
87825452 GTTCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 12 0.39
21 11 0.35
22 1 0.03
23 7 0.23
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.55
Consensus pattern (21 bp):
TTATATATAGTATATATTTAT
Found at i:87836185 original size:58 final size:57
Alignment explanation
Indices: 87836046--87836186 Score: 142
Period size: 57 Copynumber: 2.5 Consensus size: 57
87836036 ATGTATACAA
* ** ** * * *
87836046 CAGGATTACCAGTCCAGGCTAAATCCTTTTTATGACATATGCTCTAAGGAGTTTGAT
1 CAGGATTACCAGTTCAGGCTAAATCCAATCCATAACATATGCTCGAAGGACTTTGAT
* *
87836103 CTGGATTACCAG-TCTGAGCTAAATCCAATCCATAACATATGCTCGAGAGGACTTAT-AT
1 CAGGATTACCAGTTCAG-GCTAAATCCAATCCATAACATATGCTCGA-AGGACTT-TGAT
*
87836161 CAGGATTACCCGTTCAGGCTAAATCC
1 CAGGATTACCAGTTCAGGCTAAATCC
87836187 TTTCTGTAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
56 2 0.03
57 34 0.51
58 27 0.40
59 4 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (57 bp):
CAGGATTACCAGTTCAGGCTAAATCCAATCCATAACATATGCTCGAAGGACTTTGAT
Found at i:87839471 original size:31 final size:31
Alignment explanation
Indices: 87839391--87839474 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
87839381 TTAGTCTTGA
*
87839391 CATAT-ACTGGGCCGAAGCATTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
87839421 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
87839452 CATTTCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
87839475 ACTGTAAATG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:87839545 original size:42 final size:42
Alignment explanation
Indices: 87839498--87839589 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
87839488 TGGCCCATAG
* ** *
87839498 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
87839540 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
87839582 GCCCATTT
1 GCCCATTT
87839590 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:87839749 original size:24 final size:27
Alignment explanation
Indices: 87839722--87839780 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 27
87839712 CTGGAGGCCT
87839722 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCCTCTTTTCAATAAACTGGGGCATA
*
87839746 AGCCT-TTTTCAGTAAACTGGGGCATA
1 AGCCTCTTTTCAATAAACTGGGGCATA
87839772 AGCC-CTTTT
1 AGCCTCTTTT
87839781 GCACTTCCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 4 0.13
24 7 0.23
25 10 0.33
26 9 0.30
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (27 bp):
AGCCTCTTTTCAATAAACTGGGGCATA
Found at i:87839855 original size:20 final size:20
Alignment explanation
Indices: 87839830--87839916 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
87839820 TTATGAATAC
87839830 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
87839850 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
* *
87839870 ATCTTGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
87839890 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
87839910 ATCATGT
1 ATCATGT
87839917 ATATCATATC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.41
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:87840851 original size:27 final size:26
Alignment explanation
Indices: 87840716--87840870 Score: 105
Period size: 27 Copynumber: 5.8 Consensus size: 26
87840706 ATTTCATCCT
* * *
87840716 ACAAGGGTGTTTTGGTAAATCTACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
* **
87840742 ATCAAAGGTATTTCT-GTAATTTTGTAA
1 A-CAAGGGTATTT-TGGTAATTTTACAA
* *
87840769 ATTAGGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* * * *
87840796 ATTAAGGGTATTTCGATAATTTCACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
*
87840823 ACCAGTGGTATTTTGGTAATTTTACAA
1 ACAAG-GGTATTTTGGTAATTTTACAA
* * *
87840850 ACTAGGGGTGTTTTAGTAATT
1 AC-AAGGGTATTTTGGTAATT
87840871 CTATCCTATA
Statistics
Matches: 100, Mismatches: 24, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
26 4 0.04
27 94 0.94
28 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (26 bp):
ACAAGGGTATTTTGGTAATTTTACAA
Found at i:87840932 original size:27 final size:27
Alignment explanation
Indices: 87840902--87841184 Score: 178
Period size: 27 Copynumber: 10.4 Consensus size: 27
87840892 GTAATTTCAC
* *
87840902 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTATA
* * *
87840929 AATC-AGGGGTAAAATACTAATTCTGTA
1 AATCGA-GGGTAAAATAGTAATTTTATA
* *
87840956 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTATA
*** *
87840983 AATCGAGGGTACTTTGGTAATTTT-TA
1 AATCGAGGGTAAAATAGTAATTTTATA
*** *
87841009 CAAGTCGAGGGTATTTTAGTAATTTTACA
1 -AA-TCGAGGGTAAAATAGTAATTTTATA
* *** *
87841038 AATCAGGGGGTATTTTAGTAATTTTACA
1 AATC-GAGGGTAAAATAGTAATTTTATA
* *** *
87841066 AA-CCAGGGGTATTTTAGTAATTTTGTA
1 AATCGA-GGGTAAAATAGTAATTTTATA
* * *
87841093 AATCAAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTATA
* * *
87841120 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTATA
* * *
87841147 AATCGAGGGTAGAACTA-TAATTCTGTA
1 AATCGAGGGTA-AAATAGTAATTTTATA
87841174 AATCGAGGGTA
1 AATCGAGGGTA
87841185 CTTTGGTAAT
Statistics
Matches: 214, Mismatches: 33, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
26 3 0.01
27 158 0.74
28 52 0.24
29 1 0.00
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTTTATA
Found at i:87841020 original size:28 final size:27
Alignment explanation
Indices: 87840971--87841103 Score: 142
Period size: 28 Copynumber: 4.9 Consensus size: 27
87840961 AGGGTAAAAC
* * *
87840971 AGTAATTCTATAAATCGAGGGTACTTT
1 AGTAATTTTACAAATCGAGGGTATTTT
* *
87840998 GGTAATTTTTACAAGTCGAGGGTATTTT
1 AGTAA-TTTTACAAATCGAGGGTATTTT
*
87841026 AGTAATTTTACAAATCAGGGGGTATTTT
1 AGTAATTTTACAAATC-GAGGGTATTTT
*
87841054 AGTAATTTTACAAA-CCAGGGGTATTTT
1 AGTAATTTTACAAATCGA-GGGTATTTT
** *
87841081 AGTAATTTTGTAAATCAAGGGTA
1 AGTAATTTTACAAATCGAGGGTA
87841104 AAATGGTAAT
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
27 41 0.46
28 48 0.54
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
AGTAATTTTACAAATCGAGGGTATTTT
Found at i:87841032 original size:55 final size:54
Alignment explanation
Indices: 87840971--87841157 Score: 153
Period size: 55 Copynumber: 3.4 Consensus size: 54
87840961 AGGGTAAAAC
*
87840971 AGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTCGAGGGTATTTT
1 AGTAATTCTATAAATCGAGGGTAATTTGGTAATTTTTACAA-TCGAGGGTATTTT
* * * * * * *
87841026 AGTAATTTTACAAATCAGGGGGTATTTTAGTAA-TTTTACAAACCAGGGGTATTTT
1 AGTAATTCTATAAATC-GAGGGTAATTTGGTAATTTTTACAATCGA-GGGTATTTT
* * * ** * * ***
87841081 AGTAATTTTGTAAATCAAGGGTAAAATGGTAATTCTATA-AATTGAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAATTTGGTAATT-TTTACAATCGAGGGTATTTT
*
87841135 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
87841158 GAACTATAAT
Statistics
Matches: 102, Mismatches: 26, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
54 37 0.36
55 49 0.48
56 16 0.16
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.36
Consensus pattern (54 bp):
AGTAATTCTATAAATCGAGGGTAATTTGGTAATTTTTACAATCGAGGGTATTTT
Done.