Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 117 of 352
Found at i:37533511 original size:43 final size:43
Alignment explanation
Indices: 37533352--37533512 Score: 141
Period size: 43 Copynumber: 3.7 Consensus size: 43
37533342 TATGTGTTCT
* * *
37533352 CATGTAAGACCACGTCTGGGATGTTGGCATCGACT-TATGATTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATTGA-TATTTGA-TTA
* * * * * *
37533396 CGTGTAGGACCATGTCTGGGATGTTGGCA-TCATATTTGATTT
1 CATGTAAGACCACGTCTGGGACGTTGGCATTGATATTTGATTA
* * *
37533438 CGTGTAAGATCC-TGTCTGGGACAG-TGGCATTGATATTTGACTA
1 CATGTAAGA-CCACGTCTGGGAC-GTTGGCATTGATATTTGATTA
*
37533481 CATGTAAGACCACGTCTGAGACGTTGGCATTG
1 CATGTAAGACCACGTCTGGGACGTTGGCATTG
37533513 TAGGAGCTTT
Statistics
Matches: 96, Mismatches: 15, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
42 28 0.29
43 42 0.44
44 26 0.27
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATTGATATTTGATTA
Found at i:37537724 original size:94 final size:93
Alignment explanation
Indices: 37537531--37537743 Score: 261
Period size: 94 Copynumber: 2.3 Consensus size: 93
37537521 AGGCCAACGC
*
37537531 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTATGTCGATGCCATGTCCCAAACATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCT-ACATATCAATGTCGATGCCATGTCCCAAACATG
*
37537596 GTCATACACTGACACATCTTGTAGCCGATG
64 GTCATACACTGACACATCTTGTAGCCGATA
* *
37537626 CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATGTCGATGCCATGTCCCAGAAC-TGG
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATATCAATGTCGATGCCATGTCCCA-AACATGG
* * * * * *
37537689 TCTTATATTGGCTC-TCATAATGTAGCTGATA
65 TCATACACTGACACATC-T--TGTAGCCGATA
37537720 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
37537744 GGCACACAAA
Statistics
Matches: 104, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 2 0.02
92 36 0.35
93 3 0.03
94 49 0.47
95 14 0.13
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.30
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTACATATCAATGTCGATGCCATGTCCCAAACATGGT
CATACACTGACACATCTTGTAGCCGATA
Found at i:37539218 original size:24 final size:24
Alignment explanation
Indices: 37539186--37539232 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
37539176 CTAGTTTTGG
37539186 TTTTGCTTC-AGCAAGCTATGTTGT
1 TTTTGCTTCGA-CAAGCTATGTTGT
* *
37539210 TTTTTCTTCGACAAGCTTTGTTG
1 TTTTGCTTCGACAAGCTATGTTG
37539233 CTTGTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.15, C:0.17, G:0.19, T:0.49
Consensus pattern (24 bp):
TTTTGCTTCGACAAGCTATGTTGT
Found at i:37543247 original size:29 final size:29
Alignment explanation
Indices: 37543189--37543268 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
37543179 GGTAAAACTA
*
37543189 TAAAATTCTAGAAAA-TAGTGGCAGAATTG
1 TAAAA-TCTAGAAAACCAGTGGCAGAATTG
*
37543218 TAAAATCTAGAAAACCAGTGGCA-ATTTTG
1 TAAAATCTAGAAAACCAGTGGCAGA-ATTG
*
37543247 TAAAATAT-GAAAAACCAGTGGC
1 TAAAATCTAG-AAAACCAGTGGC
37543269 GGAACTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
28 11 0.24
29 34 0.76
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.25
Consensus pattern (29 bp):
TAAAATCTAGAAAACCAGTGGCAGAATTG
Found at i:37551104 original size:6 final size:6
Alignment explanation
Indices: 37551093--37551220 Score: 256
Period size: 6 Copynumber: 21.3 Consensus size: 6
37551083 GCATATGTTG
37551093 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
37551141 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
37551189 GTATAT GTATAT GTATAT GTATAT GTATAT GT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GT
37551221 GGTTATTCTC
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 122 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:37554338 original size:26 final size:26
Alignment explanation
Indices: 37554308--37554360 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
37554298 ACAACAACAC
*
37554308 TTGATTCTTGCTCACC-ATCTTTTCTT
1 TTGATTCCTGCTCACCAAT-TTTTCTT
37554334 TTGATTCCTGCTCACCAATTTTTCTT
1 TTGATTCCTGCTCACCAATTTTTCTT
37554360 T
1 T
37554361 CTTCAATCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.13, C:0.26, G:0.08, T:0.53
Consensus pattern (26 bp):
TTGATTCCTGCTCACCAATTTTTCTT
Found at i:37557033 original size:39 final size:37
Alignment explanation
Indices: 37556953--37557060 Score: 89
Period size: 38 Copynumber: 2.8 Consensus size: 37
37556943 AAATCATGTA
37556953 TTAAAGATGT-CTAAAACTAAGACACATTAAAAGGCCTAT
1 TTAAA-ATGTACT-AAACTAAGACACATTAAAA-GCCTAT
* *
37556992 TTAATATGTACTAAACTAAGACATATTTAAAA-CCTGCAT
1 TTAAAATGTACTAAACTAAGACACA-TTAAAAGCCT--AT
* *
37557031 TTAAAATGT--TCATCTTAAGACACATTAAAA
1 TTAAAATGTACTAAAC-TAAGACACATTAAAA
37557061 TGTTGTACTA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
37 12 0.21
38 24 0.41
39 22 0.38
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (37 bp):
TTAAAATGTACTAAACTAAGACACATTAAAAGCCTAT
Found at i:37557417 original size:12 final size:12
Alignment explanation
Indices: 37557400--37557429 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37557390 TCAGAGAGTT
37557400 ACACGAGGTAGG
1 ACACGAGGTAGG
*
37557412 ACACGAGGTGGG
1 ACACGAGGTAGG
37557424 ACACGA
1 ACACGA
37557430 CCATGTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.20, G:0.40, T:0.07
Consensus pattern (12 bp):
ACACGAGGTAGG
Found at i:37561518 original size:21 final size:21
Alignment explanation
Indices: 37561493--37561537 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
37561483 TATAAATTAT
37561493 TTTGTATAGTACTAATTTTAA
1 TTTGTATAGTACTAATTTTAA
* *
37561514 TTTGTTTTGTACTAATTTTAA
1 TTTGTATAGTACTAATTTTAA
37561535 TTT
1 TTT
37561538 TTTTCTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.04, G:0.09, T:0.60
Consensus pattern (21 bp):
TTTGTATAGTACTAATTTTAA
Found at i:37561549 original size:20 final size:21
Alignment explanation
Indices: 37561501--37561541 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
37561491 ATTTTGTATA
37561501 GTACTAATTTTAATTTGTTTT
1 GTACTAATTTTAATTTGTTTT
37561522 GTACTAATTTTAATTT-TTTT
1 GTACTAATTTTAATTTGTTTT
37561542 CTTATAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.63
Consensus pattern (21 bp):
GTACTAATTTTAATTTGTTTT
Found at i:37561630 original size:16 final size:16
Alignment explanation
Indices: 37561586--37561633 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
37561576 TAAACTTTAC
*
37561586 ATTTTATGAATTATTT
1 ATTTTATGATTTATTT
*
37561602 ATTTTTAT-TTTTATTT
1 A-TTTTATGATTTATTT
37561618 ATTTTATGATTTATTT
1 ATTTTATGATTTATTT
37561634 CAAATTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 6 0.22
16 15 0.56
17 6 0.22
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (16 bp):
ATTTTATGATTTATTT
Found at i:37564646 original size:46 final size:46
Alignment explanation
Indices: 37564596--37564767 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
37564586 TGGTTGAGCA
*
37564596 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
37564642 TCCGAACTCGTTGAGTTGAGTCTGAG-T---TTGTGAGATGTAACCAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
*
37564687 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
37564735 CCCGAGCTCGTT-AGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
37564768 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 22 0.21
46 34 0.33
47 25 0.24
48 3 0.03
50 6 0.06
51 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:37571781 original size:43 final size:42
Alignment explanation
Indices: 37571733--37571899 Score: 160
Period size: 43 Copynumber: 3.9 Consensus size: 42
37571723 GATATCGAGA
37571733 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTCTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATT-TAT
* * *
37571776 TGTGATTACGTGTAAGACCATGTCTGAGACATTGGCATTGTTAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCA-T-TTAT
* * * * * *
37571820 T-CGATTTCGTGTAAGACTC-TGTCTAGGACAGTGGCATTGAT
1 TGTGATTACATGTAAGAC-CATGTCTGGGACATTGGCATTTAT
* * *
37571861 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATT
37571900 GTATGAGCTA
Statistics
Matches: 101, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
41 2 0.02
42 10 0.10
43 83 0.82
44 5 0.05
45 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.34
Consensus pattern (42 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTTAT
Found at i:37576417 original size:35 final size:35
Alignment explanation
Indices: 37576377--37576449 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
37576367 TTGAGTGTTA
*
37576377 AACATTTTACCTTATATTATCTGTTTGTTAATGCT
1 AACATTTTACCTTATATTATATGTTTGTTAATGCT
37576412 AACATTTTACCTTATATTATATGTTTGTTAATGCT
1 AACATTTTACCTTATATTATATGTTTGTTAATGCT
37576447 AAC
1 AAC
37576450 TATCTTTGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.49
Consensus pattern (35 bp):
AACATTTTACCTTATATTATATGTTTGTTAATGCT
Found at i:37578363 original size:27 final size:27
Alignment explanation
Indices: 37578314--37578374 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
37578304 AATAAAGTAG
*
37578314 ATTATATATTATTTTAATAATATTATA
1 ATTATATATTATTTTAATAATATAATA
* * *
37578341 TTTATA-ATTTTTTTAATTCATATAATA
1 ATTATATATTATTTTAA-TAATATAATA
37578368 ATTATAT
1 ATTATAT
37578375 TAAGAATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATATATTATTTTAATAATATAATA
Found at i:37578468 original size:58 final size:58
Alignment explanation
Indices: 37578362--37578485 Score: 178
Period size: 58 Copynumber: 2.1 Consensus size: 58
37578352 TTTAATTCAT
* * *
37578362 ATAATAATTATATTAAGAATATTATTAAATTGTATATTATTTTATTAAATTATATTTA
1 ATAATAATAATATTAAGAATATGATTAAATTATATATTATTTTATTAAATTATATTTA
* * *
37578420 ATAATAATAATGTTAA-AATATGATTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATAATATTAAGAATATGATTAAATTATATATTA-TTTTATTAAATTATATTTA
37578478 ATAATAAT
1 ATAATAAT
37578486 CTTATTAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 19 0.32
58 40 0.68
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (58 bp):
ATAATAATAATATTAAGAATATGATTAAATTATATATTATTTTATTAAATTATATTTA
Found at i:37578494 original size:58 final size:56
Alignment explanation
Indices: 37578362--37578501 Score: 172
Period size: 58 Copynumber: 2.4 Consensus size: 56
37578352 TTTAATTCAT
* *
37578362 ATAATAATTATATTAAGAATATTATTAAATTGTATATTATTTTATTAAATTATATTTA
1 ATAATAATT-TATTAA-AATATGATTAAATTATATATTATTTTATTAAATTATATTTA
* * * *
37578420 ATAATAATAATGTTAAAATATGATTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAAT-TTATTAAAATATGATTAAATTATATATTA-TTTTATTAAATTATATTTA
*
37578478 ATAATAATCTTATTAAAATTTGAT
1 ATAATAAT-TTATTAAAATATGAT
37578502 AATAATAACA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 19 0.27
58 51 0.73
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (56 bp):
ATAATAATTTATTAAAATATGATTAAATTATATATTATTTTATTAAATTATATTTA
Found at i:37578687 original size:16 final size:16
Alignment explanation
Indices: 37578666--37578720 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
37578656 TGAACTACTT
*
37578666 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
*
37578682 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
37578698 ATTACAG-TCCTATTCC
1 ATTACAGCT-CTATTCC
37578714 ATTACAG
1 ATTACAG
37578721 TGAACCAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
15 1 0.03
16 34 0.97
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:37579201 original size:24 final size:24
Alignment explanation
Indices: 37579147--37579219 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
37579137 AACCACTATT
* ** **
37579147 TCGAGAACGGAAACTTTCGTACCC
1 TCGAGAACAGAAACTTTCACAATC
*
37579171 TCAAGAACAGAAACTTTCACAATC
1 TCGAGAACAGAAACTTTCACAATC
* *
37579195 TCGAGAATAAAAACTTTCACAATC
1 TCGAGAACAGAAACTTTCACAATC
37579219 T
1 T
37579220 GAGGAATAGG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.23
Consensus pattern (24 bp):
TCGAGAACAGAAACTTTCACAATC
Found at i:37579226 original size:24 final size:24
Alignment explanation
Indices: 37579181--37579227 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
37579171 TCAAGAACAG
37579181 AAACTTTCACAATCTCGAGAATAA
1 AAACTTTCACAATCTCGAGAATAA
37579205 AAACTTTCACAATCT-GAGGAATA
1 AAACTTTCACAATCTCGA-GAATA
37579228 GGAACATCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (24 bp):
AAACTTTCACAATCTCGAGAATAA
Found at i:37581910 original size:36 final size:36
Alignment explanation
Indices: 37581852--37581920 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
37581842 GTCAGGAAGC
* *
37581852 CTTTAATTCTTTATCTATTCTATTATTTCTTTTTTA
1 CTTTAATTCTTTATCTACTCTATTATTTATTTTTTA
* * *
37581888 CTTTAATTCTTTTTCTCCTCTATTCTTTATTTT
1 CTTTAATTCTTTATCTACTCTATTATTTATTTT
37581921 CTTCTATTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.16, C:0.17, G:0.00, T:0.67
Consensus pattern (36 bp):
CTTTAATTCTTTATCTACTCTATTATTTATTTTTTA
Found at i:37582218 original size:12 final size:12
Alignment explanation
Indices: 37582201--37582234 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
37582191 CGGCCTGTCC
37582201 ATATTAATTTTT
1 ATATTAATTTTT
*
37582213 ATATTATTTTTT
1 ATATTAATTTTT
37582225 ATA-TAATTTT
1 ATATTAATTTT
37582235 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:37582270 original size:18 final size:20
Alignment explanation
Indices: 37582235--37582273 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
37582225 ATATAATTTT
*
37582235 AAAATATATATAATACATCA
1 AAAATATATATAAAACATCA
37582255 AAAATAT-TA-AAAACATCA
1 AAAATATATATAAAACATCA
37582273 A
1 A
37582274 TATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 7 0.39
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAATATATATAAAACATCA
Found at i:37582402 original size:30 final size:30
Alignment explanation
Indices: 37582358--37582420 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
37582348 ACTTAACAAG
37582358 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
37582388 CAAATATCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
37582418 CAA
1 CAA
37582421 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:37582772 original size:30 final size:30
Alignment explanation
Indices: 37582738--37582799 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
37582728 ACTTATTTTA
*
37582738 TTGTTAATTTTGTTATTATTTTATAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
37582768 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
37582798 TT
1 TT
37582800 ACTTGTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCAT
Found at i:37589442 original size:21 final size:21
Alignment explanation
Indices: 37589406--37589448 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
37589396 TTTGGGTAGA
*
37589406 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACAAGCTTCTGT
* *
37589427 TCAGCTCTTATAAGCTTTTGT
1 TCAGCTCTTACAAGCTTCTGT
37589448 T
1 T
37589449 GGTGTGTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.44
Consensus pattern (21 bp):
TCAGCTCTTACAAGCTTCTGT
Found at i:37596456 original size:11 final size:11
Alignment explanation
Indices: 37596442--37596490 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
37596432 AGATAAAAAT
37596442 TATTTTATTAA
1 TATTTTATTAA
*
37596453 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
37596466 TATTTTATTAT
1 TATTTTATTAA
37596477 TATTTTATTAA
1 TATTTTATTAA
37596488 TAT
1 TAT
37596491 ATAAAGAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 19 0.59
12 6 0.19
13 7 0.22
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:37596469 original size:24 final size:24
Alignment explanation
Indices: 37596442--37596492 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
37596432 AGATAAAAAT
37596442 TATTTTATTAATATTTTAATAAGA
1 TATTTTATTAATATTTTAATAAGA
* * *
37596466 TATTTTATTATTATTTTATTAATA
1 TATTTTATTAATATTTTAATAAGA
37596490 TAT
1 TAT
37596493 AAAGAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
TATTTTATTAATATTTTAATAAGA
Found at i:37596925 original size:46 final size:46
Alignment explanation
Indices: 37596873--37597192 Score: 406
Period size: 46 Copynumber: 7.0 Consensus size: 46
37596863 GCTTTCTGAA
** *
37596873 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
37596919 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
37596965 ATGAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
37597011 GGGAAATGAATAGGACCATGGTTGAAAGATACTATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
37597057 ATGAAATGAATAAGACCATGGTTGAAGGATACTATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
37597103 ATAAAATGAACAAGACCATGGTTGAAGGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
37597149 ATAAAATGAACAAGACCATGGTTGAAAGACACTATGGCATCATG
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
37597193 TCAAAGATAA
Statistics
Matches: 252, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 252 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:37606113 original size:21 final size:18
Alignment explanation
Indices: 37606067--37606114 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 18
37606057 ATGTGACATT
37606067 AATTTAATAAAAATATTA
1 AATTTAATAAAAATATTA
*
37606085 AATATTAATACAATATTATTA
1 AAT-TTAATA-AA-AATATTA
37606106 ATATTTAAT
1 A-ATTTAAT
37606115 TCATCCTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 6 0.24
20 2 0.08
21 12 0.48
22 2 0.08
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTTAATAAAAATATTA
Found at i:37610479 original size:3 final size:3
Alignment explanation
Indices: 37610471--37610507 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
37610461 CTGCTTTTCA
37610471 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
37610508 CACTGTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:37613872 original size:42 final size:42
Alignment explanation
Indices: 37613818--37613945 Score: 125
Period size: 42 Copynumber: 3.0 Consensus size: 42
37613808 TAGGATTACT
* * *
37613818 GAGATTATGTGTAAGACTATATCTAGGATATGACATTGATAT
1 GAGATTACGTGTAAGACCATATCTAGGATATGACATTGATAC
* * * * *
37613860 GAGACTT-CGTGTAAGACCATAGAC-GGGCTATTGGCATCGATAC
1 GAGA-TTACGTGTAAGACCATA-TCTAGGATA-TGACATTGATAC
* *
37613903 GAGATTACATGTAAGACCATATCTAGGATATGACATTGGTAC
1 GAGATTACGTGTAAGACCATATCTAGGATATGACATTGATAC
37613945 G
1 G
37613946 GTACTGTGTG
Statistics
Matches: 66, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
42 33 0.50
43 33 0.50
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTAGGATATGACATTGATAC
Found at i:37614072 original size:91 final size:91
Alignment explanation
Indices: 37613917--37614098 Score: 310
Period size: 91 Copynumber: 2.0 Consensus size: 91
37613907 TTACATGTAA
* *
37613917 GACCATATCTAGGATATGACATTGGTACGGTACTGTGTGTACGAGATTCCCGAGTATCCTTTAGT
1 GACCATATATAGGATATGACATTGGTACGGTACTATGTGTACGAGATTCCCGAGTATCCTTTAGT
37613982 ATTCCAAGTGGTTCAACAGGTAATTT
66 ATTCCAAGTGGTTCAACAGGTAATTT
*
37614008 GACCATATATGGGATATGACATTGGTACGGTACTATGTGTACGAGATTCCCGAGTATCCTTTAGT
1 GACCATATATAGGATATGACATTGGTACGGTACTATGTGTACGAGATTCCCGAGTATCCTTTAGT
* **
37614073 ATTTCAAGTGGTTCAATGGGTAATTT
66 ATTCCAAGTGGTTCAACAGGTAATTT
37614099 AATAGGTATG
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 85 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (91 bp):
GACCATATATAGGATATGACATTGGTACGGTACTATGTGTACGAGATTCCCGAGTATCCTTTAGT
ATTCCAAGTGGTTCAACAGGTAATTT
Found at i:37615628 original size:21 final size:22
Alignment explanation
Indices: 37615604--37615656 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
37615594 GAGTTCGGGG
37615604 CACGGGCATGTGT-CC-TGCCCA
1 CACGGGCATGTGTCCCATG-CCA
*
37615625 CACGGGC--GTATCCCATGCCA
1 CACGGGCATGTGTCCCATGCCA
37615645 CACGGGCATGTG
1 CACGGGCATGTG
37615657 ACCCCTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
19 3 0.12
20 12 0.46
21 9 0.35
22 2 0.08
ACGTcount: A:0.17, C:0.36, G:0.30, T:0.17
Consensus pattern (22 bp):
CACGGGCATGTGTCCCATGCCA
Found at i:37623355 original size:46 final size:46
Alignment explanation
Indices: 37623291--37623430 Score: 158
Period size: 46 Copynumber: 3.0 Consensus size: 46
37623281 TTACACTGAC
37623291 ACATCTCGCAGCCGATGCATGTCCCAGACATGTCTTAAACTAGCT-T
1 ACATCTCG-AGCCGATGCATGTCCCAGACATGTCTTAAACTAGCTCT
* *
37623337 ACATCTCGAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCT
1 ACATCTCGA-GCCGATGCATGTCCCAGACATGTCTTAAACTAGCTCT
* * * * *
37623384 -CATCTCAATGCCAATGCCATGTCCTAGACATGGTCTTACATTAGCTC
1 ACATCTCGA-GCCGATG-CATGTCCCAGACAT-GTCTTAAACTAGCTC
37623431 ACACAAGTGA
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
45 1 0.01
46 53 0.65
47 14 0.17
48 14 0.17
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (46 bp):
ACATCTCGAGCCGATGCATGTCCCAGACATGTCTTAAACTAGCTCT
Found at i:37630894 original size:46 final size:48
Alignment explanation
Indices: 37630797--37630924 Score: 167
Period size: 46 Copynumber: 2.8 Consensus size: 48
37630787 TGGGGTAGGG
* *
37630797 TGCCGATGCCATGTCCTAGACATGGTCTTACACT-GACACATCTCGCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGACACATCTCGAA
* * *
37630844 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGTTCTCGTCT-GAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-ACACATCTCGAA
37630889 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
37630925 CTCACACAAG
Statistics
Matches: 71, Mismatches: 5, Indels: 9
0.84 0.06 0.11
Matches are distributed among these distances:
44 10 0.14
45 16 0.23
46 19 0.27
47 14 0.20
48 12 0.17
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGACACATCTCGAA
Found at i:37633200 original size:22 final size:21
Alignment explanation
Indices: 37633175--37633228 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
37633165 TACAGGGCAC
* *
37633175 ACACGCCTGTGTGGCCCAAGGG
1 ACACGCCTGTGAGACCCAA-GG
* *
37633197 ACACGCCCGTGAGACCCTAGG
1 ACACGCCTGTGAGACCCAAGG
37633218 ACACGCCTGTG
1 ACACGCCTGTG
37633229 CTGCTGGCCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.20, C:0.35, G:0.31, T:0.13
Consensus pattern (21 bp):
ACACGCCTGTGAGACCCAAGG
Found at i:37635056 original size:13 final size:13
Alignment explanation
Indices: 37635038--37635068 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
37635028 AATTTTCTAT
37635038 AAATTTCAACATA
1 AAATTTCAACATA
*
37635051 AAATTTCAACTTA
1 AAATTTCAACATA
37635064 AAATT
1 AAATT
37635069 AACAGCACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (13 bp):
AAATTTCAACATA
Found at i:37635978 original size:29 final size:28
Alignment explanation
Indices: 37635941--37635999 Score: 109
Period size: 29 Copynumber: 2.1 Consensus size: 28
37635931 AGCAAGTGAT
37635941 TAAAATTTTCTATTTTCATCTCAAGATC
1 TAAAATTTTCTATTTTCATCTCAAGATC
37635969 TAAAACTTTTCTATTTTCATCTCAAGATC
1 TAAAA-TTTTCTATTTTCATCTCAAGATC
37635998 TA
1 TA
37636000 GGGTTTCGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 5 0.17
29 25 0.83
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.46
Consensus pattern (28 bp):
TAAAATTTTCTATTTTCATCTCAAGATC
Found at i:37636416 original size:36 final size:36
Alignment explanation
Indices: 37636376--37636452 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
37636366 CAAATTAATT
*
37636376 ATATTATTATCACATATTTAAATTCATTAAATATTG
1 ATATTATTATCACATATTTAAATTCATTAAATATTA
* * *
37636412 ATATTATTGTCATATATTTGAATTCATTAAATATTA
1 ATATTATTATCACATATTTAAATTCATTAAATATTA
37636448 ATATT
1 ATATT
37636453 TAGTAAAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.49
Consensus pattern (36 bp):
ATATTATTATCACATATTTAAATTCATTAAATATTA
Found at i:37642797 original size:41 final size:41
Alignment explanation
Indices: 37642731--37642808 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
37642721 TATAGAGGTT
* *
37642731 TTCACATTGCCGAGCACATGCCCGTGTCCTTGGCCCGTTTCC
1 TTCACATAGCCGAGCACACGCCCGTGTCCTT-GCCCGTTTCC
* *
37642773 TTCACATAGCCTAG-ACACGCCCGTGTCGTTGCCCGT
1 TTCACATAGCCGAGCACACGCCCGTGTCCTTGCCCGT
37642809 GTCCAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 6 0.19
41 14 0.44
42 12 0.38
ACGTcount: A:0.14, C:0.37, G:0.22, T:0.27
Consensus pattern (41 bp):
TTCACATAGCCGAGCACACGCCCGTGTCCTTGCCCGTTTCC
Found at i:37644986 original size:313 final size:313
Alignment explanation
Indices: 37644418--37645038 Score: 1161
Period size: 313 Copynumber: 2.0 Consensus size: 313
37644408 TAAATTTAAG
*
37644418 AATATGCATTTTCAAGTATATTTAAAGTTTACTTCGAGTTATACGAACTTACCTAGTAATTATTT
1 AATATGCATTTTCAAGTATATTTAAAGTATACTTCGAGTTATACGAACTTACCTAGTAATTATTT
*
37644483 CGGTTTTGTATTTCGGTTATTCCGAAACCTTTCATTTTTCACGGTCAACCTCCGGAATTGGTTCC
66 CGGTTTTGTATTTCGGTTATTCCGAAACCTTTCATTTTTCACGGTCAACCTCCAGAATTGGTTCC
*
37644548 TCGGGGTTATTAAGCTTGAAAATGTTGAAAACCCTAGCTATGGAGACCCTTCAATTTTCGGCAGC
131 TCGGGGTTATTAAGCTTGAAAATGTTGAAAACCCTAACTATGGAGACCCTTCAATTTTCGGCAGC
*
37644613 CATGGAGAAGAATATTGCTGAATTTTGCTTCCTTTTCCCTTTTTATTAATTTTATTACCAAATGA
196 CATGGAGAAGAATATTGCTAAATTTTGCTTCCTTTTCCCTTTTTATTAATTTTATTACCAAATGA
*
37644678 CCAAAATGCCCTTCCTTACTAACCTTTCAAAATTTTCCATGTATGCCCCTTTC
261 CCAAAATGCCCTTCCTTACTAACCTTTCAAAAATTTCCATGTATGCCCCTTTC
*
37644731 AATATGCATTTTCAAGTATATTTAAAGTATACTTCGAGTTATACGAACTTACCTAGTAATTGTTT
1 AATATGCATTTTCAAGTATATTTAAAGTATACTTCGAGTTATACGAACTTACCTAGTAATTATTT
* *
37644796 CGTTTTTGTATTTCGGTTATTCCGAAACCTTTCATTTTTCACGGTCAACCTCTAGAATTGGTTCC
66 CGGTTTTGTATTTCGGTTATTCCGAAACCTTTCATTTTTCACGGTCAACCTCCAGAATTGGTTCC
37644861 TCGGGGTTATTAAGCTTGAAAATGTTGAAAACCCTAACTATGGAGACCCTTCAATTTTCGGCAGC
131 TCGGGGTTATTAAGCTTGAAAATGTTGAAAACCCTAACTATGGAGACCCTTCAATTTTCGGCAGC
*
37644926 CATGGAGAATAATATTGCTAAATTTTGCTTCCTTTTCCCTTTTTATTAATTTTATTACCAAATGA
196 CATGGAGAAGAATATTGCTAAATTTTGCTTCCTTTTCCCTTTTTATTAATTTTATTACCAAATGA
37644991 CCAAAATGCCCTTCCTTACTAACCTTTCAAAAATTTCCATGTATGCCC
261 CCAAAATGCCCTTCCTTACTAACCTTTCAAAAATTTCCATGTATGCCC
37645039 ATTTTTGTCC
Statistics
Matches: 299, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
313 299 1.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (313 bp):
AATATGCATTTTCAAGTATATTTAAAGTATACTTCGAGTTATACGAACTTACCTAGTAATTATTT
CGGTTTTGTATTTCGGTTATTCCGAAACCTTTCATTTTTCACGGTCAACCTCCAGAATTGGTTCC
TCGGGGTTATTAAGCTTGAAAATGTTGAAAACCCTAACTATGGAGACCCTTCAATTTTCGGCAGC
CATGGAGAAGAATATTGCTAAATTTTGCTTCCTTTTCCCTTTTTATTAATTTTATTACCAAATGA
CCAAAATGCCCTTCCTTACTAACCTTTCAAAAATTTCCATGTATGCCCCTTTC
Found at i:37654697 original size:46 final size:46
Alignment explanation
Indices: 37654625--37654792 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 46
37654615 GGTTGTATGT
* * *
37654625 GAGCCAATGT-AGACATATCTGGGACATGCATCGGCCACGTTATAA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATATAA
* * * *
37654670 GAGCCAGTGTAAGACATGTCTGTGACATGCATCGG-CATTGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCA-CGATATAA
* * *
37654716 GAGCTAGTGTAAGACATGTCTTGGACATGCATCGGCCTCAGGATATACA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-CACGATATA-A
* *
37654765 -AGCTAGTGTAAGACCTGTCTGGGACATG
1 GAGCCAGTGTAAGACATGTCTGGGACATG
37654793 GTGTTAGCTT
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
45 11 0.11
46 58 0.57
48 30 0.29
49 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATATAA
Found at i:37654877 original size:49 final size:49
Alignment explanation
Indices: 37654810--37654983 Score: 176
Period size: 49 Copynumber: 3.6 Consensus size: 49
37654800 CTTGTTGTGT
37654810 GTCAGTGTAAGACCTGTCTAGGACATGGCATCGACAC-CGATAGATGAAA
1 GTCAGTGTAAGACCTGTCTAGGACATGGCATCGAC-CTCGATAGATGAAA
* * * * *
37654859 G-CTAGTGTAAGACTTGTCTAGGAGATGGCATCGGCCTTGATATATGAAA
1 GTC-AGTGTAAGACCTGTCTAGGACATGGCATCGACCTCGATAGATGAAA
* * * ** **
37654908 GTCAGTGTAAAACCTGTCTAGGACACGGCATCGACTTTAAT-G-TGCTA
1 GTCAGTGTAAGACCTGTCTAGGACATGGCATCGACCTCGATAGATGAAA
*
37654955 GCCAGTGTAAGACCATGTCTAGGACATGG
1 GTCAGTGTAAGACC-TGTCTAGGACATGG
37654984 GATCAGCATC
Statistics
Matches: 103, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
47 15 0.15
48 15 0.15
49 72 0.70
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTAGGACATGGCATCGACCTCGATAGATGAAA
Found at i:37659115 original size:31 final size:31
Alignment explanation
Indices: 37659069--37659154 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
37659059 TCAATCTCAG
37659069 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
37659099 CATATCACTAGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
37659130 CATGTCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
37659155 TGAAACAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:37659419 original size:27 final size:27
Alignment explanation
Indices: 37659361--37659444 Score: 120
Period size: 26 Copynumber: 3.2 Consensus size: 27
37659351 GGAGGCCTAG
*
37659361 CCTTTTTTAAT-AACTGGGGCAAAAGC
1 CCTTTTTTGATAAACTGGGGCAAAAGC
37659387 CC-TTTTTGATAAACTGGGGCAAAAGC
1 CCTTTTTTGATAAACTGGGGCAAAAGC
* *
37659413 CCTTTTTTGGTAAACTGGGGC-ATAGC
1 CCTTTTTTGATAAACTGGGGCAAAAGC
37659439 CCTTTT
1 CCTTTT
37659445 GAACTTCCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 7 0.13
26 29 0.55
27 17 0.32
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (27 bp):
CCTTTTTTGATAAACTGGGGCAAAAGC
Found at i:37659508 original size:11 final size:11
Alignment explanation
Indices: 37659492--37659528 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
37659482 TATTTGAATT
37659492 TATCATGTGCA
1 TATCATGTGCA
*
37659503 TATCA--TACA
1 TATCATGTGCA
37659512 TATCATGTGCA
1 TATCATGTGCA
37659523 TATCAT
1 TATCAT
37659529 ACATATCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:37659517 original size:20 final size:20
Alignment explanation
Indices: 37659492--37659539 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
37659482 TATTTGAATT
37659492 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
37659512 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
37659532 TATCATGT
1 TATCATGT
37659540 ATATCAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (20 bp):
TATCATGTGCATATCATACA
Found at i:37667176 original size:31 final size:31
Alignment explanation
Indices: 37667133--37667218 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
37667123 TCAATCTCAG
37667133 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
37667163 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
37667194 CATATCACTGGGTCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
37667219 TGAAACAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:37667472 original size:26 final size:26
Alignment explanation
Indices: 37667436--37667507 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
37667426 CTCTTTTAAT
*
37667436 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
* *
37667462 AACTGGGGCAAAAGCCATTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
37667488 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
37667508 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 9 0.22
26 32 0.78
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:37667580 original size:20 final size:20
Alignment explanation
Indices: 37667555--37667602 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
37667545 TATATGAATT
*
37667555 TATCATGTGTATATCATACA
1 TATCATGTGCATATCATACA
37667575 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
37667595 TATCATGT
1 TATCATGT
37667603 ATATCAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
TATCATGTGCATATCATACA
Found at i:37678551 original size:18 final size:18
Alignment explanation
Indices: 37678528--37678562 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37678518 CCCTCATCCT
* *
37678528 CTAAGGGGAAGTAGAAAG
1 CTAAGGGAAAGAAGAAAG
37678546 CTAAGGGAAAGAAGAAA
1 CTAAGGGAAAGAAGAAA
37678563 TCGACTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.34, T:0.09
Consensus pattern (18 bp):
CTAAGGGAAAGAAGAAAG
Found at i:37678758 original size:40 final size:40
Alignment explanation
Indices: 37678710--37678931 Score: 268
Period size: 40 Copynumber: 5.6 Consensus size: 40
37678700 AATTATACCT
* **
37678710 TGATTGCACATACGTGCCCTTATTTGTACTTCAATACCCC
1 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
*
37678750 TGATTGCACATATGTGCCCTTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* * *
37678790 TGATTACACATACGTGCCCCTGTTTGTACTTCGGTACACC
1 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* * * *
37678830 TGATTGCACAT--GTGCCCCTGTTCGTACTTTGGTACCCT
1 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* * *
37678868 TGATTGCACATACGTGCCCTTGTTCGTACTTCGGTAGCCT
1 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* * * *
37678908 TGATTACACTTACATGCCCCTGTT
1 TGATTGCACATACGTGCCCTTGTT
37678932 AACATTTCGA
Statistics
Matches: 160, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
38 34 0.21
40 126 0.79
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.36
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
Found at i:37678883 original size:78 final size:79
Alignment explanation
Indices: 37678707--37678903 Score: 279
Period size: 78 Copynumber: 2.5 Consensus size: 79
37678697 GTAAATTATA
* ** * *
37678707 CCTTGATTGCACATACGTGCCCTTATTTGTACTTCAATACCCCTGATTGCACATATGTGCCCTTG
1 CCTTGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACACCTGATTGCACA-ATGTGCCCCTG
*
37678772 TTTGTACTTCGGTAC
65 TTCGTACTTCGGTAC
* * *
37678787 CCCTGATTACACATACGTGCCCCTGTTTGTACTTCGGTACACCTGATTGCAC-ATGTGCCCCTGT
1 CCTTGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACACCTGATTGCACAATGTGCCCCTGT
*
37678851 TCGTACTTTGGTAC
66 TCGTACTTCGGTAC
*
37678865 CCTTGATTGCACATACGTGCCCTTGTTCGTACTTCGGTA
1 CCTTGATTGCACATACGTGCCCTTGTTTGTACTTCGGTA
37678904 GCCTTGATTA
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
78 58 0.56
80 45 0.44
ACGTcount: A:0.17, C:0.29, G:0.18, T:0.36
Consensus pattern (79 bp):
CCTTGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACACCTGATTGCACAATGTGCCCCTGT
TCGTACTTCGGTAC
Found at i:37689633 original size:8 final size:8
Alignment explanation
Indices: 37689620--37689654 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
37689610 AATGGCTTTG
37689620 TTCTTTCC
1 TTCTTTCC
37689628 TTCTTTCC
1 TTCTTTCC
*
37689636 TTCCTTCC
1 TTCTTTCC
37689644 TTCCTTTCC
1 TT-CTTTCC
37689653 TT
1 TT
37689655 TTTATTTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (8 bp):
TTCTTTCC
Found at i:37689641 original size:12 final size:13
Alignment explanation
Indices: 37689622--37689654 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
37689612 TGGCTTTGTT
*
37689622 CTTTCCTTCTTTC
1 CTTTCCTTCCTTC
37689635 C-TTCCTTCCTTC
1 CTTTCCTTCCTTC
37689647 CTTTCCTT
1 CTTTCCTT
37689655 TTTATTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (13 bp):
CTTTCCTTCCTTC
Found at i:37700228 original size:11 final size:12
Alignment explanation
Indices: 37700205--37700229 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37700195 CATTGTTGAG
37700205 TTTTTGGGTTTT
1 TTTTTGGGTTTT
37700217 TTTTTGGGTTTT
1 TTTTTGGGTTTT
37700229 T
1 T
37700230 GGTCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (12 bp):
TTTTTGGGTTTT
Found at i:37704917 original size:52 final size:52
Alignment explanation
Indices: 37704839--37704939 Score: 130
Period size: 52 Copynumber: 1.9 Consensus size: 52
37704829 TCCCTCTTGT
* ** *
37704839 TTCAAAGTTAGGTGTCATTACATGGGATGGTGGTTTTCGCAACATCGATAGC
1 TTCAAAGTTAGGTGTCATGACATGGGATGGCAGTTTTCACAACATCGATAGC
* * * *
37704891 TTCAAATTTTGGTGTCGTGACATGGGATGGCAGTTTTCACGACATCGAT
1 TTCAAAGTTAGGTGTCATGACATGGGATGGCAGTTTTCACAACATCGAT
37704940 GGTTGTATAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.34
Consensus pattern (52 bp):
TTCAAAGTTAGGTGTCATGACATGGGATGGCAGTTTTCACAACATCGATAGC
Found at i:37710489 original size:5 final size:5
Alignment explanation
Indices: 37710479--37710510 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
37710469 TTGTGTGTTC
37710479 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
37710511 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:37710493 original size:9 final size:9
Alignment explanation
Indices: 37710479--37710509 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
37710469 TTGTGTGTTC
37710479 TTTATTTTA
1 TTTATTTTA
37710488 TTTATTTTA
1 TTTATTTTA
37710497 TTTTATTTTA
1 -TTTATTTTA
37710507 TTT
1 TTT
37710510 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:37714933 original size:5 final size:5
Alignment explanation
Indices: 37714923--37714954 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
37714913 TTGTGTGTTC
37714923 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
37714955 TCACATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:37714937 original size:9 final size:9
Alignment explanation
Indices: 37714923--37714953 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
37714913 TTGTGTGTTC
37714923 TTTATTTTA
1 TTTATTTTA
37714932 TTTATTTTA
1 TTTATTTTA
37714941 TTTTATTTTA
1 -TTTATTTTA
37714951 TTT
1 TTT
37714954 TTCACATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:37717413 original size:17 final size:17
Alignment explanation
Indices: 37717391--37717423 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37717381 TTTTATGTTT
*
37717391 TATTTTTTAGATATTTC
1 TATTTTTTAAATATTTC
37717408 TATTTTTTAAATATTT
1 TATTTTTTAAATATTT
37717424 ATTTACTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (17 bp):
TATTTTTTAAATATTTC
Found at i:37717426 original size:15 final size:16
Alignment explanation
Indices: 37717388--37717427 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
37717378 TAATTTTATG
*
37717388 TTTTATTTTTTAGATA
1 TTTTATTTTTTAAATA
37717404 TTTCTATTTTTTAAATA
1 TTT-TATTTTTTAAATA
37717421 -TTTATTT
1 TTTTATTT
37717428 ACTTATTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 5 0.23
16 5 0.23
17 12 0.55
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTATTTTTTAAATA
Found at i:37717801 original size:31 final size:31
Alignment explanation
Indices: 37717758--37717885 Score: 98
Period size: 31 Copynumber: 4.2 Consensus size: 31
37717748 ACTACACTAG
* *
37717758 TAGTCACCCAACTATTAGTAAGTTTCTTTTT
1 TAGTCACCCAACTATTAGTAAATTTCTTTTA
* * * * *****
37717789 TGGTCACTCAACTA-T-GGAAAGTTAGAAAA
1 TAGTCACCCAACTATTAGTAAATTTCTTTTA
* * *
37717818 TAGTCGCTCAACTATTAGTAAATTTCTTTTT
1 TAGTCACCCAACTATTAGTAAATTTCTTTTA
*
37717849 TAGTCACCCTACTATTAGTAAATTTCTTTTA
1 TAGTCACCCAACTATTAGTAAATTTCTTTTA
*
37717880 TGGTCA
1 TAGTCA
37717886 TTAGCTGACT
Statistics
Matches: 69, Mismatches: 26, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
29 17 0.25
30 2 0.03
31 50 0.72
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (31 bp):
TAGTCACCCAACTATTAGTAAATTTCTTTTA
Found at i:37718195 original size:15 final size:15
Alignment explanation
Indices: 37718175--37718204 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37718165 TAGAATTAAC
37718175 CCTCAATGTCACAAA
1 CCTCAATGTCACAAA
37718190 CCTCAATGTCACAAA
1 CCTCAATGTCACAAA
37718205 AAAAAAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (15 bp):
CCTCAATGTCACAAA
Found at i:37721078 original size:28 final size:28
Alignment explanation
Indices: 37721037--37721093 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
37721027 GTTAATTAAA
37721037 TAAAAACAAAATGAATTTTGTGACCATC
1 TAAAAACAAAATGAATTTTGTGACCATC
* *
37721065 TAAAAACAACATGAATTTTGTGATCATC
1 TAAAAACAAAATGAATTTTGTGACCATC
37721093 T
1 T
37721094 TTCTCTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.32
Consensus pattern (28 bp):
TAAAAACAAAATGAATTTTGTGACCATC
Found at i:37722014 original size:24 final size:24
Alignment explanation
Indices: 37721962--37722055 Score: 111
Period size: 24 Copynumber: 3.8 Consensus size: 24
37721952 CAACTCGTAT
*
37721962 GAGCTTACTGATATATCAGCTC-TTAA
1 GAGCTTACTG-T-TCTCAGCTCATT-A
37721988 GAGCTTACTGTTCTCAGCTCATTA
1 GAGCTTACTGTTCTCAGCTCATTA
*
37722012 GAGCTTACTGTT-TCCAGCTCAATA
1 GAGCTTACTGTTCT-CAGCTCATTA
37722036 GAGCTTACTGTTCATCAGCT
1 GAGCTTACTGTTC-TCAGCT
37722056 TAGAAGAAGC
Statistics
Matches: 62, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
23 1 0.02
24 42 0.68
25 8 0.13
26 11 0.18
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.35
Consensus pattern (24 bp):
GAGCTTACTGTTCTCAGCTCATTA
Found at i:37722081 original size:50 final size:48
Alignment explanation
Indices: 37721962--37722089 Score: 123
Period size: 50 Copynumber: 2.6 Consensus size: 48
37721952 CAACTCGTAT
* ** **
37721962 GAGCTTACTGATATATCAGCTCTTAAGAGCTTACTGTTCTCAGCTCATTA
1 GAGCTTACTG-TAT-CCAGCTCAAAAGAGCTTACTGTTCTCAGCTCAGAA
* * *
37722012 GAGCTTACTGTTTCCAGCTCAATAGAGCTTACTGTTCATCAGCTTAGAA
1 GAGCTTACTGTATCCAGCTCAAAAGAGCTTACTGTTC-TCAGCTCAGAA
*
37722061 GAAGCTTACTG-ATCATAGCTCAAAAGAGC
1 G-AGCTTACTGTATC-CAGCTCAAAAGAGC
37722090 GAATACGATG
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
48 20 0.31
49 13 0.20
50 31 0.48
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (48 bp):
GAGCTTACTGTATCCAGCTCAAAAGAGCTTACTGTTCTCAGCTCAGAA
Found at i:37722087 original size:25 final size:26
Alignment explanation
Indices: 37721963--37722087 Score: 84
Period size: 24 Copynumber: 5.0 Consensus size: 26
37721953 AACTCGTATG
* **
37721963 AGCTTACTGATATATCAGCTCTTAAG-
1 AGCTTACTGAT-CATCAGCTCAAAAGA
* **
37721989 AGCTTACTGTTC-TCAGCTCATTAG-
1 AGCTTACTGATCATCAGCTCAAAAGA
* *
37722013 AGCTTACTG-T-TTCCAGCTCAATAG-
1 AGCTTACTGATCAT-CAGCTCAAAAGA
* * *
37722037 AGCTTACTGTTCATCAGCTTAGAAGA
1 AGCTTACTGATCATCAGCTCAAAAGA
37722063 AGCTTACTGATCAT-AGCTCAAAAGA
1 AGCTTACTGATCATCAGCTCAAAAGA
37722088 GCGAATACGA
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
23 2 0.02
24 38 0.46
25 18 0.22
26 24 0.29
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (26 bp):
AGCTTACTGATCATCAGCTCAAAAGA
Found at i:37727887 original size:40 final size:39
Alignment explanation
Indices: 37727803--37727987 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
37727793 TCAAATGATG
* * * * *
37727803 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
37727843 TCCGGACTAAGATCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
37727883 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
37727922 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
37727963 -CCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTC-CGAAGGCATTTG
37727988 AATGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 35 0.29
40 78 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:37727940 original size:79 final size:81
Alignment explanation
Indices: 37727803--37727987 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
37727793 TCAAATGATG
* *
37727803 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
37727867 TGTACGAGATACTA-A
66 TGTACGAGATACTATA
* * * **
37727882 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
37727944 TTTGTGCGAGTTACTATA
64 TTTGTACGAGATACTATA
* * *
37727962 ACCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37727988 AATGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.64
80 31 0.35
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTACGAGATACTATA
Found at i:37728009 original size:79 final size:79
Alignment explanation
Indices: 37727856--37728020 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
37727846 GGACTAAGAT
* **
37727856 CCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
37727921 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * * *
37727935 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCTCGAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCATTTGTACGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
37727998 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
37728014 CCGAAGG
1 CCGAAGG
37728021 TATGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:37728300 original size:49 final size:49
Alignment explanation
Indices: 37728212--37728718 Score: 806
Period size: 49 Copynumber: 10.6 Consensus size: 49
37728202 AAGGGTTGGT
*
37728212 AATGTGAAAGTG--TATATATGTGATAAGGTCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
37728259 AATGTGAAAGTGTATATATATGTGATAGGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
37728308 GATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
37728357 AATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
37728406 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
37728455 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
37728502 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
37728551 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
37728598 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
37728645 AATGTGAAAGTG--TATATATGTGA-CAGGACCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGG-CCTAATGGCCGATGTGATG
*
37728692 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
37728719 TCCGAAGGGC
Statistics
Matches: 434, Mismatches: 18, Indels: 15
0.93 0.04 0.03
Matches are distributed among these distances:
46 3 0.01
47 196 0.45
48 3 0.01
49 232 0.53
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:37728497 original size:96 final size:96
Alignment explanation
Indices: 37728212--37728718 Score: 812
Period size: 96 Copynumber: 5.3 Consensus size: 96
37728202 AAGGGTTGGT
*
37728212 AATGTGAAAGTG--TATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
* *
37728275 TATATGTGATAGGGCCTAATAGCCGATGTGATG
64 TATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
37728308 GATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
*
37728373 TATATGTGATAGGGCCTAATGGCCGATGTGATG
64 TATATGTGATAAGGCCTAATGGCCGATGTGATG
37728406 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
37728471 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
37728502 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
37728567 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
37728598 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * * *
37728661 TATGTGA-CAGGACCGAGTGGCCAACGTGATG
66 TATGTGATAAGG-CCTAATGGCCGATGTGATG
*
37728692 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
37728719 TCCGAAGGGC
Statistics
Matches: 393, Mismatches: 13, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
93 3 0.01
94 94 0.24
95 1 0.00
96 155 0.39
98 140 0.36
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:37728878 original size:37 final size:37
Alignment explanation
Indices: 37728836--37728914 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
37728826 CCGAGCTCTA
* * *
37728836 AAGACCCGATGACTACGTGTGGGGATTTTATCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATATCCGGGT
* * *
37728873 AAGACCTGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATATCCGGGT
37728910 AAGAC
1 AAGAC
37728915 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATATCCGGGT
Found at i:37729860 original size:40 final size:40
Alignment explanation
Indices: 37729805--37730069 Score: 408
Period size: 40 Copynumber: 6.7 Consensus size: 40
37729795 GAGAATTGAG
37729805 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
37729845 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
37729885 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
37729925 AGTGATATATCCGAGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
37729965 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
37730005 AGTAATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAGGAGCATTCGTGCT
* * *
37730045 GGTGTTA-ATCCGGGCTAGGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGA
37730070 AGAGTAATCA
Statistics
Matches: 207, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 13 0.06
40 194 0.94
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:37733729 original size:39 final size:39
Alignment explanation
Indices: 37733681--37733809 Score: 172
Period size: 39 Copynumber: 3.3 Consensus size: 39
37733671 GACTAAGATT
*
37733681 CGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCC
1 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCC
* *
37733720 CGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAG-CC
* * *
37733760 CGAAGGCATTTGTGCGAGTTACT-ATAACC-GGCTATGTC
1 CGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGCC
37733798 CGAAGGCATTTG
1 CGAAGGCATTTG
37733810 AACGAGTAGC
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
38 13 0.16
39 40 0.50
40 27 0.34
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCC
Found at i:37733816 original size:38 final size:40
Alignment explanation
Indices: 37733627--37733809 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
37733617 TCGAATGATG
* * * * *
37733627 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
37733667 TCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
37733707 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37733746 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
37733787 -CC-GGCTATGT-CCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37733810 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 13 0.11
39 40 0.33
40 59 0.48
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:37733828 original size:78 final size:78
Alignment explanation
Indices: 37733681--37733832 Score: 193
Period size: 78 Copynumber: 1.9 Consensus size: 78
37733671 GACTAAGATT
* **
37733681 CGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
37733746 TCCGGGTTAAGTCC
66 TCC-GGTTAAGTCC
* * *
37733760 CGAAGGCATTTGTGCGAGTTACT-ATAACC-GGCTATGTCCGAAGGCATTTGAACGAG-TAGCTA
1 CGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTA-CTA
*
37733822 TATCCGGTTAA
64 AATCCGGTTAA
37733833 ATTCGAAGGT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
77 8 0.12
78 32 0.50
79 24 0.38
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (78 bp):
CGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
TCCGGTTAAGTCC
Found at i:37734112 original size:49 final size:49
Alignment explanation
Indices: 37734033--37734538 Score: 822
Period size: 47 Copynumber: 10.6 Consensus size: 49
37734023 AAGGGTTGGT
*
37734033 AATGTGAAAATG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
37734080 AATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
37734129 GATGTGAGAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
37734178 AATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
37734226 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
37734275 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
37734322 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
37734371 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
37734418 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
37734465 AATGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
37734512 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
37734539 TCCCGAAGGG
Statistics
Matches: 436, Mismatches: 16, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
47 202 0.46
48 48 0.11
49 186 0.43
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:37734353 original size:96 final size:96
Alignment explanation
Indices: 37734033--37734538 Score: 828
Period size: 96 Copynumber: 5.3 Consensus size: 96
37734023 AAGGGTTGGT
*
37734033 AATGTGAAAATG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
*
37734096 TATATGTGATAGGGCCTAATGGCCGATGTGATG
64 TATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
37734129 GATGTGAGAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
37734194 TATATGTGAT-AGGCCTAATGGCCGATGTGATG
64 TATATGTGATAAGGCCTAATGGCCGATGTGATG
37734226 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
37734291 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
37734322 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
37734387 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
37734418 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * * *
37734481 TATGTGATAGGGCCGAGTGGCCAACGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
37734512 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
37734539 TCCCGAAGGG
Statistics
Matches: 391, Mismatches: 14, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
94 98 0.25
95 13 0.03
96 141 0.36
97 79 0.20
98 60 0.15
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:37738594 original size:45 final size:45
Alignment explanation
Indices: 37738443--37738702 Score: 275
Period size: 45 Copynumber: 5.9 Consensus size: 45
37738433 ATACCATACA
* * * *
37738443 ATGCCAACGTCCCAGACGTGGTCTTACATG--CT-ACCTCATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCACAT-ATATCG
* *
37738486 ATGCC-ACTGTCCCAGACAAGGTCTTACACG-AATC-GA-ATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCACATATATCG
** * * * *
37738527 ATATCGATGTCCCAGACATGGTCTTACACGTAACCACATATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCACATATATCG
* * *
37738572 ATGCTAACGTCCCAAACGTGGTCTTACACGAAATCACATATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCACATATATCG
* *
37738617 ATGCCAACGTCCCAGACATAGTCTTACATGAAATCACATATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCACATATATCG
* *
37738662 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCACATAT
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCACATAT
37738703 CGAAATCCTA
Statistics
Matches: 179, Mismatches: 30, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
41 26 0.15
42 9 0.05
43 25 0.14
44 4 0.02
45 115 0.64
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (45 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCACATATATCG
Found at i:37740164 original size:30 final size:30
Alignment explanation
Indices: 37740128--37740188 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
37740118 TTCCAGAGCC
37740128 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
37740158 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
37740188 T
1 T
37740189 GTATTAAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:37740663 original size:47 final size:45
Alignment explanation
Indices: 37740604--37740739 Score: 193
Period size: 47 Copynumber: 2.9 Consensus size: 45
37740594 TAGGATGGTT
*
37740604 GAACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT
1 GAACA-CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
*
37740650 GAA-ATGTCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAACA---CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
*
37740697 GAACACCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
1 GAACACCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
37740740 CGGGTTACAT
Statistics
Matches: 82, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
45 4 0.05
46 35 0.43
47 42 0.51
48 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.29
Consensus pattern (45 bp):
GAACACCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:37745770 original size:24 final size:25
Alignment explanation
Indices: 37745738--37745799 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 25
37745728 TCAACTCGTA
*
37745738 AGAGCTTACTATTCTC-AGCTCATT
1 AGAGCTTACTATTCTCTAGCTCAAT
*
37745762 AGAGCTTACTGTT-TCTAGCTCAAT
1 AGAGCTTACTATTCTCTAGCTCAAT
37745786 AGAGCTTACTATTC
1 AGAGCTTACTATTC
37745800 ATTAGCTTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.06
24 31 0.94
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (25 bp):
AGAGCTTACTATTCTCTAGCTCAAT
Found at i:37752752 original size:34 final size:34
Alignment explanation
Indices: 37752700--37752766 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
37752690 TCGGAAAATA
*
37752700 TTAAATTCTGTTTGAATGATGAATTTTAATGGAG
1 TTAAATTCCGTTTGAATGATGAATTTTAATGGAG
* *
37752734 TTAAGTTCCGTTTGAATGATGAATTTTGATGGA
1 TTAAATTCCGTTTGAATGATGAATTTTAATGGA
37752767 TATATGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.43
Consensus pattern (34 bp):
TTAAATTCCGTTTGAATGATGAATTTTAATGGAG
Found at i:37757238 original size:46 final size:45
Alignment explanation
Indices: 37757068--37757237 Score: 200
Period size: 46 Copynumber: 3.7 Consensus size: 45
37757058 TGTAACCCGC
* *
37757068 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
37757114 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
37757160 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
37757207 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
37757238 TCTCAACCAT
Statistics
Matches: 104, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 61 0.59
47 32 0.31
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:37759030 original size:21 final size:20
Alignment explanation
Indices: 37759006--37759045 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
37758996 TTTAGAAATG
37759006 ATTTAAAACTAAATCAGAAAC
1 ATTTAAAACTAAAT-AGAAAC
* *
37759027 ATTTAGAACTTAATAGAAA
1 ATTTAAAACTAAATAGAAA
37759046 GAGATAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (20 bp):
ATTTAAAACTAAATAGAAAC
Found at i:37763752 original size:30 final size:30
Alignment explanation
Indices: 37763716--37763776 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
37763706 TACTTAACTC
37763716 AAACTTTGGCAGAATTACAATTTTGCCCCT
1 AAACTTTGGCAGAATTACAATTTTGCCCCT
* * * *
37763746 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAGAATTACAATTTTGCCCCT
37763776 A
1 A
37763777 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAGAATTACAATTTTGCCCCT
Found at i:37774538 original size:42 final size:42
Alignment explanation
Indices: 37774487--37774568 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
37774477 TAAGACTATG
37774487 TGTAAGACCATATCTGGGATACGACATCAATATGAGACTTTT
1 TGTAAGACCATATCTGGGATACGACATCAATATGAGACTTTT
* * * *
37774529 TGTAAGACCATATCTGGGATATGGCATCGATGTGAGACTT
1 TGTAAGACCATATCTGGGATACGACATCAATATGAGACTT
37774569 CGTTTTGATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATACGACATCAATATGAGACTTTT
Found at i:37792612 original size:39 final size:39
Alignment explanation
Indices: 37792553--37792809 Score: 415
Period size: 39 Copynumber: 6.5 Consensus size: 39
37792543 TAATGGAGAA
*
37792553 TTATATCCGGGCTAACTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
37792592 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
37792631 TTATATCCAGGCTAAGTCTCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
37792670 TTATATCGGGGCTAAGCCCCGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
37792709 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
37792748 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
37792787 TTATATTCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
37792810 CATGCTTTGT
Statistics
Matches: 201, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 193 0.96
40 1 0.00
41 7 0.03
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:37800993 original size:50 final size:50
Alignment explanation
Indices: 37800938--37801037 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
37800928 GTGAGTATGT
37800938 ATCATATTACCATATGTGAAATATATGACAACGAATGATATGAATGTATA
1 ATCATATTACCATATGTGAAATATATGACAACGAATGATATGAATGTATA
37800988 ATCATATTACCATATGTGAAATATATGACAACGAATGATATGAATGTATA
1 ATCATATTACCATATGTGAAATATATGACAACGAATGATATGAATGTATA
37801038 CAAATAAATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (50 bp):
ATCATATTACCATATGTGAAATATATGACAACGAATGATATGAATGTATA
Found at i:37801028 original size:26 final size:26
Alignment explanation
Indices: 37800949--37801029 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
37800939 TCATATTACC
37800949 ATATGTGAAATATATGACAACGAATG
1 ATATGTGAAATATATGACAACGAATG
* * ** **
37800975 ATA--TG-AATGTATAATCATA-TTACC
1 ATATGTGAAATATATGA-CA-ACGAATG
37800999 ATATGTGAAATATATGACAACGAATG
1 ATATGTGAAATATATGACAACGAATG
37801025 ATATG
1 ATATG
37801030 AATGTATACA
Statistics
Matches: 37, Mismatches: 12, Indels: 12
0.61 0.20 0.20
Matches are distributed among these distances:
23 7 0.19
24 8 0.22
25 2 0.05
26 13 0.35
27 7 0.19
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (26 bp):
ATATGTGAAATATATGACAACGAATG
Found at i:37803164 original size:23 final size:22
Alignment explanation
Indices: 37803078--37803218 Score: 88
Period size: 23 Copynumber: 6.0 Consensus size: 22
37803068 GGACTCATCA
*
37803078 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCATA-GAGCTTACCG-T-T-T
* *
37803104 CAACTCATAAGAGCTTACTGTTTT
1 CAGCTCAT-AGAGCTTACCG-TTT
* *
37803128 TAGCTCATTGGAGCTTACCGTTT
1 CAGCTCA-TAGAGCTTACCGTTT
*
37803151 CAGCTCGTACGAGCTTA-C-TATT
1 CAGCTCATA-GAGCTTACCGT-TT
**
37803173 CAGCTCAATAGAGCTTACTATTT
1 CAGCTC-ATAGAGCTTACCGTTT
*
37803196 CAGCTCAATAGAGCTTACTGTTT
1 CAGCTC-ATAGAGCTTACCGTTT
37803219 ATTAGCTCAG
Statistics
Matches: 94, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
21 1 0.01
22 17 0.18
23 41 0.44
24 16 0.17
25 2 0.02
26 16 0.17
27 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (22 bp):
CAGCTCATAGAGCTTACCGTTT
Found at i:37803177 original size:22 final size:23
Alignment explanation
Indices: 37803113--37803214 Score: 109
Period size: 23 Copynumber: 4.4 Consensus size: 23
37803103 TCAACTCATA
* * *
37803113 AGAGCTTACTGTTTTTAGCTCATT
1 AGAGCTTACT-ATTTCAGCTCAAT
* ** *
37803137 GGAGCTTACCGTTTCAGCTC-GT
1 AGAGCTTACTATTTCAGCTCAAT
37803159 ACGAGCTTACTA-TTCAGCTCAAT
1 A-GAGCTTACTATTTCAGCTCAAT
37803182 AGAGCTTACTATTTCAGCTCAAT
1 AGAGCTTACTATTTCAGCTCAAT
37803205 AGAGCTTACT
1 AGAGCTTACT
37803215 GTTTATTAGC
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
22 19 0.29
23 39 0.59
24 8 0.12
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (23 bp):
AGAGCTTACTATTTCAGCTCAAT
Found at i:37803187 original size:45 final size:45
Alignment explanation
Indices: 37803129--37803214 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
37803119 TACTGTTTTT
* * * *
37803129 AGCTCATTGGAGCTTACCGTTTCAGCTC-GTACGAGCTTACTATTC
1 AGCTCAATAGAGCTTACCATTTCAGCTCAATA-GAGCTTACTATTC
*
37803174 AGCTCAATAGAGCTTACTATTTCAGCTCAATAGAGCTTACT
1 AGCTCAATAGAGCTTACCATTTCAGCTCAATAGAGCTTACT
37803215 GTTTATTAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
45 33 0.94
46 2 0.06
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (45 bp):
AGCTCAATAGAGCTTACCATTTCAGCTCAATAGAGCTTACTATTC
Found at i:37803310 original size:12 final size:12
Alignment explanation
Indices: 37803293--37803319 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37803283 TTATTGATGT
37803293 TATTCACCCGAG
1 TATTCACCCGAG
37803305 TATTCACCCGAG
1 TATTCACCCGAG
37803317 TAT
1 TAT
37803320 CCTTTGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (12 bp):
TATTCACCCGAG
Found at i:37805644 original size:48 final size:48
Alignment explanation
Indices: 37805587--37805862 Score: 287
Period size: 48 Copynumber: 5.8 Consensus size: 48
37805577 CATGGTAGGG
* * *
37805587 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGACCACATATCGA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGA
* *
37805635 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACAT--A
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGA
* * *** *
37805681 T-CGAA-GCCGATAGCCCAG-CTATGGTCTTACACAATG-TCTCATATCGA
1 TGCCAATGCC-ATATCCCAGAC-ATGGTCTTACA-TGGGATCACATATCGA
* * *
37805728 TGCCAATGCCATGTCCTAGACATGATCTTACATGGGATCACATAAT-GA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACAT-ATCGA
* *
37805776 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGA
* * * *
37805824 TGCCGATGTCATATCCCAGATATGGTCTTATATGGGATC
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATC
37805863 TCATCAACCT
Statistics
Matches: 186, Mismatches: 31, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
44 4 0.02
45 27 0.15
46 3 0.02
47 5 0.03
48 141 0.76
49 6 0.03
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (48 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGA
Found at i:37809128 original size:23 final size:25
Alignment explanation
Indices: 37809075--37809128 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
37809065 TGAAAATATA
*
37809075 ATTTTTAAAATCCCAAGTAATTTTCT
1 ATTTTTAAAATCCCAAG-AATTTTCC
* *
37809101 TTTTTTAGAATCCC-A-AATTTTCC
1 ATTTTTAAAATCCCAAGAATTTTCC
37809124 ATTTT
1 ATTTT
37809129 ATCATAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 11 0.46
25 1 0.04
26 12 0.50
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.50
Consensus pattern (25 bp):
ATTTTTAAAATCCCAAGAATTTTCC
Found at i:37815550 original size:21 final size:21
Alignment explanation
Indices: 37815512--37815551 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
37815502 ATAGTTGATT
*
37815512 TACCATCAAAATTTTCTTGTC
1 TACCATCAAAATTGTCTTGTC
37815533 TACC-TCAAACATTGTCTTG
1 TACCATCAAA-ATTGTCTTG
37815552 CTTGATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (21 bp):
TACCATCAAAATTGTCTTGTC
Found at i:37817415 original size:34 final size:34
Alignment explanation
Indices: 37817274--37817489 Score: 99
Period size: 34 Copynumber: 6.4 Consensus size: 34
37817264 AAAGAATTAA
*
37817274 TTGA-TTTTCTCAACAAAAGAAA-AAGCTTTA--GG
1 TTGAGTTTT-TCAAC-AAGGAAAGAAGCTTTATCGG
* * * * *
37817306 TTGAGTATTTCAACGAA-GAAATAAGATTGATAGG
1 TTGAGTTTTTCAAC-AAGGAAAGAAGCTTTATCGG
* * * * * *
37817340 TTAAGTGTCTT-AACAAAGAAAAAAAGATTTATCAG
1 TTGAGT-TTTTCAAC-AAGGAAAGAAGCTTTATCGG
* * *
37817375 TCGAGTTTTTGAAGAAGGAAAGAAGCTTTATCGG
1 TTGAGTTTTTCAACAAGGAAAGAAGCTTTATCGG
* * *
37817409 TTGAGTTTTTCAACAAGGGAAGAAGTTTTATAGG
1 TTGAGTTTTTCAACAAGGAAAGAAGCTTTATCGG
* * * *
37817443 TTGA--TTATCAATTAA-GAAAGAAGCTTTATTGAT
1 TTGAGTTTTTCAA-CAAGGAAAGAAGCTTTATCG-G
*
37817476 TTGAGTATTTCAAC
1 TTGAGTTTTTCAAC
37817490 TAGAAATGCC
Statistics
Matches: 137, Mismatches: 36, Indels: 20
0.71 0.19 0.10
Matches are distributed among these distances:
31 4 0.03
32 36 0.26
33 9 0.07
34 63 0.46
35 25 0.18
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.33
Consensus pattern (34 bp):
TTGAGTTTTTCAACAAGGAAAGAAGCTTTATCGG
Found at i:37820368 original size:22 final size:22
Alignment explanation
Indices: 37820343--37820387 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
37820333 GTTGTTTTTG
37820343 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
37820365 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
37820387 T
1 T
37820388 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:37824103 original size:22 final size:22
Alignment explanation
Indices: 37824075--37824119 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
37824065 AGGGGGAGTG
37824075 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
37824097 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
37824119 T
1 T
37824120 TTATTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:37831019 original size:20 final size:21
Alignment explanation
Indices: 37830994--37831039 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
37830984 GACTAAACTG
*
37830994 AAAACTT-TAAAATTTTTTAC
1 AAAACTTAGAAAATTTTTTAC
37831014 AAAACTTAGAAAATTTTTTAC
1 AAAACTTAGAAAATTTTTTAC
*
37831035 GAAAC
1 AAAAC
37831040 ATGCTTTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (21 bp):
AAAACTTAGAAAATTTTTTAC
Found at i:37835119 original size:41 final size:41
Alignment explanation
Indices: 37835053--37835232 Score: 245
Period size: 41 Copynumber: 4.4 Consensus size: 41
37835043 TTATTCCTTG
* * *
37835053 AATTACACATACGTGCCCCTGTTTGTACTTTGATACCCCTA
1 AATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTA
* *
37835094 AATTGCACATACATGCCCCTATTTGTACTTTGGTA-CCCTG
1 AATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTA
* * * *
37835134 AATTGCACATACGTGCCCTTGTTTGGACTTCGGTACCCCTA
1 AATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTA
* *
37835175 AATTACACATACGTGCCCCTATTTGTACTTTGGTACCCCTG
1 AATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTA
*
37835216 AATTGCACATATGTGCC
1 AATTGCACATACGTGCC
37835233 ACTTTTACAC
Statistics
Matches: 119, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
40 34 0.29
41 85 0.71
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTA
Found at i:37835186 original size:81 final size:82
Alignment explanation
Indices: 37835051--37835232 Score: 285
Period size: 81 Copynumber: 2.2 Consensus size: 82
37835041 AATTATTCCT
* * * *
37835051 TGAATTACACATACGTGCCCCTGTTTGTACTTTGATACCCCTAAATTGCACATACATGCCCCTAT
1 TGAATTGCACATACGTGCCCCTGTTTGGACTTCGATACCCCTAAATTACACATACATGCCCCTAT
37835116 TTGTACTTTGGTA-CCC
66 TTGTACTTTGGTACCCC
* * *
37835132 TGAATTGCACATACGTGCCCTTGTTTGGACTTCGGTACCCCTAAATTACACATACGTGCCCCTAT
1 TGAATTGCACATACGTGCCCCTGTTTGGACTTCGATACCCCTAAATTACACATACATGCCCCTAT
37835197 TTGTACTTTGGTACCCC
66 TTGTACTTTGGTACCCC
*
37835214 TGAATTGCACATATGTGCC
1 TGAATTGCACATACGTGCC
37835233 ACTTTTACAC
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
81 71 0.77
82 21 0.23
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.34
Consensus pattern (82 bp):
TGAATTGCACATACGTGCCCCTGTTTGGACTTCGATACCCCTAAATTACACATACATGCCCCTAT
TTGTACTTTGGTACCCC
Found at i:37839684 original size:27 final size:27
Alignment explanation
Indices: 37839653--37839802 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
37839643 TTAGTTTACC
* *
37839653 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
37839680 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
37839707 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
37839734 AAATTATTGAAATACCTTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTA
37839761 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
37839788 AAATTACTGAAATAC
1 AAATTACTGAAATAC
37839803 TCCTGTAAGA
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
26 4 0.04
27 93 0.91
28 5 0.05
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:37839801 original size:81 final size:82
Alignment explanation
Indices: 37839653--37839806 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 82
37839643 TTAGTTTACC
*
37839653 AAATTACTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
37839718 ATA-TCCTCGATTTGTA
66 ATACTCCTCGATTTGTA
* * ** * * * **
37839734 AAATTATTGAAATACCTTCAGTTTGCAAAATTACTGAAA-TACCCTCGATTTGTAAAATTACTGA
1 AAATTACTGAAATACCCTCAACTTGCAAAATTAC-CAAAGTACCCCCGATTTATAAAATTACCCA
37839798 AATACTCCT
65 AATACTCCT
37839807 GTAAGATAGA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
81 54 0.89
82 7 0.11
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (82 bp):
AAATTACTGAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
ATACTCCTCGATTTGTA
Found at i:37839820 original size:54 final size:53
Alignment explanation
Indices: 37839653--37839821 Score: 137
Period size: 54 Copynumber: 3.1 Consensus size: 53
37839643 TTAGTTTACC
* * * * * *
37839653 AAATTACTGAAATACCCTCAACTTGTAAAATTAC-CAAAGTACCCCCG-ATTTAT
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAA-TACTCCAGTA-TGAT
** * * * *
37839706 AAAATTACCCAAATATCCTCGATTTGTAAAATTATTGAAATACCTTCAGTTTGCA-
1 -AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATA-CTCCAGTATG-AT
* *
37839761 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACTCCTGTAAGAT
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACTCCAGTATGAT
37839814 AGAATTAC
1 A-AATTAC
37839822 CATTTTACCC
Statistics
Matches: 89, Mismatches: 20, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
52 1 0.01
53 7 0.08
54 73 0.82
55 7 0.08
56 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (53 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACTCCAGTATGAT
Found at i:37840064 original size:27 final size:27
Alignment explanation
Indices: 37839814--37840050 Score: 366
Period size: 27 Copynumber: 8.7 Consensus size: 27
37839804 CCTGTAAGAT
37839814 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
37839841 AGAATTATCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
37839868 AGAATTACTATTTTTACCCTCGATTTAC
1 AGAATTACCA-TTTTACCCTCGATTTAC
* *
37839896 AGAATTACCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
37839923 AGAATTACTATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
37839950 AGAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
37839977 AGAATTACCGTCTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
37840004 AGAATTACCGTCTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
37840031 AGAATTACCATTTTACCCTC
1 AGAATTACCATTTTACCCTC
37840051 AATGTAGAAA
Statistics
Matches: 193, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
27 169 0.88
28 24 0.12
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:37840091 original size:81 final size:81
Alignment explanation
Indices: 37839827--37840092 Score: 253
Period size: 81 Copynumber: 3.3 Consensus size: 81
37839817 ATTACCATTT
* * * * * * *
37839827 TACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTATAGAATTACTATTTTTACCCTCGAT
1 TACCCTCGATTTACAAAATTACCGTCTTACCCTCGATTTACAGAATTACCA-TTTTACCCTCAAT
* * ***
37839892 TTACAGAATTACCGTTT
65 GTACAAAATTACCGAAA
* * ** * * * *
37839909 TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCGTCTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATG
* ***
37839974 TACAGAATTACCGTCT
66 TACAAAATTACCGAAA
*
37839990 TACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATG
1 TACCCTCGATTTACAAAATTACCGTCTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATG
* **
37840055 TAGAAAATTATTGAAA
66 TACAAAATTACCGAAA
* *
37840071 TACCCTTGGTTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
37840093 AAAAATACCC
Statistics
Matches: 160, Mismatches: 24, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 115 0.72
82 45 0.28
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCGTCTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATG
TACAAAATTACCGAAA
Found at i:37840098 original size:27 final size:27
Alignment explanation
Indices: 37840068--37840186 Score: 112
Period size: 27 Copynumber: 4.4 Consensus size: 27
37840058 AAAATTATTG
* *
37840068 AAATACCCTTGGTTTACAAAATTACAA
1 AAATACCCTTGGTTTATAAAATTACCA
* * **
37840095 AAATACCCTCGATCAATAAAATTACCA
1 AAATACCCTTGGTTTATAAAATTACCA
* *
37840122 AAATACCATTGGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTATAAAATTACCA
* ** * **
37840149 AAATACCCCTACTTTGTGTAATTACCA
1 AAATACCCTTGGTTTATAAAATTACCA
37840176 AAATACCCTTG
1 AAATACCCTTG
37840187 TAGGGTAGAA
Statistics
Matches: 72, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATACCCTTGGTTTATAAAATTACCA
Found at i:37840102 original size:54 final size:54
Alignment explanation
Indices: 37840044--37840156 Score: 127
Period size: 54 Copynumber: 2.1 Consensus size: 54
37840034 ATTACCATTT
** *** *
37840044 TACCCTCAATGTAGAAAATTATTGAAATACCCTTGGTTTACAAAATTACAAAAA
1 TACCCTCAATCAAGAAAATTACCAAAATACCATTGGTTTACAAAATTACAAAAA
* * ** *
37840098 TACCCTCGATCAATAAAATTACCAAAATACCATTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATCAAGAAAATTACCAAAATACCATTGGTTTACAAAATTACAAAAA
37840152 TACCC
1 TACCC
37840157 CTACTTTGTG
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.28
Consensus pattern (54 bp):
TACCCTCAATCAAGAAAATTACCAAAATACCATTGGTTTACAAAATTACAAAAA
Found at i:37840198 original size:27 final size:27
Alignment explanation
Indices: 37840168--37840525 Score: 527
Period size: 27 Copynumber: 13.3 Consensus size: 27
37840158 TACTTTGTGT
*
37840168 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
37840195 AATTACCGAAATACCCTTGTAGGGAAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * * *
37840222 AATTAATGAAATACCCCTATCGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
37840249 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
37840276 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
37840303 AATGATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
37840330 AATGACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
37840357 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
**
37840384 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
37840411 AATTACCGAAATACCCTTGTAGAGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
37840438 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
37840465 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
37840492 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
37840519 AATTACC
1 AATTACC
37840526 ATTTTGCCCC
Statistics
Matches: 299, Mismatches: 32, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 299 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:37840199 original size:81 final size:80
Alignment explanation
Indices: 37840114--37840525 Score: 326
Period size: 81 Copynumber: 5.1 Consensus size: 80
37840104 CGATCAATAA
* ** * * * *
37840114 AATTACCAAAATACCATTGGTTTGTAA-AATTACCAAAATACCCCTACTTTGTGT-AATTACCAA
1 AATTACCGAAATACCATT-GTAGGGAAGAATTAACAAAATACCCCTA--TCGGGTAAATTACCAA
*
37840177 AATACCCTTGTAGGGTAG
63 AATACCCCTGTAGGGTAG
* ** *
37840195 AATTACCGAAATACCCTTGTAGGGAAGAATTAATGAAATACCCCTATCGGGTAGAATTACCGAAA
1 AATTACCGAAATACCATTGTAGGGAAGAATTAACAAAATACCCCTATCGGGTA-AATTACCAAAA
37840260 TACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAG
** * * * * * * * * *
37840276 AATTACCGAAATACCCCTGTAGGGTAGAATGATCGAAATACCCTTGTAGGGTAGAATGACCGAAA
1 AATTACCGAAATACCATTGTAGGGAAGAATTAACAAAATACCCCTATCGGGTA-AATTACCAAAA
37840341 TACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAG
* * * * * *
37840357 AATTACCGAAATACCCTTGTAGGGTAGAATT-ACTAAAATACCCTTGTAGGGTAGAATTACCGAA
1 AATTACCGAAATACCATTGTAGGGAAGAATTAAC-AAAATACCCCTATCGGGTA-AATTACCAAA
* *
37840421 ATACCCTTGTAGAGTAG
64 ATACCCCTGTAGGGTAG
* ** * * * * * * * *
37840438 AAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAGA
1 AATTACCGAAATACCATTGTAGGGAAGAATTAACAAAATACCCCTATCGGGTA-AATTACCAAAA
* * *
37840503 TACCCTTGTGGGGTAA
65 TACCCCTGTAGGGTAG
37840519 AATTACC
1 AATTACC
37840526 ATTTTGCCCC
Statistics
Matches: 289, Mismatches: 37, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
79 4 0.01
80 6 0.02
81 278 0.96
82 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (80 bp):
AATTACCGAAATACCATTGTAGGGAAGAATTAACAAAATACCCCTATCGGGTAAATTACCAAAAT
ACCCCTGTAGGGTAG
Found at i:37840960 original size:25 final size:25
Alignment explanation
Indices: 37840930--37841025 Score: 93
Period size: 25 Copynumber: 3.6 Consensus size: 25
37840920 CATTCACATT
*
37840930 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
*
37840955 CCGATTCTGATTTTGATTCTGTTACCTGATA
1 -C-----TGATTCTGATTCTGTTACCTGATA
* * *
37840986 CTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTTACCTGATA
37841011 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
37841026 ATTCTAGTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
25 35 0.57
26 1 0.02
30 1 0.02
31 24 0.39
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTGATA
Found at i:37840965 original size:31 final size:31
Alignment explanation
Indices: 37840927--37840997 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
37840917 TTGCATTCAC
37840927 ATTCTGATTTTGATTCTGTTACCTGATACCG
1 ATTCTGATTTTGATTCTGTTACCTGATACCG
*
37840958 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACCG
37840989 ATTCTGATT
1 ATTCTGATT
37840998 CTGTCACCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACCG
Found at i:37840971 original size:6 final size:6
Alignment explanation
Indices: 37840927--37841039 Score: 72
Period size: 6 Copynumber: 18.3 Consensus size: 6
37840917 TTGCATTCAC
* * * *
37840927 ATTCTG ATTTTG ATTCTG -TTACCTG ATACCG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
37840976 -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
37841026 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
37841040 AATGTTTCTT
Statistics
Matches: 82, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
5 6 0.07
6 64 0.78
7 9 0.11
8 3 0.04
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:37843163 original size:81 final size:82
Alignment explanation
Indices: 37843015--37843168 Score: 184
Period size: 81 Copynumber: 1.9 Consensus size: 82
37843005 TTAGTTTACC
** * * *
37843015 AAATTACTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAGTTACCCAA
1 AAATTACAAAAATACCCTCAACTTGCAAAATTACCAAAATACCCCCGATTTATAAAATTACCCAA
37843080 ATA-TCCTCGATTTGTA
66 ATACTCCTCGATTTGTA
** * * * * **
37843096 AAATTACAAAAATACCCTCAGTTTGCAAAATTACTAAAATACTCTCGATTTGTAAAATTACTGAA
1 AAATTACAAAAATACCCTCAACTTGCAAAATTACCAAAATACCCCCGATTTATAAAATTACCCAA
37843161 ATACTCCT
66 ATACTCCT
37843169 GTAAGATAGA
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
81 55 0.93
82 4 0.07
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (82 bp):
AAATTACAAAAATACCCTCAACTTGCAAAATTACCAAAATACCCCCGATTTATAAAATTACCCAA
ATACTCCTCGATTTGTA
Done.