Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 43 of 66
Found at i:15538140 original size:11 final size:11
Alignment explanation
Indices: 15538118--15538156 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
15538108 CACTATAAAT
*
15538118 TTTAAAATAAC
1 TTTAAAACAAC
*
15538129 TGTAAAACAAC
1 TTTAAAACAAC
15538140 TTTAAAACAAC
1 TTTAAAACAAC
15538151 TTTAAA
1 TTTAAA
15538157 CCCAAAAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.31
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:15540405 original size:19 final size:20
Alignment explanation
Indices: 15540378--15540423 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
15540368 AGGAGACAAG
*
15540378 ATAAAATTTTTA-AAATAAA
1 ATAATATTTTTATAAATAAA
*
15540397 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATAAATAAA
15540416 ATAATATT
1 ATAATATT
15540424 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATAAATAAA
Found at i:15540872 original size:20 final size:20
Alignment explanation
Indices: 15540827--15540864 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
15540817 TTTTTGCCCC
15540827 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
15540847 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
15540865 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:15543923 original size:19 final size:20
Alignment explanation
Indices: 15543896--15543941 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
15543886 AGGAGACAAG
*
15543896 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
15543915 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
15543934 ATAATATT
1 ATAATATT
15543942 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:15544752 original size:30 final size:31
Alignment explanation
Indices: 15544718--15544776 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
15544708 CCCTAGAGAG
15544718 AGAAAATCAA-AGAAAAAGTGTGA-ATTTTCA
1 AGAAAATCAAGAGAAAAA-TGTGAGATTTTCA
* *
15544748 AGAAAATTAAGTGAAAAATGTGAGATTTT
1 AGAAAATCAAGAGAAAAATGTGAGATTTT
15544777 TTCTATTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.51, C:0.03, G:0.19, T:0.27
Consensus pattern (31 bp):
AGAAAATCAAGAGAAAAATGTGAGATTTTCA
Found at i:15545605 original size:13 final size:13
Alignment explanation
Indices: 15545587--15545611 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15545577 GGAGAAATTG
15545587 TGATTTTATAAAA
1 TGATTTTATAAAA
15545600 TGATTTTATAAA
1 TGATTTTATAAA
15545612 TTTTTTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:15548609 original size:20 final size:20
Alignment explanation
Indices: 15548579--15548616 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15548569 AAAACCGAGC
15548579 CTTTCCTTCCTTTTCTCTTTT
1 CTTTCCTTCCTTTT-TCTTTT
15548600 CTTT-CTTCCTTTTTCTT
1 CTTTCCTTCCTTTTTCTT
15548617 CCTCTCGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (20 bp):
CTTTCCTTCCTTTTTCTTTT
Found at i:15549191 original size:11 final size:11
Alignment explanation
Indices: 15549175--15549209 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
15549165 TAGCTAAGTA
15549175 ATTTCACTTGC
1 ATTTCACTTGC
15549186 ATTTCACTTGC
1 ATTTCACTTGC
15549197 ATTTCACTTGC
1 ATTTCACTTGC
15549208 AT
1 AT
15549210 CCTACTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.26, G:0.09, T:0.46
Consensus pattern (11 bp):
ATTTCACTTGC
Found at i:15549216 original size:22 final size:22
Alignment explanation
Indices: 15549174--15549229 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
15549164 CTAGCTAAGT
*
15549174 AATTTCACTTGCATTTCACTTG
1 AATTTCACTTGCATCTCACTTG
*
15549196 CATTTCACTTGCATC-CTACTTG
1 AATTTCACTTGCATCTC-ACTTG
15549218 AATTTCATCTTG
1 AATTTCA-CTTG
15549230 GTTTCCATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 24 0.83
23 4 0.14
ACGTcount: A:0.21, C:0.25, G:0.09, T:0.45
Consensus pattern (22 bp):
AATTTCACTTGCATCTCACTTG
Found at i:15549344 original size:30 final size:29
Alignment explanation
Indices: 15549303--15549376 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
15549293 ACATAGGTCC
*
15549303 TCCAACATTTTCTTATTTACCATTTGACCT
1 TCCAAC-TTTTCTTATTTACAATTTGACCT
** *
15549333 TCCAAACTTTTCATCCTTTACAATTTGTCCT
1 TCC-AACTTTTC-TTATTTACAATTTGACCT
*
15549364 TCCAACATTTCTT
1 TCCAACTTTTCTT
15549377 TAATTCCAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
29 1 0.03
30 15 0.42
31 20 0.56
ACGTcount: A:0.23, C:0.28, G:0.03, T:0.46
Consensus pattern (29 bp):
TCCAACTTTTCTTATTTACAATTTGACCT
Found at i:15553265 original size:19 final size:17
Alignment explanation
Indices: 15553235--15553274 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
15553225 GAAACTCTTA
15553235 TTTTTTTTTTTAGTTAT
1 TTTTTTTTTTTAGTTAT
*
15553252 TTTTATTTTATTTATTTAT
1 TTTT-TTTT-TTTAGTTAT
15553271 TTTT
1 TTTT
15553275 CTACATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 4 0.20
19 12 0.60
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTTAGTTAT
Found at i:15558021 original size:21 final size:21
Alignment explanation
Indices: 15557995--15558038 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15557985 AATTAGTTTA
*
15557995 TTTTTA-TTGAGTTATTTTAAT
1 TTTTTACTT-AGTTACTTTAAT
*
15558016 TTTTTACTTATTTACTTTAAT
1 TTTTTACTTAGTTACTTTAAT
15558037 TT
1 TT
15558039 GGCTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTTACTTAGTTACTTTAAT
Found at i:15558021 original size:27 final size:26
Alignment explanation
Indices: 15557958--15558021 Score: 60
Period size: 27 Copynumber: 2.3 Consensus size: 26
15557948 TTTTAACTAG
15557958 AATTTTGTTATTTTTAGTTGTTTTTCT
1 AATTTT-TTATTTTTAGTTGTTTTTCT
*
15557985 AATTAGTTTATTTTTA-TTGAGTTATTT-T
1 AATT-TTTTATTTTTAGTT--GTT-TTTCT
15558013 AATTTTTTA
1 AATTTTTTA
15558022 CTTATTTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
26 2 0.06
27 17 0.55
28 9 0.29
29 3 0.10
ACGTcount: A:0.22, C:0.02, G:0.09, T:0.67
Consensus pattern (26 bp):
AATTTTTTATTTTTAGTTGTTTTTCT
Found at i:15561071 original size:2 final size:2
Alignment explanation
Indices: 15561064--15561094 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15561054 TCTATCTATG
15561064 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15561095 CCATCACCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15574425 original size:2 final size:2
Alignment explanation
Indices: 15574418--15574471 Score: 65
Period size: 2 Copynumber: 27.5 Consensus size: 2
15574408 AGATACAAAC
* * *
15574418 AT AT AT AT AA AG AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
15574460 CT AT AT AT -T AT A
1 AT AT AT AT AT AT A
15574472 CACCAATTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:15575292 original size:34 final size:34
Alignment explanation
Indices: 15575254--15575330 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 34
15575244 CCTTGGCATA
* *
15575254 TAACATTTGGTATTGAAACTTTGACTTTAACGTG
1 TAACATTTGATATTGAAACTTTGACTTTAACATG
* * ** *
15575288 TAACATCTGATGTTGAAGTTTTGATTTTAACATG
1 TAACATTTGATATTGAAACTTTGACTTTAACATG
*
15575322 TAATATTTG
1 TAACATTTG
15575331 TTGCTAAAGT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (34 bp):
TAACATTTGATATTGAAACTTTGACTTTAACATG
Found at i:15575519 original size:30 final size:30
Alignment explanation
Indices: 15575485--15575541 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
15575475 TTTTTCAACT
*
15575485 ATAACAATATTTTTTTGAACATAGCATATA
1 ATAACAATATTTTTTTAAACATAGCATATA
15575515 ATAACAATATTTTTTTAAACATAGCAT
1 ATAACAATATTTTTTTAAACATAGCAT
15575542 GTAACTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (30 bp):
ATAACAATATTTTTTTAAACATAGCATATA
Found at i:15575726 original size:29 final size:29
Alignment explanation
Indices: 15575677--15575768 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
15575667 AACAAAAAGA
* *
15575677 TAAACATGGTGTGTAATAACATTTTTTTT
1 TAAACATGGCGTGTAACAACATTTTTTTT
* * *
15575706 TCAACATGGCGTGTAGCAACA--TATTTT
1 TAAACATGGCGTGTAACAACATTTTTTTT
* * * *
15575733 TGAATATGGCGTGTAACAATATTATTTTT
1 TAAACATGGCGTGTAACAACATTTTTTTT
15575762 TAAACAT
1 TAAACAT
15575769 AATGTGTCAC
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
27 22 0.46
29 26 0.54
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (29 bp):
TAAACATGGCGTGTAACAACATTTTTTTT
Found at i:15575741 original size:27 final size:28
Alignment explanation
Indices: 15575679--15575761 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 28
15575669 CAAAAAGATA
* * *
15575679 AACATGGTGTGTAATAACATTTTTTTTTC
1 AACATGGCGTGTAACAACA-TTATTTTTC
* *
15575708 AACATGGCGTGTAGCAACA-TATTTTTG
1 AACATGGCGTGTAACAACATTATTTTTC
* *
15575735 AATATGGCGTGTAACAATATTATTTTT
1 AACATGGCGTGTAACAACATTATTTTT
15575762 TAAACATAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
27 22 0.49
28 7 0.16
29 16 0.36
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (28 bp):
AACATGGCGTGTAACAACATTATTTTTC
Found at i:15580052 original size:59 final size:59
Alignment explanation
Indices: 15579936--15580503 Score: 724
Period size: 59 Copynumber: 9.5 Consensus size: 59
15579926 TGTTTAAGCA
* * *
15579936 CGACCTATCTCAAAATAGGTTCGATTTAAACAAAATTGAAATTCTTAGACTTGATCTAGGCT
1 CGACCTATCTCAAAACAGGTTCGATTT--A-AAAATTGAAATTCCTAGACTTAATCTAGGCT
* * * * * *
15579998 CAATCTATCTCACAATAGGTTCTATTTAAAAATTGAAATTCCTAGACTTTATCTAGGCT
1 CGACCTATCTCAAAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCT
* * * * *
15580057 TGATCTATCTCAAAATAGGTTCGATTTTAAAAAATGAAATTCCTAGACTTAATCTAGGTT
1 CGACCTATCTCAAAACAGGTTCGA-TTTAAAAATTGAAATTCCTAGACTTAATCTAGGCT
*
15580117 CGACCTATCTCAAAACAGGTTCGATTTAAAAAAAATGAAATTCCTAGACTTAATCTAGGCT
1 CGACCTATCTCAAAACAGGTTCGATTT--AAAAATTGAAATTCCTAGACTTAATCTAGGCT
* ** * * *
15580178 TGATTTATCTCAAAACAGGTTTGATTTAAAAATTAAAATTTCTAGACTTAATCTAGGCT
1 CGACCTATCTCAAAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCT
* * * * *
15580237 CGACTTATCTCAAAAAAAGTTCGATTTAAAAATTGAAATTTCTAAACTTAATCTAGGCT
1 CGACCTATCTCAAAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCT
* * * *
15580296 CGACCTATCTCAAAACAGGTTTGTTTTAAAAAAAATGAAATTCCTAGATTTAATCTAGGCT
1 CGACCTATCTCAAAACAGGTTCGATTT--AAAAATTGAAATTCCTAGACTTAATCTAGGCT
* *
15580357 CGACCAATCTCAAAACAGGTTCGATTTAAAAATTAAAATTCCTAGACTTAATCTAGGCT
1 CGACCTATCTCAAAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCT
*
15580416 CGACCTATCTCAAAACAAGTTCGATTTAAAAATTGAAATTCCTA-ACCTTAATCTAGGCT
1 CGACCTATCTCAAAACAGGTTCGATTTAAAAATTGAAATTCCTAGA-CTTAATCTAGGCT
* * *
15580475 TGACTTATCTCAAAACAGGTTTGATTTAA
1 CGACCTATCTCAAAACAGGTTCGATTTAA
15580504 TTCTCTAATG
Statistics
Matches: 447, Mismatches: 53, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
58 1 0.00
59 263 0.59
60 54 0.12
61 106 0.24
62 23 0.05
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (59 bp):
CGACCTATCTCAAAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCT
Found at i:15580251 original size:120 final size:118
Alignment explanation
Indices: 15579936--15580503 Score: 717
Period size: 120 Copynumber: 4.7 Consensus size: 118
15579926 TGTTTAAGCA
* * *
15579936 CGACCTATCTCAAAATAGGTTCGATTTAAACAAAATTGAAATTCTTAGACTTGATCTAGGCTC-A
1 CGACCTATCTCAAAACAGGTTCGATTT--A-AAAATTGAAATTCCTAGACTTAATCTAGGCTCGA
* * * * *
15580000 ATCTATCTCACAATAGGTTCTATTTAAAAATTGAAATTCCTAGACTTTATCTAGGCT
63 CT-TATCTCAAAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCT
* * * * * *
15580057 TGATCTATCTCAAAATAGGTTCGATTTTAAAAAATGAAATTCCTAGACTTAATCTAGGTTCGACC
1 CGACCTATCTCAAAACAGGTTCGA-TTTAAAAATTGAAATTCCTAGACTTAATCTAGGCTCGACT
*
15580122 TATCTCAAAACAGGTTCGATTTAAAAAAAATGAAATTCCTAGACTTAATCTAGGCT
65 TATCTCAAAACAGGTTCGATTT--AAAAATTGAAATTCCTAGACTTAATCTAGGCT
* ** * * *
15580178 TGATTTATCTCAAAACAGGTTTGATTTAAAAATTAAAATTTCTAGACTTAATCTAGGCTCGACTT
1 CGACCTATCTCAAAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCTCGACTT
* * * *
15580243 ATCTCAAAAAAAGTTCGATTTAAAAATTGAAATTTCTAAACTTAATCTAGGCT
66 ATCTCAAAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCT
* * * *
15580296 CGACCTATCTCAAAACAGGTTTGTTTTAAAAAAAATGAAATTCCTAGATTTAATCTAGGCTCGAC
1 CGACCTATCTCAAAACAGGTTCGATTT--AAAAATTGAAATTCCTAGACTTAATCTAGGCTCGAC
** *
15580361 CAATCTCAAAACAGGTTCGATTTAAAAATTAAAATTCCTAGACTTAATCTAGGCT
64 TTATCTCAAAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCT
* *
15580416 CGACCTATCTCAAAACAAGTTCGATTTAAAAATTGAAATTCCTA-ACCTTAATCTAGGCTTGACT
1 CGACCTATCTCAAAACAGGTTCGATTTAAAAATTGAAATTCCTAGA-CTTAATCTAGGCTCGACT
*
15580480 TATCTCAAAACAGGTTTGATTTAA
65 TATCTCAAAACAGGTTCGATTTAA
15580504 TTCTCTAATG
Statistics
Matches: 390, Mismatches: 50, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
117 1 0.00
118 105 0.27
119 47 0.12
120 161 0.41
121 73 0.19
122 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (118 bp):
CGACCTATCTCAAAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCTCGACTT
ATCTCAAAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCT
Found at i:15580351 original size:179 final size:179
Alignment explanation
Indices: 15579936--15580503 Score: 807
Period size: 179 Copynumber: 3.2 Consensus size: 179
15579926 TGTTTAAGCA
* * * * *
15579936 CGACCTATCTCAAAATAGGTTCGATTTAAACAAAATTGAAATTCTTAGACTTGATCTAGGCTCAA
1 CGACCTATCTCAAAACAGGTTCGATTTAAA-AAAAATGAAATTCCTAGACTTAATCTAGGCTCGA
* * * * *
15580001 TCTATCTCACAATAGGTTCT-ATTTAAAAATTGAAATTCCTAGACTTTATCTAGGCTTGA-TCTA
65 TCTATCTCAAAACAGGTT-TGATTTAAAAATTAAAATTCCTAGACTTAATCTAGGCTCGACT-TA
* * * * *
15580064 TCTCAAAATAGGTTCGATTTTAAAAAATGAAATTCCTAGACTTAATCTAGGTT
128 TCTCAAAAAAAGTTCGA-TTTAAAAATTGAAATTCCTAAACTTAATCTAGGCT
*
15580117 CGACCTATCTCAAAACAGGTTCGATTTAAAAAAAATGAAATTCCTAGACTTAATCTAGGCTTGAT
1 CGACCTATCTCAAAACAGGTTCGATTTAAAAAAAATGAAATTCCTAGACTTAATCTAGGCTCGAT
* *
15580182 TTATCTCAAAACAGGTTTGATTTAAAAATTAAAATTTCTAGACTTAATCTAGGCTCGACTTATCT
66 CTATCTCAAAACAGGTTTGATTTAAAAATTAAAATTCCTAGACTTAATCTAGGCTCGACTTATCT
*
15580247 CAAAAAAAGTTCGATTTAAAAATTGAAATTTCTAAACTTAATCTAGGCT
131 CAAAAAAAGTTCGATTTAAAAATTGAAATTCCTAAACTTAATCTAGGCT
* * * *
15580296 CGACCTATCTCAAAACAGGTTTGTTTTAAAAAAAATGAAATTCCTAGATTTAATCTAGGCTCGAC
1 CGACCTATCTCAAAACAGGTTCGATTTAAAAAAAATGAAATTCCTAGACTTAATCTAGGCTCGAT
* * *
15580361 CAATCTCAAAACAGGTTCGATTTAAAAATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCT
66 CTATCTCAAAACAGGTTTGATTTAAAAATTAAAATTCCTAGACTTAATCTAGGCTCGACTTATCT
* *
15580426 CAAAACAAGTTCGATTTAAAAATTGAAATTCCTAACCTTAATCTAGGCT
131 CAAAAAAAGTTCGATTTAAAAATTGAAATTCCTAAACTTAATCTAGGCT
* * *
15580475 TGACTTATCTCAAAACAGGTTTGATTTAA
1 CGACCTATCTCAAAACAGGTTCGATTTAA
15580504 TTCTCTAATG
Statistics
Matches: 350, Mismatches: 35, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
179 224 0.64
180 96 0.27
181 30 0.09
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (179 bp):
CGACCTATCTCAAAACAGGTTCGATTTAAAAAAAATGAAATTCCTAGACTTAATCTAGGCTCGAT
CTATCTCAAAACAGGTTTGATTTAAAAATTAAAATTCCTAGACTTAATCTAGGCTCGACTTATCT
CAAAAAAAGTTCGATTTAAAAATTGAAATTCCTAAACTTAATCTAGGCT
Found at i:15581415 original size:11 final size:10
Alignment explanation
Indices: 15581400--15581441 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
15581390 TTTACTTATA
15581400 TTTTTTGTTT
1 TTTTTTGTTT
15581410 TCTTTTTGTTT
1 T-TTTTTGTTT
*
15581421 TTGTTTGTTT
1 TTTTTTGTTT
15581431 GTTTTTT-TTT
1 -TTTTTTGTTT
15581441 T
1 T
15581442 AAGCATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 1 0.04
10 12 0.43
11 15 0.54
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:15581436 original size:21 final size:20
Alignment explanation
Indices: 15581403--15581441 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
15581393 ACTTATATTT
15581403 TTTGTTTTCTTTTTGTTTTTG
1 TTTGTTTTCTTTTT-TTTTTG
15581424 TTTGTTTGT-TTTTTTTTT
1 TTTGTTT-TCTTTTTTTTT
15581442 AAGCATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 12 0.71
22 1 0.06
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.85
Consensus pattern (20 bp):
TTTGTTTTCTTTTTTTTTTG
Found at i:15593483 original size:18 final size:18
Alignment explanation
Indices: 15593460--15593495 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15593450 TGCAATTTAG
15593460 TTTCATTCATATTAAAAA
1 TTTCATTCATATTAAAAA
*
15593478 TTTCATTGATATTAAAAA
1 TTTCATTCATATTAAAAA
15593496 CCCCTCATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (18 bp):
TTTCATTCATATTAAAAA
Found at i:15593994 original size:21 final size:22
Alignment explanation
Indices: 15593964--15594004 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15593954 ACCTGAGAGT
*
15593964 TTCTCGCTGCAGCGA-AAATGA
1 TTCTCACTGCAGCGAGAAATGA
15593985 TTCTCACTGCAGCGAGAAAT
1 TTCTCACTGCAGCGAGAAAT
15594005 AGGGCACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (22 bp):
TTCTCACTGCAGCGAGAAATGA
Found at i:15594294 original size:43 final size:43
Alignment explanation
Indices: 15594242--15594360 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
15594232 TCACCAGCTC
** * *
15594242 ATGCACACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCACACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
*
15594285 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCACACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* * *
15594328 ATGCACACTCCCTACCCGCACATAGCCGAGTCA
1 ATGCACACTCCCTACTCGCACATAACCGGGTCA
15594361 ATGTCATTAC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 65 0.98
ACGTcount: A:0.21, C:0.39, G:0.19, T:0.21
Consensus pattern (43 bp):
ATGCACACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:15596825 original size:77 final size:76
Alignment explanation
Indices: 15596743--15596896 Score: 265
Period size: 77 Copynumber: 2.0 Consensus size: 76
15596733 TTTGATTTGC
*
15596743 CAGGTTGCTAAGGATATATTTTTTTTGAAATGCTTTCTGCTC-TTTTCTTTGAAAGGTTTTTTTT
1 CAGGTTGCTAAGGATATATTTTTTTTGAAACGCTTTCTGCTCTTTTTCTTTGAAAGG-TTTTTTT
15596807 TTTATTTTTGAA
65 TTTATTTTTGAA
*
15596819 CNAGGTTGCTAGGGATATATTTTTTTTGAAACGCTTTCTGCTCTTTTTCTTTGAAAGGTTTTTTT
1 C-AGGTTGCTAAGGATATATTTTTTTTGAAACGCTTTCTGCTCTTTTTCTTTGAAAGGTTTTTTT
15596884 TTTATTTTTGAA
65 TTTATTTTTGAA
15596896 C
1 C
15596897 CTGGTTTTTC
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
76 1 0.01
77 59 0.80
78 14 0.19
ACGTcount: A:0.19, C:0.10, G:0.16, T:0.54
Consensus pattern (76 bp):
CAGGTTGCTAAGGATATATTTTTTTTGAAACGCTTTCTGCTCTTTTTCTTTGAAAGGTTTTTTTT
TTATTTTTGAA
Found at i:15597202 original size:9 final size:9
Alignment explanation
Indices: 15597181--15597210 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
15597171 TATTATACCA
15597181 TTATTTATTT
1 TTATTT-TTT
15597191 TTATTTTTT
1 TTATTTTTT
15597200 TTATTTTTT
1 TTATTTTTT
15597209 TT
1 TT
15597211 GGGTTGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 14 0.70
10 6 0.30
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (9 bp):
TTATTTTTT
Found at i:15601025 original size:30 final size:31
Alignment explanation
Indices: 15600968--15601027 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
15600958 TATGATTAAT
15600968 ATTAAATTTTATCATTATATATTTCAATTTA
1 ATTAAATTTTATCATTATATATTTCAATTTA
* * *
15600999 ATTAAATTTTTTCATTGTA-CTTTCAATTT
1 ATTAAATTTTATCATTATATATTTCAATTT
15601028 TATTGATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (31 bp):
ATTAAATTTTATCATTATATATTTCAATTTA
Found at i:15605374 original size:10 final size:10
Alignment explanation
Indices: 15605359--15605396 Score: 53
Period size: 9 Copynumber: 3.9 Consensus size: 10
15605349 AGACACTTAA
15605359 ATAAATAAAT
1 ATAAATAAAT
15605369 ATAAATTAAAT
1 ATAAA-TAAAT
15605380 -TAAATAAA-
1 ATAAATAAAT
15605388 ATAAATAAA
1 ATAAATAAA
15605397 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 12 0.46
10 9 0.35
11 5 0.19
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
ATAAATAAAT
Found at i:15605379 original size:19 final size:19
Alignment explanation
Indices: 15605355--15605393 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
15605345 TTGTAGACAC
15605355 TTAAA-TAAATAAATATAAA
1 TTAAATTAAATAAA-ATAAA
15605374 TTAAATTAAATAAAATAAA
1 TTAAATTAAATAAAATAAA
15605393 T
1 T
15605394 AAAAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TTAAATTAAATAAAATAAA
Found at i:15605380 original size:5 final size:4
Alignment explanation
Indices: 15605356--15605422 Score: 50
Period size: 4 Copynumber: 16.5 Consensus size: 4
15605346 TGTAGACACT
*
15605356 TAAA TAAA TAAA T--A TAAA TTAAA TTAAA TAAAA TAAA TAAA AAAA TTAAA
1 TAAA TAAA TAAA TAAA TAAA -TAAA -TAAA T-AAA TAAA TAAA TAAA -TAAA
* *
15605406 -AAA TAAA AAAA AAAA TA
1 TAAA TAAA TAAA TAAA TA
15605423 CAGGATGGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
2 2 0.04
3 3 0.06
4 32 0.60
5 16 0.30
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:15605394 original size:25 final size:22
Alignment explanation
Indices: 15605355--15605421 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 22
15605345 TTGTAGACAC
15605355 TTAAAT-AAATAAATATAAATTAAA
1 TTAAATAAAATAAATA-AAA--AAA
15605379 TTAAATAAAATAAATAAAAAAA
1 TTAAATAAAATAAATAAAAAAA
*
15605401 TT-AA-AAAATAAAAAAAAAAA
1 TTAAATAAAATAAATAAAAAAA
15605421 T
1 T
15605422 ACAGGATGGC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
20 16 0.39
21 2 0.05
22 5 0.12
24 9 0.22
25 9 0.22
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (22 bp):
TTAAATAAAATAAATAAAAAAA
Found at i:15606040 original size:15 final size:15
Alignment explanation
Indices: 15606020--15606053 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
15606010 CCAGGCAAAA
15606020 CGGCGTCGTTTTGAG
1 CGGCGTCGTTTTGAG
15606035 CGGCGTCGTTTTGAG
1 CGGCGTCGTTTTGAG
15606050 CGGC
1 CGGC
15606054 TTCGCAGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.24, G:0.41, T:0.29
Consensus pattern (15 bp):
CGGCGTCGTTTTGAG
Found at i:15643544 original size:25 final size:25
Alignment explanation
Indices: 15643516--15643566 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
15643506 CCCGTTTCTT
15643516 TTTTTTTGCTCTCTCACCCAAGATC
1 TTTTTTTGCTCTCTCACCCAAGATC
15643541 TTTTTTTGCTCTCTCACCCAAGATC
1 TTTTTTTGCTCTCTCACCCAAGATC
15643566 T
1 T
15643567 CCCCCTTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.31, G:0.08, T:0.45
Consensus pattern (25 bp):
TTTTTTTGCTCTCTCACCCAAGATC
Found at i:15643907 original size:11 final size:11
Alignment explanation
Indices: 15643853--15643908 Score: 53
Period size: 12 Copynumber: 5.1 Consensus size: 11
15643843 CACTCCCCTC
*
15643853 TTTTTTCATTTC
1 TTTTTT-ATTTA
15643865 TTTTTTATTTTA
1 TTTTTTA-TTTA
*
15643877 ATTTTTA-TTA
1 TTTTTTATTTA
15643887 -TTTTTATTTA
1 TTTTTTATTTA
*
15643897 TTTTTTGTTTA
1 TTTTTTATTTA
15643908 T
1 T
15643909 GATTTAGTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
9 6 0.16
10 6 0.16
11 11 0.29
12 15 0.39
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:15644376 original size:27 final size:26
Alignment explanation
Indices: 15644297--15644376 Score: 63
Period size: 27 Copynumber: 3.0 Consensus size: 26
15644287 ATAAAAATAA
* *
15644297 AATTATAAAA-TTTCAAAAAAAAAGT
1 AATTATAAAATTTTAAAAAAAAAATT
* ***
15644322 ATGTTATAAAAATTTTATAAAGCCAAATT
1 A-ATTAT-AAAATTTTA-AAAAAAAAATT
15644351 AATTATAAAATTTTAAAAAATAAAAT
1 AATTATAAAATTTTAAAAAA-AAAAT
15644377 ATGTTTTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
25 1 0.03
26 7 0.17
27 17 0.43
28 7 0.17
29 8 0.20
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (26 bp):
AATTATAAAATTTTAAAAAAAAAATT
Found at i:15649451 original size:4 final size:4
Alignment explanation
Indices: 15649442--15649476 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
15649432 GACTATAAGA
*
15649442 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
15649477 TGAAATTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:15660507 original size:25 final size:27
Alignment explanation
Indices: 15660451--15660510 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 27
15660441 ATATATGCTC
15660451 CTTTATTTCATATTTTATTTTATACTT
1 CTTTATTTCATATTTTATTTTATACTT
*
15660478 TTTTATTT-AT-TTTTATTTTTATAC-T
1 CTTTATTTCATATTTTA-TTTTATACTT
15660503 CTTTATTT
1 CTTTATTT
15660511 TAGTAATCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 13 0.43
26 10 0.33
27 7 0.23
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (27 bp):
CTTTATTTCATATTTTATTTTATACTT
Found at i:15660512 original size:26 final size:26
Alignment explanation
Indices: 15660451--15660512 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
15660441 ATATATGCTC
*
15660451 CTTTATTTCATATTTTATTTTATACT
1 CTTTATTTTATATTTTATTTTATACT
*
15660477 -TTTTTATTTAT-TTTTATTTTTATACT
1 CTTTAT-TTTATATTTTA-TTTTATACT
15660503 CTTTATTTTA
1 CTTTATTTTA
15660513 GTAATCATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 9 0.30
26 17 0.57
27 4 0.13
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (26 bp):
CTTTATTTTATATTTTATTTTATACT
Found at i:15666711 original size:41 final size:41
Alignment explanation
Indices: 15666666--15666753 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
15666656 CATATTAGGT
* * * * * *
15666666 TATTAAATTGAACTATTGAGATAAAATATTTTATGATAGAC
1 TATTAAATTAAACAACTAAGATAAAATATGTTATGATAAAC
* *
15666707 TATTAAGTTAAACAACTAAGATATAATATGTTATGATAAAC
1 TATTAAATTAAACAACTAAGATAAAATATGTTATGATAAAC
*
15666748 AATTAA
1 TATTAA
15666754 GTTAGACGGT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (41 bp):
TATTAAATTAAACAACTAAGATAAAATATGTTATGATAAAC
Found at i:15666754 original size:41 final size:41
Alignment explanation
Indices: 15666684--15666785 Score: 114
Period size: 41 Copynumber: 2.5 Consensus size: 41
15666674 TGAACTATTG
* * * *
15666684 AGATAAAATATTTTATGATAGACTATTAAGTTAAACAACTA
1 AGATATAATATATTATGATAAACAATTAAGTTAAACAACTA
* * ***
15666725 AGATATAATATGTTATGATAAACAATTAAGTTAGACGGTTA
1 AGATATAATATATTATGATAAACAATTAAGTTAAACAACTA
*
15666766 ATATATAATATATTATGATA
1 AGATATAATATATTATGATA
15666786 GGCTTAGATT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (41 bp):
AGATATAATATATTATGATAAACAATTAAGTTAAACAACTA
Found at i:15668671 original size:29 final size:30
Alignment explanation
Indices: 15668601--15668671 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 30
15668591 AAGTAAAATA
*
15668601 TTTATTAATTTT-TTATGTATTTATTTTAT
1 TTTAATAATTTTATTATGTATTTATTTTAT
*
15668630 TTTCAA-AA-TTTATTAT-TA-TTCTTTTACT
1 TTT-AATAATTTTATTATGTATTTATTTTA-T
15668658 TTTAATAATTTTAT
1 TTTAATAATTTTAT
15668672 AATTTTTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
27 9 0.26
28 11 0.31
29 14 0.40
30 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (30 bp):
TTTAATAATTTTATTATGTATTTATTTTAT
Found at i:15673873 original size:2 final size:2
Alignment explanation
Indices: 15673866--15673893 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15673856 CACAAAGCAC
15673866 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
15673894 TCAATGCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15682625 original size:46 final size:45
Alignment explanation
Indices: 15682557--15682646 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 45
15682547 TTTATGTTTT
* * * *
15682557 ATTGTAAAATCGAATAGGGTTTTTCCTGATTCCATTGTTTTGAGAC
1 ATTGTAAAATCGAATAGAGTTTTT-CTGACTCCACTCTTTTGAGAC
* *
15682603 ATTGTAAAATTGAGTAGAGTTTTTCTGACTCCACTCTTTTGAGA
1 ATTGTAAAATCGAATAGAGTTTTTCTGACTCCACTCTTTTGAGA
15682647 TATTTTATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
45 17 0.45
46 21 0.55
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (45 bp):
ATTGTAAAATCGAATAGAGTTTTTCTGACTCCACTCTTTTGAGAC
Found at i:15683365 original size:47 final size:47
Alignment explanation
Indices: 15683296--15683678 Score: 450
Period size: 47 Copynumber: 8.1 Consensus size: 47
15683286 GTGACATGAT
* *
15683296 TGTGACACGCCAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATT
1 TGTGACACGCTAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATC
* ** * * *
15683343 TGTGACACGCTAGTGTAAAGAGTTGGTGACACGCCATTGTGGGAATC
1 TGTGACACGCTAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATC
* *
15683390 TGTGAGACACTAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATC
1 TGTGACACGCTAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATC
* * * *
15683437 TGTGACACTCTAGAGTTCAGAGTTGGTGACACGGCATGGAGGGAATC
1 TGTGACACGCTAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATC
* *
15683484 TGTGACAC-ATCAGCGTTTAGAGTTGGTGAGACGCCATGGAGGGAATC
1 TGTGACACGCT-AGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATC
** * * * *
15683531 CATGACACTCCAGAGTTCAGAGTTGGTGACG-CGGCATGGAGGGAATC
1 TGTGACACGCTAGCGTTCAGAGTTGGTGA-GACGCCATGGAGGGAATC
* * *
15683578 TGTGACACG-TCAGCGTTCAAAGTTGGTGAGACGACATGAAGGGAATC
1 TGTGACACGCT-AGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATC
* * *
15683625 TGTGACACGCCAGAGTTCAGAGTTGGTGACACGCCATGGAGGGCAA-C
1 TGTGACACGCTAGCGTTCAGAGTTGGTGAGACGCCATGGAGGG-AATC
15683672 TGTGACA
1 TGTGACA
15683679 ATCCATAGTT
Statistics
Matches: 282, Mismatches: 47, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
46 2 0.01
47 277 0.98
48 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.22
Consensus pattern (47 bp):
TGTGACACGCTAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATC
Found at i:15683677 original size:94 final size:94
Alignment explanation
Indices: 15683296--15683709 Score: 530
Period size: 94 Copynumber: 4.4 Consensus size: 94
15683286 GTGACATGAT
* * * * **
15683296 TGTGACACGCCAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATTTGTGACACGCTAGTGTAA
1 TGTGACACGTCAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCCAGAGTTC
* *
15683361 AGAGTTGGTGACACGCCATTGTGGGAATC
66 AGAGTTGGTGACACGCCATGGAGGGAATC
* *
15683390 TGTGAGACAC-T-AGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACTCTAGAGT
1 TGT--GACACGTCAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCCAGAGT
*
15683453 TCAGAGTTGGTGACACGGCATGGAGGGAATC
64 TCAGAGTTGGTGACACGCCATGGAGGGAATC
* * ** *
15683484 TGTGACACATCAGCGTTTAGAGTTGGTGAGACGCCATGGAGGGAATCCATGACACTCCAGAGTTC
1 TGTGACACGTCAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCCAGAGTTC
* *
15683549 AGAGTTGGTGACGCGGCATGGAGGGAATC
66 AGAGTTGGTGACACGCCATGGAGGGAATC
* * *
15683578 TGTGACACGTCAGCGTTCAAAGTTGGTGAGACGACATGAAGGGAATCTGTGACACGCCAGAGTTC
1 TGTGACACGTCAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCCAGAGTTC
15683643 AGAGTTGGTGACACGCCATGGAGGGCAA-C
66 AGAGTTGGTGACACGCCATGGAGGG-AATC
* ** * *
15683672 TGTGACA-ATCCATAGTTCAGAGTTGGTGACATGCCATG
1 TGTGACACGT-CAGCGTTCAGAGTTGGTGAGACGCCATG
15683710 TTTAGAGTGT
Statistics
Matches: 283, Mismatches: 31, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
92 5 0.02
93 2 0.01
94 269 0.95
95 2 0.01
96 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (94 bp):
TGTGACACGTCAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCCAGAGTTC
AGAGTTGGTGACACGCCATGGAGGGAATC
Found at i:15683708 original size:24 final size:24
Alignment explanation
Indices: 15683626--15683727 Score: 63
Period size: 23 Copynumber: 4.3 Consensus size: 24
15683616 AAGGGAATCT
* *
15683626 GTGACACGCCAGAGTTCAGAGTTG
1 GTGACATGCCATAGTTCAGAGTTG
* ** *
15683650 GTGACACGCCATGGAGGGCA-A-CT-
1 GTGACATGCCAT--AGTTCAGAGTTG
15683673 GTGACAAT-CCATAGTTCAGAGTTG
1 GTGAC-ATGCCATAGTTCAGAGTTG
*
15683697 GTGACATGCCAT-GTTTAGAG-TG
1 GTGACATGCCATAGTTCAGAGTTG
15683719 TGTGACATG
1 -GTGACATG
15683728 GCATTACTTG
Statistics
Matches: 61, Mismatches: 9, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
21 4 0.07
22 3 0.05
23 27 0.44
24 22 0.36
25 1 0.02
26 4 0.07
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (24 bp):
GTGACATGCCATAGTTCAGAGTTG
Found at i:15683725 original size:141 final size:141
Alignment explanation
Indices: 15683296--15683709 Score: 510
Period size: 141 Copynumber: 2.9 Consensus size: 141
15683286 GTGACATGAT
* * * * * *
15683296 TGTGACACGCCAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATTTGTGACACGCTAGTGTAA
1 TGTGACACGTCAGCGTTCAGAGTTGGTGAGACGACATGGAGGGAATCTGTGACACGCCAGAGTTA
* * * * * *
15683361 AGAGTTGGTGACACGCCATTGTGGGAATCTGTGAGACA-CTAGCGTTCAGAGTTGGTGAGACGCC
66 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACA-ATCCAGAGTTCAGAGTTGGTGACACGCC
15683425 ATGGAGGGAATC
130 ATGGAGGGAATC
* * * ** *
15683437 TGTGACAC-TCTAGAGTTCAGAGTTGGTGACACGGCATGGAGGGAATCTGTGACACATCAGCGTT
1 TGTGACACGTC-AGCGTTCAGAGTTGGTGAGACGACATGGAGGGAATCTGTGACACGCCAGAGTT
* * ** * * *
15683501 TAGAGTTGGTGAGACGCCATGGAGGGAATCCATGACACTCCAGAGTTCAGAGTTGGTGACGCGGC
65 AAGAGTTGGTGACACGCCATGGAGGGAATCTGTGACAATCCAGAGTTCAGAGTTGGTGACACGCC
15683566 ATGGAGGGAATC
130 ATGGAGGGAATC
* * *
15683578 TGTGACACGTCAGCGTTCAAAGTTGGTGAGACGACATGAAGGGAATCTGTGACACGCCAGAGTTC
1 TGTGACACGTCAGCGTTCAGAGTTGGTGAGACGACATGGAGGGAATCTGTGACACGCCAGAGTTA
* *
15683643 AGAGTTGGTGACACGCCATGGAGGGCAA-CTGTGACAATCCATAGTTCAGAGTTGGTGACATGCC
66 AGAGTTGGTGACACGCCATGGAGGG-AATCTGTGACAATCCAGAGTTCAGAGTTGGTGACACGCC
15683707 ATG
130 ATG
15683710 TTTAGAGTGT
Statistics
Matches: 229, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
140 1 0.00
141 224 0.98
142 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (141 bp):
TGTGACACGTCAGCGTTCAGAGTTGGTGAGACGACATGGAGGGAATCTGTGACACGCCAGAGTTA
AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACAATCCAGAGTTCAGAGTTGGTGACACGCCA
TGGAGGGAATC
Found at i:15683796 original size:29 final size:29
Alignment explanation
Indices: 15683754--15683813 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
15683744 TGACACGCCA
15683754 TGGTTTAGAGTGTGTGACACAACATTGCT
1 TGGTTTAGAGTGTGTGACACAACATTGCT
* *
15683783 TGGTTTAGAGTGTGTGACACGACATTTCT
1 TGGTTTAGAGTGTGTGACACAACATTGCT
15683812 TG
1 TG
15683814 AACGGCTGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.22, C:0.13, G:0.28, T:0.37
Consensus pattern (29 bp):
TGGTTTAGAGTGTGTGACACAACATTGCT
Found at i:15684580 original size:93 final size:92
Alignment explanation
Indices: 15684283--15684630 Score: 459
Period size: 93 Copynumber: 3.8 Consensus size: 92
15684273 TTAGCGTATG
* * * * *
15684283 ACAACATTTGACTCGATATGCATGGCGTGTGACAACATTTGACTCGATATGCATGGCATTTGACA
1 ACAACATTTTACTTGATATGCATGGCGTGTCACAACATTTGACTCGATATGCATGGCATGTCACA
* *
15684348 ACATTTGACTTGATATGCATGGCGTGTC
66 ATATTT-ACTTGTTATGCATGGCGTGTC
*
15684376 ACAACATTTTACTTGATATGCAT-GCGTGTCACAACATTTGACTCGATATGCATGGCATGTTACA
1 ACAACATTTTACTTGATATGCATGGCGTGTCACAACATTTGACTCGATATGCATGGCATGTCACA
*
15684440 AGATTTACTTGTTATGCATGGCGTGTC
66 ATATTTACTTGTTATGCATGGCGTGTC
* * * *
15684467 ACAACATTTTACTTGTTATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCATGTCACA
1 ACAACATTTTACTTGATATGCATGGCGTGTCACAACATTTGACTCGATATGCATGGCATGTCACA
*
15684532 ATAGTTTACTTGTTCTGCATGGCGTGTC
66 ATA-TTTACTTGTTATGCATGGCGTGTC
* * * * * *
15684560 ATAACATTTTGCTTGCTATGCATGGCGTGTCACAACATTTTG-CT-TATTATGCATGGTATTTCA
1 ACAACATTTTACTTGATATGCATGGCGTGTCACAACA-TTTGACTCGA-TATGCATGGCATGTCA
15684623 CAATATTT
64 CAATATTT
15684631 TTTCCTTATT
Statistics
Matches: 229, Mismatches: 22, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
91 42 0.18
92 85 0.37
93 99 0.43
94 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (92 bp):
ACAACATTTTACTTGATATGCATGGCGTGTCACAACATTTGACTCGATATGCATGGCATGTCACA
ATATTTACTTGTTATGCATGGCGTGTC
Found at i:15684631 original size:31 final size:31
Alignment explanation
Indices: 15684283--15684615 Score: 400
Period size: 31 Copynumber: 10.8 Consensus size: 31
15684273 TTAGCGTATG
* * * *
15684283 ACAACATTTGACTCGATATGCATGGCGTGTG
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * * * * *
15684314 ACAACATTTGACTCGATATGCATGGCATTTG
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* *
15684345 ACAACATTTGACTTGATATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
*
15684376 ACAACATTTTACTTGATATGCAT-GCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * * * *
15684406 ACAACATTTGACTCGATATGCATGGCATGTT
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
*
15684437 ACAAGA-TTTACTTGTTATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
15684467 ACAACATTTTACTTGTTATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
*
15684498 ACAACATTTTACTTGTTATGCATGGCATGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * *
15684529 ACAATAGTTTACTTGTTCTGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * *
15684560 ATAACATTTTGCTTGCTATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* *
15684591 ACAACATTTTGCTTATTATGCATGG
1 ACAACATTTTACTTGTTATGCATGG
15684616 TATTTCACAA
Statistics
Matches: 268, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
30 52 0.19
31 216 0.81
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (31 bp):
ACAACATTTTACTTGTTATGCATGGCGTGTC
Found at i:15686869 original size:31 final size:31
Alignment explanation
Indices: 15686826--15687154 Score: 324
Period size: 31 Copynumber: 10.6 Consensus size: 31
15686816 AGCCTGTGAC
15686826 AACATTTTACTTGTTATGCATGGCGTGTCAG
1 AACATTTTACTTGTTATGCATGGCGTGTCAG
* * *
15686857 AACAATTTACTTGTTATGCATGACGTGTCAC
1 AACATTTTACTTGTTATGCATGGCGTGTCAG
* * * * *
15686888 AACGTTTAACTTGTTATGGATAGCGTGTCAA
1 AACATTTTACTTGTTATGCATGGCGTGTCAG
* *
15686919 AACATTTTAGGTGGTTATGCATGGCGTGTCAG
1 AACATTTTA-CTTGTTATGCATGGCGTGTCAG
* * ** *
15686951 AACATTTT-GTAAGGCAT-CTATGGCGTGTCTG
1 AACATTTTACT-TGTTATGC-ATGGCGTGTCAG
*
15686982 AACATTTTGCTTGTGT-TGCATGGCGTGTCAG
1 AACATTTTACTTGT-TATGCATGGCGTGTCAG
* * *
15687013 AACATTTTGCTTGTGT-TGCATGGTGTGTCAC
1 AACATTTTACTTGT-TATGCATGGCGTGTCAG
* * *
15687044 AACGTTTAACTTGTTATGCATTGCGTGTCAG
1 AACATTTTACTTGTTATGCATGGCGTGTCAG
* * * *
15687075 AACATTTTGCTTCTTATCCATGGCGTGTCAC
1 AACATTTTACTTGTTATGCATGGCGTGTCAG
* * *
15687106 AACATTTTGCTTGTTATGCATGGCATGTCAC
1 AACATTTTACTTGTTATGCATGGCGTGTCAG
15687137 AACATTTTACTTGTTATG
1 AACATTTTACTTGTTATG
15687155 GTTTGTGGTA
Statistics
Matches: 246, Mismatches: 45, Indels: 14
0.81 0.15 0.05
Matches are distributed among these distances:
30 4 0.02
31 215 0.87
32 27 0.11
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (31 bp):
AACATTTTACTTGTTATGCATGGCGTGTCAG
Found at i:15688721 original size:12 final size:14
Alignment explanation
Indices: 15688687--15688762 Score: 53
Period size: 14 Copynumber: 5.1 Consensus size: 14
15688677 TTGTATACAG
*
15688687 AATTATTTTTATAC
1 AATTAATTTTATAC
15688701 AATTAATTTTATAC
1 AATTAATTTTATAC
**
15688715 ATAATTTTTTTGTATACAC
1 --AATTAATTT-TAT--AC
*
15688734 AATTTATTTTATAC
1 AATTAATTTTATAC
* *
15688748 AATTCATTGTATAC
1 AATTAATTTTATAC
15688762 A
1 A
15688763 GAATTAATTC
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
14 28 0.55
16 10 0.20
17 11 0.22
19 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (14 bp):
AATTAATTTTATAC
Found at i:15688744 original size:47 final size:47
Alignment explanation
Indices: 15688672--15688848 Score: 203
Period size: 47 Copynumber: 3.6 Consensus size: 47
15688662 GTTTGCACAT
*
15688672 TTTTTTTGTATACAGAA-TTATTTTTATACAATTAATTTTATACATAA
1 TTTTTTTGTATACACAATTTA-TTTTATACAATTAATTTTATACATAA
* *
15688719 TTTTTTTGTATACACAATTTATTTTATACAATTCATTGTATACAGAATTAA
1 TTTTTTTGTATACACAATTTATTTTATACAATTAATTTTATAC---A-TAA
* * *
15688770 TTCTTTTTGTATACGCAATATATTTTATATAATTAATTTTATACATAA
1 TT-TTTTTGTATACACAATTTATTTTATACAATTAATTTTATACATAA
* *
15688818 TTTTTTTTCCTATACACAATTAATTTTATAC
1 -TTTTTTT-GTATACACAATTTATTTTATAC
15688849 GAAATTTTTT
Statistics
Matches: 109, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
47 36 0.33
48 11 0.10
49 20 0.18
50 1 0.01
51 5 0.05
52 36 0.33
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.52
Consensus pattern (47 bp):
TTTTTTTGTATACACAATTTATTTTATACAATTAATTTTATACATAA
Found at i:15688796 original size:52 final size:49
Alignment explanation
Indices: 15688672--15688848 Score: 177
Period size: 52 Copynumber: 3.6 Consensus size: 49
15688662 GTTTGCACAT
15688672 TTTTTTTGTATACAG-AATTATTTTTATACAATTAATTTTATAC--A-TAA
1 TTTTTTTGTATAC-GCAATTA-TTTTATACAATTAATTTTATACAAATTAA
* * *
15688719 TTTTTTTGTATACACAATTTATTTTATACAATTCATTGTATACAGAATTAA
1 TTTTTTTGTATACGCAA-TTATTTTATACAATTAATTTTATACA-AATTAA
*
15688770 TTCTTTTTGTATACGCAATATATTTTATATAATTAATTTTATACATAATT--
1 TT-TTTTTGTATACGCAAT-TATTTTATACAATTAATTTTATACA-AATTAA
** *
15688820 TTTTTTCCTATACACAATTAATTTTATAC
1 TTTTTTTGTATACGCAATT-ATTTTATAC
15688849 GAAATTTTTT
Statistics
Matches: 109, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
47 35 0.32
48 4 0.04
49 21 0.19
50 3 0.03
51 6 0.06
52 40 0.37
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.52
Consensus pattern (49 bp):
TTTTTTTGTATACGCAATTATTTTATACAATTAATTTTATACAAATTAA
Found at i:15689991 original size:31 final size:31
Alignment explanation
Indices: 15689937--15690284 Score: 453
Period size: 31 Copynumber: 11.2 Consensus size: 31
15689927 GTCAAAGTTA
* *
15689937 GCGTGTGATAACATTTTACTTGTTATGCATG
1 GCGTGTCAGAACATTTTACTTGTTATGCATG
* *
15689968 GCGTGTCAGAACAATTTAATTGTTATGCATG
1 GCGTGTCAGAACATTTTACTTGTTATGCATG
* * *
15689999 GTGTGTCACAACATTTAACTTGTTATGCATG
1 GCGTGTCAGAACATTTTACTTGTTATGCATG
* *
15690030 GCATGTCAGAACATTTTGCTTGTTATGCATG
1 GCGTGTCAGAACATTTTACTTGTTATGCATG
* * *
15690061 GCATGTCAGAACATTTTGCTTGTTATCCATG
1 GCGTGTCAGAACATTTTACTTGTTATGCATG
* *
15690092 GCGTGTCACAACATTTAACTTGTTATGCATG
1 GCGTGTCAGAACATTTTACTTGTTATGCATG
* *
15690123 GCGTGTCAGAACATTTTGCTTGTTATGCATA
1 GCGTGTCAGAACATTTTACTTGTTATGCATG
* *
15690154 GCGTGTCAGAACATTTTTCTTGTTATCCATG
1 GCGTGTCAGAACATTTTACTTGTTATGCATG
* * *
15690185 GCGTGTCACAGCATTTAACTTGTTATGCATG
1 GCGTGTCAGAACATTTTACTTGTTATGCATG
* * *
15690216 GCGTGTCAAAACATTTTGCTTGTTATGCATA
1 GCGTGTCAGAACATTTTACTTGTTATGCATG
* * *
15690247 GCGTGCCAGAACATTTTGCTTGTTATCCATG
1 GCGTGTCAGAACATTTTACTTGTTATGCATG
15690278 GCGTGTC
1 GCGTGTC
15690285 TACATTTATT
Statistics
Matches: 275, Mismatches: 42, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 275 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (31 bp):
GCGTGTCAGAACATTTTACTTGTTATGCATG
Found at i:15690068 original size:93 final size:93
Alignment explanation
Indices: 15689937--15690284 Score: 552
Period size: 93 Copynumber: 3.7 Consensus size: 93
15689927 GTCAAAGTTA
* * * * * ** * *
15689937 GCGTGTGATAACATTTTACTTGTTATGCATGGCGTGTCAGAACAATTTAATTGTTATGCATGGTG
1 GCGTGTCAGAACATTTTGCTTGTTATGCATAGCGTGTCAGAACATTTTGCTTGTTATCCATGGCG
15690002 TGTCACAACATTTAACTTGTTATGCATG
66 TGTCACAACATTTAACTTGTTATGCATG
* * *
15690030 GCATGTCAGAACATTTTGCTTGTTATGCATGGCATGTCAGAACATTTTGCTTGTTATCCATGGCG
1 GCGTGTCAGAACATTTTGCTTGTTATGCATAGCGTGTCAGAACATTTTGCTTGTTATCCATGGCG
15690095 TGTCACAACATTTAACTTGTTATGCATG
66 TGTCACAACATTTAACTTGTTATGCATG
*
15690123 GCGTGTCAGAACATTTTGCTTGTTATGCATAGCGTGTCAGAACATTTTTCTTGTTATCCATGGCG
1 GCGTGTCAGAACATTTTGCTTGTTATGCATAGCGTGTCAGAACATTTTGCTTGTTATCCATGGCG
*
15690188 TGTCACAGCATTTAACTTGTTATGCATG
66 TGTCACAACATTTAACTTGTTATGCATG
* *
15690216 GCGTGTCAAAACATTTTGCTTGTTATGCATAGCGTGCCAGAACATTTTGCTTGTTATCCATGGCG
1 GCGTGTCAGAACATTTTGCTTGTTATGCATAGCGTGTCAGAACATTTTGCTTGTTATCCATGGCG
15690281 TGTC
66 TGTC
15690285 TACATTTATT
Statistics
Matches: 237, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 237 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (93 bp):
GCGTGTCAGAACATTTTGCTTGTTATGCATAGCGTGTCAGAACATTTTGCTTGTTATCCATGGCG
TGTCACAACATTTAACTTGTTATGCATG
Found at i:15695939 original size:37 final size:37
Alignment explanation
Indices: 15695898--15696012 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
15695888 CATATGCATT
15695898 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
15695935 CATCATCATGTGTGCACTCCCTACTCGCACAC-TCTAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTC-AA
* *
15695972 CATCATCATATGTGCACTCCCTACTCACACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
15696009 CATC
1 CATC
15696013 CTCACACAAC
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
36 2 0.03
37 70 0.95
38 2 0.03
ACGTcount: A:0.26, C:0.38, G:0.09, T:0.27
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:15707853 original size:79 final size:79
Alignment explanation
Indices: 15707749--15707923 Score: 210
Period size: 79 Copynumber: 2.2 Consensus size: 79
15707739 TTATCTCTTG
* * *
15707749 AGATAATATCTAATTTTAACCAATTAAAATTTACCTATTGGTCATCCAAGTTATCTCTATAA-AA
1 AGATAATATCTAAATTTAACAAATTAAAATTTACCTATCGGTCATCCAAGTTATCTCTA-AATAA
15707813 ACCAAAATAATTTAA
65 ACCAAAATAATTTAA
* * * * * *
15707828 AGATAATATTTAAATTTGACAAATTAAAGTTTACTTATCGGTCATCCAATTTATTTCTAAATAAA
1 AGATAATATCTAAATTTAACAAATTAAAATTTACCTATCGGTCATCCAAGTTATCTCTAAATAAA
* * *
15707893 TCAAGATAATTTAG
66 CCAAAATAATTTAA
*
15707907 AGATAA-ATCCAAATTTA
1 AGATAATATCTAAATTTA
15707924 GTCATCCAAT
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
78 10 0.12
79 70 0.88
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.37
Consensus pattern (79 bp):
AGATAATATCTAAATTTAACAAATTAAAATTTACCTATCGGTCATCCAAGTTATCTCTAAATAAA
CCAAAATAATTTAA
Found at i:15708506 original size:49 final size:49
Alignment explanation
Indices: 15708443--15708547 Score: 156
Period size: 49 Copynumber: 2.1 Consensus size: 49
15708433 GTTGCAAGAT
*
15708443 CCTTGAAGCGAAGTCTCTAAATCAATCATTCAAGATCAAGTAAAAAAAC
1 CCTTGAAGCAAAGTCTCTAAATCAATCATTCAAGATCAAGTAAAAAAAC
** * * *
15708492 CCTTGAAGCAAAGTCTCTAAATCAATTGTTCAAGATCGAGTCAAAAGAC
1 CCTTGAAGCAAAGTCTCTAAATCAATCATTCAAGATCAAGTAAAAAAAC
15708541 CCTTGAA
1 CCTTGAA
15708548 ACGAAGCCTC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (49 bp):
CCTTGAAGCAAAGTCTCTAAATCAATCATTCAAGATCAAGTAAAAAAAC
Found at i:15708625 original size:70 final size:70
Alignment explanation
Indices: 15708512--15708648 Score: 193
Period size: 70 Copynumber: 2.0 Consensus size: 70
15708502 AAGTCTCTAA
* *
15708512 ATCAATTGTTCAAGATCGAGTCAAAAGACCCTTGAAACGAAGCCTCCAAATTGTTCACAAAACCC
1 ATCAATAGTTCAAGATCAAGTCAAAAGACCCTTGAAACGAAGCCTCCAAATTGTTCACAAAACCC
15708577 TTGAG
66 TTGAG
* * * ** * *
15708582 ATCAATAGTTCAAGATTAAGTCAGATGACCCTTGAAGTGAAGCCTCCAAATTGTTCATAAGACCC
1 ATCAATAGTTCAAGATCAAGTCAAAAGACCCTTGAAACGAAGCCTCCAAATTGTTCACAAAACCC
15708647 TT
66 TT
15708649 AAGGTTACGA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
70 58 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.26
Consensus pattern (70 bp):
ATCAATAGTTCAAGATCAAGTCAAAAGACCCTTGAAACGAAGCCTCCAAATTGTTCACAAAACCC
TTGAG
Found at i:15720862 original size:36 final size:35
Alignment explanation
Indices: 15720789--15720865 Score: 91
Period size: 36 Copynumber: 2.2 Consensus size: 35
15720779 TATCATTGTA
*
15720789 AGGGTTCCGCTTACTCTCGTGAAAAAACGTTGCTG
1 AGGGTTCCGCTTACTCTCGTGAAAAAACGTTACTG
* * * * *
15720824 AGGGTTCCGCTTTGCTTTCGTGATAAAATGTTATTG
1 AGGGTTCCGC-TTACTCTCGTGAAAAAACGTTACTG
15720860 AGGGTT
1 AGGGTT
15720866 TTGTTTGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
35 10 0.29
36 25 0.71
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (35 bp):
AGGGTTCCGCTTACTCTCGTGAAAAAACGTTACTG
Found at i:15722291 original size:28 final size:28
Alignment explanation
Indices: 15722249--15722309 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
15722239 ATATATCAAG
15722249 TATAAGCCACTTTGTGGCAAAACCAAAC
1 TATAAGCCACTTTGTGGCAAAACCAAAC
* * *
15722277 TATAAGCCA-TGTTGTGGTAAATCCAAAG
1 TATAAGCCACT-TTGTGGCAAAACCAAAC
15722305 TATAA
1 TATAA
15722310 CATTTATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (28 bp):
TATAAGCCACTTTGTGGCAAAACCAAAC
Found at i:15724871 original size:32 final size:32
Alignment explanation
Indices: 15724812--15724874 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
15724802 ATCTGCCATG
** *
15724812 ACATCATGTCAATCTAACGTGGCATTGCCACA
1 ACATCATGTCAAAATAACATGGCATTGCCACA
* *
15724844 ACATCATGTCAAAATGACATGGTATTGCCAC
1 ACATCATGTCAAAATAACATGGCATTGCCAC
15724875 TTCAATGTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (32 bp):
ACATCATGTCAAAATAACATGGCATTGCCACA
Found at i:15727613 original size:2 final size:2
Alignment explanation
Indices: 15727606--15727630 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15727596 CGTAAATAAA
15727606 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
15727631 AAAGGAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15736177 original size:23 final size:23
Alignment explanation
Indices: 15736142--15736185 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
15736132 TGGTAAATGA
15736142 TAAAAATACTTTATA-TTAAAATT
1 TAAAAATACTTTA-AGTTAAAATT
**
15736165 TAAAAATTTTTTAAGTTAAAA
1 TAAAAATACTTTAAGTTAAAA
15736186 ACAAAAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
TAAAAATACTTTAAGTTAAAATT
Found at i:15736797 original size:28 final size:28
Alignment explanation
Indices: 15736750--15736833 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 28
15736740 GATATTAATA
* *
15736750 AAGAACACAAATATCGATAATAATATTG
1 AAGAACACAAACATCCATAATAATATTG
* * * *
15736778 AAGAATATAAACATTCATAATAATATTC
1 AAGAACACAAACATCCATAATAATATTG
*
15736806 ATGAACACAAACATCCATAATAATATTG
1 AAGAACACAAACATCCATAATAATATTG
15736834 TTGTCCTTGA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.27
Consensus pattern (28 bp):
AAGAACACAAACATCCATAATAATATTG
Found at i:15737775 original size:23 final size:24
Alignment explanation
Indices: 15737731--15737780 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
15737721 ATTTAAAGTG
**
15737731 TATATATACTAAAAGTTTTAATATA
1 TATATATACTAAAAGTAGTAAT-TA
15737756 TATATATA-TAAAA-TAGTAATTA
1 TATATATACTAAAAGTAGTAATTA
15737778 TAT
1 TAT
15737781 TTCTTATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.22
23 5 0.22
24 5 0.22
25 8 0.35
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (24 bp):
TATATATACTAAAAGTAGTAATTA
Found at i:15738378 original size:15 final size:15
Alignment explanation
Indices: 15738358--15738390 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
15738348 GTTATCTATA
15738358 TTATAA-TTAATAATT
1 TTATAAGTT-ATAATT
15738373 TTATAAGTTATAATT
1 TTATAAGTTATAATT
15738388 TTA
1 TTA
15738391 GAATGTTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTATAAGTTATAATT
Found at i:15738542 original size:341 final size:339
Alignment explanation
Indices: 15737649--15738646 Score: 1101
Period size: 359 Copynumber: 2.8 Consensus size: 339
15737639 TATCTCAAAA
* * * * * *
15737649 ATAATTAATAAATTTATTAGTTATAATTTTTGCAATGTTAATACTAAATAGAAAGTAAATATATA
1 ATAATTAATAATTTTATAAGTTATAATTTTAG-AATGTTAACACAAAATAGAAAGT-AA-ATATG
* *
15737714 TATATATATTTAAAGTGTATATATACTAAAAGT-TTTAATATATATATATATAAAATAGTAATTA
63 T-T-TATATTTAAAGTATATATATACTAAAAATATTT-ATATATATATA-AT---A-A-TAATTA
* * * *
15737778 TATTTCTTATAAATGAACCCAATATATATAAAGTATATTTATTAAAAGACATTACAAGTCAATTA
119 TATTTCTTATAAATTAACAC-ATATATATAAAGTATATATATTAAAAGACATTACAAGTTAATTA
* * * * *
15737843 ATAATCATAGTTTCATTAATTAATTTAATTAACTATATTGGTTTATCCTTAATTACAAGAAATTA
183 ATAATAATAGTTTCATGAATTAATTTAATTAACTATA-TGGTTTGTTCTTAATTACATGAAATTA
* * * *
15737908 AAAAAAAAAACTAAGTTTCCAAATCATTCTAATCTCAAAACTTTCCTTTAGATTTATATGTTATA
247 AAAAAAATAACTAAGTTTCAAAACCATTCTAATCTCAAAACTTTCCTTTAGATTTATATATTATA
15737973 AGTTTATATAAACAAAGGTATATATATT
312 AGTTTATATAAACAAAGGTATATATATT
* * * *
15738001 GTAGTTAATAATTTTATGAGTTATAATTTTTATAATGTTAACACAAAATAGAAAGTAAATATGTT
1 ATAATTAATAATTTTATAAGTTATAA-TTTTAGAATGTTAACACAAAATAGAAAGTAAATATGTT
* * * * *
15738066 TATATTTAAAGTACATATATATATACACACAAACACATACTCATGTGTATATAATAATAATTATA
65 TATATTTAAAG----TATATATAT--AC-TAAA-A-ATATTTATATATATATAATAATAATTATA
* * *
15738131 -TTCTTTATAAATGAACTTAATATATATATATATATAAAGTATATATATTAAAAGACATTACAAA
121 TTTC-TTAT--A--AA--T--TA-ACACATATATATAAAGTATATATATTAAAAGACATTACAAG
* * *
15738195 TTAATTAATAATTATAGTTTCATGAATTAATTTAATTAATTATACGAGTTTGTTCTTAATTACAT
176 TTAATTAATAATAATAGTTTCATGAATTAATTTAATTAACTATATG-GTTTGTTCTTAATTACAT
* * *
15738260 GAAATTAAAAAAAATAACTACGTTT-AAGAACCATTCTAATCTCACAAC-TTCTCTTTAGGTTTA
240 GAAATTAAAAAAAATAACTAAGTTTCAA-AACCATTCTAATCTCAAAACTTTC-CTTTAGATTTA
* *
15738323 TATATTATAAGTTTATATAAACAAAGTTATCTATATT
303 TATATTATAAGTTTATATAAACAAAGGTATATATATT
* * *
15738360 ATAATTAATAATTTTATAAGTTATAATTTTAGAATGTTAACACAAAATAAAAAGTAAACATGTTG
1 ATAATTAATAATTTTATAAGTTATAATTTTAGAATGTTAACACAAAATAGAAAGTAAATATGTTT
15738425 ATATTTAAAGTATATATATACTAAAAATATGTTAGTATATATATAATAATAATTATATTTCTTAT
66 ATATTTAAAGTATATATATACTAAAAATAT-TTA-TATATATATAATAATAATTATATTTCTTAT
* * *
15738490 AAATTAACACA-ATATATAAACTATATATATTGATAGACATTACAAGTTAATTAATAATAATAGT
129 AAATTAACACATATATATAAAGTATATATATTAAAAGACATTACAAGTTAATTAATAATAATAGT
* **
15738554 TTCATGAATTAATTTAATTAACGATATGGATTTG-TCTTTAATTTTATGAAATTAAAAAAAATAA
194 TTCATGAATTAATTTAATTAACTATATGG-TTTGTTC-TTAATTACATGAAATTAAAAAAAATAA
* * *
15738618 -TAAGATCCAAAACTATTCTAATCTCAAAA
257 CTAAGTTTCAAAACCATTCTAATCTCAAAA
15738647 GCTCTTTTTA
Statistics
Matches: 548, Mismatches: 68, Indels: 72
0.80 0.10 0.10
Matches are distributed among these distances:
340 24 0.04
341 104 0.19
342 3 0.01
343 2 0.00
345 1 0.00
347 2 0.00
348 11 0.02
349 5 0.01
350 11 0.02
351 41 0.07
352 57 0.10
353 6 0.01
354 11 0.02
355 5 0.01
356 3 0.01
357 11 0.02
358 51 0.09
359 199 0.36
360 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (339 bp):
ATAATTAATAATTTTATAAGTTATAATTTTAGAATGTTAACACAAAATAGAAAGTAAATATGTTT
ATATTTAAAGTATATATATACTAAAAATATTTATATATATATAATAATAATTATATTTCTTATAA
ATTAACACATATATATAAAGTATATATATTAAAAGACATTACAAGTTAATTAATAATAATAGTTT
CATGAATTAATTTAATTAACTATATGGTTTGTTCTTAATTACATGAAATTAAAAAAAATAACTAA
GTTTCAAAACCATTCTAATCTCAAAACTTTCCTTTAGATTTATATATTATAAGTTTATATAAACA
AAGGTATATATATT
Found at i:15750083 original size:34 final size:35
Alignment explanation
Indices: 15750045--15750111 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
15750035 CATAGCTTTG
* *
15750045 AAAAGTAAGTGTAACGG-TTATGGTTGATCTCGAA
1 AAAAGCAAGTGTAACGGTTTATGGTTGAGCTCGAA
* * *
15750079 AAAAGCCATTGTAAGGGTTTATGGTTGAGCTCG
1 AAAAGCAAGTGTAACGGTTTATGGTTGAGCTCG
15750112 GTAAAAACCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 13 0.48
35 14 0.52
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.30
Consensus pattern (35 bp):
AAAAGCAAGTGTAACGGTTTATGGTTGAGCTCGAA
Found at i:15752522 original size:24 final size:23
Alignment explanation
Indices: 15752476--15752522 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
15752466 GCATCTTTCA
* *
15752476 CATCATTAACCATTTATATACAT
1 CATCATCAACCATTTATACACAT
*
15752499 CATCATCAACACATTTATGCACAT
1 CATCATCAAC-CATTTATACACAT
15752523 AAAATTCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.38, C:0.26, G:0.02, T:0.34
Consensus pattern (23 bp):
CATCATCAACCATTTATACACAT
Found at i:15752660 original size:35 final size:35
Alignment explanation
Indices: 15752611--15752696 Score: 122
Period size: 35 Copynumber: 2.5 Consensus size: 35
15752601 TTTAATTCAT
15752611 GTGGT-TTCTT-ACCCCACGATGGGCTATAATCAA
1 GTGGTATTCTTAACCCCACGATGGGCTATAATCAA
* * *
15752644 GTGGTATTTTTAACCCCACGATGTGTTATAATCAA
1 GTGGTATTCTTAACCCCACGATGGGCTATAATCAA
*
15752679 GTGGTATTCTTACCCCCA
1 GTGGTATTCTTAACCCCA
15752697 TTTATTCCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 5 0.11
34 4 0.09
35 37 0.80
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (35 bp):
GTGGTATTCTTAACCCCACGATGGGCTATAATCAA
Found at i:15756612 original size:18 final size:19
Alignment explanation
Indices: 15756583--15756618 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
15756573 TGCTTTTGTT
15756583 TCTTTGTTTTTTTCTTATC
1 TCTTTGTTTTTTTCTTATC
15756602 TCTTT-TTTTTTTCTTAT
1 TCTTTGTTTTTTTCTTAT
15756619 TTTTAGTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.06, C:0.14, G:0.03, T:0.78
Consensus pattern (19 bp):
TCTTTGTTTTTTTCTTATC
Found at i:15756795 original size:17 final size:17
Alignment explanation
Indices: 15756770--15756810 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
15756760 AGAAAAGAAA
15756770 AAAAG-AAAAAAAAATC
1 AAAAGTAAAAAAAAATC
* *
15756786 AAAAGTAAAAAATAATT
1 AAAAGTAAAAAAAAATC
15756803 AAAAGTAA
1 AAAAGTAA
15756811 GGGTTTAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (17 bp):
AAAAGTAAAAAAAAATC
Found at i:15757371 original size:16 final size:16
Alignment explanation
Indices: 15757340--15757373 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15757330 AACAAAGAGA
*
15757340 TTAAATTGTCGTGATG
1 TTAAATTGTCGCGATG
*
15757356 TTAAATTGTTGCGATG
1 TTAAATTGTCGCGATG
15757372 TT
1 TT
15757374 GAATAGAGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.47
Consensus pattern (16 bp):
TTAAATTGTCGCGATG
Found at i:15762290 original size:3 final size:3
Alignment explanation
Indices: 15762282--15762308 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15762272 ATTTAGAGTA
15762282 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
15762309 GCAGGCATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15764549 original size:12 final size:12
Alignment explanation
Indices: 15764532--15764575 Score: 54
Period size: 13 Copynumber: 3.7 Consensus size: 12
15764522 CCAAATTTTT
15764532 CAACGGAATTTC
1 CAACGGAATTTC
*
15764544 CAACGG-ATTTG
1 CAACGGAATTTC
*
15764555 CAACGAAATTTTC
1 CAACGGAA-TTTC
15764568 CAACGGAA
1 CAACGGAA
15764576 AATTTTTCGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 9 0.35
12 7 0.27
13 10 0.38
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (12 bp):
CAACGGAATTTC
Found at i:15765248 original size:28 final size:29
Alignment explanation
Indices: 15765176--15765253 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 29
15765166 TTGTAATTAG
* *
15765176 TTAATATATATAAATTAATA-AGATATAT
1 TTAAAATATATTAATTAATATAGATATAT
* * *
15765204 TTATAATAAACGT-ATTAATATA-ATATAT
1 TTAAAATATA-TTAATTAATATAGATATAT
*
15765232 TTAAAATATATTAATTATTATA
1 TTAAAATATATTAATTAATATA
15765254 TCTANAGTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
27 1 0.03
28 36 0.95
29 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (29 bp):
TTAAAATATATTAATTAATATAGATATAT
Found at i:15765401 original size:32 final size:33
Alignment explanation
Indices: 15765364--15765427 Score: 103
Period size: 32 Copynumber: 1.9 Consensus size: 33
15765354 ATACAACTTT
15765364 ATGTATATGAGTTAAT-ATATATGTTTACATGC
1 ATGTATATGAGTTAATAATATATGTTTACATGC
*
15765396 ATGTATATGAGTTAATACATTTATGTTTACAT
1 ATGTATATGAGTTAATA-ATATATGTTTACAT
15765428 ACAACTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 16 0.55
34 13 0.45
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.45
Consensus pattern (33 bp):
ATGTATATGAGTTAATAATATATGTTTACATGC
Found at i:15765429 original size:16 final size:18
Alignment explanation
Indices: 15765381--15765430 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
15765371 TGAGTTAATA
*
15765381 TATATGTTTACATGCATG
1 TATATGTTTACATACATG
*
15765399 TATATGAGTTA-ATACAT-
1 TATATG-TTTACATACATG
15765416 T-TATGTTTACATACA
1 TATATGTTTACATACA
15765431 ACTTTATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
15 3 0.11
16 9 0.33
17 1 0.04
18 11 0.41
19 3 0.11
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (18 bp):
TATATGTTTACATACATG
Found at i:15767753 original size:3 final size:3
Alignment explanation
Indices: 15767745--15767774 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
15767735 ATGGACTCTT
*
15767745 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15767775 CCTTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15772826 original size:19 final size:21
Alignment explanation
Indices: 15772802--15772847 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
15772792 GGAAATCCGT
15772802 CGAAAA-TAAAC-ATTTCCAA
1 CGAAAATTAAACTATTTCCAA
* *
15772821 CGAAAATTTACCTATTTCCAA
1 CGAAAATTAAACTATTTCCAA
15772842 CGAAAA
1 CGAAAA
15772848 ATTTCGTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 3 0.13
21 14 0.61
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.24
Consensus pattern (21 bp):
CGAAAATTAAACTATTTCCAA
Found at i:15775080 original size:13 final size:13
Alignment explanation
Indices: 15775062--15775086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15775052 AGAGAAATTG
15775062 TGATTTTATAAAA
1 TGATTTTATAAAA
15775075 TGATTTTATAAA
1 TGATTTTATAAA
15775087 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:15776521 original size:15 final size:15
Alignment explanation
Indices: 15776477--15776522 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
15776467 AGATCAGAGA
15776477 TTTT-GATTTTAAAG
1 TTTTGGATTTTAAAG
*
15776491 CTTTGGATTTTAAAG
1 TTTTGGATTTTAAAG
15776506 TTTTCGG-TTTTAAAG
1 TTTT-GGATTTTAAAG
15776521 TT
1 TT
15776523 GTTTTAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 3 0.11
15 23 0.82
16 2 0.07
ACGTcount: A:0.24, C:0.04, G:0.17, T:0.54
Consensus pattern (15 bp):
TTTTGGATTTTAAAG
Found at i:15778460 original size:19 final size:19
Alignment explanation
Indices: 15778433--15778480 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
15778423 TCAAAATGGT
*
15778433 AATTCGGAGTTCAAGGAT-C
1 AATTTGGAGTTCAAGG-TCC
*
15778452 AATTTGGAGCTCAAGGTCC
1 AATTTGGAGTTCAAGGTCC
*
15778471 GATTTGGAGT
1 AATTTGGAGT
15778481 CAATCCGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (19 bp):
AATTTGGAGTTCAAGGTCC
Found at i:15779961 original size:9 final size:10
Alignment explanation
Indices: 15779940--15779968 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
15779930 CTAAGGTAGT
15779940 TTTTATGAAA
1 TTTTATGAAA
15779950 TTTTAT-AAA
1 TTTTATGAAA
15779959 TTTTATGAAA
1 TTTTATGAAA
15779969 AATGGATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (10 bp):
TTTTATGAAA
Found at i:15782116 original size:29 final size:29
Alignment explanation
Indices: 15782079--15782173 Score: 118
Period size: 29 Copynumber: 3.3 Consensus size: 29
15782069 ATTCTAAATA
*
15782079 CCCAATTTCCAGATCCTTAACCCTAATTC
1 CCCAATTTCTAGATCCTTAACCCTAATTC
* *
15782108 CTCATTTTCTAGATCCTTAACCCTAATTC
1 CCCAATTTCTAGATCCTTAACCCTAATTC
* * * *
15782137 CCCAATTTCTAAAACCCTAACCCTAATTT
1 CCCAATTTCTAGATCCTTAACCCTAATTC
*
15782166 TCCAATTT
1 CCCAATTT
15782174 AGGATTTTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.28, C:0.34, G:0.02, T:0.36
Consensus pattern (29 bp):
CCCAATTTCTAGATCCTTAACCCTAATTC
Found at i:15782275 original size:7 final size:7
Alignment explanation
Indices: 15782263--15782287 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15782253 AAAATTAGGG
15782263 TAGGGTT
1 TAGGGTT
15782270 TAGGGTT
1 TAGGGTT
15782277 TAGGGTT
1 TAGGGTT
15782284 TAGG
1 TAGG
15782288 ACTCAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (7 bp):
TAGGGTT
Found at i:15793069 original size:10 final size:11
Alignment explanation
Indices: 15793042--15793075 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
15793032 TATGGCCGGC
*
15793042 CAAAGCAAGAA
1 CAAAGGAAGAA
15793053 CAAAGGAAGAA
1 CAAAGGAAGAA
15793064 -AAAGGAAGAA
1 CAAAGGAAGAA
15793074 CA
1 CA
15793076 TAACCCTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.65, C:0.12, G:0.24, T:0.00
Consensus pattern (11 bp):
CAAAGGAAGAA
Found at i:15793115 original size:21 final size:22
Alignment explanation
Indices: 15793090--15793130 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15793080 CCTAGGTGGA
*
15793090 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAATAAGTGTG
15793111 AAAATTCAAGGAAATAAGTG
1 AAAATTCAAGGAAATAAGTG
15793131 AAAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.05, G:0.24, T:0.20
Consensus pattern (22 bp):
AAAATTCAAGGAAATAAGTGTG
Found at i:15793131 original size:20 final size:21
Alignment explanation
Indices: 15793090--15793134 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
15793080 CCTAGGTGGA
*
15793090 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
15793111 AAAATTCAA-GGAAATA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
15793131 AAAA
1 AAAA
15793135 AAGGTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.04, G:0.22, T:0.18
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:15793135 original size:21 final size:20
Alignment explanation
Indices: 15793088--15793135 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
15793078 ACCCTAGGTG
*
15793088 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
15793108 GTGAAAATTCAAGGAAATAAGT
1 G-AAAAATTCAAGGAAA-AAGT
15793130 GAAAAA
1 GAAAAA
15793136 AGGTAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.04, G:0.23, T:0.17
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:15794866 original size:18 final size:18
Alignment explanation
Indices: 15794843--15794878 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15794833 ATTTGCATCC
15794843 TCAAAAACTGTAGGTTTA
1 TCAAAAACTGTAGGTTTA
15794861 TCAAAAACTGTAGGTTTA
1 TCAAAAACTGTAGGTTTA
15794879 CCGCTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (18 bp):
TCAAAAACTGTAGGTTTA
Found at i:15809690 original size:2 final size:2
Alignment explanation
Indices: 15809683--15809734 Score: 56
Period size: 2 Copynumber: 27.5 Consensus size: 2
15809673 AATGATATGA
* *
15809683 AT AT AT AT AT AT AT AT AT A- AT -T GT AT AA AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
15809722 AT AC AT AT AT AT A
1 AT AT AT AT AT AT A
15809735 AGCATTACTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:15810004 original size:140 final size:132
Alignment explanation
Indices: 15809853--15810125 Score: 339
Period size: 132 Copynumber: 2.0 Consensus size: 132
15809843 ACAAACTTTG
* * *
15809853 ATATAAAATATTATAACATATAAGTTATGTCATTAATTTCATCTATATATATATATAATAAAGTC
1 ATATAAAATATTATAACATA-AAATT-TGT-A-TAA-TTAAT-TATATATATATATAATAAAGTA
* * *
15809918 ATATATTATAAATACATATATTTAATTTATACAAAAATATTACTGTAACTTATAATAGACTTTAT
60 ATATATTAT--ATACATATATTTAATTTATACAAAAACATTACTATAACTTATAATAAACTTTAT
15809983 TTATATGATT
123 TTATATGATT
* * *
15809993 ATATAAAATATTTTAACATAAAATTTGTATCATTAATTATATATATATATAATGAAGTAATATAT
1 ATATAAAATATTATAACATAAAATTTGTATAATTAATTATATATATATATAATAAAGTAATATAT
* * * * * *
15810058 TATATATATTTATTTAATTTATACATAAGCATTATTATAACTTATAATAAACTTTATTTGTATGA
66 TATATACATATATTTAATTTATACAAAAACATTACTATAACTTATAATAAACTTTATTTATATGA
15810123 TT
131 TT
15810125 A
1 A
15810126 CATTTAATAA
Statistics
Matches: 118, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
132 56 0.47
134 29 0.25
135 4 0.03
136 2 0.02
137 1 0.01
138 3 0.03
139 4 0.03
140 19 0.16
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (132 bp):
ATATAAAATATTATAACATAAAATTTGTATAATTAATTATATATATATATAATAAAGTAATATAT
TATATACATATATTTAATTTATACAAAAACATTACTATAACTTATAATAAACTTTATTTATATGA
TT
Found at i:15810092 original size:22 final size:21
Alignment explanation
Indices: 15810067--15810116 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
15810057 TTATATATAT
* *
15810067 TTATTTAATTTATACATAAGCA
1 TTATTTAACTTATA-ATAAACA
*
15810089 TTATTATAACTTATAATAAACT
1 TTATT-TAACTTATAATAAACA
15810111 TTATTT
1 TTATTT
15810117 GTATGATTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 15 0.62
23 8 0.33
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (21 bp):
TTATTTAACTTATAATAAACA
Found at i:15815059 original size:2 final size:2
Alignment explanation
Indices: 15815047--15815077 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15815037 GGTTTCTTTT
*
15815047 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15815078 TCATTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:15817342 original size:26 final size:27
Alignment explanation
Indices: 15817312--15817377 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
15817302 ATGCTAATGC
*
15817312 AATTATCTATATTTT-TTGT-TATTATT
1 AATTATCTATATTTTATTATATATT-TT
* *
15817338 AATTATTTTTATTTTATTATATATTTT
1 AATTATCTATATTTTATTATATATTTT
15817365 -ATTATC-ATATTTT
1 AATTATCTATATTTT
15817378 CTATTCTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
25 6 0.18
26 18 0.55
27 5 0.15
28 4 0.12
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (27 bp):
AATTATCTATATTTTATTATATATTTT
Found at i:15817362 original size:18 final size:19
Alignment explanation
Indices: 15817313--15817369 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
15817303 TGCTAATGCA
*
15817313 ATTATCTATAT-TTTTTGTT
1 ATTAT-TATATATTTTTATT
15817332 ATTATTA-ATTATTTTTATT
1 ATTATTATA-TATTTTTATT
15817351 -TTATTATATA-TTTTATT
1 ATTATTATATATTTTTATT
15817368 AT
1 AT
15817370 CATATTTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
17 8 0.24
18 12 0.36
19 13 0.39
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
ATTATTATATATTTTTATT
Found at i:15817364 original size:12 final size:13
Alignment explanation
Indices: 15817347--15817377 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
15817337 TAATTATTTT
15817347 TATTTTATTAT-A
1 TATTTTATTATCA
15817359 TATTTTATTATCA
1 TATTTTATTATCA
15817372 TATTTT
1 TATTTT
15817378 CTATTCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTATTATCA
Found at i:15817388 original size:13 final size:14
Alignment explanation
Indices: 15817351--15817407 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 14
15817341 TATTTTTATT
*
15817351 TTATTATATATTTTA
1 TTATTAT-TATTTTC
*
15817366 TTATCA-TATTTTC
1 TTATTATTATTTTC
*
15817379 -TATTCTTA-TTTC
1 TTATTATTATTTTC
15817391 TTATTATTATTTT-
1 TTATTATTATTTTC
15817404 TTAT
1 TTAT
15817408 ACTTTACAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
12 7 0.21
13 19 0.56
14 3 0.09
15 5 0.15
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTATTATTTTC
Found at i:15817522 original size:15 final size:15
Alignment explanation
Indices: 15817496--15817557 Score: 74
Period size: 14 Copynumber: 4.2 Consensus size: 15
15817486 GTGAACAAAA
15817496 ATTATATATTTTT-T
1 ATTATATATTTTTAT
15817510 ATTATACTATTTTTAT
1 ATTATA-TATTTTTAT
*
15817526 TTTATATATTTTTAT
1 ATTATATATTTTTAT
* *
15817541 ATT-TTTATTATTAT
1 ATTATATATTTTTAT
15817555 ATT
1 ATT
15817558 TTTCATAAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
14 18 0.43
15 18 0.43
16 6 0.14
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTATATATTTTTAT
Found at i:15817543 original size:23 final size:22
Alignment explanation
Indices: 15817517--15817560 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
15817507 TTTATTATAC
*
15817517 TATTTTTATTTTATATATTTTTA
1 TATTTTTATTAT-TATATTTTTA
15817540 TATTTTTATTATTATATTTTT
1 TATTTTTATTATTATATTTTT
15817561 CATAAGCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (22 bp):
TATTTTTATTATTATATTTTTA
Found at i:15817552 original size:17 final size:15
Alignment explanation
Indices: 15817497--15817540 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
15817487 TGAACAAAAA
*
15817497 TTATATATTTTT-TA
1 TTATATATTTTTATT
15817511 TTATACTATTTTTATT
1 TTATA-TATTTTTATT
15817527 TTATATATTTTTAT
1 TTATATATTTTTAT
15817541 ATTTTTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 5 0.19
15 16 0.59
16 6 0.22
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATATATTTTTATT
Found at i:15838192 original size:33 final size:33
Alignment explanation
Indices: 15838137--15838204 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
15838127 AACATCTCAA
* * *
15838137 AATATAGGACATATCATTATCCTTAAG-TCTCC
1 AATATAGGACATATAATCATCCTCAAGATCTCC
*
15838169 AATATAGGGGCATATAATCATCCTCAAGATCTCC
1 AATATA-GGACATATAATCATCCTCAAGATCTCC
15838203 AA
1 AA
15838205 ATATCATCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 6 0.20
33 17 0.57
34 7 0.23
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (33 bp):
AATATAGGACATATAATCATCCTCAAGATCTCC
Found at i:15844386 original size:39 final size:37
Alignment explanation
Indices: 15844343--15844460 Score: 102
Period size: 34 Copynumber: 3.3 Consensus size: 37
15844333 TGCTCTTGAA
*
15844343 AAAAGGCATTTGTAACCATGGGTTATGCTTGCTCCCATT
1 AAAAGGCATTTGTAA-CA-GGGTTATGCTTGCTCCCATG
* *
15844382 AAAAGGCATTTGT--GAGGGTTATGGTTGCTCCCATG
1 AAAAGGCATTTGTAACAGGGTTATGCTTGCTCCCATG
* * * * *
15844417 AAAAGCCA-TTGT-A-AGGGGTATGATTGATCCCATA
1 AAAAGGCATTTGTAACAGGGTTATGCTTGCTCCCATG
*
15844451 AAAAGCCATT
1 AAAAGGCATT
15844461 GTGAGGGTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
34 29 0.42
35 26 0.38
36 1 0.01
39 13 0.19
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (37 bp):
AAAAGGCATTTGTAACAGGGTTATGCTTGCTCCCATG
Found at i:15844410 original size:35 final size:34
Alignment explanation
Indices: 15844362--15844469 Score: 135
Period size: 34 Copynumber: 3.1 Consensus size: 34
15844352 TTGTAACCAT
* * *
15844362 GGGTTATGCTTGCTCCCATTAAAAGGCATTTGTGA
1 GGGTTATGATTGCTCCCATAAAAAGCCA-TTGTGA
* * *
15844397 GGGTTATGGTTGCTCCCATGAAAAGCCATTGTAA
1 GGGTTATGATTGCTCCCATAAAAAGCCATTGTGA
* *
15844431 GGGGTATGATTGATCCCATAAAAAGCCATTGTGA
1 GGGTTATGATTGCTCCCATAAAAAGCCATTGTGA
15844465 GGGTT
1 GGGTT
15844470 TAATTATTGA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
34 38 0.60
35 25 0.40
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (34 bp):
GGGTTATGATTGCTCCCATAAAAAGCCATTGTGA
Found at i:15851353 original size:3 final size:3
Alignment explanation
Indices: 15851345--15851369 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15851335 AAAGGGATAT
15851345 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
15851370 AGATTTGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:15855133 original size:3 final size:3
Alignment explanation
Indices: 15855125--15855159 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
15855115 AATAGCAAAC
15855125 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15855160 AGACATCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15865048 original size:24 final size:24
Alignment explanation
Indices: 15865016--15865089 Score: 130
Period size: 24 Copynumber: 3.1 Consensus size: 24
15865006 TCTTTCAAGG
15865016 TTTTACCCAAAGACCTGGTATTGA
1 TTTTACCCAAAGACCTGGTATTGA
* *
15865040 TTTTACCCAAAGACTTGATATTGA
1 TTTTACCCAAAGACCTGGTATTGA
15865064 TTTTACCCAAAGACCTGGTATTGA
1 TTTTACCCAAAGACCTGGTATTGA
15865088 TT
1 TT
15865090 ATGAAAAGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (24 bp):
TTTTACCCAAAGACCTGGTATTGA
Found at i:15865757 original size:2 final size:2
Alignment explanation
Indices: 15865692--15865741 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
15865682 TGCCAGTCAA
15865692 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15865734 AT AT AT AT
1 AT AT AT AT
15865742 TATCTAAAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15866802 original size:37 final size:37
Alignment explanation
Indices: 15866751--15866867 Score: 191
Period size: 37 Copynumber: 3.2 Consensus size: 37
15866741 AATGCAATAT
15866751 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
**
15866788 CATCATCACATGTGCACTCCCTACTCGCACAC-TCAAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTC-AA
*
15866825 CATCATCATGTGTGCACTCCCTACTTGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
15866862 CATCAT
1 CATCAT
15866868 TATACAACAT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
36 2 0.03
37 69 0.95
38 2 0.03
ACGTcount: A:0.26, C:0.38, G:0.09, T:0.26
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:15872680 original size:42 final size:42
Alignment explanation
Indices: 15872305--15872677 Score: 575
Period size: 42 Copynumber: 8.9 Consensus size: 42
15872295 ACCTAGCTAT
* *
15872305 GTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCGACTAT
1 GTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGACTAC
* *
15872347 GTGCGAGTAGGAGTGCACATAAGTCGTTGCTGACCCGACTAC
1 GTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGACTAC
**
15872389 GTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGGTTAC
1 GTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGACTAC
*
15872431 GTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCTGACTAC
1 GTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGACTAC
* *
15872473 GTACGAGTGGGAGTGAACATAAGCCGTTGCTGACCCGACTAC
1 GTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGACTAC
15872515 GTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGACTAC
1 GTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGACTAC
*
15872557 GTGCGAGTGGGAGTGCACATAAGTCGTTGCTGACCCGACTAC
1 GTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGACTAC
* * * * *
15872599 GAGGGAGTGGAAGTGCACATAAGCCGTTGCTGAACCGGCTAC
1 GTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGACTAC
* * * *
15872641 GTGGGAGTAGGAGTTCACATAAGTCGTTGCTGACCCG
1 GTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCCG
15872678 GCTCTATCTT
Statistics
Matches: 304, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 304 1.00
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.21
Consensus pattern (42 bp):
GTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGACTAC
Found at i:15872902 original size:27 final size:28
Alignment explanation
Indices: 15872842--15872926 Score: 100
Period size: 27 Copynumber: 3.0 Consensus size: 28
15872832 GATAAATATG
* *
15872842 ACGTGTAACAATATTTTTTTTCAACATG
1 ACGTGTAACAATATTTTTTTTAAACATA
** * *
15872870 GTGTGTAACAACA-TTTTTTTAAATATA
1 ACGTGTAACAATATTTTTTTTAAACATA
15872897 ACGTGTAACAATATTATTTTTTAAACATA
1 ACGTGTAACAATATT-TTTTTTAAACATA
15872926 A
1 A
15872927 TTGTAACTTG
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
27 21 0.47
28 11 0.24
29 13 0.29
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (28 bp):
ACGTGTAACAATATTTTTTTTAAACATA
Found at i:15873022 original size:25 final size:27
Alignment explanation
Indices: 15872993--15873042 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
15872983 CACCTTAAAC
*
15872993 ATGGTGTATAA-TA-ATTTTTTTTAAT
1 ATGGTGTATAACAACATTTTTTTTAAT
*
15873018 ATGGTGTGTAACAACATTTTTTTTA
1 ATGGTGTATAACAACATTTTTTTTA
15873043 TTTTTTTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 1 0.05
27 10 0.48
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.52
Consensus pattern (27 bp):
ATGGTGTATAACAACATTTTTTTTAAT
Found at i:15873703 original size:56 final size:56
Alignment explanation
Indices: 15873623--15873737 Score: 221
Period size: 56 Copynumber: 2.1 Consensus size: 56
15873613 TTTCCCGATG
*
15873623 TTTGGTAGAAAAGAAAGAGGAAAGAAGTGAAGGGAGTGAAAAGAAAATAGTGTTTC
1 TTTGGTAGAAAAGAAAGAGGAAAGAAGTGAAGGCAGTGAAAAGAAAATAGTGTTTC
15873679 TTTGGTAGAAAAGAAAGAGGAAAGAAGTGAAGGCAGTGAAAAGAAAATAGTGTTTC
1 TTTGGTAGAAAAGAAAGAGGAAAGAAGTGAAGGCAGTGAAAAGAAAATAGTGTTTC
15873735 TTT
1 TTT
15873738 TCTCATTTGA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.45, C:0.03, G:0.30, T:0.22
Consensus pattern (56 bp):
TTTGGTAGAAAAGAAAGAGGAAAGAAGTGAAGGCAGTGAAAAGAAAATAGTGTTTC
Found at i:15889608 original size:21 final size:21
Alignment explanation
Indices: 15889566--15889608 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
15889556 CTTGTACCGG
*
15889566 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
15889587 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
15889608 T
1 T
15889609 TGACCAGTCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Done.