Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 385 of 438
Found at i:120025373 original size:109 final size:108
Alignment explanation
Indices: 120025171--120025373 Score: 275
Period size: 109 Copynumber: 1.9 Consensus size: 108
120025161 AACTTACCAT
* * *
120025171 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTTCCTTATGAACTCACCAATGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
* *
120025236 GCATGGTCTTACATGGGACCTTTGTCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGAGACCTTTATCTTATAGTAACTCATCAA
* * * *
120025279 TGCCATGTCTTGACATGGTCTTTCATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTT
*
120025344 -GCAATGGTCTTACATGATATCC-TTATCTTA
65 GGC-ATGGTCTTACATGAGA-CCTTTATCTTA
120025374 CCAAATGCCA
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
108 39 0.48
109 41 0.50
110 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (108 bp):
TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
GCATGGTCTTACATGAGACCTTTATCTTATAGTAACTCATCAA
Found at i:120025402 original size:47 final size:47
Alignment explanation
Indices: 120025347--120025467 Score: 215
Period size: 47 Copynumber: 2.6 Consensus size: 47
120025337 ATGCCTTGCA
* *
120025347 ATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
120025394 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
*
120025441 ATGGTCTTATATGGTATCCTTGTCTTA
1 ATGGTCTTACATGGTATCCTTGTCTTA
120025468 GTGCCAATGC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (47 bp):
ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
Found at i:120025653 original size:44 final size:44
Alignment explanation
Indices: 120025595--120025680 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
120025585 TATCCTTAAC
* *
120025595 CGTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTT
1 CGTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTT
* *
120025639 CGTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 CGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
120025681 GAGATATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (44 bp):
CGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTT
Found at i:120026250 original size:29 final size:30
Alignment explanation
Indices: 120026217--120026276 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
120026207 TCCCTAACTA
120026217 AAACTTTTACAAAATTACAATTTT-CCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
* *
120026246 AAACTTTTGCAGAATTACAATTTTGCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
120026276 A
1 A
120026277 GGCTCGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (30 bp):
AAACTTTTACAAAATTACAATTTTGCCCCT
Found at i:120027115 original size:16 final size:17
Alignment explanation
Indices: 120027080--120027117 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
120027070 TTTAATAAAA
**
120027080 AAAAACCTAAAAATCTT
1 AAAAACCTAAAAATAAT
120027097 AAAAA-CTAAAAATAAT
1 AAAAACCTAAAAATAAT
120027113 AAAAA
1 AAAAA
120027118 AAAAGAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAACCTAAAAATAAT
Found at i:120033994 original size:2 final size:2
Alignment explanation
Indices: 120033987--120034017 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
120033977 TCACTTAAAT
*
120033987 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
120034018 GCTACAATAT
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:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:120037947 original size:20 final size:22
Alignment explanation
Indices: 120037916--120037968 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 22
120037906 AACAATGATG
120037916 ATATAA-AATATATAT-A-TAT
1 ATATAACAATATATATCACTAT
120037935 ATATAACAATATAT-TCACTAT
1 ATATAACAATATATATCACTAT
120037956 AT-TAACAAT-TATA
1 ATATAACAATATATA
120037969 ATTGTAATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 10 0.33
20 15 0.50
21 5 0.17
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATAACAATATATATCACTAT
Found at i:120038043 original size:14 final size:15
Alignment explanation
Indices: 120038016--120038049 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
120038006 AACATAACAA
120038016 AAATACTATATATAT
1 AAATACTATATATAT
*
120038031 AAAT-CTATGTATAT
1 AAATACTATATATAT
120038045 AAATA
1 AAATA
120038050 AAAATATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (15 bp):
AAATACTATATATAT
Found at i:120038290 original size:22 final size:23
Alignment explanation
Indices: 120038256--120038298 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
120038246 AGTATAGCAT
*
120038256 TAAAAATATTAAAATA-AAATAAA
1 TAAAAATACT-AAATACAAATAAA
120038279 TAAAAA-ACTAAATACAAATA
1 TAAAAATACTAAATACAAATA
120038299 TATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 5 0.28
22 7 0.39
23 6 0.33
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (23 bp):
TAAAAATACTAAATACAAATAAA
Found at i:120038355 original size:3 final size:3
Alignment explanation
Indices: 120038347--120038394 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
120038337 ACTAATATAT
* * *
120038347 ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA TTA ATA AT- ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
120038394 A
1 A
120038395 CAAGGATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:120040642 original size:87 final size:87
Alignment explanation
Indices: 120040365--120040665 Score: 440
Period size: 88 Copynumber: 3.4 Consensus size: 87
120040355 CATATGACCC
* * * *
120040365 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAATATAATTTAAAAAAACAAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATT-GAAAAACAGAAA
120040430 TTGAAAATACCTCAGCGTGCCCT
65 TTGAAAATACCTCAGCGTGCCCT
*
120040453 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATGGAAAAAACAGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTG-AAAAACAGAAA
*
120040518 TTGAAAATACCTCAGCGCGCCCT
65 TTGAAAATACCTCAGCGTGCCCT
* * * ** * *
120040541 GAGACTTAACTCACCTCTCGCAGTATGAGTTGATTTTTGAAAAGCATAACTTGAAAAACGGAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAACAGAAAT
*
120040606 TGAAAATACCTCAGCGTGTCCT
66 TGAAAATACCTCAGCGTGCCCT
* *
120040628 GAGGCTCAACTCACCTCTCGCGATATGAGTTGGTTTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
120040666 TTGAAAACAT
Statistics
Matches: 191, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
87 64 0.34
88 127 0.66
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (87 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAACAGAAAT
TGAAAATACCTCAGCGTGCCCT
Found at i:120040822 original size:14 final size:13
Alignment explanation
Indices: 120040803--120040838 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
120040793 AGTTGATTTC
120040803 TGAAAATAGAAATT
1 TGAAAATAG-AATT
120040817 TGAAAAATAGAATT
1 TG-AAAATAGAATT
120040831 TGAAAATA
1 TGAAAATA
120040839 CCTCAGCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.29
14 8 0.38
15 7 0.33
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.28
Consensus pattern (13 bp):
TGAAAATAGAATT
Found at i:120040825 original size:15 final size:14
Alignment explanation
Indices: 120040805--120040836 Score: 55
Period size: 14 Copynumber: 2.2 Consensus size: 14
120040795 TTGATTTCTG
120040805 AAAATAGAAATTTGA
1 AAAATAG-AATTTGA
120040820 AAAATAGAATTTGA
1 AAAATAGAATTTGA
120040834 AAA
1 AAA
120040837 TACCTCAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (14 bp):
AAAATAGAATTTGA
Found at i:120040881 original size:89 final size:82
Alignment explanation
Indices: 120040685--120040897 Score: 250
Period size: 89 Copynumber: 2.5 Consensus size: 82
120040675 TGAATTAAAG
120040685 GGCTCAACTCACCTCTT-GCAATATGAGTTGATTTTGAAACATAAAGTGAAAATATAGAAATTGA
1 GGCTCAACTCACCT-TTCGCAATATGAGTTGATTTTGAAA-ATAAAGTGAAAATATAGAAATTGA
* *
120040749 AAATACCTCAGCGTGCTGA
64 AAATACCTCAGCGGGCCGA
* * *
120040768 AGCTCAACTCACCTTTCGCAATATGAGTTGATTTCTGAAAATAGAAATTTGAAAA-ATAGAATTT
1 GGCTCAACTCACCTTTCGCAATATGAGTTGATTT-TGAAAAT--AAA-GTGAAAATATAGAAATT
120040832 GAAAATACCTCAGCACATGGGCCGA
62 GAAAATACCTCAG--C--GGGCCGA
**
120040857 GGCTCAACTCACCTTTCGTGATATGAGTTGATTTTTGAAAA
1 GGCTCAACTCACCTTTCGCAATATGAGTTGA-TTTTGAAAA
120040898 CATAAATAAA
Statistics
Matches: 112, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
82 2 0.02
83 32 0.29
84 5 0.04
85 24 0.21
86 6 0.05
87 1 0.01
89 39 0.35
90 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (82 bp):
GGCTCAACTCACCTTTCGCAATATGAGTTGATTTTGAAAATAAAGTGAAAATATAGAAATTGAAA
ATACCTCAGCGGGCCGA
Found at i:120040894 original size:225 final size:229
Alignment explanation
Indices: 120040455--120040900 Score: 588
Period size: 225 Copynumber: 2.0 Consensus size: 229
120040445 CGTGCCCTGA
120040455 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATGGAAAAAACAGAAATT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATGGAAAAAACAGAAATT
* * *
120040520 GAAAATACCTCAGCGCGCCCTGAGACTTAACTCACCTCTCGCAGTATGAGTTGATTTTTGAAAAG
66 GAAAATACCTCAGCGCG-CCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTCTGAAAAG
* * *
120040585 CATAACTTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCG
130 CATAACTTGAAAAACAGAAATTGAAAATACCTCAGCATGGCCTGAGGCTCAACTCACCTCTCGCG
*
120040650 ATATGAGTTGGTTTTTTTGAAAACATGAATTAAAG
195 ATATGAGTTGGTATTTTTGAAAACATGAATTAAAG
* * * * *
120040685 GGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTGAAACATA-AAGT-GAAAATATAGAAATT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATGGAAAAAACAGAAATT
* *
120040747 GAAAATACCTCAGCGTG-CTGA-AGCTCAACTCACCTTTCGCAATATGAGTTGATTTCTGAAAAT
66 GAAAATACCTCAGCGCGCCTGAGA-CTCAACTCACCTCTCGCAATATGAGTTGATTTCTG-AAA-
* * * *
120040810 AG-A-AATTTGAAAAATAGAATTTGAAAATACCTCAGCACATGGGCC-GAGGCTCAACTCACCTT
128 AGCATAACTTGAAAAACAGAAATTGAAAATACCTCAG--CAT-GGCCTGAGGCTCAACTCACCTC
*
120040872 TCGTGATATGAGTT-G-ATTTTTGAAAACAT
190 TCGCGATATGAGTTGGTATTTTTGAAAACAT
120040901 AAATAAAACA
Statistics
Matches: 191, Mismatches: 19, Indels: 17
0.84 0.08 0.07
Matches are distributed among these distances:
224 1 0.01
225 76 0.40
226 5 0.03
227 62 0.32
228 6 0.03
229 11 0.06
230 30 0.16
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (229 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATGGAAAAAACAGAAATT
GAAAATACCTCAGCGCGCCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTCTGAAAAGC
ATAACTTGAAAAACAGAAATTGAAAATACCTCAGCATGGCCTGAGGCTCAACTCACCTCTCGCGA
TATGAGTTGGTATTTTTGAAAACATGAATTAAAG
Found at i:120043371 original size:15 final size:15
Alignment explanation
Indices: 120043351--120043394 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
120043341 ATATTGTAAA
120043351 TATCATATTATGTTT
1 TATCATATTATGTTT
*
120043366 TATCATGTATATGTTT
1 TATCATAT-TATGTTT
120043382 TAAT-ATATTATGT
1 T-ATCATATTATGT
120043395 GTATATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 12 0.48
16 11 0.44
17 2 0.08
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.57
Consensus pattern (15 bp):
TATCATATTATGTTT
Found at i:120043474 original size:24 final size:25
Alignment explanation
Indices: 120043419--120043474 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
120043409 GTATGTTATG
* *
120043419 TATATATTATGTATATGCTTTTAAA
1 TATATATTATATATATGATTTTAAA
* *
120043444 TAT-TATTATATATCT-ATTTTCAA
1 TATATATTATATATATGATTTTAAA
120043467 TATATATT
1 TATATATT
120043475 TATGTAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.35
24 14 0.54
25 3 0.12
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATATTATATATATGATTTTAAA
Found at i:120046075 original size:26 final size:26
Alignment explanation
Indices: 120046038--120046095 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
120046028 TGATACAAAT
120046038 TGATAATAGGTTAGGTAAAAGTTCCA
1 TGATAATAGGTTAGGTAAAAGTTCCA
* * *
120046064 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAAAGTTCCA
120046090 TGATAA
1 TGATAA
120046096 GAATTACATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.34
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAAAGTTCCA
Found at i:120050569 original size:18 final size:18
Alignment explanation
Indices: 120050546--120050588 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
120050536 CAACGCTTTT
120050546 TTGCATTCATCGCATT-CA
1 TTGCATTCAT-GCATTACA
120050564 TTGCATTCATGCATTAGCA
1 TTGCATTCATGCATTA-CA
120050583 TTGCAT
1 TTGCAT
120050589 CACACGCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 10 0.43
19 8 0.35
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (18 bp):
TTGCATTCATGCATTACA
Found at i:120058117 original size:55 final size:55
Alignment explanation
Indices: 120058033--120058207 Score: 323
Period size: 55 Copynumber: 3.2 Consensus size: 55
120058023 TCTGGGGCAC
*
120058033 CTATTCCCTTTTTATTCATTTTGTATTCCAGCAATGTTTGCTGACTGTGATTAAT
1 CTATTCCCTTTTTATTCATTTTGTATTCCAGCAATGTTTGTTGACTGTGATTAAT
*
120058088 CTATTCTCTTTTTATTCATTTTGTATTCCAGCAATGTTTGTTGACTGTGATTAAT
1 CTATTCCCTTTTTATTCATTTTGTATTCCAGCAATGTTTGTTGACTGTGATTAAT
*
120058143 CTATTCCCTTTTTATTCATTTTGTATTCCAACAATGTTTGTTGACTGTGATTAAT
1 CTATTCCCTTTTTATTCATTTTGTATTCCAGCAATGTTTGTTGACTGTGATTAAT
120058198 CTATTCCCTT
1 CTATTCCCTT
120058208 CAAATTTTGT
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 116 1.00
ACGTcount: A:0.20, C:0.18, G:0.11, T:0.51
Consensus pattern (55 bp):
CTATTCCCTTTTTATTCATTTTGTATTCCAGCAATGTTTGTTGACTGTGATTAAT
Found at i:120058858 original size:44 final size:42
Alignment explanation
Indices: 120058724--120058868 Score: 130
Period size: 44 Copynumber: 3.3 Consensus size: 42
120058714 ACCTTAACCA
*
120058724 CCTAAGCAGTAGGGTAACAGACTGAAGATATAGATCTTATCGC
1 CCTAAGCAGTAGGGTAACAG-CTGAAGATATAGATCTTATCAC
* * * * ** * * *
120058767 CCTAAACAGTAGGGAAACAGATCAAAGGCA-ACGAGCTTTAACCC
1 CCTAAGCAGTAGGGTAACAGCT-GAAGATATA-GATC-TTATCAC
*
120058811 CCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATCTTATCAC
1 CCTAAGCAGTAGGGTAAC-AGCTGAAG-ATATAGATCTTATCAC
120058855 CCTAAGCAGTAGGG
1 CCTAAGCAGTAGGG
120058869 AAGCAGATCA
Statistics
Matches: 78, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
42 2 0.03
43 25 0.32
44 43 0.55
45 7 0.09
46 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (42 bp):
CCTAAGCAGTAGGGTAACAGCTGAAGATATAGATCTTATCAC
Found at i:120058876 original size:88 final size:87
Alignment explanation
Indices: 120058717--120058880 Score: 258
Period size: 88 Copynumber: 1.9 Consensus size: 87
120058707 TCACCAGACC
*
120058717 TTAACCACCTAAGCAGTAGGGTAACAGACTGAAGATATAGATCTTATCGCCCTAAACAGTAGGGA
1 TTAACCACCTAAGCAGTAGGGTAACAGACTGAAGATATAGATCTTATCACCCTAAACAGTAGGGA
120058782 AACAGATCAAAGGCAACGAGCT
66 AACAGATCAAAGGCAACGAGCT
* * *
120058804 TTAACCCCCTAAGCAGTAGGGTAACA-AGCTGAAGTTTATAGATCTTATCACCCTAAGCAGTAGG
1 TTAACCACCTAAGCAGTAGGGTAACAGA-CTGAAG-ATATAGATCTTATCACCCTAAACAGTAGG
*
120058868 GAAGCAGATCAAA
64 GAAACAGATCAAA
120058881 AGACGGCGAA
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
86 1 0.01
87 31 0.44
88 38 0.54
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (87 bp):
TTAACCACCTAAGCAGTAGGGTAACAGACTGAAGATATAGATCTTATCACCCTAAACAGTAGGGA
AACAGATCAAAGGCAACGAGCT
Found at i:120066187 original size:15 final size:15
Alignment explanation
Indices: 120066167--120066210 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
120066157 ATATTGTAAA
120066167 TATCATATTATGTTT
1 TATCATATTATGTTT
*
120066182 TATCATGTATATGTTT
1 TATCATAT-TATGTTT
120066198 TAAT-ATATTATGT
1 T-ATCATATTATGT
120066211 GTATATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 12 0.48
16 11 0.44
17 2 0.08
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.57
Consensus pattern (15 bp):
TATCATATTATGTTT
Found at i:120066290 original size:24 final size:25
Alignment explanation
Indices: 120066235--120066290 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
120066225 GTATGTTATG
* *
120066235 TATATATTATGTATATGCTTTTAAA
1 TATATATTATATATATGATTTTAAA
* *
120066260 TAT-TATTATATATCT-ATTTTCAA
1 TATATATTATATATATGATTTTAAA
120066283 TATATATT
1 TATATATT
120066291 TATGTAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.35
24 14 0.54
25 3 0.12
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATATTATATATATGATTTTAAA
Found at i:120079383 original size:2 final size:2
Alignment explanation
Indices: 120079340--120079374 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
120079330 ATGATATAAA
120079340 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
120079375 ACAATATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:120079785 original size:3 final size:3
Alignment explanation
Indices: 120079777--120079821 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
120079767 ACTAATATAT
* * *
120079777 ATA ATA ATA ATA ATA ATG ATA ATA ATA TTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
120079822 CAAGGATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:120086596 original size:39 final size:39
Alignment explanation
Indices: 120086542--120086714 Score: 267
Period size: 39 Copynumber: 4.4 Consensus size: 39
120086532 AACAAAGATG
120086542 CGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCC
1 CGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCC
*
120086581 CGAAGGAAATTGTGCGAATTGTGATATCCGGGCTAAGCC
1 CGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCC
** *
120086620 CGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGCC
1 CGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCC
*
120086659 CGAAGGCAATTGTGC-AAGTTGTGATATCCGGGTTAAGTCC
1 CGAAGGCAATTGTGCGAA-TTGTGATATCCGGGCTAAG-CC
*
120086699 CGAAGGCATTTGTGCG
1 CGAAGGCAATTGTGCG
120086715 GGTTACCATA
Statistics
Matches: 121, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 104 0.86
40 16 0.13
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (39 bp):
CGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCC
Found at i:120086730 original size:40 final size:39
Alignment explanation
Indices: 120086542--120086742 Score: 249
Period size: 39 Copynumber: 5.1 Consensus size: 39
120086532 AACAAAGATG
* *
120086542 CGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCC
1 CGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCC
* * *
120086581 CGAAGGAAATTGTGCGAATTGTGATATCCGGGCTAAGCC
1 CGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCC
*
120086620 CGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGCC
1 CGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCC
* * *
120086659 CGAAGGCAATTGTGCAAGTTGTGATATCCGGGTTAAGTCC
1 CGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAG-CC
* * ** * *
120086699 CGAAGGCATTTGTGCGGGTTACCATAACCGGGCTATGTCC
1 CGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAG-CC
120086739 CGAA
1 CGAA
120086743 AGTGTTTTGA
Statistics
Matches: 143, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 106 0.74
40 37 0.26
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
CGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCC
Found at i:120094490 original size:39 final size:40
Alignment explanation
Indices: 120094369--120094507 Score: 167
Period size: 40 Copynumber: 3.5 Consensus size: 40
120094359 GGATATAACG
* * *
120094369 ACTCGCTCAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGATT-TAGTA
*
120094409 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * *
120094449 ACTCGCACAAATGCCTTTGGG-CTTAACCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
*
120094488 ACTCGCACGAACGCCTTCGG
1 ACTCGCACGAATGCCTTCGG
120094508 ATCTTAGTCC
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.38
40 50 0.57
41 4 0.05
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:120102324 original size:44 final size:44
Alignment explanation
Indices: 120102243--120102354 Score: 129
Period size: 44 Copynumber: 2.5 Consensus size: 44
120102233 ATCCTGTCTT
* * * * *
120102243 CCTGAAGTCTCAGCGAAGCAGA-TCGAAGTCACCAGTCTTATCTC
1 CCTGAAGTCGCAGTGGAGCAGACT-GAAGTCACAAGTCTCATCTC
* *
120102287 CTTGAAGT-GCAGTGGAGCAAGACTGAAGTTACAAGTCTCATCTC
1 CCTGAAGTCGCAGTGGAGC-AGACTGAAGTCACAAGTCTCATCTC
120102331 CCTGAAGTCGCAGTGGAGCAGACT
1 CCTGAAGTCGCAGTGGAGCAGACT
120102355 AAATATACAG
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
43 7 0.12
44 39 0.68
45 11 0.19
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (44 bp):
CCTGAAGTCGCAGTGGAGCAGACTGAAGTCACAAGTCTCATCTC
Found at i:120103979 original size:10 final size:12
Alignment explanation
Indices: 120103953--120103982 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
120103943 ATATACTCAT
120103953 TAAAAAATATAA
1 TAAAAAATATAA
120103965 TAAAAAATATAA
1 TAAAAAATATAA
120103977 -AAAAAA
1 TAAAAAA
120103983 GGGGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
TAAAAAATATAA
Found at i:120107213 original size:31 final size:31
Alignment explanation
Indices: 120107178--120107255 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
120107168 TTACCAACCT
*
120107178 AGTGACTTAAATAAAATATTTTGAATAGTTC
1 AGTGACTTAAATAAAATATTTTGAATAATTC
* * *
120107209 AGTGACTTAAATGAATTTTTTTGAATAATTC
1 AGTGACTTAAATAAAATATTTTGAATAATTC
* * *
120107240 AATGACTAAAACAAAA
1 AGTGACTTAAATAAAA
120107256 ACTTACCATA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATAAAATATTTTGAATAATTC
Found at i:120108101 original size:1 final size:1
Alignment explanation
Indices: 120108095--120108122 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
120108085 CTAACCAACT
120108095 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
120108123 GCTTTTAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:120114137 original size:43 final size:42
Alignment explanation
Indices: 120114051--120114172 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
120114041 CATTGACTTA
* *
120114051 TGATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATT
1 TGATTT-CGTGTAAGACCATGTCTGGGACATCGGCATCATATT
* *
120114094 TGATTTCGTGTAAGACCCTGTCTGGGGCAGT-GGCATCAATATT
1 TGATTTCGTGTAAGACCATGTCTGGGACA-TCGGCATC-ATATT
* * * * *
120114137 TGATTACATGTAAGATCACGTCTGGGACATTGGCAT
1 TGATTTCGTGTAAGACCATGTCTGGGACATCGGCAT
120114173 TGTACGAGCT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 27 0.41
43 39 0.59
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATCGGCATCATATT
Found at i:120114807 original size:26 final size:26
Alignment explanation
Indices: 120114777--120114828 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
120114767 TCAAAAATGG
120114777 TATGTTTTGATGCATTCTTGAATGAC
1 TATGTTTTGATGCATTCTTGAATGAC
120114803 TATGTTTTGATGCATTCTTGAATGAC
1 TATGTTTTGATGCATTCTTGAATGAC
120114829 CAAATGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (26 bp):
TATGTTTTGATGCATTCTTGAATGAC
Found at i:120116572 original size:63 final size:63
Alignment explanation
Indices: 120116499--120116660 Score: 166
Period size: 63 Copynumber: 2.6 Consensus size: 63
120116489 TTTAGAGGAG
* *
120116499 GTGTTGATGCAGAGAATGATTGTGCGTGATATGATGCTTGTGCAAAATAATCTGGTGCT-AAA
1 GTGTTGATGCAGAGAATGATTGTGCGTGATATGATGCTTGTGCAAAATAAACTGGAGCTGAAA
* * * * * * *
120116561 TGTGTTGATGCA-AGGAATGGTTGTGCGTGCTCTGGTACTTGTGTAAAATAAACTGGAGTTGAAA
1 -GTGTTGATGCAGA-GAATGATTGTGCGTGATATGATGCTTGTGCAAAATAAACTGGAGCTGAAA
* * * **
120116625 GTGTTGATGCGGGGAGTGATTGTATGTGATATGATG
1 GTGTTGATGCAGAGAATGATTGTGCGTGATATGATG
120116661 TGATACTTGT
Statistics
Matches: 77, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
62 1 0.01
63 73 0.95
64 3 0.04
ACGTcount: A:0.26, C:0.08, G:0.33, T:0.33
Consensus pattern (63 bp):
GTGTTGATGCAGAGAATGATTGTGCGTGATATGATGCTTGTGCAAAATAAACTGGAGCTGAAA
Found at i:120118188 original size:24 final size:25
Alignment explanation
Indices: 120118144--120118191 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
120118134 AGATTATATA
120118144 AACATAAAAAATTAATAATTTAAAC
1 AACATAAAAAATTAATAATTTAAAC
*
120118169 AACAT-AATAATTAACT-ATTTAAA
1 AACATAAAAAATTAA-TAATTTAAA
120118192 ATTAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.31
Consensus pattern (25 bp):
AACATAAAAAATTAATAATTTAAAC
Found at i:120118362 original size:14 final size:14
Alignment explanation
Indices: 120118343--120118398 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
120118333 ATTAAAAAAC
*
120118343 AATTGAGAATTGAG
1 AATTGAGGATTGAG
* *
120118357 AATTGAGGGTTGAA
1 AATTGAGGATTGAG
*
120118371 AATCGAGGATTGAG
1 AATTGAGGATTGAG
* *
120118385 AATTTAAGATTGAG
1 AATTGAGGATTGAG
120118399 GAATGAATAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.39, C:0.02, G:0.30, T:0.29
Consensus pattern (14 bp):
AATTGAGGATTGAG
Found at i:120121284 original size:42 final size:42
Alignment explanation
Indices: 120121237--120121320 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
120121227 TTTATTTAAC
120121237 ACTTTTAGTGATTAATTTTAAATCTATAATTATTAGAAAATT
1 ACTTTTAGTGATTAATTTTAAATCTATAATTATTAGAAAATT
120121279 ACTTTTAGTGATTAATTTTAAATCTATAATTATTAGAAAATT
1 ACTTTTAGTGATTAATTTTAAATCTATAATTATTAGAAAATT
120121321 TTTACCTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (42 bp):
ACTTTTAGTGATTAATTTTAAATCTATAATTATTAGAAAATT
Found at i:120122816 original size:9 final size:9
Alignment explanation
Indices: 120122802--120122831 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
120122792 GTTAAACGAA
120122802 TCGAGTTAT
1 TCGAGTTAT
*
120122811 TCGAGTTAA
1 TCGAGTTAT
120122820 TCGAGTTAT
1 TCGAGTTAT
120122829 TCG
1 TCG
120122832 TGTCAACTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.40
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:120122902 original size:9 final size:9
Alignment explanation
Indices: 120122883--120122919 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
120122873 TGAGTTTTCG
120122883 AATTCGAAT
1 AATTCGAAT
120122892 AACTT-GAAT
1 AA-TTCGAAT
120122901 AATTCGAAT
1 AATTCGAAT
120122910 AATTCGAAT
1 AATTCGAAT
120122919 A
1 A
120122920 TCAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:120139876 original size:19 final size:18
Alignment explanation
Indices: 120139818--120139886 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 18
120139808 ATTGAGACTG
*
120139818 ATACTGAACTGAATTATGGA
1 ATACTGAATTGAATT-T-GA
* *
120139838 ATACTGAATATTACTTTGA
1 ATACTGAAT-TGAATTTGA
120139857 ATACTGAATTGAATTGTGA
1 ATACTGAATTGAATT-TGA
120139876 AGTTACTGAAT
1 A--TACTGAAT
120139887 ATTGTTATGT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.10
19 15 0.38
20 9 0.22
21 12 0.30
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (18 bp):
ATACTGAATTGAATTTGA
Found at i:120140403 original size:45 final size:44
Alignment explanation
Indices: 120140337--120140485 Score: 210
Period size: 45 Copynumber: 3.3 Consensus size: 44
120140327 CTGTTACTGC
*
120140337 TACTGCTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCG-CACTTTGTGTGTCGAATATTGT
* * *
120140382 TACTGTTACCGTTATCGATTCGGCACCTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTC-GCACTTTGTGTGTCGAATATTGT
*
120140427 TACTGTTACTGTTACCGATTCTGCACTTTGTGTGTCGGATATTGT
1 TACTGTTACTGTTACCGATTC-GCACTTTGTGTGTCGAATATTGT
*
120140472 TACCG-TACTGTTAC
1 TACTGTTACTGTTAC
120140486 TGTTTCGGAT
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
44 9 0.10
45 83 0.89
46 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (44 bp):
TACTGTTACTGTTACCGATTCGCACTTTGTGTGTCGAATATTGT
Found at i:120140543 original size:51 final size:53
Alignment explanation
Indices: 120140477--120140587 Score: 172
Period size: 51 Copynumber: 2.1 Consensus size: 53
120140467 ATTGTTACCG
** *
120140477 TACTGTTACTGTTTCGGATTTGTTGTGAAGAGGTACT-T-TGTACCTTACTGT
1 TACTGTTACTGTTTCGGATTTGTTCCGAAGAGGTACTCTATGTACCGTACTGT
*
120140528 TACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTATGTACCGTACTGT
1 TACTGTTACTGTTTCGGATTTGTTCCGAAGAGGTACTCTATGTACCGTACTGT
120140581 TACTGTT
1 TACTGTT
120140588 CCGGCTTTAG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 34 0.63
52 1 0.02
53 19 0.35
ACGTcount: A:0.17, C:0.16, G:0.23, T:0.44
Consensus pattern (53 bp):
TACTGTTACTGTTTCGGATTTGTTCCGAAGAGGTACTCTATGTACCGTACTGT
Found at i:120145639 original size:43 final size:43
Alignment explanation
Indices: 120145578--120145732 Score: 240
Period size: 43 Copynumber: 3.6 Consensus size: 43
120145568 CCGGCATTAC
*
120145578 GCCTGCTAGGCATGAAGGCCCGAATACACATCA-CTGGCACAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCATC-GGCACAAA
* *
120145621 GCCTGCTAGGCACAAAGGCCCGAATACACATCATCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACAAA
* *
120145664 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACAAA
*
120145707 GCCTGCTAGGCACGAAGGCCCAAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
120145733 TAATACCAGC
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
43 103 0.99
44 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACAAA
Found at i:120145780 original size:38 final size:38
Alignment explanation
Indices: 120145730--120145908 Score: 263
Period size: 38 Copynumber: 4.7 Consensus size: 38
120145720 GAAGGCCCAA
* * *
120145730 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
120145768 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
120145806 ATATATTACCAGCACAAAGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
120145844 ATATATTACCAGCACGAAGCCTGCAGGATTTAACTCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
120145882 ATATAATT-CCAGCA-TATAGCCTGCGGG
1 ATAT-ATTACCAGCACGA-AGCCTGCGGG
120145909 TCTTTAGGCC
Statistics
Matches: 130, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
37 1 0.01
38 126 0.97
39 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:120150241 original size:23 final size:23
Alignment explanation
Indices: 120150215--120150260 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
120150205 GGGATATTAG
120150215 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
120150238 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
120150261 TCAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (23 bp):
ATATTGACTAGTTATATACGAAC
Found at i:120160018 original size:17 final size:18
Alignment explanation
Indices: 120159986--120160021 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
120159976 AAAATCGTAG
120159986 CTTTTTCTCCTTTCTTTCT
1 CTTTTTCT-CTTTCTTTCT
120160005 CTTTTTCT-TTTCTTTCT
1 CTTTTTCTCTTTCTTTCT
120160022 TTCCTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
CTTTTTCTCTTTCTTTCT
Found at i:120160023 original size:25 final size:25
Alignment explanation
Indices: 120159995--120160042 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
120159985 GCTTTTTCTC
* * *
120159995 CTTTCTTTCTCTTTTTCTTTTCTTT
1 CTTTCCTTCTCTGTTTCATTTCTTT
120160020 CTTTCCTTCTCTGTTTCATTTCT
1 CTTTCCTTCTCTGTTTCATTTCT
120160043 ACTTTAGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (25 bp):
CTTTCCTTCTCTGTTTCATTTCTTT
Found at i:120160041 original size:21 final size:21
Alignment explanation
Indices: 120159995--120160042 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
120159985 GCTTTTTCTC
*
120159995 CTTTCTTTCTCTTTTTCTTTT
1 CTTTCTTTCTCTTTCTCTTTT
120160016 CTTTCTTTC-C-TTCTCTGTTT
1 CTTTCTTTCTCTTTCTCT-TTT
120160036 CATTTCT
1 C-TTTCT
120160043 ACTTTAGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.21
20 5 0.21
21 14 0.58
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (21 bp):
CTTTCTTTCTCTTTCTCTTTT
Found at i:120160080 original size:25 final size:24
Alignment explanation
Indices: 120160052--120160098 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
120160042 TACTTTAGCT
120160052 TTCTTT-TTCTATTTCTATTTATTTA
1 TTCTTTCTT-TATTTCT-TTTATTTA
*
120160077 TTCTTTCTTTATTTGTTTTATT
1 TTCTTTCTTTATTTCTTTTATT
120160099 ATATATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 6 0.30
25 12 0.60
26 2 0.10
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (24 bp):
TTCTTTCTTTATTTCTTTTATTTA
Found at i:120160111 original size:5 final size:5
Alignment explanation
Indices: 120160101--120160155 Score: 101
Period size: 5 Copynumber: 11.0 Consensus size: 5
120160091 GTTTTATTAT
*
120160101 ATATA ATATA ATATA ATATA ATATA ATATA ACATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
120160151 ATATA
1 ATATA
120160156 TATTTATACT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:120161959 original size:39 final size:38
Alignment explanation
Indices: 120161862--120162010 Score: 192
Period size: 38 Copynumber: 3.9 Consensus size: 38
120161852 ATTCCACTCC
* * * *
120161862 CCCCATTCTACTTTGTTTTATTATTAATCAAAAAC-ACT
1 CCCCATACTATTTTGTTTTATTATTAAT-TAAAACTATT
* * *
120161900 CTCCATGCTATTTTGTTTTATTGTTAATTAAAACTATTT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTA-TT
*
120161939 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTATT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
*
120161977 CCTCATACTATTTTGTTTTATTATTAATTAAAAC
1 CCCCATACTATTTTGTTTTATTATTAATTAAAAC
120162011 CATACTTTAT
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
37 5 0.05
38 59 0.60
39 35 0.35
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.49
Consensus pattern (38 bp):
CCCCATACTATTTTGTTTTATTATTAATTAAAACTATT
Found at i:120161960 original size:77 final size:77
Alignment explanation
Indices: 120161862--120162010 Score: 203
Period size: 77 Copynumber: 1.9 Consensus size: 77
120161852 ATTCCACTCC
* * *
120161862 CCCCATTCTACTTTGTTTTATTATTAATCAAAAAC-ACT-CTCCATGCTATTTTGTTTTATTGTT
1 CCCCATACTACTTTGTTTTATTATTAAT-AAAAACTACTCCT-CATACTATTTTGTTTTATTATT
120161925 AATTAAAACTATTT
64 AATTAAAACTATTT
* * * *
120161939 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTATTCCTCATACTATTTTGTTTTATTATTAA
1 CCCCATACTACTTTGTTTTATTATTAATAAAAACTACTCCTCATACTATTTTGTTTTATTATTAA
120162004 TTAAAAC
66 TTAAAAC
120162011 CATACTTTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
76 5 0.08
77 56 0.89
78 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.49
Consensus pattern (77 bp):
CCCCATACTACTTTGTTTTATTATTAATAAAAACTACTCCTCATACTATTTTGTTTTATTATTAA
TTAAAACTATTT
Found at i:120172171 original size:26 final size:26
Alignment explanation
Indices: 120172142--120172245 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
120172132 ATTCCCATCT
*
120172142 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
120172168 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
120172194 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
120172220 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
120172246 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:120186123 original size:5 final size:6
Alignment explanation
Indices: 120186112--120186136 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
120186102 CCAATATTAT
120186112 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
120186137 GGCAATTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:120209820 original size:40 final size:40
Alignment explanation
Indices: 120209735--120209885 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
120209725 AATTGAATGA
* * * **
120209735 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTT
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACATAC
* * *
120209775 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
120209816 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
120209855 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
120209886 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 77 0.85
41 5 0.05
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:120209899 original size:40 final size:40
Alignment explanation
Indices: 120209775--120209901 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
120209765 CTGGAAATTT
* * * * *
120209775 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * ** *
120209815 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
120209855 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
120209895 TATCCGG
1 TATCCGG
120209902 TTATGTTCCG
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:120211990 original size:12 final size:12
Alignment explanation
Indices: 120211968--120211996 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
120211958 TTATTTAACT
120211968 TTTAA-ATTTAA
1 TTTAATATTTAA
120211979 TTTAATATTTAA
1 TTTAATATTTAA
120211991 TTTAAT
1 TTTAAT
120211997 GCTACATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTAATATTTAA
Found at i:120215058 original size:26 final size:27
Alignment explanation
Indices: 120215012--120215068 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
120215002 AGCACAAGCT
*
120215012 TCACTTCTCTGTCTTTGTCTCTCTTTA
1 TCACTTCTCTGTCTTTATCTCTCTTTA
* *
120215039 TCAC-TCTCTGT-TCTTATCTCTGTTTC
1 TCACTTCTCTGTCT-TTATCTCTCTTTA
120215065 TCAC
1 TCAC
120215069 CTTGAGAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 1 0.04
26 21 0.81
27 4 0.15
ACGTcount: A:0.09, C:0.32, G:0.07, T:0.53
Consensus pattern (27 bp):
TCACTTCTCTGTCTTTATCTCTCTTTA
Found at i:120221069 original size:2 final size:2
Alignment explanation
Indices: 120221062--120221098 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
120221052 TAACTCATGC
*
120221062 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
120221099 AACACAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:120222836 original size:43 final size:42
Alignment explanation
Indices: 120222775--120222883 Score: 150
Period size: 42 Copynumber: 2.6 Consensus size: 42
120222765 AATGCCAACT
120222775 TCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCT-ACTG
1 TCCCAGACAG-GGTCTTACATGTAATCAAATA-CGATGCTGA-TG
*
120222818 TCCCAGACAGGGTCTTACATGAAATCAAATACGATGCTGATG
1 TCCCAGACAGGGTCTTACATGTAATCAAATACGATGCTGATG
* *
120222860 TCCCAGACATGGTCTTACACGTAA
1 TCCCAGACAGGGTCTTACATGTAA
120222884 ATCATCAGTC
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
42 30 0.50
43 29 0.48
44 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (42 bp):
TCCCAGACAGGGTCTTACATGTAATCAAATACGATGCTGATG
Found at i:120222886 original size:43 final size:44
Alignment explanation
Indices: 120222775--120222887 Score: 162
Period size: 43 Copynumber: 2.6 Consensus size: 44
120222765 AATGCCAACT
*
120222775 TCCCAGACGTGGTCTTACATGT-AATCAAATATCGATGCTACTG
1 TCCCAGACATGGTCTTACATGTAAATCAAATATCGATGCTACTG
*
120222818 TCCCAGACAGGGTCTTACATG-AAATCAAATA-CGATGCTGA-TG
1 TCCCAGACATGGTCTTACATGTAAATCAAATATCGATGCT-ACTG
*
120222860 TCCCAGACATGGTCTTACACGTAAATCA
1 TCCCAGACATGGTCTTACATGTAAATCA
120222888 TCAGTCGATG
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
42 28 0.44
43 35 0.56
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACATGTAAATCAAATATCGATGCTACTG
Found at i:120230277 original size:23 final size:22
Alignment explanation
Indices: 120230251--120230300 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
120230241 TGCCATGGTC
*
120230251 AAAAATAAAA-TAATACATTCTTT
1 AAAAA-AAAACTAATA-ATACTTT
*
120230274 AAAAAAAAACTTATAATACTTT
1 AAAAAAAAACTAATAATACTTT
120230296 AAAAA
1 AAAAA
120230301 GAAATCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAAAAAAACTAATAATACTTT
Found at i:120230827 original size:30 final size:30
Alignment explanation
Indices: 120230793--120230856 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
120230783 TGTGGGCAGG
*
120230793 CCGTGTGTCTCACACGGCCACTAGACATGT
1 CCGTGTGTCTCACACGGCCACTAGACATGC
* * *
120230823 CCGTGTGTCTTACATGGCCATTAGACATGC
1 CCGTGTGTCTCACACGGCCACTAGACATGC
120230853 CCGT
1 CCGT
120230857 CTCATCTGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.27
Consensus pattern (30 bp):
CCGTGTGTCTCACACGGCCACTAGACATGC
Found at i:120231547 original size:2 final size:2
Alignment explanation
Indices: 120231540--120231570 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
120231530 TCACATGGAA
120231540 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
120231571 CTTTAAACCA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:120233198 original size:265 final size:265
Alignment explanation
Indices: 120232725--120233260 Score: 1045
Period size: 265 Copynumber: 2.0 Consensus size: 265
120232715 CATCGTCGAA
*
120232725 TCAATTCCAAACTTGTCTGTAACCATATAATCACAATTCATGCTATATCAAAGCATATAAAATAC
1 TCAATTCCAAACTTGTCTGTAACCACATAATCACAATTCATGCTATATCAAAGCATATAAAATAC
120232790 ATTTGAAACAAAATTATAACATACAAACTTACCTCGTTCGCTGTAACGACGAATTAGGTCGACTA
66 ATTTGAAACAAAATTATAACATACAAACTTACCTCGTTCGCTGTAACGACGAATTAGGTCGACTA
120232855 ATCTAATACTTTGTTTTCCCCCGTTCTAGATCCAAATCTCGTTTATCTCAATCTATATAATATCA
131 ATCTAATACTTTGTTTTCCCCCGTTCTAGATCCAAATCTCGTTTATCTCAATCTATATAATATCA
*
120232920 AAACTTACTTATTTAATCAACATTTCATTCAATTTAGCACAATCTACACATTTTGGCAAAATTAC
196 AAACTTACTTATTTAATCAACATTTCATTCAATTTAGCACAATCTACACATTTTAGCAAAATTAC
120232985 TTTTT
261 TTTTT
120232990 TCAATTCCAAACTTGTCTGTAACCACATAATCACAATTCATGCTATATCAAAGCATATAAAATAC
1 TCAATTCCAAACTTGTCTGTAACCACATAATCACAATTCATGCTATATCAAAGCATATAAAATAC
120233055 ATTTGAAACAAAATTATAACATACAAACTTACCTCGTTCGCTGTAACGACGAATTAGGTCGACTA
66 ATTTGAAACAAAATTATAACATACAAACTTACCTCGTTCGCTGTAACGACGAATTAGGTCGACTA
120233120 ATCTAATACTTTGTTTTCCCCCGTTCTAGATCCAAATCTCGTTTATCTCAATCTATATAATATCA
131 ATCTAATACTTTGTTTTCCCCCGTTCTAGATCCAAATCTCGTTTATCTCAATCTATATAATATCA
120233185 AAACTTACTTATTTAATCAACATTTCATTCAATTTAGCACAATCTACACATTTTAGCAAAATTAC
196 AAACTTACTTATTTAATCAACATTTCATTCAATTTAGCACAATCTACACATTTTAGCAAAATTAC
120233250 TTTTT
261 TTTTT
*
120233255 GCAATT
1 TCAATT
120233261 TAGTCCTTAT
Statistics
Matches: 268, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
265 268 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.35
Consensus pattern (265 bp):
TCAATTCCAAACTTGTCTGTAACCACATAATCACAATTCATGCTATATCAAAGCATATAAAATAC
ATTTGAAACAAAATTATAACATACAAACTTACCTCGTTCGCTGTAACGACGAATTAGGTCGACTA
ATCTAATACTTTGTTTTCCCCCGTTCTAGATCCAAATCTCGTTTATCTCAATCTATATAATATCA
AAACTTACTTATTTAATCAACATTTCATTCAATTTAGCACAATCTACACATTTTAGCAAAATTAC
TTTTT
Found at i:120235344 original size:28 final size:28
Alignment explanation
Indices: 120235260--120235345 Score: 100
Period size: 28 Copynumber: 3.1 Consensus size: 28
120235250 GAACATGCTA
* *
120235260 GAAAATGGAAGCCTTTGTGGTAATTTAT
1 GAAAATGGAAGCCTTTGTGGCAATATAT
* **
120235288 AAAAATGGAAGCCTTTGTCACAATATAT
1 GAAAATGGAAGCCTTTGTGGCAATATAT
* * *
120235316 GAAAGTGGAAGCCTTTGTGGCGATCTAT
1 GAAAATGGAAGCCTTTGTGGCAATATAT
120235344 GA
1 GA
120235346 TGTAACACCC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (28 bp):
GAAAATGGAAGCCTTTGTGGCAATATAT
Found at i:120236978 original size:43 final size:42
Alignment explanation
Indices: 120236931--120237044 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 42
120236921 ATTACATATG
* *
120236931 GATGCCATTTTCCCAGACATGGTCTTACACATAA-TTAATTAAC
1 GATGCCAATGTCCCAGACATGGTCTTACACATAACTTAA-T-AC
* *
120236974 GATGCCAATGTCCCAGACATCGTCTTACACGTAATCTTAATAC
1 GATGCCAATGTCCCAGACATGGTCTTACACATAA-CTTAATAC
*
120237017 AATGCCAATGTCCCAGACATGGTCTTAC
1 GATGCCAATGTCCCAGACATGGTCTTAC
120237045 GTGCAATCAC
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
43 58 0.92
44 1 0.02
45 4 0.06
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (42 bp):
GATGCCAATGTCCCAGACATGGTCTTACACATAACTTAATAC
Found at i:120237720 original size:20 final size:21
Alignment explanation
Indices: 120237677--120237721 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
120237667 AATCTCAAGC
120237677 ATTCATCAATGAAAAATCACAA
1 ATTCATCAA-GAAAAATCACAA
* *
120237699 ATTCATCAA-AAAATTCAGAA
1 ATTCATCAAGAAAAATCACAA
120237719 ATT
1 ATT
120237722 TGGGTACGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
22 9 0.43
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (21 bp):
ATTCATCAAGAAAAATCACAA
Found at i:120249111 original size:40 final size:40
Alignment explanation
Indices: 120249033--120249292 Score: 319
Period size: 40 Copynumber: 6.5 Consensus size: 40
120249023 ACCCAAGTAT
* *
120249033 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
120249072 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
120249112 CTTCAGGACTTAGCCCGTATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
120249152 CTTCGGGAATTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
120249195 CTTCGGGACTTAGCTCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
120249235 CTTCGGGACTTAGCCTGGATATAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
120249275 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
120249293 GTATCATTCA
Statistics
Matches: 188, Mismatches: 26, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
39 12 0.06
40 141 0.75
41 1 0.01
43 34 0.18
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:120249277 original size:123 final size:120
Alignment explanation
Indices: 120249033--120249296 Score: 368
Period size: 123 Copynumber: 2.2 Consensus size: 120
120249023 ACCCAAGTAT
* * *
120249033 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGAATTAGCCCGGGTATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* ** * *
120249097 CACTAGCATGAATGCCTTCAGGACTTAGCCCGTATATAGTCACTAGCACAAATGC
66 AACTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAATCACTAGCACAAATGC
*
120249152 CTTCGGGAATTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCTCGGATAT
1 CTTCGGGAATTAGCCCGGGTATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
* * * *
120249217 AGTAACTTGCACAAATGCCTTCGGGACTTAGCCTGGATATAATCACTAGCATAAATGC
63 AGTAACTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAATCACTAGCACAAATGC
*
120249275 CTTCGGGACTTAGCCCGGGTAT
1 CTTCGGGAATTAGCCCGGGTAT
120249297 CATTCAAATG
Statistics
Matches: 127, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
119 12 0.09
120 10 0.08
121 1 0.01
123 104 0.82
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (120 bp):
CTTCGGGAATTAGCCCGGGTATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAATCACTAGCACAAATGC
Found at i:120254352 original size:33 final size:33
Alignment explanation
Indices: 120254310--120254377 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
120254300 TAATCACCCA
120254310 TCACCAGATTTGATTCCCTCTATTTCTTCTTTC
1 TCACCAGATTTGATTCCCTCTATTTCTTCTTTC
120254343 TCACCAGATTTGATTCCCTCTATTTCTTCTTTC
1 TCACCAGATTTGATTCCCTCTATTTCTTCTTTC
120254376 TC
1 TC
120254378 TTGAAATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.15, C:0.31, G:0.06, T:0.49
Consensus pattern (33 bp):
TCACCAGATTTGATTCCCTCTATTTCTTCTTTC
Found at i:120254878 original size:28 final size:28
Alignment explanation
Indices: 120254847--120254918 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
120254837 TATGGCAATA
*
120254847 TATGAAAATGGAAGCCTTCT-TGGTAATC
1 TATGAAAATGAAAGCCTT-TGTGGTAATC
120254875 TATGAAAATGAAAGCCTTTGTGGTAATC
1 TATGAAAATGAAAGCCTTTGTGGTAATC
* * *
120254903 TAAGGAAAGGAAAGCC
1 TATGAAAATGAAAGCC
120254919 GTTATGGCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (28 bp):
TATGAAAATGAAAGCCTTTGTGGTAATC
Found at i:120257093 original size:26 final size:26
Alignment explanation
Indices: 120257064--120257120 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
120257054 ATCACATGTT
120257064 AGTTATTTAAATACATGATATCATCC
1 AGTTATTTAAATACATGATATCATCC
120257090 AGTTATTTAAATACATGATATCATCC
1 AGTTATTTAAATACATGATATCATCC
120257116 A-TTAT
1 AGTTAT
120257121 CTCAATGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (26 bp):
AGTTATTTAAATACATGATATCATCC
Found at i:120257454 original size:45 final size:47
Alignment explanation
Indices: 120257390--120257505 Score: 123
Period size: 46 Copynumber: 2.4 Consensus size: 47
120257380 TAGATGATGG
*
120257390 ATAGTAAGCTC-TATTGAGCTGA-AAC-GATAAGCTCTAACGAGGTGA-
1 ATAGTAAGCTCATA-CGAGCTGAGAACAG-TAAGCTCTAACGAGGTGAT
* * *
120257435 ATAGTAAGCTCATACGAGCTAAGAACAGTAAGCTCTTACGAGTTGAT
1 ATAGTAAGCTCATACGAGCTGAGAACAGTAAGCTCTAACGAGGTGAT
120257482 ATATCGGTAAGCTCATACGAGCTG
1 ATA---GTAAGCTCATACGAGCTG
120257506 CGGTGAGTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
45 17 0.29
46 21 0.36
47 4 0.07
50 17 0.29
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (47 bp):
ATAGTAAGCTCATACGAGCTGAGAACAGTAAGCTCTAACGAGGTGAT
Found at i:120257467 original size:24 final size:26
Alignment explanation
Indices: 120257437--120257505 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
120257427 CGAGGTGAAT
120257437 AGTAAGCTCATACGAGCT-A-AGAAC
1 AGTAAGCTCATACGAGCTGATAGAAC
* * * *
120257461 AGTAAGCTCTTACGAGTTGATATATC
1 AGTAAGCTCATACGAGCTGATAGAAC
*
120257487 GGTAAGCTCATACGAGCTG
1 AGTAAGCTCATACGAGCTG
120257506 CGGTGAGTCC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 16 0.44
25 1 0.03
26 19 0.53
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (26 bp):
AGTAAGCTCATACGAGCTGATAGAAC
Found at i:120265207 original size:15 final size:15
Alignment explanation
Indices: 120265187--120265218 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
120265177 CATTCGATAT
120265187 GGAGTGATCAAAATA
1 GGAGTGATCAAAATA
120265202 GGAGTGATCAAAATA
1 GGAGTGATCAAAATA
120265217 GG
1 GG
120265219 CACTGTCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (15 bp):
GGAGTGATCAAAATA
Found at i:120265899 original size:40 final size:40
Alignment explanation
Indices: 120265844--120265922 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
120265834 TCACGTACGG
120265844 GAGTTCTAGCTTCTGATCTCCCTGTGGTGTCTTTCATTCA
1 GAGTTCTAGCTTCTGATCTCCCTGTGGTGTCTTTCATTCA
120265884 GAGTTCTAGCTTCTGATCTCCCTGTGGTGTCTTTCATTC
1 GAGTTCTAGCTTCTGATCTCCCTGTGGTGTCTTTCATTC
120265923 CATTCTTACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.43
Consensus pattern (40 bp):
GAGTTCTAGCTTCTGATCTCCCTGTGGTGTCTTTCATTCA
Found at i:120274645 original size:30 final size:30
Alignment explanation
Indices: 120274609--120274709 Score: 127
Period size: 28 Copynumber: 3.5 Consensus size: 30
120274599 GACAAGATTG
* *
120274609 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATACA
*
120274639 GCACTAAGTGTGCGAGTTT--GATTATACA
1 GCACTAAGTGTGCGAGTTTAAAATTATACA
* * *
120274667 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATACA
120274696 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
120274710 GATTCACTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 24 0.39
29 19 0.31
30 19 0.31
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATACA
Found at i:120274721 original size:29 final size:28
Alignment explanation
Indices: 120274635--120274713 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
120274625 TTTAAAATTG
*
120274635 TACAGCACTAAGTGTGCGAGTTTGAT-TA
1 TACAGCACTAAGTGTGCG-GATTGATATA
* *
120274663 TACAGCACTAAGTGTGC-GAGCTGAAAATA
1 TACAGCACTAAGTGTGCGGA-TTG-ATATA
*
120274692 TATAGCACTAAGTGTGCGGATT
1 TACAGCACTAAGTGTGCGGATT
120274714 CACTATATGC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
26 1 0.02
27 2 0.05
28 18 0.43
29 19 0.45
30 2 0.05
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (28 bp):
TACAGCACTAAGTGTGCGGATTGATATA
Found at i:120294442 original size:29 final size:27
Alignment explanation
Indices: 120294408--120294510 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
120294398 TACTCAATCA
*
120294408 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
120294437 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
120294466 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
120294495 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
120294511 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:120301477 original size:29 final size:27
Alignment explanation
Indices: 120301443--120301545 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
120301433 TACTCAATCA
*
120301443 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
120301472 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
120301501 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
120301530 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
120301546 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:120309235 original size:29 final size:27
Alignment explanation
Indices: 120309201--120309303 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
120309191 TACTCAATCA
*
120309201 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
120309230 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
120309259 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
120309288 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
120309304 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:120316264 original size:29 final size:27
Alignment explanation
Indices: 120316230--120316332 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
120316220 TACTCAATCA
*
120316230 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
120316259 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
120316288 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
120316317 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
120316333 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:120324745 original size:42 final size:43
Alignment explanation
Indices: 120324694--120324799 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 43
120324684 CCTGATCAGC
120324694 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
** * * *
120324736 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-A
120324780 ATACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
120324800 GATCGATAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 37 0.69
44 17 0.31
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (43 bp):
ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:120324746 original size:23 final size:21
Alignment explanation
Indices: 120324694--120324789 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
120324684 CCTGATCAGC
** * *
120324694 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
120324715 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
120324736 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
120324757 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
120324778 AAATACGACACA
1 --ATACGACACA
120324790 TAAAGTGCCT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 57 0.85
23 10 0.15
ACGTcount: A:0.36, C:0.27, G:0.23, T:0.14
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:120325197 original size:15 final size:15
Alignment explanation
Indices: 120325172--120325229 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
120325162 TCATATATAT
120325172 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
120325188 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
120325203 AATAATTTCAATCAA
1 TATAAATTCAATCAA
120325218 TATAAATTCAAT
1 TATAAATTCAAT
120325230 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:120340084 original size:44 final size:44
Alignment explanation
Indices: 120340014--120340098 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
120340004 ATTTCCGATA
* **
120340014 TCTATTTTGCGTGTAAGACCACGTCTTCGATGTTGGCATCGACT
1 TCTATTTTGCATGTAAGACCACGTCTTCGACATTGGCATCGACT
* * *
120340058 TCTATTTTGCATGTAAGACTATGTCTTGGACATTGGCATCG
1 TCTATTTTGCATGTAAGACCACGTCTTCGACATTGGCATCG
120340099 TATCTGATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (44 bp):
TCTATTTTGCATGTAAGACCACGTCTTCGACATTGGCATCGACT
Found at i:120350189 original size:61 final size:60
Alignment explanation
Indices: 120350119--120350240 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 60
120350109 TTGGTAAGTT
*
120350119 TAGTTTCTATTATATGAACTTACTAAGCATGTAATGCTTACTCCGCTTTACTTTTTTCCTA
1 TAGTTTCTATTATATGAACTTACTAAGCATGTAATACTTACTCCGCTTTA-TTTTTTCCTA
*
120350180 TAGTTTCTATTATATGAACTTGCTAAGCATGTAATACTTACTCCGCTTTATTTTTTCCTA
1 TAGTTTCTATTATATGAACTTACTAAGCATGTAATACTTACTCCGCTTTATTTTTTCCTA
120350240 T
1 T
120350241 TTTATAGTGC
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 11 0.19
61 48 0.81
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.47
Consensus pattern (60 bp):
TAGTTTCTATTATATGAACTTACTAAGCATGTAATACTTACTCCGCTTTATTTTTTCCTA
Found at i:120357983 original size:38 final size:39
Alignment explanation
Indices: 120357908--120358027 Score: 206
Period size: 39 Copynumber: 3.1 Consensus size: 39
120357898 ATTACCAGCA
* *
120357908 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGACACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
120357947 CCAGCACGAAGCCTGC-GGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
120357985 CCAGCACGAAGCCTGCGGGACTTTAGCCCAGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
120358024 CCAG
1 CCAG
120358028 TGTCTTGCAT
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 36 0.47
39 41 0.53
ACGTcount: A:0.23, C:0.33, G:0.24, T:0.20
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:120366865 original size:36 final size:36
Alignment explanation
Indices: 120366812--120367107 Score: 175
Period size: 36 Copynumber: 8.0 Consensus size: 36
120366802 TCATTAACAA
* * * *
120366812 TCAG-AACAATTATTTATTTAGTAACAGTCACTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * * **
120366847 TCGGTAACAATCAATTATTCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * *
120366883 TCAGTATCGATCAATTGATCGGTTATCTAGTAACAGTCAATTAT
1 TCAGTAACAATCAATT-A-----T-TC-AGTAACAGTCAGTTAT
* * * *
120366927 TTAGTAA-AATCAGA-TATTCAGTAGCAATTAAGTTAT
1 TCAGTAACAATCA-ATTATTCAGTAAC-AGTCAGTTAT
* * * * *
120366963 TCAGTAACAGTCATTTATTTAGTGACAATCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
** * * *
120366999 TCAGTAATGATCAATTATTTAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * * *
120367035 TCAGTAACAGTCCATTATCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * * *
120367071 TCGGTAACAGTCAATTATTCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
120367107 T
1 T
120367108 TTATACCTTT
Statistics
Matches: 194, Mismatches: 54, Indels: 25
0.71 0.20 0.09
Matches are distributed among these distances:
35 8 0.04
36 146 0.75
37 14 0.07
42 2 0.01
43 7 0.04
44 17 0.09
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
Found at i:120366931 original size:18 final size:18
Alignment explanation
Indices: 120366911--120367095 Score: 160
Period size: 18 Copynumber: 10.3 Consensus size: 18
120366901 TCGGTTATCT
*
120366911 AGTAACAGTCAATTATTT
1 AGTAACAGTCAATTATTC
*
120366929 AGTAA-AATCAGA-TATTC
1 AGTAACAGTCA-ATTATTC
* * *
120366946 AGTAGCAATTAAGTTATTC
1 AGTAACAGTCAA-TTATTC
* *
120366965 AGTAACAGTCATTTATTT
1 AGTAACAGTCAATTATTC
* * *
120366983 AGTGACAATCAGTTATTC
1 AGTAACAGTCAATTATTC
* *
120367001 AGTAA-TGATCAATTATTT
1 AGTAACAG-TCAATTATTC
* * *
120367019 AGTAATATTCAGTTATTC
1 AGTAACAGTCAATTATTC
* *
120367037 AGTAACAGTCCATTATCC
1 AGTAACAGTCAATTATTC
120367055 AGTAACAGTCAATTATTC
1 AGTAACAGTCAATTATTC
*
120367073 GGTAACAGTCAATTATTC
1 AGTAACAGTCAATTATTC
120367091 AGTAA
1 AGTAA
120367096 TAATCAGTTA
Statistics
Matches: 130, Mismatches: 31, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
17 13 0.10
18 104 0.80
19 13 0.10
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (18 bp):
AGTAACAGTCAATTATTC
Found at i:120367043 original size:72 final size:72
Alignment explanation
Indices: 120366905--120367107 Score: 198
Period size: 72 Copynumber: 2.8 Consensus size: 72
120366895 AATTGATCGG
* * * * ** *
120366905 TTATCTAGTAACAGTCAATTATTTAGTAA-AATCAGA-TATTCAGTAGCAATTAAGTTATTCAGT
1 TTATCCAGTAACAATCAATTATTCAGTAACAGTCA-ATTATTCAGTAATAA-TCAGTTATTCAGT
120366968 AACAGT-CA
64 AACAGTCCA
** * * * * *
120366976 TTTATTTAGTGACAATCAGTTATTCAGTAA-TGATCAATTATTTAGTAATATTCAGTTATTCAGT
1 -TTATCCAGTAACAATCAATTATTCAGTAACAG-TCAATTATTCAGTAATAATCAGTTATTCAGT
120367040 AACAGTCCA
64 AACAGTCCA
* *
120367049 TTATCCAGTAACAGTCAATTATTCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TTATCCAGTAACAATCAATTATTCAGTAACAGTCAATTATTCAGTAATAATCAGTTATT
120367108 TTATACCTTT
Statistics
Matches: 106, Mismatches: 21, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
72 91 0.86
73 15 0.14
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.38
Consensus pattern (72 bp):
TTATCCAGTAACAATCAATTATTCAGTAACAGTCAATTATTCAGTAATAATCAGTTATTCAGTAA
CAGTCCA
Found at i:120367106 original size:18 final size:18
Alignment explanation
Indices: 120366812--120367107 Score: 150
Period size: 18 Copynumber: 16.1 Consensus size: 18
120366802 TCATTAACAA
* *
120366812 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
* * *
120366829 TTAGTAACAGTCACTTAT
1 TCAGTAACAATCAGTTAT
* *
120366847 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
120366865 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
*
120366883 TCAGTATCGATCAATTGATCGGTTA-
1 TCAGTA---A-C-A---ATCAGTTAT
* *
120366908 TCTAGTAACAGTCAATTAT
1 TC-AGTAACAATCAGTTAT
* *
120366927 TTAGTAA-AATCAGATAT
1 TCAGTAACAATCAGTTAT
* *
120366944 TCAGTAGCAATTAAGTTAT
1 TCAGTAACAA-TCAGTTAT
* *
120366963 TCAGTAACAGTCATTTAT
1 TCAGTAACAATCAGTTAT
* *
120366981 TTAGTGACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
** *
120366999 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
120367017 TTAGTAATATTCAGTTAT
1 TCAGTAACAATCAGTTAT
*
120367035 TCAGTAACAGTCCA-TTAT
1 TCAGTAACAAT-CAGTTAT
* * *
120367053 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
120367071 TCGGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
*
120367089 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAGTTAT
120367107 T
1 T
120367108 TTATACCTTT
Statistics
Matches: 209, Mismatches: 55, Indels: 29
0.71 0.19 0.10
Matches are distributed among these distances:
17 17 0.08
18 158 0.76
19 17 0.08
21 2 0.01
22 1 0.00
23 2 0.01
25 2 0.01
26 10 0.05
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:120367383 original size:45 final size:45
Alignment explanation
Indices: 120367270--120367412 Score: 170
Period size: 45 Copynumber: 3.2 Consensus size: 45
120367260 AACAAATCTG
* *
120367270 GAAT-AGTAACAGTAACAGTAACAATATTCAACACACAAAGTGCT
1 GAATCAGTAACGGTAACAGTAACAGTATTCAACACACAAAGTGCT
*
120367314 GAATC-GATAACGGTAACAGTAACAGTATTCGACACACAAAGTG-T
1 GAATCAG-TAACGGTAACAGTAACAGTATTCAACACACAAAGTGCT
* * *
120367358 CGAATCAGTAACGGTAACAGTAACAGTAGTCAGCACA-TAAGTGCCT
1 -GAATCAGTAACGGTAACAGTAACAGTATTCAACACACAAAGTG-CT
120367404 G-ATCAGTAA
1 GAATCAGTAA
120367413 GCCGGAAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
44 19 0.22
45 65 0.76
46 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (45 bp):
GAATCAGTAACGGTAACAGTAACAGTATTCAACACACAAAGTGCT
Found at i:120368292 original size:7 final size:7
Alignment explanation
Indices: 120368280--120368404 Score: 137
Period size: 7 Copynumber: 17.4 Consensus size: 7
120368270 ATTAATTATT
120368280 GGTTTAG
1 GGTTTAG
120368287 GGTTTAG
1 GGTTTAG
120368294 GGTTTAG
1 GGTTTAG
120368301 GGTTTAAG
1 GGTTT-AG
* *
120368309 GTTTTAT
1 GGTTTAG
120368316 GGTTTAG
1 GGTTTAG
120368323 GGTTTAG
1 GGTTTAG
120368330 GGTTTAG
1 GGTTTAG
*
120368337 GGTTTAT
1 GGTTTAG
120368344 GGTTTAAG
1 GGTTT-AG
120368352 GGTTTAG
1 GGTTTAG
*
120368359 TGTTTTAG
1 -GGTTTAG
120368367 GGTTTAG
1 GGTTTAG
*
120368374 TGCTTATA-
1 -GGTT-TAG
*
120368382 GTTTTAG
1 GGTTTAG
120368389 GGTTTA-
1 GGTTTAG
120368395 GGTTTAG
1 GGTTTAG
120368402 GGT
1 GGT
120368405 CATTGATTTA
Statistics
Matches: 100, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
6 8 0.08
7 69 0.69
8 21 0.21
9 2 0.02
ACGTcount: A:0.16, C:0.01, G:0.36, T:0.47
Consensus pattern (7 bp):
GGTTTAG
Found at i:120368319 original size:22 final size:21
Alignment explanation
Indices: 120368280--120368404 Score: 137
Period size: 22 Copynumber: 5.8 Consensus size: 21
120368270 ATTAATTATT
120368280 GGTTTAGGGTTTAGGGTTTAG
1 GGTTTAGGGTTTAGGGTTTAG
* *
120368301 GGTTTAAGGTTTTATGGTTTAG
1 GGTTT-AGGGTTTAGGGTTTAG
*
120368323 GGTTTAGGGTTTAGGGTTTAT
1 GGTTTAGGGTTTAGGGTTTAG
*
120368344 GGTTTAAGGGTTTAGTGTTTTAG
1 GGTTT-AGGGTTTAG-GGTTTAG
* *
120368367 GGTTTAGTGCTTATA-GTTTTAG
1 GGTTTAG-GGTT-TAGGGTTTAG
120368389 GGTTTA-GGTTTAGGGT
1 GGTTTAGGGTTTAGGGT
120368405 CATTGATTTA
Statistics
Matches: 88, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.02
20 5 0.06
21 23 0.26
22 43 0.49
23 13 0.15
24 2 0.02
ACGTcount: A:0.16, C:0.01, G:0.36, T:0.47
Consensus pattern (21 bp):
GGTTTAGGGTTTAGGGTTTAG
Found at i:120368321 original size:29 final size:28
Alignment explanation
Indices: 120368280--120368400 Score: 138
Period size: 29 Copynumber: 4.2 Consensus size: 28
120368270 ATTAATTATT
*
120368280 GGTTTAGGGTTTAGGGTTTAGGGTTTAAG
1 GGTTTATGGTTTAGGGTTTAGGGTTT-AG
*
120368309 GTTTTATGGTTTAGGGTTTAGGGTTTAG
1 GGTTTATGGTTTAGGGTTTAGGGTTTAG
*
120368337 GGTTTATGGTTTAAGGGTTTAGTGTTTTAG
1 GGTTTATGGTTT-AGGGTTTAG-GGTTTAG
* *
120368367 GGTTTAGTGCTTATA-GTTTTAGGGTTTA-
1 GGTTTA-TGGTT-TAGGGTTTAGGGTTTAG
120368395 GGTTTA
1 GGTTTA
120368401 GGGTCATTGA
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
28 19 0.23
29 38 0.47
30 18 0.22
31 5 0.06
32 1 0.01
ACGTcount: A:0.17, C:0.01, G:0.35, T:0.48
Consensus pattern (28 bp):
GGTTTATGGTTTAGGGTTTAGGGTTTAG
Found at i:120369231 original size:5 final size:5
Alignment explanation
Indices: 120369221--120369253 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
120369211 TTACTTATTT
120369221 ATATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATA
120369254 ACAATTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:120369385 original size:21 final size:22
Alignment explanation
Indices: 120369346--120369398 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
120369336 CATACAATTG
*
120369346 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
120369368 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
120369388 ATAAAATAATA
1 TTAAAATAATA
120369399 ATATAGTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 8 0.31
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:120373197 original size:24 final size:24
Alignment explanation
Indices: 120373169--120373220 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
120373159 TTAGTAGGTC
** *
120373169 AAATAAACTATGTTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
120373193 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
120373217 AAAT
1 AAAT
120373221 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:120375669 original size:22 final size:22
Alignment explanation
Indices: 120375622--120375670 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
120375612 CTCTATTTTC
* *
120375622 TAGCATGTTTGTGCTCTCTATT
1 TAGCATGCTTGTGCTCTCTATA
* *
120375644 TAGCATGCTTGTGCTCTTTGTA
1 TAGCATGCTTGTGCTCTCTATA
120375666 TAGCA
1 TAGCA
120375671 CATCGGTGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.45
Consensus pattern (22 bp):
TAGCATGCTTGTGCTCTCTATA
Found at i:120392481 original size:16 final size:16
Alignment explanation
Indices: 120392462--120392497 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
120392452 GGAATGTGGT
*
120392462 TGTAATTGAATAGAGC
1 TGTAATAGAATAGAGC
120392478 TGTAATAGAATAGAGC
1 TGTAATAGAATAGAGC
120392494 TGTA
1 TGTA
120392498 GTCAGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.31
Consensus pattern (16 bp):
TGTAATAGAATAGAGC
Found at i:120392883 original size:19 final size:21
Alignment explanation
Indices: 120392839--120392885 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
120392829 ATTGAGTGGT
120392839 TAATTAGACTTTAATTAAGTA
1 TAATTAGACTTTAATTAAGTA
*
120392860 AAATTAG-C-TTAATTAAG-A
1 TAATTAGACTTTAATTAAGTA
120392878 GTAATTAG
1 -TAATTAG
120392886 TGGAAAGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 1 0.04
21 6 0.26
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (21 bp):
TAATTAGACTTTAATTAAGTA
Found at i:120393216 original size:5 final size:5
Alignment explanation
Indices: 120393192--120393247 Score: 58
Period size: 5 Copynumber: 10.6 Consensus size: 5
120393182 AAGAAATTGT
* * *
120393192 TATTA TATGA TATTA TTATTA TATTA TAGTA TATTA TATTTTA TACTA
1 TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TA--TTA TATTA
120393240 TATTA TAT
1 TATTA TAT
120393248 AAATAAGTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
5 32 0.76
6 5 0.12
7 5 0.12
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:120393241 original size:17 final size:17
Alignment explanation
Indices: 120393205--120393248 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
120393195 TATATGATAT
*
120393205 TATTATTATATTATAGTA
1 TATTA-TATATTATACTA
*
120393223 TATTATATTTTATACTA
1 TATTATATATTATACTA
120393240 TATTATATA
1 TATTATATA
120393249 AATAAGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
TATTATATATTATACTA
Found at i:120394544 original size:15 final size:15
Alignment explanation
Indices: 120394524--120394580 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
120394514 CGATGAATTT
120394524 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
120394539 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
120394554 ATTGAATTTATATTG
1 ATTGAATTTATATTG
120394569 ATTGAA-TTATAT
1 ATTGAATTTATAT
120394581 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:120395000 original size:21 final size:21
Alignment explanation
Indices: 120394965--120395060 Score: 102
Period size: 21 Copynumber: 4.5 Consensus size: 21
120394955 AGGCACTTTA
120394965 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
* *
120394988 TGTGTTGTATCAGGCACCTCA
1 TGTGTCGTATCAGGCACCTCG
*
120395009 TGTGTCGTATCAGACACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
120395030 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
120395051 TGTGTCGTAT
1 TGTGTCGTAT
120395061 ACTGATCAGG
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 53 0.87
23 8 0.13
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.38
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:120395015 original size:44 final size:43
Alignment explanation
Indices: 120394952--120395060 Score: 148
Period size: 42 Copynumber: 2.5 Consensus size: 43
120394942 GGCTTTACCG
* *
120394952 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTTGT
1 ATCAGGCACTTTATGTGTCGTA-TTCAGACACCTCGTGTGTCGT
* *
120394996 ATCAGGCACCTCATGTGTCGTA-TCAGACACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTATTCAGACACCTCGTGTGTCGT
* *
120395038 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
120395061 ACTGATCAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 36 0.64
44 20 0.36
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (43 bp):
ATCAGGCACTTTATGTGTCGTATTCAGACACCTCGTGTGTCGT
Found at i:120396217 original size:21 final size:20
Alignment explanation
Indices: 120396193--120396233 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
120396183 ATGAATTAAA
*
120396193 AAAAATAGTATATAATACTAT
1 AAAAATAATATATAAT-CTAT
120396214 AAAAATAATATATAATCTAT
1 AAAAATAATATATAATCTAT
120396234 TTTATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAATAATATATAATCTAT
Found at i:120398643 original size:8 final size:9
Alignment explanation
Indices: 120398632--120398695 Score: 59
Period size: 8 Copynumber: 7.7 Consensus size: 9
120398622 ATATAAATAT
120398632 ATTAT-TTA
1 ATTATATTA
120398640 ATTATA--A
1 ATTATATTA
*
120398647 AGTATATT-
1 ATTATATTA
*
120398655 ATTAT-TTT
1 ATTATATTA
120398663 ATTATATTA
1 ATTATATTA
120398672 ATTATATTA
1 ATTATATTA
120398681 TATTATATT-
1 -ATTATATTA
120398690 ATTATA
1 ATTATA
120398696 AATAAACCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
7 8 0.17
8 20 0.43
9 11 0.23
10 8 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (9 bp):
ATTATATTA
Found at i:120398670 original size:5 final size:5
Alignment explanation
Indices: 120398649--120398691 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
120398639 AATTATAAAG
*
120398649 TATAT TATTAT TTTAT TATAT TA-AT TATAT TATAT TATAT TAT
1 TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
120398692 TATAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.12
5 26 0.76
6 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TATAT
Found at i:120398807 original size:5 final size:5
Alignment explanation
Indices: 120398785--120398832 Score: 55
Period size: 5 Copynumber: 10.0 Consensus size: 5
120398775 CATATTTACT
* * *
120398785 TATTA T-TTA -ATTA AATTA TATTA TATTA TATTA TTTTT TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
120398833 AACTAATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
4 6 0.17
5 30 0.83
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:120399912 original size:2 final size:2
Alignment explanation
Indices: 120399907--120399949 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
120399897 ATGAGAGAAT
120399907 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
120399949 T
1 T
120399950 GTCATTGAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:120400470 original size:11 final size:11
Alignment explanation
Indices: 120400439--120400476 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
120400429 TATTGAGTGA
*
120400439 AATTGAAAGTG
1 AATTGAAATTG
*
120400450 -ATTCAAATTG
1 AATTGAAATTG
120400460 AATTGAAATTG
1 AATTGAAATTG
120400471 AATTGA
1 AATTGA
120400477 GCAATTGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.34
Consensus pattern (11 bp):
AATTGAAATTG
Found at i:120421176 original size:9 final size:8
Alignment explanation
Indices: 120421160--120421185 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
120421150 TTTTAATATA
120421160 TATTTTTT
1 TATTTTTT
120421168 TATTTTTT
1 TATTTTTT
120421176 TATTTTTT
1 TATTTTTT
120421184 TA
1 TA
120421186 CTATGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TATTTTTT
Found at i:120423321 original size:2 final size:2
Alignment explanation
Indices: 120423314--120423339 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
120423304 AATCACTGAA
120423314 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
120423340 TTAAATTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120424885 original size:45 final size:45
Alignment explanation
Indices: 120424806--120424921 Score: 164
Period size: 45 Copynumber: 2.6 Consensus size: 45
120424796 AATAAATCTG
* *
120424806 GAAT-AGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCT
1 GAATCAGTAACAGTAACAGTAACAGTATTCAACACACAAAATGCC
* *
120424850 GAATC-GATAACGGTAACAGTAACAGTATTCGACACACAAAATGCC
1 GAATCAG-TAACAGTAACAGTAACAGTATTCAACACACAAAATGCC
*
120424895 GAATCAGTAACAGTAACGGTAACAGTA
1 GAATCAGTAACAGTAACAGTAACAGTA
120424922 ATAGTAGTCG
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
44 5 0.08
45 57 0.90
46 1 0.02
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (45 bp):
GAATCAGTAACAGTAACAGTAACAGTATTCAACACACAAAATGCC
Found at i:120425188 original size:2 final size:2
Alignment explanation
Indices: 120425181--120425208 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
120425171 ATTCAATTCA
120425181 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
120425209 CTCAGTTATT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.