Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
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 105 of 425
Found at i:30534681 original size:27 final size:29
Alignment explanation
Indices: 30534600--30534719 Score: 92
Period size: 29 Copynumber: 4.2 Consensus size: 29
30534590 AATTTTAAAT
* *
30534600 TAATA-AAATAATACATAAT-TTATGATAA
1 TAATATAAATAATATATAATAATAT-ATAA
*
30534628 -AATAAAAATAATATATGGAATAATATATAA
1 TAATATAAATAATATAT--AATAATATATAA
** *
30534658 -AA-ATGTATAATATATAATAGTATATAA
1 TAATATAAATAATATATAATAATATATAA
*
30534685 TAATATAAATAATATATAAATAA-AAATAA
1 TAATATAAATAATATAT-AATAATATATAA
30534714 T-ATATA
1 TAATATA
30534720 CTATTTTACA
Statistics
Matches: 75, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
27 15 0.20
28 17 0.23
29 27 0.36
30 13 0.17
31 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (29 bp):
TAATATAAATAATATATAATAATATATAA
Found at i:30534696 original size:29 final size:28
Alignment explanation
Indices: 30534601--30534703 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 28
30534591 ATTTTAAATT
* *
30534601 AATA-AAATAATACATAAT-TTATGATAA
1 AATATAAATAATATATAATAATAT-ATAA
*
30534628 AATAAAAATAATATATGGAATAATATATAA
1 AATATAAATAATATAT--AATAATATATAA
** *
30534658 AA-ATGTATAATATATAATAGTATATAA
1 AATATAAATAATATATAATAATATATAA
30534685 TAATATAAATAATATATAA
1 -AATATAAATAATATATAA
30534704 ATAAAAATAA
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
27 15 0.24
28 12 0.19
29 23 0.37
30 9 0.15
31 3 0.05
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (28 bp):
AATATAAATAATATATAATAATATATAA
Found at i:30541406 original size:29 final size:29
Alignment explanation
Indices: 30541378--30541479 Score: 141
Period size: 29 Copynumber: 3.5 Consensus size: 29
30541368 CCTCCGAGCT
** * * *
30541378 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
30541407 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
30541436 CGTACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30541465 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
30541480 GATCTCGTCA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:30550238 original size:93 final size:93
Alignment explanation
Indices: 30550074--30550288 Score: 299
Period size: 93 Copynumber: 2.3 Consensus size: 93
30550064 CGCCCATAAG
* *
30550074 CGAACTCGGACTCAACTCAATGAGCTCGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
30550138 ACAAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTCAGATGCCTAGTTACATCTCA
* *
30550166 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGG-GTCCAACTC
1 CGAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACT-CAACTC
**
30550230 AATGAGTTCAGATGCCTAGTTACATCTCA
65 AACAAGTTCAGATGCCTAGTTACATCTCA
** * * *
30550259 AAAACTTGAACTCAACTCAAAGAGTTCGGA
1 CGAACTCGGACTCAACTCAAAGAGCTCGGA
30550289 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
92 29 0.27
93 80 0.73
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCAGATGCCTAGTTACATCTCA
Found at i:30556738 original size:47 final size:47
Alignment explanation
Indices: 30556518--30556731 Score: 267
Period size: 47 Copynumber: 4.6 Consensus size: 47
30556508 CATCCATAAG
*
30556518 TGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
* *
30556565 CGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
* * * * *
30556612 CGAACTCAGACTCAACTCAACGAGTTC--A-GAC-A-TTCGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA
30556657 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
1 -TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
* *
30556705 TGAACTCGGATTCAACTCAATGAGTTC
1 TGAACTCGGACTCAACTCAACGAGTTC
30556732 AAATGCCCAA
Statistics
Matches: 145, Mismatches: 13, Indels: 18
0.82 0.07 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 3 0.02
45 3 0.02
46 25 0.17
47 96 0.66
48 3 0.02
49 3 0.02
50 4 0.03
51 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (47 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30556738 original size:140 final size:140
Alignment explanation
Indices: 30556484--30556738 Score: 411
Period size: 140 Copynumber: 1.8 Consensus size: 140
30556474 AACTCGAACA
* * *
30556484 CAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGAT
1 CAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGAT
**
30556549 GCCTAGTTACATCTCACGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACG
66 GCCTAGTTACATCTCACGAACTCAGACTCAACTCAACGAGTTCAAATGCCTAGTTACATCTCACG
30556614 AACTCAGACT
131 AACTCAGACT
* *
30556624 CAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGAT
* * * *
30556689 GCCTAGTTACATCTCATGAACTCGGATTCAACTCAATGAGTTCAAATGCC
66 GCCTAGTTACATCTCACGAACTCAGACTCAACTCAACGAGTTCAAATGCC
30556739 CAAATATCCT
Statistics
Matches: 104, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
140 104 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (140 bp):
CAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGAT
GCCTAGTTACATCTCACGAACTCAGACTCAACTCAACGAGTTCAAATGCCTAGTTACATCTCACG
AACTCAGACT
Found at i:30562624 original size:11 final size:10
Alignment explanation
Indices: 30562605--30562649 Score: 63
Period size: 11 Copynumber: 4.2 Consensus size: 10
30562595 AAATGCTCGT
30562605 GAAAAAAAAA
1 GAAAAAAAAA
30562615 GAAGAAAAAAA
1 GAA-AAAAAAA
30562626 GAAAATAAAAA
1 GAAAA-AAAAA
30562637 GAACAAAAAAA
1 GAA-AAAAAAA
30562648 GA
1 GA
30562650 GAGCATATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.16
11 25 0.78
12 2 0.06
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.02
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:30562638 original size:22 final size:21
Alignment explanation
Indices: 30562605--30562649 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
30562595 AAATGCTCGT
*
30562605 GAAAAAAAAAGAAGAAAAAAA
1 GAAAAAAAAAGAACAAAAAAA
30562626 GAAAATAAAAAGAACAAAAAAA
1 GAAAA-AAAAAGAACAAAAAAA
30562648 GA
1 GA
30562650 GAGCATATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.02
Consensus pattern (21 bp):
GAAAAAAAAAGAACAAAAAAA
Found at i:30567038 original size:43 final size:43
Alignment explanation
Indices: 30566977--30567062 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
30566967 TATGTGATTG
30566977 ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
* *
30567020 ATATTGAAATGACAAAGATGATAAATGAATATGAGATGTGAAA
1 ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
30567063 CTTGAATGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.52, C:0.02, G:0.22, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:30571435 original size:48 final size:49
Alignment explanation
Indices: 30571361--30571456 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 49
30571351 TCTAGGAGGG
* *
30571361 ATAAATAGTGATAAGAGTGCAAACAGTGGAAGACTAAATTTAGCAATGT
1 ATAAATAGTGATAAGAGTGCAAACAGTGGAAGACCAAATTTAGAAATGT
* *
30571410 ATAAAT-GTGATAAGAGTGTATACAGTGGAAGACCAAATTTAGAAATG
1 ATAAATAGTGATAAGAGTGCAAACAGTGGAAGACCAAATTTAGAAATG
30571457 CATAGCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 37 0.86
49 6 0.14
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGCAAACAGTGGAAGACCAAATTTAGAAATGT
Found at i:30576479 original size:13 final size:13
Alignment explanation
Indices: 30576461--30576489 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
30576451 TTTAGTTTAA
30576461 TTAGTTAATTAGT
1 TTAGTTAATTAGT
30576474 TTAGTTAATTAGT
1 TTAGTTAATTAGT
30576487 TTA
1 TTA
30576490 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:30581422 original size:42 final size:42
Alignment explanation
Indices: 30581376--30581486 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 42
30581366 TACCATACTA
* * ** *
30581376 ATGCCACATCCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAAATATGGTCTTACATGAAATCCCATATCG
* ** *
30581418 ATGCCAGTAGCCCATCTATGGTCTTACATGAAATCCCATTTCG
1 ATGCCA-TATCCCAAATATGGTCTTACATGAAATCCCATATCG
30581461 ATGCCATATCCCAAATATGGTCTTAC
1 ATGCCATATCCCAAATATGGTCTTAC
30581487 GCGTAATCTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 23 0.40
43 34 0.60
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTACATGAAATCCCATATCG
Found at i:30591683 original size:30 final size:28
Alignment explanation
Indices: 30591643--30591743 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
30591633 GACAAGATTG
* * *
30591643 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
30591673 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
30591701 GCACTAAGTGTGCGAGCTGAATATATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
30591730 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
30591744 GATTCACTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 25 0.40
29 20 0.32
30 17 0.27
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:30591707 original size:28 final size:29
Alignment explanation
Indices: 30591672--30591743 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
30591662 AAAATTGTAC
*
30591672 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
30591700 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
30591729 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
30591744 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:30599512 original size:30 final size:28
Alignment explanation
Indices: 30599472--30599564 Score: 105
Period size: 28 Copynumber: 3.2 Consensus size: 28
30599462 GACAAGATTG
* * *
30599472 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
30599502 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* *
30599530 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
30599558 GCACTAA
1 GCACTAA
30599565 TGCATGAAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 41 0.71
30 17 0.29
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:30599536 original size:28 final size:28
Alignment explanation
Indices: 30599501--30599564 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
30599491 AAAATTGTAC
30599501 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
30599529 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
30599557 AGCACTAA
1 AGCACTAA
30599565 TGCATGAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:30601163 original size:40 final size:40
Alignment explanation
Indices: 30601104--30601296 Score: 233
Period size: 40 Copynumber: 4.8 Consensus size: 40
30601094 CAATTGAATG
* * *
30601104 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
30601144 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
30601184 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
30601224 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
*
30601264 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
30601297 TGTGGTTATA
Statistics
Matches: 132, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 132 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:30609787 original size:47 final size:49
Alignment explanation
Indices: 30609670--30609844 Score: 183
Period size: 45 Copynumber: 3.8 Consensus size: 49
30609660 AACCCGCCCC
* * * *
30609670 TAAGTGAACTCGGACTCAACTCAACGAGCTC-G--G-CGTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
30609715 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATCCA
* *
30609763 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
30609808 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
30609845 TCAACCATCC
Statistics
Matches: 109, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 32 0.29
46 30 0.28
47 29 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
Found at i:30609833 original size:93 final size:92
Alignment explanation
Indices: 30609675--30609844 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
30609665 GCCCCTAAGT
*
30609675 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
30609740 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
30609767 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30609832 CGAGTTCGGATGC
65 CGAGTTCGGATGC
30609845 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 48 0.64
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30610294 original size:30 final size:30
Alignment explanation
Indices: 30610260--30610319 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
30610250 ATTTAATACG
30610260 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
30610290 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
30610320 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:30614915 original size:28 final size:28
Alignment explanation
Indices: 30614850--30614948 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
30614840 CTAGTGAGTC
* *
30614850 CGCACACTTAGTGCTATATATTC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
30614877 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
30614905 CGCACACTTAGTGCTGTACAATTTCAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
30614935 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30614949 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
30 20 0.31
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:30621483 original size:77 final size:80
Alignment explanation
Indices: 30621372--30621551 Score: 237
Period size: 77 Copynumber: 2.3 Consensus size: 80
30621362 TACTCGTTCA
* *
30621372 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
30621435 ATTTAGTAAC-TCGCAC
65 A-TTAGTAACTTAGCAC
**
30621451 AATGCCTTC-GG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
30621513 TTAGTCACTTAGCAC
66 TTAGTAACTTAGCAC
*
30621528 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
30621552 CATCATTCGA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
76 10 0.11
77 54 0.61
78 5 0.06
79 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTAGTAACTTAGCAC
Found at i:30621535 original size:39 final size:39
Alignment explanation
Indices: 30621370--30621551 Score: 230
Period size: 40 Copynumber: 4.7 Consensus size: 39
30621360 GCTACTCGTT
* *
30621370 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
30621410 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
30621450 C-AATGCCTTC-GG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
* * *
30621487 CAAATGCCTTC-GGATCTTAGTCCGGATTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTAGTAAC-TCGCA
30621527 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30621552 CATCATTCGA
Statistics
Matches: 127, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
37 23 0.18
38 14 0.11
39 33 0.26
40 56 0.44
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:30629481 original size:78 final size:81
Alignment explanation
Indices: 30629361--30629542 Score: 257
Period size: 78 Copynumber: 2.3 Consensus size: 81
30629351 TACTCGTTCA
* *
30629361 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
30629424 ATTTAGTAAC-TCGCAC
65 ATTTAGTAACTTAGCAC
**
30629440 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
30629503 TTTAGTCACTTAGCAC
66 TTTAGTAACTTAGCAC
*
30629519 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
30629543 CATCATTCGA
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
77 3 0.03
78 49 0.53
79 29 0.32
80 11 0.12
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTTAGTAACTTAGCAC
Found at i:30629542 original size:40 final size:40
Alignment explanation
Indices: 30629359--30629542 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
30629349 GCTACTCGTT
*
30629359 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
30629399 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
30629439 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
30629477 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
30629518 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30629543 CATCATTCGA
Statistics
Matches: 129, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
38 26 0.20
39 21 0.16
40 69 0.53
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30637332 original size:29 final size:29
Alignment explanation
Indices: 30637292--30637394 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 29
30637282 TAATCGATCA
* *
30637292 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATATAATTTAAGCT
* *
30637321 CGTACACATAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCATATAATTTAAGCT
*
30637350 CGCACACTTAGTGCCATA-CATTTCAAGCT
1 CGCACACTTAGTGCCATATAATTT-AAGCT
*
30637379 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
30637395 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATAATTTAAGCT
Found at i:30640291 original size:29 final size:29
Alignment explanation
Indices: 30640257--30640329 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
30640247 AATCAACCAT
* *
30640257 GCACACTTAGTGCCATGTACTTT-AAACTC
1 GCACACTTAGTGCCATGCA-TTTCAAACCC
*
30640286 GCACACTTAGTGCCATGCATTTCAAGCCC
1 GCACACTTAGTGCCATGCATTTCAAACCC
30640315 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
30640330 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCATTTCAAACCC
Found at i:30640980 original size:2 final size:2
Alignment explanation
Indices: 30640968--30641017 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
30640958 TGATGGCTGA
*
30640968 AT AT GT 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
30641010 AT AT AT AT
1 AT AT AT AT
30641018 CAACTATACT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30643283 original size:43 final size:42
Alignment explanation
Indices: 30643203--30643287 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 42
30643193 TGATTACATG
* *
30643203 TAAGATCATGTCTGGGACATTGGCATTGTATTGTGATTATCTT
1 TAAGACCATGTCTGGGACATTGGCATCGTATTGTGATT-TCTT
30643246 TAAGACCATGTCTGGGACATTGGCATCGTTATT-TGATTTCTT
1 TAAGACCATGTCTGGGACATTGGCATCG-TATTGTGATTTCTT
30643288 GTAAAACCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
42 4 0.10
43 31 0.79
44 4 0.10
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.41
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATTGGCATCGTATTGTGATTTCTT
Found at i:30643304 original size:43 final size:43
Alignment explanation
Indices: 30643214--30643305 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 43
30643204 AAGATCATGT
* * **
30643214 CTGGGACATTGGCATTGTATTGTGATTATCTTTAAGACCATGT
1 CTGGGACATTGGCATCGTATTGTGATTATCTTTAAAACCATAC
*
30643257 CTGGGACATTGGCATCGTTATT-TGATT-TCTTGTAAAACCCTAC
1 CTGGGACATTGGCATCG-TATTGTGATTATCTT-TAAAACCATAC
30643300 CTGGGA
1 CTGGGA
30643306 TAGTGACATC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 4 0.10
43 34 0.81
44 4 0.10
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (43 bp):
CTGGGACATTGGCATCGTATTGTGATTATCTTTAAAACCATAC
Found at i:30649802 original size:27 final size:26
Alignment explanation
Indices: 30649761--30649866 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 26
30649751 AGGAAGTGTC
30649761 CTGGTGGCTAC-GCCACAATTATCTGAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGAT
30649788 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAT-TATCTGA-T
*
30649815 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCT-GAT
* *
30649843 CTGGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACATTATCTG
30649867 TTCTAGCAGC
Statistics
Matches: 70, Mismatches: 3, Indels: 13
0.81 0.03 0.15
Matches are distributed among these distances:
26 4 0.06
27 48 0.69
28 17 0.24
29 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:30649865 original size:54 final size:54
Alignment explanation
Indices: 30649761--30649870 Score: 143
Period size: 54 Copynumber: 2.0 Consensus size: 54
30649751 AGGAAGTGTC
*
30649761 CTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * *
30649815 CTGGTGGCT-CTGCCACGATTATCTATATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTAC-GCCACAATTATCT-GATCTGGTGACTCTGCCACATATATCTATT
30649869 CT
1 CT
30649871 AGCAGCCATG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.02
54 30 0.61
55 18 0.37
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:30653297 original size:42 final size:42
Alignment explanation
Indices: 30653249--30653359 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
30653239 AGGGTTATGT
* *
30653249 GTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATAT
1 GTGATTTCGTGTAAGACCATATCTGGGACATGGCATCGATAC
* * * * *
30653291 TTGATTTTGTGTAAGACCATGTCTGAGACATGGCATTGATAC
1 GTGATTTCGTGTAAGACCATATCTGGGACATGGCATCGATAC
* * *
30653333 GAGATATCGTGTAAGACCATAGCTGGG
1 GTGATTTCGTGTAAGACCATATCTGGG
30653360 CTATCTGTAA
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (42 bp):
GTGATTTCGTGTAAGACCATATCTGGGACATGGCATCGATAC
Found at i:30663427 original size:18 final size:17
Alignment explanation
Indices: 30663404--30663456 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
30663394 CCAGAATTAG
30663404 AATTAAGTTGAGAAAATT
1 AATTAAGTTGA-AAAATT
* *
30663422 ATTTAATTTGAAAAATT
1 AATTAAGTTGAAAAATT
30663439 AATTAA-TT-AAAAA-T
1 AATTAAGTTGAAAAATT
30663453 AATT
1 AATT
30663457 TAATAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 5 0.16
15 5 0.16
16 2 0.06
17 11 0.34
18 9 0.28
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.40
Consensus pattern (17 bp):
AATTAAGTTGAAAAATT
Found at i:30663438 original size:17 final size:17
Alignment explanation
Indices: 30663406--30663460 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 17
30663396 AGAATTAGAA
*
30663406 TTAAGTTGAGAAAATTAT
1 TTAATTTGA-AAAATTAT
*
30663424 TTAATTTGAAAAATTAA
1 TTAATTTGAAAAATTAT
*
30663441 TTAA-TT-AAAAATAAT
1 TTAATTTGAAAAATTAT
30663456 TTAAT
1 TTAAT
30663461 AAATAATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 11 0.34
16 2 0.06
17 11 0.34
18 8 0.25
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (17 bp):
TTAATTTGAAAAATTAT
Found at i:30666346 original size:18 final size:17
Alignment explanation
Indices: 30666301--30666349 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
30666291 ACAAACATTT
*
30666301 TTATAAT-TATGA-TAA
1 TTATAATATTTGATTAA
30666316 TTATAATATTTGATTAA
1 TTATAATATTTGATTAA
*
30666333 TTATTATGATTTGATTA
1 TTATAAT-ATTTGATTA
30666350 TAATCAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 7 0.24
16 4 0.14
17 9 0.31
18 9 0.31
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (17 bp):
TTATAATATTTGATTAA
Found at i:30672658 original size:34 final size:34
Alignment explanation
Indices: 30672615--30672682 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
30672605 AAAGAATGTA
30672615 ATCTTTCTTGTTCCAGTAGTGGATTAATAGGTGG
1 ATCTTTCTTGTTCCAGTAGTGGATTAATAGGTGG
30672649 ATCTTTCTTGTTCCAGTAGTGGATTAATAGGTGG
1 ATCTTTCTTGTTCCAGTAGTGGATTAATAGGTGG
30672683 TATTCATTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.41
Consensus pattern (34 bp):
ATCTTTCTTGTTCCAGTAGTGGATTAATAGGTGG
Found at i:30681254 original size:48 final size:47
Alignment explanation
Indices: 30681155--30681380 Score: 169
Period size: 48 Copynumber: 4.7 Consensus size: 47
30681145 TAATGTAAGC
* *
30681155 CAGTATAAGA-CATGTCTGGGACAT-GCGTCGGCTACG--AGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGATAGATGTGT
* *
30681199 CAATGTAAGACCATGTCTGGGACATGGCATTGGCACGTATAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACG-ATAGATGTGT
* * * * * *
30681247 CAGTGTAAGACTATGTCTAGGATATGACATCGGCAC-AGAGATGTGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATAGATGT----GT
* * * * *
30681297 CAGCGTAAGACCATGTTTGGGACATGGCATCAGCCTCGATTTTGATAGT-T
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-GGCACGA--TAGAT-GTGT
*
30681347 -ACTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
30681381 TTACACCCTA
Statistics
Matches: 140, Mismatches: 28, Indels: 24
0.73 0.15 0.12
Matches are distributed among these distances:
44 8 0.06
45 17 0.12
46 13 0.09
48 40 0.29
49 27 0.19
50 26 0.19
51 3 0.02
52 1 0.01
54 3 0.02
55 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATAGATGTGT
Found at i:30687629 original size:48 final size:48
Alignment explanation
Indices: 30687529--30687939 Score: 225
Period size: 46 Copynumber: 8.7 Consensus size: 48
30687519 TTATTTGTGT
* *
30687529 GCCAGTGTAAGA-CATGTCT-GGACAT-GCATCAGCCAC--ATTATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCACTGA-GATGAGA
*
30687574 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGATGAGA
* * *
30687622 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-CTTGTGATGTA-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-TGAGATG-AGA
* * *
30687668 GCCAGTGTAAGA-CATGTCTGGGACAT-GCGTCAGCTA-TGAGAT--GT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACTGAGATGAGA
* * * * *
30687712 GTCAGTGTAAGACCATGTTTGGGACATGGCATTGGCAC-G-TATAGATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGAT-GA-GA
* * * * * **
30687760 GTCAGTGTAAGACCATGTTTAGGATATGGCATCGACAGAGAGATGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGA--TGAGA
* * * * ** *
30687810 GCCAGTGTAAGACTATATATGGGACATGG-AGTCAGC-CTTGATTTCGATA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCA-TCGGCAC-TGAGAT-GAGA
*** * * * *
30687859 ATTAGTGTAAGACCATGTTTGGGACATGTCATC--AACTTA-ATGGATGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGAT-GA-GA
*
30687906 GCCAGTGTAGGACCATGTCTGGGACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
30687940 ACATTACACC
Statistics
Matches: 281, Mismatches: 57, Indels: 53
0.72 0.15 0.14
Matches are distributed among these distances:
44 13 0.05
45 28 0.10
46 64 0.23
47 54 0.19
48 58 0.21
49 30 0.11
50 31 0.11
51 2 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGATGAGA
Found at i:30696041 original size:47 final size:45
Alignment explanation
Indices: 30695923--30696045 Score: 135
Period size: 47 Copynumber: 2.6 Consensus size: 45
30695913 TCGCTTGTGT
*
30695923 GAGCTAGTGTAAGACATGTCTAGGACAT-GCATCGGTCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGG--ACATTATGA
* *
30695969 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG-CATTGA-GAA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGACATT-ATG-A
30696015 GAGTGCTAGTGTAAGACATGTCTGGGACATG
1 GA--GCTAGTGTAAGACATGTCTGGGACATG
30696046 TCTGGGACAT
Statistics
Matches: 66, Mismatches: 5, Indels: 11
0.80 0.06 0.13
Matches are distributed among these distances:
45 5 0.08
46 17 0.26
47 26 0.39
48 18 0.27
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.24
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGACATTATGA
Found at i:30696045 original size:11 final size:11
Alignment explanation
Indices: 30696029--30696056 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
30696019 GCTAGTGTAA
30696029 GACATGTCTGG
1 GACATGTCTGG
30696040 GACATGTCTGG
1 GACATGTCTGG
30696051 GACATG
1 GACATG
30696057 CTTCGGCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.18, G:0.36, T:0.25
Consensus pattern (11 bp):
GACATGTCTGG
Found at i:30699170 original size:11 final size:11
Alignment explanation
Indices: 30699154--30699181 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
30699144 GCTAGTGTAA
30699154 GACATGTCTGG
1 GACATGTCTGG
30699165 GACATGTCTGG
1 GACATGTCTGG
30699176 GACATG
1 GACATG
30699182 CTTCGGCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.18, G:0.36, T:0.25
Consensus pattern (11 bp):
GACATGTCTGG
Found at i:30699220 original size:46 final size:45
Alignment explanation
Indices: 30699167--30699280 Score: 140
Period size: 46 Copynumber: 2.5 Consensus size: 45
30699157 ATGTCTGGGA
* * * *
30699167 CATGTCTGGGACATGCTTCGGCTTCGAGACGTAAGCCAGTGTAAG-T
1 CATGTCTGGGACATGCATCGACTACGAGACGT--GCCAGTGTAAGAC
* *
30699213 CATGTCTGGGACATGCATCGACTACGAGAGGTGTCAGTGTAAGAC
1 CATGTCTGGGACATGCATCGACTACGAGACGTGCCAGTGTAAGAC
30699258 CATGTCTGGGACATGGCATCGAC
1 CATGTCTGGGACAT-GCATCGAC
30699281 ACATATATGC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
44 10 0.17
45 14 0.23
46 36 0.60
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.24
Consensus pattern (45 bp):
CATGTCTGGGACATGCATCGACTACGAGACGTGCCAGTGTAAGAC
Found at i:30703399 original size:29 final size:29
Alignment explanation
Indices: 30703339--30703436 Score: 166
Period size: 29 Copynumber: 3.4 Consensus size: 29
30703329 CAGTAAGTCT
30703339 GCACACTTAGTGCT-TA-ATATTCAAACTC
1 GCACACTTAGTGCTATACA-ATTCAAACTC
30703367 GCACACTTAGTGCTATACAATTCAAACTC
1 GCACACTTAGTGCTATACAATTCAAACTC
30703396 GCACACTTAGTGCTATACAATT-AAACTC
1 GCACACTTAGTGCTATACAATTCAAACTC
30703424 GCACACTTAGTGC
1 GCACACTTAGTGC
30703437 CAATCTCATT
Statistics
Matches: 68, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
28 33 0.49
29 34 0.50
30 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCTATACAATTCAAACTC
Found at i:30704995 original size:17 final size:17
Alignment explanation
Indices: 30704973--30705082 Score: 76
Period size: 17 Copynumber: 6.5 Consensus size: 17
30704963 TCAAACATTT
*
30704973 GTTCATATAAAATAACA
1 GTTCATACAAAATAACA
* *
30704990 GTTCATACCAAATGACA
1 GTTCATACAAAATAACA
* * *
30705007 GCTCATGCAAAATAATA
1 GTTCATACAAAATAACA
** *
30705024 GTTCATATGAAATATCA
1 GTTCATACAAAATAACA
* ***
30705041 ATTCATATTGAATAACA
1 GTTCATACAAAATAACA
* * *
30705058 ATTCATGCAAAATAAAA
1 GTTCATACAAAATAACA
30705075 GTTCATAC
1 GTTCATAC
30705083 TCCATCATAA
Statistics
Matches: 68, Mismatches: 25, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 68 1.00
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.29
Consensus pattern (17 bp):
GTTCATACAAAATAACA
Found at i:30705037 original size:51 final size:51
Alignment explanation
Indices: 30704973--30705081 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
30704963 TCAAACATTT
* * * *
30704973 GTTCATATAAAATAACAGTTCATACCAAATGACAGCTCATGCAAAATAATA
1 GTTCATATAAAATAACAATTCATACCAAATAACAACTCATGCAAAATAAAA
* * *** *
30705024 GTTCATATGAAATATCAATTCATATTGAATAACAATTCATGCAAAATAAAA
1 GTTCATATAAAATAACAATTCATACCAAATAACAACTCATGCAAAATAAAA
30705075 GTTCATA
1 GTTCATA
30705082 CTCCATCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (51 bp):
GTTCATATAAAATAACAATTCATACCAAATAACAACTCATGCAAAATAAAA
Found at i:30706089 original size:27 final size:28
Alignment explanation
Indices: 30706038--30706206 Score: 170
Period size: 29 Copynumber: 6.0 Consensus size: 28
30706028 CGCAAACATT
*
30706038 ACAAAACCCATCCATATATATTATATAAA
1 ACAAAACCCAT-CATATATATTATATATA
* *
30706067 ACAAGACCCAT-ATATATA-T-TATATG
1 ACAAAACCCATCATATATATTATATATA
*
30706092 ACAAAACTCA-C-TCATATATTATATATA
1 ACAAAACCCATCAT-ATATATTATATATA
* *
30706119 ACAAAATCCATGCATATATATGATATATA
1 ACAAAACCCAT-CATATATATTATATATA
30706148 ACAAAACCCATACATATATATTATATATA
1 ACAAAACCCAT-CATATATATTATATATA
*
30706177 AC-AAACCCATGCATGTATATATATTATATA
1 ACAAAACCCAT-CATATATAT-TA-TATATA
30706207 TATAATAAAG
Statistics
Matches: 117, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
24 1 0.01
25 17 0.15
26 2 0.02
27 20 0.17
28 16 0.14
29 54 0.46
30 7 0.06
ACGTcount: A:0.48, C:0.17, G:0.04, T:0.31
Consensus pattern (28 bp):
ACAAAACCCATCATATATATTATATATA
Found at i:30706196 original size:81 final size:79
Alignment explanation
Indices: 30706038--30706199 Score: 175
Period size: 81 Copynumber: 2.0 Consensus size: 79
30706028 CGCAAACATT
* *
30706038 ACAAAACCCATCCATATATATTATATAAAACAAGACCCATATATATATTATATGACAAAACTCAC
1 ACAAAACCCATCCATATATATGATATAAAACAAAACCCATATATATATTATATGACAAAA--CAC
* *
30706103 TCATATATTATATATA
64 CCATACATTATATATA
* * * *
30706119 ACAAAATCCATGCATATATATGATATATAACAAAACCCATACATATATATTATAT-ATAACAA-A
1 ACAAAACCCATCCATATATATGATATAAAACAAAACCCAT--ATATATATTATATGACAA-AACA
*
30706182 CCCATGCATGTATATATA
63 CCCATACAT-TATATATA
30706200 TTATATATAT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
80 7 0.10
81 43 0.63
82 3 0.04
83 15 0.22
ACGTcount: A:0.48, C:0.18, G:0.04, T:0.30
Consensus pattern (79 bp):
ACAAAACCCATCCATATATATGATATAAAACAAAACCCATATATATATTATATGACAAAACACCC
ATACATTATATATA
Found at i:30706523 original size:2 final size:2
Alignment explanation
Indices: 30706516--30706556 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
30706506 TCAAAATTAC
30706516 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30706557 ATAAAGTCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30709269 original size:11 final size:11
Alignment explanation
Indices: 30709253--30709278 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30709243 AGTTTATATG
30709253 TAATAATAATT
1 TAATAATAATT
30709264 TAATAATAATT
1 TAATAATAATT
30709275 TAAT
1 TAAT
30709279 TATTCTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATAATAATT
Found at i:30710166 original size:2 final size:2
Alignment explanation
Indices: 30710159--30710189 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
30710149 AAGAAAACTA
30710159 AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
30710190 TACAAGGCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30710329 original size:11 final size:12
Alignment explanation
Indices: 30710301--30710327 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30710291 TTTTAAGTTC
30710301 AAAATTAAAAAA
1 AAAATTAAAAAA
30710313 AAAATTAAAAAA
1 AAAATTAAAAAA
30710325 AAA
1 AAA
30710328 TTTATCACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATTAAAAAA
Found at i:30714240 original size:20 final size:20
Alignment explanation
Indices: 30714203--30714240 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30714193 TTAACGTTTA
*
30714203 TTTTTCTTGTTTTGTTTAAC
1 TTTTTCTTGTTTTCTTTAAC
30714223 TTTTTCTT-TGTTTCTTTA
1 TTTTTCTTGT-TTTCTTTA
30714241 GGGGTTCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.08, C:0.11, G:0.08, T:0.74
Consensus pattern (20 bp):
TTTTTCTTGTTTTCTTTAAC
Found at i:30721771 original size:40 final size:40
Alignment explanation
Indices: 30721713--30721788 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
30721703 TCTCAACTTC
* * *
30721713 ATACTTGATTATTAATCTTAATGCATTATGTTGGAACATT
1 ATACTTGATAATCAATCTTAATGCATTATGGTGGAACATT
* *
30721753 ATACTTGATAATCCATCTTAGTGCATTATGGTGGAA
1 ATACTTGATAATCAATCTTAATGCATTATGGTGGAA
30721789 TACAAAATAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.41
Consensus pattern (40 bp):
ATACTTGATAATCAATCTTAATGCATTATGGTGGAACATT
Found at i:30724913 original size:78 final size:80
Alignment explanation
Indices: 30724820--30724966 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 80
30724810 ATAGCGACTT
* * * * *
30724820 GCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGTG-CTTAGC
1 GCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGC
30724882 CCGGAGTTATTAACTC
65 CCGGAGTTATTAACTC
** *
30724898 GCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
30724963 CGGA
66 CGGA
30724967 CATCATTCGA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
77 3 0.05
78 30 0.52
79 14 0.24
80 11 0.19
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (80 bp):
GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
CGGAGTTATTAACTC
Found at i:30724966 original size:40 final size:39
Alignment explanation
Indices: 30724785--30724966 Score: 163
Period size: 40 Copynumber: 4.6 Consensus size: 39
30724775 GACTCGCTCA
** * **
30724785 AATGCCTTCGGGACGAAGCCCGGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* * *
30724824 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* * *
30724864 AATGCCTTCGTG-CTTAGCCCGGAGT-TATTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTTGCAC
* * *
30724902 GAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCAC
*
30724943 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
30724967 CATCATTCGA
Statistics
Matches: 114, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
38 21 0.18
39 22 0.19
40 64 0.56
41 7 0.06
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
Found at i:30731357 original size:47 final size:46
Alignment explanation
Indices: 30731285--30731503 Score: 196
Period size: 46 Copynumber: 4.8 Consensus size: 46
30731275 AGATATGTGC
* *
30731285 GCCAGTGTTAGACATGTTTGGGACATGCATCGGCCACAT-A-ATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CA-ATGAGATGAGA
* * *
30731331 GCCAGTGTAAGACCATGTCTGCGACATGGCATCGGCATTGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAATGAGATGAGA
* * * **
30731379 GCTAGTGTAAGACATGTCTGGGACATGCATCGAC-CTCGAGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAAT-GAGATGAGA
* ** * * *
30731425 GCCAGTGTCAGACATGTCTGGGACATGTGTTGGCTATGAGAT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAATGAGATGAGA
* *
30731469 GCTAGTGTAAGATATGTCTGGGACATGCATCGGCA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA
30731504 TAGTTACATG
Statistics
Matches: 139, Mismatches: 28, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
44 28 0.20
45 1 0.01
46 58 0.42
47 29 0.21
48 23 0.17
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAATGAGATGAGA
Found at i:30731392 original size:94 final size:90
Alignment explanation
Indices: 30731288--30731502 Score: 247
Period size: 94 Copynumber: 2.3 Consensus size: 90
30731278 TATGTGCGCC
* *
30731288 AGTGTTAGACATGTTTGGGACATGCATCGGCCAC-ATAATGAGAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-AATGAGAGCCAGTGTAAGA-CATGTCTG
30731352 CGACATG-GCATCGGC-ATTGAGATGAGTGCT
64 CGACATGTG--TCGGCTA-TGAGAT--GTGCT
* * * ** * *
30731382 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATGTTAGCCAGTGTCAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAAATGAGAGCCAGTGTAAGACATGTCTGCG
*
30731447 ACATGTGTTGGCTATGAGATGTGCT
66 ACATGTGTCGGCTATGAGATGTGCT
*
30731472 AGTGTAAGATATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
30731503 ATAGTTACAT
Statistics
Matches: 106, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
90 34 0.32
92 10 0.09
93 15 0.14
94 46 0.43
95 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (90 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAAATGAGAGCCAGTGTAAGACATGTCTGCG
ACATGTGTCGGCTATGAGATGTGCT
Found at i:30733495 original size:24 final size:24
Alignment explanation
Indices: 30733468--30733515 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
30733458 TCAATAGCCG
30733468 AATGTGAGAAATAAAATAATGTTC
1 AATGTGAGAAATAAAATAATGTTC
30733492 AATGTGAGAAATAAAATAATGTTC
1 AATGTGAGAAATAAAATAATGTTC
30733516 TCAAAGCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.17, T:0.29
Consensus pattern (24 bp):
AATGTGAGAAATAAAATAATGTTC
Found at i:30734288 original size:40 final size:39
Alignment explanation
Indices: 30734211--30734296 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 39
30734201 TAACGACTTA
*
30734211 TCGGCTAAAATGGCACTTAGTGTGAGGTTCGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGAGATTCGAAATAGCT
* * * *
30734250 TTGGCTAAAAGTGGCACTTGGTGTGCA-ATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTG-AGATTCGAAATAGCT
30734290 TCGGCTA
1 TCGGCTA
30734297 TATATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
39 9 0.23
40 29 0.74
41 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGAGATTCGAAATAGCT
Found at i:30737124 original size:48 final size:47
Alignment explanation
Indices: 30737005--30737184 Score: 191
Period size: 48 Copynumber: 3.7 Consensus size: 47
30736995 CAATACATGT
* * * * *
30737005 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGACACAGAAAGAGGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATGGCCTC-GATA-A-GA
*
30737055 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCCTCGATAAGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT-GGCCTCGATAAGA
* * * *
30737103 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTCGATATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATGGCCTCGATAAGA
**
30737150 GATTACA-TGTAAGACCATGTCTGGGACATTGGCAT
1 GA-GCCAGTGTAAGACCATGTCTGGGACA-TGGCAT
30737185 TGTATTGTGA
Statistics
Matches: 114, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
47 32 0.28
48 43 0.38
49 1 0.01
50 35 0.31
51 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATGGCCTCGATAAGA
Found at i:30737208 original size:43 final size:45
Alignment explanation
Indices: 30737109--30737208 Score: 134
Period size: 47 Copynumber: 2.2 Consensus size: 45
30737099 AAGAGAGCCA
30737109 GTGTAAGACCATGTCTGGGACATGGCATTGACTCGATATGTGATTAC
1 GTGTAAGACCATGTCTGGGACATGGCATTGA-TC-ATATGTGATTAC
* *
30737156 ATGTAAGACCATGTCTGGGACATTGGCATTG-T-AT-TGTGATTTC
1 GTGTAAGACCATGTCTGGGACA-TGGCATTGATCATATGTGATTAC
30737199 GTGTAAGACC
1 GTGTAAGACC
30737209 CTATGTGGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
43 17 0.35
44 2 0.04
46 1 0.02
47 21 0.43
48 8 0.16
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (45 bp):
GTGTAAGACCATGTCTGGGACATGGCATTGATCATATGTGATTAC
Found at i:30737226 original size:43 final size:43
Alignment explanation
Indices: 30737144--30737273 Score: 122
Period size: 43 Copynumber: 3.0 Consensus size: 43
30737134 CATTGACTCG
* * * * *
30737144 ATATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
1 ATATGTGATAACATGTAAGACCCTATCTAGGATA-TGGCATTGT
** * * *
30737188 AT-TGTGATTTCGTGTAAGACCCTATGT-GGAATAGTGGCATCG-
1 ATATGTGATAACATGTAAGACCCTATCTAGG-ATA-TGGCATTGT
30737230 ATATGTGATAACATGTAAGACCCTATCTAGGATATGGCATTGT
1 ATATGTGATAACATGTAAGACCCTATCTAGGATATGGCATTGT
30737273 A
1 A
30737274 CGAGCTATAT
Statistics
Matches: 69, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
42 11 0.16
43 54 0.78
44 4 0.06
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (43 bp):
ATATGTGATAACATGTAAGACCCTATCTAGGATATGGCATTGT
Found at i:30741188 original size:40 final size:39
Alignment explanation
Indices: 30741125--30741210 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
30741115 TAACGACTTA
*
30741125 TCGGCTAAAATGGCACTTAGTGTG-AGGTTCGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCA-ATTCGAAATAGCT
* * *
30741164 TCGGCTAAAAGTGGCATTTGGTGTGCAATTCGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCT
30741204 TCGGCTA
1 TCGGCTA
30741211 TATATATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
39 10 0.24
40 30 0.73
41 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
Found at i:30741263 original size:28 final size:28
Alignment explanation
Indices: 30741223--30741306 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 28
30741213 TATATATATA
*
30741223 AATGGCACTTAGTGTGCAAAGTATCGAG
1 AATGACACTTAGTGTGCAAAGTATCGAG
* * *
30741251 AATGACACTTAGTGTGTGAAA-CATCTAG
1 AATGACACTTAGTGTG-CAAAGTATCGAG
* *
30741279 AAT-AGCACTTAGTGTGCGAGGTATCGAG
1 AATGA-CACTTAGTGTGCAAAGTATCGAG
30741307 TATGGTACAT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
27 2 0.05
28 39 0.89
29 3 0.07
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.26
Consensus pattern (28 bp):
AATGACACTTAGTGTGCAAAGTATCGAG
Found at i:30746984 original size:20 final size:20
Alignment explanation
Indices: 30746959--30747009 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
30746949 GGGCTAAGGG
30746959 CACGGGCGTGTCCCAAGCCA
1 CACGGGCGTGTCCCAAGCCA
30746979 CACGGGCGTGTCCCAAGCCA
1 CACGGGCGTGTCCCAAGCCA
30746999 CACGGGCGTGT
1 CACGGGCGTGT
30747010 GGAGCCTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.18, C:0.37, G:0.33, T:0.12
Consensus pattern (20 bp):
CACGGGCGTGTCCCAAGCCA
Found at i:30750897 original size:24 final size:26
Alignment explanation
Indices: 30750852--30750899 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
30750842 AATGCACAAA
* *
30750852 TTTGAAAAGAATTTCTTGAAAACACC
1 TTTGAAAAGAATTCCTTCAAAACACC
30750878 TTTG-AAA-AATTCCTTCAAAACA
1 TTTGAAAAGAATTCCTTCAAAACA
30750900 ATATTCTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 13 0.65
25 3 0.15
26 4 0.20
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (26 bp):
TTTGAAAAGAATTCCTTCAAAACACC
Found at i:30754018 original size:42 final size:43
Alignment explanation
Indices: 30753966--30754074 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 43
30753956 CATCCAATAT
* *
30753966 GAACTCGGACCACTCAACGAGCTCAG-ATGC-CACATATCTCAC
1 GAACTCGGACCACTCAACGAGCTCAGAAT-CTCACACATATCAC
* * * * *
30754008 GAACTTGGACCACTCAACAAGTTTAGAATCTCATACATATCAC
1 GAACTCGGACCACTCAACGAGCTCAGAATCTCACACATATCAC
30754051 GAACTCGGACCACTCAACGAGCTC
1 GAACTCGGACCACTCAACGAGCTC
30754075 GGATTGCTTA
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
42 23 0.43
43 31 0.57
ACGTcount: A:0.33, C:0.32, G:0.16, T:0.19
Consensus pattern (43 bp):
GAACTCGGACCACTCAACGAGCTCAGAATCTCACACATATCAC
Found at i:30757329 original size:25 final size:26
Alignment explanation
Indices: 30757301--30757351 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
30757291 ATAAACTATT
*
30757301 AATAATTCAAT-AAATTAAAATTTTA
1 AATAATTAAATAAAATTAAAATTTTA
30757326 AATAATTAAATAAAATTAAAATTTTA
1 AATAATTAAATAAAATTAAAATTTTA
30757352 GGAGAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
AATAATTAAATAAAATTAAAATTTTA
Found at i:30758022 original size:22 final size:19
Alignment explanation
Indices: 30757983--30758024 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
30757973 TGTAAAATTG
30757983 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
30758002 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
30758024 A
1 A
30758025 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:30761795 original size:26 final size:25
Alignment explanation
Indices: 30761753--30761809 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
30761743 CCACTATTCC
* * *
30761753 GAGCT-ATGATCAGTAAGCTCCTCTT
1 GAGCTGATGAACAATAAGCT-CTATT
30761778 GAGCTGATGAACAATAAGCTCTATT
1 GAGCTGATGAACAATAAGCTCTATT
30761803 GAGCTGA
1 GAGCTGA
30761810 AATGGTAAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (25 bp):
GAGCTGATGAACAATAAGCTCTATT
Found at i:30765004 original size:99 final size:100
Alignment explanation
Indices: 30764881--30765067 Score: 277
Period size: 99 Copynumber: 1.9 Consensus size: 100
30764871 AGCCGAAGCT
* * *
30764881 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAATAATCCGGTACACGTAG
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAATACGGTACACGTAG
30764945 TAACCTACACTTAGTACTACACACGTGACCTCACC
66 TAACCTACACTTAGTACTACACACGTGACCTCACC
* * * * *
30764980 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACATGTAG
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAATACGGTACACGTAG
* *
30765045 TAGCCTGCACTTAGTACTACACA
66 TAACCTACACTTAGTACTACACA
30765068 TGTGTATTCA
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
99 42 0.55
100 35 0.45
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (100 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAATACGGTACACGTAG
TAACCTACACTTAGTACTACACACGTGACCTCACC
Found at i:30765006 original size:50 final size:50
Alignment explanation
Indices: 30764881--30765069 Score: 213
Period size: 50 Copynumber: 3.8 Consensus size: 50
30764871 AGCCGAAGCT
* *
30764881 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AATA-
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-AC
* * * * * * * *
30764930 ATCCGGTACACGTAGTAACCTACACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAAAC
*
30764980 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CTTAAC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAAAC
* * *
30765029 AGTATGGTACATGTAGTAGCCTGCACTTAGTACTACACATG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATG
30765070 TGTATTCACA
Statistics
Matches: 116, Mismatches: 21, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
49 42 0.36
50 74 0.64
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAAAC
Found at i:30772434 original size:50 final size:50
Alignment explanation
Indices: 30772308--30772549 Score: 256
Period size: 50 Copynumber: 4.8 Consensus size: 50
30772298 AGCCGAAGCT
* * * * *
30772308 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * *
30772357 ATCCGGTACACGTAGTAGCCTGCACTTAGAACTACACACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
30772407 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CC
* * * * * *
30772458 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACATAA-T
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
30772507 AGTATGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
30772550 TATTCACAAT
Statistics
Matches: 159, Mismatches: 29, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
49 39 0.25
50 80 0.50
51 40 0.25
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:30774032 original size:32 final size:32
Alignment explanation
Indices: 30773995--30774057 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
30773985 GCATATATTC
30773995 ATAAATCAAAGAATAACAATCACATACATATA
1 ATAAATCAAAGAATAACAATCACATACATATA
* *
30774027 ATAAATCAAAGGATAACAATCACTTACATAT
1 ATAAATCAAAGAATAACAATCACATACATAT
30774058 TTATATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.24
Consensus pattern (32 bp):
ATAAATCAAAGAATAACAATCACATACATATA
Found at i:30775362 original size:48 final size:48
Alignment explanation
Indices: 30775304--30775608 Score: 531
Period size: 48 Copynumber: 6.4 Consensus size: 48
30775294 ATATACACAC
* *
30775304 ATCTCCTACATATTTCACACTT-GCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACA-TTAGCCATTCGGCTTTACCACATATACAT
* *
30775352 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
30775400 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
30775448 ATCTCATATATATTTCACATTAGCCACTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
30775496 ATCTCATTTATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
30775544 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
30775592 ATCTCATATATATTTCA
1 ATCTCATATATATTTCA
30775609 GCAATAGCTT
Statistics
Matches: 246, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 1 0.00
48 245 1.00
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (48 bp):
ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:30778967 original size:29 final size:29
Alignment explanation
Indices: 30778907--30779096 Score: 158
Period size: 29 Copynumber: 6.7 Consensus size: 29
30778897 CTGACTAATT
* *
30778907 TCGCACACATAGCG-CTCGATTATAA-AAC
1 TCGCACACATAGTGCCTCAATTA-AAGAAC
30778935 TCGCACACATAGTGCCTCAATTAAAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
* *
30778964 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTGCCTCAATTA-AAGAAC
* *
30778993 TCGCACACATAGTG-CTCGATTGAAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
* * * ** *
30779021 TTGCACACACAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
* ** *
30779050 TGGCACACATAGTG-CTCGGTTGAAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
*
30779078 TTC-CACACACAGTGCCTCA
1 -TCGCACACATAGTGCCTCA
30779097 TAATTCCAGC
Statistics
Matches: 127, Mismatches: 28, Indels: 13
0.76 0.17 0.08
Matches are distributed among these distances:
27 1 0.01
28 52 0.41
29 73 0.57
30 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (29 bp):
TCGCACACATAGTGCCTCAATTAAAGAAC
Found at i:30778974 original size:57 final size:57
Alignment explanation
Indices: 30778907--30779066 Score: 169
Period size: 57 Copynumber: 2.8 Consensus size: 57
30778897 CTGACTAATT
* *
30778907 TCGCACACATAGCG-CTCGATTATAAAACTCGCACACATAGTGCCTCAATTAAAGAAC
1 TCGCACACATAGCGCCTCAATTACAAAACTCGCACACATAGTG-CTCAATTAAAGAAC
* * * * *
30778964 TCGCACACATAGTGCCTCAATTACCAATCTCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGCGCCTCAATTACAAAACTCGCACACATAGTGCTCAATTAAAGAAC
* * * * ** * *
30779021 TTGCACACACAGTGCCTCAACTACTGATCTGGCACACATAGTGCTC
1 TCGCACACATAGCGCCTCAATTACAAAACTCGCACACATAGTGCTC
30779067 GGTTGAAGAA
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
57 65 0.73
58 24 0.27
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.23
Consensus pattern (57 bp):
TCGCACACATAGCGCCTCAATTACAAAACTCGCACACATAGTGCTCAATTAAAGAAC
Found at i:30779010 original size:86 final size:86
Alignment explanation
Indices: 30778907--30779064 Score: 219
Period size: 86 Copynumber: 1.8 Consensus size: 86
30778897 CTGACTAATT
* *
30778907 TCGCACACATAGCGCTCGATT-ATAAAACTCGCACACATAGTGCCTCAATTAAAGAACTCGCACA
1 TCGCACACATAGCGCTCGATTGA-AAAACTCGCACACACAGTGCCTCAACTAAAGAACTCGCACA
30778971 CATAGTGCCTCAATTACCAATC
65 CATAGTGCCTCAATTACCAATC
* * * ** * *
30778993 TCGCACACATAGTGCTCGATTGAAGAACTTGCACACACAGTGCCTCAACTACTGATCTGGCACAC
1 TCGCACACATAGCGCTCGATTGAAAAACTCGCACACACAGTGCCTCAACTAAAGAACTCGCACAC
30779058 ATAGTGC
66 ATAGTGC
30779065 TCGGTTGAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
86 61 0.98
87 1 0.02
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (86 bp):
TCGCACACATAGCGCTCGATTGAAAAACTCGCACACACAGTGCCTCAACTAAAGAACTCGCACAC
ATAGTGCCTCAATTACCAATC
Found at i:30779067 original size:57 final size:57
Alignment explanation
Indices: 30778934--30779096 Score: 227
Period size: 57 Copynumber: 2.8 Consensus size: 57
30778924 GATTATAAAA
* * * * *
30778934 CTCGCACACATAGTGCCTCAATTAAAGAACTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTG-CTCGATTGAAGAACTTGCACACACAGTGCCTCAACTACCAAT
**
30778992 CTCGCACACATAGTGCTCGATTGAAGAACTTGCACACACAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCTCGATTGAAGAACTTGCACACACAGTGCCTCAACTACCAAT
* * *
30779049 CTGGCACACATAGTGCTCGGTTGAAGAACTTCCACACACAGTGCCTCA
1 CTCGCACACATAGTGCTCGATTGAAGAACTTGCACACACAGTGCCTCA
30779097 TAATTCCAGC
Statistics
Matches: 95, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
57 80 0.84
58 15 0.16
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (57 bp):
CTCGCACACATAGTGCTCGATTGAAGAACTTGCACACACAGTGCCTCAACTACCAAT
Found at i:30779149 original size:13 final size:13
Alignment explanation
Indices: 30779131--30779157 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30779121 GGTTTAGCCC
30779131 GGATATATCACTA
1 GGATATATCACTA
30779144 GGATATATCACTA
1 GGATATATCACTA
30779157 G
1 G
30779158 CACGAATGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (13 bp):
GGATATATCACTA
Found at i:30779199 original size:40 final size:40
Alignment explanation
Indices: 30779144--30779311 Score: 273
Period size: 40 Copynumber: 4.2 Consensus size: 40
30779134 TATATCACTA
*
30779144 GGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCC
1 GGATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCC
*
30779184 GGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCC
1 GGATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCC
* *
30779224 GGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCC
1 GGATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCC
* *
30779264 GGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCC
1 GGATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCC
*
30779304 GGCTATAT
1 GGATATAT
30779312 AACTCTCAAG
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 122 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
GGATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCC
Found at i:30779889 original size:9 final size:10
Alignment explanation
Indices: 30779861--30779893 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
30779851 AAATTTTGAA
30779861 TATATTTTTT
1 TATATTTTTT
30779871 TATATTTTTT
1 TATATTTTTT
30779881 TAT-TTTTTT
1 TATATTTTTT
30779890 TATA
1 TATA
30779894 AAGAACGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TATATTTTTT
Found at i:30780871 original size:48 final size:48
Alignment explanation
Indices: 30780813--30781117 Score: 538
Period size: 48 Copynumber: 6.4 Consensus size: 48
30780803 ATATACACAC
* *
30780813 ATCTCCTACATATTTCACACTTGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
30780861 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
30780909 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
30780957 ATCTCATATATATTTCACACTAGCCACTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
30781005 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
30781053 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
30781101 ATCTCATATATATTTCA
1 ATCTCATACATATTTCA
30781118 GCAATAGCTT
Statistics
Matches: 247, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 247 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:30784170 original size:29 final size:28
Alignment explanation
Indices: 30784133--30784235 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 28
30784123 GTGACGAGAT
* *
30784133 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
30784162 TGGCACTAAGTGTGCGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* * *
30784191 TGGCACTATGTGTGCGAGCTTACATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
30784220 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30784236 TGATAGATTA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
28 4 0.06
29 62 0.94
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:30792401 original size:45 final size:45
Alignment explanation
Indices: 30792337--30792427 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
30792327 GTCTATATCG
30792337 GGCTATTACATGTCGTTCATTTCAAAACTTGCATCACTAACAAAA
1 GGCTATTACATGTCGTTCATTTCAAAACTTGCATCACTAACAAAA
30792382 GGCTATTACATGTCGTTCATTTCAAAACTTGCATCACTAACAAAA
1 GGCTATTACATGTCGTTCATTTCAAAACTTGCATCACTAACAAAA
30792427 G
1 G
30792428 TATTTACTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (45 bp):
GGCTATTACATGTCGTTCATTTCAAAACTTGCATCACTAACAAAA
Found at i:30795252 original size:11 final size:11
Alignment explanation
Indices: 30795216--30795271 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
30795206 CATGGTATGT
30795216 ATGATATGCAC
1 ATGATATGCAC
* *
30795227 ATGACATG--T
1 ATGATATGCAC
30795236 ATGATATGCAC
1 ATGATATGCAC
*
30795247 ATGATATG--T
1 ATGATATGCAC
30795256 ATGATATGCAC
1 ATGATATGCAC
30795267 ATGAT
1 ATGAT
30795272 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:30795271 original size:20 final size:20
Alignment explanation
Indices: 30795205--30795271 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
30795195 ATTTTGATAA
*
30795205 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
30795225 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
30795245 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
30795265 ACATGAT
1 ACATGAT
30795272 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:30795355 original size:25 final size:25
Alignment explanation
Indices: 30795322--30795475 Score: 208
Period size: 25 Copynumber: 6.2 Consensus size: 25
30795312 AGGAAGTGTA
30795322 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
30795347 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
30795372 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
30795397 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
30795421 AAAGGGATT-TGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
30795444 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
30795472 AAAG
1 AAAG
30795476 CAGCTATGCT
Statistics
Matches: 118, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
23 19 0.16
24 13 0.11
25 77 0.65
26 1 0.01
27 4 0.03
28 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:30799275 original size:47 final size:47
Alignment explanation
Indices: 30799209--30799491 Score: 433
Period size: 47 Copynumber: 6.0 Consensus size: 47
30799199 TATCACAGTT
* * *
30799209 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCATATAC
* *
30799256 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATAC
*
30799303 ATACACTTTCACATTCATCACATTGGCCATTTGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT--CATATAC
* * *
30799352 ATACACCTTCACATTCATCACATTGGTCATTCGGCCTTATCATATAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATAC
* *
30799399 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATAC
30799446 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATA
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATA
30799492 TACATATCTT
Statistics
Matches: 214, Mismatches: 19, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
47 169 0.79
48 2 0.01
49 43 0.20
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.35
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATAC
Found at i:30799467 original size:143 final size:143
Alignment explanation
Indices: 30799224--30799497 Score: 512
Period size: 143 Copynumber: 1.9 Consensus size: 143
30799214 CTTCCACTTC
30799224 CATCACATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
*
30799289 GCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTTGGCCTTATCACATATACAT
66 GCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACAT
30799354 ACACCTTCACATT
131 ACACCTTCACATT
**
30799367 CATCACATTGGTCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
*
30799432 GCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATATACAT
66 GCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACAT
30799497 A
131 A
30799498 TCTTGTACAT
Statistics
Matches: 127, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 127 1.00
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.35
Consensus pattern (143 bp):
CATCACATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
GCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACAT
ACACCTTCACATT
Found at i:30799493 original size:96 final size:94
Alignment explanation
Indices: 30799224--30799491 Score: 428
Period size: 96 Copynumber: 2.8 Consensus size: 94
30799214 CTTCCACTTC
* * * *
30799224 CATCACATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCG
* *
30799289 GCCTTATCACATACATACACTTTCACATT
66 GCCTTATCATATACATATACTTTCACATT
* * *
30799318 CATCACATTGGCCATTTGGCCTTATCACATATACATACACCTTCACATTCATCACATTGGTCATT
1 CATCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATTCATCACATTGGCCATT
*
30799383 CGGCCTTATCATATATATATACTTTCACATT
64 CGGCCTTATCATATACATATACTTTCACATT
30799414 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCG
30799479 GCCTTATCATATA
66 GCCTTATCATATA
30799492 TACATATCTT
Statistics
Matches: 159, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
94 73 0.46
96 86 0.54
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.35
Consensus pattern (94 bp):
CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCG
GCCTTATCATATACATATACTTTCACATT
Found at i:30807723 original size:11 final size:11
Alignment explanation
Indices: 30807687--30807742 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
30807677 CATGGTATGT
30807687 ATGATATGCAC
1 ATGATATGCAC
* *
30807698 ATGACATG--T
1 ATGATATGCAC
30807707 ATGATATGCAC
1 ATGATATGCAC
*
30807718 ATGATATG--T
1 ATGATATGCAC
30807727 ATGATATGCAC
1 ATGATATGCAC
30807738 ATGAT
1 ATGAT
30807743 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:30807742 original size:20 final size:20
Alignment explanation
Indices: 30807676--30807742 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
30807666 ATTTTGATAA
*
30807676 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
30807696 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
30807716 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
30807736 ACATGAT
1 ACATGAT
30807743 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:30807821 original size:25 final size:25
Alignment explanation
Indices: 30807793--30808019 Score: 295
Period size: 25 Copynumber: 9.2 Consensus size: 25
30807783 AGGAAGTGTA
30807793 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
30807818 AAAGGGCTTATGCCCTAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
30807843 AAAGGGCTTATG-CCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
30807867 AAAGGGCTTATGCCCCAATTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
30807892 AAAGGGCTTATTCCCCAATTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
30807917 AAAGGGCTTATGCCCCAATTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
30807941 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
30807965 AAAGGGCTT-TGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
30807988 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
30808016 AAAG
1 AAAG
30808020 CAGCTATGCT
Statistics
Matches: 186, Mismatches: 9, Indels: 11
0.90 0.04 0.05
Matches are distributed among these distances:
23 19 0.10
24 61 0.33
25 97 0.52
26 1 0.01
27 4 0.02
28 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:30807869 original size:49 final size:50
Alignment explanation
Indices: 30807793--30808019 Score: 295
Period size: 49 Copynumber: 4.6 Consensus size: 50
30807783 AGGAAGTGTA
* *
30807793 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCTAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAATTATGAT
30807843 AAAGGGCTTATG-CCCAGTTATGATAAAGGGCTTATGCCCCAATTATGAT
1 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAATTATGAT
* * *
30807892 AAAGGGCTTATTCCCCAATTATGATAAAGGGCTTATGCCCCAATTATTA-
1 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAATTATGAT
* * *
30807941 AAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTT-TGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAATTATGAT
*
30807988 AAAGAGGC-TAGGCCTCCAGTTATATGATAAAG
1 AAAG-GGCTTATGCC-CCAG-T-TATGATAAAG
30808020 CAGCTATGCT
Statistics
Matches: 160, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
47 22 0.14
48 16 0.10
49 68 0.43
50 50 0.31
51 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (50 bp):
AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAATTATGAT
Found at i:30807914 original size:74 final size:74
Alignment explanation
Indices: 30807792--30807985 Score: 286
Period size: 74 Copynumber: 2.6 Consensus size: 74
30807782 GAGGAAGTGT
* *
30807792 AAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCTAGTTATGATAAAGGGCTTATG-C
1 AAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAATTATGATAAAGGGCTTATGCC
*
30807856 CCAGTTATG
66 CCAATTATG
* *
30807865 ATAAAGGGCTTATGCCCCAATTATGATAAAGGGCTTATTCCCCAATTATGATAAAGGGCTTATGC
1 A-AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAATTATGATAAAGGGCTTATGC
*
30807930 CCCAATTATT
65 CCCAATTATG
* *
30807940 AAAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTT-TGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAATTAT
30807986 TAAAAGAGGC
Statistics
Matches: 109, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
72 10 0.09
73 10 0.09
74 80 0.73
75 9 0.08
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (74 bp):
AAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAATTATGATAAAGGGCTTATGCC
CCAATTATG
Found at i:30808241 original size:31 final size:31
Alignment explanation
Indices: 30808203--30808266 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
30808193 CGTTTACAGT
*
30808203 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAACATGA
**
30808234 AAAGGCTTCGGCCCAGTGTTATGAAACATGA
1 AAAGGCTTCGGCCCAGTAATATGAAACATGA
30808265 AA
1 AA
30808267 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAACATGA
Found at i:30815619 original size:46 final size:46
Alignment explanation
Indices: 30815569--30815744 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
30815559 TGGTTGAGCA
*
30815569 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
30815615 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
30815662 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
30815708 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30815745 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 65 0.60
47 28 0.26
48 3 0.03
50 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:30815725 original size:93 final size:93
Alignment explanation
Indices: 30815566--30815736 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
30815556 GGATGGTTGA
* * *
30815566 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
30815631 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
30815659 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
*
30815724 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
30815737 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30817754 original size:24 final size:23
Alignment explanation
Indices: 30817718--30817762 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
30817708 TATATTAGTG
30817718 AAAGATTTATTGATCAGAAGCGT
1 AAAGATTTATTGATCAGAAGCGT
* *
30817741 AAAGAATTTCTTGATCTGAAGC
1 AAAG-ATTTATTGATCAGAAGC
30817763 AAGGTAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (23 bp):
AAAGATTTATTGATCAGAAGCGT
Found at i:30818047 original size:27 final size:27
Alignment explanation
Indices: 30818009--30818063 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
30817999 AATTGGAAGA
30818009 AAAGACCGATGAGTAGTTCATTTTCAC
1 AAAGACCGATGAGTAGTTCATTTTCAC
30818036 AAAGACCGATGAGTAGTTCATTTTCAC
1 AAAGACCGATGAGTAGTTCATTTTCAC
30818063 A
1 A
30818064 GCAACCTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (27 bp):
AAAGACCGATGAGTAGTTCATTTTCAC
Found at i:30820736 original size:27 final size:28
Alignment explanation
Indices: 30820679--30820748 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
30820669 AAATTTGTAC
**
30820679 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
30820707 AGCACTAAGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
30820734 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
30820749 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 25 0.62
28 15 0.38
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:30828683 original size:27 final size:28
Alignment explanation
Indices: 30828626--30828695 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
30828616 AAATTTGTAC
**
30828626 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
30828654 AGCACTAAGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
30828681 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
30828696 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 25 0.62
28 15 0.38
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:30834359 original size:46 final size:46
Alignment explanation
Indices: 30834309--30834484 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
30834299 TGGTTGAGCA
*
30834309 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
30834355 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
30834402 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
30834448 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30834485 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 3 0.03
46 65 0.59
47 28 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:30834465 original size:93 final size:93
Alignment explanation
Indices: 30834306--30834476 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
30834296 GGATGGTTGA
* * *
30834306 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
30834371 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
30834399 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
30834464 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
30834477 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30835927 original size:82 final size:81
Alignment explanation
Indices: 30835790--30835944 Score: 274
Period size: 82 Copynumber: 1.9 Consensus size: 81
30835780 GGGCGTTACA
*
30835790 TCCCATGCCTCATACAAGGACTCATCATCCATTTGTTGGAAAGCAGTAATCTCATTCCTCAACTT
1 TCCCATGCCTCATACAAGGACTCATCATCCATTTGTTGGAAAGCAATAATCTCATTCCTCAA-TT
30835855 AGCATTCTTTGTACCTT
65 AGCATTCTTTGTACCTT
* *
30835872 TCCCATGCCTCATATAAGGACTCATCATCCATTTGTTGGAAAGCAATGATCTCATTCCTCAATTA
1 TCCCATGCCTCATACAAGGACTCATCATCCATTTGTTGGAAAGCAATAATCTCATTCCTCAATTA
30835937 GCATTCTT
66 GCATTCTT
30835945 GCTAGGAGGT
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 11 0.16
82 59 0.84
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.34
Consensus pattern (81 bp):
TCCCATGCCTCATACAAGGACTCATCATCCATTTGTTGGAAAGCAATAATCTCATTCCTCAATTA
GCATTCTTTGTACCTT
Found at i:30837107 original size:29 final size:25
Alignment explanation
Indices: 30837047--30837095 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
30837037 AATTTTAATA
30837047 AGCAAATGTGTTAATGCACATACAC
1 AGCAAATGTGTTAATGCACATACAC
30837072 AGCAAATGTGTTAATGCACATACA
1 AGCAAATGTGTTAATGCACATACA
30837096 TACTTATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.24
Consensus pattern (25 bp):
AGCAAATGTGTTAATGCACATACAC
Found at i:30837800 original size:39 final size:39
Alignment explanation
Indices: 30837744--30837820 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
30837734 CTTAGTTTGT
*
30837744 GTCTTTAATTATGTCATAGTTTGAACATCATTAATATGA
1 GTCTTTAATTATATCATAGTTTGAACATCATTAATATGA
30837783 GTCTTTAATTATATCATAGTTTGAACATCATTAATATG
1 GTCTTTAATTATATCATAGTTTGAACATCATTAATATG
30837821 TGTTCTGCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (39 bp):
GTCTTTAATTATATCATAGTTTGAACATCATTAATATGA
Found at i:30840079 original size:10 final size:10
Alignment explanation
Indices: 30840029--30840080 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
30840019 CAAACTGTCG
*
30840029 AAAA-TAATC
1 AAAATTAATT
*
30840038 AAAATTAATC
1 AAAATTAATT
30840048 AAAATTAATT
1 AAAATTAATT
30840058 ATCAAATTAATT
1 A--AAATTAATT
30840070 AAAATTAATT
1 AAAATTAATT
30840080 A
1 A
30840081 TGTTAATAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
9 4 0.10
10 25 0.64
12 10 0.26
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTAATT
Found at i:30840091 original size:22 final size:22
Alignment explanation
Indices: 30840039--30840081 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
30840029 AAAATAATCA
*
30840039 AAATTAATCAAAATTAATTATC
1 AAATTAATTAAAATTAATTATC
30840061 AAATTAATTAAAATTAATTAT
1 AAATTAATTAAAATTAATTAT
30840082 GTTAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATTAATTAAAATTAATTATC
Found at i:30840188 original size:2 final size:2
Alignment explanation
Indices: 30840183--30840210 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30840173 AAAAGCATGA
30840183 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
30840211 TCGTGTTTCC
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
Found at i:30848675 original size:23 final size:24
Alignment explanation
Indices: 30848649--30848702 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
30848639 TGGCGATGTG
*
30848649 TTTCTCACATAAA-TCGATTTTCT
1 TTTCTCACATAAATTCGATTATCT
** *
30848672 TTTCTCAGTTAAATTCTATTATCT
1 TTTCTCACATAAATTCGATTATCT
30848696 TTTCTCA
1 TTTCTCA
30848703 ATTAAAGTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.24, C:0.20, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTCTCACATAAATTCGATTATCT
Found at i:30848701 original size:24 final size:25
Alignment explanation
Indices: 30848669--30848718 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
30848659 AAATCGATTT
* *
30848669 TCTTTTCTCAGTTAAATTCT-ATTA
1 TCTTTTCTCAATTAAAGTCTAATTA
30848693 TCTTTTCTCAATTAAAGTCTAATTA
1 TCTTTTCTCAATTAAAGTCTAATTA
30848718 T
1 T
30848719 TCTAGGGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.28, C:0.16, G:0.04, T:0.52
Consensus pattern (25 bp):
TCTTTTCTCAATTAAAGTCTAATTA
Found at i:30851111 original size:35 final size:35
Alignment explanation
Indices: 30851071--30851137 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
30851061 TATTTTTGAG
30851071 TTAGCTTCATCTTGTAATCATTCAGATTATTTGTC
1 TTAGCTTCATCTTGTAATCATTCAGATTATTTGTC
*
30851106 TTAGCTTCATCTTGTACTCATTCAGATTATTT
1 TTAGCTTCATCTTGTAATCATTCAGATTATTT
30851138 TTCATTTCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.22, C:0.18, G:0.10, T:0.49
Consensus pattern (35 bp):
TTAGCTTCATCTTGTAATCATTCAGATTATTTGTC
Found at i:30853522 original size:93 final size:93
Alignment explanation
Indices: 30853410--30853580 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
30853400 GCCCATAAGT
* *
30853410 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30853475 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
30853503 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30853568 CGAGTTCGGATGC
66 CGAGTTCGGATGC
30853581 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30853596 original size:46 final size:46
Alignment explanation
Indices: 30853402--30853582 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
30853392 TGTAACCCGC
* * *
30853402 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
30853448 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
30853498 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
30853541 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
30853583 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:30855985 original size:29 final size:29
Alignment explanation
Indices: 30855946--30856033 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
30855936 CAAAGATAAC
*
30855946 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
30855975 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
30856004 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
30856034 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:30856004 original size:15 final size:15
Alignment explanation
Indices: 30855946--30856024 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
30855936 CAAAGATAAC
*
30855946 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
30855960 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
30855975 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
30855989 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
30856004 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
30856019 AAGAAA
1 AAGAAA
30856025 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:30856033 original size:15 final size:15
Alignment explanation
Indices: 30855957--30856033 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
30855947 AGAAAACCGA
30855957 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
30855972 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
30855986 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
30856000 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
30856016 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
30856031 ATA
1 ATA
30856034 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Done.