Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 55 of 145
Found at i:17861070 original size:24 final size:25
Alignment explanation
Indices: 17861017--17861071 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
17861007 TGGATTTATT
**
17861017 TCAATACAAAAATTTACGGATTTATT
1 TCAATACAAAAATTTAC-GATTTAAA
*
17861043 TCAATACAAAAATTTAC-TTTTAAA
1 TCAATACAAAAATTTACGATTTAAA
17861067 TCAAT
1 TCAAT
17861072 CGTTAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 9 0.35
26 17 0.65
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (25 bp):
TCAATACAAAAATTTACGATTTAAA
Found at i:17865342 original size:20 final size:20
Alignment explanation
Indices: 17865317--17865355 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
17865307 AATGCTAACA
17865317 GAGGCACCGAAGTGCAAACG
1 GAGGCACCGAAGTGCAAACG
17865337 GAGGCACCGAAGTGCAAAC
1 GAGGCACCGAAGTGCAAAC
17865356 AAAGGTCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.26, G:0.33, T:0.05
Consensus pattern (20 bp):
GAGGCACCGAAGTGCAAACG
Found at i:17865685 original size:20 final size:19
Alignment explanation
Indices: 17865660--17865718 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 19
17865650 GAAATGCTAG
*
17865660 CAAAGGCACAGAATTGCAAT
1 CAAAGGCACA-AAGTGCAAT
17865680 CAAAGGCACCAAAGTGCAAT
1 CAAAGGCA-CAAAGTGCAAT
*
17865700 CAGAGGCACCAAAGTGCAA
1 CAAAGGCA-CAAAGTGCAA
17865719 ACCCGTACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 34 0.94
21 2 0.06
ACGTcount: A:0.44, C:0.24, G:0.22, T:0.10
Consensus pattern (19 bp):
CAAAGGCACAAAGTGCAAT
Found at i:17866536 original size:85 final size:86
Alignment explanation
Indices: 17866393--17866567 Score: 334
Period size: 85 Copynumber: 2.0 Consensus size: 86
17866383 CTATGTTTGA
17866393 CATATTTACATATTAGTCCTTAAGTGCAAAACTAAAAAAAATCACTTAACAAAATAGTCCTAAAA
1 CATATTTACATATTAGTCCTTAAGTGCAAAACTAAAAAAAATCACTTAACAAAATAGTCCTAAAA
17866458 CATTTCCAAG-TCAAATCTTC
66 CATTTCCAAGCTCAAATCTTC
17866478 CATATTTACATATTAGTCCTTAAGTGCAAAACTAAAAAAAATCACTTAACAAAATAGTCCTAAAA
1 CATATTTACATATTAGTCCTTAAGTGCAAAACTAAAAAAAATCACTTAACAAAATAGTCCTAAAA
17866543 CATTTCCAAGCTTCAAATCTTC
66 CATTTCCAAGC-TCAAATCTTC
17866565 CAT
1 CAT
17866568 TAAATATCAA
Statistics
Matches: 88, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
85 75 0.85
87 13 0.15
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.30
Consensus pattern (86 bp):
CATATTTACATATTAGTCCTTAAGTGCAAAACTAAAAAAAATCACTTAACAAAATAGTCCTAAAA
CATTTCCAAGCTCAAATCTTC
Found at i:17866642 original size:17 final size:16
Alignment explanation
Indices: 17866615--17866646 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
17866605 TATTTTCACT
17866615 TATTAATTTAACTTAA
1 TATTAATTTAACTTAA
17866631 TATTATATTTAACTTA
1 TATTA-ATTTAACTTA
17866647 TGTTCAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTAATTTAACTTAA
Found at i:17872662 original size:9 final size:9
Alignment explanation
Indices: 17872630--17872663 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
17872620 GGCTTGGTTT
17872630 TTATTTGAGA
1 TTATTTGA-A
17872640 TTATTTGTAA
1 TTATTTG-AA
17872650 TTATTTGAA
1 TTATTTGAA
17872659 TTATT
1 TTATT
17872664 GTATATCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.30
10 15 0.65
11 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (9 bp):
TTATTTGAA
Found at i:17873553 original size:120 final size:123
Alignment explanation
Indices: 17873340--17873614 Score: 477
Period size: 120 Copynumber: 2.3 Consensus size: 123
17873330 TTATTTTGAG
*
17873340 TTGACGTTTCTG-GTCAAATAGTATAAAATCACTTCTACCAGAATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGAATGCTATTTGAGAAGAAATTGT
17873404 GAAATTGTGCCCTCCTGGACGCGATTTCGCTACAGTTGGTCATGTAAG-A-A-TTTTTT
65 GAAATTGTGCCCTCCTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAATATTTTTTT
*
17873460 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGAATGCTATTTGAGAAGAAATTGTG
17873525 AAATTGTGCCCTCCTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATATTTTTTT
66 AAATTGTGCCCTCCTGGACGCGATTTCGCTACAGTTGGTCATGTAAG-AATATTTTTTT
*
17873584 TTTACGTTTCTGAGCAAATAGTATAAAATCG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCG
17873615 TGCCCTCGTG
Statistics
Matches: 147, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
120 108 0.73
121 1 0.01
122 1 0.01
123 1 0.01
124 36 0.24
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (123 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGAATGCTATTTGAGAAGAAATTGTG
AAATTGTGCCCTCCTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAATATTTTTTT
Found at i:17880747 original size:15 final size:14
Alignment explanation
Indices: 17880727--17880756 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17880717 ATAATTATCT
17880727 AAAAATACTTAAATA
1 AAAAAT-CTTAAATA
17880742 AAAAATCTTAAATA
1 AAAAATCTTAAATA
17880756 A
1 A
17880757 TAATTACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAATCTTAAATA
Found at i:17880890 original size:29 final size:29
Alignment explanation
Indices: 17880849--17880911 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
17880839 GCCATTGATG
*
17880849 AAAATATAAAAAAAATTAAAATTATTTTA
1 AAAATATAAAAAAAATTAAAATTATTTAA
* *
17880878 AAAATATAAAAAAATTTAAATTTATTTAA
1 AAAATATAAAAAAAATTAAAATTATTTAA
17880907 AAAAT
1 AAAAT
17880912 GAAATTGAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAATATAAAAAAAATTAAAATTATTTAA
Found at i:17880970 original size:22 final size:21
Alignment explanation
Indices: 17880945--17880995 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 21
17880935 TAATATGGAT
17880945 TTGAGAGATTTTTGGAAGGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
17880967 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGA-GATTTTGGAAGGAAA
17880989 TTGAGAG
1 TTGAGAG
17880996 TTTGAGAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.04
22 25 0.89
23 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:17881002 original size:30 final size:30
Alignment explanation
Indices: 17880967--17881024 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
17880957 TGGAAGGAAA
* *
17880967 TTGAGAGGATTTTGGAAGGAAATTGAGAGT
1 TTGAGAGAATTTTAGAAGGAAATTGAGAGT
17880997 TTGAGAGAATTTTAGAAGGAAATTGAGA
1 TTGAGAGAATTTTAGAAGGAAATTGAGA
17881025 AGATTTTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.29
Consensus pattern (30 bp):
TTGAGAGAATTTTAGAAGGAAATTGAGAGT
Found at i:17881004 original size:52 final size:52
Alignment explanation
Indices: 17880944--17881046 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
17880934 TTAATATGGA
* * *
17880944 TTTGAGAGATTTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGAG
1 TTTGAGAGAATTTTAGAAGGAAATTGAGAAGATTTTGGAAGGAAATTGAGAG
17880996 TTTGAGAGAATTTTAGAAGGAAATTGAGAAGATTTTGGAAGGAAATTGAGA
1 TTTGAGAGAATTTTAGAAGGAAATTGAGAAGATTTTGGAAGGAAATTGAGA
17881047 TAGGATTTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (52 bp):
TTTGAGAGAATTTTAGAAGGAAATTGAGAAGATTTTGGAAGGAAATTGAGAG
Found at i:17881030 original size:22 final size:23
Alignment explanation
Indices: 17880997--17881046 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
17880987 AATTGAGAGT
17880997 TTGAG-AGAATTTTAGAAGGAAA
1 TTGAGAAGAATTTTAGAAGGAAA
*
17881019 TTGAGAAG-ATTTTGGAAGGAAA
1 TTGAGAAGAATTTTAGAAGGAAA
17881041 TTGAGA
1 TTGAGA
17881047 TAGGATTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (23 bp):
TTGAGAAGAATTTTAGAAGGAAA
Found at i:17881491 original size:19 final size:19
Alignment explanation
Indices: 17881465--17881503 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
17881455 AAATATAGAG
*
17881465 AAATTTGAGAG-AAATAAT
1 AAATTTGAAAGAAAATAAT
17881483 AAATATTGAAAGAAAATAAT
1 AAAT-TTGAAAGAAAATAAT
17881503 A
1 A
17881504 GGGGGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 6 0.33
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.26
Consensus pattern (19 bp):
AAATTTGAAAGAAAATAAT
Found at i:17885933 original size:45 final size:45
Alignment explanation
Indices: 17885869--17886043 Score: 235
Period size: 45 Copynumber: 3.9 Consensus size: 45
17885859 CTTTCCTTTC
** * * *
17885869 TGGCTGTGCAGCCTTTTTGGAATGACTCTCATCAGGAACAGTCTT
1 TGGCTGTGCAGCCTTTTCAGAATGACTCTCATCAGGTATACTCTT
* ** * *
17885914 TGGCTGTGCTGCCTTTTTGGATTGACTCTCATCAGGTATACTTTT
1 TGGCTGTGCAGCCTTTTCAGAATGACTCTCATCAGGTATACTCTT
17885959 TGGCTGTGCAGCCTTTTCAG-ATCGACTCTCATCAGGTATACTCTT
1 TGGCTGTGCAGCCTTTTCAGAAT-GACTCTCATCAGGTATACTCTT
*
17886004 TGGCTGAGCAGCCTTTTCAGAATGACTCTCATCAGGTATA
1 TGGCTGTGCAGCCTTTTCAGAATGACTCTCATCAGGTATA
17886044 GACCCACTTG
Statistics
Matches: 116, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
44 1 0.01
45 113 0.97
46 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (45 bp):
TGGCTGTGCAGCCTTTTCAGAATGACTCTCATCAGGTATACTCTT
Found at i:17886825 original size:47 final size:48
Alignment explanation
Indices: 17886771--17886866 Score: 151
Period size: 47 Copynumber: 2.0 Consensus size: 48
17886761 ATGAAGGAGA
17886771 ATAAATCAGTTATAACTTCAATGAAG-A-CATAACAGATTTTATTAAGC
1 ATAAATCAGTTATAACTTCAATGAAGAAGCATAACAGATTTTA-TAAGC
*
17886818 ATAAATCAGTTGTAACTTCAATGAAGAAGGCATAACAGATTTTATAAGC
1 ATAAATCAGTTATAACTTCAATGAAGAA-GCATAACAGATTTTATAAGC
17886867 CAACAACACA
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
47 25 0.56
48 1 0.02
49 5 0.11
50 14 0.31
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (48 bp):
ATAAATCAGTTATAACTTCAATGAAGAAGCATAACAGATTTTATAAGC
Found at i:17888896 original size:94 final size:94
Alignment explanation
Indices: 17888735--17888927 Score: 377
Period size: 94 Copynumber: 2.1 Consensus size: 94
17888725 AAAAAGCATC
*
17888735 CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGTACCTAAAATAT
1 CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGCACCTAAAATAT
17888800 TAAGACAATCAGTCAGTTGTAGCATGATT
66 TAAGACAATCAGTCAGTTGTAGCATGATT
17888829 CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGCACCTAAAATAT
1 CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGCACCTAAAATAT
17888894 TAAGACAATCAGTCAGTTGTAGCATGATT
66 TAAGACAATCAGTCAGTTGTAGCATGATT
17888923 CACTA
1 CACTA
17888928 GTCACGAAAC
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 98 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (94 bp):
CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGCACCTAAAATAT
TAAGACAATCAGTCAGTTGTAGCATGATT
Found at i:17890702 original size:12 final size:12
Alignment explanation
Indices: 17890685--17890718 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
17890675 GAGTGAGTTT
*
17890685 CTTTTTTTTTCC
1 CTTTTTTTTTCA
17890697 CTTTTTTTTTCA
1 CTTTTTTTTTCA
*
17890709 ATTTTTTTTT
1 CTTTTTTTTT
17890719 GAAATACTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (12 bp):
CTTTTTTTTTCA
Found at i:17892461 original size:2 final size:2
Alignment explanation
Indices: 17892450--17892482 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
17892440 TAGGTGCAAT
17892450 TA TA -A 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
17892483 AGTGTGATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:17893773 original size:2 final size:2
Alignment explanation
Indices: 17893768--17893808 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
17893758 TATATATATA
*
17893768 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
17893809 ATCTATGTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.02, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:17894201 original size:24 final size:23
Alignment explanation
Indices: 17894157--17894218 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
17894147 ACATTAAATT
*
17894157 ATAAATTTATTTATTAAATTATAAA
1 ATAAATTT-TATATTAAATTAT-AA
*
17894182 ATAAATTTTATATTACATTATAA
1 ATAAATTTTATATTAAATTATAA
*
17894205 ATAAAATTTCATAT
1 AT-AAATTTTATAT
17894219 AATTATTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.12
24 21 0.64
25 8 0.24
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (23 bp):
ATAAATTTTATATTAAATTATAA
Found at i:17894891 original size:13 final size:12
Alignment explanation
Indices: 17894855--17894896 Score: 50
Period size: 11 Copynumber: 3.4 Consensus size: 12
17894845 ATCATATTTG
*
17894855 ATTTTTATATCA
1 ATTTTTATATAA
17894867 ATTTTT-TATAA
1 ATTTTTATATAA
17894878 ATTTATTATATAAA
1 ATTT-TTATAT-AA
17894892 ATTTT
1 ATTTT
17894897 CATCCATATC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.31
12 8 0.31
13 4 0.15
14 6 0.23
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTTTTATATAA
Found at i:17895075 original size:14 final size:14
Alignment explanation
Indices: 17895039--17895077 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
17895029 TTATTTCATT
*
17895039 AAAAATGACTTCCG
1 AAAAATGATTTCCG
* *
17895053 GAAAATGATTTCTG
1 AAAAATGATTTCCG
17895067 AAAAATGATTT
1 AAAAATGATTT
17895078 ACTTTTCTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (14 bp):
AAAAATGATTTCCG
Found at i:17913475 original size:106 final size:106
Alignment explanation
Indices: 17913319--17913513 Score: 275
Period size: 106 Copynumber: 1.8 Consensus size: 106
17913309 ATCCAAGGAA
*
17913319 ACAAAGAGAGTTAACACGAGCATAACAACAATAATTCCACTACAATGTAATCGAACCAAATATCA
1 ACAAAGAGAGTTAACACGAGCATAACAACAATAATACCACTACAATGTAATCGAACCAAATATCA
*
17913384 TAAAACTTGTACTCTGATTGGTTGATCTGATATCGGAGAAC
66 TAAAACTTGTACTCTGATCGGTTGATCTGATATCGGAGAAC
** ** * * * *
17913425 ACAAAGAGAGTTAACACGAGCATGTCAACGGTGAA-ACCACTGCAATGTAATTGAGCCAAATTTC
1 ACAAAGAGAGTTAACACGAGCATAACAACAAT-AATACCACTACAATGTAATCGAACCAAATATC
*
17913489 ATAAAATTTGTACTCTGATCGGTTG
65 ATAAAACTTGTACTCTGATCGGTTG
17913514 TTGCGACAAG
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
106 75 0.97
107 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.25
Consensus pattern (106 bp):
ACAAAGAGAGTTAACACGAGCATAACAACAATAATACCACTACAATGTAATCGAACCAAATATCA
TAAAACTTGTACTCTGATCGGTTGATCTGATATCGGAGAAC
Found at i:17915004 original size:114 final size:114
Alignment explanation
Indices: 17914799--17915449 Score: 757
Period size: 112 Copynumber: 5.7 Consensus size: 114
17914789 GCGCTTTAAA
* *
17914799 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTTAGTAAAGCGCCGC
1 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAAAGCGCCGC
*
17914864 TAATGCTGAGGGCTTTAGCGGC-TTTTTTGATCAAGCGCCGCAAAAAAAC
66 TAATGCT-AGGGCTTTAGCGGCGTTTTTTGATAAAGCGCCGCAAAAAAAC
* * *
17914913 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGAGTTTTCAATAACGCGCTGC
1 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAAAGCGCCGC
* * *
17914978 TAATGCTAGGGATTTAGCGGCG-TTTTTGGTCAAGCGCCGC-AAAAAAC
66 TAATGCTAGGGCTTTAGCGGCGTTTTTTGATAAAGCGCCGCAAAAAAAC
* ** * * * *
17915025 TAAGCCCAACGACGCCGTTTTCTGAGCTTCCGGTAGGTGTAGCAGTGTTTTCAATAATGCGCCGC
1 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAAAGCGCCGC
*
17915090 TAATGCTAGGGCTTTAGCGGCGTTTTTATGA-AAACGCCGCAACGCAAAAAAAAT
66 TAATGCTAGGGCTTTAGCGGCGTTTTT-TGATAAA-G-CGC--CGC-AAAAAAAC
* * * * * * * *
17915144 TAAACCCAATGACACCGTTTTCTTAGCTTTC--GGGGTTTGGCGGCGTTTTTAGTAAAGCGTCGC
1 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAAAGCGCCGC
* * *
17915207 TAATGCT-GTGGTTTTAGCGGCG-TTTTGGATAAAGCGTCGCAAAAAAA-
66 TAATGCTAG-GGCTTTAGCGGCGTTTTTTGATAAAGCGCCGCAAAAAAAC
* * * * *
17915254 TAAGCCCAACGACGTCGTTTTTTGAGCTTTCGGGGGGTTTAGTGGCGTTTTCAATAATGTGCCGC
1 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAAAGCGCCGC
* *
17915319 TAATGCTAGGGCTTTAGCGGCG-CTTTT-ATGAAAGCGCCGCAAATAAAAT
66 TAATGCTAGGGCTTTAGCGGCGTTTTTTGAT-AAAGCGCCGCAAA-AAAAC
* * * * *
17915368 TAAACCCAACGACACCGTTTTCTTAGCTTTCAGGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGC
1 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAAAGCGCCGC
*
17915433 TAATGCTCAGGGATTTA
66 TAATGCT-AGGGCTTTA
17915450 AATAAATTTA
Statistics
Matches: 454, Mismatches: 65, Indels: 35
0.82 0.12 0.06
Matches are distributed among these distances:
110 25 0.06
111 9 0.02
112 147 0.32
113 41 0.09
114 134 0.30
115 14 0.03
116 8 0.02
117 44 0.10
119 32 0.07
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (114 bp):
TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAAAGCGCCGC
TAATGCTAGGGCTTTAGCGGCGTTTTTTGATAAAGCGCCGCAAAAAAAC
Found at i:17915260 original size:229 final size:225
Alignment explanation
Indices: 17914796--17915449 Score: 863
Period size: 229 Copynumber: 2.9 Consensus size: 225
17914786 GCGGCGCTTT
* * *
17914796 AAATAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTTAGTAAAGCGC
1 AAATAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAATGCGC
* * *
17914861 CGCTAATGCTGAGGGCTTTAGCGGC-TTTTT-TGATCAAGCGCCGC-AAAAAAACTAAGCCCAAC
66 CGCTAATGCT-AGGGCTTTAGCGGCGTTTTTATGA-AAAGCGCCGCAAAAAAAATTAAACCCAAC
* * * * *
17914923 GACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGAGTTTTCAATAACGCGCTGCTAATGCTAGG
129 GACACCGTTTTCTTAGCTTTC-GGGGGTTTAGCGGCGTTTTTAATAAAGCGC-GCTAATGCTAGG
*
17914988 GATTTAGCGGCGTTTTTGGTCAAGCGCCGCAAAA
192 GATTTAGCGGCGTTTTTGGTAAAGCGCCGCAAAA
* * ** * * *
17915022 AACTAAGCCCAACGACGCCGTTTTCTGAGCTTCCGGTAGGTGTAGCAGTGTTTTCAATAATGCGC
1 AAATAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAATGCGC
17915087 CGCTAATGCTAGGGCTTTAGCGGCGTTTTTATGAAAACGCCGCAACGCAAAAAAAATTAAACCCA
66 CGCTAATGCTAGGGCTTTAGCGGCGTTTTTATGAAAA-G-CGC--CGCAAAAAAAATTAAACCCA
* * *
17915152 ATGACACCGTTTTCTTAGCTTTC-GGGGTTTGGCGGCGTTTTTAGTAAAGCGTCGCTAATGCT-G
127 ACGACACCGTTTTCTTAGCTTTCGGGGGTTTAGCGGCGTTTTTAATAAAGCG-CGCTAATGCTAG
* *
17915215 TGGTTTTAGCGGCG-TTTTGGATAAAGCGTCGCAAAA
191 -GGATTTAGCGGCGTTTTTGG-TAAAGCGCCGCAAAA
* * * *
17915251 AAATAAGCCCAACGACGTCGTTTTTTGAGCTTTCGGGGGGTTTAGTGGCGTTTTCAATAATGTGC
1 AAATAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAATGCGC
* *
17915316 CGCTAATGCTAGGGCTTTAGCGGCGCTTTTATG-AAAGCGCCGCAAATAAAATTAAACCCAACGA
66 CGCTAATGCTAGGGCTTTAGCGGCGTTTTTATGAAAAGCGCCGCAAAAAAAATTAAACCCAACGA
17915380 CACCGTTTTCTTAGCTTTCAGGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTCAGGG
131 CACCGTTTTCTTAGCTTTC-GGGGGTTTAGCGGCGTTTTTAATAAAGCG-CGCTAATGCT-AGGG
17915445 ATTTA
193 ATTTA
17915450 AATAAATTTA
Statistics
Matches: 372, Mismatches: 42, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
224 41 0.11
225 14 0.04
226 111 0.30
227 11 0.03
228 14 0.04
229 143 0.38
230 4 0.01
231 34 0.09
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (225 bp):
AAATAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAATGCGC
CGCTAATGCTAGGGCTTTAGCGGCGTTTTTATGAAAAGCGCCGCAAAAAAAATTAAACCCAACGA
CACCGTTTTCTTAGCTTTCGGGGGTTTAGCGGCGTTTTTAATAAAGCGCGCTAATGCTAGGGATT
TAGCGGCGTTTTTGGTAAAGCGCCGCAAAA
Found at i:17915705 original size:31 final size:32
Alignment explanation
Indices: 17915670--17915729 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
17915660 GGTTTAAGGG
*
17915670 TTAGGTGTTATGATTT-AGGGGTTAGGGGGAT
1 TTAGGGGTTATGATTTAAGGGGTTAGGGGGAT
*
17915701 TTAGGGGTTATGCTTTAAGGGGTTAGGGG
1 TTAGGGGTTATGATTTAAGGGGTTAGGGG
17915730 TGTAACAGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.18, C:0.02, G:0.43, T:0.37
Consensus pattern (32 bp):
TTAGGGGTTATGATTTAAGGGGTTAGGGGGAT
Found at i:17940781 original size:21 final size:21
Alignment explanation
Indices: 17940755--17940823 Score: 113
Period size: 21 Copynumber: 3.3 Consensus size: 21
17940745 CAACAACTTA
17940755 AAGCAGAGGCGACAGCGAGAG
1 AAGCAGAGGCGACAGCGAGAG
*
17940776 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCGACAGCGAGAG
17940797 AAGCAGAGGCCG-CAGCGAGAG
1 AAGCAGAGG-CGACAGCGAGAG
17940818 AAGCAG
1 AAGCAG
17940824 CGAGAGAAGC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 44 0.98
22 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.41, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCGACAGCGAGAG
Found at i:17940825 original size:12 final size:12
Alignment explanation
Indices: 17940788--17940836 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
17940778 GCAGAGGCTA
17940788 CAGCGAGAGAAG
1 CAGCGAGAGAAG
**
17940800 CA--GAG-GCCG
1 CAGCGAGAGAAG
17940809 CAGCGAGAGAAG
1 CAGCGAGAGAAG
17940821 CAGCGAGAGAAG
1 CAGCGAGAGAAG
17940833 CAGC
1 CAGC
17940837 AATAGAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
9 4 0.13
10 3 0.10
11 3 0.10
12 20 0.67
ACGTcount: A:0.37, C:0.22, G:0.41, T:0.00
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:17941419 original size:42 final size:42
Alignment explanation
Indices: 17941358--17941561 Score: 345
Period size: 42 Copynumber: 4.9 Consensus size: 42
17941348 NNNNNNNNNN
*
17941358 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAG
*
17941400 CGCCGCTAAAGAACGTGATCTTTAGCGGCGTTTTTTCATAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAG
* *
17941442 TGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAG
* *
17941484 CGTCGCTAAAGAACATGATCTTTAGCGGTGTTTTTTCATAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAG
*
17941526 TGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
17941562 TCTGTAAGCA
Statistics
Matches: 150, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 150 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAG
Found at i:17945728 original size:11 final size:11
Alignment explanation
Indices: 17945712--17945742 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
17945702 TTTAAGGTGA
17945712 GTAATGTAATT
1 GTAATGTAATT
17945723 GTAATGTAATT
1 GTAATGTAATT
*
17945734 GAAATGTAA
1 GTAATGTAA
17945743 AATGTTACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (11 bp):
GTAATGTAATT
Found at i:17949106 original size:16 final size:16
Alignment explanation
Indices: 17949085--17949117 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17949075 AGTCCTTGTA
17949085 ATTTTA-TCACTTTAAC
1 ATTTTAGTC-CTTTAAC
17949101 ATTTTAGTCCTTTAAC
1 ATTTTAGTCCTTTAAC
17949117 A
1 A
17949118 ACAAAATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.30, C:0.18, G:0.03, T:0.48
Consensus pattern (16 bp):
ATTTTAGTCCTTTAAC
Found at i:17955764 original size:42 final size:43
Alignment explanation
Indices: 17955679--17955772 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 43
17955669 NNNNNNNNNN
* *
17955679 CACGAAATCACATATCGATGCCAATGTCCCAGACATGGTCTTA
1 CACGAAATCACATATCGATGCCAATATCCCAAACATGGTCTTA
* * *
17955722 CACGAAGTCTCATATCGATGCCAA-ATCCCAAATATGGTCTTA
1 CACGAAATCACATATCGATGCCAATATCCCAAACATGGTCTTA
*
17955764 CACGTAATC
1 CACGAAATC
17955773 TCGGTAACCC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 22 0.50
43 22 0.50
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (43 bp):
CACGAAATCACATATCGATGCCAATATCCCAAACATGGTCTTA
Found at i:17957138 original size:20 final size:20
Alignment explanation
Indices: 17957113--17957152 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17957103 TTATGTAATT
17957113 TATAATACTATAATATTAAA
1 TATAATACTATAATATTAAA
17957133 TATAATACTATAATATTAAA
1 TATAATACTATAATATTAAA
17957153 GTACTTGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
TATAATACTATAATATTAAA
Found at i:17967423 original size:43 final size:43
Alignment explanation
Indices: 17967367--17967654 Score: 429
Period size: 43 Copynumber: 6.7 Consensus size: 43
17967357 AGAAATAAAT
* **
17967367 GCCGCTATAGATCATGACCTTTAGCGGCGCTTCTATCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
* *
17967410 ACCGCTATAGATCAGGACCTTTAGCGGCGCTT-TTCCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
17967452 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
17967495 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
17967538 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
* * * **
17967581 GCCGCTATAGCTCAAGACC-TTAGCGGCGCTTTTTTCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
* * *
17967623 GCCGCTATAGCTCAATG-CCTTTAGCGACGCTT
1 GCCGCTATAGATC-AGGACCTTTAGCGGCGCTT
17967655 TGGTTACAAA
Statistics
Matches: 229, Mismatches: 13, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
42 74 0.32
43 155 0.68
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (43 bp):
GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
Found at i:17967664 original size:128 final size:128
Alignment explanation
Indices: 17967367--17967672 Score: 438
Period size: 128 Copynumber: 2.4 Consensus size: 128
17967357 AGAAATAAAT
*
17967367 GCCGCTATAGATCATGACCTTTAGCGGCGCTTCTATCACAAACACCGCTATAGATCAGGACCTTT
1 GCCGCTATAGATCATGACCTTTAGCGGCGCTTCTATCACAAACGCCGCTATAGATCAGGACCTTT
* *
17967432 AGCGGCGCTTTTCCACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
66 AGCGGCGCTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTCTCCCACAAAC
* **
17967495 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCAGGACCTTT
1 GCCGCTATAGATCATGACCTTTAGCGGCGCTTCTATCACAAACGCCGCTATAGATCAGGACCTTT
* * **
17967560 AGCGGCGCTTCTCCCACAAACGCCGCTATAGCTCAAGACC-TTAGCGGCGCTTTTTTCACAAAC
66 AGCGGCGCTT-TCCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTCTCCCACAAAC
* * * *
17967623 GCCGCTATAGCTCAATG-CCTTTAGCGACGCTT-TGGTTACAAACGCCGCTA
1 GCCGCTATAGATC-ATGACCTTTAGCGGCGCTTCT-ATCACAAACGCCGCTA
17967673 AAAGTACCAT
Statistics
Matches: 159, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
127 1 0.01
128 130 0.82
129 28 0.18
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (128 bp):
GCCGCTATAGATCATGACCTTTAGCGGCGCTTCTATCACAAACGCCGCTATAGATCAGGACCTTT
AGCGGCGCTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTCTCCCACAAAC
Found at i:17967672 original size:85 final size:86
Alignment explanation
Indices: 17967367--17967654 Score: 438
Period size: 85 Copynumber: 3.4 Consensus size: 86
17967357 AGAAATAAAT
* ** *
17967367 GCCGCTATAGATCATGACCTTTAGCGGCGCTTCTATCACAAACACCGCTATAGATCAGGACCTTT
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCAGGACCTTT
17967432 AGCGGCGC-TTTTCCACAAAC
66 AGCGGCGCTTTTTCCACAAAC
17967452 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCAGGACCTTT
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCAGGACCTTT
* *
17967517 AGCGGCGCTTCTCCCACAAAC
66 AGCGGCGCTTTTTCCACAAAC
* *
17967538 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGCTCAAGACC-TT
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCAGGACCTTT
*
17967602 AGCGGCGCTTTTTTCACAAAC
66 AGCGGCGCTTTTTCCACAAAC
* * *
17967623 GCCGCTATAGCTCAATG-CCTTTAGCGACGCTT
1 GCCGCTATAGATC-AGGACCTTTAGCGGCGCTT
17967655 TGGTTACAAA
Statistics
Matches: 187, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
85 115 0.61
86 72 0.39
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (86 bp):
GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCAGGACCTTT
AGCGGCGCTTTTTCCACAAAC
Found at i:17973714 original size:15 final size:15
Alignment explanation
Indices: 17973690--17973726 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
17973680 AACACTCACA
*
17973690 AAAATTCCAAGAATG
1 AAAATCCCAAGAATG
17973705 AAAATCCCAAGAATG
1 AAAATCCCAAGAATG
17973720 AAAATCC
1 AAAATCC
17973727 AAGTTCATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.19, G:0.11, T:0.16
Consensus pattern (15 bp):
AAAATCCCAAGAATG
Found at i:17974816 original size:14 final size:15
Alignment explanation
Indices: 17974799--17974831 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17974789 ACACTTAAAA
17974799 CATAATCCCT-AATC
1 CATAATCCCTAAATC
*
17974813 CATAATTCCTAAATC
1 CATAATCCCTAAATC
17974828 CATA
1 CATA
17974832 TATAATCCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.39, C:0.30, G:0.00, T:0.30
Consensus pattern (15 bp):
CATAATCCCTAAATC
Found at i:17975730 original size:41 final size:41
Alignment explanation
Indices: 17975477--17975739 Score: 343
Period size: 41 Copynumber: 6.4 Consensus size: 41
17975467 TGGCGATATC
* * *
17975477 CCAAAAACGCCGCTAAAGACC-GAGCAATAGTGGCGCTTCT
1 CCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTT
*
17975517 CCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTC
1 CCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTT
* *
17975558 CCAAAAACGCCACTAAAGACCAGAGCGTTAGCGGCGCTTTT
1 CCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTT
* *
17975599 CCAAAAACGCCGCTAAAAACCAGAGCATTAGTGGCG-TTTT
1 CCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTT
* *
17975639 CGCAAAAGCGTCGCTAAAGACCAGAGCATTAGCGGCGC-TTT
1 C-CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTT
* *
17975680 CGTAAAAACGCCGCTAAAGACCAGAGCTTTAGCGGCGCTTTT
1 C-CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTT
** * *
17975722 TGAGAAACGCCACTAAAG
1 CCAAAAACGCCGCTAAAG
17975740 CCCCAAAAAC
Statistics
Matches: 196, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
40 26 0.13
41 167 0.85
42 3 0.02
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.17
Consensus pattern (41 bp):
CCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTT
Found at i:17975738 original size:123 final size:122
Alignment explanation
Indices: 17975477--17975721 Score: 384
Period size: 123 Copynumber: 2.0 Consensus size: 122
17975467 TGGCGATATC
*
17975477 CCAAAAACGCCGCTAAAGACCGAGCAATAGTGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAG
1 CCAAAAACGCCGCTAAAAACCGAGCAATAGTGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAG
17975542 CATTAGCGGCGCTTTCCCAAAAACGCCACTAAAGACCAGAGCGTTAGCGGCGCTTTT
66 CATTAGCGGCGCTTTCCCAAAAACGCCACTAAAGACCAGAGCGTTAGCGGCGCTTTT
* * * *
17975599 CCAAAAACGCCGCTAAAAACCAGAGCATTAGTGGCG-TTTTCGCAAAAGCGTCGCTAAAGACCAG
1 CCAAAAACGCCGCTAAAAACC-GAGCAATAGTGGCGCTTCTC-CAAAAACGCCGCTAAAGACCAG
** * *
17975663 AGCATTAGCGGCGCTTTCGTAAAAACGCCGCTAAAGACCAGAGCTTTAGCGGCGCTTTT
64 AGCATTAGCGGCGCTTTCCCAAAAACGCCACTAAAGACCAGAGCGTTAGCGGCGCTTTT
17975722 TGAGAAACGC
Statistics
Matches: 112, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
122 24 0.21
123 88 0.79
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (122 bp):
CCAAAAACGCCGCTAAAAACCGAGCAATAGTGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAG
CATTAGCGGCGCTTTCCCAAAAACGCCACTAAAGACCAGAGCGTTAGCGGCGCTTTT
Found at i:17976313 original size:15 final size:14
Alignment explanation
Indices: 17976293--17976323 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
17976283 TTCGAAATTT
17976293 ATTTGCTTAAAACTA
1 ATTTGCTTAAAA-TA
17976308 ATTTGCTTAAAATA
1 ATTTGCTTAAAATA
17976322 AT
1 AT
17976324 ACTTAGGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (14 bp):
ATTTGCTTAAAATA
Found at i:17977252 original size:20 final size:20
Alignment explanation
Indices: 17977227--17977266 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17977217 TTACTTATAA
*
17977227 TATTTATTATTTTATAAAAT
1 TATTTATTATCTTATAAAAT
*
17977247 TATTTATTATCTTGTAAAAT
1 TATTTATTATCTTATAAAAT
17977267 AATATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (20 bp):
TATTTATTATCTTATAAAAT
Found at i:17977550 original size:174 final size:175
Alignment explanation
Indices: 17977243--17977597 Score: 694
Period size: 174 Copynumber: 2.0 Consensus size: 175
17977233 TTATTTTATA
17977243 AAATTATTTATTATCTTGTAAAATAATATTTTTTTGATAAATTTACAATTAAATTAAAAATAATA
1 AAATTATTTATTATC-TGTAAAATAATATTTTTTTGATAAATTTACAATTAAATTAAAAATAATA
17977308 TTTATTATTTTCCATAATTGTAAAATTAAGTACATAAAGAGCCAAATTTGAGAGTGAAAATGTAA
65 TTTATTATTTTCCATAATTGTAAAATTAAGTACATAAAGAGCCAAATTTGAGAGTGAAAATGTAA
17977373 AACAATTATTACTACATAATTGCTAAAACTATTATTTTTAATAAAT
130 AACAATTATTACTACATAATTGCTAAAACTATTATTTTTAATAAAT
17977419 AAATTATTTATTATC-GTAAAATAATATTTTTTTGATAAATTTACAATTAAATTAAAAATAATAT
1 AAATTATTTATTATCTGTAAAATAATATTTTTTTGATAAATTTACAATTAAATTAAAAATAATAT
17977483 TTATTATTTTCCATAATTGTAAAATTAAGTACATAAAGAGCCAAATTTGAGAGTGAAAATGTAAA
66 TTATTATTTTCCATAATTGTAAAATTAAGTACATAAAGAGCCAAATTTGAGAGTGAAAATGTAAA
17977548 ACAATTATTACTACATAATTGCTAAAACTATTATTTTTAATAAAT
131 ACAATTATTACTACATAATTGCTAAAACTATTATTTTTAATAAAT
17977593 AAATT
1 AAATT
17977598 TTAGTTGATA
Statistics
Matches: 179, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
174 164 0.92
176 15 0.08
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (175 bp):
AAATTATTTATTATCTGTAAAATAATATTTTTTTGATAAATTTACAATTAAATTAAAAATAATAT
TTATTATTTTCCATAATTGTAAAATTAAGTACATAAAGAGCCAAATTTGAGAGTGAAAATGTAAA
ACAATTATTACTACATAATTGCTAAAACTATTATTTTTAATAAAT
Found at i:17978152 original size:52 final size:52
Alignment explanation
Indices: 17978049--17978152 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 52
17978039 GTAATATTTT
* * * * * *
17978049 TGTAACACCCCTAATCCACATTCATCGCTAGAATAGGGTTTTGGAGTATTAC
1 TGTAACACCCCTAACCCACATCCATCGCCAGAATAGGGTTATAGAGCATTAC
** *
17978101 TGTAACACCCCTAACCCGTATCCATCGCCATAATAGGGTTATAGAGCATTAC
1 TGTAACACCCCTAACCCACATCCATCGCCAGAATAGGGTTATAGAGCATTAC
17978153 CAGAGTTTAC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (52 bp):
TGTAACACCCCTAACCCACATCCATCGCCAGAATAGGGTTATAGAGCATTAC
Found at i:17980756 original size:27 final size:26
Alignment explanation
Indices: 17980726--17980776 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
17980716 ATGAAATTCT
*
17980726 TACAAA-CAATATGATTGATTAACAATA
1 TACAAAGCAA-ATGA-TGAATAACAATA
17980753 TACAAAGCAAATGATGAATAACAA
1 TACAAAGCAAATGATGAATAACAA
17980777 ATTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 10 0.45
28 3 0.14
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.24
Consensus pattern (26 bp):
TACAAAGCAAATGATGAATAACAATA
Found at i:17983936 original size:40 final size:40
Alignment explanation
Indices: 17983887--17984026 Score: 153
Period size: 40 Copynumber: 3.5 Consensus size: 40
17983877 AACACACCAG
* **
17983887 TTTGGCACCCAGTGCCTCATCGGATAATTTGAAGTAAAAA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAAAAA
* * *
17983927 TTTGACACCCAGTGTCTCATCGGCTAAACCGAAGT--AAA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAAAAA
* *
17983965 TTAG-CACCCAGTGCCTCATCGAATATATCCGAAGTAATAAA
1 TTTGACACCCAGTGCCTCATCGGATA-ATCCGAAGTAA-AAA
*
17984006 -TTGACACCCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
17984027 ACTCGAAGTC
Statistics
Matches: 82, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
37 18 0.22
38 14 0.17
40 31 0.38
41 19 0.23
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAAAAA
Found at i:17986652 original size:16 final size:17
Alignment explanation
Indices: 17986615--17986656 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
17986605 AGTTCCATCC
17986615 AATTTTTAATTCGATTAT
1 AATTTTT-ATTCGATTAT
17986633 -ATTTTTATT-GATTAT
1 AATTTTTATTCGATTAT
17986648 AATTTTTAT
1 AATTTTTAT
17986657 AAGTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.26
16 11 0.48
17 6 0.26
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (17 bp):
AATTTTTATTCGATTAT
Found at i:17987180 original size:5 final size:5
Alignment explanation
Indices: 17987170--17987196 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
17987160 ATAATACATA
17987170 AATAT AATAT AATAT AATAT AATAT AA
1 AATAT AATAT AATAT AATAT AATAT AA
17987197 ATATTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:17990449 original size:87 final size:87
Alignment explanation
Indices: 17990303--17990476 Score: 330
Period size: 87 Copynumber: 2.0 Consensus size: 87
17990293 AATGATATCT
*
17990303 TTGCTTACCATATCTATACTATCAATTGATAGGTGCACTTGTCTTAGTCAAAATTTTTAGTTAGT
1 TTGCTCACCATATCTATACTATCAATTGATAGGTGCACTTGTCTTAGTCAAAATTTTTAGTTAGT
*
17990368 TTTATGGACATCAAGTTTTTGG
66 TTCATGGACATCAAGTTTTTGG
17990390 TTGCTCACCATATCTATACTATCAATTGATAGGTGCACTTGTCTTAGTCAAAATTTTTAGTTAGT
1 TTGCTCACCATATCTATACTATCAATTGATAGGTGCACTTGTCTTAGTCAAAATTTTTAGTTAGT
17990455 TTCATGGACATCAAGTTTTTGG
66 TTCATGGACATCAAGTTTTTGG
17990477 CGTTGTTGTT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (87 bp):
TTGCTCACCATATCTATACTATCAATTGATAGGTGCACTTGTCTTAGTCAAAATTTTTAGTTAGT
TTCATGGACATCAAGTTTTTGG
Found at i:17992014 original size:32 final size:33
Alignment explanation
Indices: 17991977--17992043 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 33
17991967 CTTTAGGGAT
* *
17991977 TTAAGTTTTTGTTACATG-ATTTTAGGAATAAG
1 TTAAGTGTTTGTGACATGTATTTTAGGAATAAG
* * *
17992009 TTAAGTGTTTGTGGCATGTTTTTTAGGAGTAAG
1 TTAAGTGTTTGTGACATGTATTTTAGGAATAAG
17992042 TT
1 TT
17992044 TTGCAGGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.48
Consensus pattern (33 bp):
TTAAGTGTTTGTGACATGTATTTTAGGAATAAG
Found at i:17992230 original size:411 final size:410
Alignment explanation
Indices: 17991469--17992293 Score: 1463
Period size: 411 Copynumber: 2.0 Consensus size: 410
17991459 TATGATAACA
* * *
17991469 AAGCCTATTAAGACAGCCAGTGTTTTTAGTATAGATGTTGTTGAGGATGTGCCTTAGACTTGCTT
1 AAGCCTATTAAGACAACCAATGTTTTTAATATAGATGTTGTTGAGGATGTGCCTTAGACTTGCTT
* * *
17991534 AATAATATGTCTGTAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTATATGATTTTATGAATAAG
66 AATAATATGTCTATAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAG
17991599 TTAAGTGTTTGTGGCATGTTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTTTCTATA
131 TTAAGTGTTTGTGGCATGTTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTTTCTATA
* *
17991664 TAATATGAACAATACAACAAATTATAGTGTTTTTTCAATATATCTTTCTTTAATATTTTTTGTGT
196 TAATATGAACAATACAACAAATTATAGTGTTCTTTCAATATATATTTCTTTAATATTTTTTGTGT
*
17991729 TTTCTATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTT
261 TTTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTT
*
17991794 GAGAGAAACACATAAGCTTTAGACATGAAAGTTGACACAACATTTTCTAATATTGTTCCACCAAT
326 GAGAGAAACACATAAGCTTTAGACATGAAAGTTGACACAACATTTTCTAATATTATTCCACCAAT
17991859 TTTTGATGGTGGTAACTATC
391 TTTTGATGGTGGTAACTATC
17991879 AAGCCTATTAAGACAACCAATGTTTTTAATATAGATGTTGTTGAGGATGTGCCTTAGACTTGCTT
1 AAGCCTATTAAGACAACCAATGTTTTTAATATAGATGTTGTTGAGGATGTGCCTTAGACTTGCTT
17991944 AATAATATGTCTATAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAG
66 AATAATATGTCTATAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAG
17992009 TTAAGTGTTTGTGGCATG-TTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTCTTCCTA
131 TTAAGTGTTTGTGGCATGTTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTT-TT-CTA
* *
17992073 TATAATATGAACAATTCAGCAAATTATAGTGTTCTTTCAATATATATTTCTTTAATATTTTTTGT
194 TATAATATGAACAATACAACAAATTATAGTGTTCTTTCAATATATATTTCTTTAATATTTTTTGT
17992138 GTTTTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAG
259 GTTTTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAG
* ** * *
17992203 TTGAGAGAAACACATAAGCTTTAGACATGGAAGTTGACACAATGTTTTCTCATATTATTCCACTA
324 TTGAGAGAAACACATAAGCTTTAGACATGAAAGTTGACACAACATTTTCTAATATTATTCCACCA
*
17992268 ATTTTTGATGGTGGTAACTGTC
389 ATTTTTGATGGTGGTAACTATC
17992290 AAGC
1 AAGC
17992294 TTGGGTTGTT
Statistics
Matches: 395, Mismatches: 18, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
409 39 0.10
410 144 0.36
411 212 0.54
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (410 bp):
AAGCCTATTAAGACAACCAATGTTTTTAATATAGATGTTGTTGAGGATGTGCCTTAGACTTGCTT
AATAATATGTCTATAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAG
TTAAGTGTTTGTGGCATGTTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTTTCTATA
TAATATGAACAATACAACAAATTATAGTGTTCTTTCAATATATATTTCTTTAATATTTTTTGTGT
TTTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTT
GAGAGAAACACATAAGCTTTAGACATGAAAGTTGACACAACATTTTCTAATATTATTCCACCAAT
TTTTGATGGTGGTAACTATC
Found at i:17993462 original size:23 final size:23
Alignment explanation
Indices: 17993436--17993486 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
17993426 ACTCAAAAGG
17993436 TAGAAATGTATTCAAAGTAAAAA
1 TAGAAATGTATTCAAAGTAAAAA
17993459 TAGAAATGTATTCAAAGTAAAAA
1 TAGAAATGTATTCAAAGTAAAAA
17993482 T-GAAA
1 TAGAAA
17993487 GCGAAAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.57, C:0.04, G:0.14, T:0.25
Consensus pattern (23 bp):
TAGAAATGTATTCAAAGTAAAAA
Found at i:17996201 original size:9 final size:9
Alignment explanation
Indices: 17996165--17996202 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
17996155 CTTAATTTTT
17996165 TTAAAAAAA
1 TTAAAAAAA
*
17996174 TTTAAAAAA
1 TTAAAAAAA
17996183 -T-AAAAAA
1 TTAAAAAAA
17996190 TTAAAAAAA
1 TTAAAAAAA
17996199 TTAA
1 TTAA
17996203 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
7 6 0.23
8 2 0.08
9 18 0.69
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:17996204 original size:13 final size:13
Alignment explanation
Indices: 17996188--17996212 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17996178 AAAAATAAAA
17996188 AATTAAAAAAATT
1 AATTAAAAAAATT
17996201 AATTAAAAAAAT
1 AATTAAAAAAAT
17996213 AAAAAATGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAAAAAATT
Found at i:17997607 original size:18 final size:17
Alignment explanation
Indices: 17997584--17997629 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
17997574 CTTTGTTCTC
*
17997584 AAAAAACAAAAAGATATA
1 AAAAAACAAAAAAAT-TA
* *
17997602 AAAAAAGAAAAAAATTG
1 AAAAAACAAAAAAATTA
17997619 AAAAAACAAAA
1 AAAAAACAAAA
17997630 TGAAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (17 bp):
AAAAAACAAAAAAATTA
Found at i:18000460 original size:32 final size:32
Alignment explanation
Indices: 18000424--18000497 Score: 139
Period size: 32 Copynumber: 2.3 Consensus size: 32
18000414 AAAATTTCAT
*
18000424 CATATCTTATAATAAAGACAAATATTCAGATC
1 CATATCTTACAATAAAGACAAATATTCAGATC
18000456 CATATCTTACAATAAAGACAAATATTCAGATC
1 CATATCTTACAATAAAGACAAATATTCAGATC
18000488 CATATCTTAC
1 CATATCTTAC
18000498 CAGACATTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (32 bp):
CATATCTTACAATAAAGACAAATATTCAGATC
Found at i:18000610 original size:27 final size:27
Alignment explanation
Indices: 18000580--18000657 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
18000570 CACCAAAACG
18000580 ATCCTATCAGAGTATGCCACAAAGACA
1 ATCCTATCAGAGTATGCCACAAAGACA
* * * * *
18000607 ATCCAATCAGAAT-TCACCACAAAGGCT
1 ATCCTATCAGAGTAT-GCCACAAAGACA
18000634 AT-CTATACAGAGTATGCCACAAAG
1 ATCCTAT-CAGAGTATGCCACAAAG
18000658 GATGGCAGGA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 4 0.10
27 35 0.88
28 1 0.03
ACGTcount: A:0.41, C:0.26, G:0.14, T:0.19
Consensus pattern (27 bp):
ATCCTATCAGAGTATGCCACAAAGACA
Found at i:18009793 original size:51 final size:51
Alignment explanation
Indices: 18009669--18009798 Score: 145
Period size: 51 Copynumber: 2.5 Consensus size: 51
18009659 TATTGATGAA
* * *
18009669 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACAACGTGAACCGAGAAATGATGGT
* *** * * * *
18009720 CACATGTGTAGTACTAAATGAAGGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACAACGTGAACCGAGAA-ATGATGGT
18009771 CACGTGTGTAGTACTGTGTGAAGGCTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTAC
18009799 TANNNNNNNN
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
51 62 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (51 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACAACGTGAACCGAGAAATGATGGT
Found at i:18010195 original size:37 final size:38
Alignment explanation
Indices: 18010126--18010206 Score: 110
Period size: 37 Copynumber: 2.1 Consensus size: 38
18010116 ATGTGTGGAA
* **
18010126 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAAAT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAAAT
*
18010164 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAAAT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAAAT
18010201 TATGAA
1 T-TGAA
18010207 AAAGTAGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 19 0.50
38 19 0.50
ACGTcount: A:0.44, C:0.02, G:0.22, T:0.31
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAAAT
Found at i:18014006 original size:6 final size:6
Alignment explanation
Indices: 18013946--18014004 Score: 73
Period size: 6 Copynumber: 9.8 Consensus size: 6
18013936 AGAACGACAT
* * * *
18013946 AGAAGA AGAAGA AAAAGG AGAATG AGAAGG AGAAGG AGAAGG AGAAGG
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG
*
18013994 AGAAGA AGAAG
1 AGAAGG AGAAG
18014005 AAATAGACAC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.58, C:0.00, G:0.41, T:0.02
Consensus pattern (6 bp):
AGAAGG
Found at i:18027930 original size:19 final size:20
Alignment explanation
Indices: 18027906--18027952 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
18027896 GTTGAGAGAG
**
18027906 GAGAGAATGA-TGAATGAGT
1 GAGAGAATGATTGAAAAAGT
18027925 GAGAG-ATGATTGAAAAAGT
1 GAGAGAATGATTGAAAAAGT
18027944 GAGA-AATGA
1 GAGAGAATGA
18027953 GCTCTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.47, C:0.00, G:0.34, T:0.19
Consensus pattern (20 bp):
GAGAGAATGATTGAAAAAGT
Found at i:18029881 original size:36 final size:36
Alignment explanation
Indices: 18029840--18029912 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
18029830 AGTAACTATT
18029840 ACTTGAACAATACAAAGTTTTGTGTTTTACAAACTA
1 ACTTGAACAATACAAAGTTTTGTGTTTTACAAACTA
18029876 ACTTGAACAATACAAAGTTTTGTGTTTTACAAACTA
1 ACTTGAACAATACAAAGTTTTGTGTTTTACAAACTA
18029912 A
1 A
18029913 GTCACGTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.36
Consensus pattern (36 bp):
ACTTGAACAATACAAAGTTTTGTGTTTTACAAACTA
Found at i:18037431 original size:11 final size:11
Alignment explanation
Indices: 18037411--18037441 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
18037401 TTTAGAAATT
*
18037411 TTTGAAAAACC
1 TTTGATAAACC
18037422 TTTGATAAACC
1 TTTGATAAACC
18037433 TTTGATAAA
1 TTTGATAAA
18037442 TCTATCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (11 bp):
TTTGATAAACC
Found at i:18051537 original size:35 final size:35
Alignment explanation
Indices: 18051498--18051600 Score: 95
Period size: 35 Copynumber: 3.0 Consensus size: 35
18051488 GGAGCAGCAT
* *
18051498 CGTGTAAA-AGATATATAGGTCCTACAGGGCGACAA
1 CGTGTAAATAG-TATACAAGTCCTACAGGGCGACAA
*
18051533 CGTGTAAATAGTATACAAGTCCTACAGGGTGAC-A
1 CGTGTAAATAGTATACAAGTCCTACAGGGCGACAA
* * * * *
18051567 CTTTGTAAA-GGTATACAATTCCTTCGGGGCGACA
1 C-GTGTAAATAGTATACAAGTCCTACAGGGCGACA
18051601 CCTCAAAAGG
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
34 21 0.38
35 33 0.59
36 2 0.04
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (35 bp):
CGTGTAAATAGTATACAAGTCCTACAGGGCGACAA
Found at i:18064119 original size:14 final size:14
Alignment explanation
Indices: 18064100--18064188 Score: 78
Period size: 14 Copynumber: 6.4 Consensus size: 14
18064090 TAAATTACTC
18064100 CAACAATAGTTATA
1 CAACAATAGTTATA
*
18064114 CAACAAGAAGTTATA
1 CAACAA-TAGTTATA
* *
18064129 -AACAGTA-ATATTA
1 CAACAATAGTTA-TA
18064142 -AACAATAGTTATA
1 CAACAATAGTTATA
* *
18064155 CAACAAGAAGTCATA
1 CAACAA-TAGTTATA
18064170 -AACAATAGTTATA
1 CAACAATAGTTATA
18064183 CAACAA
1 CAACAA
18064189 GAAGTCATAA
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
12 2 0.03
13 17 0.29
14 27 0.46
15 13 0.22
ACGTcount: A:0.54, C:0.13, G:0.09, T:0.24
Consensus pattern (14 bp):
CAACAATAGTTATA
Found at i:18064174 original size:28 final size:28
Alignment explanation
Indices: 18064140--18064198 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
18064130 ACAGTAATAT
18064140 TAAACAATAGTTATACAACAAGAAGTCA
1 TAAACAATAGTTATACAACAAGAAGTCA
18064168 TAAACAATAGTTATACAACAAGAAGTCA
1 TAAACAATAGTTATACAACAAGAAGTCA
18064196 TAA
1 TAA
18064199 CCTTGTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.54, C:0.14, G:0.10, T:0.22
Consensus pattern (28 bp):
TAAACAATAGTTATACAACAAGAAGTCA
Found at i:18065796 original size:17 final size:17
Alignment explanation
Indices: 18065774--18065807 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18065764 AGGTTTCAAG
*
18065774 TTTAAGGTAGTAAACAA
1 TTTAAGATAGTAAACAA
*
18065791 TTTAAGATAGTTAACAA
1 TTTAAGATAGTAAACAA
18065808 AAGGCCACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (17 bp):
TTTAAGATAGTAAACAA
Found at i:18067495 original size:25 final size:21
Alignment explanation
Indices: 18067447--18067491 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
18067437 ACCGATTTAC
*
18067447 AACAATCCTCTAATAGAGTCT
1 AACAATACTCTAATAGAGTCT
*
18067468 AACAATACTCTAATAGAGCCT
1 AACAATACTCTAATAGAGTCT
18067489 AAC
1 AAC
18067492 TAACATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (21 bp):
AACAATACTCTAATAGAGTCT
Found at i:18069741 original size:14 final size:14
Alignment explanation
Indices: 18069722--18069749 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18069712 GGCAAGGAAT
18069722 TCTGAGCTAACAAC
1 TCTGAGCTAACAAC
18069736 TCTGAGCTAACAAC
1 TCTGAGCTAACAAC
18069750 ACCAGCCCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (14 bp):
TCTGAGCTAACAAC
Found at i:18071038 original size:36 final size:36
Alignment explanation
Indices: 18070986--18071055 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
18070976 GAGACTGTGG
18070986 CCCAAACCAATTCGATCCACCAT-TCGTATAACACGA
1 CCCAAACCAATTCGATCCACCATCT-GTATAACACGA
* *
18071022 CCCAGACCAATTCGATCCACTATCTGTATAACAC
1 CCCAAACCAATTCGATCCACCATCTGTATAACAC
18071056 ATATATACAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 30 0.97
37 1 0.03
ACGTcount: A:0.34, C:0.36, G:0.09, T:0.21
Consensus pattern (36 bp):
CCCAAACCAATTCGATCCACCATCTGTATAACACGA
Found at i:18073596 original size:25 final size:25
Alignment explanation
Indices: 18073566--18073646 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
18073556 GTTCTAACCC
18073566 ACAGCTTGTGTGAGCATACCGATTT
1 ACAGCTTGTGTGAGCATACCGATTT
* * * * *
18073591 ATAGCTCGTGAGAGCATACTGATCT
1 ACAGCTTGTGTGAGCATACCGATTT
* * *
18073616 ACATCTTGAGTGAGCATACCGATTC
1 ACAGCTTGTGTGAGCATACCGATTT
18073641 ACAGCT
1 ACAGCT
18073647 CATATGAGCA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
ACAGCTTGTGTGAGCATACCGATTT
Found at i:18075431 original size:35 final size:35
Alignment explanation
Indices: 18075361--18075461 Score: 130
Period size: 35 Copynumber: 2.9 Consensus size: 35
18075351 AAATGCGATG
* *
18075361 TTAAAAAGGTTTGGATAGACAAGTTCTAAGGCAACC
1 TTAAAAAGGTTAGGATAGACACG-TCTAAGGCAACC
* *
18075397 TTAAAAAGATTAGGATAGACTCGTCTAAGGCAACC
1 TTAAAAAGGTTAGGATAGACACGTCTAAGGCAACC
** *
18075432 TTCGAAAGGTTGGGATAGACACGTCTAAGG
1 TTAAAAAGGTTAGGATAGACACGTCTAAGG
18075462 GAATTTTTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
35 37 0.66
36 19 0.34
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.24
Consensus pattern (35 bp):
TTAAAAAGGTTAGGATAGACACGTCTAAGGCAACC
Found at i:18083095 original size:176 final size:172
Alignment explanation
Indices: 18082804--18083156 Score: 575
Period size: 176 Copynumber: 2.0 Consensus size: 172
18082794 GTTTTTTTTT
18082804 ATTTCTTAGTGTATTTTTTATTGCTACTACCATTATTATTACTCTCATTTTCATTATTATTATTA
1 ATTTCTTAG-GTATTTTTTATTGCTACTACCATTATTATTACTCTCATTTTCATTATTATTATTA
* * *
18082869 CAATCTTAATTTCATCCTTTTTATCTGTCCTTTTAATATTTTATAAATTATTTTTCTTTTTAAAT
65 CAATCTTAATTTCACCCTTTTTATCTGTCCTTATAATATTTCATAAATTATTTTTCTTTTTAAAT
18082934 ATTTATTTGTATATTTATTTATTAATTCCTTTTGCCCTTTTAA
130 ATTTATTTGTATATTTATTTATTAATTCCTTTTGCCCTTTTAA
*
18082977 ATTTCTTA-GTA-TTTTTATTGTTACTACCATTATTATTACTCTCATTTTCATTATTTTTATTTT
1 ATTTCTTAGGTATTTTTTATTGCTACTACCATTATTATTACTCTCATTTTCATTA---TTA---T
* *
18083040 TATTACAATCTTGATTTCACCCTTTTTATTTGTCCTTATAATATTTCATAAATTATTTTTCTTTT
60 TATTACAATCTTAATTTCACCCTTTTTATCTGTCCTTATAATATTTCATAAATTATTTTTCTTTT
18083105 TAAATATTTATTTGTATATTTATTTATTAATTCCTTTTGCCCTTTTAA
125 TAAATATTTATTTGTATATTTATTTATTAATTCCTTTTGCCCTTTTAA
18083153 ATTT
1 ATTT
18083157 AATATGGCTT
Statistics
Matches: 168, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
170 41 0.24
171 3 0.02
173 11 0.07
176 113 0.67
ACGTcount: A:0.25, C:0.13, G:0.03, T:0.59
Consensus pattern (172 bp):
ATTTCTTAGGTATTTTTTATTGCTACTACCATTATTATTACTCTCATTTTCATTATTATTATTAC
AATCTTAATTTCACCCTTTTTATCTGTCCTTATAATATTTCATAAATTATTTTTCTTTTTAAATA
TTTATTTGTATATTTATTTATTAATTCCTTTTGCCCTTTTAA
Found at i:18083777 original size:18 final size:19
Alignment explanation
Indices: 18083743--18083778 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18083733 AGGATCATAT
18083743 TTTTAAATTTCTTTTCGAA
1 TTTTAAATTTCTTTTCGAA
*
18083762 TTTTCAATTT-TTTTCGA
1 TTTTAAATTTCTTTTCGA
18083779 CATTAAGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.22, C:0.11, G:0.06, T:0.61
Consensus pattern (19 bp):
TTTTAAATTTCTTTTCGAA
Found at i:18087840 original size:212 final size:211
Alignment explanation
Indices: 18087394--18087892 Score: 615
Period size: 211 Copynumber: 2.4 Consensus size: 211
18087384 GTAGCAGATC
* * * * * * *
18087394 AAATATGCAAGTGATGAAGATAATAAAATGTGCACAATAAATTGAAATGTATAAAAAAAATCAAA
1 AAATATACAATTGATGGAGGTAATAAAATGCGTATAATAAATTGAAATGTAT-AAAAAAATCAAA
* * * * *
18087459 ATGAAGCTTTGATGCAATAATAAAGTACTCTTAAACAATATAATTTATTTTAAATACGAAAGGAT
65 ATCAAGCTTTGATACAATAATAAAGTACTCTCAAACAATATAACTTATTTTAAATACGAAAAGAT
** * * *
18087524 ATCAAAGTAATTTTCCTAACCATGTTGGTGCCTGGTTGACTTGTGACACCAACTCAGCCAATGTT
130 ATCAAAGTAATTTTCCTAACCACATTGATGCCTGGTTGAATTGTGACACCAACTCAGCCAAGGTT
*
18087589 TAAATAATAGTAAATAT
195 TAAACAATAGTAAATAT
* * *
18087606 AGATATACAATTGATAGAGGTAATAAAATGCGTATAATAGATTGAAATGTATAAAAAAATCAAAA
1 AAATATACAATTGATGGAGGTAATAAAATGCGTATAATAAATTGAAATGTATAAAAAAATCAAAA
* * *
18087671 TCAGGCTTTGATACAATACTAAAGTACTCTCAAATAATATAACTTATTTTAAATACGAAAAGATA
66 TCAAGCTTTGATACAATAATAAAGTACTCTCAAACAATATAACTTATTTTAAATACGAAAAGATA
* * * ** *
18087736 TCAAAGTAATTTTCTTAACCGCATTGATAGCCT-GTTGAATTGTGACACCAACTTAGTTAGGGGT
131 TCAAAGTAATTTTCCTAACCACATTGAT-GCCTGGTTGAATTGTGACACCAACTCAGCCA-AGGT
*
18087800 TTAAACAATAGTAAGTAT
194 TTAAACAATAGTAAATAT
* * *
18087818 AAATATACAATTGATGGAGGTAATAAATTGTGCATATAATAAATTAAAATGT-TAAAAAAATCAA
1 AAATATACAATTGATGGAGGTAATAAA--ATGCGTATAATAAATTGAAATGTATAAAAAAATCAA
* *
18087882 AGTGAAGCTTT
64 AATCAAGCTTT
18087893 AATTGAGTGG
Statistics
Matches: 243, Mismatches: 40, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
211 115 0.47
212 89 0.37
213 20 0.08
214 19 0.08
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (211 bp):
AAATATACAATTGATGGAGGTAATAAAATGCGTATAATAAATTGAAATGTATAAAAAAATCAAAA
TCAAGCTTTGATACAATAATAAAGTACTCTCAAACAATATAACTTATTTTAAATACGAAAAGATA
TCAAAGTAATTTTCCTAACCACATTGATGCCTGGTTGAATTGTGACACCAACTCAGCCAAGGTTT
AAACAATAGTAAATAT
Found at i:18090256 original size:44 final size:46
Alignment explanation
Indices: 18090166--18090257 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
18090156 TTTGGTTCGC
*
18090166 TGTAACGGAATAGAGGCGTAATGGGTAATTCTTTTGTTTGGTTGAA
1 TGTAACGGAATAGAGGCGTAATGGGTAATTCTTGTGTTTGGTTGAA
*
18090212 TGTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAA
1 TGTAACGGAATAGAGGCGTAATGGGTAATTCTTGTGTTTGGTTGAA
18090256 TG
1 TG
18090258 GAATACAGGT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.25, C:0.05, G:0.32, T:0.38
Consensus pattern (46 bp):
TGTAACGGAATAGAGGCGTAATGGGTAATTCTTGTGTTTGGTTGAA
Found at i:18090258 original size:39 final size:44
Alignment explanation
Indices: 18090166--18090272 Score: 125
Period size: 46 Copynumber: 2.5 Consensus size: 44
18090156 TTTGGTTCGC
* *
18090166 TGTAACGGAATAGAGGCGTAATGGGTAATTCTTTTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATGGGTAATTCTTGTGTTTGGTT--A
18090212 TGTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGCGTAATGGGTAATTCTTGTGTTTGGTTA
* *
18090252 TG-AATGGAATACAGGTGTAAT
1 TGTAATGGAATAGAGGCGTAAT
18090273 AGCATAAGGA
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
39 17 0.30
40 2 0.04
43 1 0.02
44 13 0.23
45 3 0.05
46 21 0.37
ACGTcount: A:0.27, C:0.06, G:0.31, T:0.36
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATGGGTAATTCTTGTGTTTGGTTA
Found at i:18091437 original size:12 final size:12
Alignment explanation
Indices: 18091420--18091453 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
18091410 CCGCATTTTA
18091420 AGCAAAAGAACG
1 AGCAAAAGAACG
18091432 AGCAAAAGAACG
1 AGCAAAAGAACG
18091444 AGCAAAAGAA
1 AGCAAAAGAA
18091454 AAGAAAGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.62, C:0.15, G:0.24, T:0.00
Consensus pattern (12 bp):
AGCAAAAGAACG
Found at i:18093526 original size:17 final size:17
Alignment explanation
Indices: 18093504--18093539 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
18093494 AAGTAATAAA
18093504 GAAAAAGGGAGGAAAAG
1 GAAAAAGGGAGGAAAAG
18093521 GAAAAAGGGAGGAAAAG
1 GAAAAAGGGAGGAAAAG
18093538 GA
1 GA
18093540 CTCACTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (17 bp):
GAAAAAGGGAGGAAAAG
Found at i:18094326 original size:3 final size:3
Alignment explanation
Indices: 18094320--18094371 Score: 81
Period size: 3 Copynumber: 17.7 Consensus size: 3
18094310 TGTTACATCA
18094320 TAT TAT TAT T-T T-T GTAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18094364 TAT TAT TA
1 TAT TAT TA
18094372 CGCATATGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 3 0.06
3 43 0.91
4 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18096988 original size:67 final size:67
Alignment explanation
Indices: 18096880--18097007 Score: 229
Period size: 67 Copynumber: 1.9 Consensus size: 67
18096870 CCAATTCAGT
* *
18096880 GAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAAGCTAAATCCCCTACAA
1 GAGCACACTCCCGCGAACATCATTTCTTACAGCGGGATTACCAATCCAAGCTAAATCCCCTACAA
18096945 GA
66 GA
*
18096947 GAGCACACTCCCGCGAACATCATTTCTTACAGCGGGATTACCAATCCAGGCTAAATCCCCT
1 GAGCACACTCCCGCGAACATCATTTCTTACAGCGGGATTACCAATCCAAGCTAAATCCCCT
18097008 GTAATATAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.29, C:0.34, G:0.16, T:0.20
Consensus pattern (67 bp):
GAGCACACTCCCGCGAACATCATTTCTTACAGCGGGATTACCAATCCAAGCTAAATCCCCTACAA
GA
Found at i:18101273 original size:32 final size:33
Alignment explanation
Indices: 18101223--18101289 Score: 109
Period size: 32 Copynumber: 2.0 Consensus size: 33
18101213 AACCCATGTT
18101223 ATTCGAGTTTTTTTTTTAATGATCATATTTTTAA
1 ATTCGAG-TTTTTTTTTAATGATCATATTTTTAA
*
18101257 ATTCGAG-TTTTTTTTAATGATCGTATTTTTAA
1 ATTCGAGTTTTTTTTTAATGATCATATTTTTAA
18101289 A
1 A
18101290 AAACGCTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 25 0.78
34 7 0.22
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (33 bp):
ATTCGAGTTTTTTTTTAATGATCATATTTTTAA
Found at i:18107231 original size:97 final size:97
Alignment explanation
Indices: 18107055--18107248 Score: 280
Period size: 97 Copynumber: 2.0 Consensus size: 97
18107045 ATATTGTAAC
* * * * *
18107055 CTAAGTTTAATCGAGTTAGCTTATTTAAGATAACAACTCTTACACAACTCGTTGACCTATGTTCA
1 CTAAATTTAATCGAGTTAACTAATTTAAGATAACAACTCCTACACAACTCGCTGACCTATGTTCA
*
18107120 CAGGTGATTTTATTAAGGTTAACTGATTTAAG
66 CAAGTGATTTTATTAAGGTTAACTGATTTAAG
* * * *
18107152 CTAAATTTATTCGAGTTAACTAATTTAATATTACAACTCCTACACAGCTCGCTGACCTATGTTCA
1 CTAAATTTAATCGAGTTAACTAATTTAAGATAACAACTCCTACACAACTCGCTGACCTATGTTCA
**
18107217 CAAGTGATTTTATTAAGGTTAGTTGATTTAAG
66 CAAGTGATTTTATTAAGGTTAACTGATTTAAG
18107249 ATCGCATGTA
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
97 85 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (97 bp):
CTAAATTTAATCGAGTTAACTAATTTAAGATAACAACTCCTACACAACTCGCTGACCTATGTTCA
CAAGTGATTTTATTAAGGTTAACTGATTTAAG
Found at i:18108554 original size:50 final size:50
Alignment explanation
Indices: 18108445--18108691 Score: 223
Period size: 50 Copynumber: 4.8 Consensus size: 50
18108435 ATTTGGGTAA
*
18108445 AGAGATCCCATTGTAAGACCA-GTCGGGGACATGGCATTGGCACCCTTGAGGTCATG
1 AGAGATCCCA-TGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GA-G--ATG
* *
18108501 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * * *
18108551 AGAGCTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
18108601 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATT-G-ACAGTACATG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * * * *
18108650 AAACATCTCATGTAAGACCATGTCTGAGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
18108692 TGTTATTATC
Statistics
Matches: 160, Mismatches: 25, Indels: 17
0.79 0.12 0.08
Matches are distributed among these distances:
48 2 0.01
49 35 0.22
50 78 0.49
51 1 0.01
52 1 0.01
53 2 0.01
55 12 0.08
56 29 0.18
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.21
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:18110263 original size:105 final size:105
Alignment explanation
Indices: 18110077--18110837 Score: 575
Period size: 105 Copynumber: 7.1 Consensus size: 105
18110067 CGTTCACCGC
* *
18110077 TGATTTAAGATCGCAACCTAAATTTATTCAAGTTAG-TTGATTTAAGATTGCAACTCCTACATAG
1 TGATTTAAGATCGCAACCTAAATTTATTCGAGTTAGCTT-ATTTAAGATTGCAACTCCTACACAG
* * *
18110141 CTCACTGACCTAAGTTCACAGTTAATTTTATTAAGATTTGT
65 CTCACTGACCTAAGTTCACAGTTGATTTTATTAAGGTTAGT
18110182 TGATTTAAGATCGCAACCTAAATTTATTCGAGTTAGCTTATTTAAGATTGCAACTCCTACACAGC
1 TGATTTAAGATCGCAACCTAAATTTATTCGAGTTAGCTTATTTAAGATTGCAACTCCTACACAGC
* * * * * *
18110247 TCACTGACCTACGTTCAAAGCTAACTTTATTAAGGTTATT
66 TCACTGACCTAAGTTCACAGTTGATTTTATTAAGGTTAGT
* * * * *
18110287 TGATTTAAGATCACAATCTAAGTTTATTTGAGTTCA-CTTATTTAAGATCGCAACTCCTA-ACAG
1 TGATTTAAGATCGCAACCTAAATTTATTCGAGTT-AGCTTATTTAAGATTGCAACTCCTACACAG
** ** * * * * * *
18110350 CGT-GTTGATTTAAGATCGCAATTGATATTATTAAGGCTAGG
65 C-TCACTGACCTAAGTTCACAGTTGATTTTATTAAGGTTAGT
* * * * *
18110391 TGATTTACGATCGCAACTTAAGTTAATTTGAGTTTGTTGATTTAAGATCACTGATTTAAGATTGC
1 TGATTTAAGATCGCAACCT-A---AATTT-A---T-TCGAGTT-AG----CTTATTTAAGATTGC
* ** ** * * *
18110456 AACTCCTA-ACAACTCGTTGATTTAAGATCGCA-TCTAATTTTATTAAGGTTAGT
52 AACTCCTACACAGCTCACTGACCTAAGTTCACAGT-TGATTTTATTAAGGTTAGT
* * * * * * * * *
18110509 TGATTTACGATTGTAACCTAAATTTATTTGAGATAGCTTATTTAATATCGTAACTCCTCCACAGC
1 TGATTTAAGATCGCAACCTAAATTTATTCGAGTTAGCTTATTTAAGATTGCAACTCCTACACAGC
* *
18110574 TTACTGACCTACA-TTCACAGTTGATTTTATTAAAGGTTAAT
66 TCACTGACCTA-AGTTCACAGTTGATTTTATT-AAGGTTAGT
* * * *
18110615 TGATTTAAGATCGCAACCTAAATCTATTCAAGTTAGCTAATTTAAGATTGCAACTTCTACACCA-
1 TGATTTAAGATCGCAACCTAAATTTATTCGAGTTAGCTTATTTAAGATTGCAACTCCTACA-CAG
* * * * * *
18110679 CTCACTAACTTATGTTCATAGTTGATTTTATTAAGGGTAGC
65 CTCACTGACCTAAGTTCACAGTTGATTTTATTAAGGTTAGT
* * * * * * * * *
18110720 TAATTTAAGATCGCAACCTAAATTTTTTCAAGTTAGCTGATTTAATATTACAATTGCTACATAGC
1 TGATTTAAGATCGCAACCTAAATTTATTCGAGTTAGCTTATTTAAGATTGCAACTCCTACACAGC
** * * * * ** *
18110785 TCGTTGGCCTACGTTCATAGCTGATAATACTAAGGTTAGT
66 TCACTGACCTAAGTTCACAGTTGATTTTATTAAGGTTAGT
18110825 TGATTTAAGATCG
1 TGATTTAAGATCG
18110838 TAGCCCCCGA
Statistics
Matches: 523, Mismatches: 107, Indels: 52
0.77 0.16 0.08
Matches are distributed among these distances:
104 61 0.12
105 270 0.52
106 87 0.17
107 2 0.00
108 6 0.01
109 6 0.01
110 1 0.00
112 1 0.00
113 8 0.02
114 5 0.01
117 3 0.01
118 73 0.14
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (105 bp):
TGATTTAAGATCGCAACCTAAATTTATTCGAGTTAGCTTATTTAAGATTGCAACTCCTACACAGC
TCACTGACCTAAGTTCACAGTTGATTTTATTAAGGTTAGT
Found at i:18110538 original size:118 final size:118
Alignment explanation
Indices: 18110320--18110540 Score: 302
Period size: 118 Copynumber: 1.9 Consensus size: 118
18110310 TTATTTGAGT
* * *
18110320 TCACTTATTTAAGATCGCAACTCCTAACAGCGTGTTGATTTAAGATCGCAATTGATATTATTAAG
1 TCACTGATTTAAGATCGCAACTCCTAACAACGTGTTGATTTAAGATCGCAATTAATATTATTAAG
* *
18110385 GCTAGGTGATTTACGATCGCAACTTAAGTTAATTTGAGTTTGTTGATTTAAGA
66 GCTAGGTGATTTACGATCGCAACCTAAATTAATTTGAGTTTGTTGATTTAAGA
* *
18110438 TCACTGATTTAAGATTGCAACTCCTAACAAC-TCGTTGATTTAAGATCGC-ATCTAATTTTATTA
1 TCACTGATTTAAGATCGCAACTCCTAACAACGT-GTTGATTTAAGATCGCAAT-TAATATTATTA
* * * * *
18110501 AGGTTAGTTGATTTACGATTGTAACCTAAATTTATTTGAG
64 AGGCTAGGTGATTTACGATCGCAACCTAAATTAATTTGAG
18110541 ATAGCTTATT
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
117 3 0.03
118 86 0.97
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (118 bp):
TCACTGATTTAAGATCGCAACTCCTAACAACGTGTTGATTTAAGATCGCAATTAATATTATTAAG
GCTAGGTGATTTACGATCGCAACCTAAATTAATTTGAGTTTGTTGATTTAAGA
Found at i:18110652 original size:106 final size:105
Alignment explanation
Indices: 18110492--18110767 Score: 302
Period size: 106 Copynumber: 2.6 Consensus size: 105
18110482 ATCGCATCTA
* * * ** * *
18110492 ATTTTATTAAGGTTAGTTGATTTACGATTGTAACCTAAATTTATTTGAGATAGCTTATTTAATAT
1 ATTTTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAATTTATTCAAGTTAGCTAATTTAATAT
* * * *
18110557 CGTAACTCCTCCA-CAGCTTACTGACCTACATTCACAGTTG
66 CGCAACTCCTACACCA-CTCACTAACCTACATTCACAGTTG
* * *
18110597 ATTTTATTAAAGGTTAATTGATTTAAGATCGCAACCTAAATCTATTCAAGTTAGCTAATTTAAGA
1 ATTTTATT-AAGGTTAGTTGATTTAAGATCGCAACCTAAATTTATTCAAGTTAGCTAATTTAATA
* * * ** *
18110662 TTGCAACTTCTACACCACTCACTAACTTATGTTCATAGTTG
65 TCGCAACTCCTACACCACTCACTAACCTACATTCACAGTTG
* * * * *
18110703 ATTTTATTAAGGGTAGCTAATTTAAGATCGCAACCTAAATTTTTTCAAGTTAGCTGATTTAATAT
1 ATTTTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAATTTATTCAAGTTAGCTAATTTAATAT
18110768 TACAATTGCT
Statistics
Matches: 141, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
105 57 0.40
106 82 0.58
107 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (105 bp):
ATTTTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAATTTATTCAAGTTAGCTAATTTAATAT
CGCAACTCCTACACCACTCACTAACCTACATTCACAGTTG
Found at i:18112395 original size:30 final size:30
Alignment explanation
Indices: 18112329--18112405 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 30
18112319 TTACACCACA
**
18112329 GGTCACCCAACTATGGGTTTGTTTCTTTTTT
1 GGTCA-CCAACTATGGAATTGTTTCTTTTTT
18112360 GGTCACTCAACTATGGAATTGTTTCTTTTTT
1 GGTCAC-CAACTATGGAATTGTTTCTTTTTT
18112391 -GTCACCAAACTATGG
1 GGTCACC-AACTATGG
18112406 TTGTTTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
29 1 0.02
30 14 0.33
31 27 0.64
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.43
Consensus pattern (30 bp):
GGTCACCAACTATGGAATTGTTTCTTTTTT
Found at i:18112726 original size:53 final size:49
Alignment explanation
Indices: 18112634--18112732 Score: 137
Period size: 53 Copynumber: 1.9 Consensus size: 49
18112624 AAATATACAT
*
18112634 AAATTTTGTCAAAAATATAATAATAAATTTAAAATTATATAAAAATAAA
1 AAATTTTGACAAAAATATAATAATAAATTTAAAATTATATAAAAATAAA
18112683 AAATTTTGACAAGAAATAATAATATATAAAATTTAAACA-TATATAAAAAT
1 AAATTTTGACAA-AAAT-ATAATA-AT-AAATTTAAA-ATTATATAAAAAT
18112733 GTATAAAAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
49 11 0.25
50 4 0.09
51 6 0.14
52 2 0.05
53 20 0.45
54 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (49 bp):
AAATTTTGACAAAAATATAATAATAAATTTAAAATTATATAAAAATAAA
Found at i:18113436 original size:50 final size:49
Alignment explanation
Indices: 18113368--18113464 Score: 176
Period size: 50 Copynumber: 2.0 Consensus size: 49
18113358 ATTAGACTTC
18113368 AATTTCCTCTTTCATAAATCTTTGGGTTTTCATGGAGGAAATCAATTTT
1 AATTTCCTCTTTCATAAATCTTTGGGTTTTCATGGAGGAAATCAATTTT
*
18113417 AATTTCCCTTTTTCATAAATCTTTGGGTTTTCATGGAGGAAATCAATT
1 AATTT-CCTCTTTCATAAATCTTTGGGTTTTCATGGAGGAAATCAATT
18113465 GGGATACCCT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 5 0.11
50 41 0.89
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.44
Consensus pattern (49 bp):
AATTTCCTCTTTCATAAATCTTTGGGTTTTCATGGAGGAAATCAATTTT
Found at i:18114497 original size:30 final size:31
Alignment explanation
Indices: 18114443--18114512 Score: 99
Period size: 32 Copynumber: 2.3 Consensus size: 31
18114433 ACTGTTAATC
*
18114443 AGTGACTGTTTTGTCACTTTTTTTATAACGTT-
1 AGTGACTGTTTTGTCAC-TTTTTTA-AAAGTTG
18114475 AGTGACTGTTTTGTCA-TTTTTTAAAAGTTG
1 AGTGACTGTTTTGTCACTTTTTTAAAAGTTG
18114505 AGTGACTG
1 AGTGACTG
18114513 AAATGAAACC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 5 0.14
30 15 0.42
32 16 0.44
ACGTcount: A:0.21, C:0.10, G:0.20, T:0.49
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTTAAAAGTTG
Found at i:18115035 original size:10 final size:10
Alignment explanation
Indices: 18115022--18115062 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
18115012 TTTTATTTTA
18115022 TTTTATATAT
1 TTTTATATAT
18115032 TTTTA-AT-T
1 TTTTATATAT
*
18115040 TGATTATATAT
1 T-TTTATATAT
18115051 TTTTATATAT
1 TTTTATATAT
18115061 TT
1 TT
18115063 CTTTGATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
8 2 0.08
9 5 0.19
10 17 0.65
11 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTTATATAT
Found at i:18117864 original size:23 final size:23
Alignment explanation
Indices: 18117832--18117875 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
18117822 ACTACCATTT
18117832 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
18117855 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
18117876 ATAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:18117868 original size:13 final size:11
Alignment explanation
Indices: 18117836--18117878 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
18117826 CCATTTTCTA
*
18117836 AATAAAATAAT
1 AATAAAATATT
18117847 AAT-AAATATCT
1 AATAAAATAT-T
18117858 AAGTAAAATATT
1 AA-TAAAATATT
18117870 AATAAAATA
1 AATAAAATA
18117879 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:18119639 original size:27 final size:27
Alignment explanation
Indices: 18119575--18119639 Score: 62
Period size: 27 Copynumber: 2.4 Consensus size: 27
18119565 GGTGGTAAAA
* *
18119575 ACCACATA-TATCTATTTTGGTGGCTT
1 ACCACATATTATCTATTCTGGTAGCTT
* * *
18119601 AGCCACGT-TTATCTGTTCTGGTAGTTT
1 A-CCACATATTATCTATTCTGGTAGCTT
18119628 ACCACATATTAT
1 ACCACATATTAT
18119640 ATATGGCAGC
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (27 bp):
ACCACATATTATCTATTCTGGTAGCTT
Found at i:18120394 original size:13 final size:13
Alignment explanation
Indices: 18120376--18120400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18120366 TCAAACGATG
18120376 TTTTTCCACATTC
1 TTTTTCCACATTC
18120389 TTTTTCCACATT
1 TTTTTCCACATT
18120401 TTGCACGTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTCCACATTC
Found at i:18121581 original size:27 final size:27
Alignment explanation
Indices: 18121517--18121581 Score: 62
Period size: 27 Copynumber: 2.4 Consensus size: 27
18121507 GGTGGTAAAA
* *
18121517 ACCACATA-TATCTATTTTGGTGGCTT
1 ACCACATATTATCTATTCTGGTAGCTT
* * *
18121543 AGCCACGT-TTATCTGTTCTGGTAGTTT
1 A-CCACATATTATCTATTCTGGTAGCTT
18121570 ACCACATATTAT
1 ACCACATATTAT
18121582 ATATGGCAGC
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (27 bp):
ACCACATATTATCTATTCTGGTAGCTT
Found at i:18122493 original size:13 final size:13
Alignment explanation
Indices: 18122475--18122499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18122465 TCAAACGATG
18122475 TTTTTCCACATTC
1 TTTTTCCACATTC
18122488 TTTTTCCACATT
1 TTTTTCCACATT
18122500 TTGCACGTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTCCACATTC
Found at i:18123680 original size:27 final size:27
Alignment explanation
Indices: 18123616--18123680 Score: 62
Period size: 27 Copynumber: 2.4 Consensus size: 27
18123606 GGTGGTAAAA
* *
18123616 ACCACATA-TATCTATTTTGGTGGCTT
1 ACCACATATTATCTATTCTGGTAGCTT
* * *
18123642 AGCCACGT-TTATCTGTTCTGGTAGTTT
1 A-CCACATATTATCTATTCTGGTAGCTT
18123669 ACCACATATTAT
1 ACCACATATTAT
18123681 ATATGGCAGC
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (27 bp):
ACCACATATTATCTATTCTGGTAGCTT
Found at i:18124592 original size:13 final size:13
Alignment explanation
Indices: 18124574--18124598 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18124564 TCAAACGATG
18124574 TTTTTCCACATTC
1 TTTTTCCACATTC
18124587 TTTTTCCACATT
1 TTTTTCCACATT
18124599 TTGCACGTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTCCACATTC
Found at i:18125779 original size:27 final size:27
Alignment explanation
Indices: 18125715--18125779 Score: 62
Period size: 27 Copynumber: 2.4 Consensus size: 27
18125705 GGTGGTAAAA
* *
18125715 ACCACATA-TATCTATTTTGGTGGCTT
1 ACCACATATTATCTATTCTGGTAGCTT
* * *
18125741 AGCCACGT-TTATCTGTTCTGGTAGTTT
1 A-CCACATATTATCTATTCTGGTAGCTT
18125768 ACCACATATTAT
1 ACCACATATTAT
18125780 ATATGGCAGC
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (27 bp):
ACCACATATTATCTATTCTGGTAGCTT
Found at i:18126691 original size:13 final size:13
Alignment explanation
Indices: 18126673--18126697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18126663 TCAAACGATG
18126673 TTTTTCCACATTC
1 TTTTTCCACATTC
18126686 TTTTTCCACATT
1 TTTTTCCACATT
18126698 TTGCACGTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTCCACATTC
Found at i:18129195 original size:12 final size:13
Alignment explanation
Indices: 18129157--18129203 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
18129147 TTAATATAAA
18129157 ATTATTTTTATAT
1 ATTATTTTTATAT
* *
18129170 ATT-TTTTAAAAT
1 ATTATTTTTATAT
18129182 ATTTATTTTTATAT
1 A-TTATTTTTATAT
18129196 ATTTATTT
1 A-TTATTT
18129204 GTATTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
12 8 0.29
13 5 0.18
14 15 0.54
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTATTTTTATAT
Found at i:18131633 original size:21 final size:21
Alignment explanation
Indices: 18131609--18131651 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
18131599 TTTTGGTTGT
18131609 TATTTGAATCTTCAAATGATA
1 TATTTGAATCTTCAAATGATA
18131630 TATTTGAATCTTCAAATGATA
1 TATTTGAATCTTCAAATGATA
18131651 T
1 T
18131652 TCATAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (21 bp):
TATTTGAATCTTCAAATGATA
Found at i:18138311 original size:21 final size:20
Alignment explanation
Indices: 18138287--18138329 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
18138277 TTTAATTAAT
18138287 TTTTTAAAATTAAAAAGAATA
1 TTTTTAAAATTAAAAA-AATA
*
18138308 TTTTTAAAATTTAAAAAATA
1 TTTTTAAAATTAAAAAAATA
18138328 TT
1 TT
18138330 AAAATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTTTAAAATTAAAAAAATA
Found at i:18138353 original size:20 final size:20
Alignment explanation
Indices: 18138316--18138353 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18138306 TATTTTTAAA
*
18138316 ATTTAAAAAATATTAAAATT
1 ATTTAAAAAATATAAAAATT
18138336 ATTTAAAAAGA-ATAAAAA
1 ATTTAAAAA-ATATAAAAA
18138354 ATATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
ATTTAAAAAATATAAAAATT
Found at i:18141862 original size:17 final size:17
Alignment explanation
Indices: 18141816--18141863 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
18141806 AGATGTTGTA
* *
18141816 AATCGTATCCACCAGGT
1 AATCCTATCCGCCAGGT
18141833 AATCCTA-CTCGCCAGGT
1 AATCCTATC-CGCCAGGT
*
18141850 AATTCTATCCGCCA
1 AATCCTATCCGCCA
18141864 AGCTATACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 24 0.92
18 1 0.04
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (17 bp):
AATCCTATCCGCCAGGT
Found at i:18141873 original size:125 final size:125
Alignment explanation
Indices: 18141651--18141907 Score: 453
Period size: 125 Copynumber: 2.1 Consensus size: 125
18141641 CTTTCCAAAA
*
18141651 GAATATTAACTTCTATAATTATCAACTTAAAGATGTTGTAAATCGTATCCACCAGGTAATCCTAC
1 GAATACTAACTTCTATAATTATCAACTTAAAGATGTTGTAAATCGTATCCACCAGGTAATCCTAC
* *
18141716 TCGCCAGGTCATTCTATCCGCTAAGCTATACTATTCGCCAGGCAATACTGTCCGCTAGGC
66 TCGCCAGGTAATTCTATCCGCCAAGCTATACTATTCGCCAGGCAATACTGTCCGCTAGGC
* *
18141776 GAATACTAACTTTTATAATTATTAACTTAAAGATGTTGTAAATCGTATCCACCAGGTAATCCTAC
1 GAATACTAACTTCTATAATTATCAACTTAAAGATGTTGTAAATCGTATCCACCAGGTAATCCTAC
*
18141841 TCGCCAGGTAATTCTATCCGCCAAGCTATACTATTTGCCAGGCAATACTGTCCGCTAGGC
66 TCGCCAGGTAATTCTATCCGCCAAGCTATACTATTCGCCAGGCAATACTGTCCGCTAGGC
18141901 G-ATACTA
1 GAATACTA
18141908 TCCACTAGAC
Statistics
Matches: 126, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
124 6 0.05
125 120 0.95
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (125 bp):
GAATACTAACTTCTATAATTATCAACTTAAAGATGTTGTAAATCGTATCCACCAGGTAATCCTAC
TCGCCAGGTAATTCTATCCGCCAAGCTATACTATTCGCCAGGCAATACTGTCCGCTAGGC
Found at i:18141966 original size:18 final size:17
Alignment explanation
Indices: 18141854--18141966 Score: 64
Period size: 17 Copynumber: 6.6 Consensus size: 17
18141844 CCAGGTAATT
* *
18141854 CTATCCGCCAAGCTATA
1 CTATCCGCCAGGCGATA
** *
18141871 CTATTTGCCAGGCAATA
1 CTATCCGCCAGGCGATA
* *
18141888 CTGTCCGCTAGGCGATA
1 CTATCCGCCAGGCGATA
* * * *
18141905 CTATCCACTAGACGGTA
1 CTATCCGCCAGGCGATA
* * * *
18141922 TTGTTCGTCAGGCGATA
1 CTATCCGCCAGGCGATA
* *
18141939 CTATCTGCCAGGTGATA
1 CTATCCGCCAGGCGATA
18141956 CTTATCCGCCA
1 C-TATCCGCCA
18141967 ATGATAAGAA
Statistics
Matches: 67, Mismatches: 28, Indels: 1
0.70 0.29 0.01
Matches are distributed among these distances:
17 59 0.88
18 8 0.12
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (17 bp):
CTATCCGCCAGGCGATA
Found at i:18155603 original size:13 final size:13
Alignment explanation
Indices: 18155585--18155642 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 13
18155575 AACCCAAATT
18155585 TTATTTTTATTTA
1 TTATTTTTATTTA
*
18155598 TTATTTTTCTTTA
1 TTATTTTTATTTA
18155611 CTTTATTTATTACTTTA
1 --TTATTT-TTA-TTTA
*
18155628 TT-TTATTATTTA
1 TTATTTTTATTTA
18155640 TTA
1 TTA
18155643 CTTATTTGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
12 6 0.16
13 15 0.41
14 2 0.05
15 8 0.22
16 2 0.05
17 4 0.11
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTTTTATTTA
Found at i:18155615 original size:22 final size:21
Alignment explanation
Indices: 18155590--18155649 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
18155580 AAATTTTATT
*
18155590 TTTATTTATTA-TTTTTCTTTA
1 TTTATTTATTACTTTAT-TTTA
18155611 CTTTATTTATTACTTTATTTTA
1 -TTTATTTATTACTTTATTTTA
18155633 -TTATTTATTAC-TTATTT
1 TTTATTTATTACTTTATTT
18155650 GGATATTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 6 0.17
20 11 0.31
22 15 0.42
23 4 0.11
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTATTTATTACTTTATTTTA
Found at i:18155623 original size:12 final size:11
Alignment explanation
Indices: 18155584--18155641 Score: 59
Period size: 12 Copynumber: 5.2 Consensus size: 11
18155574 CAACCCAAAT
18155584 TTTATT-TTTA
1 TTTATTATTTA
18155594 TTTATTATTT-
1 TTTATTATTTA
18155604 TTCT-TTACTTTA
1 TT-TATTA-TTTA
18155616 TTTATTACTTTA
1 TTTATTA-TTTA
18155628 TTTTATTATTTA
1 -TTTATTATTTA
18155640 TT
1 TT
18155642 ACTTATTTGG
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
10 11 0.26
11 10 0.24
12 14 0.33
13 7 0.17
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:18155629 original size:8 final size:7
Alignment explanation
Indices: 18155585--18155648 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
18155575 AACCCAAATT
18155585 TTATTT-
1 TTATTTA
18155591 TTATTTA
1 TTATTTA
18155598 TTATTT-
1 TTATTTA
*
18155604 TTCTTTA
1 TTATTTA
18155611 CTTTATTTA
1 --TTATTTA
18155620 TTACTTTA
1 TTA-TTTA
18155628 -T-TTTA
1 TTATTTA
18155633 TTATTTA
1 TTATTTA
*
18155640 TTACTTA
1 TTATTTA
18155647 TT
1 TT
18155649 TGGATATTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
5 4 0.08
6 12 0.25
7 22 0.46
8 4 0.08
9 6 0.12
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTTA
Found at i:18159021 original size:85 final size:85
Alignment explanation
Indices: 18158834--18159081 Score: 363
Period size: 85 Copynumber: 2.9 Consensus size: 85
18158824 CAGTTACTAT
* * **
18158834 CACTTGTTGTGGGTGCACAACATATTTGCAGATTAAACAAAATGCCACATGGTTCAT-ATCGAAC
1 CACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAAATGCCACTTACTTCATAATCGAAC
* **
18158898 CACATATTTGCAGTTGTTGC
66 CACACATTTGCAGTTGCCGC
*
18158918 CACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAAATGCCACTTATTTCATAATCGAAC
1 CACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAAATGCCACTTACTTCATAATCGAAC
18158983 CACACATTTGCAGTTGCCGC
66 CACACATTTGCAGTTGCCGC
* * * * *
18159003 CACTTCTTGTGAGTGCACAACATATTTGCAAATTAAACAAACTACCACTTACTTCATAATGGAAC
1 CACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAAATGCCACTTACTTCATAATCGAAC
18159068 CACACCATTTGCAG
66 CACA-CATTTGCAG
18159082 ATTAAACTGC
Statistics
Matches: 149, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
84 53 0.36
85 87 0.58
86 9 0.06
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (85 bp):
CACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAAATGCCACTTACTTCATAATCGAAC
CACACATTTGCAGTTGCCGC
Found at i:18159634 original size:28 final size:27
Alignment explanation
Indices: 18159587--18159779 Score: 147
Period size: 28 Copynumber: 6.8 Consensus size: 27
18159577 ATTTTGGGTC
* * *
18159587 AAACTGTAAAATTTGAAAAATAGGAGACA
1 AAACTATAAAATCTAAAAAATAGG-G-CA
18159616 AAACTATAAAATCTAAAAAATTTAGGGCA
1 AAACTATAAAATCTAAAAAA--TAGGGCA
* * *
18159645 AAATTATAAAATCTAAAAATTATGGGTA
1 AAACTATAAAATCTAAAAAATA-GGGCA
** * * *
18159673 AATTTGTAAAAT-TTAAAAATCAAGGGTA
1 AAACTATAAAATCTAAAAAAT--AGGGCA
18159701 AAACTATAAAAATCTAAAAAATCAGGG-A
1 AAACTAT-AAAATCTAAAAAAT-AGGGCA
* * *
18159729 AAACTTTTAAATTTTAAAAAATAGGGGCA
1 AAAC-TATAAAATCTAAAAAATA-GGGCA
18159758 AAACTATAAAATCTAAAAAATA
1 AAACTATAAAATCTAAAAAATA
18159780 AGAGACACAC
Statistics
Matches: 133, Mismatches: 21, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
27 9 0.07
28 58 0.44
29 54 0.41
30 8 0.06
31 4 0.03
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.26
Consensus pattern (27 bp):
AAACTATAAAATCTAAAAAATAGGGCA
Found at i:18159690 original size:57 final size:55
Alignment explanation
Indices: 18159622--18159776 Score: 163
Period size: 57 Copynumber: 2.7 Consensus size: 55
18159612 GACAAAACTA
* * * *
18159622 TAAAATCTAAAAAATTTAGGGCAAAATTATAAAATCTAAAAATTATGGGTAAA-TTT
1 TAAAATTTAAAAAA-TTAGGGCAAAACTATAAAATCTAAAAATCA-GGGAAAACTTT
* *
18159678 GTAAAATTT-AAAAATCAAGGGTAAAACTATAAAAATCTAAAAAATCAGGGAAAACTTT
1 -TAAAATTTAAAAAAT-TAGGGCAAAACTAT-AAAATCT-AAAAATCAGGGAAAACTTT
*
18159736 TAAATTTTAAAAAA-TAGGGGCAAAACTATAAAATCTAAAAA
1 TAAAATTTAAAAAATTA-GGGCAAAACTATAAAATCTAAAAA
18159777 ATAAGAGACA
Statistics
Matches: 83, Mismatches: 9, Indels: 14
0.78 0.08 0.13
Matches are distributed among these distances:
55 6 0.07
56 24 0.29
57 38 0.46
58 15 0.18
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.27
Consensus pattern (55 bp):
TAAAATTTAAAAAATTAGGGCAAAACTATAAAATCTAAAAATCAGGGAAAACTTT
Found at i:18159777 original size:57 final size:57
Alignment explanation
Indices: 18159639--18159778 Score: 171
Period size: 57 Copynumber: 2.5 Consensus size: 57
18159629 TAAAAAATTT
* * *
18159639 AGGGCAAAATTATAAAATCT-AAAAATTATGGGTAAATTTGTAAAATTTAAAAATCA
1 AGGGCAAAACTATAAAATCTAAAAAATCATGGGAAAATTTGTAAAATTTAAAAATCA
* *
18159695 AGGGTAAAACTATAAAAATCTAAAAAATCA-GGGAAAACTTT-TAAATTTTAAAAAAT-A
1 AGGGCAAAACTAT-AAAATCTAAAAAATCATGGGAAAA-TTTGTAAAATTT-AAAAATCA
*
18159752 GGGGCAAAACTATAAAATCTAAAAAAT
1 AGGGCAAAACTATAAAATCTAAAAAAT
18159779 AAGAGACACA
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
56 25 0.34
57 32 0.44
58 16 0.22
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.26
Consensus pattern (57 bp):
AGGGCAAAACTATAAAATCTAAAAAATCATGGGAAAATTTGTAAAATTTAAAAATCA
Found at i:18159954 original size:12 final size:12
Alignment explanation
Indices: 18159918--18159948 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
18159908 GAGACACTGC
*
18159918 CGTGTGGCAAGT
1 CGTGTGGCAGGT
18159930 CGTGTGGCAGGT
1 CGTGTGGCAGGT
18159942 CGTGTGG
1 CGTGTGG
18159949 AGGGTCCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.16, G:0.48, T:0.26
Consensus pattern (12 bp):
CGTGTGGCAGGT
Found at i:18163198 original size:18 final size:17
Alignment explanation
Indices: 18163175--18163209 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
18163165 TCAATAAAAA
*
18163175 ATATATATTCTAAAATTT
1 ATATATAAT-TAAAATTT
18163193 ATATATAATTAAAATTT
1 ATATATAATTAAAATTT
18163210 TGAAAAAACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATAATTAAAATTT
Done.