Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 67 of 335
Found at i:23112260 original size:18 final size:18
Alignment explanation
Indices: 23112208--23112260 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
23112198 GTTTGCTACG
* *
23112208 GAATAATTGACTGTTACT
1 GAATAAATGACTGTTATT
*
23112226 GAATAAATGATTGTTATT
1 GAATAAATGACTGTTATT
* *
23112244 GTATAACTGACTGTTAT
1 GAATAAATGACTGTTAT
23112261 AGAGTAACTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.42
Consensus pattern (18 bp):
GAATAAATGACTGTTATT
Found at i:23112837 original size:22 final size:22
Alignment explanation
Indices: 23112809--23112853 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
23112799 AAAGATGTTA
23112809 GGTCATAAAATGAAATATACAT
1 GGTCATAAAATGAAATATACAT
23112831 GGTCATAAAATGAAATATACAT
1 GGTCATAAAATGAAATATACAT
23112853 G
1 G
23112854 CTTGAAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.27
Consensus pattern (22 bp):
GGTCATAAAATGAAATATACAT
Found at i:23119836 original size:89 final size:89
Alignment explanation
Indices: 23119710--23119891 Score: 364
Period size: 89 Copynumber: 2.0 Consensus size: 89
23119700 GAGACATCGT
23119710 GATTCTATCAACTAATCTGAAATTTTAAAATAATAATAAAAGGCTTACCTGGTAGTGATGTAACA
1 GATTCTATCAACTAATCTGAAATTTTAAAATAATAATAAAAGGCTTACCTGGTAGTGATGTAACA
23119775 ATAAATTCTTTCATAATGAATTTG
66 ATAAATTCTTTCATAATGAATTTG
23119799 GATTCTATCAACTAATCTGAAATTTTAAAATAATAATAAAAGGCTTACCTGGTAGTGATGTAACA
1 GATTCTATCAACTAATCTGAAATTTTAAAATAATAATAAAAGGCTTACCTGGTAGTGATGTAACA
23119864 ATAAATTCTTTCATAATGAATTTG
66 ATAAATTCTTTCATAATGAATTTG
23119888 GATT
1 GATT
23119892 TAACAAGAAA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 93 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (89 bp):
GATTCTATCAACTAATCTGAAATTTTAAAATAATAATAAAAGGCTTACCTGGTAGTGATGTAACA
ATAAATTCTTTCATAATGAATTTG
Found at i:23141324 original size:9 final size:9
Alignment explanation
Indices: 23141310--23141343 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
23141300 ACACCCATTC
23141310 TAGAAAAGT
1 TAGAAAAGT
23141319 TAGAAAAGT
1 TAGAAAAGT
23141328 TAGAAAAGT
1 TAGAAAAGT
23141337 TAGAAAA
1 TAGAAAA
23141344 CAAGGCTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (9 bp):
TAGAAAAGT
Found at i:23145863 original size:25 final size:25
Alignment explanation
Indices: 23145785--23145870 Score: 91
Period size: 25 Copynumber: 3.3 Consensus size: 25
23145775 AAAAAAGGCT
*
23145785 CATTTTATATCAATCAGGTCTTTTC
1 CATTTTATATCAATCAGGTTTTTTC
* * * *
23145810 CATGTATGTCTCAAAACAGAAGTTTTTTC
1 CAT-TTTATATC-AATCAG--GTTTTTTC
23145839 CATTTTATATCAATCAGGTTTTTTC
1 CATTTTATATCAATCAGGTTTTTTC
23145864 CATTTTA
1 CATTTTA
23145871 CTTCAGCAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
25 18 0.38
26 5 0.10
27 10 0.21
28 5 0.10
29 10 0.21
ACGTcount: A:0.27, C:0.17, G:0.09, T:0.47
Consensus pattern (25 bp):
CATTTTATATCAATCAGGTTTTTTC
Found at i:23153766 original size:24 final size:24
Alignment explanation
Indices: 23153739--23153812 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
23153729 CCCTGTAAAC
23153739 AACTACTTTTTATCAATTCACTCA
1 AACTACTTTTTATCAATTCACTCA
* ** **
23153763 AACT--TTTTTCTTCCCTGT-AAAC-
1 AACTACTTTTT-ATCAAT-TCACTCA
23153785 AACTACTTTTTATCAATTCACTCA
1 AACTACTTTTTATCAATTCACTCA
23153809 AACT
1 AACT
23153813 GAATCTTATC
Statistics
Matches: 34, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
22 10 0.29
23 10 0.29
24 14 0.41
ACGTcount: A:0.31, C:0.26, G:0.01, T:0.42
Consensus pattern (24 bp):
AACTACTTTTTATCAATTCACTCA
Found at i:23153786 original size:46 final size:47
Alignment explanation
Indices: 23153720--23153812 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 47
23153710 AGTAAGTTCC
23153720 TTTTTCTTCCCCTGTAAACAACTACTTTTTATCAATTCACTCAAACT
1 TTTTTCTTCCCCTGTAAACAACTACTTTTTATCAATTCACTCAAACT
23153767 TTTTTCTT-CCCTGTAAACAACTACTTTTTATCAATTCACTCAAACT
1 TTTTTCTTCCCCTGTAAACAACTACTTTTTATCAATTCACTCAAACT
23153813 GAATCTTATC
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 38 0.83
47 8 0.17
ACGTcount: A:0.28, C:0.27, G:0.02, T:0.43
Consensus pattern (47 bp):
TTTTTCTTCCCCTGTAAACAACTACTTTTTATCAATTCACTCAAACT
Found at i:23160678 original size:20 final size:22
Alignment explanation
Indices: 23160636--23160679 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
23160626 TTATTGACAA
* *
23160636 ATTTTTTATAATAATTAATATT
1 ATTTTTTAAAATAATTAAAATT
23160658 ATTTTTTAAAAT-A-TAAAATT
1 ATTTTTTAAAATAATTAAAATT
23160678 AT
1 AT
23160680 GTAGTGATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTTTAAAATAATTAAAATT
Found at i:23162280 original size:4 final size:4
Alignment explanation
Indices: 23162273--23162308 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
23162263 TATATATATA
23162273 TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
23162309 GGGAGTGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:23164834 original size:46 final size:46
Alignment explanation
Indices: 23164769--23164954 Score: 239
Period size: 46 Copynumber: 4.0 Consensus size: 46
23164759 TTATCTTTGA
* * * * * *
23164769 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
***
23164815 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
23164861 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
23164907 CAGGCTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
23164953 CA
1 CA
23164955 AAGAGCACAC
Statistics
Matches: 125, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 4 0.03
46 121 0.97
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:23166999 original size:8 final size:8
Alignment explanation
Indices: 23166981--23167010 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
23166971 TTTTATACTA
23166981 AATAA-AT
1 AATAATAT
23166988 AATAATAT
1 AATAATAT
23166996 AATAATAT
1 AATAATAT
23167004 AATAATA
1 AATAATA
23167011 ATACATCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.23
8 17 0.77
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATAATAT
Found at i:23167656 original size:27 final size:27
Alignment explanation
Indices: 23167626--23167680 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
23167616 TTCGTTAAGG
23167626 TAAGATTTTACGGGTTAATTCATTGTT
1 TAAGATTTTACGGGTTAATTCATTGTT
*
23167653 TAAGATTTTACGGGTTAATTTATTGTT
1 TAAGATTTTACGGGTTAATTCATTGTT
23167680 T
1 T
23167681 GAGTTGGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.51
Consensus pattern (27 bp):
TAAGATTTTACGGGTTAATTCATTGTT
Found at i:23168281 original size:85 final size:85
Alignment explanation
Indices: 23168138--23168307 Score: 313
Period size: 85 Copynumber: 2.0 Consensus size: 85
23168128 TAGGGACACG
23168138 GGCGTGTGTCTAGGCCGTGTAACTCATTATTTTAGCTTTAGAGTCAAACAGGCTAAGGACACAAG
1 GGCGTGTGTCTAGGCCGTGTAACTCATTATTTTAGCTTTAGAGTCAAACAGGCTAAGGACACAAG
23168203 CGTGTATCCATGCCATGTAA
66 CGTGTATCCATGCCATGTAA
* * *
23168223 GGCGTGTGTCTAGGCTGTGTAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCTAAGGATACAAG
1 GGCGTGTGTCTAGGCCGTGTAACTCATTATTTTAGCTTTAGAGTCAAACAGGCTAAGGACACAAG
23168288 CGTGTATCCATGCCATGTAA
66 CGTGTATCCATGCCATGTAA
23168308 CTCACTATTT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (85 bp):
GGCGTGTGTCTAGGCCGTGTAACTCATTATTTTAGCTTTAGAGTCAAACAGGCTAAGGACACAAG
CGTGTATCCATGCCATGTAA
Found at i:23168370 original size:63 final size:63
Alignment explanation
Indices: 23168224--23168398 Score: 176
Period size: 63 Copynumber: 2.8 Consensus size: 63
23168214 GCCATGTAAG
* * * * * *
23168224 GCGTGTGTCTAGGCTGTGTAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCTAAGGATACAA
1 GCGTGTGTCCAGGCCGTGTAACTCATTGTTTTGGCTTTAGAGTCATACGGGCTAAGGACACAA
* * * * * *
23168287 GCGTGTATCCATGCCATGTAACTCACTATTTTGGCTTTAGAGTCATACGGGCT-AGAGACAC-G
1 GCGTGTGTCCAGGCCGTGTAACTCATTGTTTTGGCTTTAGAGTCATACGGGCTAAG-GACACAA
* *
23168349 GATGTGTGTCCAGGCCGTGTAACTCATTGTTTTGGAGTTT-GAGTCATACG
1 G-CGTGTGTCCAGGCCGTGTAACTCATTGTTTTGG-CTTTAGAGTCATACG
23168399 AACCAAGGAC
Statistics
Matches: 90, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
62 3 0.03
63 84 0.93
64 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (63 bp):
GCGTGTGTCCAGGCCGTGTAACTCATTGTTTTGGCTTTAGAGTCATACGGGCTAAGGACACAA
Found at i:23175922 original size:19 final size:19
Alignment explanation
Indices: 23175873--23175984 Score: 165
Period size: 19 Copynumber: 5.8 Consensus size: 19
23175863 AAATTAAATC
* *
23175873 TCTAAGATTACAAGATCATA
1 TCTAAGATTGC-ATATCATA
23175893 TCTTCAAGATTGCATATCATA
1 TC-T-AAGATTGCATATCATA
23175914 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
23175933 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
23175950 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
23175969 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
23175985 CTTAAAGATT
Statistics
Matches: 86, Mismatches: 2, Indels: 9
0.89 0.02 0.09
Matches are distributed among these distances:
17 17 0.20
19 49 0.57
20 3 0.03
21 10 0.12
22 7 0.08
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:23175951 original size:36 final size:37
Alignment explanation
Indices: 23175873--23175984 Score: 154
Period size: 36 Copynumber: 2.9 Consensus size: 37
23175863 AAATTAAATC
* *
23175873 TCTAAGATTACAAGATCATATCTTCAAGATTGCATATCATA
1 TCTAAGATTGC-ATATCATATC-T-AAGATTG-ATATCATA
23175914 TCTAAGATTGCATATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGATATCATA
23175950 TCTAAGATTGCATATCATATCTAAGATTGCATATC
1 TCTAAGATTGCATATCATATCTAAGATTG-ATATC
23175985 CTTAAAGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
36 36 0.54
38 11 0.16
39 1 0.01
40 9 0.13
41 10 0.15
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (37 bp):
TCTAAGATTGCATATCATATCTAAGATTGATATCATA
Found at i:23175993 original size:36 final size:35
Alignment explanation
Indices: 23175887--23175995 Score: 114
Period size: 36 Copynumber: 2.9 Consensus size: 35
23175877 AGATTACAAG
*
23175887 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTGCATATC--CT-TAAGATTGCAT
23175927 ATCATATCTAAGATTGTATCATAT-C-TAAGATTGCAT
1 ATCATATCTAAGATTG---CATATCCTTAAGATTGCAT
23175963 ATCATATCTAAGATTGCATATCCTTAAAGATTG
1 ATCATATCTAAGATTGCATATCCTT-AAGATTG
23175996 TATTTCCATA
Statistics
Matches: 62, Mismatches: 1, Indels: 16
0.78 0.01 0.20
Matches are distributed among these distances:
33 5 0.08
34 1 0.02
35 1 0.02
36 34 0.55
38 7 0.11
39 1 0.02
40 8 0.13
41 5 0.08
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (35 bp):
ATCATATCTAAGATTGCATATCCTTAAGATTGCAT
Found at i:23180870 original size:136 final size:137
Alignment explanation
Indices: 23180643--23180911 Score: 504
Period size: 136 Copynumber: 2.0 Consensus size: 137
23180633 TTCAGGCAAT
* *
23180643 AGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
1 AGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
23180708 ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACATATGCAAGCCCATTT
66 ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCATTT
23180772 GGGTAAC
131 GGGTAAC
23180779 AGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
1 AGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
*
23180844 ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCCCATTT
66 ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCATTT
23180909 GGG
131 GGG
23180912 GAGACTACTC
Statistics
Matches: 129, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 107 0.83
137 22 0.17
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCATTT
GGGTAAC
Found at i:23182723 original size:26 final size:26
Alignment explanation
Indices: 23182687--23182821 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
23182677 ACATGAATTC
23182687 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
23182713 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23182739 TTATCATGGAACATTTACCT-ACCTA
1 TTATCATGAAACATTTACCTAACCCA
23182764 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23182790 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
23182816 TTATCA
1 TTATCA
23182822 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 23 0.23
26 79 0.77
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23182782 original size:51 final size:52
Alignment explanation
Indices: 23182687--23182821 Score: 245
Period size: 51 Copynumber: 2.6 Consensus size: 52
23182677 ACATGAATTC
* *
23182687 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
23182739 TTATCATGGAACATTTACCT-ACCTATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
23182790 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
23182822 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
51 50 0.62
52 30 0.38
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:23186757 original size:135 final size:137
Alignment explanation
Indices: 23186588--23186855 Score: 504
Period size: 135 Copynumber: 2.0 Consensus size: 137
23186578 TTCAGGCAAT
*
23186588 AGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
1 AGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
23186653 ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACATATGCAAGCCCATTT
66 ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCATTT
23186717 GGGTAAC
131 GGGTAAC
23186724 AGTGATACTGGGCCA-AGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
1 AGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
*
23186788 ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCCCATTT
66 ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCATTT
23186853 GGG
131 GGG
23186856 GAGACTACTC
Statistics
Matches: 129, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
135 93 0.72
136 36 0.28
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCATTT
GGGTAAC
Found at i:23188670 original size:26 final size:26
Alignment explanation
Indices: 23188634--23188768 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
23188624 CATGATATTC
23188634 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
23188660 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23188686 TTATCATGGAACATTTACCT-ACCTA
1 TTATCATGAAACATTTACCTAACCCA
23188711 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23188737 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
23188763 TTATCA
1 TTATCA
23188769 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 23 0.23
26 79 0.77
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23188729 original size:51 final size:52
Alignment explanation
Indices: 23188634--23188768 Score: 245
Period size: 51 Copynumber: 2.6 Consensus size: 52
23188624 CATGATATTC
* *
23188634 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
23188686 TTATCATGGAACATTTACCT-ACCTATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
23188737 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
23188769 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
51 50 0.62
52 30 0.38
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:23189833 original size:13 final size:13
Alignment explanation
Indices: 23189815--23189841 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23189805 ATGATTCGAA
23189815 GCCTGGAATCACG
1 GCCTGGAATCACG
23189828 GCCTGGAATCACG
1 GCCTGGAATCACG
23189841 G
1 G
23189842 TGTTGATGGC
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:0.22, C:0.30, G:0.33, T:0.15
Consensus pattern (13 bp):
GCCTGGAATCACG
Found at i:23192297 original size:25 final size:25
Alignment explanation
Indices: 23192268--23192316 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
23192258 TTATATATAT
23192268 ATATTTTATA-ATTTATTTATTTTAA
1 ATATTTTATATA-TTATTTATTTTAA
*
23192293 ATATTTTGTATATTATTTATTTTA
1 ATATTTTATATATTATTTATTTTA
23192317 CTTTAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
ATATTTTATATATTATTTATTTTAA
Found at i:23209542 original size:14 final size:14
Alignment explanation
Indices: 23209523--23209553 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
23209513 ATCCATAACA
23209523 TTTCCGATTTTCAT
1 TTTCCGATTTTCAT
23209537 TTTCCGATTTTCAT
1 TTTCCGATTTTCAT
23209551 TTT
1 TTT
23209554 GTGTGTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.19, G:0.06, T:0.61
Consensus pattern (14 bp):
TTTCCGATTTTCAT
Found at i:23216491 original size:21 final size:22
Alignment explanation
Indices: 23216466--23216518 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
23216456 ACCTTCACAT
* *
23216466 ATTATTATTATTACTGT-TATT
1 ATTATTATTATTACTATCTAAT
*
23216487 ATTATTATTTTTACTATCTAAT
1 ATTATTATTATTACTATCTAAT
23216509 A-TATTATTAT
1 ATTATTATTAT
23216519 ACTTATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTATTATTATTACTATCTAAT
Found at i:23216623 original size:18 final size:17
Alignment explanation
Indices: 23216575--23216629 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
23216565 TTTATTGTAC
*
23216575 ATATATA-TATACTTTT
1 ATATATAGTATATTTTT
23216591 ATATATAGTATTATTTTT
1 ATATATAGTA-TATTTTT
*
23216609 ATATATCATTATATTTATT
1 ATATAT-AGTATATTT-TT
23216628 AT
1 AT
23216630 TATGCTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
16 7 0.21
17 2 0.06
18 17 0.52
19 7 0.21
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (17 bp):
ATATATAGTATATTTTT
Found at i:23217239 original size:18 final size:18
Alignment explanation
Indices: 23217218--23217272 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 18
23217208 ATTAGAATCC
23217218 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
23217236 C-AAAATTTTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
* *
23217253 AAAAAATTCTCGT-TTTT
1 CAAAAATTTTCGTGTTTT
23217270 CAA
1 CAA
23217273 TCGGATCACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (18 bp):
CAAAAATTTTCGTGTTTT
Found at i:23229082 original size:75 final size:74
Alignment explanation
Indices: 23228886--23229303 Score: 580
Period size: 75 Copynumber: 5.7 Consensus size: 74
23228876 CCTAGTTTTT
* * *
23228886 ATTTCT-GTTT-TCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCACGGCACGCTTAG
1 ATTTCTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
*
23228949 GTAATTTCA
66 GTATTTTCA
23228958 ATTTCT-GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 ATTTCTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
23229022 GTATTTTCA
66 GTATTTTCA
****
23229031 ATTTCTGGTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
1 ATTTCTGGTT-TGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
23229096 GGTATTTTCA
65 GGTATTTTCA
* * * * * *
23229106 ATTTCTGGTTT-TCAAAAAAATCAACTTACATTGTGAGAGATGAGTTGGGCCTCAGGACACGCTG
1 ATTTCTGGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTG
* *
23229170 AGGTAATTACA
64 AGGTATTTTCA
23229181 ATTTCT-GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 ATTTCTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
23229245 GTATTTTCA
66 GTATTTTCA
* * * *
23229254 A-TTATGCTTT-TCAAAAATAAACTCATATTACGAGAGGTGAGTTGAGCCTC
1 ATTTCTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
23229304 GGGTTACATG
Statistics
Matches: 308, Mismatches: 31, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
72 51 0.17
73 120 0.39
74 7 0.02
75 130 0.42
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (74 bp):
ATTTCTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
GTATTTTCA
Found at i:23229198 original size:148 final size:147
Alignment explanation
Indices: 23228886--23229303 Score: 560
Period size: 148 Copynumber: 2.9 Consensus size: 147
23228876 CCTAGTTTTT
* * *
23228886 ATTTCTGTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCACGGCACGCTTAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
* * * *
23228951 AATTTCAATTTCT-GTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG
66 ATTTTCAATTTCTGGTTT-TCAAAAAAATCAACTCACATTGCGAGAGATGAGTTGAGCCTCAGGA
* *
23229013 CACGCTGAGGTATTTTCA
130 CACGCTGAGGTAATTACA
***
23229031 ATTTCTGGTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
1 ATTTCT-GTT--TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
* * *
23229096 GGTATTTTCAATTTCTGGTTTTCAAAAAAATCAACTTACATTGTGAGAGATGAGTTGGGCCTCAG
63 GGTATTTTCAATTTCTGGTTTTCAAAAAAATCAACTCACATTGCGAGAGATGAGTTGAGCCTCAG
23229161 GACACGCTGAGGTAATTACA
128 GACACGCTGAGGTAATTACA
23229181 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
* * * * * *
23229246 TATTTTCAA-TTATGCTTTTC--AAAAATAAACTCATATTACGAGAGGTGAGTTGAGCCTC
65 TATTTTCAATTTCTGGTTTTCAAAAAAATCAACTCACATTGCGAGAGATGAGTTGAGCCTC
23229304 GGGTTACATG
Statistics
Matches: 239, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
145 37 0.15
146 3 0.01
147 9 0.04
148 125 0.52
149 7 0.03
150 58 0.24
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (147 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
ATTTTCAATTTCTGGTTTTCAAAAAAATCAACTCACATTGCGAGAGATGAGTTGAGCCTCAGGAC
ACGCTGAGGTAATTACA
Found at i:23229440 original size:88 final size:87
Alignment explanation
Indices: 23229246--23229494 Score: 252
Period size: 88 Copynumber: 2.8 Consensus size: 87
23229236 CACGCTGAGG
* * * * * *
23229246 TATTTTC-AATTATGCTTTTCAAAAATAAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTTA
1 TATTTTCAAATTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCA
*
23229310 CATGCCGAGGTATTTTCAAAATC
65 CATGCCGAGCTATTTTCAAAATC
* * *
23229333 TATTTTGCAAATTCTGTTTTCAAAAATCAACTCATATTGCAAGAAGCGAGTTGAGCCTTGGCTCA
1 TATTTT-CAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCA
* * **
23229398 CGTGCTGAGCTATTTTCAATTTC
65 CATGCCGAGCTATTTTCAAAATC
* * * * * *
23229421 TGTTTT-TAATGTCTAGTTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGCCTCGGGT
1 TATTTTCAAAT-TCT-GTTTTCAAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCT
23229484 CACATGCCGAG
63 CACATGCCGAG
23229495 GATAAAGATT
Statistics
Matches: 132, Mismatches: 25, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
86 3 0.02
87 12 0.09
88 111 0.84
89 6 0.05
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (87 bp):
TATTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCAC
ATGCCGAGCTATTTTCAAAATC
Found at i:23229646 original size:21 final size:21
Alignment explanation
Indices: 23229599--23229652 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
23229589 TAGCAGAGCC
* * **
23229599 TTGAAGTTACAATGGAGCTGA
1 TTGAAGTTGCAGTGGAGCACA
*
23229620 TCGAAGTTGCAGTGGAGCACA
1 TTGAAGTTGCAGTGGAGCACA
23229641 TTGAAGTTGCAG
1 TTGAAGTTGCAG
23229653 ATCCTATCCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (21 bp):
TTGAAGTTGCAGTGGAGCACA
Found at i:23231229 original size:12 final size:11
Alignment explanation
Indices: 23231209--23231251 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
23231199 TTAGCTTTGC
23231209 ATTATTATTACT
1 ATTA-TATTACT
23231221 ATTACTATTACT
1 ATTA-TATTACT
*
23231233 ATTATATTTCT
1 ATTATATTACT
*
23231244 TTTATATT
1 ATTATATT
23231252 TATTTATCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 13 0.46
12 15 0.54
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTATATTACT
Found at i:23231381 original size:3 final size:3
Alignment explanation
Indices: 23231373--23231426 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
23231363 AACCTTCACA
* * * *
23231373 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TTT TAC TAT CTAA TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
23231418 TAT TAT TAT
1 TAT TAT TAT
23231427 ACTTATTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.90
4 2 0.05
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:23231531 original size:18 final size:17
Alignment explanation
Indices: 23231484--23231537 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
23231474 TTATTGTACG
*
23231484 TATATA-TATACTTTTA
1 TATATAGTATATTTTTA
23231500 TATATAGTATTATTTTTA
1 TATATAGTA-TATTTTTA
*
23231518 TATATCATTATATTTATTA
1 TATAT-AGTATATTT-TTA
23231537 T
1 T
23231538 TATGCTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 17 0.53
19 7 0.22
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TATATAGTATATTTTTA
Found at i:23232149 original size:18 final size:18
Alignment explanation
Indices: 23232128--23232182 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 18
23232118 ATTCGGATCC
23232128 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
23232146 C-AAAATTTTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
* *
23232163 AAAAAATTCTCGT-TTTT
1 CAAAAATTTTCGTGTTTT
23232180 CAA
1 CAA
23232183 TCGGATCACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (18 bp):
CAAAAATTTTCGTGTTTT
Found at i:23236589 original size:217 final size:220
Alignment explanation
Indices: 23236214--23236652 Score: 794
Period size: 217 Copynumber: 2.0 Consensus size: 220
23236204 CCTAATCTAT
23236214 TTAATTTATTTATTATTTTAGTTTTTTAGGAAATTATTTTATTATTTATTTATTTTAAGCCTGTT
1 TTAATTTATTTATTATTTTAGTTTTTTAGGAAATTATTTTATTATTTATTTATTTTAAGCCTGTT
23236279 TTTCTTGTATTATTTATTTTAAATCGCGTTATTATCATGTATACTAAGTTTTACATATTTTAAAC
66 TTTCTTGTATTATTTATTTTAAATCGCGTTATTATCATGTATACTAAGTTTTACATATTTTAAAC
23236344 TATTATTCATTTTAATTTTCATATACATTATTTGTTTTAATTATTATGCATATATA-TTTTAGAC
131 TATTATTCATTTTAATTTTCATATACATTATTTGTTTTAATTATTATGCATATATATTTTTAGAC
23236408 ACC-T-TTTTTTTAAACTATTTCAC
196 ACCTTATTTTTTTAAACTATTTCAC
* *
23236431 TTAATTTATTTATTATTTTATTTTTTTAGGAAATTATTTTATTATTTATTTATTTTAAGCTTGTT
1 TTAATTTATTTATTATTTTAGTTTTTTAGGAAATTATTTTATTATTTATTTATTTTAAGCCTGTT
* *
23236496 TTTCTTGTATTATTTATTTTAAATTGCGTTATTATCATGTATTCTAAGTTTTACATATTTTAAAC
66 TTTCTTGTATTATTTATTTTAAATCGCGTTATTATCATGTATACTAAGTTTTACATATTTTAAAC
*
23236561 TATTATTCATTTTAATTTTCATATACATTATTTGTTTTAATTATTATGCATATGTATTTTTAGAC
131 TATTATTCATTTTAATTTTCATATACATTATTTGTTTTAATTATTATGCATATATATTTTTAGAC
23236626 ACCTTTTATTTTTTTAAACTATTTCAC
196 ACC--TTATTTTTTTAAACTATTTCAC
23236653 ATATATTATC
Statistics
Matches: 212, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
217 181 0.85
218 11 0.05
221 1 0.00
222 19 0.09
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.58
Consensus pattern (220 bp):
TTAATTTATTTATTATTTTAGTTTTTTAGGAAATTATTTTATTATTTATTTATTTTAAGCCTGTT
TTTCTTGTATTATTTATTTTAAATCGCGTTATTATCATGTATACTAAGTTTTACATATTTTAAAC
TATTATTCATTTTAATTTTCATATACATTATTTGTTTTAATTATTATGCATATATATTTTTAGAC
ACCTTATTTTTTTAAACTATTTCAC
Found at i:23236810 original size:2 final size:2
Alignment explanation
Indices: 23236803--23236835 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23236793 TTTTGGAACT
23236803 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23236836 TACTTTGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23236946 original size:26 final size:26
Alignment explanation
Indices: 23236871--23236947 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
23236861 TGGATACTCA
*
23236871 TTTAAGCTGTTTTTGTATGTTATTTAT
1 TTTAAGCT-TTTTTATATGTTATTTAT
* * * * **
23236898 TTTAA-ATTTCTGATTTACATATTTAT
1 TTTAAGCTTTTTTATAT-GTTATTTAT
23236924 TTTAAGCTTTTTTATATGTTATTT
1 TTTAAGCTTTTTTATATGTTATTT
23236948 TAAAGAGTTT
Statistics
Matches: 35, Mismatches: 13, Indels: 5
0.66 0.25 0.09
Matches are distributed among these distances:
25 5 0.14
26 18 0.51
27 12 0.34
ACGTcount: A:0.23, C:0.05, G:0.09, T:0.62
Consensus pattern (26 bp):
TTTAAGCTTTTTTATATGTTATTTAT
Found at i:23236958 original size:23 final size:21
Alignment explanation
Indices: 23236916--23236969 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
23236906 TCTGATTTAC
**
23236916 ATATTTATTTTAAGCTTTTTT
1 ATATTTATTTTAAGAGTTTTT
23236937 ATATGTTATTTTAAAGAGTTTTT
1 ATAT-TTATTTT-AAGAGTTTTT
23236960 -T-TTTATTTTA
1 ATATTTATTTTA
23236970 CTTCGTGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 1 0.03
20 7 0.24
21 5 0.17
22 8 0.28
23 8 0.28
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (21 bp):
ATATTTATTTTAAGAGTTTTT
Found at i:23237321 original size:24 final size:24
Alignment explanation
Indices: 23237294--23237343 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
23237284 TTGATATTAT
*
23237294 ATCTAATTCGTATTGTATCGTTCC
1 ATCTAATTCGTATTGTATCATTCC
*
23237318 ATCTAATTCGTGTTGTATCATTCC
1 ATCTAATTCGTATTGTATCATTCC
23237342 AT
1 AT
23237344 GCTCTATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (24 bp):
ATCTAATTCGTATTGTATCATTCC
Found at i:23239060 original size:39 final size:39
Alignment explanation
Indices: 23238959--23239060 Score: 107
Period size: 39 Copynumber: 2.6 Consensus size: 39
23238949 TATGGTATTT
* * * *
23238959 AAAATATATATATATATATATATGTATATAATAGTATTTA
1 AAAATATATACATA-ATATATATATATATAATAGCATTAA
* * * *
23238999 AGAATATATACATAAGAAATATATA-ACTAATGGCATTAA
1 AAAATATATACATAATATATATATATA-TAATAGCATTAA
23239038 AAAATATATACATAATATATATA
1 AAAATATATACATAATATATATA
23239061 AAATACCTAA
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
38 1 0.02
39 37 0.74
40 12 0.24
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (39 bp):
AAAATATATACATAATATATATATATATAATAGCATTAA
Found at i:23240463 original size:30 final size:30
Alignment explanation
Indices: 23240427--23240488 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
23240417 TTTTGAAAAA
23240427 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
23240457 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
23240487 CA
1 CA
23240489 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:23240535 original size:87 final size:84
Alignment explanation
Indices: 23240388--23240545 Score: 262
Period size: 87 Copynumber: 1.8 Consensus size: 84
23240378 GACTGGAGGT
23240388 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGACTCAACTCAACT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGACTCAACTCAACT
23240453 CTCGCAGAAATTAAAAAGC
66 CTCGCAGAAATTAAAAAGC
* *
23240472 TCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAACAGAAATTAAAAGGCTTAACTCA
1 TCAACTCACCTCTCGCAATATGAGTTG-A--TTTTTGAAAAACAGAAATTAAAAGACTCAACTCA
*
23240537 CCTCTCGCA
63 ACTCTCGCA
23240546 ACATGAGTTG
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
84 27 0.40
85 1 0.01
87 40 0.59
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (84 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGACTCAACTCAACT
CTCGCAGAAATTAAAAAGC
Found at i:23240545 original size:57 final size:55
Alignment explanation
Indices: 23240457--23240578 Score: 174
Period size: 57 Copynumber: 2.2 Consensus size: 55
23240447 TCAACTCTCG
*
23240457 CAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAA-AA
1 CAGAAATTAAAAAGCTCAACTCACCTCTCGCAACATGAGTTG-A--TTTTTGAAACAA
* *
23240514 CAGAAATTAAAAGGCTTAACTCACCTCTCGCAACATGAGTTGATTTTTGAAACAA
1 CAGAAATTAAAAAGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTGAAACAA
*
23240569 CAAAAATTAA
1 CAGAAATTAA
23240579 GAATACCTCA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
54 9 0.15
55 11 0.18
56 1 0.02
57 39 0.65
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (55 bp):
CAGAAATTAAAAAGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTGAAACAA
Found at i:23240910 original size:73 final size:72
Alignment explanation
Indices: 23240818--23241007 Score: 267
Period size: 72 Copynumber: 2.6 Consensus size: 72
23240808 ATTAAAAGGT
* * *
23240818 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAAAAATTGAAATTACCTCAT-CGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGAAAAACAAAAATTGAAAATACCTC-TGCGTG
*
23240882 TCCTGAGGC
64 CCCTGAGGC
**
23240891 TCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAACACAAAAATTGAAAATACCTCTGCGTGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAA-ACAAAAATTGAAAATACCTCTGCGTGC
23240955 CCTGAGGC
65 CCTGAGGC
* *
23240963 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACCAAAAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAAT
23241008 AAAAAGGCTT
Statistics
Matches: 104, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
71 4 0.04
72 69 0.66
73 31 0.30
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.26
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTGAAAATACCTCTGCGTGCC
CTGAGGC
Found at i:23241142 original size:116 final size:116
Alignment explanation
Indices: 23240938--23241243 Score: 517
Period size: 116 Copynumber: 2.6 Consensus size: 116
23240928 ACAAAAATTG
*
23240938 AAAATACCTCT-GCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAC
1 AAAATACCT-TAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAC
* *
23241002 CAAAATAAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
65 AAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
23241054 AAAATACCTTAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACA
1 AAAATACCTTAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACA
23241119 AAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
66 AAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
* * * *
23241170 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGCTGATTTTG-AAAACA
1 AAAATACCTTAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACA
*
23241234 ACAATTAAAA
66 AAAATTAAAA
23241244 ATACATCAAC
Statistics
Matches: 181, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
115 16 0.09
116 165 0.91
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (116 bp):
AAAATACCTTAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACA
AAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTA
Found at i:23241155 original size:53 final size:53
Alignment explanation
Indices: 23240959--23241156 Score: 168
Period size: 53 Copynumber: 3.5 Consensus size: 53
23240949 GCGTGCCCTG
* *
23240959 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACCAAAATAAAA
1 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
* * * * *
23241012 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT--AAAACTAAAAATACCTTAGCGTGCCCC
1 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAC--AAAA-A--TTA--------A
*
23241074 G
53 A
23241075 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
1 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
* *
23241128 AGGCTTAACTCACCTCTCGCAATATGAGT
1 AGGCTCAACTCACCTCTAGCAATATGAGT
23241157 CAATTTAAAA
Statistics
Matches: 113, Mismatches: 16, Indels: 32
0.70 0.10 0.20
Matches are distributed among these distances:
50 5 0.04
52 8 0.07
53 54 0.48
55 2 0.02
61 3 0.03
63 27 0.24
64 9 0.08
66 5 0.04
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (53 bp):
AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:23254722 original size:12 final size:12
Alignment explanation
Indices: 23254700--23254735 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
23254690 TGGGATATGC
*
23254700 AATGAATGAATG
1 AATGCATGAATG
*
23254712 GATGCATGAATG
1 AATGCATGAATG
23254724 AATGCATGAATG
1 AATGCATGAATG
23254736 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:23254722 original size:16 final size:17
Alignment explanation
Indices: 23254696--23254727 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
23254686 AGTATGGGAT
23254696 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
23254713 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
23254728 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:23256743 original size:2 final size:2
Alignment explanation
Indices: 23256694--23256724 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
23256684 GGTATTTAAA
*
23256694 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23256725 ATAGTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23257267 original size:8 final size:8
Alignment explanation
Indices: 23257256--23257280 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23257246 AAGTGGGAAA
23257256 GTGGCTAG
1 GTGGCTAG
23257264 GTGGCTAG
1 GTGGCTAG
23257272 GTGGCTAG
1 GTGGCTAG
23257280 G
1 G
23257281 GTTTCTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.52, T:0.24
Consensus pattern (8 bp):
GTGGCTAG
Found at i:23257318 original size:22 final size:21
Alignment explanation
Indices: 23257288--23257349 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
23257278 AGGGTTTCTT
23257288 GGTTTTTTTTTGGGGGGGTTA
1 GGTTTTTTTTTGGGGGGGTTA
****
23257309 GGTTTTTTTTTTTTTTGGGTTA
1 GG-TTTTTTTTTGGGGGGGTTA
23257331 GGTTTTTTTTTGGGAGGGG
1 GGTTTTTTTTTGGG-GGGG
23257350 CTTAATGGGC
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
21 11 0.35
22 20 0.65
ACGTcount: A:0.05, C:0.00, G:0.37, T:0.58
Consensus pattern (21 bp):
GGTTTTTTTTTGGGGGGGTTA
Found at i:23265658 original size:28 final size:27
Alignment explanation
Indices: 23265626--23265682 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
23265616 TATCTTTTTT
23265626 AAATATTTTATAATTTTTAA-AAATTATA
1 AAATATTTTAT-A-TTTTAATAAATTATA
*
23265654 AAATATTTTATATTTTAATAAATTTTA
1 AAATATTTTATATTTTAATAAATTATA
23265681 AA
1 AA
23265683 CTTTAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 6 0.22
27 10 0.37
28 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AAATATTTTATATTTTAATAAATTATA
Found at i:23265661 original size:20 final size:20
Alignment explanation
Indices: 23265577--23265662 Score: 52
Period size: 18 Copynumber: 4.2 Consensus size: 20
23265567 ATTATACTAA
*
23265577 ATTTATTAAAAATTCT-AAAT
1 ATTT-TTAAAAATTATAAAAT
* *
23265597 AATTATAAAAATTATTAAATAT
1 ATTTTTAAAAATTA-TAAA-AT
* * * *
23265619 CTTTTTTAAATATT-TTATA-
1 -ATTTTTAAAAATTATAAAAT
23265638 ATTTTTAAAAATTATAAAAT
1 ATTTTTAAAAATTATAAAAT
23265658 ATTTT
1 ATTTT
23265663 ATATTTTAAT
Statistics
Matches: 47, Mismatches: 13, Indels: 12
0.65 0.18 0.17
Matches are distributed among these distances:
18 11 0.23
19 11 0.23
20 10 0.21
21 4 0.09
22 2 0.04
23 9 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTTTAAAAATTATAAAAT
Found at i:23266418 original size:2 final size:2
Alignment explanation
Indices: 23266413--23266444 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23266403 TATTTTTTTA
23266413 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
23266445 GTAAAGTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23269308 original size:22 final size:23
Alignment explanation
Indices: 23269277--23269319 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
23269267 GTAAATTGAT
23269277 TTTTTAAAATTT-TATATATTTTG
1 TTTTTAAAATTTATA-ATATTTTG
23269300 TTTTT-AAATTTATAATATTT
1 TTTTTAAAATTTATAATATTT
23269320 ATAATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTTAAAATTTATAATATTTTG
Found at i:23271535 original size:31 final size:27
Alignment explanation
Indices: 23271444--23271536 Score: 69
Period size: 31 Copynumber: 3.2 Consensus size: 27
23271434 TCTAGTTATC
* *
23271444 TTAAATTTAATTTAAATTTATTGATAATTT
1 TTAAATTTAA-TGAAA-TAATT-ATAATTT
* **
23271474 TTAAATTTAATGAAATAATTAAAAAAT
1 TTAAATTTAATGAAATAATTATAATTT
*
23271501 TTAAATTTATTCATGATTATAATTATAATTT
1 TTAAATTTA---ATGA-AATAATTATAATTT
23271532 TTAAA
1 TTAAA
23271537 AATCTAGTGA
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
27 13 0.26
28 4 0.08
29 4 0.08
30 14 0.28
31 15 0.30
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (27 bp):
TTAAATTTAATGAAATAATTATAATTT
Found at i:23274728 original size:2 final size:2
Alignment explanation
Indices: 23274721--23274745 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23274711 AAGCTATCAT
23274721 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23274746 CATTCCCCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23277636 original size:10 final size:10
Alignment explanation
Indices: 23277621--23277689 Score: 50
Period size: 10 Copynumber: 7.8 Consensus size: 10
23277611 TTATTCTATG
23277621 ATTTTTATAT
1 ATTTTTATAT
23277631 ATTTTTA-AT
1 ATTTTTATAT
23277640 AGTTTTTATA-
1 A-TTTTTATAT
23277650 A--TTTATA-
1 ATTTTTATAT
23277657 ATTTTTA-AT
1 ATTTTTATAT
23277666 -TTTTTATA-
1 ATTTTTATAT
*
23277674 A--TTTAAAT
1 ATTTTTATAT
23277682 ATTTTTAT
1 ATTTTTAT
23277690 TTTTTATATT
Statistics
Matches: 47, Mismatches: 2, Indels: 20
0.68 0.03 0.29
Matches are distributed among these distances:
7 12 0.26
8 8 0.17
9 8 0.17
10 18 0.38
11 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:23277662 original size:17 final size:17
Alignment explanation
Indices: 23277651--23277689 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
23277641 GTTTTTATAA
*
23277651 TTTATAATTTTTAAT-TT
1 TTTATAA-TTTAAATATT
23277668 TTTATAATTTAAATATT
1 TTTATAATTTAAATATT
23277685 TTTAT
1 TTTAT
23277690 TTTTTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATAATTTAAATATT
Found at i:23277674 original size:24 final size:24
Alignment explanation
Indices: 23277624--23277706 Score: 107
Period size: 24 Copynumber: 3.4 Consensus size: 24
23277614 TTCTATGATT
23277624 TTTATATATTTTTAATAGTTTTTATAA
1 TTTATA-ATTTTTAAT--TTTTTATAA
23277651 TTTATAATTTTTAATTTTTTATAA
1 TTTATAATTTTTAATTTTTTATAA
*
23277675 TTTA-AATATTTTTATTTTTTAT-A
1 TTTATAAT-TTTTAATTTTTTATAA
23277698 TTTATAATT
1 TTTATAATT
23277707 ACTTTTTTCA
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
23 9 0.17
24 29 0.55
26 9 0.17
27 6 0.11
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (24 bp):
TTTATAATTTTTAATTTTTTATAA
Found at i:23283846 original size:45 final size:45
Alignment explanation
Indices: 23283795--23283889 Score: 181
Period size: 45 Copynumber: 2.1 Consensus size: 45
23283785 ATGCCTCACC
*
23283795 ATTTTGGCTTATATTTATTTTATTGATTATTTTCAACGAAACTAG
1 ATTTTGGCTTATATTTATTTTATTGATTATTTTCAACAAAACTAG
23283840 ATTTTGGCTTATATTTATTTTATTGATTATTTTCAACAAAACTAG
1 ATTTTGGCTTATATTTATTTTATTGATTATTTTCAACAAAACTAG
23283885 ATTTT
1 ATTTT
23283890 ATCTATAAAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.53
Consensus pattern (45 bp):
ATTTTGGCTTATATTTATTTTATTGATTATTTTCAACAAAACTAG
Found at i:23283908 original size:45 final size:44
Alignment explanation
Indices: 23283795--23283905 Score: 132
Period size: 45 Copynumber: 2.4 Consensus size: 44
23283785 ATGCCTCACC
* * *
23283795 ATTTTGGCTTATATTTATTTTATTGATTATTTTCAACGAAACTAG
1 ATTTTAGCTTAAATTTA-TTTATTGATTATTTTCAACAAAACTAG
* *
23283840 ATTTTGGCTTATATTTATTTTATTGATTATTTTCAACAAAACTAG
1 ATTTTAGCTTAAATTTA-TTTATTGATTATTTTCAACAAAACTAG
*
23283885 ATTTTATCTATAAAGTTTATT
1 ATTTTAGCT-TAAA-TTTATT
23283906 ATTTACTTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
45 51 0.85
46 5 0.08
47 4 0.07
ACGTcount: A:0.31, C:0.08, G:0.09, T:0.52
Consensus pattern (44 bp):
ATTTTAGCTTAAATTTATTTATTGATTATTTTCAACAAAACTAG
Found at i:23290907 original size:5 final size:5
Alignment explanation
Indices: 23290897--23290934 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
23290887 AATTTGTGTG
*
23290897 TTATT TTATT TTTTCT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TT
23290935 TTTCACGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:23293392 original size:36 final size:36
Alignment explanation
Indices: 23293352--23293424 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
23293342 TGAGTACTCA
23293352 ATAATGGCGACATTGGAGGCAAGTGGATTGAGCTTG
1 ATAATGGCGACATTGGAGGCAAGTGGATTGAGCTTG
23293388 ATAATGGCGACATTGGAGGCAAGTGGATTGAGCTTG
1 ATAATGGCGACATTGGAGGCAAGTGGATTGAGCTTG
23293424 A
1 A
23293425 GTCATGAGGA
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:0.29, C:0.11, G:0.36, T:0.25
Consensus pattern (36 bp):
ATAATGGCGACATTGGAGGCAAGTGGATTGAGCTTG
Found at i:23301310 original size:17 final size:17
Alignment explanation
Indices: 23301288--23301445 Score: 73
Period size: 17 Copynumber: 9.1 Consensus size: 17
23301278 GATCCGATTG
*
23301288 AAACACGAGAATTTTGA
1 AAACACGAAAATTTTGA
23301305 AAACACGAAAATTTTG-
1 AAACACGAAAATTTTGA
** *
23301321 AAACTTGAAATGTTTTTTTTG-
1 AAACACGAAA-----ATTTTGA
*
23301342 AAAC-CCAAGAGATTTTGA
1 AAACACGAA-A-ATTTTGA
*
23301360 AAACACAAAAATTCTTGA
1 AAACACGAAAATT-TTGA
*
23301378 AAAC-CTGAGAATCTTTG-
1 AAACAC-GAAAAT-TTTGA
*
23301395 AAACCCGAGAAATTTT-A
1 AAACACGA-AAATTTTGA
23301412 AAA-A--AAAATTTTGA
1 AAACACGAAAATTTTGA
23301426 AAACACGAAAATTTTTGA
1 AAACACGAAAA-TTTTGA
23301444 AA
1 AA
23301446 CCCGAATTTT
Statistics
Matches: 109, Mismatches: 13, Indels: 37
0.69 0.08 0.23
Matches are distributed among these distances:
13 7 0.06
14 5 0.05
15 1 0.01
16 8 0.07
17 40 0.37
18 32 0.29
19 4 0.04
20 2 0.02
21 10 0.09
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.28
Consensus pattern (17 bp):
AAACACGAAAATTTTGA
Found at i:23301363 original size:18 final size:17
Alignment explanation
Indices: 23301337--23301445 Score: 59
Period size: 18 Copynumber: 6.5 Consensus size: 17
23301327 GAAATGTTTT
*
23301337 TTTTG-AAACCCAAGAGA
1 TTTTGAAAACCCAA-AAA
*
23301354 TTTTGAAAACACAAAAA
1 TTTTGAAAACCCAAAAA
** *
23301371 TTCTTGAAAACCTGAGAA
1 TT-TTGAAAACCCAAAAA
*
23301389 TCTTTG-AAACCCGAGAAA
1 T-TTTGAAAACCC-AAAAA
23301407 TTTT-AAAA---AAAAA
1 TTTTGAAAACCCAAAAA
* *
23301420 TTTTGAAAACACGAAAAT
1 TTTTGAAAAC-CCAAAAA
23301438 TTTTGAAA
1 TTTTGAAA
23301446 CCCGAATTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 19
0.69 0.12 0.19
Matches are distributed among these distances:
13 8 0.11
14 4 0.06
17 20 0.29
18 37 0.53
19 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.28
Consensus pattern (17 bp):
TTTTGAAAACCCAAAAA
Found at i:23301466 original size:48 final size:49
Alignment explanation
Indices: 23301338--23301450 Score: 131
Period size: 48 Copynumber: 2.2 Consensus size: 49
23301328 AAATGTTTTT
* * *
23301338 TTTGAAACCCAAGAGATTTTGAAAACACAAAAATTCTTGAAAACCTGAGAATC
1 TTTGAAACCCGAGAAATTTT--AAA-A-AAAAATTCTTGAAAACCTGAAAATC
*
23301391 TTTGAAACCCGAGAAATTTTAAAAAAAAATT-TTGAAAACAC-GAAAATT
1 TTTGAAACCCGAGAAATTTTAAAAAAAAATTCTTGAAAAC-CTGAAAATC
23301439 TTTGAAACCCGA
1 TTTGAAACCCGA
23301451 ATTTTTTTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
48 25 0.45
49 8 0.15
50 1 0.02
51 3 0.05
53 18 0.33
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (49 bp):
TTTGAAACCCGAGAAATTTTAAAAAAAAATTCTTGAAAACCTGAAAATC
Found at i:23301497 original size:17 final size:18
Alignment explanation
Indices: 23301464--23301497 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23301454 TTTTTATAAA
*
23301464 AAACACGAAAAATTTTAG
1 AAACACGAAAAAGTTTAG
23301482 AAACACG-AAAAGTTTA
1 AAACACGAAAAAGTTTA
23301498 CAACACTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.21
Consensus pattern (18 bp):
AAACACGAAAAAGTTTAG
Found at i:23302938 original size:30 final size:30
Alignment explanation
Indices: 23302866--23303001 Score: 166
Period size: 30 Copynumber: 4.5 Consensus size: 30
23302856 TAAAATTTAA
*
23302866 GGTCAAAATGAAATTTAAGAAAATTTTAGG
1 GGTCAAAATGAAATTTAAGAAAAGTTTAGG
* * * * *
23302896 GATTAAAGTGAAATCTAA-AGAAAGTTTGGG
1 GGTCAAAATGAAATTTAAGA-AAAGTTTAGG
*
23302926 GGTCAAAATGAAATTTAGGAAAAGTTTAGG
1 GGTCAAAATGAAATTTAAGAAAAGTTTAGG
*
23302956 GGTCAAAATAAAATTTAAGAAAAGTTTAGG
1 GGTCAAAATGAAATTTAAGAAAAGTTTAGG
* *
23302986 GGTTAAAATGTAATTT
1 GGTCAAAATGAAATTT
23303002 TTTATTTTTC
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
29 1 0.01
30 85 0.98
31 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (30 bp):
GGTCAAAATGAAATTTAAGAAAAGTTTAGG
Found at i:23305825 original size:2 final size:2
Alignment explanation
Indices: 23305818--23305842 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23305808 ATTATTTTAT
23305818 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23305843 TATTATTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23306900 original size:26 final size:26
Alignment explanation
Indices: 23306864--23306973 Score: 170
Period size: 26 Copynumber: 4.2 Consensus size: 26
23306854 TGATACAAAT
23306864 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
23306890 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
23306916 TGATAAT-GGATTAGGTAAATGTTTCA
1 TGATAATAGG-TTAGGTAAATGTTTCA
*
23306942 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
23306968 TGATAA
1 TGATAA
23306974 GAATTTTATG
Statistics
Matches: 79, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
25 2 0.03
26 73 0.92
27 4 0.05
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:23308620 original size:27 final size:27
Alignment explanation
Indices: 23308579--23308691 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
23308569 GAGGAAGCGT
*
23308579 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
23308606 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
23308633 TCTGGTGGTTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
23308661 TCTGGTGACTCTGTCAC-ACTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
23308687 TCTGG
1 TCTGG
23308692 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.07
27 53 0.74
28 14 0.19
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:23308684 original size:54 final size:54
Alignment explanation
Indices: 23308577--23308691 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
23308567 TGGAGGAAGC
*
23308577 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * * * *
23308631 GTTCTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACA-CTATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
23308685 GTTCTGG
1 GTTCTGG
23308692 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 36 0.68
55 17 0.32
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:23315251 original size:19 final size:20
Alignment explanation
Indices: 23315227--23315265 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
23315217 ATTAATAAGA
23315227 TTTTAAG-AAAAAAATGAAT
1 TTTTAAGAAAAAAAATGAAT
23315246 TTTTAAGAAAAAAAATGAAT
1 TTTTAAGAAAAAAAATGAAT
23315266 ATTGTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (20 bp):
TTTTAAGAAAAAAAATGAAT
Found at i:23316581 original size:22 final size:22
Alignment explanation
Indices: 23316537--23316591 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
23316527 TAAAAACTAG
* **
23316537 ATAATAAATTAATATATTTTAA
1 ATAATAAATAAATATATGATAA
*
23316559 ATAATAAATAAATATGTGATAA
1 ATAATAAATAAATATATGATAA
23316581 ATTACATAAAT
1 A-TA-ATAAAT
23316592 TCTTTTCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 19 0.70
23 2 0.07
24 6 0.22
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
ATAATAAATAAATATATGATAA
Found at i:23323405 original size:243 final size:243
Alignment explanation
Indices: 23322977--23323419 Score: 660
Period size: 243 Copynumber: 1.8 Consensus size: 243
23322967 TTTCTTTTCC
* * *
23322977 TTTCATCATCTTAGCATTAACTAACAAAGAGAAAAAGATGAAGAAATGAGAGAAGAGAAGAAATA
1 TTTCATCATCTTAACATCAACTAACAAAGAGAAAAAGATGAAAAAATGAGAGAAGAGAAGAAATA
23323042 AGGTTGAATGGGAGAAGAATTAAGTTTAGTTGGCTGAGAAGAGAGAATATATAGAAGTTCATATC
66 AGGTTGAATGGGAGAAGAATTAAGTTTAGTTGGCTGAGAAGAGAGAATATATAGAAGTTCATATC
* * *
23323107 GGCACTGAGTAATGCCAAATGTCAATATATATTGTTAAGGTTATAACTTTTATTTAAAAGATCAA
131 GACACTGAGTAATGACAAATGTCAATATATATTGCTAAGGTTATAACTTTTATTTAAAAGATCAA
23323172 CACCCCTTCGATCATAATGTTATCAAATCTACCCTTTCGATCATACCG
196 CACCCCTTCGATCATAATGTTATCAAATCTACCCTTTCGATCATACCG
* * *
23323220 TTTCATCATTTTAACATCATCTAACAAAGAGAAAAAGATGAAAAAATGAGAGTAGAGAAGAAATA
1 TTTCATCATCTTAACATCAACTAACAAAGAGAAAAAGATGAAAAAATGAGAGAAGAGAAGAAATA
* * * * *
23323285 AGTTTGAATGGGAGGAA-AATTAATTTTA-TCTGAG-TGAGAGGAGATAATATATAGAGGTTCAT
66 AGGTTGAATGGGA-GAAGAATTAAGTTTAGT-TG-GCTGAGAAGAGAGAATATATAGAAGTTCAT
* * * *
23323347 A-CTGACATTGAGTAATGACAGATGTTAATATATATTGCTAAGGTTATAATTTTTATTTAAAAGA
128 ATC-GACACTGAGTAATGACAAATGTCAATATATATTGCTAAGGTTATAACTTTTATTTAAAAGA
23323411 TCAACACCC
192 TCAACACCC
23323420 TTGAAACAAA
Statistics
Matches: 178, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
242 2 0.01
243 172 0.97
244 4 0.02
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (243 bp):
TTTCATCATCTTAACATCAACTAACAAAGAGAAAAAGATGAAAAAATGAGAGAAGAGAAGAAATA
AGGTTGAATGGGAGAAGAATTAAGTTTAGTTGGCTGAGAAGAGAGAATATATAGAAGTTCATATC
GACACTGAGTAATGACAAATGTCAATATATATTGCTAAGGTTATAACTTTTATTTAAAAGATCAA
CACCCCTTCGATCATAATGTTATCAAATCTACCCTTTCGATCATACCG
Found at i:23324254 original size:15 final size:16
Alignment explanation
Indices: 23324234--23324267 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23324224 TCTCTCATAC
*
23324234 TTTTTATGT-AAATAT
1 TTTTTATCTAAAATAT
23324249 TTTTTATCTAAAATAT
1 TTTTTATCTAAAATAT
23324265 TTT
1 TTT
23324268 AGACATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTTATCTAAAATAT
Found at i:23326976 original size:38 final size:38
Alignment explanation
Indices: 23326928--23327005 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
23326918 ACTATGATTA
23326928 AAAAATTACTTAAAACAATATGCATTGGGTCATAAATT
1 AAAAATTACTTAAAACAATATGCATTGGGTCATAAATT
23326966 AAAAATTACTTAAAACAATATGCATTGGGTCATAAATT
1 AAAAATTACTTAAAACAATATGCATTGGGTCATAAATT
23327004 AA
1 AA
23327006 CTTGAAAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (38 bp):
AAAAATTACTTAAAACAATATGCATTGGGTCATAAATT
Found at i:23331834 original size:16 final size:17
Alignment explanation
Indices: 23331815--23331854 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
23331805 TTGCTTCTTC
*
23331815 TATTTC-TTTTGTTATT
1 TATTTCATTTTATTATT
23331831 TA-TTCATTTTATTATT
1 TATTTCATTTTATTATT
23331847 TATTTCAT
1 TATTTCAT
23331855 AACACGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 13 0.62
17 5 0.24
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (17 bp):
TATTTCATTTTATTATT
Found at i:23333810 original size:1 final size:1
Alignment explanation
Indices: 23333804--23333847 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
23333794 TTATTAGTAC
* * **
23333804 TTTTTTTTTTCTTTTTTTTCTTTTTTGATTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
23333848 AAATTTTATT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.02, C:0.05, G:0.02, T:0.91
Consensus pattern (1 bp):
T
Found at i:23333829 original size:17 final size:16
Alignment explanation
Indices: 23333804--23333846 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
23333794 TTATTAGTAC
*
23333804 TTTTTTTTTTCTTTTT
1 TTTTTTTTTTATTTTT
*
23333820 TTTCTTTTTTGATTTTT
1 TTT-TTTTTTTATTTTT
23333837 TTTTTTTTTT
1 TTTTTTTTTT
23333847 TAAATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.02, C:0.05, G:0.02, T:0.91
Consensus pattern (16 bp):
TTTTTTTTTTATTTTT
Found at i:23333854 original size:18 final size:18
Alignment explanation
Indices: 23333815--23333854 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
23333805 TTTTTTTTTC
* *
23333815 TTTTTTTTCTTTTTTGAT
1 TTTTTTTTCTTTTTTAAA
*
23333833 TTTTTTTTTTTTTTTAAA
1 TTTTTTTTCTTTTTTAAA
23333851 TTTT
1 TTTT
23333855 ATTATTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.85
Consensus pattern (18 bp):
TTTTTTTTCTTTTTTAAA
Found at i:23334133 original size:118 final size:118
Alignment explanation
Indices: 23333973--23334203 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
23333963 TATTTCCGGT
23333973 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
23334038 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
23334091 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
23334156 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
23334204 ATGGAAAACA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:23334923 original size:41 final size:43
Alignment explanation
Indices: 23334837--23334926 Score: 121
Period size: 41 Copynumber: 2.1 Consensus size: 43
23334827 CTGAAAAGGG
* * *
23334837 TGTTTGGCTGCAGGTTTTGGGGATTCTAAGGCTGGAATAGGAC
1 TGTTTGGCTGCAGGATATGGGGATTCTAAGGCTGGAATAGAAC
* *
23334880 TGTTTGGCTGCAGGATAT-GGTATTCT-GGGCTGGAATAGAAC
1 TGTTTGGCTGCAGGATATGGGGATTCTAAGGCTGGAATAGAAC
23334921 TGTTTG
1 TGTTTG
23334927 ACAGCATGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 19 0.45
42 7 0.17
43 16 0.38
ACGTcount: A:0.19, C:0.11, G:0.36, T:0.34
Consensus pattern (43 bp):
TGTTTGGCTGCAGGATATGGGGATTCTAAGGCTGGAATAGAAC
Found at i:23335026 original size:7 final size:6
Alignment explanation
Indices: 23335013--23335082 Score: 63
Period size: 6 Copynumber: 10.8 Consensus size: 6
23335003 ATGGAAGAAG
23335013 AAAAAT ATAAAAT AAAAAT AAAAGA- AAATAAT AAATAAT AAAAGA- AAAAAT
1 AAAAAT A-AAAAT AAAAAT AAAA-AT AAA-AAT AAA-AAT AAAA-AT AAAAAT
23335064 AAATAAAT AAAAAT AAAAA
1 -AA-AAAT AAAAAT AAAAA
23335083 GAAAGACTGG
Statistics
Matches: 56, Mismatches: 0, Indels: 16
0.78 0.00 0.22
Matches are distributed among these distances:
5 1 0.02
6 28 0.50
7 23 0.41
8 4 0.07
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:23335048 original size:23 final size:23
Alignment explanation
Indices: 23335014--23335086 Score: 80
Period size: 23 Copynumber: 3.1 Consensus size: 23
23335004 TGGAAGAAGA
23335014 AAAAT-ATAAAATAAAAATAAAAG
1 AAAATAAT-AAATAAAAATAAAAG
*
23335037 AAAATAATAAATAATAAA-AGAA-
1 AAAATAATAAATAA-AAATAAAAG
23335059 AAAATAAATAAATAAAAATAAAAAG
1 AAAAT-AATAAATAAAAAT-AAAAG
23335084 AAA
1 AAA
23335087 GACTGGGTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
22 8 0.19
23 23 0.55
24 8 0.19
25 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAATAATAAATAAAAATAAAAG
Found at i:23335052 original size:26 final size:25
Alignment explanation
Indices: 23335015--23335082 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 25
23335005 GGAAGAAGAA
23335015 AAATATAAAATAAAAATAAAAGA-AAAT
1 AAATA-AAAATAAAAA-AAAA-ATAAAT
23335042 -AATAAATAATAAAAGAAAAAATAAAT
1 AAATAAA-AATAAAA-AAAAAATAAAT
23335068 AAATAAAAATAAAAA
1 AAATAAAAATAAAAA
23335083 GAAAGACTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
25 4 0.11
26 26 0.70
27 7 0.19
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (25 bp):
AAATAAAAATAAAAAAAAAATAAAT
Found at i:23335054 original size:20 final size:19
Alignment explanation
Indices: 23335021--23335075 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 19
23335011 AGAAAAATAT
23335021 AAAATAAA-AATAAAAGAA
1 AAAATAAATAATAAAAGAA
23335039 AATAATAAATAATAAAAGAA
1 AA-AATAAATAATAAAAGAA
23335059 AAAATAAATAAATAAAA
1 AAAATAAAT-AATAAAA
23335076 ATAAAAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.06
19 13 0.38
20 19 0.56
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (19 bp):
AAAATAAATAATAAAAGAA
Found at i:23335985 original size:15 final size:15
Alignment explanation
Indices: 23335948--23335977 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23335938 AAGGGTCCAT
23335948 GAAATCAATGCCCCA
1 GAAATCAATGCCCCA
23335963 GAAATCAATGCCCCA
1 GAAATCAATGCCCCA
23335978 TACATCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.33, G:0.13, T:0.13
Consensus pattern (15 bp):
GAAATCAATGCCCCA
Found at i:23341906 original size:26 final size:26
Alignment explanation
Indices: 23341870--23341948 Score: 149
Period size: 26 Copynumber: 3.0 Consensus size: 26
23341860 ATGGAAAGTA
23341870 GAAAGTTGTCAACAATAGTTTTGCGT
1 GAAAGTTGTCAACAATAGTTTTGCGT
23341896 GAAAGTTGTCAACAATAGTTTTGCGT
1 GAAAGTTGTCAACAATAGTTTTGCGT
*
23341922 GAAAGTTGTCAACAATGGTTTTGCGT
1 GAAAGTTGTCAACAATAGTTTTGCGT
23341948 G
1 G
23341949 TGATATTATT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.34
Consensus pattern (26 bp):
GAAAGTTGTCAACAATAGTTTTGCGT
Found at i:23343822 original size:11 final size:11
Alignment explanation
Indices: 23343787--23343822 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
23343777 TGTTTATGAT
23343787 TATGATATGTA
1 TATGATATGTA
**
23343798 TAAAATATGTA
1 TATGATATGTA
23343809 TATGATATGTA
1 TATGATATGTA
23343820 TAT
1 TAT
23343823 ATGTGGGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (11 bp):
TATGATATGTA
Found at i:23347176 original size:18 final size:18
Alignment explanation
Indices: 23347153--23347189 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23347143 TGACGAGAAG
23347153 TCTACTTAAGCCCATAGA
1 TCTACTTAAGCCCATAGA
23347171 TCTACTTAAGCCCATAGA
1 TCTACTTAAGCCCATAGA
23347189 T
1 T
23347190 GAAATTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (18 bp):
TCTACTTAAGCCCATAGA
Found at i:23355095 original size:34 final size:34
Alignment explanation
Indices: 23355057--23355124 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
23355047 ATCGCGAATA
*
23355057 GATCAAT-AGTATCAATTTCAAACACAAAATAATT
1 GATCAATGA-TATCAATGTCAAACACAAAATAATT
23355091 GATCAATGATATCAATGTCAAACACAAAATAATT
1 GATCAATGATATCAATGTCAAACACAAAATAATT
23355125 TATTTCCATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (34 bp):
GATCAATGATATCAATGTCAAACACAAAATAATT
Found at i:23356937 original size:132 final size:132
Alignment explanation
Indices: 23356670--23356927 Score: 327
Period size: 132 Copynumber: 2.0 Consensus size: 132
23356660 TTGCCTCGCA
* ** * * * * *
23356670 TTTAGAAAACACGGATGAAATTCCAAAGGGATATTCGATTATTTTGAACAAATGGGAGATTGCAA
1 TTTAGAAAACACGAATGAAATTCCAAAAAGACATTCAATTATTTTGAACAAACGAGAAATTGCAA
* * * ** *
23356735 CCCAGCACGATAGGGCACTATTCCCCAAATTGCTAAACATCGAACATTTCCTTCGTTTTAAAAAG
66 CCCAGCACGATAGGGCACGATTCCCCAAATTGCCAAACATCAAACATCGCCTCCGTTTTAAAAAG
23356800 TT
131 TT
* ** *
23356802 TTTAGAAAACACGAATGAAATTCTAAAAAGACATTCAATTATTTTGGGCAACCGAGAAATTGCAA
1 TTTAGAAAACACGAATGAAATTCCAAAAAGACATTCAATTATTTTGAACAAACGAGAAATTGCAA
* **
23356867 CCCAGCACGGTAGGGCACGATTCCCTGAATTGCCAAACATCAAACATCGCCTCCGTTTTAA
66 CCCAGCACGATAGGGCACGATTCCCCAAATTGCCAAACATCAAACATCGCCTCCGTTTTAA
23356928 GGAATTTTTA
Statistics
Matches: 105, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
132 105 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (132 bp):
TTTAGAAAACACGAATGAAATTCCAAAAAGACATTCAATTATTTTGAACAAACGAGAAATTGCAA
CCCAGCACGATAGGGCACGATTCCCCAAATTGCCAAACATCAAACATCGCCTCCGTTTTAAAAAG
TT
Found at i:23358483 original size:22 final size:24
Alignment explanation
Indices: 23358429--23358483 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
23358419 TATATAACTG
23358429 ATAATAT-TA-AAATATATACATA
1 ATAATATATATAAATATATACATA
* *
23358451 ATATTATATATAAAT-TATTCAT-
1 ATAATATATATAAATATATACATA
23358473 ATAATATATAT
1 ATAATATATAT
23358484 TAAAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.57
23 8 0.29
24 4 0.14
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAATATATATAAATATATACATA
Found at i:23358671 original size:3 final size:3
Alignment explanation
Indices: 23358663--23358701 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
23358653 ACAAGGATAT
23358663 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23358702 TTGAAACACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23358808 original size:3 final size:3
Alignment explanation
Indices: 23358800--23358883 Score: 134
Period size: 3 Copynumber: 27.3 Consensus size: 3
23358790 ACTAATGTAC
23358800 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23358848 AAT AAT AAT AAAT AAAT AAAT AAT AAT -AT AAT AAT A
1 AAT AAT AAT -AAT -AAT -AAT AAT AAT AAT AAT AAT A
23358884 TGAAAATAAC
Statistics
Matches: 79, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.03
3 66 0.84
4 11 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23360674 original size:74 final size:74
Alignment explanation
Indices: 23360399--23361043 Score: 789
Period size: 74 Copynumber: 8.7 Consensus size: 74
23360389 CTCAACTCAT
* * * *
23360399 TCAGCGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGTTGA--TTTTTGAAACATACAAAA
1 TCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-AT---AGA
*
23360462 AATTGACAA-TACC
62 AATT-AAAATTACC
* * ** * * * * * *
23360475 TAAGTATGTCTTGAGGCTCGACTCGCCTCTCGCAATACGAGTTGATTTTTTTGACAACACAAATT
1 TCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAATT
* *
23360540 GAAATTATC
66 AAAATTACC
*
23360549 TCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAATAGAAA
1 TCAGCATGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAA
23360612 TTGAAAA-TACC
64 TT-AAAATTACC
* ** ** *
23360623 TCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATT
1 TCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAATT
*
23360688 GAAATTACC
66 AAAATTACC
* * * * *
23360697 TCAGCGTGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAAATAGAAATT
1 TCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAATT
23360762 AAAATTACC
66 AAAATTACC
* *
23360771 TCAGCATGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTTGAAAATAGAAAT
1 TCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAATAGAAAT
23360836 TAAAATTACC
65 TAAAATTACC
* *
23360846 TCAGCGTGTCCCGAGGCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAATT
1 TCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAATT
23360911 AAAATTACC
66 AAAATTACC
*
23360920 TCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAATT
1 TCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAATT
23360985 AAAATTACC
66 AAAATTACC
* * * ** * *
23360994 TCAGCGTGTTCCGAGGCTCAACCCATTTCTCGCAATATAAGTTGAATTTT
1 TCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
23361044 GAAAACGGAA
Statistics
Matches: 500, Mismatches: 59, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
72 31 0.06
73 5 0.01
74 316 0.63
75 72 0.14
76 67 0.13
77 1 0.00
78 8 0.02
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (74 bp):
TCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAATT
AAAATTACC
Found at i:23360881 original size:223 final size:222
Alignment explanation
Indices: 23360399--23361043 Score: 834
Period size: 223 Copynumber: 2.9 Consensus size: 222
23360389 CTCAACTCAT
* *
23360399 TCAGCGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGTTGA--TTTTTGAAACATACAAAA
1 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AA-A-AC-AGA
* ** ** * * *
23360462 AATTGACAA-TACCTAAGTATGTCTTGAGGCTCGACTCGCCTCTCGCAATACGAGTTGATTTTTT
62 AATTGA-AATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * * * * *
23360526 TGACAACACAAATTGAAATTATCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGA
126 TGAAAATAGAAATTAAAATTACCTCAGCATGT--ACCGAGGCTCAACTCATCTCTCGCAATATGA
23360591 GTTGA--TTTTTGAAAATAGAAATTGAAAATACC
189 GTTGATTTTTTTGAAAATAGAAATTGAAAATACC
* * * **
23360623 TCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATT
1 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATT
* * * *
23360688 GAAATTACCTCAGCGTGTCCCAAGGCTCAATTCATCTCTCGCAATATGAGTTGATTTTTTTAAAA
66 GAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
* *
23360753 ATAGAAATTAAAATTACCTCAGCATGTCCCGAGGCTCAATTCATCTCTCGCAATATGAGTTGATT
131 ATAGAAATTAAAATTACCTCAGCATGTACCGAGGCTCAACTCATCTCTCGCAATATGAGTTGA-T
23360818 TTTTTTGAAAATAGAAATT-AAAATTACC
195 TTTTTTGAAAATAGAAATTGAAAA-TACC
* * *
23360846 TCAGCGTGTCCCGAGGCTCACCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAAATT
1 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATT
*
23360911 AAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
66 GAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
* * * * * *
23360976 ATAGAAATTAAAATTACCTCAGCGTGTTCCGAGGCTCAACCCATTTCTCGCAATATAAGTTGAAT
131 ATAGAAATTAAAATTACCTCAGCATGTACCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATT
23361041 TTT
196 TTT
23361044 GAAAACGGAA
Statistics
Matches: 367, Mismatches: 47, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
220 33 0.09
221 2 0.01
222 86 0.23
223 198 0.54
224 40 0.11
225 2 0.01
226 6 0.02
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (222 bp):
TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATT
GAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
ATAGAAATTAAAATTACCTCAGCATGTACCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATT
TTTTTGAAAATAGAAATTGAAAATACC
Found at i:23373584 original size:22 final size:24
Alignment explanation
Indices: 23373530--23373584 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
23373520 TATATAACTG
23373530 ATAATAT-TA-AAATATATACATA
1 ATAATATATATAAATATATACATA
* *
23373552 ATATTATATATAAAT-TATTCAT-
1 ATAATATATATAAATATATACATA
23373574 ATAATATATAT
1 ATAATATATAT
23373585 TAAAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.57
23 8 0.29
24 4 0.14
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAATATATATAAATATATACATA
Found at i:23373771 original size:3 final size:3
Alignment explanation
Indices: 23373763--23373979 Score: 122
Period size: 3 Copynumber: 69.0 Consensus size: 3
23373753 ACAAGGATAT
23373763 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * ** * * *
23373812 ATA ATA ATA ATA TTGA A-A CACA A-A AGCC ATT ATA ATA AAA ATA TTA
1 ATA ATA ATA ATA AT-A ATA -ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * * *
23373858 A-A ATA A-A GTA ATA GA-A ACA TTA CTA CATA TATA TATA CATA CATGA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -ATA -ATA -ATA -AT-A
* * *
23373904 AGA TATA CACTA ATGT ACA ATA ATA ACT- ATA ATA ATA ATA ATA ATA
1 ATA -ATA -A-TA AT-A ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
23373950 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23373980 TGAAAATAAC
Statistics
Matches: 172, Mismatches: 25, Indels: 34
0.74 0.11 0.15
Matches are distributed among these distances:
2 8 0.05
3 132 0.77
4 29 0.17
5 3 0.02
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:23375582 original size:2 final size:2
Alignment explanation
Indices: 23375575--23375606 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23375565 TAATCAACAA
23375575 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
23375607 TAATACATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23378260 original size:28 final size:28
Alignment explanation
Indices: 23378213--23378309 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
23378203 ATTTAAACCC
* *
23378213 TAGGGGT-ATATT-GGTAATTTTGTTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
23378240 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
23378268 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
23378296 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
23378310 TGATCTACGC
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
27 9 0.14
28 55 0.86
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.46
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:23378966 original size:27 final size:27
Alignment explanation
Indices: 23378930--23378991 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
23378920 GGGCAAAATG
23378930 GTAATTTTACCCTACAAGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCA
* * *
23378957 GTAGTTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCA
23378984 GTAATTTT
1 GTAATTTT
23378992 TCAAACCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (27 bp):
GTAATTTTACCCTACAAGGGTATTTCA
Found at i:23379005 original size:54 final size:54
Alignment explanation
Indices: 23378947--23379097 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
23378937 TACCCTACAA
* ** * * *
23378947 GGGTATTTCAGTAGTTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
23379001 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
23379055 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
23379098 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.02
54 82 0.98
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:23379063 original size:81 final size:81
Alignment explanation
Indices: 23378945--23379097 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
23378935 TTTACCCTAC
* ** *
23378945 AAGGGTATTTCAGTAGTTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
23379009 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
23379026 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
23379090 TGGTAATT
65 TGGTAATT
23379098 CTGTAAATTG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.95
82 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:23379104 original size:27 final size:27
Alignment explanation
Indices: 23378974--23379097 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
23378964 TACCCTACAG
* *
23378974 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
23379001 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
23379028 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
23379055 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
23379082 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
23379098 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:23379111 original size:27 final size:27
Alignment explanation
Indices: 23379081--23379151 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
23379071 TTATAAACCA
* *
23379081 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
23379108 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
23379135 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
23379152 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:23379113 original size:54 final size:54
Alignment explanation
Indices: 23378974--23379097 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
23378964 TACCCTACAG
* *
23378974 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
23379028 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
23379082 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
23379098 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:23379123 original size:81 final size:81
Alignment explanation
Indices: 23378971--23379124 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 81
23378961 TTTTACCCTA
* * ***
23378971 CAGGGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAAGGGTATTT
1 CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
*
23379036 TAGTAATTTTACAAAC
66 CAGTAATTTTACAAAC
* * * ***
23379052 CAGGGGTATTTTGGTGATTTTAT-AAACCAAGGGTATTTTGGTAATTCTGTAAATTGAGGGTAAA
1 CAGGGGTATTTTAGTAATTTT-TCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAA
*
23379116 ACGGTAATT
65 ACAGTAATT
23379125 CTGTAAATCG
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
81 58 0.98
82 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
CAGTAATTTTACAAAC
Found at i:23380557 original size:25 final size:25
Alignment explanation
Indices: 23380528--23380576 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
23380518 GTTTTGGGTG
23380528 TTGGGTTTAGGGGTTGTAAACGGGA
1 TTGGGTTTAGGGGTTGTAAACGGGA
23380553 TTGGGTTTAGGGGTTGTAAACGGG
1 TTGGGTTTAGGGGTTGTAAACGGG
23380577 CCGGGCAAAT
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:0.18, C:0.04, G:0.45, T:0.33
Consensus pattern (25 bp):
TTGGGTTTAGGGGTTGTAAACGGGA
Found at i:23381014 original size:137 final size:137
Alignment explanation
Indices: 23380768--23381157 Score: 618
Period size: 137 Copynumber: 2.8 Consensus size: 137
23380758 TCGGTTCGCC
* * ** * * *
23380768 GCAACTTTAAGGAAATAGGGTTTGTTTTTATCTGCTCTACTGCAACTTTAGAGAGATGAGATCTG
1 GCAACTTTAAGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTG
* *
23380833 TGATTTATAGCTTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTGCTATCTTTAGTCTG
66 TGGTTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTG
*
23380898 CTCTACT
131 CTCCACT
*
23380905 GCAACTTTAAGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGATGAGATATG
1 GCAACTTTAAGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTG
*
23380970 TGGTTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTG
66 TGGTTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTG
23381035 CTCCACT
131 CTCCACT
* * * *
23381042 GCAACTTCAGGGAGATAAGACTTGTGTTGATTTGCTCTACTGCAACTTCAGGGAGATGAGATCTG
1 GCAACTTTAAGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTG
* *
23381107 TGGTTTATAACTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTG
66 TGGTTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTG
23381158 TGTTGATCTA
Statistics
Matches: 233, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
137 233 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.35
Consensus pattern (137 bp):
GCAACTTTAAGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTG
TGGTTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTG
CTCCACT
Found at i:23381182 original size:229 final size:228
Alignment explanation
Indices: 23380902--23381385 Score: 772
Period size: 229 Copynumber: 2.1 Consensus size: 228
23380892 AGTCTGCTCT
* * * * *
23380902 ACTGCAACTTTAAGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGATGAGAT
1 ACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTACTCTACTACAACTTCAGAGAGATGAGAT
*
23380967 ATGTGGTTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTTAGT
66 ATGTGGTTTAAAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTTAGT
* *
23381032 CTGCTCCACT-GCAACTTCAGGGAGATAAGACTTGTGTTGATTTGCTCTACTGCAACTTCAGGGA
131 CTGCT--ACTAGCAACTTCAGGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGA
*
23381096 GATGAGATCTGTGGTTTATAACTTCAATCTGTTCC
194 GATGAGATCTATGGTTTATAACTTCAATCTGTTCC
23381131 ACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTACTCTACTACAACTTCAGAGAGATGAGAT
1 ACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTACTCTACTACAACTTCAGAGAGATGAGAT
* ** *
23381196 CTGTGGTTTAAAGCTTCAATCTGTTCCACTGTAACTTCAGGGAGATAAGATTTGCTATCTTTAGT
66 ATGTGGTTTAAAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTTAGT
* * *
23381261 CTGCTTCTAGTAACTTTAGGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGA
131 CTGCTACTAGCAACTTCAGGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGA
*
23381326 TGAGATCTATGGTTTATAGCTTCAATCTGTTCC
196 TGAGATCTATGGTTTATAACTTCAATCTGTTCC
* *
23381359 ATTGCAACTTCAGGGAAATAAGATTTG
1 ACTGCAACTTCAGGGAGATAAGATTTG
23381386 CTATCTCTAG
Statistics
Matches: 235, Mismatches: 19, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
227 2 0.01
228 108 0.46
229 125 0.53
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (228 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTACTCTACTACAACTTCAGAGAGATGAGAT
ATGTGGTTTAAAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTTAGT
CTGCTACTAGCAACTTCAGGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGA
TGAGATCTATGGTTTATAACTTCAATCTGTTCC
Found at i:23381246 original size:92 final size:92
Alignment explanation
Indices: 23381031--23381249 Score: 359
Period size: 92 Copynumber: 2.4 Consensus size: 92
23381021 CTATCTTTAG
* * * * * *
23381031 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTGATTTGCTCTACTGCAACTTCAGGGA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTACTCTACTACAACTTCAGAGA
23381096 GATGAGATCTGTGGTTTATAACTTCAA
66 GATGAGATCTGTGGTTTATAACTTCAA
23381123 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTACTCTACTACAACTTCAGAGA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTACTCTACTACAACTTCAGAGA
23381188 GATGAGATCTGTGGTTTA-AAGCTTCAA
66 GATGAGATCTGTGGTTTATAA-CTTCAA
*
23381215 TCTGTTCCACTGTAACTTCAGGGAGATAAGATTTG
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTG
23381250 CTATCTTTAG
Statistics
Matches: 119, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
91 2 0.02
92 117 0.98
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (92 bp):
TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTACTCTACTACAACTTCAGAGA
GATGAGATCTGTGGTTTATAACTTCAA
Found at i:23381308 original size:136 final size:136
Alignment explanation
Indices: 23381123--23381432 Score: 460
Period size: 136 Copynumber: 2.3 Consensus size: 136
23381113 ATAACTTCAA
* * *
23381123 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTACTCTACTACAACTTCAGAGA
1 TCTGCTCCAC-GCAACTTTAGGGAGATAAGACTTGTGTTGATCTACTCTACTACAACTTCAGAGA
* * *
23381188 GATGAGATCTGTGGTTTAAAGCTTCAATCTGTTCCACTGTAACTTCAGGGAGATAAGATTTGCTA
65 GATGAGATCTATGGTTTAAAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTA
*
23381253 TCTTTAG
130 TCTCTAG
* * * *
23381260 TCTGCTTCTA-GTAACTTTAGGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGA
1 TCTGC-TCCACGCAACTTTAGGGAGATAAGACTTGTGTTGATCTACTCTACTACAACTTCAGAGA
* *
23381324 GATGAGATCTATGGTTTATAGCTTCAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTTGCTA
65 GATGAGATCTATGGTTTAAAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTA
23381389 TCTCTAG
130 TCTCTAG
*
23381396 TCTGCTCCACTGCAACTTTAGAGAGATAAGACTTGTG
1 TCTGCTCCAC-GCAACTTTAGGGAGATAAGACTTGTG
23381433 ACTTTAATCT
Statistics
Matches: 154, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
135 3 0.02
136 120 0.78
137 28 0.18
138 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (136 bp):
TCTGCTCCACGCAACTTTAGGGAGATAAGACTTGTGTTGATCTACTCTACTACAACTTCAGAGAG
ATGAGATCTATGGTTTAAAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAT
CTCTAG
Found at i:23381626 original size:45 final size:45
Alignment explanation
Indices: 23381525--23381645 Score: 133
Period size: 45 Copynumber: 2.7 Consensus size: 45
23381515 GGCAATTCAG
* *
23381525 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCATCTTCGAT
1 CCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACAATCTTCGAT
* * *
23381570 -CTGCTT-CCCTACTACTTAGGGGGTTAAGATCTGTA-AATCTTC-TT
1 CCTG-TTACCCTACTACTTAGGGGGTTAAG-GCT-CACAATCTTCGAT
*
23381614 CCTGTTACCCTACTACTTAGGGGTTTAAGGCT
1 CCTGTTACCCTACTACTTAGGGGGTTAAGGCT
23381646 TGTGAATTCA
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
44 29 0.45
45 34 0.53
46 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.35
Consensus pattern (45 bp):
CCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACAATCTTCGAT
Found at i:23383196 original size:27 final size:28
Alignment explanation
Indices: 23383166--23383223 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
23383156 TGAATAAATT
*
23383166 AAAAATATTTAA-T-TTATATAA-TATAA
1 AAAAAT-TTTAACTATTAAATAATTATAA
23383192 AAAAATTTTAACTATTAAATAATTATAA
1 AAAAATTTTAACTATTAAATAATTATAA
23383220 AAAA
1 AAAA
23383224 TTCTTAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 5 0.18
26 7 0.25
27 7 0.25
28 9 0.32
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
AAAAATTTTAACTATTAAATAATTATAA
Done.