Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 209 of 356
Found at i:68267047 original size:43 final size:44
Alignment explanation
Indices: 68266963--68267115 Score: 138
Period size: 43 Copynumber: 3.6 Consensus size: 44
68266953 TCTGTGACAT
** * *
68266963 CATGTAAGACTGTGTCTGGGACAT-AGGCCTCGAT-TGAGATTTA
1 CATGTAAGACCATGTCTGGGACATCAGGCATCGATAT-TGATTTA
* *
68267006 CGTATAAGACCATGTCTGGGACATCA-GCATC-ATATATGATTT-
1 CATGTAAGACCATGTCTGGGACATCAGGCATCGATAT-TGATTTA
* * * *
68267048 CATGTAAGACCCTGTCTGAGACA-GAGGCATCGATATTGAATTA
1 CATGTAAGACCATGTCTGGGACATCAGGCATCGATATTGATTTA
* *
68267091 CATGTAAGACCACGTTTGGGACATC
1 CATGTAAGACCATGTCTGGGACATC
68267116 GACATTGTAC
Statistics
Matches: 86, Mismatches: 18, Indels: 11
0.75 0.16 0.10
Matches are distributed among these distances:
41 1 0.01
42 31 0.36
43 53 0.62
44 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
CATGTAAGACCATGTCTGGGACATCAGGCATCGATATTGATTTA
Found at i:68267078 original size:42 final size:43
Alignment explanation
Indices: 68267010--68267102 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 43
68267000 GATTTACGTA
* *
68267010 TAAGACCATGTCTGGGACATCAGCATC-ATATATG-ATTTCATG
1 TAAGACCATGTCTGAGACATCAGCATCGATAT-TGAATTACATG
* *
68267052 TAAGACCCTGTCTGAGACA-GAGGCATCGATATTGAATTACATG
1 TAAGACCATGTCTGAGACATCA-GCATCGATATTGAATTACATG
68267095 TAAGACCA
1 TAAGACCA
68267103 CGTTTGGGAC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
41 1 0.02
42 24 0.56
43 18 0.42
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (43 bp):
TAAGACCATGTCTGAGACATCAGCATCGATATTGAATTACATG
Found at i:68288909 original size:18 final size:19
Alignment explanation
Indices: 68288861--68288928 Score: 102
Period size: 19 Copynumber: 3.6 Consensus size: 19
68288851 ATAATCTTCA
68288861 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
68288880 GTGATATGCAATCTTAAAT
1 ATGATATGCAATCTTAGAT
68288899 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
68288917 ATGATATACAAT
1 ATGATATGCAAT
68288929 ATTAAAAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
18 17 0.40
19 26 0.60
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:68288909 original size:37 final size:38
Alignment explanation
Indices: 68288861--68288934 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 38
68288851 ATAATCTTCA
* * *
68288861 ATGATATGCAATCTTAGATGTGATATGCAATCTTAAAT
1 ATGATATGCAATCTTAGATATGATATACAATATTAAAT
68288899 ATGAT-TGCAATCTTAGATATGATATACAATATTAAA
1 ATGATATGCAATCTTAGATATGATATACAATATTAAA
68288935 AGTTATGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 28 0.85
38 5 0.15
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (38 bp):
ATGATATGCAATCTTAGATATGATATACAATATTAAAT
Found at i:68294676 original size:1 final size:1
Alignment explanation
Indices: 68294670--68294756 Score: 66
Period size: 1 Copynumber: 87.0 Consensus size: 1
68294660 CTTCTATTTC
* * ** * * * * * *
68294670 AAAAAAAAAAAAGAAAAAAAAGAAGGAAAAAAAGAAAAGAAAAAGATAAAAAAAAAGAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
68294735 GAAAAAAGAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAA
68294757 GCAGAGGCCA
Statistics
Matches: 64, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.86, C:0.00, G:0.13, T:0.01
Consensus pattern (1 bp):
A
Found at i:68294688 original size:9 final size:9
Alignment explanation
Indices: 68294670--68294756 Score: 81
Period size: 9 Copynumber: 9.2 Consensus size: 9
68294660 CTTCTATTTC
68294670 AAAA-AAAA
1 AAAAGAAAA
68294678 AAAAGAAAA
1 AAAAGAAAA
68294687 AAAAGAAGGAAA
1 AAAAG-A--AAA
68294699 AAAAGAAAAGA
1 AAAAG-AAA-A
68294710 AAAAGATAAA
1 AAAAGA-AAA
68294720 AAAA-AAGAA
1 AAAAGAA-AA
*
68294729 AAAAGAGAA
1 AAAAGAAAA
68294738 AAAAGAAAA
1 AAAAGAAAA
68294747 AAAA-AAAA
1 AAAAGAAAA
68294755 AA
1 AA
68294757 GCAGAGGCCA
Statistics
Matches: 69, Mismatches: 2, Indels: 16
0.79 0.02 0.18
Matches are distributed among these distances:
8 11 0.16
9 30 0.43
10 10 0.14
11 8 0.12
12 10 0.14
ACGTcount: A:0.86, C:0.00, G:0.13, T:0.01
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:68294712 original size:23 final size:22
Alignment explanation
Indices: 68294673--68294757 Score: 88
Period size: 21 Copynumber: 3.9 Consensus size: 22
68294663 CTATTTCAAA
68294673 AAAAAAAAAG-AAAAAAAAGA-
1 AAAAAAAAAGAAAAAAAAAGAT
*
68294693 AGGAAAAAAAGAAAAGAAAAAGAT
1 A-AAAAAAAAGAAAA-AAAAAGAT
*
68294717 AAAAAAAAAG-AAAAAAGAGA-
1 AAAAAAAAAGAAAAAAAAAGAT
*
68294737 AAAAAGAAAAAAAAAAAAAAG
1 AAAAA-AAAAGAAAAAAAAAG
68294758 CAGAGGCCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
20 6 0.11
21 18 0.33
22 14 0.26
23 15 0.28
24 1 0.02
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.01
Consensus pattern (22 bp):
AAAAAAAAAGAAAAAAAAAGAT
Found at i:68294721 original size:32 final size:34
Alignment explanation
Indices: 68294671--68294757 Score: 108
Period size: 32 Copynumber: 2.6 Consensus size: 34
68294661 TTCTATTTCA
* *
68294671 AAAAAAAAAAAGAAAAAAAAGAAGGAAAAAA-AG
1 AAAAAGAAAAAGAAAAAAAAGAAAGAAAAAAGAG
*
68294704 -AAAAGAAAAAGATAAAAAA-AAAGAAAAAAGAG
1 AAAAAGAAAAAGAAAAAAAAGAAAGAAAAAAGAG
*
68294736 AAAAAAGAAAAAAAAAAAAAAG
1 -AAAAAGAAAAAGAAAAAAAAG
68294758 CAGAGGCCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
31 9 0.20
32 19 0.42
34 17 0.38
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.01
Consensus pattern (34 bp):
AAAAAGAAAAAGAAAAAAAAGAAAGAAAAAAGAG
Found at i:68295951 original size:86 final size:83
Alignment explanation
Indices: 68295798--68296044 Score: 270
Period size: 84 Copynumber: 2.9 Consensus size: 83
68295788 TAACAGGTTC
* *
68295798 ACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGACGATGACTGTCTTAA-CCCTAAGCAG
1 ACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATC-ACGAAGACTGCCTTAATCCCTAAGCAG
68295862 TAGGGTAACAGGCTAAAATT
65 TAGGGTAACAGG-TAAAATT
* * * *
68295882 ACAGATCTTATCT-CCTAAGCAATAGCAGAACAGATCAACGACGACTCGCCTTAATCCCCTAAGC
1 ACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATC-ACGAAGACT-GCCTTAAT-CCCTAAGC
68295946 AGTAGGGTAACAGGTCAAAATT
63 AGTAGGGTAACAGGT-AAAATT
* * * * **
68295968 GCGGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT--CGAAGA-TGCACCTTAACCCCCTAAAT
1 ACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCACGAAGACTG--CCTTAA-TCCCTAAGC
68296030 AGTAGGGTAACAGGT
63 AGTAGGGTAACAGGT
68296045 TAAAGTATAT
Statistics
Matches: 139, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
82 1 0.01
83 29 0.21
84 51 0.37
85 1 0.01
86 39 0.28
87 18 0.13
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (83 bp):
ACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCACGAAGACTGCCTTAATCCCTAAGCAGT
AGGGTAACAGGTAAAATT
Found at i:68307043 original size:25 final size:25
Alignment explanation
Indices: 68306988--68307045 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 25
68306978 AAGGGATCTA
*
68306988 CCCCAATTTATCGAAAAGGGCTTTG
1 CCCCAGTTTATCGAAAAGGGCTTTG
68307013 CCCCAGTTTATC-AGAAAGGGCTTTG
1 CCCCAGTTTATCGA-AAAGGGCTTTG
68307038 CCCCAGTT
1 CCCCAGTT
68307046 ATTAAAATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 1 0.03
25 30 0.97
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (25 bp):
CCCCAGTTTATCGAAAAGGGCTTTG
Found at i:68307240 original size:42 final size:42
Alignment explanation
Indices: 68307193--68307284 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
68307183 TAGTCTCCCC
* ** *
68307193 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
68307235 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
68307277 AAATGGGC
1 AAATGGGC
68307285 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:68309010 original size:42 final size:42
Alignment explanation
Indices: 68308882--68309045 Score: 132
Period size: 42 Copynumber: 3.8 Consensus size: 42
68308872 TAAGATGCCA
* * **
68308882 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATATCG
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCA-A-ATATCG
* * * ** ***
68308926 ATGCTGATAGCCCA-ACAATGCTCTTACACGATGTCTCGTATCG
1 ATGC-CATATCCCAGAC-ATGGTCTTACACGAAATCAAATATCG
* *
68308969 ATGCCATGTCCCAGACATGGTCTTACAGGAAATCAAATATCG
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
68309011 ATGCCATATCTCAGATATGGTTTTACACGAAATCA
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCA
68309046 CACATAACCA
Statistics
Matches: 91, Mismatches: 26, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
42 55 0.60
43 11 0.12
44 5 0.05
45 20 0.22
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:68324531 original size:76 final size:76
Alignment explanation
Indices: 68324405--68324562 Score: 316
Period size: 76 Copynumber: 2.1 Consensus size: 76
68324395 TCATGTATAA
68324405 GATACCTATTAACGTACTTGAAACAGAACTTGAATTTATTGACAAAAATGGATAAGAGACGTCAT
1 GATACCTATTAACGTACTTGAAACAGAACTTGAATTTATTGACAAAAATGGATAAGAGACGTCAT
68324470 TTGTTCAAAAT
66 TTGTTCAAAAT
68324481 GATACCTATTAACGTACTTGAAACAGAACTTGAATTTATTGACAAAAATGGATAAGAGACGTCAT
1 GATACCTATTAACGTACTTGAAACAGAACTTGAATTTATTGACAAAAATGGATAAGAGACGTCAT
68324546 TTGTTCAAAAT
66 TTGTTCAAAAT
68324557 GATACC
1 GATACC
68324563 ATATGGGCTC
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 82 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (76 bp):
GATACCTATTAACGTACTTGAAACAGAACTTGAATTTATTGACAAAAATGGATAAGAGACGTCAT
TTGTTCAAAAT
Found at i:68327134 original size:255 final size:255
Alignment explanation
Indices: 68326683--68327177 Score: 945
Period size: 255 Copynumber: 1.9 Consensus size: 255
68326673 ACATACAACC
68326683 CTTAAATCAAGCAGAAAGATAGCAAAGAGCCAAGGCACTAAAAATGAAATATGCATCTCACAAGG
1 CTTAAATCAAGCAGAAAGATAGCAAAGAGCCAAGGCACTAAAAATGAAATATGCATCTCACAAGG
*
68326748 TTTCAAGTATTTACTTCTAAACCTAATTTTTATTCTTAATCATTTTGCAGACCAAGTATGAAATG
66 TTTCAAGTATTTACTTCTAAACCTAATTTTTATTCTTAATCATTTTGCAGACCAAGTATAAAATG
68326813 CATATCAGCAGTGGCGGCATTGACCACCATTTTCATTAATCTTTCATGGTAAGATTCACCTCTTC
131 CATATCAGCAGTGGCGGCATTGACCACCATTTTCATTAATCTTTCATGGTAAGATTCACCTCTTC
68326878 TCTTAAGGCATTAGATTAAGGAACACCCATGATGTAGGCAAAAAAAGAATATGCATCTCA
196 TCTTAAGGCATTAGATTAAGGAACACCCATGATGTAGGCAAAAAAAGAATATGCATCTCA
*
68326938 CTTAAATCAAGCAGAAAGATAGCAAAGAGCCAAGGCACTAAAAATGAAATATGCATCTCACTAGG
1 CTTAAATCAAGCAGAAAGATAGCAAAGAGCCAAGGCACTAAAAATGAAATATGCATCTCACAAGG
68327003 TTTCAAGTATTTACTTCTAAACCTAATTTTTATTCTTAATCATTTTGCAGACCAAGTATAAAATG
66 TTTCAAGTATTTACTTCTAAACCTAATTTTTATTCTTAATCATTTTGCAGACCAAGTATAAAATG
* * *
68327068 TATATCAGCAGTGGTGGTATTGACCACCATTTTCATTAATCTTTCATGGTAAGATTCACCTCTTC
131 CATATCAGCAGTGGCGGCATTGACCACCATTTTCATTAATCTTTCATGGTAAGATTCACCTCTTC
68327133 TCTTAAGGCATTAGATTAAGGAACACCCATGATGTAGGCAAAAAA
196 TCTTAAGGCATTAGATTAAGGAACACCCATGATGTAGGCAAAAAA
68327178 GTAATATTTA
Statistics
Matches: 235, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
255 235 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (255 bp):
CTTAAATCAAGCAGAAAGATAGCAAAGAGCCAAGGCACTAAAAATGAAATATGCATCTCACAAGG
TTTCAAGTATTTACTTCTAAACCTAATTTTTATTCTTAATCATTTTGCAGACCAAGTATAAAATG
CATATCAGCAGTGGCGGCATTGACCACCATTTTCATTAATCTTTCATGGTAAGATTCACCTCTTC
TCTTAAGGCATTAGATTAAGGAACACCCATGATGTAGGCAAAAAAAGAATATGCATCTCA
Found at i:68338038 original size:30 final size:30
Alignment explanation
Indices: 68338002--68338090 Score: 99
Period size: 31 Copynumber: 2.9 Consensus size: 30
68337992 TTTCATTACA
*
68338002 TAAATTTTGATTTTATACAATTATATATAT
1 TAAATTTTGATTTTATATAATTATATATAT
*
68338032 TAAATTTTGACTTTGATATTAATT-TATATAT
1 TAAATTTTGA-TTTTATA-TAATTATATATAT
* * *
68338063 AAAATTTTTATTTTGATTTAATTATATA
1 TAAATTTTGATTTT-ATATAATTATATA
68338091 ATACATCAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
30 18 0.37
31 27 0.55
32 4 0.08
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (30 bp):
TAAATTTTGATTTTATATAATTATATATAT
Found at i:68341795 original size:27 final size:27
Alignment explanation
Indices: 68341747--68341905 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
68341737 GCGAGGCTGC
* *
68341747 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
68341774 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
68341800 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
68341827 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
68341854 CAGATATATGTGACAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
68341881 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
68341906 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:68341906 original size:54 final size:54
Alignment explanation
Indices: 68341747--68341908 Score: 249
Period size: 54 Copynumber: 3.0 Consensus size: 54
68341737 GCGAGGCTGC
* * *
68341747 CAGATAT-TGTGAC-GAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGACAG-AGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
*
68341800 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
68341854 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
68341908 C
1 C
68341909 GCTTCCTCCA
Statistics
Matches: 101, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
53 12 0.12
54 88 0.87
55 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:68343150 original size:16 final size:16
Alignment explanation
Indices: 68343129--68343161 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
68343119 TCTTATTCCT
*
68343129 TTGCTACTATAGAATA
1 TTGCTACTATAAAATA
68343145 TTGCTACTATAAAATA
1 TTGCTACTATAAAATA
68343161 T
1 T
68343162 AGAATACCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (16 bp):
TTGCTACTATAAAATA
Found at i:68343311 original size:12 final size:12
Alignment explanation
Indices: 68343286--68343323 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
68343276 ACAAAACAAC
68343286 ATAAAAT-A-AG
1 ATAAAATAACAG
68343296 ATAAAATAACAG
1 ATAAAATAACAG
*
68343308 ATAAAATAACAT
1 ATAAAATAACAG
68343320 ATAA
1 ATAA
68343324 CATATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 7 0.28
11 1 0.04
12 17 0.68
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (12 bp):
ATAAAATAACAG
Found at i:68344813 original size:18 final size:18
Alignment explanation
Indices: 68344780--68344859 Score: 112
Period size: 18 Copynumber: 4.6 Consensus size: 18
68344770 AAGGTTTTCT
68344780 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
68344795 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
68344813 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
68344831 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
68344849 TATTGATGATA
1 TATTGATGATA
68344860 ATGATTTCTA
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
15 11 0.19
16 1 0.02
18 47 0.80
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:68344864 original size:9 final size:9
Alignment explanation
Indices: 68344793--68344864 Score: 54
Period size: 9 Copynumber: 8.0 Consensus size: 9
68344783 TGATGATATC
68344793 GATATTGAT
1 GATATTGAT
* *
68344802 GATAGTGAC
1 GATATTGAT
68344811 GATATTGAT
1 GATATTGAT
* * *
68344820 GCTAGTGAC
1 GATATTGAT
68344829 GATATTGAT
1 GATATTGAT
* * *
68344838 GCTAGTGAC
1 GATATTGAT
*
68344847 GCTATTGAT
1 GATATTGAT
*
68344856 GATAATGAT
1 GATATTGAT
68344865 TTCTAGAAAT
Statistics
Matches: 46, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (9 bp):
GATATTGAT
Found at i:68348848 original size:9 final size:9
Alignment explanation
Indices: 68348825--68348883 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
68348815 TAACACATTT
68348825 TATTAA-AA
1 TATTAATAA
*
68348833 AATTAATAA
1 TATTAATAA
*
68348842 TATTAATTA
1 TATTAATAA
* *
68348851 TTTTAATTA
1 TATTAATAA
68348860 -ATTAATAA
1 TATTAATAA
*
68348868 TATTAAAAAA
1 TATT-AATAA
68348878 TATTAA
1 TATTAA
68348884 ACTAATTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
8 11 0.27
9 22 0.54
10 8 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TATTAATAA
Found at i:68348937 original size:31 final size:30
Alignment explanation
Indices: 68348901--68348960 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
68348891 AATAGCATTA
68348901 TAAAATATAA-ATATCAAATTATATTAAAAAT
1 TAAAATATAAGA-AT-AAATTATATTAAAAAT
*
68348932 TAAAATATAAGAATTAATTATATTAAAAA
1 TAAAATATAAGAATAAATTATATTAAAAA
68348961 AAATCAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 14 0.52
31 12 0.44
32 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (30 bp):
TAAAATATAAGAATAAATTATATTAAAAAT
Found at i:68355087 original size:32 final size:30
Alignment explanation
Indices: 68355043--68355112 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 30
68355033 AAAAATTAAA
68355043 ATAAATATAATTTTCAAAAATTTTA-AAAATAT
1 ATAAA-ATAA-TTTCAAAAATTTTACAAAAT-T
*
68355075 ATAAAATGAATTTCCAAAATTTTATCAAAATT
1 ATAAAAT-AATTTCAAAAATTTTA-CAAAATT
68355107 ATAAAA
1 ATAAAA
68355113 ACTTGAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
31 15 0.44
32 14 0.41
33 5 0.15
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (30 bp):
ATAAAATAATTTCAAAAATTTTACAAAATT
Found at i:68358886 original size:20 final size:20
Alignment explanation
Indices: 68358861--68358900 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
68358851 GTAGCTTAAG
68358861 TTAAAAATTAAAGAAAATGT
1 TTAAAAATTAAAGAAAATGT
*
68358881 TTAAAAATTAAAGTAAATGT
1 TTAAAAATTAAAGAAAATGT
68358901 GATAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (20 bp):
TTAAAAATTAAAGAAAATGT
Found at i:68358907 original size:20 final size:20
Alignment explanation
Indices: 68358862--68358908 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
68358852 TAGCTTAAGT
*
68358862 TAAAAATTAAAGAAAATGTT
1 TAAAAATTAAAGAAAATGTA
*
68358882 TAAAAATTAAAGTAAATGTGA
1 TAAAAATTAAAGAAAATGT-A
68358903 TAAAAA
1 TAAAAA
68358909 ATATTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.28
Consensus pattern (20 bp):
TAAAAATTAAAGAAAATGTA
Found at i:68363811 original size:27 final size:27
Alignment explanation
Indices: 68363781--68363842 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
68363771 AAATTGTACA
** * *
68363781 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAAATGAATATGAT
68363808 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAAATGAATATGAT
68363835 GCACTAAG
1 GCACTAAG
68363843 NNNNNNNNNN
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:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAAATGAATATGAT
Found at i:68377573 original size:29 final size:29
Alignment explanation
Indices: 68377510--68377577 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
68377500 TAATCACCCA
* *
68377510 CGCACACTCAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTACCATGCACTTTAAACT
* **
68377539 CACACACTTAGTACCATGCA-TTTCAAGTT
1 CGCACACTTAGTACCATGCACTTT-AAACT
68377568 CGCACACTTA
1 CGCACACTTA
68377578 CCTTTTTCCG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTACCATGCACTTTAAACT
Found at i:68377719 original size:29 final size:30
Alignment explanation
Indices: 68377680--68377758 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
68377670 CTTAATAATC
68377680 AACCGCGCACACTTAGTGCCATGTAC-TGTA
1 AACC-CGCACACTTAGTGCCATGTACATGTA
* *
68377710 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATGTA
68377739 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
68377759 ATCTCATGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATGTA
Found at i:68377722 original size:175 final size:175
Alignment explanation
Indices: 68377398--68377725 Score: 498
Period size: 175 Copynumber: 1.9 Consensus size: 175
68377388 AACTCAAGGT
* ** *
68377398 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGCCGCACCCTTCGTGTAAATAATTTATG
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGCCGCACCCTTAATGTAAATAATTTATA
* * *
68377463 GAAAATATATATATTGGGTTGCACACATAATGTTTAGTAATCACCCACGCACACTCAGTGCCATG
66 GAAAATATATATATTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTCAGTGCCATG
*
68377528 CACTTTAAACTCACACACTTAGTACCATGCATTTCAAGTTCGCAC
131 CACTGTAAACTCACACACTTAGTACCATGCATTTCAAGTTCGCAC
*
68377573 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
1 ACTTACC-TTTTCCGCTGTCCAAAATCGACTCGGTAAAGCCGCACCCTTAATGTAAATAATTTAT
* * *
68377638 AG-AAA-ATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCA
65 AGAAAATATATATATTGGGTT-GCACACATAATGCTTAATAATCAACCACGCACACTCAGTGCCA
* *
68377701 TGTACTGTAAACTCGCACACTTAGT
129 TGCACTGTAAACTCACACACTTAGT
68377726 GCTGTACAAT
Statistics
Matches: 137, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
174 14 0.10
175 69 0.50
176 54 0.39
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (175 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGCCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATATTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTCAGTGCCATG
CACTGTAAACTCACACACTTAGTACCATGCATTTCAAGTTCGCAC
Found at i:68385615 original size:29 final size:29
Alignment explanation
Indices: 68385552--68385619 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
68385542 TAATCACCCA
* *
68385552 CGCACACTCAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTACCATGCACTTTAAACT
* **
68385581 CACACACTTAGTACCATGCA-TTTCAAGTT
1 CGCACACTTAGTACCATGCACTTT-AAACT
68385610 CGCACACTTA
1 CGCACACTTA
68385620 CCTTTTTCCG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTACCATGCACTTTAAACT
Found at i:68385761 original size:29 final size:30
Alignment explanation
Indices: 68385722--68385800 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
68385712 CTTAATAATC
68385722 AACCGCGCACACTTAGTGCCATGTAC-TGTA
1 AACC-CGCACACTTAGTGCCATGTACATGTA
* *
68385752 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATGTA
68385781 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
68385801 ATCTCATGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATGTA
Found at i:68389921 original size:16 final size:16
Alignment explanation
Indices: 68389902--68389977 Score: 73
Period size: 16 Copynumber: 4.8 Consensus size: 16
68389892 AACCCCCATA
* *
68389902 TATGTGAACCTTTATG
1 TATGCGAACCCTTATG
*
68389918 TATGCGAATCCC-CATG
1 TATGCGAA-CCCTTATG
* *
68389934 TATGCAAACCCTTAGG
1 TATGCGAACCCTTATG
*
68389950 TATGTGAACCCTTATG
1 TATGCGAACCCTTATG
*
68389966 AATGCGAACCCT
1 TATGCGAACCCT
68389978 AGGTGAACTA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
15 3 0.06
16 42 0.89
17 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (16 bp):
TATGCGAACCCTTATG
Found at i:68390271 original size:58 final size:58
Alignment explanation
Indices: 68390137--68390264 Score: 190
Period size: 58 Copynumber: 2.3 Consensus size: 58
68390127 TGAATCCTAC
* * * *
68390137 ATATTATGCAAACCCATATACAAACCCTTATATGATTTAGTATGCGATTTCTTACCAT
1 ATATTATGCGAACCCATATACAAACCATTATATAATTTAGTATGCGATCTCTTACCAT
*
68390195 ATATTATGCGAACCCATATGCAAACCATTATATAATTTAGTATGCGATCTCTTA-C-T
1 ATATTATGCGAACCCATATACAAACCATTATATAATTTAGTATGCGATCTCTTACCAT
68390251 ATA-TATGCGAACCC
1 ATATTATGCGAACCC
68390265 TACATATTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
55 11 0.17
56 4 0.06
57 1 0.02
58 49 0.75
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (58 bp):
ATATTATGCGAACCCATATACAAACCATTATATAATTTAGTATGCGATCTCTTACCAT
Found at i:68390277 original size:73 final size:75
Alignment explanation
Indices: 68390195--68390351 Score: 255
Period size: 73 Copynumber: 2.1 Consensus size: 75
68390185 TTCTTACCAT
68390195 ATATTATGCGAACCCATATGCAAACCATTATATAATTTAGTATGCGATCTCTTAC-TATA-TATG
1 ATATTATGCGAACCCATATGCAAACCATTATATAATTTAGTATGCGATCTCTTACATATATTATG
68390258 CGAACCCTAC
66 CGAACCCTAC
* * *
68390268 ATATTATGCGAACCCATATGCAAACCCTTATATGATTTAGTATGTGATCTCTTACTATATATTAT
1 ATATTATGCGAACCCATATGCAAACCATTATATAATTTAGTATGCGATCTCTTAC-ATATATTAT
*
68390333 GCGAACCCTAT
65 GCGAACCCTAC
68390344 ATATTATG
1 ATATTATG
68390352 TGGACCCTAT
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
73 52 0.68
75 4 0.05
76 21 0.27
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (75 bp):
ATATTATGCGAACCCATATGCAAACCATTATATAATTTAGTATGCGATCTCTTACATATATTATG
CGAACCCTAC
Found at i:68390311 original size:131 final size:134
Alignment explanation
Indices: 68390065--68390345 Score: 408
Period size: 131 Copynumber: 2.1 Consensus size: 134
68390055 TATAAGTGAA
* * * **
68390065 TATGTGAACCCATAAGCAAACTCTTATATGATTTAGCATGCGATCTCTTACCATATATTATTTGA
1 TATGCGAACCCATATGCAAACTCTTATATAATTTAGCATGCGATCTCTTACCATATATTATGCGA
* *
68390130 ATCCTACATATTATGCAAACCCATATACAAACCCTTATATGATTTAGTATGCGATTTCTTACCAT
66 ACCCTACATATTATGCAAACCCATATACAAACCCTTATATGATTTAGTATGCGATCTCTTACCAT
68390195 ATAT
131 ATAT
*
68390199 TATGCGAACCCATATGCAAAC-CATTATATAATTTAGTATGCGATCTCTTA-C-TATA-TATGCG
1 TATGCGAACCCATATGCAAACTC-TTATATAATTTAGCATGCGATCTCTTACCATATATTATGCG
* * * *
68390260 AACCCTACATATTATGCGAACCCATATGCAAACCCTTATATGATTTAGTATGTGATCTCTTACTA
65 AACCCTACATATTATGCAAACCCATATACAAACCCTTATATGATTTAGTATGCGATCTCTTACCA
68390325 TATAT
130 TATAT
68390330 TATGCGAACCCTATAT
1 TATGCGAACCC-ATAT
68390346 ATTATGTGGA
Statistics
Matches: 133, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
131 79 0.59
132 8 0.06
133 2 0.02
134 44 0.33
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.36
Consensus pattern (134 bp):
TATGCGAACCCATATGCAAACTCTTATATAATTTAGCATGCGATCTCTTACCATATATTATGCGA
ACCCTACATATTATGCAAACCCATATACAAACCCTTATATGATTTAGTATGCGATCTCTTACCAT
ATAT
Found at i:68390345 original size:18 final size:18
Alignment explanation
Indices: 68390322--68390381 Score: 86
Period size: 18 Copynumber: 3.3 Consensus size: 18
68390312 TGATCTCTTA
68390322 CTATATATTATGCGAACC
1 CTATATATTATGCGAACC
* *
68390340 CTATATATTATGTGGACC
1 CTATATATTATGCGAACC
68390358 CTATAT-TATATGCGAACC
1 CTATATAT-TATGCGAACC
68390376 CTATAT
1 CTATAT
68390382 GAATTAGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
17 1 0.03
18 36 0.97
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (18 bp):
CTATATATTATGCGAACC
Found at i:68390382 original size:13 final size:13
Alignment explanation
Indices: 68390364--68390424 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
68390354 GACCCTATAT
68390364 TATATGCGAACCC
1 TATATGCGAACCC
*
68390377 TATAT--GAA--T
1 TATATGCGAACCC
68390386 TAGTATGCGAACCC
1 TA-TATGCGAACCC
*
68390400 TATGTGCGAACCC
1 TATATGCGAACCC
68390413 TATATGCGAACC
1 TATATGCGAACC
68390425 TGTTATGTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
9 2 0.05
10 3 0.08
11 3 0.08
12 3 0.08
13 26 0.67
14 2 0.05
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (13 bp):
TATATGCGAACCC
Found at i:68392722 original size:24 final size:24
Alignment explanation
Indices: 68392672--68392725 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
68392662 AATCGAATTT
*
68392672 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
68392696 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
68392720 GCACAC
1 GCACAC
68392726 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:68396538 original size:24 final size:24
Alignment explanation
Indices: 68396511--68396562 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
68396501 TTAGTAAGTC
*
68396511 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
68396535 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
68396559 AAAT
1 AAAT
68396563 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:68399070 original size:55 final size:55
Alignment explanation
Indices: 68398986--68399097 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
68398976 AGTAATCTTC
68398986 TTCGTTATCCTCAAGCTCACATTTGTTGAGTGTGGGTTTGTTTTGAATAAAAAAA
1 TTCGTTATCCTCAAGCTCACATTTGTTGAGTGTGGGTTTGTTTTGAATAAAAAAA
68399041 TTCGTTATCCTCAAGCTCACATTTGTTGAGTGTGGGTTTGTTTTGAATAAAAAAA
1 TTCGTTATCCTCAAGCTCACATTTGTTGAGTGTGGGTTTGTTTTGAATAAAAAAA
68399096 TT
1 TT
68399098 TGCACCAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (55 bp):
TTCGTTATCCTCAAGCTCACATTTGTTGAGTGTGGGTTTGTTTTGAATAAAAAAA
Found at i:68412947 original size:26 final size:26
Alignment explanation
Indices: 68412918--68412972 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
68412908 GATCATTACA
68412918 ATTCTTTAAGTTCTTAGATGAAAATG
1 ATTCTTTAAGTTCTTAGATGAAAATG
*
68412944 ATTCTTTAAGTTCTTAGATGCAAATG
1 ATTCTTTAAGTTCTTAGATGAAAATG
68412970 ATT
1 ATT
68412973 GTGACTTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.44
Consensus pattern (26 bp):
ATTCTTTAAGTTCTTAGATGAAAATG
Found at i:68421393 original size:17 final size:18
Alignment explanation
Indices: 68421367--68421402 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
68421357 CCGATTGTTT
68421367 TGTGTCGGCC-ACACGGG
1 TGTGTCGGCCTACACGGG
*
68421384 TGTGTGGGCCTACACGGG
1 TGTGTCGGCCTACACGGG
68421402 T
1 T
68421403 AAACCACACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.11, C:0.25, G:0.42, T:0.22
Consensus pattern (18 bp):
TGTGTCGGCCTACACGGG
Found at i:68423783 original size:43 final size:43
Alignment explanation
Indices: 68423706--68423876 Score: 211
Period size: 43 Copynumber: 4.0 Consensus size: 43
68423696 TCTGAATTCA
* **
68423706 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* * *
68423748 TTCACCGGCATTATAGCCTGTTAGGCCCGAGGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
*
68423791 CTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCC-ATTATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGA-TATCAT
* * * *
68423834 TTCACCAGAATTATAGTCTGCTAGGCTCGAAGCCCGTATATCA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
68423877 CATTTCGATA
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 13 0.12
43 91 0.83
44 5 0.05
45 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:68424102 original size:20 final size:20
Alignment explanation
Indices: 68424049--68424102 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 20
68424039 ATCAAAGTCG
*
68424049 ACTACGGATTTTATCGAATA
1 ACTATGGATTTTATCGAATA
68424069 ACTTACCTTGGATTTTATCGAATA
1 AC-TA---TGGATTTTATCGAATA
68424093 ACTATGGATT
1 ACTATGGATT
68424103 GACTAATCGA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
20 8 0.28
21 2 0.07
23 2 0.07
24 17 0.59
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (20 bp):
ACTATGGATTTTATCGAATA
Found at i:68442409 original size:3 final size:3
Alignment explanation
Indices: 68442401--68442431 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
68442391 TGTAATTTTG
*
68442401 TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
68442432 TTTTCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:68443569 original size:40 final size:40
Alignment explanation
Indices: 68443514--68443592 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
68443504 AACATAAGAG
68443514 TCTAATTTCACAATTTAAACATACCTTAATTAATCATGCA
1 TCTAATTTCACAATTTAAACATACCTTAATTAATCATGCA
*
68443554 TCTAATTTCACAATTTAAACATACCTTAATTAATTATGC
1 TCTAATTTCACAATTTAAACATACCTTAATTAATCATGC
68443593 TTTTAACCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (40 bp):
TCTAATTTCACAATTTAAACATACCTTAATTAATCATGCA
Found at i:68446489 original size:17 final size:17
Alignment explanation
Indices: 68446467--68446499 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
68446457 CATATATGAA
68446467 ACAATATGA-AAAAACAC
1 ACAATAT-ACAAAAACAC
68446484 ACAATATACAAAAACA
1 ACAATATACAAAAACA
68446500 ATATGGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.67, C:0.18, G:0.03, T:0.12
Consensus pattern (17 bp):
ACAATATACAAAAACAC
Found at i:68446728 original size:13 final size:13
Alignment explanation
Indices: 68446710--68446735 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68446700 TGATTTAATT
68446710 AATGATATATATA
1 AATGATATATATA
68446723 AATGATATATATA
1 AATGATATATATA
68446736 TAAAGATACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
AATGATATATATA
Found at i:68446734 original size:15 final size:14
Alignment explanation
Indices: 68446714--68446757 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
68446704 TTAATTAATG
68446714 ATATATATAAATGAT
1 ATATATATAAA-GAT
68446729 ATATATATAAAGAT
1 ATATATATAAAGAT
68446743 ACTAATATATGAAAG
1 A-T-ATATAT-AAAG
68446758 TATTTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.15
15 12 0.46
16 6 0.23
17 4 0.15
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (14 bp):
ATATATATAAAGAT
Found at i:68446751 original size:14 final size:15
Alignment explanation
Indices: 68446714--68446743 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
68446704 TTAATTAATG
68446714 ATATATATAAATGAT
1 ATATATATAAATGAT
68446729 ATATATATAAA-GAT
1 ATATATATAAATGAT
68446743 A
1 A
68446744 CTAATATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
ATATATATAAATGAT
Found at i:68446864 original size:31 final size:30
Alignment explanation
Indices: 68446813--68446881 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
68446803 GGAAACAAAT
*
68446813 TATACATAAATAAATTTAAAAGAATATATA
1 TATACATAAATAAATTTAAAAGAAAATATA
* *
68446843 TATATATATAATAGATTTAAAAGAAAATAT-
1 TATACATA-AATAAATTTAAAAGAAAATATA
68446873 T-TACATAAA
1 TATACATAAA
68446882 ATAATATGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 2 0.06
29 5 0.15
30 8 0.24
31 19 0.56
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (30 bp):
TATACATAAATAAATTTAAAAGAAAATATA
Found at i:68450273 original size:46 final size:46
Alignment explanation
Indices: 68450200--68450375 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
68450190 TATTTGGGCA
68450200 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCG
* * * * *
68450246 TCCGAACTCGTTGAGTTAAGT-TCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATG---CGA-GCG
* * *
68450293 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCG
* *
68450339 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
68450376 TCGGGTTACA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
43 4 0.04
45 5 0.05
46 61 0.58
47 29 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCG
Found at i:68450355 original size:93 final size:93
Alignment explanation
Indices: 68450196--68450368 Score: 269
Period size: 93 Copynumber: 1.9 Consensus size: 93
68450186 GGGATATTTG
* *
68450196 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
68450261 TTAAGT-TCGAGTTCGTGAGATGTAACTA
66 TTAAGTCT-GAGTTCGTGAGATGTAACTA
* *
68450289 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGA
*
68450353 GTTGAGTCTGAGTTCG
65 GTTAAGTCTGAGTTCG
68450369 CTTATGGTCG
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 2 0.03
93 70 0.96
94 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTAAGTCTGAGTTCGTGAGATGTAACTA
Found at i:68453351 original size:15 final size:15
Alignment explanation
Indices: 68453312--68453391 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
68453302 GTATCTTGGG
*
68453312 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
68453327 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
68453342 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
68453357 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
68453372 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
68453386 TTTCTT
1 TTTCTT
68453392 GTTACCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:68453381 original size:30 final size:30
Alignment explanation
Indices: 68453303--68453390 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
68453293 CATAGTATCG
* * *
68453303 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
68453333 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
68453363 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
68453391 TGTTACCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:68455018 original size:93 final size:93
Alignment explanation
Indices: 68454859--68455029 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
68454849 GGATGGTTGA
* * * *
68454859 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
68454924 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * **
68454952 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCAAC-TATGGATGTGAACGCCCGAGCTTGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGCCCGAACTCATTGAG
68455016 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
68455030 ACTTAGGGGC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 66 0.97
94 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:68457979 original size:15 final size:15
Alignment explanation
Indices: 68457957--68458027 Score: 90
Period size: 15 Copynumber: 4.7 Consensus size: 15
68457947 GTATCTTGGG
68457957 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
68457972 TCTCTTTATTTTGGA
1 TTTCTTTATTCTGGA
*
68457987 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
68458002 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
68458017 TTTCTTTATTC
1 TTTCTTTATTC
68458028 GGTTTCCTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
14 2 0.04
15 42 0.91
16 2 0.04
ACGTcount: A:0.11, C:0.15, G:0.13, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:68457993 original size:30 final size:30
Alignment explanation
Indices: 68457948--68458027 Score: 115
Period size: 30 Copynumber: 2.7 Consensus size: 30
68457938 CATAGTATCG
* *
68457948 TATCTTGGGTTTCTTTATTCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* * *
68457978 TATTTTGGATTTCTTTATTCTGGGTTTCTC
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
68458008 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
68458028 GGTTTCCTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.11, C:0.15, G:0.15, T:0.59
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:68460480 original size:46 final size:46
Alignment explanation
Indices: 68460430--68460596 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 46
68460420 AGCATCCGAG
68460430 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAA
* * * *
68460476 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCTGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCTGAA
* * * * * * *
68460523 CTCGTTGAGTTGAGTCTGAGGTCACCTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAA
68460569 CTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTA
68460597 GGGGCGGGTT
Statistics
Matches: 94, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 51 0.54
47 27 0.29
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAA
Found at i:68460580 original size:93 final size:93
Alignment explanation
Indices: 68460421--68460591 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
68460411 GGATGGTTGA
* * * * * *
68460421 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGGTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
68460486 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
68460514 GCATCTGAACTCGTTGAGTTGAGTCTGAGGTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGGTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
68460579 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
68460592 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGGTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:68464170 original size:46 final size:46
Alignment explanation
Indices: 68464114--68464287 Score: 157
Period size: 46 Copynumber: 3.9 Consensus size: 46
68464104 GGATATTTGG
68464114 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
68464160 GCTTCCGAACTC-----GTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA
* * *
68464201 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGA
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* ** *
68464248 ACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68464288 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
38 4 0.04
40 2 0.02
41 17 0.17
42 9 0.09
46 47 0.47
47 16 0.16
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:68466039 original size:64 final size:63
Alignment explanation
Indices: 68465927--68466048 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 63
68465917 TGTATCTATG
** *
68465927 CTTATGCCAAAAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGCAATA
1 CTTATGCCAAAAATTAGGACACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGCAATA
*
68465990 CTTATGTCAAATAATTAGGACACTATGATCGAAATGAATCAAATGCTCCTAACTAGATG
1 CTTATGCCAAA-AATTAGGACACTATGATCGAAATGAATCAAATGCTCCTAACTAGATG
68466049 TGTTATGATA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
63 10 0.19
64 44 0.81
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (63 bp):
CTTATGCCAAAAATTAGGACACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGCAATA
Found at i:68476675 original size:10 final size:10
Alignment explanation
Indices: 68476662--68476686 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
68476652 TTTTAATAAA
68476662 TTTTCCAATG
1 TTTTCCAATG
68476672 TTTTCCAATG
1 TTTTCCAATG
68476682 TTTTC
1 TTTTC
68476687 GGTTTAGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.20, G:0.08, T:0.56
Consensus pattern (10 bp):
TTTTCCAATG
Found at i:68477109 original size:11 final size:11
Alignment explanation
Indices: 68477095--68477121 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
68477085 TCCTCTCTAA
68477095 ATTCTCTTAGC
1 ATTCTCTTAGC
68477106 ATTCTCTTAGC
1 ATTCTCTTAGC
68477117 ATTCT
1 ATTCT
68477122 TCTTTTCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.26, G:0.07, T:0.48
Consensus pattern (11 bp):
ATTCTCTTAGC
Found at i:68479220 original size:27 final size:26
Alignment explanation
Indices: 68479188--68479269 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 26
68479178 AAGACTCCCG
*
68479188 ATTTGTAAGATTACCGAAATATCCCCT
1 ATTTGTAAAATTACCGAAATA-CCCCT
** * *
68479215 ATTTGTAAAATTATTGAAACACTCCCG
1 ATTTGTAAAATTACCGAAATAC-CCCT
*
68479242 ATTTTTAAAATTACCGAAATACCCCT
1 ATTTGTAAAATTACCGAAATACCCCT
68479268 AT
1 AT
68479270 AGGGTAAAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
26 6 0.14
27 38 0.86
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.34
Consensus pattern (26 bp):
ATTTGTAAAATTACCGAAATACCCCT
Found at i:68479766 original size:43 final size:43
Alignment explanation
Indices: 68479716--68479841 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
68479706 CTAGTATTGA
* * *
68479716 TCTGTTAAGGTCGCATGGGTCACTCGAGACGACTGTGGACTAT
1 TCTGTTAAGGTCGCACGGGTCACACGAGACAACTGTGGACTAT
* * * *
68479759 TTTGTTAAGGTTGCACGGGTCGCACGAGACAACTGTGGACTGT
1 TCTGTTAAGGTCGCACGGGTCACACGAGACAACTGTGGACTAT
* ** *
68479802 TCTGTTAAGGTCGCACGGGTCGCGTGAGACAATTGTGGAC
1 TCTGTTAAGGTCGCACGGGTCACACGAGACAACTGTGGAC
68479842 CGACCGATGT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.27
Consensus pattern (43 bp):
TCTGTTAAGGTCGCACGGGTCACACGAGACAACTGTGGACTAT
Found at i:68483870 original size:27 final size:26
Alignment explanation
Indices: 68483832--68483920 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 26
68483822 GATCATTAAG
*
68483832 ACCCCTGATTTGTAAGATTACCGAAAT
1 ACCCCTG-TTTGTAAAATTACCGAAAT
* *
68483859 ACCCCTAGTTTGTAAAATTACCAAAAC
1 ACCCCT-GTTTGTAAAATTACCGAAAT
* *
68483886 ACCCCCGGTTTGTAAAATTACTGAAAT
1 A-CCCCTGTTTGTAAAATTACCGAAAT
68483913 ACCCCTGT
1 ACCCCTGT
68483921 AAGATAAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.12
27 41 0.79
28 5 0.10
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (26 bp):
ACCCCTGTTTGTAAAATTACCGAAAT
Found at i:68484225 original size:43 final size:43
Alignment explanation
Indices: 68484177--68484260 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
68484167 GATAGGATCA
68484177 TACGGGTCACACGAGACGACTGTGGACTATTCTGTTAAGGTTG
1 TACGGGTCACACGAGACGACTGTGGACTATTCTGTTAAGGTTG
** *
68484220 TACGGGTCGTACGAGACGACTGTGGACTATTTTGTTAAGGT
1 TACGGGTCACACGAGACGACTGTGGACTATTCTGTTAAGGT
68484261 CACACAGGTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.30
Consensus pattern (43 bp):
TACGGGTCACACGAGACGACTGTGGACTATTCTGTTAAGGTTG
Found at i:68484271 original size:43 final size:43
Alignment explanation
Indices: 68484187--68484289 Score: 143
Period size: 43 Copynumber: 2.4 Consensus size: 43
68484177 TACGGGTCAC
*** *
68484187 ACGAGACGACTGTGGACTATTCTGTTAAGGTTGTACGGGTCGT
1 ACGAGACGACTGTGGACTATTCTGTTAAGGTCACACAGGTCGT
*
68484230 ACGAGACGACTGTGGACTATTTTGTTAAGGTCACACAGGTCGT
1 ACGAGACGACTGTGGACTATTCTGTTAAGGTCACACAGGTCGT
* *
68484273 GCGAGATGACTGTGGAC
1 ACGAGACGACTGTGGAC
68484290 CTACCAATGG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.27
Consensus pattern (43 bp):
ACGAGACGACTGTGGACTATTCTGTTAAGGTCACACAGGTCGT
Found at i:68494749 original size:13 final size:13
Alignment explanation
Indices: 68494731--68494755 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68494721 GAATTAGCAT
68494731 GTGTGAAAGTTTC
1 GTGTGAAAGTTTC
68494744 GTGTGAAAGTTT
1 GTGTGAAAGTTT
68494756 AATTGTTTGT
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:0.24, C:0.04, G:0.32, T:0.40
Consensus pattern (13 bp):
GTGTGAAAGTTTC
Found at i:68498158 original size:28 final size:28
Alignment explanation
Indices: 68498120--68498299 Score: 290
Period size: 28 Copynumber: 6.5 Consensus size: 28
68498110 TAAATTGTAC
*
68498120 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
68498148 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
68498176 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
68498204 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
68498232 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
68498260 AGCACTAACTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
68498287 AGCACTGAGTGTG
1 AGCACTAAGTGTG
68498300 TTGACTCAAT
Statistics
Matches: 145, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
27 21 0.14
28 124 0.86
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:68506420 original size:28 final size:28
Alignment explanation
Indices: 68506382--68506563 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
68506372 TAAATTGTAC
*
68506382 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
68506410 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
68506438 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
68506466 AGCACTAAGTGTGCGAGTTTAATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
68506494 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
68506522 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
68506549 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
68506564 GACTTAATAT
Statistics
Matches: 146, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 25 0.17
28 121 0.83
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:68520240 original size:47 final size:47
Alignment explanation
Indices: 68520210--68520648 Score: 698
Period size: 47 Copynumber: 9.3 Consensus size: 47
68520200 GAGAACATGC
*
68520210 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
68520257 ATGTATATGTGATAAGGCCTAATGGACGATGTGATGAATGTGAAAGTGT
1 A--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
68520306 ATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
68520353 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
68520400 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
68520447 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
68520494 ATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * * * * *
68520541 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * * * *
68520588 ATATATGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
68520635 ATAAATGTGATAAG
1 ATATATGTGATAAG
68520649 TCCCGAAGGG
Statistics
Matches: 373, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 328 0.88
49 45 0.12
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:68520825 original size:37 final size:37
Alignment explanation
Indices: 68520767--68520845 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
68520757 CCGAGCTCTA
* * * * **
68520767 AAGACCCGATGACTACGTGTGGGGATTTTGTTCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGCCCGGGT
*
68520804 AAGACCCGATAACTTCATGTGGAGATTATGCCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGCCCGGGT
68520841 AAGAC
1 AAGAC
68520846 TTCGTAATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGCCCGGGT
Found at i:68530052 original size:8 final size:8
Alignment explanation
Indices: 68530039--68530065 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
68530029 CCTTGGGAGA
68530039 TTCGGCTT
1 TTCGGCTT
68530047 TTCGGCTT
1 TTCGGCTT
68530055 TTCGGCTT
1 TTCGGCTT
68530063 TTC
1 TTC
68530066 AAACTTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.26, G:0.22, T:0.52
Consensus pattern (8 bp):
TTCGGCTT
Found at i:68530794 original size:16 final size:16
Alignment explanation
Indices: 68530773--68530810 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
68530763 ATAAAGAAAG
*
68530773 TTTGGGATTCGGGATT
1 TTTGGGATTCGAGATT
*
68530789 TTTGGGTTTCGAGATT
1 TTTGGGATTCGAGATT
68530805 TTTGGG
1 TTTGGG
68530811 GCGTTACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.05, G:0.37, T:0.47
Consensus pattern (16 bp):
TTTGGGATTCGAGATT
Found at i:68535372 original size:57 final size:59
Alignment explanation
Indices: 68535271--68535391 Score: 147
Period size: 57 Copynumber: 2.1 Consensus size: 59
68535261 TTTTTCAGGT
* * * * *
68535271 CATTTTCATTTTTTATTTTGGAGAACACCACATTTATTTCCAAATGATTGC-ATTTCTC
1 CATTTTCATTTTTTATTATGGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTC
* * * *
68535329 CATTTTCA-TTTTTATTATGGTGAAAACCATAATCATTTTCAAATGTTTCCTATTTCTC
1 CATTTTCATTTTTTATTATGGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTC
68535387 CATTT
1 CATTT
68535392 AACCATTCAT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 33 0.62
58 20 0.38
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.48
Consensus pattern (59 bp):
CATTTTCATTTTTTATTATGGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTC
Found at i:68539807 original size:26 final size:26
Alignment explanation
Indices: 68539778--68539829 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
68539768 TATAAGTATG
68539778 TTATACTATGAACATTACAAGTGAAT
1 TTATACTATGAACATTACAAGTGAAT
*
68539804 TTATACTATGAATATTACAAGTGAAT
1 TTATACTATGAACATTACAAGTGAAT
68539830 AAATCCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.37
Consensus pattern (26 bp):
TTATACTATGAACATTACAAGTGAAT
Found at i:68543785 original size:26 final size:27
Alignment explanation
Indices: 68543751--68543803 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 27
68543741 GTCACACATA
68543751 TCATAAGGGTATAACAGTCATTTTACC
1 TCATAAGGGTATAACAGTCATTTTACC
68543778 TCAT-AGGGTATAACAGTCATTTTACC
1 TCATAAGGGTATAACAGTCATTTTACC
68543804 AAATTGGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (27 bp):
TCATAAGGGTATAACAGTCATTTTACC
Found at i:68545436 original size:46 final size:46
Alignment explanation
Indices: 68545386--68545607 Score: 274
Period size: 46 Copynumber: 4.8 Consensus size: 46
68545376 TGGTTGAGCA
68545386 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
68545432 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
68545477 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
68545525 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
68545571 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68545608 GCGGGTTACA
Statistics
Matches: 154, Mismatches: 12, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
45 4 0.03
46 105 0.68
47 28 0.18
48 3 0.02
50 5 0.03
51 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:68545542 original size:93 final size:93
Alignment explanation
Indices: 68545383--68545607 Score: 325
Period size: 93 Copynumber: 2.4 Consensus size: 93
68545373 GGATGGTTGA
68545383 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
68545448 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
68545476 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
* *
68545541 TGAGTCCGAGTTCACTTATGGATGTGAAC---
66 TGAGTCCGAGTTC-GTGA--GATGT-AACTAG
* *
68545570 GC-T-CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68545608 GCGGGTTACA
Statistics
Matches: 121, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
92 32 0.26
93 77 0.64
94 4 0.03
96 5 0.04
97 3 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:68559376 original size:40 final size:40
Alignment explanation
Indices: 68559291--68559478 Score: 324
Period size: 40 Copynumber: 4.7 Consensus size: 40
68559281 GCTACTAGCT
68559291 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
68559330 CAAATGCCTTCGGGACCTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* ** *
68559370 CGAATGCCTTCGGGACTTAGCCCGAATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
68559410 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
68559450 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
68559479 CAATCCGAAT
Statistics
Matches: 138, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 26 0.19
40 112 0.81
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:68562310 original size:8 final size:8
Alignment explanation
Indices: 68562297--68562333 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
68562287 GGACTTATTC
68562297 ATCATATA
1 ATCATATA
68562305 ATCATATA
1 ATCATATA
68562313 ATCATATA
1 ATCATATA
68562321 ATCATATA
1 ATCATATA
68562329 ATCAT
1 ATCAT
68562334 TATTAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.38
Consensus pattern (8 bp):
ATCATATA
Found at i:68565639 original size:30 final size:29
Alignment explanation
Indices: 68565603--68565663 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
68565593 AATCGGAAGT
*
68565603 TTTGGCACTAAGTGTGCAATTTAAACTAGC
1 TTTGGCACTAAGTGTGCAATCT-AACTAGC
*
68565633 TTTGGCACTAAGTGTGCGATCTAACTAGC
1 TTTGGCACTAAGTGTGCAATCTAACTAGC
68565662 TT
1 TT
68565664 CGGCTATTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCAATCTAACTAGC
Found at i:68566997 original size:50 final size:50
Alignment explanation
Indices: 68566935--68567063 Score: 147
Period size: 49 Copynumber: 2.6 Consensus size: 50
68566925 TGTGTCTGTA
*
68566935 TAAGACCATGTCTAGGACATGGCATCGGCAC-AAATATGTGAGAG-CTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCACTAAAT-TGTGAGAGTC-AGTG
** * ** * *
68566985 TAAGACCATGTCTGGGACATGGTGTCGAC-CTCGATTTTGATAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCACTAAATTGTGAGAGTCAGTG
68567034 TAAGACCATGTCTGGGACATGGCATCGGCA
1 TAAGACCATGTCTGGGACATGGCATCGGCA
68567064 TTATACCCTA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
49 37 0.57
50 28 0.43
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATCGGCACTAAATTGTGAGAGTCAGTG
Found at i:68579751 original size:8 final size:8
Alignment explanation
Indices: 68579738--68579770 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
68579728 CTAGATCGGC
68579738 AAAAGCCG
1 AAAAGCCG
68579746 AAAAGCCG
1 AAAAGCCG
*
68579754 AAATGCCG
1 AAAAGCCG
68579762 AAAAGCCG
1 AAAAGCCG
68579770 A
1 A
68579771 TATTTTGGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.48, C:0.24, G:0.24, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:68580056 original size:28 final size:28
Alignment explanation
Indices: 68580016--68580080 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
68580006 ATGTACTAGA
*
68580016 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
68580044 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
68580072 ATACCCCTA
1 ATACCCCTA
68580081 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:68580253 original size:27 final size:27
Alignment explanation
Indices: 68580186--68580275 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 27
68580176 AGGAAGCGTC
* *
68580186 CTGGTGGCTA-TGCCACAAATTATATATT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* * *
68580214 CTGGTAGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
68580241 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
68580270 CTGGTG
1 CTGGTG
68580276 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 20 0.39
28 24 0.47
29 7 0.14
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:68580286 original size:29 final size:28
Alignment explanation
Indices: 68580196--68580286 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 28
68580186 CTGGTGGCTA
* * * *
68580196 TGCCACAAATTATATATTCTGGT-AGCCC
1 TGCCACAAAATATCTGTTCTGGTGA-CAC
* *
68580224 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
68580251 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
68580280 TGTCACA
1 TGCCACA
68580287 TTTTCTGTAT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 20 0.40
28 15 0.30
29 15 0.30
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:68581302 original size:20 final size:20
Alignment explanation
Indices: 68581277--68581323 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
68581267 ATTGGTTTAC
*
68581277 AAAAATGAAGATTTTTTAAA
1 AAAAATCAAGATTTTTTAAA
** *
68581297 AAAAATCAATTTTTTTTTAA
1 AAAAATCAAGATTTTTTAAA
68581317 AAAAATC
1 AAAAATC
68581324 TGGACTCCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (20 bp):
AAAAATCAAGATTTTTTAAA
Found at i:68587942 original size:28 final size:28
Alignment explanation
Indices: 68587909--68587973 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
68587899 ATGTACTAGA
*
68587909 ATACCCCTATGTATGCAAAATTA-CTATT
1 ATACCCCTATGTATGCAAAATGACCT-TT
68587937 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCTTT
68587965 ATACCCCTA
1 ATACCCCTA
68587974 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 33 0.94
29 2 0.06
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTTT
Found at i:68588137 original size:27 final size:27
Alignment explanation
Indices: 68588079--68588168 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
68588069 AGGTAGCGTC
*
68588079 CTGGTGGCTA-TGCCACAAATTATCTATT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
68588107 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
68588134 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
68588163 CTGGTG
1 CTGGTG
68588169 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 22 0.41
28 25 0.46
29 7 0.13
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:68588179 original size:29 final size:28
Alignment explanation
Indices: 68588089--68588179 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
68588079 CTGGTGGCTA
* * * *
68588089 TGCCACAAATTATCTATTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* *
68588117 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
68588144 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
68588173 TGTCACA
1 TGCCACA
68588180 TTTTCTGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 23 0.43
28 15 0.28
29 15 0.28
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:68588187 original size:55 final size:56
Alignment explanation
Indices: 68588079--68588193 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
68588069 AGGTAGCGTC
* *
68588079 CTGGTGGCTATGCCACAAATTATCTATTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTATTCTGGTGACCCTGCCACATATATCTGTAT
* * * *
68588134 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTAT-TCTGGTGACCCTGCCACATATATCTGTAT
68588190 CTGG
1 CTGG
68588194 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTATTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:68589533 original size:42 final size:42
Alignment explanation
Indices: 68589484--68589599 Score: 169
Period size: 42 Copynumber: 2.8 Consensus size: 42
68589474 TTTAAAAACG
* *
68589484 CCGCTAAAAGCCATGACTTTTAGCGGCGTTTGAAAAAAAGCA
1 CCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGAAAAAAAGCA
* * * *
68589526 CCGCTAAAAGTCATGGTTTTTAGTGGCGTCTGTAAAAAAGCA
1 CCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGAAAAAAAGCA
*
68589568 CCACTAAAAGTCATGGCTTTTAGCGGCGTTTG
1 CCGCTAAAAGTCATGGCTTTTAGCGGCGTTTG
68589600 TGGAAAAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (42 bp):
CCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGAAAAAAAGCA
Found at i:68590035 original size:21 final size:21
Alignment explanation
Indices: 68590011--68590083 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
68590001 CTTCCATTGA
*
68590011 TGCTTCCTCTGCCTCCCTCAC
1 TGCTGCCTCTGCCTCCCTCAC
* *
68590032 TGCTGCCGCTGCCTCCCTCGC
1 TGCTGCCTCTGCCTCCCTCAC
* *
68590053 TGCTG-CTGCTGCCTCTCTCTC
1 TGCTGCCT-CTGCCTCCCTCAC
68590074 TGCTGCCTCT
1 TGCTGCCTCT
68590084 CTCTAAGTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
20 1 0.02
21 41 0.93
22 2 0.05
ACGTcount: A:0.01, C:0.48, G:0.18, T:0.33
Consensus pattern (21 bp):
TGCTGCCTCTGCCTCCCTCAC
Found at i:68590076 original size:15 final size:15
Alignment explanation
Indices: 68590058--68590087 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
68590048 CTCGCTGCTG
68590058 CTGCTGCCTCTCTCT
1 CTGCTGCCTCTCTCT
68590073 CTGCTGCCTCTCTCT
1 CTGCTGCCTCTCTCT
68590088 AAGTTGTTGC
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:0.00, C:0.47, G:0.13, T:0.40
Consensus pattern (15 bp):
CTGCTGCCTCTCTCT
Found at i:68590505 original size:13 final size:14
Alignment explanation
Indices: 68590480--68590508 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
68590470 TGATGAATTG
68590480 AATTAAACAATTAT
1 AATTAAACAATTAT
68590494 AATTAAAC-ATTAT
1 AATTAAACAATTAT
68590507 AA
1 AA
68590509 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:68593841 original size:12 final size:12
Alignment explanation
Indices: 68593826--68593851 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
68593816 ATCATCCTCT
68593826 TCATCAGATTCA
1 TCATCAGATTCA
68593838 TCATCAGATTCA
1 TCATCAGATTCA
68593850 TC
1 TC
68593852 CCTCGACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:68595558 original size:9 final size:9
Alignment explanation
Indices: 68595544--68595865 Score: 123
Period size: 9 Copynumber: 34.4 Consensus size: 9
68595534 AGGGATTATC
68595544 TTATGTAAA
1 TTATGTAAA
68595553 TTATGTAAGA
1 TTATGTAA-A
*
68595563 TATAATATATATTA
1 T-T-ATGTA-A--A
*
68595577 TTATGTAAG
1 TTATGTAAA
68595586 TTATGT-AA
1 TTATGTAAA
68595594 TTATGT-AA
1 TTATGTAAA
* *
68595602 GTAT-T-AC
1 TTATGTAAA
68595609 TTATGTAAA
1 TTATGTAAA
68595618 TTATGTAAGA
1 TTATGTAA-A
68595628 -TATGATATATA
1 TTATG-TA-A-A
68595639 TTTATGT--A
1 -TTATGTAAA
*
68595647 TTATGTAAG
1 TTATGTAAA
68595656 TTATGTAAA
1 TTATGTAAA
*
68595665 TTATGTAAG
1 TTATGTAAA
* **
68595674 TTATTTATC
1 TTATGTAAA
68595683 TTATGTAAA
1 TTATGTAAA
68595692 TTATGTAAGA
1 TTATGTAA-A
*
68595702 -TATGATACGTCA
1 TTATG-TA---AA
68595714 TTATGT--A
1 TTATGTAAA
*
68595721 TTATGTAAG
1 TTATGTAAA
68595730 TTATGTAAA
1 TTATGTAAA
* *
68595739 CTATGTAAG
1 TTATGTAAA
* **
68595748 TTATTTATC
1 TTATGTAAA
68595757 TTATGTAAA
1 TTATGTAAA
68595766 TTATGTAAGA
1 TTATGTAA-A
68595776 -TATGATATATA
1 TTATG-TA-A-A
* *
68595787 TT-TATATA
1 TTATGTAAA
*
68595795 TTATGTAAG
1 TTATGTAAA
68595804 TTATGTAAA
1 TTATGTAAA
68595813 TTATGTAAGA
1 TTATGTAA-A
*
68595823 TATGATATATATA
1 T-T-ATGTA-A-A
68595836 TTTATGT--A
1 -TTATGTAAA
*
68595844 TTATGTAAG
1 TTATGTAAA
68595853 TTATGTAAA
1 TTATGTAAA
68595862 TTAT
1 TTAT
68595866 ATAATATATG
Statistics
Matches: 236, Mismatches: 43, Indels: 68
0.68 0.12 0.20
Matches are distributed among these distances:
7 24 0.10
8 18 0.08
9 136 0.58
10 15 0.06
11 8 0.03
12 19 0.08
13 13 0.06
14 3 0.01
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAA
Found at i:68595614 original size:15 final size:15
Alignment explanation
Indices: 68595572--68595621 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
68595562 ATATAATATA
68595572 TATTATTATGTAAGT
1 TATTATTATGTAAGT
68595587 TATGTAATTATGTAAG-
1 TAT-T-ATTATGTAAGT
*
68595603 TATTACTTATGTAAAT
1 TATTA-TTATGTAAGT
68595619 TAT
1 TAT
68595622 GTAAGATATG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 1 0.03
15 12 0.40
16 7 0.23
17 10 0.33
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TATTATTATGTAAGT
Found at i:68595662 original size:47 final size:47
Alignment explanation
Indices: 68595609--68595889 Score: 268
Period size: 47 Copynumber: 5.8 Consensus size: 47
68595599 TAAGTATTAC
68595609 TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAG
68595656 TTATGTAAATTATGTAAG-T-T-AT-T-TATCTTATGTAAATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATATAT-TTATGT--ATTATGTAAG
* * * * * ** * **
68595701 ATATGATACGTCATTATGTATTATG-TAAGTTATGTAAACTATGTAAGTTATTTATC
1 TTATG-TA---AATTATGTA--A-GATATGATATAT-ATTTATGT-A-TTATGTAAG
*
68595757 TTATGTAAATTATGTAAGATATGATATATATTTATATATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAG
68595804 TTATGTAAATTATGTAAGATATGATATATATATTTATGTATTATGTAAG
1 TTATGTAAATTATGTAAGATATG--ATATATATTTATGTATTATGTAAG
* *
68595853 TTATGTAAATTATATAATATATGATATATATTTATGT
1 TTATGTAAATTATGTAAGATATGATATATATTTATGT
68595890 TGATGGGATT
Statistics
Matches: 192, Mismatches: 23, Indels: 38
0.76 0.09 0.15
Matches are distributed among these distances:
42 3 0.02
43 7 0.04
44 2 0.01
45 15 0.08
46 3 0.02
47 61 0.32
48 1 0.01
49 58 0.30
50 8 0.04
51 1 0.01
52 10 0.05
54 1 0.01
55 5 0.03
56 16 0.08
57 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (47 bp):
TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAG
Found at i:68595698 original size:74 final size:73
Alignment explanation
Indices: 68595539--68595821 Score: 447
Period size: 74 Copynumber: 3.9 Consensus size: 73
68595529 ATAAAAGGGA
68595539 TTATCTTATGTAAATTATGTAAGATAT-A-ATATA-TAT-TATTATGTAAGTTATGT-AATTATG
1 TTATCTTATGTAAATTATGTAAGATATGATATATATTATGTATTATGTAAGTTATGTAAATTATG
68595599 TAAG-TA-
66 TAAGTTAT
68595605 TTA-CTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTAT
1 TTATCTTATGTAAATTATGTAAGATATGATATATA-TTATGTATTATGTAAGTTATGTAAATTAT
68595669 GTAAGTTAT
65 GTAAGTTAT
** *
68595678 TTATCTTATGTAAATTATGTAAGATATGATACGTCATTATGTATTATGTAAGTTATGTAAACTAT
1 TTATCTTATGTAAATTATGTAAGATATGATATAT-ATTATGTATTATGTAAGTTATGTAAATTAT
68595743 GTAAGTTAT
65 GTAAGTTAT
*
68595752 TTATCTTATGTAAATTATGTAAGATATGATATATATTTATATATTATGTAAGTTATGTAAATTAT
1 TTATCTTATGTAAATTATGTAAGATATGATATATA-TTATGTATTATGTAAGTTATGTAAATTAT
68595817 GTAAG
65 GTAAG
68595822 ATATGATATA
Statistics
Matches: 199, Mismatches: 7, Indels: 14
0.90 0.03 0.06
Matches are distributed among these distances:
65 23 0.12
66 4 0.02
67 5 0.03
69 3 0.02
70 17 0.09
71 11 0.06
72 2 0.01
73 4 0.02
74 129 0.65
75 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.47
Consensus pattern (73 bp):
TTATCTTATGTAAATTATGTAAGATATGATATATATTATGTATTATGTAAGTTATGTAAATTATG
TAAGTTAT
Found at i:68595849 original size:49 final size:49
Alignment explanation
Indices: 68595757--68595883 Score: 213
Period size: 49 Copynumber: 2.6 Consensus size: 49
68595747 GTTATTTATC
68595757 TTATGTAAATTATGTAAGATATG--ATATATATTTATATATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATATATATTTATATATTATGTAAG
*
68595804 TTATGTAAATTATGTAAGATATGATATATATATTTATGTATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATATATATTTATATATTATGTAAG
* *
68595853 TTATGTAAATTATATAATATATGATATATAT
1 TTATGTAAATTATGTAAGATATGATATATAT
68595884 TTATGTTGAT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
47 23 0.31
49 52 0.69
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (49 bp):
TTATGTAAATTATGTAAGATATGATATATATATTTATATATTATGTAAG
Found at i:68595888 original size:40 final size:40
Alignment explanation
Indices: 68595804--68595889 Score: 97
Period size: 40 Copynumber: 2.1 Consensus size: 40
68595794 ATTATGTAAG
* *
68595804 TTATGTAAATTATGTAAGATATGATATATATATTTATGTA
1 TTATGTAAATTATGTAAGATATGATATATATATATATATA
*
68595844 TTATGTAAGTTATGTAA-AT-T-ATATAATATATGATATATA
1 TTATGTAAATTATGTAAGATATGATAT-ATATAT-ATATATA
68595883 TTTATGT
1 -TTATGT
68595890 TGATGGGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
37 4 0.10
38 7 0.17
39 7 0.17
40 22 0.55
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49
Consensus pattern (40 bp):
TTATGTAAATTATGTAAGATATGATATATATATATATATA
Found at i:68596130 original size:91 final size:91
Alignment explanation
Indices: 68596020--68596268 Score: 396
Period size: 89 Copynumber: 2.8 Consensus size: 91
68596010 AATAATGATT
*
68596020 TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGTTTAAAATAAAAT
1 TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAAT
*
68596085 AAAACAAAATTTTAAATACAATTTAA
66 AAAACAAAACTTTAAATACAATTTAA
* *
68596111 TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC--AATTTTTTTCCTGATTAAAATAAAAT
1 TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAAT
*
68596174 AAAATAAAACTTTAAATACAATTTAA
66 AAAACAAAACTTTAAATACAATTTAA
* * *
68596200 TTTAATTAGGTAATTTAAAATTAAAATTAAAGTAGACAAAATATTTATCGTGATT-AAATCAAAA
1 TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAAT-AAAA
68596264 TAAAA
65 TAAAA
68596269 TAATATCTTC
Statistics
Matches: 145, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
89 82 0.57
90 4 0.03
91 59 0.41
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (91 bp):
TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAAT
AAAACAAAACTTTAAATACAATTTAA
Found at i:68600799 original size:26 final size:26
Alignment explanation
Indices: 68600741--68600793 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
68600731 AGAATTAGAT
68600741 AAAATTTGAAATCTTGAAAATTATTA
1 AAAATTTGAAATCTTGAAAATTATTA
*
68600767 AAAATTTGAAATCTTTAAAATT-TTA
1 AAAATTTGAAATCTTGAAAATTATTA
68600792 AA
1 AA
68600794 TTATTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.40
Consensus pattern (26 bp):
AAAATTTGAAATCTTGAAAATTATTA
Found at i:68600800 original size:17 final size:17
Alignment explanation
Indices: 68600744--68600801 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
68600734 ATTAGATAAA
*
68600744 ATTTGAAATCTTGAAAATT
1 ATTTAAAAT-TTG-AAATT
*
68600763 ATTAAAAATTTGAAA-T
1 ATTTAAAATTTGAAATT
* *
68600779 CTTTAAAATTTTAAATT
1 ATTTAAAATTTGAAATT
68600796 ATTTAA
1 ATTTAA
68600802 TATATATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
16 13 0.41
17 9 0.28
18 3 0.09
19 7 0.22
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (17 bp):
ATTTAAAATTTGAAATT
Found at i:68601202 original size:15 final size:14
Alignment explanation
Indices: 68601182--68601309 Score: 58
Period size: 14 Copynumber: 8.7 Consensus size: 14
68601172 TTTTAACTCA
68601182 TAAACCATAAACCCC
1 TAAACCATAAA-CCC
*
68601197 TAAACCTTAAACCC
1 TAAACCATAAACCC
** *
68601211 TAAACCCATAATTCA
1 TAAA-CCATAAACCC
* ***
68601226 TAAACCTTAAAATA
1 TAAACCATAAACCC
*
68601240 TTAACTCATCATAAACCC
1 TAAAC-C---ATAAACCC
*
68601258 TAAACCCTAAACCC
1 TAAACCATAAACCC
* * * *
68601272 TGAACTATATACTC
1 TAAACCATAAACCC
*
68601286 TAAACCATAAACCT
1 TAAACCATAAACCC
*
68601300 TAAACTATAA
1 TAAACCATAA
68601310 TGATAAGTAA
Statistics
Matches: 81, Mismatches: 27, Indels: 11
0.68 0.23 0.09
Matches are distributed among these distances:
14 51 0.63
15 21 0.26
17 1 0.01
18 8 0.10
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:68601221 original size:37 final size:37
Alignment explanation
Indices: 68601143--68601231 Score: 99
Period size: 37 Copynumber: 2.4 Consensus size: 37
68601133 ATCACTAAGT
* ** * *
68601143 CATAATCCATAAACCCCTAAACCTTGAGATTTTAACT
1 CATAATCCATAAACCCCTAAACCTTGAAACCTAAACC
*
68601180 CATAAACCATAAACCCCTAAACCTT-AAACCCTAAACC
1 CATAATCCATAAACCCCTAAACCTTGAAA-CCTAAACC
*
68601217 CATAATTCATAAACC
1 CATAATCCATAAACC
68601232 TTAAAATATT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 2 0.05
37 41 0.95
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.24
Consensus pattern (37 bp):
CATAATCCATAAACCCCTAAACCTTGAAACCTAAACC
Found at i:68601229 original size:22 final size:22
Alignment explanation
Indices: 68601179--68601236 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
68601169 AGATTTTAAC
*
68601179 TCATAAACCATAAACCCCTAAA
1 TCATAAACCATAAACCCATAAA
* * * *
68601201 CCTTAAACCCTAAACCCATAAT
1 TCATAAACCATAAACCCATAAA
*
68601223 TCATAAACCTTAAA
1 TCATAAACCATAAA
68601237 ATATTAACTC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (22 bp):
TCATAAACCATAAACCCATAAA
Found at i:68601270 original size:14 final size:14
Alignment explanation
Indices: 68601249--68601309 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
68601239 ATTAACTCAT
68601249 CATAAACCCTAAAC
1 CATAAACCCTAAAC
* *
68601263 CCTAAACCCTGAAC
1 CATAAACCCTAAAC
* * *
68601277 TATATACTCTAAAC
1 CATAAACCCTAAAC
*
68601291 CATAAACCTTAAAC
1 CATAAACCCTAAAC
*
68601305 TATAA
1 CATAA
68601310 TGATAAGTAA
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.23
Consensus pattern (14 bp):
CATAAACCCTAAAC
Found at i:68601647 original size:41 final size:41
Alignment explanation
Indices: 68601627--68601761 Score: 189
Period size: 41 Copynumber: 3.3 Consensus size: 41
68601617 TTACCAGCAT
68601627 TTTTTCAAAAAGCACCGCTATAGGTCTGAGCATTAGCGGCG
1 TTTTTCAAAAAGCACCGCTATAGGTCTGAGCATTAGCGGCG
* * *
68601668 TTTTTCAAAAAGCGCCCCTATAGGTCTGAGAATTAGCGGCG
1 TTTTTCAAAAAGCACCGCTATAGGTCTGAGCATTAGCGGCG
* * * *
68601709 TTTTTAAAAAAGCACCGCTATATGTTTGAGCATTAGCAGCG
1 TTTTTCAAAAAGCACCGCTATAGGTCTGAGCATTAGCGGCG
*
68601750 CTTTTTAAAAAA
1 -TTTTTCAAAAA
68601762 CGCCACTAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 72 0.87
42 11 0.13
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (41 bp):
TTTTTCAAAAAGCACCGCTATAGGTCTGAGCATTAGCGGCG
Found at i:68603641 original size:50 final size:50
Alignment explanation
Indices: 68603548--68603642 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
68603538 GGATTACAAC
* *
68603548 TCGATGCCAATGCCATATCCCAGACATGTTCTTGCATGAGATCTCTTATG
1 TCGATGCCAATGCCATATCCCAGACATGGTCTTACATGAGATCTCTTATG
*
68603598 TCGATGCCAATGCCATGTCCCAGACATGGTCTTACAT-AGGATCTC
1 TCGATGCCAATGCCATATCCCAGACATGGTCTTACATGA-GATCTC
68603643 ATATCAACGC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 1 0.02
50 40 0.98
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (50 bp):
TCGATGCCAATGCCATATCCCAGACATGGTCTTACATGAGATCTCTTATG
Found at i:68608771 original size:27 final size:27
Alignment explanation
Indices: 68608741--68608834 Score: 77
Period size: 26 Copynumber: 3.6 Consensus size: 27
68608731 TGTAGGGTAG
**
68608741 AATTACTGAAATACCATTGGTTTACAA
1 AATTACTGAAATACCATCAGTTTACAA
* *
68608768 AATTCCTG-AATACCCTCAGTTTACAA
1 AATTACTGAAATACCATCAGTTTACAA
** * *
68608794 AATTACCAAAATACCCTC-GATTAGCAA
1 AATTACTGAAATACCATCAGTTTA-CAA
*
68608821 AATTAC-CAAATACC
1 AATTACTGAAATACC
68608835 CCTATTTTGT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
26 31 0.55
27 25 0.45
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCATCAGTTTACAA
Found at i:68608789 original size:26 final size:26
Alignment explanation
Indices: 68608760--68609052 Score: 135
Period size: 27 Copynumber: 11.0 Consensus size: 26
68608750 AATACCATTG
**
68608760 GTTTACAAAATT-CCTGAATACCCTC
1 GTTTACAAAATTACCAAAATACCCTC
68608785 AGTTTACAAAATTACCAAAATACCCTC
1 -GTTTACAAAATTACCAAAATACCCTC
* *
68608812 GATTAGCAAAATTACC-AAATACCCCTA
1 GTTTA-CAAAATTACCAAAATA-CCCTC
* ** *
68608839 TTTTGTAAAATTACCAAAATACCACTA
1 GTTTACAAAATTACCAAAATACC-CTC
* ** *
68608866 ATTTATGAAATTACCAAAATACCCTT
1 GTTTACAAAATTACCAAAATACCCTC
** ** * * *
68608892 GACCTGTAAAATTATCGAAATACCCTT
1 G-TTTACAAAATTACCAAAATACCCTC
* ** *
68608919 GACTTGTAAAATTA-CATAAATACCCTTA
1 G-TTTACAAAATTACCA-AAATACCC-TC
* * *
68608947 ATTTATAAAATTACCAAAATACCCTT
1 GTTTACAAAATTACCAAAATACCCTC
** * *
68608973 GATTTGGAAAATTACCGAAATACCCTT
1 G-TTTACAAAATTACCAAAATACCCTC
** *
68609000 GATTTGGAAAATTA-CAGAAATACCCCTA
1 G-TTTACAAAATTACCA-AAATA-CCCTC
* *
68609028 ATTTACAAAATTACAAAAATACCCT
1 GTTTACAAAATTACCAAAATACCCT
68609053 TAACTTTCAA
Statistics
Matches: 218, Mismatches: 36, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
26 41 0.19
27 169 0.78
28 8 0.04
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (26 bp):
GTTTACAAAATTACCAAAATACCCTC
Found at i:68608858 original size:27 final size:26
Alignment explanation
Indices: 68608792--68609136 Score: 248
Period size: 27 Copynumber: 12.8 Consensus size: 26
68608782 CTCAGTTTAC
* * *
68608792 AAAATTACCAAAATACCCTCGATTAGC
1 AAAATTACCAAAATACCCT-TATTTGT
*
68608819 AAAATTACC-AAATACCCCTATTTTGT
1 AAAATTACCAAAATACCCTTA-TTTGT
* *
68608845 AAAATTACCAAAATACCACTAATTTAT
1 AAAATTACCAAAATACC-CTTATTTGT
* **
68608872 GAAATTACCAAAATACCCTTGACCTGT
1 AAAATTACCAAAATACCCTT-ATTTGT
* * *
68608899 AAAATTATCGAAATACCCTTGACTTGT
1 AAAATTACCAAAATACCCTT-ATTTGT
*
68608926 AAAATTA-CATAAATACCCTTAATTTAT
1 AAAATTACCA-AAATACCCTT-ATTTGT
*
68608953 AAAATTACCAAAATACCCTTGATTTGG
1 AAAATTACCAAAATACCCTT-ATTTGT
* *
68608980 AAAATTACCGAAATACCCTTGATTTGG
1 AAAATTACCAAAATACCCTT-ATTTGT
* **
68609007 AAAATTA-CAGAAATACCCCTAATTTAC
1 AAAATTACCA-AAATA-CCCTTATTTGT
* **
68609034 AAAATTACAAAAATACCCTTAACTTTCA
1 AAAATTACCAAAATACCCTT-A-TTTGT
* * ** *
68609062 AAAATTA-TACAAATACCATTGGTTGC
1 AAAATTACCA-AAATACCCTTATTTGT
*
68609088 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTT-ATTTGT
* * *
68609115 AGATTTACCAAAACACCCTTAT
1 AAAATTACCAAAATACCCTTAT
68609137 AGGGTGAAAT
Statistics
Matches: 258, Mismatches: 46, Indels: 29
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.00
26 47 0.18
27 182 0.71
28 28 0.11
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTTATTTGT
Found at i:68608941 original size:81 final size:77
Alignment explanation
Indices: 68608776--68609106 Score: 317
Period size: 81 Copynumber: 4.1 Consensus size: 77
68608766 AAAATTCCTG
* * * * *
68608776 AATACCCTCAGTTTACAAAATTACCAAAATACCCTCGATTAGCAAAATTACCAAATACCCCT-AT
1 AATACCCT-AATTTATAAAATTACCAAAATACCCTTGATT-GCAAAATTACGAAATACCCTTGA-
68608840 TTTGTAAAATTACCAA
63 TTTGTAAAATTA-CAA
* * *
68608856 AATACCACTAATTTATGAAATTACCAAAATACCCTTGACCTGTAAAATTATCGAAATACCCTTGA
1 AATACC-CTAATTTATAAAATTACCAAAATACCCTTGA-TTGCAAAATTA-CGAAATACCCTTGA
*
68608921 CTTGTAAAATTACATA
63 TTTGTAAAATTACA-A
*
68608937 AATACCCTTAATTTATAAAATTACCAAAATACCCTTGATTTGGAAAATTACCGAAATACCCTTGA
1 AATACCC-TAATTTATAAAATTACCAAAATACCCTTGA-TTGCAAAATTA-CGAAATACCCTTGA
*
68609002 TTTGGAAAATTACAGA
63 TTTGTAAAATTACA-A
* * * * *
68609018 AATACCCCTAATTTACAAAATTACAAAAATACCCTTAACTTTCAAAAATTATAC-AAATACCATT
1 AATA-CCCTAATTTATAAAATTACCAAAATACCCTTGA-TTGC-AAAA-T-TACGAAATACCCTT
* *
68609082 G-GTTGCAAAATTACCAA
61 GATTTGTAAAATTA-CAA
68609099 AATACCCT
1 AATACCCT
68609107 TGGTTTGTAG
Statistics
Matches: 214, Mismatches: 26, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
80 46 0.21
81 144 0.67
82 20 0.09
83 2 0.01
84 2 0.01
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.29
Consensus pattern (77 bp):
AATACCCTAATTTATAAAATTACCAAAATACCCTTGATTGCAAAATTACGAAATACCCTTGATTT
GTAAAATTACAA
Found at i:68609417 original size:41 final size:41
Alignment explanation
Indices: 68609372--68609494 Score: 165
Period size: 41 Copynumber: 3.0 Consensus size: 41
68609362 GGGGGAAGAA
* *
68609372 ATTGAGAATCGCATGGTTGCTTGATGACTGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCACCG
* * *
68609413 ATTGAGGATCGCATGGTTTCTTGACGACTGTTGATCCACCA
1 ATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCACCG
* * * *
68609454 ATTAAGGATCGCATGGTTGCTTAACAACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCACCG
68609495 GTGGCTTTTA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCACCG
Done.