Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 35 of 126
Found at i:10216883 original size:2 final size:2
Alignment explanation
Indices: 10216876--10216908 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10216866 CCAAGTAGAT
10216876 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10216909 GTGTGTGTGT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10216913 original size:2 final size:2
Alignment explanation
Indices: 10216908--10216937 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10216898 TCTCTCTCTC
10216908 TG TG TG TG TG TG TG TG TG -G TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
10216938 AGATAGAGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:10220138 original size:79 final size:79
Alignment explanation
Indices: 10220009--10220158 Score: 300
Period size: 79 Copynumber: 1.9 Consensus size: 79
10219999 CAAGCAACTG
10220009 TTTTTTTTTTTTTTAATTATAAATTAAATTGGAAAAACATTTAATATTTCATTTTCTTAATACTT
1 TTTTTTTTTTTTTTAATTATAAATTAAATTGGAAAAACATTTAATATTTCATTTTCTTAATACTT
10220074 TTTTTGCAAGAATT
66 TTTTTGCAAGAATT
10220088 TTTTTTTTTTTTTTAATTATAAATTAAATTGGAAAAACATTTAATATTTCATTTTCTTAATACTT
1 TTTTTTTTTTTTTTAATTATAAATTAAATTGGAAAAACATTTAATATTTCATTTTCTTAATACTT
10220153 TTTTTG
66 TTTTTG
10220159 TTTTCATTAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 71 1.00
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (79 bp):
TTTTTTTTTTTTTTAATTATAAATTAAATTGGAAAAACATTTAATATTTCATTTTCTTAATACTT
TTTTTGCAAGAATT
Found at i:10234043 original size:50 final size:50
Alignment explanation
Indices: 10233970--10234099 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 50
10233960 AAAACTATGA
**
10233970 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGGTG-GG
* * *
10234020 TCACGTGTGTATTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGGTGGG
10234070 TGCA--TGTGTAGTACTAAGTGCAGGCTACTA
1 T-CACGTGTGTAGTACTAAGTGCAGGCTACTA
10234100 TACGTACCAG
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
49 25 0.35
50 41 0.57
51 6 0.08
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGGTGGG
Found at i:10234628 original size:26 final size:26
Alignment explanation
Indices: 10234599--10234654 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
10234589 TGATAAAAAT
10234599 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10234625 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10234651 TGAT
1 TGAT
10234655 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10236171 original size:26 final size:26
Alignment explanation
Indices: 10236142--10236194 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
10236132 TTTACAGTTT
10236142 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTA-GAGATAAATTGACCGAAA
* *
10236168 TACCCCTAGAGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
10236194 T
1 T
10236195 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:10241501 original size:23 final size:21
Alignment explanation
Indices: 10241454--10241494 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
10241444 TTTGGTTAAA
10241454 AATTGAATAGAAATGAAGTATG
1 AATTGAATAGAAA-GAAGTATG
10241476 AATTGAGATAGAAA-AAGTA
1 AATTGA-ATAGAAAGAAGTA
10241495 AGTGAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (21 bp):
AATTGAATAGAAAGAAGTATG
Found at i:10241874 original size:15 final size:15
Alignment explanation
Indices: 10241826--10241875 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
10241816 TTTATCAAAT
10241826 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* * *
10241841 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
10241856 TTATATTGATTGAAA
1 TTATATTGATTGAAA
10241871 TTATA
1 TTATA
10241876 ATATATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:10242532 original size:18 final size:19
Alignment explanation
Indices: 10242511--10242551 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
10242501 AATGAAATGA
10242511 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
10242529 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
10242548 GAAA
1 GAAA
10242552 ATATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:10243658 original size:31 final size:31
Alignment explanation
Indices: 10243620--10243683 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
10243610 CCTTTTCATA
10243620 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
10243651 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
10243682 TT
1 TT
10243684 ACTGTAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:10243952 original size:23 final size:23
Alignment explanation
Indices: 10243898--10244752 Score: 1683
Period size: 23 Copynumber: 37.1 Consensus size: 23
10243888 CCTAGCCTCT
*
10243898 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10243921 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
10243945 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10243968 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10243991 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244014 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244037 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244060 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244083 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244106 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244129 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244152 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244175 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244198 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244221 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244244 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244267 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244290 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244313 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244336 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244359 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244382 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244405 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244428 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244451 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244474 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244497 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244520 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244543 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244566 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244589 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244612 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244635 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244658 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244681 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244704 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
10244727 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10244750 TTT
1 TTT
10244753 TTCACTTCCT
Statistics
Matches: 829, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
23 807 0.97
24 22 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:10244828 original size:20 final size:20
Alignment explanation
Indices: 10244803--10244869 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
10244793 TTATGATTAC
10244803 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
10244823 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
10244843 TTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
10244863 ACCATGT
1 ATCATGT
10244870 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:10244834 original size:11 final size:11
Alignment explanation
Indices: 10244803--10244858 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
10244793 TTATGATTAC
10244803 ATCATGTGCAT
1 ATCATGTGCAT
*
10244814 ATCA--TACAT
1 ATCATGTGCAT
10244823 ATCATGTGCAT
1 ATCATGTGCAT
*
10244834 ATCA--TACAT
1 ATCATGTGCAT
*
10244843 TTCATGTGCAT
1 ATCATGTGCAT
10244854 ATCAT
1 ATCAT
10244859 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:10244948 original size:25 final size:24
Alignment explanation
Indices: 10244906--10244953 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
10244896 ATACATAAAC
* * *
10244906 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTC-TTTTTA
10244931 CCTAGGGGCAAAACGGTCTTTTT
1 CCTAGGGGCAAAACGGTCTTTTT
10244954 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCTTTTTA
Found at i:10245990 original size:20 final size:21
Alignment explanation
Indices: 10245965--10246003 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10245955 AGTAGAGATA
10245965 AATGAA-AGAAATAATGGGTG
1 AATGAAGAGAAATAATGGGTG
*
10245985 AATGAAGGGAAATAATGGG
1 AATGAAGAGAAATAATGGG
10246004 CTGGTTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.33, T:0.18
Consensus pattern (21 bp):
AATGAAGAGAAATAATGGGTG
Found at i:10252529 original size:31 final size:31
Alignment explanation
Indices: 10252491--10252554 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
10252481 CCTTTTCATA
*
10252491 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
**
10252522 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
10252553 TT
1 TT
10252555 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:10252799 original size:24 final size:24
Alignment explanation
Indices: 10252762--10252842 Score: 119
Period size: 24 Copynumber: 3.4 Consensus size: 24
10252752 CTGGAGGACT
*
10252762 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
10252787 AGCCCTTTTAATAACTCGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
10252811 AGCCC-TTTAATAACTGGGGCGTA
1 AGCCCTTTTAATAACTGGGGCATA
10252834 AGCCCTTTT
1 AGCCCTTTT
10252843 TCACTTCCTC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 21 0.41
24 26 0.51
25 4 0.08
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:10252823 original size:23 final size:23
Alignment explanation
Indices: 10252769--10252841 Score: 110
Period size: 23 Copynumber: 3.1 Consensus size: 23
10252759 ACTAGCCTCT
*
10252769 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
10252792 TTTTAATAACTCGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
10252816 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10252839 TTT
1 TTT
10252842 TTCACTTCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
23 24 0.53
24 21 0.47
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:10252987 original size:25 final size:25
Alignment explanation
Indices: 10252955--10253002 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
10252945 ATACATAAAC
* *
10252955 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
10252980 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
10253003 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:10259294 original size:23 final size:21
Alignment explanation
Indices: 10259247--10259287 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
10259237 TTTGGTTAAA
10259247 AATTGAATAGAAATGAAGTATG
1 AATTGAATAGAAA-GAAGTATG
10259269 AATTGAGATAGAAA-AAGTA
1 AATTGA-ATAGAAAGAAGTA
10259288 AGTGAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (21 bp):
AATTGAATAGAAAGAAGTATG
Found at i:10259665 original size:15 final size:15
Alignment explanation
Indices: 10259617--10259666 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
10259607 TTTATCAAAT
10259617 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* *
10259632 TCATTTTGATT-AAA
1 TTATATTGATTGAAA
10259646 TTTATATTGATTGAAA
1 -TTATATTGATTGAAA
10259662 TTATA
1 TTATA
10259667 ATATATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 3 0.10
15 23 0.79
16 3 0.10
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:10260143 original size:27 final size:27
Alignment explanation
Indices: 10260105--10260180 Score: 93
Period size: 27 Copynumber: 2.7 Consensus size: 27
10260095 TTTAATGCCT
10260105 TATTGGTGTGTTTGGGAGGATATGAT-A
1 TATTGGTGTGTTTGGGAGGAT-TGATAA
*
10260132 TATTGGTGTGTTT-GGAGGATTTATAA
1 TATTGGTGTGTTTGGGAGGATTGATAA
10260158 TATTCCGGGTGTGTTTGGGAGGA
1 TATT---GGTGTGTTTGGGAGGA
10260181 ATCCACGTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
25 3 0.07
26 12 0.28
27 13 0.30
29 9 0.21
30 6 0.14
ACGTcount: A:0.20, C:0.03, G:0.37, T:0.41
Consensus pattern (27 bp):
TATTGGTGTGTTTGGGAGGATTGATAA
Found at i:10260302 original size:18 final size:19
Alignment explanation
Indices: 10260281--10260321 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
10260271 AATGAAATGA
10260281 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
10260299 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
10260318 GAAA
1 GAAA
10260322 ATATGAGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:10262252 original size:18 final size:18
Alignment explanation
Indices: 10262225--10262266 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
10262215 GCTCTTAAAC
*
10262225 TTGGCAAGTAAGTTCACA
1 TTGGCCAGTAAGTTCACA
10262243 TTGGCCAGTAAGTTCACA
1 TTGGCCAGTAAGTTCACA
10262261 TTGGCC
1 TTGGCC
10262267 TATGAACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (18 bp):
TTGGCCAGTAAGTTCACA
Found at i:10262422 original size:109 final size:109
Alignment explanation
Indices: 10262283--10262479 Score: 268
Period size: 109 Copynumber: 1.8 Consensus size: 109
10262273 CTTATTTTTA
* * * * *
10262283 TCCATTTTGACTCCTTAACTTGAAAATTGTTATTCTTTTAAGCCCAATCTGTTAATGACCCAGAA
1 TCCACTTTGACTCATTAACTTGAAAATTGTTATTCATTTAAACCCAATCTATTAATGACCCAGAA
10262348 AAAAATAGGGATAATGTAACTTTTTCCCCTCGAACTTTTTTGGG
66 AAAAATAGGGATAATGTAACTTTTTCCCCTCGAACTTTTTTGGG
* * * * ****
10262392 TCCACTTTGACTTATTAACTTGAAATTTGTTATTCATTTAAACCCATTCTATTAGTGATTGTGAA
1 TCCACTTTGACTCATTAACTTGAAAATTGTTATTCATTTAAACCCAATCTATTAATGACCCAGAA
*
10262457 AAAAATAGGGATAATGTCACTTT
66 AAAAATAGGGATAATGTAACTTT
10262480 CGCCCCTTGA
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
109 74 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (109 bp):
TCCACTTTGACTCATTAACTTGAAAATTGTTATTCATTTAAACCCAATCTATTAATGACCCAGAA
AAAAATAGGGATAATGTAACTTTTTCCCCTCGAACTTTTTTGGG
Found at i:10262630 original size:32 final size:31
Alignment explanation
Indices: 10262483--10262619 Score: 168
Period size: 31 Copynumber: 4.4 Consensus size: 31
10262473 TCACTTTCGC
** *
10262483 CCCTTGAACTCGGCAAATAGGTCCACATTGG
1 CCCTTGAACTTAGCAAGTAGGTCCACATTGG
*
10262514 CCCCTGAACTTAGCAAGTAGGTCTCACATTGG
1 CCCTTGAACTTAGCAAGTAGGTC-CACATTGG
10262546 CCCTTGAACTTAGCAAGTAGGTCCACATTGG
1 CCCTTGAACTTAGCAAGTAGGTCCACATTGG
* ** *
10262577 -CCTCTAAACTTAATAAGTAGGTCCACATTAG
1 CCCT-TGAACTTAGCAAGTAGGTCCACATTGG
10262608 CCCATTGAACTT
1 CCC-TTGAACTT
10262620 GATAAGTAGG
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
30 3 0.03
31 50 0.54
32 38 0.41
33 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (31 bp):
CCCTTGAACTTAGCAAGTAGGTCCACATTGG
Found at i:10262630 original size:63 final size:63
Alignment explanation
Indices: 10262483--10262619 Score: 186
Period size: 63 Copynumber: 2.2 Consensus size: 63
10262473 TCACTTTCGC
** * * * *
10262483 CCCTTGAACTCGGCAAATAGGTCCACATTGGCCCCTGAACTTAGCAAGTAGGTCTCACATTGG
1 CCCTTGAACTTAGCAAGTAGGTCCACATTGGCCCCTAAACTTAACAAGTAGGTCTCACATTAG
* *
10262546 CCCTTGAACTTAGCAAGTAGGTCCACATTGGCCTCTAAACTTAATAAGTAGGTC-CACATTAG
1 CCCTTGAACTTAGCAAGTAGGTCCACATTGGCCCCTAAACTTAACAAGTAGGTCTCACATTAG
10262608 CCCATTGAACTT
1 CCC-TTGAACTT
10262620 GATAAGTAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
62 10 0.15
63 55 0.85
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (63 bp):
CCCTTGAACTTAGCAAGTAGGTCCACATTGGCCCCTAAACTTAACAAGTAGGTCTCACATTAG
Found at i:10281656 original size:32 final size:32
Alignment explanation
Indices: 10281615--10281678 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
10281605 TTTATCATTA
10281615 TTTGTTAGTCTTTGATCAAGTTAATTTGAAAT
1 TTTGTTAGTCTTTGATCAAGTTAATTTGAAAT
10281647 TTTGTTAGTCTTTGATCAAGTTAATTTGAAAT
1 TTTGTTAGTCTTTGATCAAGTTAATTTGAAAT
10281679 GAATTTACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (32 bp):
TTTGTTAGTCTTTGATCAAGTTAATTTGAAAT
Found at i:10294672 original size:129 final size:129
Alignment explanation
Indices: 10294442--10294723 Score: 438
Period size: 129 Copynumber: 2.2 Consensus size: 129
10294432 CCGAAGAATT
* * * * *
10294442 TCAGATCTTATCTCCTTGAGATTACTGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAACAGATTGAAGATAGTAATCCTATCTCCCTAAGA
* * *
10294507 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCG
66 TTACAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCG
* *
10294571 TCAGATCTTATCTCCCTGAGATTACAGCAGAACAGATTGAAGCTAGTAATCCTATCTCTCTAAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCAGAACAGATTGAAGATAGTAATCCTATCTCCCTAAGA
* *
10294636 TTACAGTGGAGCGAATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTG
66 TTACAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCG
* *
10294700 TCAGGTCTTATTTCCCTGAGATTA
1 TCAGATCTTATCTCCCTGAGATTA
10294724 TAGTGGAATA
Statistics
Matches: 139, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 139 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (129 bp):
TCAGATCTTATCTCCCTGAGATTACAGCAGAACAGATTGAAGATAGTAATCCTATCTCCCTAAGA
TTACAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCG
Found at i:10294868 original size:175 final size:175
Alignment explanation
Indices: 10294571--10295220 Score: 1063
Period size: 175 Copynumber: 3.7 Consensus size: 175
10294561 GTAGATCGCG
* * * * * *
10294571 TCAGATCTTATCTCCCTGAGATTACAGCAGAACAGATTGAAGCTAGTAATCCTATCTCTCTAAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGATA
* * **
10294636 TTACAGTGGAGCGAATTAAAA-TGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAACT-AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
* * * * *
10294700 TCAGGTCTTATTTCCCTGAGATTATAGTGGAATAGACCGAAGAATT
130 CCAGGTCTTATCTCCTTGAGATTACAGTGGAGTAGACCGAAGAATT
10294746 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGATA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGATA
10294811 TTACAGTGGAGCGGATTAAAACTAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
66 TTACAGTGGAGCGGATTAAAACTAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
10294876 CAGGTCTTATCTCCTTGAGATTACAGTGGAGTAGACCGAAGAATT
131 CAGGTCTTATCTCCTTGAGATTACAGTGGAGTAGACCGAAGAATT
10294921 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGATA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGATA
10294986 TTACAGTGGAGCGGATTAAAACTAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
66 TTACAGTGGAGCGGATTAAAACTAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
10295051 CAGGTCTTATCTCCTTGAGATTACAGTGGAGTAGACCGAAGAATT
131 CAGGTCTTATCTCCTTGAGATTACAGTGGAGTAGACCGAAGAATT
* *
10295096 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGA-G
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGATA
* * ** *
10295160 TT-CAATGGAGTGGATTAAAAAAAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC
66 TTACAGTGGAGCGGATT-AAAACTAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC
10295221 ACCTCAGATT
Statistics
Matches: 451, Mismatches: 22, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
173 12 0.03
174 43 0.10
175 395 0.88
176 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (175 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGATA
TTACAGTGGAGCGGATTAAAACTAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
CAGGTCTTATCTCCTTGAGATTACAGTGGAGTAGACCGAAGAATT
Found at i:10294990 original size:131 final size:129
Alignment explanation
Indices: 10294751--10294992 Score: 276
Period size: 131 Copynumber: 1.9 Consensus size: 129
10294741 GAATTTCAGA
** *
10294751 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGATATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGATAGTAATCCTATCTCCCTGAGATTACA
* * * * *
10294816 GTGGAGCGGATTAAAACTAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGG
66 GCGGAGCAGATTAAAACTAAGAATCCTATCTCCCTGAAGTTACAGTAGAGTAGATCGCACCAGG
* * * * *
10294880 TCTTATCTCCTTGAGATTACAGTGGAGTAGACCGAAGA-ATTTCAGATCTTATCTCCCTGAGATT
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGATA-GT-A-ATCCTATCTCCCTGAGATT
*
10294944 ACAGCGGAGCAGATTGAAGA-T-AGTAATCCTATCTCCCTGATA-TTACAGT
63 ACAGCGGAGCAGATT-AAAACTAAG-AATCCTATCTCCCTGA-AGTTACAGT
10294993 GGAGCGGATT
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
128 1 0.01
129 34 0.37
130 3 0.03
131 51 0.55
132 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (129 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGATAGTAATCCTATCTCCCTGAGATTACA
GCGGAGCAGATTAAAACTAAGAATCCTATCTCCCTGAAGTTACAGTAGAGTAGATCGCACCAGG
Found at i:10295061 original size:304 final size:300
Alignment explanation
Indices: 10294398--10295133 Score: 716
Period size: 304 Copynumber: 2.4 Consensus size: 300
10294388 TTCATTATAC
* * * * *
10294398 AGGTCTTATTTCCCTGAGACTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCTTGAGA
1 AGGTCTTATCTCCCTGAGATTACAGTAGAATAGACC--AGAA-TCCAGATCTTATCTCCTTGAGA
* *
10294463 TTACTGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAA
63 TTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
**
10294528 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCGTCAGATCTTATCTCCCTGAGAT
128 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGATCTTATCTCCCTGAGAT
** * * *
10294593 TACAGCAGAACAGATTGAAGCTAGTAATCCTATCTCTCTAAGATTACAGTGGAGCGAATTAAAAT
193 TACAGCAGAACAGACCGAAGATAGTAATCCTATCTCCCTAAGATTACAGCGGAGCGAATTAAAAT
* * * * **** *
10294658 GAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTGTC
258 -AAGAATCCTATCTCCCTGAAGTTACAGCAGAGCAGATAAACTA
* * * * *
10294702 AGGTCTTATTTCCCTGAGATTATAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGA
1 AGGTCTTATCTCCCTGAGATTACAGTAGAATAGACC--AGAA-TCCAGATCTTATCTCCTTGAGA
*
10294767 TTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGATATTACAGTGGAGCGGATTAAAA
63 TTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
* *
10294832 CT-AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATCTCCTTGAGA
128 -TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGATCTTATCTCCCTGAGA
** ** * * *
10294896 TTACAGTGGAGTAGACCGAAGA-ATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGC-AGATT
192 TTACAGCAGAACAGACCGAAGATA-GT-A-ATCCTATCTCCCTAAGATTACAGCGGAGCGA-ATT
* ** *
10294959 GAAGAT-AGTAATCCTATCTCCCTGATA-TTACAGTGGAGCGGATTAAAACTA
253 -AAAATAAG-AATCCTATCTCCCTGA-AGTTACAGCAGAGCAGA-T-AAACTA
* * * * *
10295010 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC-GCA-CCAGGTCTTATCTCCTTGAGAT
1 AGG-TCTTATCTCCCTGAGA-TTACAGTAGAATAGACCAGAATCCAGATCTTATCTCCTTGAGAT
* * ** * * * *
10295072 TACAGTGGAGTAGACCGAAGA-ATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATT
64 TACAGCGGAGCAGATTGAAGATA-GT-A-ATCCTATCTCCCTGAGATTACAGTGGAGCGGATT
10295134 GAAGCTAGTA
Statistics
Matches: 362, Mismatches: 55, Indels: 28
0.81 0.12 0.06
Matches are distributed among these distances:
303 2 0.01
304 234 0.65
305 6 0.02
306 84 0.23
307 6 0.02
308 5 0.01
309 25 0.07
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (300 bp):
AGGTCTTATCTCCCTGAGATTACAGTAGAATAGACCAGAATCCAGATCTTATCTCCTTGAGATTA
CAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGATCTTATCTCCCTGAGATTAC
AGCAGAACAGACCGAAGATAGTAATCCTATCTCCCTAAGATTACAGCGGAGCGAATTAAAATAAG
AATCCTATCTCCCTGAAGTTACAGCAGAGCAGATAAACTA
Found at i:10308457 original size:18 final size:16
Alignment explanation
Indices: 10308431--10308475 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
10308421 AACCAATCTG
*
10308431 ATTAAAAAATATCAAAA
1 ATTAAAAAA-ATTAAAA
*
10308448 TTTAAAAAAACTTAAAA
1 ATTAAAAAAA-TTAAAA
10308465 ATTAAAAAAAT
1 ATTAAAAAAAT
10308476 CCGCTTCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (16 bp):
ATTAAAAAAATTAAAA
Found at i:10310152 original size:3 final size:3
Alignment explanation
Indices: 10310132--10310170 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
10310122 AAAGCCTCAA
10310132 AAG AA- AAG AA- AA- AAG AAG AAG AAG AAG AAG AAG AA- AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
10310171 GAGGAGGTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 8 0.24
3 25 0.76
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10315435 original size:20 final size:20
Alignment explanation
Indices: 10315410--10315449 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10315400 CGTAAAATGA
10315410 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
*
10315430 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
10315450 GGAAAATATT
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:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:10319394 original size:14 final size:13
Alignment explanation
Indices: 10319346--10319399 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
10319336 ATATATTTAT
*
10319346 TTTCAAATTTAAA
1 TTTCAATTTTAAA
* *
10319359 TATT-AATATAAAA
1 T-TTCAATTTTAAA
10319372 TTTCAATTTTAAA
1 TTTCAATTTTAAA
10319385 TTTCATATTTTAAA
1 TTTCA-ATTTTAAA
10319399 T
1 T
10319400 AAATATAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
12 2 0.06
13 20 0.61
14 11 0.33
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTCAATTTTAAA
Found at i:10321782 original size:18 final size:18
Alignment explanation
Indices: 10321761--10321795 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10321751 GTTATTGCAC
10321761 TAATTTATAA-TATTTTTG
1 TAATTT-TAAGTATTTTTG
10321779 TAATTTTAAGTATTTTT
1 TAATTTTAAGTATTTTT
10321796 ATCATTTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (18 bp):
TAATTTTAAGTATTTTTG
Found at i:10326412 original size:21 final size:20
Alignment explanation
Indices: 10326388--10326431 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
10326378 GATCTGTTGA
*
10326388 TTAGTAATTTCATCTTAAATT
1 TTAGGAATTTCAT-TTAAATT
* *
10326409 TTAGGATTTTCATTTAGATT
1 TTAGGAATTTCATTTAAATT
10326429 TTA
1 TTA
10326432 TTTTTTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.55
Consensus pattern (20 bp):
TTAGGAATTTCATTTAAATT
Found at i:10328913 original size:5 final size:5
Alignment explanation
Indices: 10328903--10328935 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
10328893 ATAACCCACA
10328903 CATAT CATAT CATAT CATAT CATAT -ATAT -ATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT
10328936 AACCGTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 8 0.29
5 20 0.71
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (5 bp):
CATAT
Found at i:10335545 original size:14 final size:14
Alignment explanation
Indices: 10335517--10335550 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
10335507 AAAAAATAAC
10335517 ATATATTTATTAAA
1 ATATATTTATTAAA
10335531 ATAT-TTTATTAAAA
1 ATATATTTATT-AAA
10335545 ATATAT
1 ATATAT
10335551 GAAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.33
14 11 0.61
15 1 0.06
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATATTTATTAAA
Found at i:10336230 original size:17 final size:17
Alignment explanation
Indices: 10336210--10336256 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
10336200 TCGAACTTAA
*
10336210 TTAATATTTTAAATAAT
1 TTAATATTTTAAATAAC
*
10336227 TTAATTTTTTATAA-AAC
1 TTAATATTTTA-AATAAC
10336244 TT-ATATTTTAAAT
1 TTAATATTTTAAAT
10336257 GTACAACCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.08
16 7 0.28
17 14 0.56
18 2 0.08
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAATATTTTAAATAAC
Found at i:10338945 original size:14 final size:14
Alignment explanation
Indices: 10338926--10338954 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10338916 TGATGGCTCA
10338926 ATCATAATGTAAAT
1 ATCATAATGTAAAT
10338940 ATCATAATGTAAAT
1 ATCATAATGTAAAT
10338954 A
1 A
10338955 GTAGTTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (14 bp):
ATCATAATGTAAAT
Found at i:10339586 original size:31 final size:32
Alignment explanation
Indices: 10339534--10339600 Score: 109
Period size: 31 Copynumber: 2.1 Consensus size: 32
10339524 TTTGAGGTGC
* *
10339534 ATTTTTATTTTTATCATGTTTTAATTGTTTTT
1 ATTTTTATTGTTATCACGTTTTAATTGTTTTT
10339566 ATTTTTA-TGTTATCACGTTTTAATTGTTTTT
1 ATTTTTATTGTTATCACGTTTTAATTGTTTTT
10339597 ATTT
1 ATTT
10339601 ATTCTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
31 26 0.79
32 7 0.21
ACGTcount: A:0.19, C:0.04, G:0.07, T:0.69
Consensus pattern (32 bp):
ATTTTTATTGTTATCACGTTTTAATTGTTTTT
Found at i:10350131 original size:7 final size:7
Alignment explanation
Indices: 10350119--10350171 Score: 88
Period size: 7 Copynumber: 7.6 Consensus size: 7
10350109 ATAAATATAT
*
10350119 TTTTTTA
1 TTTTTAA
*
10350126 TTTTTTA
1 TTTTTAA
10350133 TTTTTAA
1 TTTTTAA
10350140 TTTTTAA
1 TTTTTAA
10350147 TTTTTAA
1 TTTTTAA
10350154 TTTTTAA
1 TTTTTAA
10350161 TTTTTAA
1 TTTTTAA
10350168 TTTT
1 TTTT
10350172 AAAATACTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:10351861 original size:27 final size:30
Alignment explanation
Indices: 10351799--10351866 Score: 75
Period size: 33 Copynumber: 2.1 Consensus size: 30
10351789 AAATAACATG
10351799 ATATATAAATTTTGATTTAATTTAATTATAT
1 ATATATAAATTTTGATTT-ATTTAATTATAT
*
10351830 ATATATGAAATTTT-ATTTTTTATTTAATTATAC
1 ATATAT-AAATTTTGA---TTTATTTAATTATAT
10351863 ATAT
1 ATAT
10351867 TTTAAAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
31 7 0.22
32 7 0.22
33 15 0.47
34 3 0.09
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (30 bp):
ATATATAAATTTTGATTTATTTAATTATAT
Found at i:10364220 original size:2 final size:2
Alignment explanation
Indices: 10364213--10364242 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10364203 CCATACAACT
10364213 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10364243 ACTCAAGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10367417 original size:15 final size:15
Alignment explanation
Indices: 10367399--10367429 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10367389 AAATAAACTT
10367399 CAAATAAATTCGGCC
1 CAAATAAATTCGGCC
10367414 CAAATAAATTCGGCC
1 CAAATAAATTCGGCC
10367429 C
1 C
10367430 TATATACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.29, G:0.13, T:0.19
Consensus pattern (15 bp):
CAAATAAATTCGGCC
Found at i:10367526 original size:28 final size:30
Alignment explanation
Indices: 10367490--10367551 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
10367480 TTATGTTTTA
*
10367490 GTCACCAAAC-TTTTAAATTTTAC-TATATG
1 GTCACCAAACATTATAAATTTTACAT-TATG
*
10367519 GTCA-CAAACATTATCAATTTTACATTATG
1 GTCACCAAACATTATAAATTTTACATTATG
10367548 GTCA
1 GTCA
10367552 GTGAGTCGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 5 0.17
29 23 0.79
30 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (30 bp):
GTCACCAAACATTATAAATTTTACATTATG
Found at i:10368551 original size:9 final size:9
Alignment explanation
Indices: 10368537--10368568 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
10368527 AATCAATTCA
10368537 ATTAAAAAT
1 ATTAAAAAT
10368546 ATTAAAAAT
1 ATTAAAAAT
10368555 -TTAAAAA-
1 ATTAAAAAT
10368562 ATTAAAA
1 ATTAAAA
10368569 TAATTTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 13 0.59
9 9 0.41
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:10378478 original size:47 final size:48
Alignment explanation
Indices: 10378386--10378480 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 48
10378376 AGCCTTTGCC
*
10378386 TTGTCTTGCCTGAAATATCAATAAAAAAGTTCAAATTATTTCAGCAGG
1 TTGTCTTGCCTGAAATATCAATAAAAAAGTTCAAATTATTACAGCAGG
10378434 TTGTCTTGCCTGAAATATCAAT-AAAAAGTTCAAATTATTACAGCAGG
1 TTGTCTTGCCTGAAATATCAATAAAAAAGTTCAAATTATTACAGCAGG
10378481 AGAAACAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 24 0.52
48 22 0.48
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (48 bp):
TTGTCTTGCCTGAAATATCAATAAAAAAGTTCAAATTATTACAGCAGG
Found at i:10378770 original size:14 final size:14
Alignment explanation
Indices: 10378751--10378779 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10378741 GAAAAAATAC
10378751 ATAGTTTCAGACAT
1 ATAGTTTCAGACAT
10378765 ATAGTTTCAGACAT
1 ATAGTTTCAGACAT
10378779 A
1 A
10378780 AACTCAGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (14 bp):
ATAGTTTCAGACAT
Found at i:10380948 original size:30 final size:29
Alignment explanation
Indices: 10380912--10380986 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 29
10380902 ATTTTTTACA
*
10380912 AAAAATAATATATAAATTTTAAAAATATAT
1 AAAAATAA-ATATAAATTTTAAAAAAATAT
*
10380942 AAAAATAAATAT---TTTCAAAAAAATAT
1 AAAAATAAATATAAATTTTAAAAAAATAT
* *
10380968 AACAATAAATTTAAATTTT
1 AAAAATAAATATAAATTTT
10380987 CTATTAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 22 0.59
29 7 0.19
30 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (29 bp):
AAAAATAAATATAAATTTTAAAAAAATAT
Found at i:10381025 original size:25 final size:26
Alignment explanation
Indices: 10380997--10381047 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
10380987 CTATTAATAT
10380997 TTATATTAATATTAAATA-AATAAAA
1 TTATATTAATATTAAATAGAATAAAA
*
10381022 TTATATTCATATTAAATAGAATAAAA
1 TTATATTAATATTAAATAGAATAAAA
10381048 ATTCTCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (26 bp):
TTATATTAATATTAAATAGAATAAAA
Found at i:10381343 original size:15 final size:15
Alignment explanation
Indices: 10381323--10381353 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10381313 AACTAGACTT
10381323 TCTTCTCCGCTATTC
1 TCTTCTCCGCTATTC
*
10381338 TCTTCTCCTCTATTC
1 TCTTCTCCGCTATTC
10381353 T
1 T
10381354 TGTACCACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.39, G:0.03, T:0.52
Consensus pattern (15 bp):
TCTTCTCCGCTATTC
Found at i:10384611 original size:24 final size:24
Alignment explanation
Indices: 10384584--10384641 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
10384574 TAATTAATAG
* *
10384584 AAAAATTTGTAACAATTTAGGAAT
1 AAAAACTTATAACAATTTAGGAAT
10384608 AAAAACTTATAACAATTTAGGAAT
1 AAAAACTTATAACAATTTAGGAAT
10384632 AAAAACTTAT
1 AAAAACTTAT
10384642 CTAAAAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (24 bp):
AAAAACTTATAACAATTTAGGAAT
Found at i:10386955 original size:49 final size:54
Alignment explanation
Indices: 10386878--10387018 Score: 165
Period size: 55 Copynumber: 2.7 Consensus size: 54
10386868 ATTTATAGGC
*
10386878 TTAAAA-ACCTTATTCTAATCAA-AGTCAAATA-A-AAGT-AA-TGC-AGTA-AGA
1 TTAAAACACCTTATTCTAATCAACA-TCAAATAGAGAAATAAACTGCTA-TACAGA
*
10386926 TTAAAACACCTTATTCTAATCAACATCAAATAGAGGAAATAAACTTCTATACAGA
1 TTAAAACACCTTATTCTAATCAACATCAAATAGA-GAAATAAACTGCTATACAGA
*
10386981 TTAAAACACCTTATTCTAATCAACATTAAATAGA-AAAT
1 TTAAAACACCTTATTCTAATCAACATCAAATAGAGAAAT
10387019 TCACTTTGCC
Statistics
Matches: 81, Mismatches: 3, Indels: 13
0.84 0.03 0.13
Matches are distributed among these distances:
48 6 0.07
49 23 0.28
50 2 0.02
52 3 0.04
53 6 0.07
54 4 0.05
55 37 0.46
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.28
Consensus pattern (54 bp):
TTAAAACACCTTATTCTAATCAACATCAAATAGAGAAATAAACTGCTATACAGA
Found at i:10388177 original size:42 final size:42
Alignment explanation
Indices: 10388086--10388265 Score: 290
Period size: 42 Copynumber: 4.3 Consensus size: 42
10388076 TCAGTACACT
* * * *
10388086 GGCATTTAGCCTGCTAGACATATAGTCTGA-AATGTTTCACC
1 GGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACC
10388127 GGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACC
1 GGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACC
* *
10388169 GGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTATTTCACC
1 GGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACC
*
10388211 GGCATTAAGCCTGCTAGACGTAAAGTTTGATATTGTTTCACC
1 GGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACC
10388253 GGCATTAAGCCTG
1 GGCATTAAGCCTG
10388266 ATAGGCACTG
Statistics
Matches: 129, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 27 0.21
42 102 0.79
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (42 bp):
GGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACC
Found at i:10390813 original size:43 final size:43
Alignment explanation
Indices: 10390730--10390837 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
10390720 TTCGTAAGAT
* ** * *
10390730 GGTAAGCAAATAGCATATGAAT-AAAAAAATATTTTTTAACAC
1 GGTAAACAAATATTATACGAATAAAAAAAATATTCTTTAACAC
*
10390772 GGTAAACAAATATTATACGAATAAAAAAAATATTCTTTAACAT
1 GGTAAACAAATATTATACGAATAAAAAAAATATTCTTTAACAC
*
10390815 GGTAAACAAATATTATACCAATA
1 GGTAAACAAATATTATACGAATA
10390838 TTGAAGCAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
42 18 0.31
43 40 0.69
ACGTcount: A:0.52, C:0.10, G:0.09, T:0.29
Consensus pattern (43 bp):
GGTAAACAAATATTATACGAATAAAAAAAATATTCTTTAACAC
Found at i:10395755 original size:33 final size:33
Alignment explanation
Indices: 10395713--10395780 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
10395703 TTTTAGGTAT
10395713 AATGACTTATTTGACCCTTAAACTTTACAAAAA
1 AATGACTTATTTGACCCTTAAACTTTACAAAAA
*
10395746 AATGACTTATTTGACCCTTCAACTTTACAAAAA
1 AATGACTTATTTGACCCTTAAACTTTACAAAAA
10395779 AA
1 AA
10395781 AAGTTATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (33 bp):
AATGACTTATTTGACCCTTAAACTTTACAAAAA
Found at i:10395799 original size:33 final size:33
Alignment explanation
Indices: 10395717--10395789 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
10395707 AGGTATAATG
* *
10395717 ACTTATTTGACCCTTAAACTTTACAAAAAAATG
1 ACTTATTTGACCCTTCAACTTTACAAAAAAATA
10395750 ACTTATTTGACCCTTCAACTTTACAAAAAAA-A
1 ACTTATTTGACCCTTCAACTTTACAAAAAAATA
*
10395782 AGTTATTT
1 ACTTATTT
10395790 TAGCTCTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
32 7 0.19
33 30 0.81
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (33 bp):
ACTTATTTGACCCTTCAACTTTACAAAAAAATA
Found at i:10396377 original size:40 final size:40
Alignment explanation
Indices: 10396333--10396416 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
10396323 CTCGGCCCGA
10396333 ATTTAATAA-AAATATATTTTTA-TTTTTATTTTTAAAATAT
1 ATTTAA-AATAAATATATTTTTATTTTTTATTTTTAAAAT-T
** *
10396373 ATTTAAAATACTTTTATTTTTATTTTTTATTTTTAAAATT
1 ATTTAAAATAAATATATTTTTATTTTTTATTTTTAAAATT
10396413 ATTT
1 ATTT
10396417 TTTGGTGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
39 2 0.05
40 21 0.54
41 16 0.41
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (40 bp):
ATTTAAAATAAATATATTTTTATTTTTTATTTTTAAAATT
Found at i:10398616 original size:25 final size:25
Alignment explanation
Indices: 10398571--10398618 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
10398561 CGAAATTAAA
*
10398571 TTATAATTTTTAATAGCTTAAATAT
1 TTATAATTTTTAATAGATTAAATAT
10398596 TTATAATTTTTAA-AGAATTAAAT
1 TTATAATTTTTAATAG-ATTAAAT
10398619 CAAAATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (25 bp):
TTATAATTTTTAATAGATTAAATAT
Found at i:10399969 original size:14 final size:15
Alignment explanation
Indices: 10399945--10399973 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10399935 AGGGTTTGCA
10399945 CAAAAATATAGGCTT
1 CAAAAATATAGGCTT
10399960 CAAAAA-ATAGGCTT
1 CAAAAATATAGGCTT
10399974 AAACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (15 bp):
CAAAAATATAGGCTT
Found at i:10399980 original size:17 final size:15
Alignment explanation
Indices: 10399944--10399985 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
10399934 TAGGGTTTGC
10399944 ACAAAAATATAGGCTT
1 ACAAAAA-ATAGGCTT
10399960 -CAAAAAATAGGCTT
1 ACAAAAAATAGGCTT
10399974 AAACAAAAAATA
1 --ACAAAAAATA
10399986 AAATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 8 0.35
15 6 0.26
17 9 0.39
ACGTcount: A:0.60, C:0.12, G:0.10, T:0.19
Consensus pattern (15 bp):
ACAAAAAATAGGCTT
Found at i:10406805 original size:35 final size:35
Alignment explanation
Indices: 10406760--10406831 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
10406750 ATGGAGGACC
10406760 ACCATGCCTTTTTCTCACCTCCACACACTTCTTTG
1 ACCATGCCTTTTTCTCACCTCCACACACTTCTTTG
10406795 ACCATGCCTTTTTCTCACCTCCACACACTTCTTTG
1 ACCATGCCTTTTTCTCACCTCCACACACTTCTTTG
10406830 AC
1 AC
10406832 TTCCTCCCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.18, C:0.40, G:0.06, T:0.36
Consensus pattern (35 bp):
ACCATGCCTTTTTCTCACCTCCACACACTTCTTTG
Found at i:10408755 original size:26 final size:26
Alignment explanation
Indices: 10408719--10408769 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
10408709 GGGTCCCGTA
*
10408719 GCAAGGCGAGTTTGTAGG-TACAGTTC
1 GCAAGGAGAGTTTGT-GGATACAGTTC
10408745 GCAAGGAGAGTTTGTGGATACAGTT
1 GCAAGGAGAGTTTGTGGATACAGTT
10408770 TGCTGAGGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.25, C:0.12, G:0.35, T:0.27
Consensus pattern (26 bp):
GCAAGGAGAGTTTGTGGATACAGTTC
Found at i:10410826 original size:29 final size:30
Alignment explanation
Indices: 10410766--10410834 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
10410756 TGTTATCTGG
* *
10410766 AAAGTATATATATTAAATTCTTAAAAATAA
1 AAAGTATAGAAATTAAATTCTTAAAAATAA
**
10410796 AAA-TATAGAAATTAAATT-TTAAATTTAAA
1 AAAGTATAGAAATTAAATTCTTAAAAAT-AA
10410825 AAAGTATAGA
1 AAAGTATAGA
10410835 GACTTATGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 18 0.55
30 9 0.27
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (30 bp):
AAAGTATAGAAATTAAATTCTTAAAAATAA
Found at i:10414559 original size:5 final size:5
Alignment explanation
Indices: 10414545--10414581 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
10414535 AATCACTTTT
*
10414545 AAGAA TAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AA
10414582 AAACTACCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (5 bp):
AAGAA
Found at i:10415289 original size:21 final size:20
Alignment explanation
Indices: 10415265--10415303 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
10415255 TTAAAATCAT
*
10415265 ATTCGAATAAAAAGAAAACAC
1 ATTCAAATAAAAA-AAAACAC
*
10415286 ATTCAAATAACAAAAAAC
1 ATTCAAATAAAAAAAAAC
10415304 TTTATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.64, C:0.15, G:0.05, T:0.15
Consensus pattern (20 bp):
ATTCAAATAAAAAAAAACAC
Found at i:10416339 original size:31 final size:33
Alignment explanation
Indices: 10416279--10416341 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
10416269 TACTTTTAAT
*
10416279 TTAATATATTTTAATTTATTAAATATATATAAA
1 TTAATATATTTTAATATATTAAATATATATAAA
* *
10416312 TTAATATTTTTTAATAT-TTACAT-TATATAA
1 TTAATATATTTTAATATATTAAATATATATAA
10416342 TCATATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 7 0.26
32 5 0.19
33 15 0.56
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (33 bp):
TTAATATATTTTAATATATTAAATATATATAAA
Found at i:10416874 original size:30 final size:30
Alignment explanation
Indices: 10416838--10416899 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
10416828 GTCGAGCTTC
*
10416838 TTCCAACCGCCCTGCTTTTCTCGGTAAGTT
1 TTCCAACAGCCCTGCTTTTCTCGGTAAGTT
* *
10416868 TTCCAACAGCTCTGCTTTTCTCGTTAAGTT
1 TTCCAACAGCCCTGCTTTTCTCGGTAAGTT
10416898 TT
1 TT
10416900 TACCTTCGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.42
Consensus pattern (30 bp):
TTCCAACAGCCCTGCTTTTCTCGGTAAGTT
Found at i:10417826 original size:117 final size:117
Alignment explanation
Indices: 10417618--10417841 Score: 288
Period size: 117 Copynumber: 1.9 Consensus size: 117
10417608 GCACATTCTT
* * * * * *
10417618 CTGAGAATGTTGGAACTCCGGAGAAGAATTTTGATCAACAGACAATGAAGGATAATGTCTCTGCT
1 CTGAGAATGTTGGAAATCAGGAGAAGAATTTGGATCAACAGACAATGAAAGAGAATGTCTCCGCT
** *
10417683 ACATATGCTTCGACTTTCCAGAATTTTTTTCGTCCTTTAGGTGAACAATCTA
66 ACATATGCTTCGACTTTCCAGAATTTTACTCGTCCTTCAGGTGAACAATCTA
* * *
10417735 CTGAGAATGTTGGAAATCTAGG-GAGGAATTTGGATCAACAGGCAGTGAAAGAGAATGTCTCCGC
1 CTGAGAATGTTGGAAATC-AGGAGAAGAATTTGGATCAACAGACAATGAAAGAGAATGTCTCCGC
* * * *
10417799 TAGATATGCTTCGGCTTTCCGGGATTTTACTCGTCCTTCAGGT
65 TACATATGCTTCGACTTTCCAGAATTTTACTCGTCCTTCAGGT
10417842 CAAACAGAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
117 88 0.98
118 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (117 bp):
CTGAGAATGTTGGAAATCAGGAGAAGAATTTGGATCAACAGACAATGAAAGAGAATGTCTCCGCT
ACATATGCTTCGACTTTCCAGAATTTTACTCGTCCTTCAGGTGAACAATCTA
Found at i:10422904 original size:25 final size:26
Alignment explanation
Indices: 10422837--10422908 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 26
10422827 AAAATTTTCT
* *
10422837 TTAAAAATGTTAAATTTTATACAAAATA
1 TTAAAAA-G-TAAATTATATTCAAAATA
*
10422865 TTAAAAAGTAAATTATATTCATAATA
1 TTAAAAAGTAAATTATATTCAAAATA
*
10422891 TTATAAA-TAAATTATATT
1 TTAAAAAGTAAATTATATT
10422909 TTAAAAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 11 0.28
26 21 0.52
27 1 0.03
28 7 0.17
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (26 bp):
TTAAAAAGTAAATTATATTCAAAATA
Found at i:10429988 original size:18 final size:19
Alignment explanation
Indices: 10429949--10429988 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
10429939 TATATAAATT
**
10429949 AATGTATAATAAATATTTA
1 AATGTATAATAAATATCAA
10429968 AATGTATAA-AAATATCAA
1 AATGTATAATAAATATCAA
10429986 AAT
1 AAT
10429989 AAATGTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (19 bp):
AATGTATAATAAATATCAA
Found at i:10432585 original size:90 final size:90
Alignment explanation
Indices: 10431936--10432573 Score: 1105
Period size: 90 Copynumber: 7.1 Consensus size: 90
10431926 ACTGTTTGAA
* ** * * * * * *
10431936 CGTCGCCGTCTTCTCCAAGATGAAGATCAACTTCCGGTTGTCGGCCATTCTGATTGGACTTCTTT
1 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
*
10432001 TTTAGAACGAAACAAGGAATGGAAT
66 TTTAGAACGAAACAGGGAATGGAAT
10432026 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
1 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
10432091 TTTAGAACGAAACAGGGAATGGAAT
66 TTTAGAACGAAACAGGGAATGGAAT
10432116 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
1 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
10432181 TTTAGAACGAAACAGGGAATGGAAT
66 TTTAGAACGAAACAGGGAATGGAAT
10432206 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
1 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
10432271 TTTAGAACGAAACAGGGAATGGAAT
66 TTTAGAACGAAACAGGGAATGGAAT
10432296 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
1 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
10432361 TTTAGAACGAAACAGGGAATGGAAT
66 TTTAGAACGAAACAGGGAATGGAAT
10432386 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
1 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
10432451 TTTAGAACGAAACAGGGAATGGAAT
66 TTTAGAACGAAACAGGGAATGGAAT
* * * *
10432476 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTGTCGGCCATTCCGATTGGACATCATT
1 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
* * * *
10432541 TTTAGAACGGAACAAGGATTGGAAC
66 TTTAGAACGAAACAGGGAATGGAAT
*
10432566 CGCCGCCG
1 CGTCGCCG
10432574 GATGCTCCAA
Statistics
Matches: 529, Mismatches: 19, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 529 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (90 bp):
CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
TTTAGAACGAAACAGGGAATGGAAT
Found at i:10433775 original size:51 final size:51
Alignment explanation
Indices: 10433732--10433845 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
10433722 AAAGCTGAAG
* *
10433732 ACAAAGGGTTGATCCCTACGTCCCCAGATGTTCCCGCTAGTAAACCCGAAA
1 ACAAAGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA
*
10433783 ACAATGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA
1 ACAAAGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA
**
10433834 ACAGTGGGTTCA
1 ACAAAGGGTTCA
10433846 CACAAAGGGG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (51 bp):
ACAAAGGGTTCATCCCTACCTCCCCAGATGTTCCCGCTAGTAAACCCGAAA
Found at i:10433912 original size:21 final size:21
Alignment explanation
Indices: 10433888--10433935 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
10433878 ACACAAGAAA
10433888 AAGAAGCACCATGGAAAAGGG
1 AAGAAGCACCATGGAAAAGGG
* *
10433909 AAGAAGCACCGTGGGAAAGGG
1 AAGAAGCACCATGGAAAAGGG
10433930 AAGAAG
1 AAGAAG
10433936 AAAGGGAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.12, G:0.38, T:0.04
Consensus pattern (21 bp):
AAGAAGCACCATGGAAAAGGG
Found at i:10440036 original size:18 final size:17
Alignment explanation
Indices: 10440009--10440042 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10439999 CCATTCAAAG
*
10440009 AGGCACAAGAAGAGTGAA
1 AGGCAAAAGAAG-GTGAA
10440027 AGGCAAAAGAAGGTGA
1 AGGCAAAAGAAGGTGA
10440043 GTTTTTGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.09, G:0.35, T:0.06
Consensus pattern (17 bp):
AGGCAAAAGAAGGTGAA
Found at i:10459035 original size:41 final size:41
Alignment explanation
Indices: 10458972--10459049 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
10458962 ATACAATCAC
* *
10458972 AATTCAATTCAAATTCACTTTCCAC-TTTCTAATCAATATAT
1 AATTCAATACAAATACACTTTCCACTTTTC-AATCAATATAT
* *
10459013 AATTCAATACTAATACATTTTCCACTTTTCAATCAAT
1 AATTCAATACAAATACACTTTCCACTTTTCAATCAAT
10459050 GTACCATCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 28 0.88
42 4 0.12
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (41 bp):
AATTCAATACAAATACACTTTCCACTTTTCAATCAATATAT
Found at i:10462845 original size:135 final size:135
Alignment explanation
Indices: 10462603--10462871 Score: 475
Period size: 135 Copynumber: 2.0 Consensus size: 135
10462593 TATCCTTTAG
*
10462603 AATATTGGGTAGATATGCTCATGTTTGAGTTTCTAAAAAATACCCGTATCCAGTGGATAGTAATC
1 AATATTGGGTAGATATACTCATGTTTGAGTTTCTAAAAAATACCCGTATCCAGTGGATAGTAATC
* * *
10462668 ATTTTCTATAAACCTCAATACTTTATGCAAAATGGACTAGCAACACAATTAGCCTCCCTTCCTAG
66 ATTTTCTATAAACCTCAATACTTCACGCAAAATGGACCAGCAACACAATTAGCCTCCCTTCCTAG
10462733 CTCCA
131 CTCCA
*
10462738 AATATTGGGTAGATATACTCATGTTTGAGTTTCTCAAAAATACCCGTATCCAGTGGATAGTAATC
1 AATATTGGGTAGATATACTCATGTTTGAGTTTCTAAAAAATACCCGTATCCAGTGGATAGTAATC
* *
10462803 ATTTTCTATAAACCTCAATACTTCACGCAAAATGGACCAGCAACACAATTAGTCTCTCTTCCTAG
66 ATTTTCTATAAACCTCAATACTTCACGCAAAATGGACCAGCAACACAATTAGCCTCCCTTCCTAG
10462868 CTCC
131 CTCC
10462872 TGGATCCATA
Statistics
Matches: 127, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
135 127 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (135 bp):
AATATTGGGTAGATATACTCATGTTTGAGTTTCTAAAAAATACCCGTATCCAGTGGATAGTAATC
ATTTTCTATAAACCTCAATACTTCACGCAAAATGGACCAGCAACACAATTAGCCTCCCTTCCTAG
CTCCA
Found at i:10474665 original size:42 final size:42
Alignment explanation
Indices: 10474619--10474753 Score: 114
Period size: 42 Copynumber: 3.2 Consensus size: 42
10474609 TTTCATCACT
10474619 AATTCACTAACATATATAGTCATCAACAGCCCCATATCATCC
1 AATTCACTAACATATATAGTCATCAACAGCCCCATATCATCC
* * * ** **** * *
10474661 AATTCACTCACGA-ATCTTACTCGGAAGAA-ATTTTCAGATCA-CT
1 AATTCACTAAC-ATAT-ATAGTC--ATCAACAGCCCCATATCATCC
10474704 AATTCACTAACATATATAGTCATCAACAGCCCCATATCATCC
1 AATTCACTAACATATATAGTCATCAACAGCCCCATATCATCC
10474746 AATTCACT
1 AATTCACT
10474754 CACAAATCTT
Statistics
Matches: 64, Mismatches: 22, Indels: 14
0.64 0.22 0.14
Matches are distributed among these distances:
40 3 0.05
41 7 0.11
42 26 0.41
43 18 0.28
44 7 0.11
45 3 0.05
ACGTcount: A:0.37, C:0.28, G:0.07, T:0.28
Consensus pattern (42 bp):
AATTCACTAACATATATAGTCATCAACAGCCCCATATCATCC
Found at i:10474750 original size:85 final size:85
Alignment explanation
Indices: 10474613--10474782 Score: 322
Period size: 85 Copynumber: 2.0 Consensus size: 85
10474603 TTGCAATTTC
*
10474613 ATCACTAATTCACTAACATATATAGTCATCAACAGCCCCATATCATCCAATTCACTCACGAATCT
1 ATCACTAATTCACTAACATATATAGTCATCAACAGCCCCATATCATCCAATTCACTCACAAATCT
10474678 TACTCGGAAGAAATTTTCAG
66 TACTCGGAAGAAATTTTCAG
10474698 ATCACTAATTCACTAACATATATAGTCATCAACAGCCCCATATCATCCAATTCACTCACAAATCT
1 ATCACTAATTCACTAACATATATAGTCATCAACAGCCCCATATCATCCAATTCACTCACAAATCT
*
10474763 TATTCGGAAGAAATTTTCAG
66 TACTCGGAAGAAATTTTCAG
10474783 TTAACTCATT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (85 bp):
ATCACTAATTCACTAACATATATAGTCATCAACAGCCCCATATCATCCAATTCACTCACAAATCT
TACTCGGAAGAAATTTTCAG
Found at i:10485380 original size:26 final size:26
Alignment explanation
Indices: 10485344--10485406 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
10485334 AGAGGATAAT
* *
10485344 AAAGGAAGCTCACGGACCTAGCTCGC
1 AAAGGGAGCTCACGGACCTAACTCGC
* *
10485370 AAAGGGAGCTCATGGATCTAACTCGC
1 AAAGGGAGCTCACGGACCTAACTCGC
10485396 -AAGGAGAGCTC
1 AAAGG-GAGCTC
10485407 GCACGAACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 4 0.12
26 28 0.88
ACGTcount: A:0.32, C:0.25, G:0.29, T:0.14
Consensus pattern (26 bp):
AAAGGGAGCTCACGGACCTAACTCGC
Found at i:10486963 original size:13 final size:13
Alignment explanation
Indices: 10486945--10486995 Score: 93
Period size: 13 Copynumber: 3.9 Consensus size: 13
10486935 ACACTCAAAA
10486945 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
10486958 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
10486971 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
10486984 TTCTCAAAAGCA
1 TTCTCAAAAGCA
10486996 TAGTAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:10491099 original size:65 final size:65
Alignment explanation
Indices: 10491018--10491862 Score: 1690
Period size: 65 Copynumber: 13.0 Consensus size: 65
10491008 GTACAGCTGC
10491018 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
1 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
10491083 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
1 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
10491148 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
1 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
10491213 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
1 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
10491278 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
1 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
10491343 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
1 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
10491408 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
1 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
10491473 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
1 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
10491538 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
1 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
10491603 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
1 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
10491668 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
1 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
10491733 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
1 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
10491798 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
1 CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
10491863 GTCCTGTTGA
Statistics
Matches: 780, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 780 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (65 bp):
CCCTCTTTGCTCGTTGTCATGTAACGATAACAGAGCAAAGACTAAGAAAGACCAATTTTTACCCG
Found at i:10492348 original size:96 final size:95
Alignment explanation
Indices: 10491933--10492400 Score: 489
Period size: 96 Copynumber: 4.9 Consensus size: 95
10491923 AAAACAAGGT
* * * * ** * * *
10491933 TCGCCATTGTAGTTTCAATCTGTTCCACTGTATCGCCAAT-GATGTGAGATTCGCTGTTGTAGCT
1 TCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC--TGGAAATAAGATTCGCCGTTGTGGCT
* * * *
10491997 TCAATCTATTTGACTGCAATGTTGGGGAAGCGAGAT
64 TCAATCT-TTTAATTGCAA---TGGGGAAGTGAGAC
* * * * * *** * *
10492033 TCGCCATCGTAGCTTCAATCTGTTCCACTACACCGTAAGGAAATGAGATTCGCCGTTATGGCTTC
1 TCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAATAAGATTCGCCGTTGTGGCTTC
10492098 AATCTTTTAATTGCAATGTCGGGGAAGTGAGAC
66 AATCTTTTAATTGCAA--T-GGGGAAGTGAGAC
* *
10492131 TCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGA-AAGATTCACCGTTGTGGCTT
1 TCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAA-ATAAGATTCGCCGTTGTGGCTT
*
10492195 CAATC---T-ATCGCAATGGGGAAGTGAGAC
65 CAATCTTTTAATTGCAATGGGGAAGTGAGAC
* *
10492222 TCGTCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCTTGGAAATAAGATTCGCCGTTGTGGCTTC
1 TCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAATAAGATTCGCCGTTGTGGCTTC
*
10492287 GATCTTTTAAATTGCAATGGGGAAGTGAGAC
66 AATCTTTT-AATTGCAATGGGGAAGTGAGAC
* * *
10492318 TCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCGTCATTGTGGCTTC
1 TCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAATAAGATTCGCCGTTGTGGCTTC
*
10492383 GATCTTTTAAATTGCAAT
66 AATCTTTT-AATTGCAAT
10492401 CTATGGTTAC
Statistics
Matches: 316, Mismatches: 43, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
90 1 0.00
91 75 0.24
92 1 0.00
94 7 0.02
95 1 0.00
96 98 0.31
97 1 0.00
98 75 0.24
99 27 0.09
100 30 0.09
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (95 bp):
TCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAATAAGATTCGCCGTTGTGGCTTC
AATCTTTTAATTGCAATGGGGAAGTGAGAC
Found at i:10513735 original size:10 final size:11
Alignment explanation
Indices: 10513704--10513736 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
10513694 TATGTAAAAA
10513704 TATAATAATTGT
1 TATAATAA-TGT
10513716 TATAATAATGT
1 TATAATAATGT
10513727 TAT-ATAATGT
1 TATAATAATGT
10513737 GTTGGAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 6 0.29
12 8 0.38
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (11 bp):
TATAATAATGT
Found at i:10516751 original size:43 final size:42
Alignment explanation
Indices: 10516607--10516755 Score: 169
Period size: 42 Copynumber: 3.5 Consensus size: 42
10516597 TGTGATATCG
10516607 TGTAAGACCATGTCTGGGAC-GTTGGCATCG-ATTTAAGATTTACA
1 TGTAAGACCATGTCTGGGACTG-TGGCATCGTATTT--GA-TTACA
* * *
10516651 TGTAAGACCATGTCTGGGACAT-TGGCGTCGTATATGATTACG
1 TGTAAGACCATGTCTGGGAC-TGTGGCATCGTATTTGATTACA
*
10516693 TGTAAGACCTTGTCTGGGACTGTGGCATCGTTATTTGATTACA
1 TGTAAGACCATGTCTGGGACTGTGGCATCG-TATTTGATTACA
* *
10516736 TGTAATACCACGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
10516756 ATTGACATTG
Statistics
Matches: 90, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
41 1 0.01
42 30 0.33
43 29 0.32
44 27 0.30
45 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACTGTGGCATCGTATTTGATTACA
Found at i:10530674 original size:45 final size:44
Alignment explanation
Indices: 10530611--10530699 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 44
10530601 AGCTTGTGTG
* *
10530611 CATCAATAACCTATCACATTTTTGCTCATGCTTATGAACTTAGT
1 CATCAATAACCTATCACATTTTTGCTCATGCTCATGAACATAGT
*
10530655 CATCAATTAACCTATCACATTTTTGCTCATGGTCATGAACATAGT
1 CATCAA-TAACCTATCACATTTTTGCTCATGCTCATGAACATAGT
10530700 GATTTCTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 6 0.15
45 35 0.85
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.37
Consensus pattern (44 bp):
CATCAATAACCTATCACATTTTTGCTCATGCTCATGAACATAGT
Found at i:10535711 original size:25 final size:24
Alignment explanation
Indices: 10535652--10535704 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
10535642 TTTCTAGAAG
*
10535652 ATTTAATATTTATTAGTATAATAT
1 ATTTAATATTTATTAGTATAAAAT
*
10535676 ATTTAACATTTATTAGTATAAAAAT
1 ATTTAATATTTATTAGTAT-AAAAT
10535701 ATTT
1 ATTT
10535705 GTTATTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (24 bp):
ATTTAATATTTATTAGTATAAAAT
Found at i:10546881 original size:18 final size:18
Alignment explanation
Indices: 10546829--10546884 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
10546819 TTCATAACAC
*
10546829 TTTTTTATAAATAATATAA
1 TTTTTTATAAATAA-ATTA
* *
10546848 TTTTTTTGTCAA-AAATTA
1 -TTTTTTATAAATAAATTA
10546866 TTTTTTATAAATAAATTA
1 TTTTTTATAAATAAATTA
10546884 T
1 T
10546885 GATAAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 9 0.30
18 10 0.33
19 2 0.07
20 9 0.30
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
TTTTTTATAAATAAATTA
Found at i:10547171 original size:32 final size:31
Alignment explanation
Indices: 10547077--10547172 Score: 75
Period size: 32 Copynumber: 2.9 Consensus size: 31
10547067 TTTTTTAAGA
* *
10547077 TTTAAATAATATAATTTTTTTGCTATAACTTT
1 TTTAAATTATATTATTTTTTTGCTATAA-TTT
* * * * **
10547109 ATAAAATACATAAATTATTTTTATAATATAATTT
1 TTTAAAT---TATATTATTTTTTTGCTATAATTT
10547143 TTTAAGATTATATTATTTTTTTGCTATAAT
1 TTTAA-ATTATATTATTTTTTTGCTATAAT
10547173 CATCCTAAAC
Statistics
Matches: 46, Mismatches: 14, Indels: 8
0.68 0.21 0.12
Matches are distributed among these distances:
32 23 0.50
34 6 0.13
35 17 0.37
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (31 bp):
TTTAAATTATATTATTTTTTTGCTATAATTT
Found at i:10555559 original size:16 final size:17
Alignment explanation
Indices: 10555528--10555561 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10555518 TTATTCTTCA
10555528 AATTTTATACTTTTTTT
1 AATTTTATACTTTTTTT
*
10555545 AATTTT-TATTTTTTTT
1 AATTTTATACTTTTTTT
10555561 A
1 A
10555562 GAACTTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
AATTTTATACTTTTTTT
Found at i:10558893 original size:42 final size:42
Alignment explanation
Indices: 10558814--10558893 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
10558804 TTTATTATAA
*
10558814 TATAATATATAATATATATACTTAACATTTAAGTTTTAATAT
1 TATAATATATAATATATATACTTAACATTTAAATTTTAATAT
*
10558856 TATAATATTATAATATATAT-TTTAAC-TTTAAAATTTTA
1 TATAATA-TATAATATATATACTTAACATTT-AAATTTTA
10558894 TAATAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 3 0.09
42 19 0.56
43 12 0.35
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (42 bp):
TATAATATATAATATATATACTTAACATTTAAATTTTAATAT
Found at i:10564220 original size:81 final size:81
Alignment explanation
Indices: 10564085--10564408 Score: 639
Period size: 81 Copynumber: 4.0 Consensus size: 81
10564075 TCACACCAAC
*
10564085 TTTTAATATATGTATGATAGTTATGTTATATTTTCAGTCACAATAATTTTTAATAATATAAATAG
1 TTTTAATATATGTATGATAGTTATGTTATATGTTCAGTCACAATAATTTTTAATAATATAAATAG
10564150 GTAAATTTTTTAACAT
66 GTAAATTTTTTAACAT
10564166 TTTTAATATATGTATGATAGTTATGTTATATGTTCAGTCACAATAATTTTTAATAATATAAATAG
1 TTTTAATATATGTATGATAGTTATGTTATATGTTCAGTCACAATAATTTTTAATAATATAAATAG
10564231 GTAAATTTTTTAACAT
66 GTAAATTTTTTAACAT
10564247 TTTTAATATATGTATGATAGTTATGTTATATGTTCAGTCACAATAATTTTTAATAATATAAATAG
1 TTTTAATATATGTATGATAGTTATGTTATATGTTCAGTCACAATAATTTTTAATAATATAAATAG
10564312 GTAAATTTTTTAACAT
66 GTAAATTTTTTAACAT
10564328 TTTTAATATATGTATGATAGTTATGTTATATGTTCAGTCACAATAATTTTTAATAATATAAATAG
1 TTTTAATATATGTATGATAGTTATGTTATATGTTCAGTCACAATAATTTTTAATAATATAAATAG
10564393 GTAAATTTTTTAACAT
66 GTAAATTTTTTAACAT
10564409 AAATAATTAA
Statistics
Matches: 242, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 242 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (81 bp):
TTTTAATATATGTATGATAGTTATGTTATATGTTCAGTCACAATAATTTTTAATAATATAAATAG
GTAAATTTTTTAACAT
Found at i:10565348 original size:21 final size:23
Alignment explanation
Indices: 10565324--10565376 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
10565314 AAAAAGTTAC
*
10565324 TAAAATAATATG-T-CAATGACA
1 TAAAATAATATGTTGAAATGACA
* *
10565345 TAAAACAAGATGTTGAAATGACA
1 TAAAATAATATGTTGAAATGACA
*
10565368 TTAAATAAT
1 TAAAATAAT
10565377 TGGTAAAAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 10 0.42
22 1 0.04
23 13 0.54
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (23 bp):
TAAAATAATATGTTGAAATGACA
Found at i:10565667 original size:26 final size:27
Alignment explanation
Indices: 10565600--10565669 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 27
10565590 ATAATAAAAT
* *
10565600 AAAATATAT-AGAAAATTTAGAAATAC
1 AAAATATATAAAAAAATTTAAAAATAC
*
10565626 AAAATATATTATAAAAAATTTAAAAAT-T
1 AAAATATA-TA-AAAAAATTTAAAAATAC
*
10565654 TAAATATATAAAAAAA
1 AAAATATATAAAAAAA
10565670 CTATAAGAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
26 14 0.38
27 3 0.08
28 7 0.19
29 13 0.35
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
AAAATATATAAAAAAATTTAAAAATAC
Found at i:10565969 original size:25 final size:27
Alignment explanation
Indices: 10565919--10565969 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
10565909 TAATAAATTT
*
10565919 TAAAAAATATGTATACTTAAATAATAC
1 TAAAAAATATGTATACTTAAACAATAC
10565946 TAAAATAA-ATGTA-ACTT-AACAATA
1 TAAAA-AATATGTATACTTAAACAATA
10565970 AAATATCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 6 0.27
26 4 0.18
27 10 0.45
28 2 0.09
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.31
Consensus pattern (27 bp):
TAAAAAATATGTATACTTAAACAATAC
Found at i:10579297 original size:105 final size:105
Alignment explanation
Indices: 10579110--10579301 Score: 242
Period size: 105 Copynumber: 1.8 Consensus size: 105
10579100 TATAGGTAAC
* ** *
10579110 AACATCAGGCTCAATGCCCTGCTTTATCATTGTGTCAACAATATCTTTAGCTTTAGAAAGCATCC
1 AACATCAGGCTCAATGCCATGCTTTATCATTGTGTCAACAATATCTACAGCTTCAGAAAGCATCC
* *
10579175 CTTCTTTGTAACATGCATCGATACATATATTGTACGTGAT
66 CTTCCTTGCAACATGCATCGATACATATATTGTACGTGAT
* * * * **
10579215 AACATTAGGCTCAATGCCATGCTTTCTCATTGTGTCAACAATTTCTACAGCTTCCGAAATTATAC
1 AACATCAGGCTCAATGCCATGCTTTATCATTGTGTCAACAATATCTACAGCTTCAGAAAGCAT-C
**
10579280 CC-TCCTTGCAATGTGCATCGAT
65 CCTTCCTTGCAACATGCATCGAT
10579302 CAATGTATTA
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
105 69 0.96
106 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (105 bp):
AACATCAGGCTCAATGCCATGCTTTATCATTGTGTCAACAATATCTACAGCTTCAGAAAGCATCC
CTTCCTTGCAACATGCATCGATACATATATTGTACGTGAT
Found at i:10580662 original size:32 final size:32
Alignment explanation
Indices: 10580626--10580690 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
10580616 CTTGACAAAG
10580626 TTTTTAACGAAAGTCAAATTTTTTATTTCTCA
1 TTTTTAACGAAAGTCAAATTTTTTATTTCTCA
*
10580658 TTTTTAACGAAAGTCAATTTTTTTATTTCTCA
1 TTTTTAACGAAAGTCAAATTTTTTATTTCTCA
10580690 T
1 T
10580691 AGAATAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (32 bp):
TTTTTAACGAAAGTCAAATTTTTTATTTCTCA
Found at i:10599995 original size:19 final size:20
Alignment explanation
Indices: 10599970--10600014 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
10599960 AAAAATGAAT
10599970 AATTGAAATAAAGAAACGTC
1 AATTGAAATAAAGAAACGTC
10599990 -ATTGAAATAAAGAAACGTC
1 AATTGAAATAAAGAAACGTC
10600009 AATTGA
1 AATTGA
10600015 CATGCCGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.22
Consensus pattern (20 bp):
AATTGAAATAAAGAAACGTC
Found at i:10602290 original size:24 final size:25
Alignment explanation
Indices: 10602246--10602299 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
10602236 AATTTTTTTT
** *
10602246 AAAAATAAAATAT-TCAAAAAATTC
1 AAAAATAAAATATAAAAAAAAAGTC
10602270 AAAAATAAAA-ATAAAACAAAAAGTC
1 AAAAATAAAATATAAAA-AAAAAGTC
10602295 AAAAA
1 AAAAA
10602300 GTTAGTATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.08
24 11 0.44
25 12 0.48
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (25 bp):
AAAAATAAAATATAAAAAAAAAGTC
Found at i:10611356 original size:32 final size:32
Alignment explanation
Indices: 10611320--10611380 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
10611310 AAATAAACAC
10611320 ATAATTATTCATTT-AATA-TTATAACTATTCAA
1 ATAA-TATT-ATTTAAATAGTTATAACTATTCAA
*
10611352 ATAATATTATTTAAATAGTTATAATTATT
1 ATAATATTATTTAAATAGTTATAACTATT
10611381 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAACTATTCAA
Found at i:10620744 original size:14 final size:13
Alignment explanation
Indices: 10620727--10620777 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
10620717 CCTTAAACTA
10620727 TTATTGTTATATTT
1 TTATT-TTATATTT
*
10620741 TTATTTT-TACTT
1 TTATTTTATATTT
*
10620753 TTATTTTATTTTAT
1 TTATTTTATATT-T
10620767 TTATTTTATAT
1 TTATTTTATAT
10620778 ATATATACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 11 0.35
13 4 0.13
14 16 0.52
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (13 bp):
TTATTTTATATTT
Found at i:10620905 original size:37 final size:39
Alignment explanation
Indices: 10620864--10620939 Score: 93
Period size: 37 Copynumber: 2.0 Consensus size: 39
10620854 TATCTCATGA
* *
10620864 TTTTAAATATATATACATATGT-TCTTCT-TATTTTTAT
1 TTTTAAATATATACACATATATATCTTCTATATTTTTAT
** *
10620901 TTTTACGTATATACACATATATATCTTTTATATTTTTAT
1 TTTTAAATATATACACATATATATCTTCTATATTTTTAT
10620940 AGTTTTATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 18 0.56
38 5 0.16
39 9 0.28
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (39 bp):
TTTTAAATATATACACATATATATCTTCTATATTTTTAT
Found at i:10622356 original size:11 final size:11
Alignment explanation
Indices: 10622326--10622366 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
10622316 AAAATAAGAG
10622326 AAAAAGAAAGAA
1 AAAAAGAAA-AA
10622338 AGAAAAGAAAAA
1 A-AAAAGAAAAA
10622350 AAAAAGAAAAA
1 AAAAAGAAAAA
*
10622361 AGAAAG
1 AAAAAG
10622367 GTCAAGGCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 15 0.56
12 4 0.15
13 8 0.30
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:10623221 original size:13 final size:12
Alignment explanation
Indices: 10623203--10623245 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
10623193 AAAAACATGA
10623203 AAAAATGAAAATG
1 AAAAATGAAAA-G
10623216 AAAAATG-AAA-
1 AAAAATGAAAAG
10623226 AAAAATGAAAAG
1 AAAAATGAAAAG
10623238 TAAAAATG
1 -AAAAATG
10623246 GAGAGGCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (12 bp):
AAAAATGAAAAG
Found at i:10623228 original size:23 final size:23
Alignment explanation
Indices: 10623202--10623245 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
10623192 AAAAAACATG
10623202 AAAAAATGAAAA-TGAAAAATGAA
1 AAAAAATGAAAAGT-AAAAATGAA
10623225 AAAAAATGAAAAGTAAAAATG
1 AAAAAATGAAAAGTAAAAATG
10623246 GAGAGGCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (23 bp):
AAAAAATGAAAAGTAAAAATGAA
Found at i:10623243 original size:17 final size:17
Alignment explanation
Indices: 10623210--10623243 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10623200 TGAAAAAATG
*
10623210 AAAATGAAAAATGAAAA
1 AAAATGAAAAATAAAAA
*
10623227 AAAATGAAAAGTAAAAA
1 AAAATGAAAAATAAAAA
10623244 TGGAGAGGCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAATGAAAAATAAAAA
Found at i:10635263 original size:44 final size:43
Alignment explanation
Indices: 10635213--10635790 Score: 165
Period size: 44 Copynumber: 13.2 Consensus size: 43
10635203 GACAACTGAT
* *
10635213 CTTGCCTTCCTGTCTTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTG-CTTGATAGCGAAGCAGATTGAAGACACAAAC
* * * * * * *
10635257 CTTGCC-TCTCTCGGTTG-TAGCGGAGCTGGTTAAAGACAACAGAT
1 CTTGCCTTC-CT-GCTTGATAGCGAAGCAGATTGAAGAC-ACAAAC
* * * *
10635301 CTTGCCTTCCTGCCTTGACAGTGAAGCAGATCGAAAACACAAAC
1 CTTGCCTTCCTG-CTTGATAGCGAAGCAGATTGAAGACACAAAC
* * * * ** * * * *
10635345 CTTGTCTCTCTCAG-TTG-TAGTGGAGTTGGTTGAAGACAGTAGAT
1 CTTGCCT-TC-CTGCTTGATAGCGAAGCAGATTGAAGACA-CAAAC
* *
10635389 CTTGCCTTCCTGTATTGATAGCGAAGCAGATTGAAGACACAAGC
1 CTTGCCTTCCTG-CTTGATAGCGAAGCAGATTGAAGACACAAAC
* * * * * * *
10635433 CTTGCCTCCCTCGGTTG-TAGTGGAGCTAG-TTAAAGATAGCAAAT
1 CTTGCCTTCCT-GCTTGATAGCGAAGC-AGATTGAAGACA-CAAAC
* * *
10635477 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGC
1 CTTGCCTTCCTGC-TTGATAGCGAAGCAGATTGAAGACACAAAC
* * * * * * *
10635521 CTTGCC-TCCGTCGGTTG-TAGTGGAGCTGGTTGAAGACAACAGAT
1 CTTGCCTTCC-T-GCTTGATAGCGAAGCAGATTGAAGAC-ACAAAC
* ** ** *
10635565 CTTGCCTTCCTGCATCGACT-GTAAAGCAGATCAAAGACACAAGC
1 CTTGCCTTCCTGC-TTGA-TAGCGAAGCAGATTGAAGACACAAAC
* * * * * * * * *
10635609 CTTGCCTCCCTGGTTG-TAGTGGAGCTGGTTGAAGATAGCAGAT
1 CTTGCCTTCCTGCTTGATAGCGAAGCAGATTGAAGACA-CAAAC
* * ** * *
10635652 TTTGCCTTCCTGCATCGCCAGCGAAGCAGATCGAAGACACAAGC
1 CTTGCCTTCCTGC-TTGATAGCGAAGCAGATTGAAGACACAAAC
* * * * * * *
10635696 CTTGCCTCCCTCGATTG-TAG-TAGAGCTGGTTGAAGACAGCAGAT
1 CTTGCCTTCCT-GCTTGATAGCGA-AGCAGATTGAAGACA-CAAAC
* * * * *
10635740 CTTGCCTTCCTG-TATAGACAGGGTAGCAGATCGAAGACACAAGC
1 CTTGCCTTCCTGCT-T-GATAGCGAAGCAGATTGAAGACACAAAC
10635784 CTTGCCT
1 CTTGCCT
10635791 CCCTCAGTTG
Statistics
Matches: 367, Mismatches: 131, Indels: 72
0.64 0.23 0.13
Matches are distributed among these distances:
41 1 0.00
42 16 0.04
43 96 0.26
44 160 0.44
45 91 0.25
46 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (43 bp):
CTTGCCTTCCTGCTTGATAGCGAAGCAGATTGAAGACACAAAC
Found at i:10635770 original size:263 final size:263
Alignment explanation
Indices: 10635199--10635820 Score: 888
Period size: 263 Copynumber: 2.4 Consensus size: 263
10635189 AACAGATCAA
* * * *
10635199 TGAAGACAACTGATCTTGCCTTCCTGTCTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAGCAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
* * * * *
10635264 CTCTCGGTTGTAGCGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCCTTGACAGTGAAGCA
66 C-CTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATCGACAGTAAAGCA
* * * *
10635329 GATCGAAAACACAAACCTTGTCTCTCTCAGTTGTAGTGGAGTTGGTTGAAGACAGTAGATCTTGC
130 GATCGAAAACACAAACCTTGCCTCCCTCAGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGC
* * * * * *
10635394 CTTCCTGTATTGATAGCGAAGCAGATTGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGC
195 CTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGATTGTAGTAGAGC
10635459 TAGT
260 TAGT
* * * *
10635463 TAAAGATAGCAAATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGACAGCAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
*
10635528 CCGTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATCGACTGTAAAGCA
66 CC-TCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATCGACAGTAAAGCA
* * * *
10635593 GATC-AAAGACACAAGCCTTGCCTCCCT-GGTTGTAGTGGAGCTGGTTGAAGATAGCAGATTTTG
130 GATCGAAA-ACACAAACCTTGCCTCCCTCAGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTG
*
10635656 CCTTCCTGCATCGCCAGCGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGATTGTAGTAGAG
194 CCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGATTGTAGTAGAG
*
10635721 CTGGT
259 CTAGT
* * *
10635726 TGAAGACAGCAGATCTTGCCTTCCTGTATAGACAGGGTAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGACAGCAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
*
10635791 CCCTCAGTTGTAGTGGAGCTGGTTGAAGAC
66 -CCTCGGTTGTAGTGGAGCTGGTTGAAGAC
10635821 GGTGAATCTT
Statistics
Matches: 317, Mismatches: 38, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
263 181 0.57
264 136 0.43
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (263 bp):
TGAAGACAGCAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
CCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATCGACAGTAAAGCAG
ATCGAAAACACAAACCTTGCCTCCCTCAGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCC
TTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGATTGTAGTAGAGCT
AGT
Found at i:10635837 original size:88 final size:88
Alignment explanation
Indices: 10635199--10635820 Score: 852
Period size: 88 Copynumber: 7.1 Consensus size: 88
10635189 AACAGATCAA
* * *
10635199 TGAAGACAACTGATCTTGCCTTCCTGTC-TTGACAGCGAAGCAGATCGAAGACACAAACCTTGCC
1 TGAAGACAGCAGATCTTGCCTTCCTG-CATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCC
* *
10635263 TCTCTCGGTTGTAGCGGAGCTGGT
65 TCCCTCGGTTGTAGTGGAGCTGGT
* * * * * * *
10635287 TAAAGACAACAGATCTTGCCTTCCTGCCTTGACAGTGAAGCAGATCGAAAACACAAACCTTGTCT
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
* * *
10635352 CTCTCAGTTGTAGTGGAGTTGGT
66 CCCTCGGTTGTAGTGGAGCTGGT
* * * *
10635375 TGAAGACAGTAGATCTTGCCTTCCTGTATTGATAGCGAAGCAGATTGAAGACACAAGCCTTGCCT
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
*
10635440 CCCTCGGTTGTAGTGGAGCTAGT
66 CCCTCGGTTGTAGTGGAGCTGGT
* * *
10635463 TAAAGATAGCAAATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
*
10635528 CCGTCGGTTGTAGTGGAGCTGGT
66 CCCTCGGTTGTAGTGGAGCTGGT
* * * ** *
10635551 TGAAGACAACAGATCTTGCCTTCCTGCATCGACTGTAAAGCAGATCAAAGACACAAGCCTTGCCT
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
10635616 CCCT-GGTTGTAGTGGAGCTGGT
66 CCCTCGGTTGTAGTGGAGCTGGT
* * * *
10635638 TGAAGATAGCAGATTTTGCCTTCCTGCATCGCCAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
* *
10635703 CCCTCGATTGTAGTAGAGCTGGT
66 CCCTCGGTTGTAGTGGAGCTGGT
* * * *
10635726 TGAAGACAGCAGATCTTGCCTTCCTGTATAGACAGGGTAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
*
10635791 CCCTCAGTTGTAGTGGAGCTGGT
66 CCCTCGGTTGTAGTGGAGCTGGT
10635814 TGAAGAC
1 TGAAGAC
10635821 GGTGAATCTT
Statistics
Matches: 470, Mismatches: 62, Indels: 4
0.88 0.12 0.01
Matches are distributed among these distances:
87 80 0.17
88 390 0.83
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (88 bp):
TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
CCCTCGGTTGTAGTGGAGCTGGT
Found at i:10636140 original size:44 final size:44
Alignment explanation
Indices: 10636044--10636184 Score: 144
Period size: 44 Copynumber: 3.2 Consensus size: 44
10636034 GAAGATCCAG
* ** * *
10636044 TCTCATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAA--ACAAA
1 TCTCATCTCCCTGAAGTTGCAGTGGATC-GA-ATTACAACCACAGA
*
10636088 TCTTATCTCCCTGAAGTTGCAGTGGATCGAATTACAACCACAGA
1 TCTCATCTCCCTGAAGTTGCAGTGGATCGAATTACAACCACAGA
* * *
10636132 TCTCATCTCCCTGAAGTTGTAGTGGAAT-GGATTACAACCTCAGA
1 TCTCATCTCCCTGAAGTTGCAGTGG-ATCGAATTACAACCACAGA
*
10636176 TCTTATCTC
1 TCTCATCTC
10636185 TTTGAATTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 4 0.05
43 2 0.02
44 75 0.90
45 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (44 bp):
TCTCATCTCCCTGAAGTTGCAGTGGATCGAATTACAACCACAGA
Found at i:10641369 original size:33 final size:28
Alignment explanation
Indices: 10641298--10641379 Score: 103
Period size: 27 Copynumber: 2.8 Consensus size: 28
10641288 ATGTAAAAAG
10641298 GGGGTTGCTAAGTGCTGATT-CCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCCCAA
*
10641325 GGGGTTGCTAAGTGCTGATTCCCCGACTCATT
1 GGGGTTGCTAAGTGCTGATTCCCC--C-CA-A
10641357 GGTGGTTGCTAAGTGCTGATTCC
1 GG-GGTTGCTAAGTGCTGATTCC
10641380 ACCGTATCTT
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 20 0.42
28 3 0.06
30 1 0.02
31 2 0.04
32 2 0.04
33 20 0.42
ACGTcount: A:0.16, C:0.23, G:0.30, T:0.30
Consensus pattern (28 bp):
GGGGTTGCTAAGTGCTGATTCCCCCCAA
Found at i:10641438 original size:27 final size:28
Alignment explanation
Indices: 10641399--10641451 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
10641389 TTGAATGTAA
10641399 AAGGAGGTTGCTAAGTGCTGATTCCCCC
1 AAGGAGGTTGCTAAGTGCTGATTCCCCC
*
10641427 AAGG-GGTTGCTAAGTGTTGATTCCC
1 AAGGAGGTTGCTAAGTGCTGATTCCC
10641452 TGAATTACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (28 bp):
AAGGAGGTTGCTAAGTGCTGATTCCCCC
Found at i:10641473 original size:104 final size:105
Alignment explanation
Indices: 10641287--10641487 Score: 323
Period size: 104 Copynumber: 1.9 Consensus size: 105
10641277 GAGTACATTA
* *
10641287 AATGTAAAAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAC
1 AATGTAAAAAGGAGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAA
* * *
10641352 TCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTG
66 TCACTGGTGGTTGCTAAGTGCTAAATCCACCGTATCTTTG
* *
10641392 AATGT-AAAAGGAGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCCTGAA
1 AATGTAAAAAGGAGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAA
*
10641456 TTACTGGTGGTTGCTAAGTGCTAAATCCACCG
66 TCACTGGTGGTTGCTAAGTGCTAAATCCACCG
10641488 ATAACGGACA
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
104 83 0.94
105 5 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (105 bp):
AATGTAAAAAGGAGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAA
TCACTGGTGGTTGCTAAGTGCTAAATCCACCGTATCTTTG
Found at i:10643236 original size:27 final size:26
Alignment explanation
Indices: 10643201--10643269 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 26
10643191 ATAAAACTTA
10643201 TATATATTATAATATTATAATATTATAT
1 TATATATTATAATA-TAT-ATATTATAT
10643229 CT-TA-ATTATTAAGTATATATATTATAT
1 -TATATATTA-TAA-TATATATATTATAT
10643256 TATATATTATAATA
1 TATATATTATAATA
10643270 AGTAAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 12 0.33
29 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (26 bp):
TATATATTATAATATATATATTATAT
Found at i:10643254 original size:7 final size:7
Alignment explanation
Indices: 10643201--10643266 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
10643191 ATAAAACTTA
10643201 TATATAT
1 TATATAT
10643208 TATAATAT
1 TAT-ATAT
10643216 TATAATAT
1 TAT-ATAT
*
10643224 TATATCT
1 TATATAT
10643231 TA-ATTAT
1 TATA-TAT
10643238 TAAGTATAT
1 T-A-TATAT
10643247 ATATTATAT
1 -TA-TATAT
10643256 TATATAT
1 TATATAT
10643263 TATA
1 TATA
10643267 ATAAGTAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 1 0.02
7 20 0.40
8 18 0.36
9 9 0.18
10 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:10643279 original size:30 final size:32
Alignment explanation
Indices: 10643211--10643279 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
10643201 TATATATTAT
* *
10643211 AATATTATAATATTATATCTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
10643244 TATATATTATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
10643274 AATATA
1 AATATA
10643280 ATAAATAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:10645184 original size:14 final size:13
Alignment explanation
Indices: 10645144--10645194 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
10645134 TTAAGTATAT
*
10645144 TATTATTTTATTA
1 TATTATTATATTA
* *
10645157 TATT-GTAAATTA
1 TATTATTATATTA
10645169 TATTAATTATATTA
1 TATT-ATTATATTA
10645183 TATTATTATATT
1 TATTATTATATT
10645195 TCAAATAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 9 0.29
13 12 0.39
14 10 0.32
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTATTATATTA
Done.