Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 118 of 344
Found at i:40040111 original size:79 final size:79
Alignment explanation
Indices: 40039958--40040112 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
40039948 GGACTAAGAT
* * * **
40039958 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
40040023 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
40040037 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
40040100 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
40040113 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:40043073 original size:19 final size:17
Alignment explanation
Indices: 40043049--40043088 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
40043039 AAGTGATACC
*
40043049 TAAATTATAATTTATTATT
1 TAAATTAT-ATATATT-TT
40043068 TAAATTATATATATTTT
1 TAAATTATATATATTTT
40043085 TAAA
1 TAAA
40043089 AAAATCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 6 0.30
19 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAAATTATATATATTTT
Found at i:40046471 original size:18 final size:19
Alignment explanation
Indices: 40046444--40046481 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
40046434 ATAAAAAAAT
* *
40046444 AATTTTATAATAAA-TTTA
1 AATTTAATAAAAAACTTTA
40046462 AATTTAATAAAAAACTTTA
1 AATTTAATAAAAAACTTTA
40046481 A
1 A
40046482 TAGTATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTTAATAAAAAACTTTA
Found at i:40047095 original size:90 final size:90
Alignment explanation
Indices: 40046937--40047103 Score: 253
Period size: 90 Copynumber: 1.9 Consensus size: 90
40046927 ATTGAGATGG
** * *
40046937 AATTATGGACAAATAGAAATGGTCTTATGATTGCTTTATAACTTAATATTACACGTATCGAAATT
1 AATTATGGACAAATAGAAATAATCTTATGATTGCTGTATAACTTAATATTACACATATCGAAATT
*
40047002 GAAAGTGATTCCGTGGTGGTGGTTT
66 GAAAATGATTCCGTGGTGGTGGTTT
* * * *
40047027 AATTCTGGACAAATAGAAATAATCTTATGCTTGCTGTATAGCTTAATATTACCCATATCGAAATT
1 AATTATGGACAAATAGAAATAATCTTATGATTGCTGTATAACTTAATATTACACATATCGAAATT
40047092 GAAAATGATTCC
66 GAAAATGATTCC
40047104 ATAGTAGTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 68 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (90 bp):
AATTATGGACAAATAGAAATAATCTTATGATTGCTGTATAACTTAATATTACACATATCGAAATT
GAAAATGATTCCGTGGTGGTGGTTT
Found at i:40053354 original size:43 final size:42
Alignment explanation
Indices: 40053306--40053438 Score: 144
Period size: 43 Copynumber: 3.1 Consensus size: 42
40053296 ACTTCCGAGG
40053306 TGTGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCAATA
1 TGTGATTTTGTGTAAGACCATGTCTGGGACATTGGCATC-ATA
** * *
40053349 TGTGATTAAGTGTAAAACCATG-CTTGGGACATTGGCATCGTA
1 TGTGATTTTGTGTAAGACCATGTC-TGGGACATTGGCATCATA
* * * **
40053391 TATGA-TTTGTCTAAGACCCTGTCTGGGACAAAGGCATCGATA
1 TGTGATTTTGTGTAAGACCATGTCTGGGACATTGGCATC-ATA
40053433 TGTGAT
1 TGTGAT
40053439 AGCATGTAAG
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
41 24 0.33
42 14 0.19
43 34 0.47
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCATA
Found at i:40055653 original size:29 final size:29
Alignment explanation
Indices: 40055611--40055735 Score: 164
Period size: 29 Copynumber: 4.3 Consensus size: 29
40055601 GAAAGCATGT
40055611 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
40055640 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
40055669 ATACT-AATATGATTTGAGCCTAATGGGAC
1 ATA-TGAATGTGATTTGGGCCTAATGGGCC
* *
40055698 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
40055726 ACATGCATGT
1 ATATGAATGT
40055736 ATGTAGACTT
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
28 21 0.25
29 61 0.73
30 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:40060296 original size:38 final size:38
Alignment explanation
Indices: 40060254--40060335 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
40060244 ATGCTGGAAT
* *
40060254 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTAGTAA
1 TATATCCGGGTTAAATCCCACAGGCCTAGTGCTAGTAA
* * *
40060292 TATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCCTAGTGCTAGTAA
40060330 TATATC
1 TATATC
40060336 TGAGTTTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCACAGGCCTAGTGCTAGTAA
Found at i:40061940 original size:24 final size:24
Alignment explanation
Indices: 40061913--40062026 Score: 68
Period size: 24 Copynumber: 5.2 Consensus size: 24
40061903 GTGATGTGTA
40061913 TTCGGGCCTTTGTGCCTAGCAGGC
1 TTCGGGCCTTTGTGCCTAGCAGGC
* * * **
40061937 TTCGCGCC--GGTG-AT-G-AGTA
1 TTCGGGCCTTTGTGCCTAGCAGGC
40061956 TTCGGGCCTTTGTGCCTAGCAGGC
1 TTCGGGCCTTTGTGCCTAGCAGGC
* * * **
40061980 TTCGTGCC--GGTG-AT-G-AGTA
1 TTCGGGCCTTTGTGCCTAGCAGGC
40061999 TTCGGGCCTTTGTGCCTAGCAGGC
1 TTCGGGCCTTTGTGCCTAGCAGGC
40062023 TTCG
1 TTCG
40062027 TGTCGGTGAT
Statistics
Matches: 60, Mismatches: 20, Indels: 20
0.60 0.20 0.20
Matches are distributed among these distances:
19 18 0.30
20 2 0.03
21 8 0.13
22 8 0.13
23 2 0.03
24 22 0.37
ACGTcount: A:0.11, C:0.25, G:0.34, T:0.30
Consensus pattern (24 bp):
TTCGGGCCTTTGTGCCTAGCAGGC
Found at i:40061964 original size:43 final size:43
Alignment explanation
Indices: 40061860--40062110 Score: 387
Period size: 43 Copynumber: 5.9 Consensus size: 43
40061850 CATGAAACTT
*
40061860 GGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGTTTCGTG-C
1 GGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCC
* *
40061902 AGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGCGCC
1 GGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCC
*
40061945 GGTGATGAGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCC
1 GGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCC
* *
40061988 GGTGATGAGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGTC
1 GGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCC
* * *
40062031 GGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTCCGTACC
1 GGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCC
* * *
40062074 AGTGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTT
1 GGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTT
40062111 AATGCCAGTG
Statistics
Matches: 193, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
42 38 0.20
43 155 0.80
ACGTcount: A:0.12, C:0.23, G:0.34, T:0.32
Consensus pattern (43 bp):
GGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCC
Found at i:40062378 original size:57 final size:58
Alignment explanation
Indices: 40062276--40062386 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 58
40062266 CGAATGATTA
*
40062276 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACAATATGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTCAACCGAGCACAATATGTGCGAAATCGGTAATT
* * * * *
40062334 GAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCAAATTCCTTCAACCGAGCACAATATGTGCGAAATCGGT
40062387 CAGTGGGCAC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 28 0.60
58 19 0.40
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCAAATTCCTTCAACCGAGCACAATATGTGCGAAATCGGTAATT
Found at i:40066114 original size:38 final size:38
Alignment explanation
Indices: 40066072--40066153 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
40066062 ATGCTGGAAT
* *
40066072 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTAGTAA
1 TATATCCGGGTTAAATCCCACAGGCCTAGTGCTAGTAA
* * *
40066110 TATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCCTAGTGCTAGTAA
40066148 TATATC
1 TATATC
40066154 TGAGTTTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCACAGGCCTAGTGCTAGTAA
Found at i:40068291 original size:42 final size:42
Alignment explanation
Indices: 40068244--40068339 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
40068234 CGGCCTAGAG
* * *
40068244 ACACGGGCGTGTCTATTGGTCATGTGTGTGACATGGGCTGGC
1 ACACGGGCGTGTCTATTGGTCATGTGTGTCACACGGGCTAGC
*
40068286 ACACGGGCGTGTCTATTGGTCGTGTGTGTCACACGGGCTAGC
1 ACACGGGCGTGTCTATTGGTCATGTGTGTCACACGGGCTAGC
40068328 ACACGGGCGTGT
1 ACACGGGCGTGT
40068340 GGTTAGCCGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.15, C:0.22, G:0.38, T:0.26
Consensus pattern (42 bp):
ACACGGGCGTGTCTATTGGTCATGTGTGTCACACGGGCTAGC
Found at i:40070956 original size:28 final size:28
Alignment explanation
Indices: 40070913--40071017 Score: 140
Period size: 28 Copynumber: 3.8 Consensus size: 28
40070903 CATAACTATA
* *
40070913 AATGTGATTGGGCCTAAT-GACCGTATG
1 AATGTGATTGGGCCTAATGGGCCATATG
* *
40070940 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGA-TTGGGCCTAATGGGCCATATG
40070969 AATGTGATTGGGCCTAATGGGCCATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
* *
40070997 AAAGAGATTGGGCCTAATGGG
1 AATGTGATTGGGCCTAATGGG
40071018 ATATATACAG
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
27 7 0.10
28 49 0.72
29 12 0.18
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:40071008 original size:56 final size:56
Alignment explanation
Indices: 40070910--40071017 Score: 164
Period size: 56 Copynumber: 1.9 Consensus size: 56
40070900 GAGCATAACT
* * *
40070910 ATAAATGTGATTGGGCCTAATGACCGTATGAATGTGATTTGGGCCTAATGGGCCAC
1 ATAAATGTGATTGGGCCTAATGACCATATGAAAGAGATTTGGGCCTAATGGGCCAC
*
40070966 ATAAATGTGATTGGGCCTAATGGGCCATATGAAAGAGA-TTGGGCCTAATGGG
1 ATAAATGTGATTGGGCCTAAT-GACCATATGAAAGAGATTTGGGCCTAATGGG
40071018 ATATATACAG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
56 35 0.74
57 12 0.26
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.27
Consensus pattern (56 bp):
ATAAATGTGATTGGGCCTAATGACCATATGAAAGAGATTTGGGCCTAATGGGCCAC
Found at i:40078484 original size:16 final size:16
Alignment explanation
Indices: 40078463--40078497 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
40078453 CGAAATGCCG
40078463 AAATGCCAAAAAGATA
1 AAATGCCAAAAAGATA
* *
40078479 AAATGCCGAAAAGCTA
1 AAATGCCAAAAAGATA
40078495 AAA
1 AAA
40078498 GTTTAGGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.14, G:0.14, T:0.11
Consensus pattern (16 bp):
AAATGCCAAAAAGATA
Found at i:40078778 original size:28 final size:28
Alignment explanation
Indices: 40078708--40078823 Score: 128
Period size: 28 Copynumber: 4.1 Consensus size: 28
40078698 TGAGCATAAC
* *
40078708 TATAAATGTGATTGGGCCTAAT-GACCG
1 TATAAATGTGATTGGGCCTAATGGGCCA
*
40078735 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAATGGGCCA
* * *
40078764 CATAAATGTGATTGGGCTTAATTGGCCA
1 TATAAATGTGATTGGGCCTAATGGGCCA
* *
40078792 TATGAAA-GAGATTGGGCCTAATGGGCTA
1 TAT-AAATGTGATTGGGCCTAATGGGCCA
40078820 TATA
1 TATA
40078824 CAGGTATGTG
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
27 11 0.15
28 48 0.65
29 15 0.20
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:40078807 original size:56 final size:56
Alignment explanation
Indices: 40078709--40078817 Score: 157
Period size: 56 Copynumber: 1.9 Consensus size: 56
40078699 GAGCATAACT
* * *
40078709 ATAAATGTGATTGGGCCTAATGACCGTATGAATGTGATTTGGGCCTAATGGGCCAC
1 ATAAATGTGATTGGGCCTAATGACCATATGAAAGAGATTTGGGCCTAATGGGCCAC
* *
40078765 ATAAATGTGATTGGGCTTAATTGGCCATATGAAAGAGA-TTGGGCCTAATGGGC
1 ATAAATGTGATTGGGCCTAA-TGACCATATGAAAGAGATTTGGGCCTAATGGGC
40078818 TATATACAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 34 0.72
57 13 0.28
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.28
Consensus pattern (56 bp):
ATAAATGTGATTGGGCCTAATGACCATATGAAAGAGATTTGGGCCTAATGGGCCAC
Found at i:40081607 original size:68 final size:64
Alignment explanation
Indices: 40081498--40081705 Score: 169
Period size: 67 Copynumber: 3.2 Consensus size: 64
40081488 CATCATGTGT
*
40081498 ACAAGAGAGCTACAAGGCATTATGATGTAGCTAGGTC-GCATGGGTGATACTATGTGTACACCAT
1 ACAAGAGAGCTAC--GGGA-TAT-ATGTAGCTAGGTCAGCATGGGTG-TACTATGTGTACACCAT
40081562 GTAG
61 GTAG
* * * *
40081566 ACAAGAGAGCTACGGGATATATGTAGCTAGGTC-GCATGCATGGT-TCCAAGTGAAGAACACCAT
1 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCAGCATG---GGTGTACTA-TG-TGTACACCAT
40081629 GTAG
61 GTAG
* * * *
40081633 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCA-CATGGGTGGTACTAAGTGTTCACCATGT-
1 ACAAGAGAGCTACGGGATATA-TGTAGCTAGGTCAGCATGGGT-GTACTATGTGTACACCATGTA
40081694 G
64 G
40081695 TACAAGAGAGC
1 -ACAAGAGAGC
40081706 CGAACTATAT
Statistics
Matches: 117, Mismatches: 13, Indels: 25
0.75 0.08 0.16
Matches are distributed among these distances:
62 1 0.01
63 22 0.19
64 19 0.16
65 9 0.08
66 17 0.15
67 34 0.29
68 15 0.13
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGGGATATATGTAGCTAGGTCAGCATGGGTGTACTATGTGTACACCATGTAG
Found at i:40097244 original size:17 final size:18
Alignment explanation
Indices: 40097222--40097257 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
40097212 GTGCATTGTA
40097222 TAAG-TTTAAAAAAATTT
1 TAAGTTTTAAAAAAATTT
*
40097239 TAAGTTTTAGAAAAATTT
1 TAAGTTTTAAAAAAATTT
40097257 T
1 T
40097258 GTATGTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (18 bp):
TAAGTTTTAAAAAAATTT
Found at i:40100593 original size:40 final size:40
Alignment explanation
Indices: 40100514--40100770 Score: 297
Period size: 40 Copynumber: 6.5 Consensus size: 40
40100504 CGGATGATAA
* * *
40100514 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
40100554 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
40100594 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * * * *
40100634 TCGGGCTATGTCCCGAAGGCATTTATGCTAG-CGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* *
40100674 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
40100714 TCGGGCTAAGACCCGAGGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
40100754 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
40100771 ATACTTGGGT
Statistics
Matches: 179, Mismatches: 33, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.08
40 160 0.89
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:40100652 original size:80 final size:80
Alignment explanation
Indices: 40100514--40100770 Score: 376
Period size: 80 Copynumber: 3.2 Consensus size: 80
40100504 CGGATGATAA
* * *
40100514 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATTCGGGCTATGTCCCGAAGGCATTTA
40100579 TGCTAGTGATTATAT
66 TGCTAGTGATTATAT
*
40100594 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATTCGGGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATTCGGGCTATGTCCCGAAGGCATTTA
*
40100659 TGCTAGCGATTATAT
66 TGCTAGTGATTATAT
* * * * *
40100674 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATTCGGGCTAAGACCCGAGGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATTCGGGCTATGTCCCGAAGGCATTTA
*
40100739 TGCGAGTTG-TTATAT
66 TGCTAG-TGATTATAT
40100754 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
40100771 ATACTTGGGT
Statistics
Matches: 161, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
78 1 0.01
79 13 0.08
80 146 0.91
81 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATTCGGGCTATGTCCCGAAGGCATTTA
TGCTAGTGATTATAT
Found at i:40102648 original size:96 final size:96
Alignment explanation
Indices: 40102498--40102686 Score: 324
Period size: 96 Copynumber: 2.0 Consensus size: 96
40102488 ACAGCTTTCA
* * * * *
40102498 ATCGAGTATAAAAATGGCACCGTACGAAGCTTTATACGGTCGCATATGCTGAACACCTTTTTACT
1 ATCGAGTATAAAAATGGCACCGTACGAAGCTTTATACGATCGCAAATGCCGAACACCCTTGTACT
40102563 GGACAGAGCTTAGCGAGAATAAGATTCATGG
66 GGACAGAGCTTAGCGAGAATAAGATTCATGG
*
40102594 ATCGAGTATAAAAATGGCACCGTATGAAGCTTTATACGATCGCAAATGCCGAACACCCTTGTACT
1 ATCGAGTATAAAAATGGCACCGTACGAAGCTTTATACGATCGCAAATGCCGAACACCCTTGTACT
40102659 GGACAGAGCTTAGCGAGAATAAGATTCA
66 GGACAGAGCTTAGCGAGAATAAGATTCA
40102687 CAGGGTTAAC
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (96 bp):
ATCGAGTATAAAAATGGCACCGTACGAAGCTTTATACGATCGCAAATGCCGAACACCCTTGTACT
GGACAGAGCTTAGCGAGAATAAGATTCATGG
Found at i:40104450 original size:43 final size:43
Alignment explanation
Indices: 40104402--40104548 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 43
40104392 ACTTCTGAGG
* *
40104402 TGTGATTTCATGTAAGACCATGTCTGGGACATG-GGCATCGATA
1 TGTGATTTCATGTAAGACCATGTCTAGGATA-GAGGCATCGATA
* * *
40104445 TGTGATTACGTGTAAGACCATGTCTAGGATAGTGG-ATCG-TA
1 TGTGATTTCATGTAAGACCATGTCTAGGATAGAGGCATCGATA
* *
40104486 TATGA-TT--TGTAAATGACCCTGTCTAGGATAGAGGCATCGATA
1 TGTGATTTCATGT-AA-GACCATGTCTAGGATAGAGGCATCGATA
**
40104528 TGTGATAGCATGTAAGACCAT
1 TGTGATTTCATGTAAGACCAT
40104549 ATCCGGGATA
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
38 3 0.04
39 2 0.02
40 19 0.23
41 10 0.12
42 11 0.13
43 34 0.40
44 2 0.02
45 3 0.04
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTGATTTCATGTAAGACCATGTCTAGGATAGAGGCATCGATA
Found at i:40107195 original size:24 final size:24
Alignment explanation
Indices: 40107144--40107485 Score: 479
Period size: 24 Copynumber: 14.0 Consensus size: 24
40107134 GTTTTATCAT
*
40107144 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
40107169 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
40107193 ATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
40107217 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
40107241 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
40107266 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
* *
40107291 ATAATTGGGGCGTAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
* *
40107316 ATAACTGGGGCGTAAACCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
40107341 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
40107365 ATAACTGAGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
40107389 ATAATTGCGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
40107413 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
40107437 ATAACTGGGGCGTAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
40107462 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
40107486 CACTTCCTCC
Statistics
Matches: 290, Mismatches: 24, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
24 164 0.57
25 126 0.43
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:40107562 original size:20 final size:20
Alignment explanation
Indices: 40107534--40107594 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
40107524 TTATGAATAC
40107534 ATCAAGTGCATATCATACAT
1 ATCAAGTGCATATCATACAT
* *
40107554 ATCACGTGCATATCATACTT
1 ATCAAGTGCATATCATACAT
* *
40107574 GTCATGTGCATATCATACAT
1 ATCAAGTGCATATCATACAT
40107594 A
1 A
40107595 CCGTGTTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (20 bp):
ATCAAGTGCATATCATACAT
Found at i:40107679 original size:25 final size:25
Alignment explanation
Indices: 40107637--40107684 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
40107627 ATATTTAAAC
* * *
40107637 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
40107662 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
40107685 CATTTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:40108876 original size:27 final size:27
Alignment explanation
Indices: 40108846--40108910 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
40108836 GGGCGTATTC
40108846 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
40108873 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
40108900 GTCTTTTTACC
1 GTCATTTTACC
40108911 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:40109077 original size:27 final size:27
Alignment explanation
Indices: 40108941--40109150 Score: 140
Period size: 27 Copynumber: 7.7 Consensus size: 27
40108931 TTTCATCCTA
** * * *
40108941 CAAGGGTGCTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ** *
40108968 CAAGGGT-TTTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTT-GGTAATTTTACAAAT
* * *
40108995 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-T
**
40109024 CAAGGGTATTTAT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
*
40109051 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * * *
40109078 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
40109105 CAATGGTATTCTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
40109131 CTAAGGGTATTTTGGTAATT
1 C-AAGGGTATTTTGGTAATT
40109151 CTACCCTACA
Statistics
Matches: 143, Mismatches: 33, Indels: 14
0.75 0.17 0.07
Matches are distributed among these distances:
26 5 0.03
27 106 0.74
28 17 0.12
29 15 0.10
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:40109212 original size:27 final size:27
Alignment explanation
Indices: 40109182--40109354 Score: 215
Period size: 27 Copynumber: 6.4 Consensus size: 27
40109172 GTAATTTCAC
* *
40109182 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTATA
*
40109209 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGATAATTCTATA
* *
40109236 AATC-AGGGGTAAAATGGTAATTCTATA
1 AATCGA-GGGTAAAACGATAATTCTATA
* *
40109263 AATCGAGGTTAAAA-TAGTAATTCTATA
1 AATCGAGGGTAAAACGA-TAATTCTATA
* * *
40109290 AATTGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTATA
40109317 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTATA
*
40109344 AATCAAGGGTA
1 AATCGAGGGTA
40109355 CTTTGGTAAA
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 121 0.98
28 2 0.02
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTCTATA
Found at i:40109291 original size:81 final size:81
Alignment explanation
Indices: 40109182--40109354 Score: 267
Period size: 81 Copynumber: 2.1 Consensus size: 81
40109172 GTAATTTCAC
*
40109182 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATC-AGGGGT
1 AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGA-GGGT
* *
40109246 AAAATGGTAATTCTATA
65 AAAACGATAATTCTATA
* * *
40109263 AATCGAGGTTAAAATAGTAATTCTATAAATTGAGGGTAAAACGATAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
40109328 AAACGATAATTCTATA
66 AAACGATAATTCTATA
*
40109344 AATCAAGGGTA
1 AATCGAGGGTA
40109355 CTTTGGTAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 82 0.99
82 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
AAACGATAATTCTATA
Found at i:40112380 original size:25 final size:24
Alignment explanation
Indices: 40112303--40112595 Score: 433
Period size: 24 Copynumber: 12.0 Consensus size: 24
40112293 GCTTTATCAT
40112303 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
40112327 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
40112351 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
40112376 ATAACTGGGACATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
* *
40112401 ATAATTGGGGCGTAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
40112426 ATAACTGGGGCGTAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
40112451 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
40112475 ATAACTGAGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
40112499 ATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
40112523 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
40112547 ATAACTGGGGCGTAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
40112572 ATAACTGGGGCATAAGCACTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
40112596 CACTTCCTCC
Statistics
Matches: 248, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
24 135 0.54
25 113 0.46
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:40112672 original size:20 final size:20
Alignment explanation
Indices: 40112644--40112704 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
40112634 TTATGAATAC
40112644 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
40112664 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
40112684 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
40112704 A
1 A
40112705 CCGTGTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:40112786 original size:25 final size:25
Alignment explanation
Indices: 40112747--40112794 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
40112737 ATATTTAAAC
* *
40112747 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
40112772 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
40112795 CATTTTATAA
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:40113987 original size:27 final size:26
Alignment explanation
Indices: 40113957--40114021 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
40113947 GGGCGTATTC
40113957 GTCATTTTACCATACAAGGGTA-TTACG
1 GTCATTTTACCATAC-AGGG-ACTTACG
* *
40113984 GTCACTTTACCCTACAGGGACTTTACG
1 GTCATTTTACCATACAGGGAC-TTACG
*
40114011 GTCTTTTTACC
1 GTCATTTTACC
40114022 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 4 0.12
27 27 0.84
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (26 bp):
GTCATTTTACCATACAGGGACTTACG
Found at i:40114178 original size:27 final size:27
Alignment explanation
Indices: 40114139--40114294 Score: 138
Period size: 27 Copynumber: 5.8 Consensus size: 27
40114129 GAAGGTCAAT
** *
40114139 GGTATTTAT-GTAATTTTGTAAATTAGG
1 GGTATTT-TGGTAATTTTACAAACTAGG
*
40114166 GGTATTTTGGTAATTTTACAAA-TTGAG
1 GGTATTTTGGTAATTTTACAAACTAG-G
* * * **
40114193 GGTATTTCGGTAATTTCACAAACCAAT
1 GGTATTTTGGTAATTTTACAAACTAGG
40114220 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
* **
40114247 GGTATTTTGGTAATTCTACCCTA-TAGG
1 GGTATTTTGGTAATTTTA-CAAACTAGG
* *
40114274 GGTATTTTAGTAATTTCACAA
1 GGTATTTTGGTAATTTTACAA
40114295 TCGAGGGTAA
Statistics
Matches: 103, Mismatches: 22, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
26 4 0.04
27 97 0.94
28 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACTAGG
Found at i:40114277 original size:81 final size:81
Alignment explanation
Indices: 40114135--40114294 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 81
40114125 TTTAGAAGGT
** * * *
40114135 CAATGGTATTTATGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
1 CAATGGTATTTATGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTT
*
40114200 CGGTAATTTCACAAAC
66 CAGTAATTTCACAAAC
**
40114216 CAATGGTATTT-TGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCCTATAG-GGGTAT
1 CAATGGTATTTAT-GTAATTTTACAAACTAGGGGTATTTTGGTAATTCTA-CAAATAGAGGGTAT
*
40114279 TTTAGTAATTTCACAA
64 TTCAGTAATTTCACAA
40114295 TCGAGGGTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.01
81 63 0.93
82 4 0.06
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
CAATGGTATTTATGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTT
CAGTAATTTCACAAAC
Found at i:40114323 original size:27 final size:27
Alignment explanation
Indices: 40114293--40114457 Score: 181
Period size: 27 Copynumber: 6.1 Consensus size: 27
40114283 GTAATTTCAC
40114293 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * *
40114320 AATCGATGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* **
40114347 AAT-TAGGGGTAAAACAGTAATTCTATA
1 AATCGA-GGGTAAAATGGTAATTCTATA
* * *
40114374 AATGGAGGTTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
40114401 AATCGAGGGTAAAACT-GTAATTTTATA
1 AATCGAGGGTAAAA-TGGTAATTCTATA
* *
40114428 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
40114455 AAT
1 AAT
40114458 TAAGGGTACT
Statistics
Matches: 114, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 111 0.97
28 2 0.02
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.32
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:40114403 original size:81 final size:81
Alignment explanation
Indices: 40114297--40114457 Score: 229
Period size: 81 Copynumber: 2.0 Consensus size: 81
40114287 TTTCACAATC
* * *
40114297 GAGGGTAAAATGGTAATTCTATAAATCGATGGTAAAA-TGATAATTTTGTAAATTAG-GGGTAAA
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACTG-TAATTTTATAAA-TAGAGGGTAAA
40114360 AC-AGTAATTCTATAAATG
64 ACGA-TAATTCTATAAATG
* *
40114378 GAGGTTAAAATAGTAATTCTATAAATCGAGGGTAAAACTGTAATTTTATAAATCGAGGGTAAAAC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACTGTAATTTTATAAATAGAGGGTAAAAC
40114443 GATAATTCTATAAAT
66 GATAATTCTATAAAT
40114458 TAAGGGTACT
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
80 2 0.03
81 67 0.93
82 3 0.04
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (81 bp):
GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACTGTAATTTTATAAATAGAGGGTAAAAC
GATAATTCTATAAATG
Found at i:40118313 original size:49 final size:49
Alignment explanation
Indices: 40118240--40118427 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
40118230 TAGCCAAAGC
*
40118240 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * *** *
40118289 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGCAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * *
40118340 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
40118389 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
40118428 CGTGACCTCA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 76 0.65
50 2 0.02
51 39 0.33
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:40118359 original size:100 final size:100
Alignment explanation
Indices: 40118245--40118428 Score: 350
Period size: 100 Copynumber: 1.8 Consensus size: 100
40118235 AAAGCTATCT
*
40118245 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
40118310 TGCACTTAGTACTACACACATGATCGCAGTTTTCG
66 TGCACTTAGTACTACACACATGATCGCAGTTTTCG
*
40118345 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
40118410 TGCACTTAGTACTACACAC
66 TGCACTTAGTACTACACAC
40118429 GTGACCTCAC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACATGATCGCAGTTTTCG
Found at i:40122088 original size:19 final size:20
Alignment explanation
Indices: 40122061--40122098 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
40122051 AGTATTAAAG
*
40122061 CAAAATAAACATA-AATCCC
1 CAAAATAAAAATAGAATCCC
*
40122080 CAAATTAAAAATAGAATCC
1 CAAAATAAAAATAGAATCC
40122099 AAAGAGGCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.58, C:0.21, G:0.03, T:0.18
Consensus pattern (20 bp):
CAAAATAAAAATAGAATCCC
Found at i:40123001 original size:18 final size:18
Alignment explanation
Indices: 40122965--40123002 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
40122955 ATTGCGAGCT
*
40122965 CATGTGGGCCCACATGCC
1 CATGTGGGCCCACAAGCC
40122983 CATGT-GGCCCACAAAGCC
1 CATGTGGGCCCAC-AAGCC
40123001 CA
1 CA
40123003 GAAATGGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.24, C:0.39, G:0.24, T:0.13
Consensus pattern (18 bp):
CATGTGGGCCCACAAGCC
Found at i:40126459 original size:26 final size:27
Alignment explanation
Indices: 40126430--40126483 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
40126420 TAGTCTTCCC
40126430 ACCA-AAAAGGGCAAAATAATCATTTT
1 ACCATAAAAGGGCAAAATAATCATTTT
* *
40126456 ACCATATAAGGGTAAAATAATCATTTT
1 ACCATAAAAGGGCAAAATAATCATTTT
40126483 A
1 A
40126484 TCAATTGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (27 bp):
ACCATAAAAGGGCAAAATAATCATTTT
Found at i:40127558 original size:21 final size:21
Alignment explanation
Indices: 40127528--40127568 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
40127518 GATGGACTCC
40127528 AAAGAAAAG-AGAAAGAAGTAG
1 AAAGAAAAGAAG-AAGAAGTAG
*
40127549 AAAGAGAAGAAGAAGAAGTA
1 AAAGAAAAGAAGAAGAAGTA
40127569 ATGATCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.05
Consensus pattern (21 bp):
AAAGAAAAGAAGAAGAAGTAG
Found at i:40127560 original size:15 final size:16
Alignment explanation
Indices: 40127533--40127565 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
40127523 ACTCCAAAGA
*
40127533 AAAGAGAAAGAAGTAG
1 AAAGAGAAAGAAGAAG
40127549 AAAGAG-AAGAAGAAG
1 AAAGAGAAAGAAGAAG
40127564 AA
1 AA
40127566 GTAATGATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (16 bp):
AAAGAGAAAGAAGAAG
Found at i:40129917 original size:19 final size:18
Alignment explanation
Indices: 40129879--40129919 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
40129869 TGGGTAGGCC
*
40129879 GTGTGGTCACACACGCCT
1 GTGTGGTCAAACACGCCT
*
40129897 GTGTGGCTCAAACACGTCT
1 GTGTGG-TCAAACACGCCT
40129916 GTGT
1 GTGT
40129920 CCTCAGCCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (18 bp):
GTGTGGTCAAACACGCCT
Found at i:40135045 original size:15 final size:15
Alignment explanation
Indices: 40135000--40135072 Score: 92
Period size: 15 Copynumber: 4.9 Consensus size: 15
40134990 GAGATGACAT
*
40135000 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* * * *
40135015 GAAGTCTAGGAGAAA
1 GAAATCCAAGATAAA
40135030 GAAATCCAAGATAAA
1 GAAATCCAAGATAAA
*
40135045 GAAATCCAAGATACA
1 GAAATCCAAGATAAA
40135060 GAAATCCAAGATA
1 GAAATCCAAGATA
40135073 CAATATCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 48 1.00
ACGTcount: A:0.56, C:0.14, G:0.18, T:0.12
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:40136687 original size:206 final size:209
Alignment explanation
Indices: 40136330--40136722 Score: 738
Period size: 206 Copynumber: 1.9 Consensus size: 209
40136320 CCTTAGTTAT
*
40136330 TAATTTTTAAAGCGTAATTTAGAAAACTAGCTTATAAATTATATAATATGTGATACAACATAAAG
1 TAATTTTTAAAGCGTAATTTAGAAAACTAGCTTATAAATTATATAATATGTGATACAACATAAAA
40136395 GAAAAAAAGGTGTTAATAATTTTTTTCACATAGCCGAAACTAAAAAGAAAGAAAAGGAAGAAGCA
66 GAAAAAAAGGTGTTAATAATTTTTTTCACATAGCCGAAACTAAAAAGAAAGAAAAGGAAGAAGCA
**
40136460 AGCTAGGGTTCGGTTGATTTTTAAGCTCAATCAAGGTAAGTGTTCGACTCAGATTTTTTGAGATC
131 AGCTAGGGTTCGGTTGATTTTTAAGCTCAATCAAGGTAAGTGTTCGACAAAGATTTTTTGAGATC
40136525 GTTGATAATTTTGA
196 GTTGATAATTTTGA
40136539 TAATTTTTAAAGCGTAATTTAGAAAACTAGCTTATAAATTATATAATATGTGATAC-A-ATAAAA
1 TAATTTTTAAAGCGTAATTTAGAAAACTAGCTTATAAATTATATAATATGTGATACAACATAAAA
40136602 G-AAAAAAGGTGTTAATAATTTTTTTCACATAGCCGAAACTAAAAAGAAAGAAAAGGAAGAAGCA
66 GAAAAAAAGGTGTTAATAATTTTTTTCACATAGCCGAAACTAAAAAGAAAGAAAAGGAAGAAGCA
40136666 AGCTAGGGTTCGGTTGATTTTTAAGCTCAATCAAGGTAAGTGTTCGACAAAGATTTT
131 AGCTAGGGTTCGGTTGATTTTTAAGCTCAATCAAGGTAAGTGTTCGACAAAGATTTT
40136723 GATAATTTTT
Statistics
Matches: 181, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
206 118 0.65
207 6 0.03
208 1 0.01
209 56 0.31
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.31
Consensus pattern (209 bp):
TAATTTTTAAAGCGTAATTTAGAAAACTAGCTTATAAATTATATAATATGTGATACAACATAAAA
GAAAAAAAGGTGTTAATAATTTTTTTCACATAGCCGAAACTAAAAAGAAAGAAAAGGAAGAAGCA
AGCTAGGGTTCGGTTGATTTTTAAGCTCAATCAAGGTAAGTGTTCGACAAAGATTTTTTGAGATC
GTTGATAATTTTGA
Found at i:40154108 original size:27 final size:27
Alignment explanation
Indices: 40154071--40154155 Score: 143
Period size: 27 Copynumber: 3.1 Consensus size: 27
40154061 GCCAAAATGG
40154071 TGACCGAAATACCCTTATAGGGTAAAA
1 TGACCGAAATACCCTTATAGGGTAAAA
* *
40154098 TGACCGGAATACCCCTATAGGGTAAAA
1 TGACCGAAATACCCTTATAGGGTAAAA
*
40154125 TGACCGAAATACCCTTATAAGGTAAAA
1 TGACCGAAATACCCTTATAGGGTAAAA
40154152 TGAC
1 TGAC
40154156 TGTATTTGAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (27 bp):
TGACCGAAATACCCTTATAGGGTAAAA
Found at i:40154595 original size:34 final size:34
Alignment explanation
Indices: 40154528--40154595 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
40154518 TGCATTACTG
* *
40154528 CATTGATACTGTTACTGTAATAGGCTAAGGCCCA
1 CATTGATACTGATACTGTAACAGGCTAAGGCCCA
*
40154562 CATTGATACTGATACTGTAACGGGCTCAA-GCCCA
1 CATTGATACTGATACTGTAACAGGCT-AAGGCCCA
40154596 AACTACATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 28 0.93
35 2 0.07
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (34 bp):
CATTGATACTGATACTGTAACAGGCTAAGGCCCA
Found at i:40156500 original size:19 final size:17
Alignment explanation
Indices: 40156461--40156500 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
40156451 TATGTTCATT
*
40156461 ATAAATATGTAAGGTTT
1 ATAAATATGTAAGGTTG
40156478 ATAAATATGTAAATGGTTG
1 ATAAATATGT-AA-GGTTG
40156497 ATAA
1 ATAA
40156501 TAATATGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 2 0.10
19 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (17 bp):
ATAAATATGTAAGGTTG
Found at i:40160328 original size:29 final size:28
Alignment explanation
Indices: 40160285--40160393 Score: 103
Period size: 29 Copynumber: 3.9 Consensus size: 28
40160275 CATGAGTATG
*
40160285 AATGTGACTGGGCCTAATGGGCCATATA
1 AATGTGATTGGGCCTAATGGGCCATATA
40160313 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* * * * * * *
40160342 CAGGTGGTTTGGGTCTAATAGACCAT-TG
1 AATGT-GATTGGGCCTAATGGGCCATATA
* *
40160370 AATATGATTGGGCTTAATGGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
40160394 GATACAGGCA
Statistics
Matches: 63, Mismatches: 16, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
27 14 0.22
28 10 0.16
29 38 0.60
30 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:40165172 original size:28 final size:28
Alignment explanation
Indices: 40165130--40165215 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
40165120 TACCTGTATC
*
40165130 TGGCCCATTAAGCCCATTCATATTCATA
1 TGGCCCATTAGGCCCATTCATATTCATA
* * * *
40165158 TGGCCCATTTGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-ATTCATATTCATA
*
40165187 TGGCCCGTTAGGCCCATTCATATTCATA
1 TGGCCCATTAGGCCCATTCATATTCATA
40165215 T
1 T
40165216 TCATGCTCAC
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
28 24 0.51
29 23 0.49
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.33
Consensus pattern (28 bp):
TGGCCCATTAGGCCCATTCATATTCATA
Found at i:40166718 original size:16 final size:16
Alignment explanation
Indices: 40166697--40166728 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
40166687 GAAAAATTCA
*
40166697 AGATTTTGGGATTTTT
1 AGATTTCGGGATTTTT
40166713 AGATTTCGGGATTTTT
1 AGATTTCGGGATTTTT
40166729 TGGGTGTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.25, T:0.53
Consensus pattern (16 bp):
AGATTTCGGGATTTTT
Found at i:40169674 original size:46 final size:45
Alignment explanation
Indices: 40169599--40169773 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 45
40169589 TGTAACCCGC
* *
40169599 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTT-GCAT
* * *
40169645 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * * * *
40169695 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGGC-GTTGCAT
**
40169738 CCATAAGTGAACTGGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
40169774 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.55
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:40169765 original size:93 final size:93
Alignment explanation
Indices: 40169606--40169777 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
40169596 CGCCCATAAG
* * * *
40169606 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
40169671 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
40169699 CGAACTCAGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTGGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
40169764 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
40169778 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:40175914 original size:2 final size:2
Alignment explanation
Indices: 40175907--40175939 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
40175897 AAGGCCATTT
*
40175907 AC AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
40175940 TATATATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.45, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:40179396 original size:29 final size:29
Alignment explanation
Indices: 40179333--40179434 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
40179323 TACCTGTATG
* * * *
40179333 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCTATTAGGCCCAAATCAAATTTATA
* *
40179361 TGGCCTATTAGGCCCAAA-CCACTTGTATA
1 TGGCCTATTAGGCCCAAATCAAATT-TATA
40179390 TGGCCTATTAGGCCCAAATCAAATTTATA
1 TGGCCTATTAGGCCCAAATCAAATTTATA
* *
40179419 TAGCCCATTAGGCCCA
1 TGGCCTATTAGGCCCA
40179435 GTCACATTCA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 16 0.26
29 41 0.67
30 4 0.07
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCTATTAGGCCCAAATCAAATTTATA
Found at i:40185036 original size:17 final size:18
Alignment explanation
Indices: 40185014--40185047 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
40185004 ACACATTGAA
40185014 GTGTTTT-AGTGAAAACT
1 GTGTTTTCAGTGAAAACT
*
40185031 GTGTTTTCATTGAAAAC
1 GTGTTTTCAGTGAAAAC
40185048 CCTTCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACT
Found at i:40186141 original size:28 final size:28
Alignment explanation
Indices: 40186109--40186224 Score: 108
Period size: 29 Copynumber: 4.1 Consensus size: 28
40186099 TACCTGTATG
*
40186109 TGGCCCATTAGGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
40186137 TGGCCCATTAGGCCCAAACCACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
* * *
40186166 TGGCCTATTAGGCACAAATCACATTTATA
1 TGGCCCATTAGGC-CCAATCACATTCATA
* * * *
40186195 TGTCCCGTTAAGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
40186223 TG
1 TG
40186225 CATGCTTATA
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
28 30 0.43
29 38 0.54
30 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:40186161 original size:57 final size:58
Alignment explanation
Indices: 40186100--40186210 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
40186090 AAATTCACAT
* * * *
40186100 ACCTGTATGTGGCCCATTAGGC-CCAATCATATTCATATGGCCCATTAGGCCCAAACC
1 ACCTGTATATGGCCCATTAGGCACAAATCACATTCATATGGCCCATTAAGCCCAAACC
* * * *
40186157 ACCTGTATATGGCCTATTAGGCACAAATCACATTTATATGTCCCGTTAAGCCCA
1 ACCTGTATATGGCCCATTAGGCACAAATCACATTCATATGGCCCATTAAGCCCA
40186211 GTCACATTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 20 0.44
58 25 0.56
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAGGCACAAATCACATTCATATGGCCCATTAAGCCCAAACC
Found at i:40186304 original size:17 final size:18
Alignment explanation
Indices: 40186282--40186315 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
40186272 TGCCTATTAT
40186282 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
40186299 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
40186316 TCTAGCCCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:40190628 original size:40 final size:40
Alignment explanation
Indices: 40190557--40190745 Score: 224
Period size: 40 Copynumber: 4.8 Consensus size: 40
40190547 ACATTTCTAA
* * * *
40190557 CACG-AGCCTACGGTTCTTT-AACCCAGATTCCATTCCAG
1 CACGAAGCCTGCGGGTCTTTAAACCCGGATACCATTCCAG
*
40190595 CACGAAGCCTGCGGGTCTTTAAACCCGGATTCCATTCCAG
1 CACGAAGCCTGCGGGTCTTTAAACCCGGATACCATTCCAG
* * * * *
40190635 CACAAAGCCTGC-AGTCTTTAAACCTGGATACAATTCCAA
1 CACGAAGCCTGCGGGTCTTTAAACCCGGATACCATTCCAG
* *
40190674 CA-TATGGCCTGCGGGTCTTTAAACCCGGATACCATTCCAG
1 CACGA-AGCCTGCGGGTCTTTAAACCCGGATACCATTCCAG
*
40190714 CACGAAGCCTGCGGGTCTTTAAGCCCGGATAC
1 CACGAAGCCTGCGGGTCTTTAAACCCGGATAC
40190746 ACACATCAAA
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
38 5 0.04
39 43 0.34
40 79 0.62
41 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.23
Consensus pattern (40 bp):
CACGAAGCCTGCGGGTCTTTAAACCCGGATACCATTCCAG
Found at i:40196290 original size:27 final size:27
Alignment explanation
Indices: 40196260--40196346 Score: 133
Period size: 27 Copynumber: 3.2 Consensus size: 27
40196250 AGCAAAGCTG
40196260 CCAGTAACAGT-ATATGTGGCAAGGCCA
1 CCAGTAACAGTAAT-TGTGGCAAGGCCA
*
40196287 CCAGTATCAGTAATTGTGGCAAGGCCA
1 CCAGTAACAGTAATTGTGGCAAGGCCA
40196314 CCAGTAACAGTAATTGTGGC-AGAGCCA
1 CCAGTAACAGTAATTGTGGCAAG-GCCA
40196341 CCAGTA
1 CCAGTA
40196347 TAGTACTTCC
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
26 2 0.04
27 52 0.93
28 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTAATTGTGGCAAGGCCA
Found at i:40199139 original size:24 final size:24
Alignment explanation
Indices: 40199057--40199146 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 24
40199047 AAGAAATTTC
* * *
40199057 AGCACTATATGTGCGAGGTTATGT
1 AGCACTATGTGTGCGAGATTATAT
* * * * *
40199081 GGCACTATGTGTGCAAAAACTACAT
1 AGCACTATGTGTGC-GAGATTATAT
*
40199106 GGCACTATGTGTGCGAGATTATAT
1 AGCACTATGTGTGCGAGATTATAT
*
40199130 AGCACTATGTGTACGAG
1 AGCACTATGTGTGCGAG
40199147 GAAACGTGGA
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 33 0.65
25 18 0.35
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTATAT
Found at i:40210723 original size:30 final size:30
Alignment explanation
Indices: 40210687--40210743 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
40210677 TACGAGCTTT
*
40210687 GGGGCAAAAGTGTAAATATGCAAAAATTTA
1 GGGGCAAAACTGTAAATATGCAAAAATTTA
* *
40210717 GGGGCAAAACTGTAATTTTGCAAAAAT
1 GGGGCAAAACTGTAAATATGCAAAAAT
40210744 ATGATTTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.25
Consensus pattern (30 bp):
GGGGCAAAACTGTAAATATGCAAAAATTTA
Found at i:40211217 original size:46 final size:46
Alignment explanation
Indices: 40211164--40211339 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
40211154 TATTTGGGCA
40211164 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
40211210 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
40211255 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
40211303 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40211340 GCGAGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:40211319 original size:93 final size:93
Alignment explanation
Indices: 40211160--40211332 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
40211150 AGGATATTTG
* * * *
40211160 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCATTGAG
40211225 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
40211253 GGCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCATTGAG
40211318 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
40211333 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:40214296 original size:15 final size:15
Alignment explanation
Indices: 40214276--40214344 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
40214266 ATATCTTGGG
40214276 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
40214291 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
40214306 ATTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
40214321 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
40214336 TTTCTTTAT
1 TTTCTTTAT
40214345 TCGGTTTCCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.14, C:0.17, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:40214345 original size:30 final size:30
Alignment explanation
Indices: 40214267--40214346 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
40214257 CATAGTATCA
* * *
40214267 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* *
40214297 TAT-TCTGGAATTCTTTATTCTGGATTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
40214327 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
40214347 GGTTTCCTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 1 0.02
30 40 0.95
31 1 0.02
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:40216794 original size:46 final size:49
Alignment explanation
Indices: 40216740--40216878 Score: 166
Period size: 46 Copynumber: 2.9 Consensus size: 49
40216730 ATATTTGGGC
*
40216740 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACTAG
* * *
40216787 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACTA-G
*
40216832 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCGAAC
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAC
40216879 GCCCGAGTTC
Statistics
Matches: 76, Mismatches: 7, Indels: 14
0.78 0.07 0.14
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.38
47 28 0.37
48 2 0.03
50 4 0.05
51 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (49 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACTAG
Found at i:40232046 original size:93 final size:93
Alignment explanation
Indices: 40231917--40232088 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
40231907 CGCCCATAAG
* * *
40231917 CGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
40231982 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
40232010 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
40232075 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
40232089 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:40232085 original size:46 final size:46
Alignment explanation
Indices: 40231910--40232085 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
40231900 TGTAACCCGC
* * * *
40231910 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
40231956 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
40232006 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
40232049 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA
40232086 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:40232104 original size:46 final size:44
Alignment explanation
Indices: 40231961--40232104 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
40231951 CGCATCCATA
*
40231961 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
40232008 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
40232054 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
40232100 AGTGA
1 AGTGA
40232105 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.42
47 30 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:40235074 original size:20 final size:20
Alignment explanation
Indices: 40235025--40235066 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
40235015 TAATCATTCA
*
40235025 CACAATCAATTCAGTATTAT
1 CACAATCAGTTCAGTATTAT
40235045 CACAATCAGTTCAGTATTAT
1 CACAATCAGTTCAGTATTAT
40235065 CA
1 CA
40235067 AACTCAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.33
Consensus pattern (20 bp):
CACAATCAGTTCAGTATTAT
Found at i:40241719 original size:13 final size:13
Alignment explanation
Indices: 40241703--40241727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40241693 TTTTGTGTAG
40241703 AAATTTTCCCACT
1 AAATTTTCCCACT
40241716 AAATTTTCCCAC
1 AAATTTTCCCAC
40241728 ATGGTTTTTG
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:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATTTTCCCACT
Found at i:40248141 original size:24 final size:24
Alignment explanation
Indices: 40248109--40248207 Score: 171
Period size: 24 Copynumber: 4.1 Consensus size: 24
40248099 AAGTCTGTCA
40248109 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
40248133 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
40248157 GGAGAGGATTTAGGAACTGATACG
1 GGAGAGGATTTAGGAGCTGATAAG
*
40248181 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
40248205 GGA
1 GGA
40248208 CAGCAGTGTT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.32, C:0.05, G:0.41, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:40249685 original size:27 final size:26
Alignment explanation
Indices: 40249603--40249713 Score: 123
Period size: 27 Copynumber: 4.2 Consensus size: 26
40249593 AGGAAGTGTC
* *
40249603 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTATT
*
40249630 CTGGTGGCTTTGCCACATATATCTATT
1 CTGGTGGCTCTGCCACAT-TATCTATT
*
40249657 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTATT
* * * *
40249684 CTAGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTATT
40249710 CTGG
1 CTGG
40249714 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 15 0.20
27 57 0.77
28 2 0.03
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTATT
Found at i:40261045 original size:67 final size:64
Alignment explanation
Indices: 40260911--40261054 Score: 166
Period size: 67 Copynumber: 2.2 Consensus size: 64
40260901 CACGCATACA
* * * *
40260911 ACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTGCACATAGTATCACCCATGCG
1 ACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATGTGCACATAGCACCACACATGCG
* *
40260975 ACCTAGCTACATCATATGTCTCGTAGCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACA
1 ACCTAGCTACAT-ATA--TCCCGTAGCTCTCTTGT-CTACATGATGTGCACAT-AGCACCACACA
*
40261038 TGTG
61 TGCG
40261042 ACCTAGCTACATA
1 ACCTAGCTACATA
40261055 CCATCTGTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
64 12 0.18
65 3 0.04
66 2 0.03
67 50 0.74
68 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (64 bp):
ACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATGTGCACATAGCACCACACATGCG
Found at i:40261553 original size:30 final size:30
Alignment explanation
Indices: 40261518--40261578 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
40261508 TCCTTAACTC
40261518 AAACTTTTGTAA-AATTACAATTTTGCCCCT
1 AAACTTTTG-AATAATTACAATTTTGCCCCT
* * *
40261548 AAACTTTTGAATATTTACACTTTTTCCCCT
1 AAACTTTTGAATAATTACAATTTTGCCCCT
40261578 A
1 A
40261579 GGCTCGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.43
Consensus pattern (30 bp):
AAACTTTTGAATAATTACAATTTTGCCCCT
Found at i:40263044 original size:42 final size:42
Alignment explanation
Indices: 40262956--40263098 Score: 144
Period size: 42 Copynumber: 3.3 Consensus size: 42
40262946 CCCAGACGAC
* * * * *
40262956 GTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGG
1 GTCTTACACGAAATCAAATA-CGATGCCAATGTCCCAAACATG
*
40262999 GTCTTACACGAAATCATATACGATGCCAATGTCCCAAACATG
1 GTCTTACACGAAATCAAATACGATGCCAATGTCCCAAACATG
* * * *
40263041 GTCTTACACGTAAATCCCAAAT-CAATGCCAACGTCCCATACTTG
1 GTCTTACACG-AAAT--CAAATACGATGCCAATGTCCCAAACATG
*
40263085 GTCTTACATGAAAT
1 GTCTTACACGAAAT
40263099 AACATATCAG
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
42 29 0.34
43 25 0.29
44 27 0.32
45 4 0.05
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (42 bp):
GTCTTACACGAAATCAAATACGATGCCAATGTCCCAAACATG
Found at i:40270587 original size:42 final size:42
Alignment explanation
Indices: 40270498--40270642 Score: 157
Period size: 42 Copynumber: 3.4 Consensus size: 42
40270488 TCCAAGATTA
* * * * *
40270498 GGTCTTACATGTAATCAAATAAAGATGCCACTGTCCCAGACAA
1 GGTCTTACACGAAATCAAAT-ATGATGCCAATGTCCCAGACAT
* *
40270541 GGTCTTACACGAAATCATATATGATGCCAATGTCCCAAACAT
1 GGTCTTACACGAAATCAAATATGATGCCAATGTCCCAGACAT
* *
40270583 GGTCTTACACGTAAATCCCAAAT-TGATGCCAACGTCCCAGACGT
1 GGTCTTACACG-AAAT--CAAATATGATGCCAATGTCCCAGACAT
*
40270627 GGTCTTACATGAAATC
1 GGTCTTACACGAAATC
40270643 CCATATCAGA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 29 0.33
43 25 0.29
44 28 0.32
45 4 0.05
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATATGATGCCAATGTCCCAGACAT
Found at i:40270620 original size:44 final size:44
Alignment explanation
Indices: 40270521--40270645 Score: 150
Period size: 44 Copynumber: 2.9 Consensus size: 44
40270511 ATCAAATAAA
* *
40270521 GATGCC-ACTGTCCCAGACAAGGTCTTACACGAAAT--CATATAT
1 GATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCCCAAATAT
* *
40270563 GATGCCAATGTCCCAAACATGGTCTTACACGTAAATCCCAAAT-T
1 GATGCCAACGTCCCAGACATGGTCTTACACG-AAATCCCAAATAT
* *
40270607 GATGCCAACGTCCCAGACGTGGTCTTACATGAAATCCCA
1 GATGCCAACGTCCCAGACATGGTCTTACACGAAATCCCA
40270646 TATCAGAATC
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 26 0.37
43 13 0.18
44 28 0.39
45 4 0.06
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
GATGCCAACGTCCCAGACATGGTCTTACACGAAATCCCAAATAT
Found at i:40274783 original size:26 final size:27
Alignment explanation
Indices: 40274695--40274798 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 27
40274685 ATATTTACAT
* * *
40274695 CACAT-AGGGCAAAACAATTATATTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
40274721 CATATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
40274748 CTCATGAGGGAAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
40274775 CACATAGGGGCACAACAGTCATTT
1 CACATAAGGGCAAAACAGTCATTT
40274799 ATCAATCAAG
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
26 4 0.06
27 60 0.94
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:40281483 original size:28 final size:28
Alignment explanation
Indices: 40281421--40281483 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
40281411 TGATATTATA
* *
40281421 TAGATC-AAGAAAAATGAAGTTCGGATC
1 TAGATCGAGGAAAAATAAAGTTCGGATC
40281448 TAGATCGAGGAAAGAATAAAGTATCGGA-C
1 TAGATCGAGGAAA-AATAAAGT-TCGGATC
40281477 TAG-TCGA
1 TAGATCGA
40281484 TTTGTTTCGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 6 0.19
28 9 0.29
29 11 0.35
30 5 0.16
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (28 bp):
TAGATCGAGGAAAAATAAAGTTCGGATC
Found at i:40284644 original size:6 final size:6
Alignment explanation
Indices: 40284626--40284713 Score: 67
Period size: 6 Copynumber: 14.3 Consensus size: 6
40284616 AAGAAACATT
* *
40284626 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
*
40284675 ATCAGA ATCA-A TATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA -ATCA-G-A ATCAGA ATCAGA ATCAGA AT
40284714 GTGAATACAA
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
5 6 0.09
6 51 0.77
7 6 0.09
8 2 0.03
9 1 0.02
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:40284678 original size:31 final size:31
Alignment explanation
Indices: 40284635--40284713 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
40284625 TATCAGAACT
* *
40284635 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAATATCAGGTAAC
40284666 AGAATCAAAATCAGAATCAATATCAGGTAAC
1 AGAATCAAAATCAGAATCAATATCAGGTAAC
40284697 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
40284714 GTGAATACAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAATATCAGGTAAC
Found at i:40285134 original size:27 final size:28
Alignment explanation
Indices: 40285072--40285134 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
40285062 CAGTCACTTG
*
40285072 CCCACAAGGGCAAAACAGTCATTTAACA
1 CCCACAAGGGCAAAACAGTAATTTAACA
* ** *
40285100 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAACAGTAATTTAACA
40285126 CCCACAAGG
1 CCCACAAGG
40285135 TATCTCGGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.11
27 22 0.79
28 3 0.11
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.17
Consensus pattern (28 bp):
CCCACAAGGGCAAAACAGTAATTTAACA
Found at i:40285172 original size:27 final size:27
Alignment explanation
Indices: 40285116--40285356 Score: 288
Period size: 27 Copynumber: 9.0 Consensus size: 27
40285106 GGGCAAAATG
* * * * *
40285116 GTAATTTTACCCCACA-AGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
40285142 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
40285169 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
40285196 GTAATTCTACCTTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
40285223 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
40285250 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
40285277 GTAATTCTACCCTATAGGGTTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
40285304 GTAATTCTACCCTATAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
40285330 GATATTTCCACCCTACAAGGGTATTTC
1 G-TAATTCTACCCTACAGGGGTATTTC
40285357 GATAATTTTG
Statistics
Matches: 190, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
26 15 0.08
27 175 0.92
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:40285198 original size:54 final size:54
Alignment explanation
Indices: 40285116--40285363 Score: 322
Period size: 54 Copynumber: 4.6 Consensus size: 54
40285106 GGGCAAAATG
* * * *
40285116 GTAATTTTACCCCACAA-GGTATCTCGGTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * *
40285169 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
**
40285223 GTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
40285277 GTAATTCTACCCTA-TAGGGTTATTTCGGTAATTCTACCCTATAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGG-TATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
40285330 GATATTTCCACCCTACAAGGGTATTTCGATAATT
1 G-TAATTCTACCCTACAAGGGTATTTCGGTAATT
40285364 TTGTAAATCG
Statistics
Matches: 169, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
53 19 0.11
54 146 0.86
55 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:40285231 original size:81 final size:81
Alignment explanation
Indices: 40285115--40285363 Score: 342
Period size: 81 Copynumber: 3.1 Consensus size: 81
40285105 AGGGCAAAAT
* * *
40285115 GGTAATTTTACCCCACAA-GGTATCTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
40285179 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
* *
40285195 GGTAATTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
40285260 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
* * * * * *
40285276 AGTAATTCTACCCTA-TAGGGTTATTTCGGTAATTCTACCCTATAGGGGTA-TTTCGATATTTCC
1 GGTAATTCTACCCTACAAGGG-TATTTCGGTAATTCTACCCTACAGGGGTATTTTAG-TAATTCT
*
40285339 ACCCTACAAGGGTATTTC
64 ACCCTACAGGGGTATTTC
*
40285357 GATAATT
1 GGTAATT
40285364 TTGTAAATCG
Statistics
Matches: 150, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
80 23 0.15
81 127 0.85
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
CCTACAGGGGTATTTC
Found at i:40285377 original size:27 final size:27
Alignment explanation
Indices: 40285347--40285446 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
40285337 CCACCCTACA
40285347 AGGGTATTTCGATAATTTTGTAAATCG
1 AGGGTATTTCGATAATTTTGTAAATCG
*** * *
40285374 AGGGTAAAACGATAATTCTGTAAATCA
1 AGGGTATTTCGATAATTTTGTAAATCG
* ** *
40285401 AGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCGATAATTTTGTAAATCG
*
40285428 AGGGTATTTCAATAATTTT
1 AGGGTATTTCGATAATTTT
40285447 ACAGGTCGAG
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
26 3 0.05
27 52 0.95
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTGTAAATCG
Found at i:40285447 original size:27 final size:26
Alignment explanation
Indices: 40285395--40285687 Score: 176
Period size: 27 Copynumber: 10.9 Consensus size: 26
40285385 ATAATTCTGT
*
40285395 AAATCAAGGGTACTTT-GGTAATTTTAC
1 AAATC-AGGGTA-TTTCAGTAATTTTAC
* *
40285422 AAGTCGAGGGTATTTCAATAATTTTAC
1 AAATC-AGGGTATTTCAGTAATTTTAC
** ** *
40285449 AGGTCGAGTATATTTCAGTAATTTCAC
1 AAATC-AGGGTATTTCAGTAATTTTAC
**
40285476 AAATCAGGGTTATTTTGGTAATTTTAC
1 AAATCAGGG-TATTTCAGTAATTTTAC
**
40285503 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCA-GGGTATTTCAGTAATTTTAC
* **
40285530 AAATTAGGGGTATTTTGGTAATTTTAC
1 AAATCA-GGGTATTTCAGTAATTTTAC
* ** *
40285557 AAACCAGGGGTATTTTGGTAATTTTAT
1 AAATCA-GGGTATTTCAGTAATTTTAC
*
40285584 AAA-CAAAGGGTATTTTAGTAATTTTAC
1 AAATC--AGGGTATTTCAGTAATTTTAC
* ** * *
40285611 AAACCAGGGGTATTTTGGTGATTTTAT
1 AAATCA-GGGTATTTCAGTAATTTTAC
* * * *
40285638 AAACCAAGGTATTTTAGTGATTTTAC
1 AAATCAGGGTATTTCAGTAATTTTAC
* **
40285664 AAACCAGGGGTATTTTGGTAATTT
1 AAATCA-GGGTATTTCAGTAATTT
40285688 GGTAAACTAA
Statistics
Matches: 227, Mismatches: 31, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
26 30 0.13
27 192 0.85
28 5 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
AAATCAGGGTATTTCAGTAATTTTAC
Found at i:40285525 original size:81 final size:79
Alignment explanation
Indices: 40285395--40285687 Score: 232
Period size: 81 Copynumber: 3.6 Consensus size: 79
40285385 ATAATTCTGT
* * * * *
40285395 AAATCAAGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTACAGGT-CGAGT
1 AAATC-AGGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTAGTAATTTTACAAGTACGAGT
40285458 ATATTTCAGTAATTTCAC
64 AT-TTT-AGTAATTTCAC
* * * *
40285476 AAATCAGGGTTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATTAGGGGT
1 AAATCAGGG-TATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTAC-AAGTACGAGT
* *
40285541 ATTTTGGTAATTTTAC
64 ATTTTAGTAATTTCAC
* * * ** * *
40285557 AAACCAGGGGTATTTTGGTAATTTTATAAA-CAAAGGGTATTTTAGTAATTTTACAAACCAGGGG
1 AAATCA-GGGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTAGTAATTTTAC-AAGTACGAG
* * * *
40285621 TATTTTGGTGATTTTAT
63 TATTTTAGTAATTTCAC
* * * * * *
40285638 AAACCAAGGTATTTTAGTGATTTTACAAACCAGGGGTATTTTGGTAATTT
1 AAATCAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTT
40285688 GGTAAACTAA
Statistics
Matches: 180, Mismatches: 25, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
80 41 0.23
81 125 0.69
82 9 0.05
83 5 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (79 bp):
AAATCAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAGTACGAGTAT
TTTAGTAATTTCAC
Found at i:40285694 original size:27 final size:27
Alignment explanation
Indices: 40285466--40285687 Score: 302
Period size: 27 Copynumber: 8.3 Consensus size: 27
40285456 GTATATTTCA
* * *
40285466 GTAATTTCACAAATCAGGGTTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
*
40285493 GTAATTTTACAAATCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
**
40285520 GTAATTTTACAAATTAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
40285547 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* * * *
40285574 GTAATTTTATAAACAAAGGGTATTTTA
1 GTAATTTTACAAACCAGGGGTATTTTG
40285601 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
* * * *
40285628 GTGATTTTATAAACCA-AGGTATTTTA
1 GTAATTTTACAAACCAGGGGTATTTTG
*
40285654 GTGATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGGGGTATTTTG
40285681 GTAATTT
1 GTAATTT
40285688 GGTAAACTAA
Statistics
Matches: 173, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 23 0.13
27 150 0.87
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAACCAGGGGTATTTTG
Found at i:40299919 original size:27 final size:28
Alignment explanation
Indices: 40299830--40299924 Score: 104
Period size: 28 Copynumber: 3.4 Consensus size: 28
40299820 ACCCCAAAAT
** * *
40299830 AGGTAAAATGAAAGGAATACCCTCTGT-
1 AGGTAAAATGACCGTAATACCCTCTATA
40299857 AGGATAAAATGACCGTAATACCCTCTATA
1 AGG-TAAAATGACCGTAATACCCTCTATA
**
40299886 AGGTAAAATGGTCGTAATACCC-CTATA
1 AGGTAAAATGACCGTAATACCCTCTATA
*
40299913 TGGTAAAATGAC
1 AGGTAAAATGAC
40299925 GATTATGCCC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
27 17 0.30
28 37 0.65
29 3 0.05
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (28 bp):
AGGTAAAATGACCGTAATACCCTCTATA
Found at i:40307935 original size:27 final size:27
Alignment explanation
Indices: 40307880--40307947 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 27
40307870 AACCCCAAAA
40307880 TAGGTAAAATGACCGTAATACCCCTTG
1 TAGGTAAAATGACCGTAATACCCCTTG
40307907 TAGGATAAAATGACCGTAATACCCC-TG
1 TAGG-TAAAATGACCGTAATACCCCTTG
40307934 TATGGTAAAATGAC
1 TA-GGTAAAATGAC
40307948 GATTATGCCC
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
27 17 0.44
28 22 0.56
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
TAGGTAAAATGACCGTAATACCCCTTG
Found at i:40308307 original size:33 final size:33
Alignment explanation
Indices: 40308255--40308319 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
40308245 TTGGGCCCAT
*
40308255 TCTGCTACTGTATAGGGCTAAAGCCTAGACTGC
1 TCTGCTACTGAATAGGGCTAAAGCCTAGACTGC
* * **
40308288 TCTGTTACTGAATATGGCTACGGCCTAGACTG
1 TCTGCTACTGAATAGGGCTAAAGCCTAGACTG
40308320 TTTTGCATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (33 bp):
TCTGCTACTGAATAGGGCTAAAGCCTAGACTGC
Found at i:40309832 original size:16 final size:16
Alignment explanation
Indices: 40309811--40309846 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
40309801 AATGGCATCA
*
40309811 AAAAGCCAAAATGTCG
1 AAAAGCCAAAATGACG
40309827 AAAAGCCAAAATGACG
1 AAAAGCCAAAATGACG
40309843 AAAA
1 AAAA
40309847 TCTGAAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.17, G:0.17, T:0.08
Consensus pattern (16 bp):
AAAAGCCAAAATGACG
Found at i:40310095 original size:28 final size:29
Alignment explanation
Indices: 40310063--40310123 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
40310053 GTAAGCATGA
*
40310063 ATAT-AAGGTGATTTAGGCCTAACAGGCC
1 ATATAAAGGTGATTCAGGCCTAACAGGCC
* **
40310091 ATATAAAGGTGATTCGGGCCTAATGGGCC
1 ATATAAAGGTGATTCAGGCCTAACAGGCC
40310120 ATAT
1 ATAT
40310124 GAATATGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (29 bp):
ATATAAAGGTGATTCAGGCCTAACAGGCC
Found at i:40311938 original size:29 final size:29
Alignment explanation
Indices: 40311895--40312011 Score: 182
Period size: 29 Copynumber: 4.1 Consensus size: 29
40311885 GAAAGCATGT
40311895 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
40311924 GTATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
40311953 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
40311982 ATATGAATGAGA-TTAGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
40312010 AT
1 AT
40312012 GTGCATGTAT
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 16 0.20
29 65 0.80
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:40317057 original size:26 final size:27
Alignment explanation
Indices: 40317028--40317080 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
40317018 ATGAATTTGA
*
40317028 GTAAATTGA-ACTAAATTGTGAAATTT
1 GTAAATTGAGACTAAAATGTGAAATTT
40317054 GTAAATTGAGGGACTAAAATGTGAAAT
1 GTAAATTGA--GACTAAAATGTGAAAT
40317081 AAATGAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 9 0.39
29 14 0.61
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (27 bp):
GTAAATTGAGACTAAAATGTGAAATTT
Found at i:40317628 original size:42 final size:43
Alignment explanation
Indices: 40317582--40317685 Score: 147
Period size: 42 Copynumber: 2.4 Consensus size: 43
40317572 TGTGATATTT
* *
40317582 TGTAAGACCATATCTGGGACATTGGCATCG-TATTTGATTTCA
1 TGTAAGACCATATCTGGGACAGTGGCATCGATATTTGATTACA
* * *
40317624 TGTAAGGCCTTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATATCTGGGACAGTGGCATCGATATTTGATTACA
*
40317667 TGTAAGACCACATCTGGGA
1 TGTAAGACCATATCTGGGA
40317686 TGTCGACATT
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
42 26 0.50
43 26 0.50
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGACAGTGGCATCGATATTTGATTACA
Found at i:40320104 original size:44 final size:43
Alignment explanation
Indices: 40319969--40320104 Score: 107
Period size: 44 Copynumber: 3.1 Consensus size: 43
40319959 TACAACGCCA
* * * * * *
40319969 ATGTTCCAGACGTGGTCTTACATGTAATTACATAAC-AATGCT
1 ATGTCCCAGACGTGGTCTTACACGAAATCACATATCAAATCCT
* * * * *
40320011 ACTGTCCCAGATAG-GGTCTTACACGCAAATCAAAAATC-GATGCCA
1 A-TGTCCCAGA-CGTGGTCTTACACG-AAATCACATATCAAAT-CCT
40320056 ATGTCCCAGACGTGGTCTTACACGAAATCACATATCAAAATCCT
1 ATGTCCCAGACGTGGTCTTACACGAAATCACATATC-AAATCCT
40320100 ATGTC
1 ATGTC
40320105 ATGACATATA
Statistics
Matches: 71, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.01
43 29 0.41
44 37 0.52
45 4 0.06
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGTCCCAGACGTGGTCTTACACGAAATCACATATCAAATCCT
Found at i:40321204 original size:13 final size:13
Alignment explanation
Indices: 40321186--40321225 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
40321176 CACAAACAAT
40321186 AAAATTTTCACAC
1 AAAATTTTCACAC
40321199 AAAATTTTCACAC
1 AAAATTTTCACAC
40321212 AAAATTTTCACAC
1 AAAATTTTCACAC
40321225 A
1 A
40321226 TATAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:40328626 original size:14 final size:15
Alignment explanation
Indices: 40328609--40328641 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
40328599 AAAGTGAAAA
40328609 AAAAGA-ATAAAGTT
1 AAAAGACATAAAGTT
*
40328623 AAAAGACTTAAAGTT
1 AAAAGACATAAAGTT
40328638 AAAA
1 AAAA
40328642 ATAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.64, C:0.03, G:0.12, T:0.21
Consensus pattern (15 bp):
AAAAGACATAAAGTT
Found at i:40336136 original size:40 final size:40
Alignment explanation
Indices: 40336076--40336216 Score: 178
Period size: 40 Copynumber: 3.5 Consensus size: 40
40336066 CGGATGTAAC
40336076 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
40336116 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* ** * *
40336156 AACTAGCAC-AATTGCCTTC-GGATCTTAGTCCGGATATAGT
1 AACCAGCACGAA-TGCCTTCGGGA-CTTAACCCGGTTATAAT
* *
40336196 AACTAGCACAAATGCCTTCGG
1 AACCAGCACGAATGCCTTCGG
40336217 ATCTTAGTCC
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
39 5 0.06
40 82 0.91
41 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:40337198 original size:15 final size:15
Alignment explanation
Indices: 40337175--40337209 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
40337165 TCAAGTACAA
*
40337175 CATTTTCATATTCAG
1 CATTATCATATTCAG
40337190 CATTATCATATTCAG
1 CATTATCATATTCAG
40337205 CATTA
1 CATTA
40337210 GCATCAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.43
Consensus pattern (15 bp):
CATTATCATATTCAG
Found at i:40340944 original size:39 final size:39
Alignment explanation
Indices: 40340890--40340967 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
40340880 CGTATGCAAG
40340890 ATACACTTCACACCCCTTTCTCACATATTTTTGAGCTAA
1 ATACACTTCACACCCCTTTCTCACATATTTTTGAGCTAA
40340929 ATACACTTCACACCCCTTTCTCACATATTTTTGAGCTAA
1 ATACACTTCACACCCCTTTCTCACATATTTTTGAGCTAA
40340968 CATCGAGGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.31, G:0.05, T:0.36
Consensus pattern (39 bp):
ATACACTTCACACCCCTTTCTCACATATTTTTGAGCTAA
Found at i:40344313 original size:40 final size:39
Alignment explanation
Indices: 40344248--40344394 Score: 170
Period size: 40 Copynumber: 3.7 Consensus size: 39
40344238 CGGATGTAAC
40344248 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTC-GGACTTAACCCGGTTATAAT
*
40344288 AACCCGCACGAATGCCTTCGAGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCG-GACTTAACCCGGTTATAAT
* ** * *
40344328 AACTAGCAC-AATTGCCTTCGGATCTTAGTCCGGATATAGT
1 AACCAGCACGAA-TGCCTTCGGA-CTTAACCCGGTTATAAT
* *
40344368 AACTAGCACAAATGCCTTCGGATCTTA
1 AACCAGCACGAATGCCTTCGGA-CTTA
40344395 GTCCGGATAT
Statistics
Matches: 96, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
39 5 0.05
40 89 0.93
41 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (39 bp):
AACCAGCACGAATGCCTTCGGACTTAACCCGGTTATAAT
Found at i:40344395 original size:40 final size:39
Alignment explanation
Indices: 40344238--40344404 Score: 163
Period size: 40 Copynumber: 4.2 Consensus size: 39
40344228 GAATTTGGCT
* * * *
40344238 CGGATGTAACAACCAGCACGAATGCCTTCGGGACTTAACC
1 CGGATATAATAACTAGCACAAATGCCTTC-GGACTTAACC
* ** *
40344278 CGGTTATAATAACCCGCACGAATGCCTTCGAGACTTAACC
1 CGGATATAATAACTAGCACAAATGCCTTCG-GACTTAACC
* * **
40344318 CGGTTATAATAACTAGCACAATTGCCTTCGGATCTTAGTC
1 CGGATATAATAACTAGCACAAATGCCTTCGGA-CTTAACC
* **
40344358 CGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTC
1 CGGATATAATAACTAGCACAAATGCCTTCGGA-CTTAACC
40344398 CGGATAT
1 CGGATAT
40344405 CATCCGAATA
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 3 0.03
40 109 0.97
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (39 bp):
CGGATATAATAACTAGCACAAATGCCTTCGGACTTAACC
Found at i:40359161 original size:100 final size:100
Alignment explanation
Indices: 40359039--40359226 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
40359029 GAAGCTATCT
*
40359039 GGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
40359104 TGCACTTAGTACTACACACGTGATCACAGTTTTTG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTTG
* *
40359139 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
40359204 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
40359227 CCAGTAGTTC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (100 bp):
GGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTTG
Found at i:40359229 original size:49 final size:49
Alignment explanation
Indices: 40359047--40359229 Score: 240
Period size: 49 Copynumber: 3.7 Consensus size: 49
40359037 CTGGTAAGCA
* * *
40359047 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* * * ** * *
40359096 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATCCGGTACACG
*
40359147 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
40359196 TAGTAGCCTGCACTTAGTACTACACACGTGACCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCA
40359230 GTAGTTCATT
Statistics
Matches: 113, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 72 0.64
50 2 0.02
51 39 0.35
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:40363430 original size:30 final size:30
Alignment explanation
Indices: 40363396--40363477 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
40363386 TAAACTAAAA
* *
40363396 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
* * * * * *
40363426 TGAGCTGAGATTAAACTCCTAAGCTGAAGC
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
*
40363456 TGAGCTAAGGTTTAGCTCGTGA
1 TGAGCTAAGATTTAGCTCGTGA
40363478 ACTGAATATG
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
Found at i:40363483 original size:30 final size:30
Alignment explanation
Indices: 40363395--40363492 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 30
40363385 TTAAACTAAA
* * *
40363395 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAACTGAAG
* * * * *
40363425 TTGAGCTGAGATTAAACTCCT-AAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAA-CTGAAG
* * *
40363455 CTGAGCTAAGGTTTAGCTCGTGAACTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAACTGAAG
40363485 ATGAGCTA
1 ATGAGCTA
40363493 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
29 1 0.02
30 47 0.94
31 2 0.04
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAACTGAAG
Found at i:40368503 original size:49 final size:49
Alignment explanation
Indices: 40368430--40368616 Score: 252
Period size: 49 Copynumber: 3.8 Consensus size: 49
40368420 TAGCCGAAGC
* *
40368430 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
40368479 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* *
40368530 TTTCGGGTAGCA--TAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTA-CACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
40368578 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
40368617 CGTGACCTCA
Statistics
Matches: 119, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
47 2 0.02
48 10 0.08
49 66 0.55
50 30 0.25
51 9 0.08
52 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:40368555 original size:99 final size:101
Alignment explanation
Indices: 40368435--40368630 Score: 351
Period size: 99 Copynumber: 2.0 Consensus size: 101
40368425 GAAGCTATCT
*
40368435 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
40368500 TGCACTTAGTACTACACACGTGA-TCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGACTCACAGTTTTCG
*
40368535 GGTA-GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
40368599 TGCACTTAGTACTACACACGTGACCTCACAGT
66 TGCACTTAGTACTACACACGTGA-CTCACAGT
40368631 AGTTCATTTG
Statistics
Matches: 92, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
99 81 0.88
100 4 0.04
101 7 0.08
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (101 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACTCACAGTTTTCG
Found at i:40380763 original size:16 final size:16
Alignment explanation
Indices: 40380742--40380792 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
40380732 GTTGTAATGC
40380742 TCCAAAAATC-CTAAAA
1 TCCAAAAATCTC-AAAA
40380758 TCCAAAAATCTCAAAA
1 TCCAAAAATCTCAAAA
** *
40380774 TCCTGAATTCTCAAAA
1 TCCAAAAATCTCAAAA
40380790 TCC
1 TCC
40380793 TGAATTTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
16 30 0.97
17 1 0.03
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (16 bp):
TCCAAAAATCTCAAAA
Found at i:40380793 original size:16 final size:16
Alignment explanation
Indices: 40380766--40380798 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
40380756 AATCCAAAAA
40380766 TCTCAAAATCCTGAAT
1 TCTCAAAATCCTGAAT
40380782 TCTCAAAATCCTGAAT
1 TCTCAAAATCCTGAAT
40380798 T
1 T
40380799 TTCTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (16 bp):
TCTCAAAATCCTGAAT
Found at i:40382207 original size:29 final size:29
Alignment explanation
Indices: 40382147--40382235 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
40382137 GTAAGCATGA
* * *
40382147 ATATGAATGTGA-CTGGGCC-AACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
40382174 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
40382203 CTATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
40382232 ATAT
1 ATAT
40382236 GAATATAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
27 11 0.21
28 6 0.11
29 36 0.68
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Done.