Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009633.1 Hibiscus syriacus cultivar Beakdansim tig00117032_pilon, whole genome shotgun sequence
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: 2608659
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 13
Found at i:2154382 original size:48 final size:49
Alignment explanation
Indices: 2154270--2154384 Score: 128
Period size: 48 Copynumber: 2.4 Consensus size: 49
2154260 CTTCTACTAG
* *
2154270 TGCATTCGTGCACTCCTATAATTAGTGCAATTGTGCACTCCAGTATTAG
1 TGCATTCGTGCACTCCTATAATTAGTGCAATTGTGCACTCCAGAATTAA
* * * * *
2154319 TACCAAT-GTGTACTCCTAT-ATTAGTGCCACTT-TGCACTCCTGAATTAA
1 T-GCATTCGTGCACTCCTATAATTAGTG-CAATTGTGCACTCCAGAATTAA
2154367 TGCATTCGTGCACTCCTA
1 TGCATTCGTGCACTCCTA
2154385 ATTCGAGTAC
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
47 3 0.06
48 31 0.58
49 16 0.30
50 3 0.06
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (49 bp):
TGCATTCGTGCACTCCTATAATTAGTGCAATTGTGCACTCCAGAATTAA
Found at i:2154406 original size:25 final size:25
Alignment explanation
Indices: 2154369--2154454 Score: 154
Period size: 25 Copynumber: 3.4 Consensus size: 25
2154359 TGAATTAATG
* *
2154369 CATTCGTGCACTCCTAATTCGAGTA
1 CATTCGTGTACTCCTGATTCGAGTA
2154394 CATTCGTGTACTCCTGATTCGAGTA
1 CATTCGTGTACTCCTGATTCGAGTA
2154419 CATTCGTGTACTCCTGATTCGAGTA
1 CATTCGTGTACTCCTGATTCGAGTA
2154444 CATTCGTGTAC
1 CATTCGTGTAC
2154455 CCATTATTAG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.35
Consensus pattern (25 bp):
CATTCGTGTACTCCTGATTCGAGTA
Found at i:2156403 original size:2 final size:2
Alignment explanation
Indices: 2156396--2156481 Score: 172
Period size: 2 Copynumber: 43.0 Consensus size: 2
2156386 TACGCAGTGA
2156396 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2156438 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2156480 AT
1 AT
2156482 CAAATAACAT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2157379 original size:5 final size:5
Alignment explanation
Indices: 2157369--2157422 Score: 53
Period size: 5 Copynumber: 11.4 Consensus size: 5
2157359 ATATTTTAGG
* *
2157369 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT GTTGT TTT-T GTTTA- TTTA-
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT
2157416 TTTAT TT
1 TTTAT TT
2157423 ATTGTTTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
4 13 0.31
5 29 0.69
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:2157427 original size:19 final size:20
Alignment explanation
Indices: 2157368--2157429 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
2157358 CATATTTTAG
2157368 GTTTATTTTATTTTATTTA-T
1 GTTTATTTTA-TTTATTTATT
*
2157388 -TTTATTTTATGTTGTTT-TT
1 GTTTATTTTAT-TTATTTATT
2157407 GTTTA-TTTATTTATTTATT
1 GTTTATTTTATTTATTTATT
2157426 GTTT
1 GTTT
2157430 TAATTTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 6 0.17
19 26 0.72
20 4 0.11
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (20 bp):
GTTTATTTTATTTATTTATT
Found at i:2157427 original size:25 final size:28
Alignment explanation
Indices: 2157379--2157430 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
2157369 TTTATTTTAT
2157379 TTTATTTATTTTATTTTATGTTGTTTTTG
1 TTTATTTATTTTATTTTA-GTTGTTTTTG
2157408 TTTATTTA-TTTA-TTTA-TTGTTTT
1 TTTATTTATTTTATTTTAGTTGTTTT
2157431 AATTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 7 0.30
27 4 0.17
28 4 0.17
29 8 0.35
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (28 bp):
TTTATTTATTTTATTTTAGTTGTTTTTG
Found at i:2158561 original size:19 final size:19
Alignment explanation
Indices: 2158539--2158576 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2158529 AAATCACCCA
2158539 GTTTTTATGGTGTCCCAAT
1 GTTTTTATGGTGTCCCAAT
2158558 GTTTTTATGGTGTCCCAAT
1 GTTTTTATGGTGTCCCAAT
2158577 CCCACCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.21, T:0.47
Consensus pattern (19 bp):
GTTTTTATGGTGTCCCAAT
Found at i:2162680 original size:20 final size:20
Alignment explanation
Indices: 2162643--2162681 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2162633 TCTAAATCAT
*
2162643 TTTTCAAAATTTCATTTTGA
1 TTTTCAAAATATCATTTTGA
2162663 TTTTCAAAATCATC-TTTTG
1 TTTTCAAAAT-ATCATTTTG
2162682 CTTTGAGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.54
Consensus pattern (20 bp):
TTTTCAAAATATCATTTTGA
Found at i:2164751 original size:20 final size:20
Alignment explanation
Indices: 2164699--2164753 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
2164689 TATTGCTGGT
*
2164699 AGTATCGATACTACCTAGTG
1 AGTATCGATACTTCCTAGTG
*
2164719 AGTATCGATACTTTCTAGTG
1 AGTATCGATACTTCCTAGTG
2164739 AGTATCGATACTTCC
1 AGTATCGATACTTCC
2164754 CTTACCTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (20 bp):
AGTATCGATACTTCCTAGTG
Found at i:2165605 original size:19 final size:20
Alignment explanation
Indices: 2165583--2165621 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
2165573 AGTTGTGGTC
2165583 ATTTCTAGCCG-TTGGGGAT
1 ATTTCTAGCCGTTTGGGGAT
2165602 ATTTCTAGCCGTTTGGGGAT
1 ATTTCTAGCCGTTTGGGGAT
2165622 GAAATCTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.15, C:0.15, G:0.31, T:0.38
Consensus pattern (20 bp):
ATTTCTAGCCGTTTGGGGAT
Found at i:2166677 original size:20 final size:21
Alignment explanation
Indices: 2166652--2166693 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
2166642 AGTTGTGGCC
2166652 ATTTCTAGCCG-TTGGGGATG
1 ATTTCTAGCCGTTTGGGGATG
2166672 ATTTCTAGCCGTTTGGGGATG
1 ATTTCTAGCCGTTTGGGGATG
2166693 A
1 A
2166694 AATGTCTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.17, C:0.14, G:0.33, T:0.36
Consensus pattern (21 bp):
ATTTCTAGCCGTTTGGGGATG
Found at i:2168594 original size:31 final size:31
Alignment explanation
Indices: 2168558--2168628 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
2168548 CGATGGATGT
2168558 CAATTCAACTTCTAGAAGCAATCAATGGATA
1 CAATTCAACTTCTAGAAGCAATCAATGGATA
2168589 CAATTCAACTTCTAGAAGCAATCAATGGATA
1 CAATTCAACTTCTAGAAGCAATCAATGGATA
*
2168620 CAACTCAAC
1 CAATTCAAC
2168629 GAATGCTCGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.24
Consensus pattern (31 bp):
CAATTCAACTTCTAGAAGCAATCAATGGATA
Found at i:2169234 original size:37 final size:37
Alignment explanation
Indices: 2169184--2169281 Score: 124
Period size: 37 Copynumber: 2.6 Consensus size: 37
2169174 TTCGTCCTAT
* *
2169184 TAGGATTCAAACTCCTAAAAATAGGATATAATTTTAC
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTCTAC
* *
2169221 TAGGATTCAAACTCCTAAAAATATGATAGAGTTCTAC
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTCTAC
** * *
2169258 TATTATTTAAACTCCTAAAGATAG
1 TAGGATTCAAACTCCTAAAAATAG
2169282 AATCCACAAG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (37 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTCTAC
Found at i:2169797 original size:19 final size:20
Alignment explanation
Indices: 2169753--2169797 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
2169743 TATATATATA
* *
2169753 TATATGTATTTAATTATATT
1 TATATTTATTTAATTATAGT
2169773 TA-ATTTATTT-ATTATAGT
1 TATATTTATTTAATTATAGT
2169791 TATATTT
1 TATATTT
2169798 TTTTTTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 9 0.41
19 11 0.50
20 2 0.09
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
TATATTTATTTAATTATAGT
Found at i:2169987 original size:16 final size:18
Alignment explanation
Indices: 2169950--2169987 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2169940 ATTCTTACTT
*
2169950 TATTTTTTTTATGATTAC
1 TATTTTTTTTATGATTAA
2169968 TATTTTTTTTA-G-TTAA
1 TATTTTTTTTATGATTAA
2169984 TATT
1 TATT
2169988 ATATGTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (18 bp):
TATTTTTTTTATGATTAA
Found at i:2170042 original size:64 final size:58
Alignment explanation
Indices: 2169920--2170052 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 58
2169910 TTTCCTAACG
*
2169920 TTATATATATATATATATATATTCTTACTTTATTTTTTTTATGATTACTATTTTTTTTA
1 TTATAT-TATATATATATATATTCTTACTTTATTTTTATTATGATTACTATTTTTTTTA
* * * *
2169979 GTTAATATTATATGTATATTTATT-TTTCATTTATTTATTATTATTATTACTATTTAGTATTTTA
1 -TT-ATATTATATATATATATATTCTTAC-TTTATTT-TTATTATGATTACTATTT--T-TTTTA
2170043 TTATATTATA
1 TTATATTATA
2170053 CATACATTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
59 3 0.05
60 23 0.37
61 20 0.32
62 8 0.13
63 3 0.05
64 5 0.08
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (58 bp):
TTATATTATATATATATATATTCTTACTTTATTTTTATTATGATTACTATTTTTTTTA
Found at i:2171120 original size:20 final size:20
Alignment explanation
Indices: 2171095--2171132 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2171085 AAGGGTCTGG
2171095 CAAGCCCAAGGGGGCACCAA
1 CAAGCCCAAGGGGGCACCAA
2171115 CAAGCCCAAGGGGGCACC
1 CAAGCCCAAGGGGGCACC
2171133 GGCAAGGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.37, G:0.32, T:0.00
Consensus pattern (20 bp):
CAAGCCCAAGGGGGCACCAA
Found at i:2171138 original size:20 final size:20
Alignment explanation
Indices: 2171093--2171138 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
2171083 CTAAGGGTCT
2171093 GGCAAGCCCAAGGGGGCACC
1 GGCAAGCCCAAGGGGGCACC
**
2171113 AACAAGCCCAAGGGGGCACC
1 GGCAAGCCCAAGGGGGCACC
2171133 GGCAAG
1 GGCAAG
2171139 GAGAACTCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.33, G:0.37, T:0.00
Consensus pattern (20 bp):
GGCAAGCCCAAGGGGGCACC
Found at i:2174613 original size:16 final size:14
Alignment explanation
Indices: 2174589--2174659 Score: 72
Period size: 16 Copynumber: 4.8 Consensus size: 14
2174579 TAAAAAGGGC
2174589 AAAAACAAAAAAGA
1 AAAAACAAAAAAGA
2174603 AAAGAAGCAAAAAAGA
1 AAA-AA-CAAAAAAGA
2174619 AGAAAACAAAAAAAAGA
1 A-AAAAC--AAAAAAGA
*
2174636 AAGAAC-AAAAAGA
1 AAAAACAAAAAAGA
*
2174649 AAAAAGAAAAA
1 AAAAACAAAAA
2174660 GGGACAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
13 11 0.23
14 7 0.15
15 3 0.06
16 16 0.33
17 11 0.23
ACGTcount: A:0.82, C:0.06, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAACAAAAAAGA
Found at i:2174614 original size:14 final size:13
Alignment explanation
Indices: 2174589--2174671 Score: 62
Period size: 13 Copynumber: 6.3 Consensus size: 13
2174579 TAAAAAGGGC
*
2174589 AAAAACAAA-AAA
1 AAAAAGAAACAAA
* *
2174601 GAAAAGAAGCAAA
1 AAAAAGAAACAAA
2174614 AAAGAAGAAAACAAA
1 AAA-AAG-AAACAAA
* *
2174629 AAAAAGAAAGAAC
1 AAAAAGAAACAAA
2174642 AAAAAGAAA-AAA
1 AAAAAGAAACAAA
**
2174654 GAAAAAGGGACAAA
1 -AAAAAGAAACAAA
2174668 AAAA
1 AAAA
2174672 CACATGCAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
12 8 0.14
13 30 0.54
14 9 0.16
15 9 0.16
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAGAAACAAA
Found at i:2174640 original size:21 final size:20
Alignment explanation
Indices: 2174614--2174657 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
2174604 AAGAAGCAAA
*
2174614 AAAGAAGAAAACAAAAAAAAG
1 AAAGAACAAAA-AAAAAAAAG
*
2174635 AAAGAACAAAAAGAAAAAAG
1 AAAGAACAAAAAAAAAAAAG
2174655 AAA
1 AAA
2174658 AAGGGACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.82, C:0.05, G:0.14, T:0.00
Consensus pattern (20 bp):
AAAGAACAAAAAAAAAAAAG
Found at i:2175291 original size:22 final size:22
Alignment explanation
Indices: 2175263--2175317 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
2175253 GCTACCCCAT
2175263 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
2175285 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
2175307 CAAACCTTTGA
1 CAAACCTTTGA
2175318 CCAAACACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:2176527 original size:106 final size:106
Alignment explanation
Indices: 2176340--2177098 Score: 1106
Period size: 106 Copynumber: 7.2 Consensus size: 106
2176330 CAACAAACAA
* **
2176340 CGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAAGGATTGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
*
2176405 CAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
66 CAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
* ** * * * *
2176446 CTAAGGATATTGGACTTGAGACAACGCAAGTTTAACTTCATGACAAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
*
2176511 CAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
66 CAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
* * *
2176552 CGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
*
2176617 CAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAG
66 CAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
* * * * *
2176658 CGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTGAAGACAAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* * *
2176723 CAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAA
66 CAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
2176764 CGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
1 CGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* *
2176829 CAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCGCAG
66 CAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
* * *
2176870 CGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCATGACGAAGGGACCGCTGGTTATCAA
1 CGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* * *
2176935 CAAATAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAA
66 CAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
* * * * ** *
2176976 CAAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGTAGGGATGGCTGGTTGCCAA
1 CGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
** * *
2177041 CAAACAATTTCCTGATTCCATAGCCAATTTCAACTTCAC-G
66 CAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
*
2177081 ACGGAGGATATTGGACTC
1 -CGAAGGATATTGGACTC
2177099 GAAACAATGC
Statistics
Matches: 586, Mismatches: 66, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
106 586 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
CGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
CAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
Found at i:2177900 original size:37 final size:37
Alignment explanation
Indices: 2177850--2177950 Score: 130
Period size: 37 Copynumber: 2.7 Consensus size: 37
2177840 TTCGTCCTAT
* * *
2177850 TAGGATTCAAACTCCTAAAAATAGGATAGAATTTTGC
1 TAGGATTAAAACTCCTAAAAATAGGATAGAATTCTAC
*
2177887 TAGGATTAAAACTCCTAAAAATAGGATAGAGTTCTAC
1 TAGGATTAAAACTCCTAAAAATAGGATAGAATTCTAC
** * *
2177924 TATTATTTAAACTCCTAAAGATAGGAT
1 TAGGATTAAAACTCCTAAAAATAGGAT
2177951 CCACAAGCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (37 bp):
TAGGATTAAAACTCCTAAAAATAGGATAGAATTCTAC
Found at i:2178596 original size:2 final size:2
Alignment explanation
Indices: 2178589--2178637 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
2178579 TTCCTAACGT
2178589 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2178631 TA TA TA T
1 TA TA TA T
2178638 TCTTACTTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2178777 original size:2 final size:2
Alignment explanation
Indices: 2178770--2178804 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2178760 CATTTTTATT
2178770 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2178805 TTATTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2178834 original size:8 final size:8
Alignment explanation
Indices: 2178764--2178835 Score: 53
Period size: 8 Copynumber: 9.4 Consensus size: 8
2178754 TACATACATT
*
2178764 TTTATTTA
1 TTTATATA
*
2178772 TATATATA
1 TTTATATA
*
2178780 TATATATA
1 TTTATATA
*
2178788 TATATATA
1 TTTATATA
*
2178796 TATATATA
1 TTTATATA
2178804 TTTAT-TA
1 TTTATATA
2178811 -TT-T-TA
1 TTTATATA
2178816 TTTATACTA
1 TTTATA-TA
*
2178825 TTTATTTA
1 TTTATATA
2178833 TTT
1 TTT
2178836 TCATTATATT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
5 3 0.05
6 4 0.07
7 3 0.05
8 39 0.70
9 7 0.12
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTATATA
Found at i:2178978 original size:26 final size:24
Alignment explanation
Indices: 2178932--2178998 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
2178922 TTTTATCTTC
*
2178932 ATTTATTTTATTTTATTCAATTCA
1 ATTTATTTTATTTTATCCAATTCA
*
2178956 ATTTCATTTTTTTTTCATCCAATT-A
1 ATTT-ATTTTATTTT-ATCCAATTCA
*
2178981 TTTTATGTTTATTATTAT
1 ATTTAT-TTTATT-TTAT
2178999 TGGCTTCATT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
24 6 0.17
25 20 0.57
26 9 0.26
ACGTcount: A:0.25, C:0.09, G:0.01, T:0.64
Consensus pattern (24 bp):
ATTTATTTTATTTTATCCAATTCA
Found at i:2180502 original size:22 final size:22
Alignment explanation
Indices: 2180472--2180517 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2180462 TTGATTTTGA
2180472 TATTATTATATTATAATTA-TAT
1 TATTATTATATTAT-ATTACTAT
* *
2180494 TATTCTTATGTTATATTACTAT
1 TATTATTATATTATATTACTAT
2180516 TA
1 TA
2180518 ATAGTTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (22 bp):
TATTATTATATTATATTACTAT
Found at i:2181244 original size:14 final size:13
Alignment explanation
Indices: 2181216--2181240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2181206 ATGTTTTTGT
2181216 ATTTTCTAGTTTA
1 ATTTTCTAGTTTA
2181229 ATTTTCTAGTTT
1 ATTTTCTAGTTT
2181241 TAATAATTCT
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:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (13 bp):
ATTTTCTAGTTTA
Found at i:2189136 original size:14 final size:14
Alignment explanation
Indices: 2189116--2189149 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2189106 TCACGACGAT
2189116 CGTCACCCTAGGTG
1 CGTCACCCTAGGTG
*
2189130 TGTCACCCTAGGTG
1 CGTCACCCTAGGTG
2189144 CGTCAC
1 CGTCAC
2189150 TAAATGTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.35, G:0.26, T:0.24
Consensus pattern (14 bp):
CGTCACCCTAGGTG
Found at i:2190280 original size:15 final size:15
Alignment explanation
Indices: 2190260--2190291 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2190250 TTTTGAGTTT
*
2190260 CATTTTCTTGTGTTC
1 CATTTTATTGTGTTC
2190275 CATTTTATTGTGTTC
1 CATTTTATTGTGTTC
2190290 CA
1 CA
2190292 ATCTTTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.12, T:0.56
Consensus pattern (15 bp):
CATTTTATTGTGTTC
Found at i:2192338 original size:21 final size:21
Alignment explanation
Indices: 2192308--2192467 Score: 134
Period size: 21 Copynumber: 7.6 Consensus size: 21
2192298 GATTTACATA
*
2192308 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
2192329 TTCGCGTTGCAATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
2192352 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
2192371 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
2192394 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
2192413 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
2192436 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
2192455 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
2192468 TTATTCCAAA
Statistics
Matches: 109, Mismatches: 18, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
19 25 0.23
21 58 0.53
23 26 0.24
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:2192361 original size:42 final size:42
Alignment explanation
Indices: 2192314--2192492 Score: 322
Period size: 42 Copynumber: 4.3 Consensus size: 42
2192304 CATATTCGCA
* * *
2192314 TTGCGATAGTCCAAGTTCGCGTTGCAATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
2192356 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
2192398 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
2192440 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCA
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
2192482 TTGCGATAGTC
1 TTGCGATAGTC
2192493 CAAAATCGCA
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 133 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:2192485 original size:21 final size:21
Alignment explanation
Indices: 2192333--2192488 Score: 108
Period size: 21 Copynumber: 7.4 Consensus size: 21
2192323 TCCAAGTTCG
* *
2192333 CGTTGCAATTTATTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
* * *
2192354 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
2192373 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
* * *
2192396 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
2192415 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
* * *
2192438 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
2192457 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
*
2192480 CATTGCGAT
1 CGTTGCGAT
2192489 AGTCCAAAAT
Statistics
Matches: 104, Mismatches: 19, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
19 25 0.24
21 55 0.53
23 24 0.23
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:2193097 original size:6 final size:6
Alignment explanation
Indices: 2193086--2193112 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2193076 TCTCGTCTCG
2193086 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
2193113 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:2193235 original size:21 final size:21
Alignment explanation
Indices: 2193209--2193401 Score: 122
Period size: 21 Copynumber: 9.4 Consensus size: 21
2193199 ATTTTGGACT
*
2193209 ATCGCAATGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
2193230 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAATTTGGAATAA
2193251 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
2193272 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
2193293 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
* * *
2193312 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
2193333 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
* * *
2193352 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
2193373 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
2193394 ATCGCAAC
1 ATCGCAAC
2193402 TCGAACTTAG
Statistics
Matches: 129, Mismatches: 23, Indels: 40
0.67 0.12 0.21
Matches are distributed among these distances:
19 47 0.36
21 64 0.50
23 18 0.14
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:2193344 original size:82 final size:82
Alignment explanation
Indices: 2193205--2193461 Score: 419
Period size: 82 Copynumber: 3.1 Consensus size: 82
2193195 TGCGATTTTG
* *
2193205 GACTATCGCAATGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTAGACTATCGCAACGAATTTGG-A-
2193270 AAATCGCAACGCGAACTTC
64 AAATCGCAACGCGAACTTC
*
2193289 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAA
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTAGACTATCGCAACGAATTTGGAAA
2193352 ATCGCAACGCGAACTTC
66 ATCGCAACGCGAACTTC
* * *
2193369 GACTATCGCAACGAATTTGGAATAAATCGCAACTCGAACTTAGACTATCACAATGAATTTGGAAA
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTAGACTATCGCAACGAATTTGGAAA
*
2193434 ATCACAACGCGAACTTC
66 ATCGCAACGCGAACTTC
2193451 GACTATCGCAA
1 GACTATCGCAA
2193462 TGCGAACTTC
Statistics
Matches: 164, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
80 39 0.24
81 2 0.01
82 103 0.63
83 1 0.01
84 19 0.12
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (82 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTAGACTATCGCAACGAATTTGGAAA
ATCGCAACGCGAACTTC
Found at i:2193427 original size:122 final size:124
Alignment explanation
Indices: 2193205--2193461 Score: 437
Period size: 122 Copynumber: 2.1 Consensus size: 124
2193195 TGCGATTTTG
* *
2193205 GACTATCGCAATGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAT
* * *
2193270 AAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
66 AAATCGCAACGCGAACTTAGACTATCACAACGAATTTGGAAAATCACAACGCGAACTTC
2193329 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAT
* *
2193392 AAATCGCAACTCGAACTTAGACTATCACAATGAATTTGGAAAATCACAACGCGAACTTC
66 AAATCGCAACGCGAACTTAGACTATCACAACGAATTTGGAAAATCACAACGCGAACTTC
2193451 GACTATCGCAA
1 GACTATCGCAA
2193462 TGCGAACTTC
Statistics
Matches: 126, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
122 106 0.84
123 1 0.01
124 19 0.15
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (124 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAT
AAATCGCAACGCGAACTTAGACTATCACAACGAATTTGGAAAATCACAACGCGAACTTC
Found at i:2193463 original size:40 final size:42
Alignment explanation
Indices: 2193205--2193461 Score: 409
Period size: 40 Copynumber: 6.3 Consensus size: 42
2193195 TGCGATTTTG
* *
2193205 GACTATCGCAATGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
2193247 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
2193289 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
2193329 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* *
2193369 GACTATCGCAACGAATTTGGAATAAATCGCAACTCGAACTTA
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* * *
2193411 GACTATCACAATGAATTTGG-A-AAATCACAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
2193451 GACTATCGCAA
1 GACTATCGCAA
2193462 TGCGAACTTC
Statistics
Matches: 203, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
40 105 0.52
41 3 0.01
42 95 0.47
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:2193499 original size:122 final size:121
Alignment explanation
Indices: 2193205--2193503 Score: 366
Period size: 122 Copynumber: 2.4 Consensus size: 121
2193195 TGCGATTTTG
* * * * **
2193205 GACTATCGCAATGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
1 GACTATCGCAACGAACTTCG-A-AAATCGCAAC-CGAACTTCGAAAATCGCAACGAATTTGGAAT
* * *
2193270 AAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
63 AAATCGCAACGCGAACTTAGACTATCACAACGAATTTGGAAAATCACAACGCGAACTTC
* * **
2193329 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
1 GACTATCGCAACGAACTTCGAAAATCGCAAC-CGAACTTCGAAAATCGCAACGAATTTGGAATAA
* *
2193394 ATCGCAACTCGAACTTAGACTATCACAATGAATTTGGAAAATCACAACGCGAACTTC
65 ATCGCAACGCGAACTTAGACTATCACAACGAATTTGGAAAATCACAACGCGAACTTC
** * *
2193451 GACTATCGCAATGCGAACTTCGACTATCGCAA-CGAATTTGGAAAATCGCAACG
1 GACTATCGCAA--CGAACTTCGAAAATCGCAACCGAACTTCGAAAATCGCAACG
2193504 CGAACTTCGG
Statistics
Matches: 158, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
122 123 0.78
123 1 0.01
124 34 0.22
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (121 bp):
GACTATCGCAACGAACTTCGAAAATCGCAACCGAACTTCGAAAATCGCAACGAATTTGGAATAAA
TCGCAACGCGAACTTAGACTATCACAACGAATTTGGAAAATCACAACGCGAACTTC
Found at i:2193504 original size:61 final size:60
Alignment explanation
Indices: 2193272--2193543 Score: 280
Period size: 61 Copynumber: 4.5 Consensus size: 60
2193262 TTTGGAATAA
2193272 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
1 ATCGCAAC-CGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
* * ** * * ** * * *
2193333 ATCGCAA-CGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAA--CGAATTTGGAAT
1 ATCGCAACCGAACTTCGACTATCGCAA--CGAATTTGGAAAATCGCAACGCGAACTTCGACT
* * * *
2193392 AAATCGCAACTCGAACTTAGACTATCACAATGAATTTGGAAAATCACAACGCGAACTTCGACT
1 --ATCGCAAC-CGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
* *
2193455 ATCGCAATGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGGCT
1 ATCGCAA-CCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
* *
2193516 ATCGCAACACGAACTTGGACTATTGCAA
1 ATCGCAAC-CGAACTTCGACTATCGCAA
2193544 TGCGAATATG
Statistics
Matches: 167, Mismatches: 34, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
59 24 0.14
61 120 0.72
63 23 0.14
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (60 bp):
ATCGCAACCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
Found at i:2193545 original size:122 final size:120
Alignment explanation
Indices: 2193205--2193545 Score: 337
Period size: 122 Copynumber: 2.8 Consensus size: 120
2193195 TGCGATTTTG
* * * * ** *
2193205 GACTATCGCAATGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
1 GACTATCGCAACGAACTTCG-A-AAATCGCAAC-CGAACTTCGAAAATCGCAACGAATTCGGAAT
* * * *
2193270 AAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTC
63 -AATCGCAACACGAACTTAGACTATCGCAATGAATTTGGAAAATCACAACGCGAACTTC
* * ** *
2193329 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
1 GACTATCGCAACGAACTTCGAAAATCGCAAC-CGAACTTCGAAAATCGCAACGAATTCGGAAT-A
* *
2193394 ATCGCAACTCGAACTTAGACTATCACAATGAATTTGGAAAATCACAACGCGAACTTC
64 ATCGCAACACGAACTTAGACTATCGCAATGAATTTGGAAAATCACAACGCGAACTTC
** * *
2193451 GACTATCGCAATGCGAACTTCGACTATCGCAA-CGAATTTGGAAAATCGCAACGCGAACTTCGG-
1 GACTATCGCAA--CGAACTTCGAAAATCGCAACCGAACTTCGAAAATCGCAA--CGAA-TTCGGA
* * *
2193514 CT-ATCGCAACACGAACTTGGACTATTGCAATG
61 ATAATCGCAACACGAACTTAGACTATCGCAATG
2193546 CGAATATGTA
Statistics
Matches: 191, Mismatches: 21, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
122 147 0.77
123 1 0.01
124 39 0.20
125 4 0.02
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.22
Consensus pattern (120 bp):
GACTATCGCAACGAACTTCGAAAATCGCAACCGAACTTCGAAAATCGCAACGAATTCGGAATAAT
CGCAACACGAACTTAGACTATCGCAATGAATTTGGAAAATCACAACGCGAACTTC
Found at i:2193587 original size:21 final size:21
Alignment explanation
Indices: 2193558--2193610 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
2193548 AATATGTAAA
*
2193558 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
2193579 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
2193600 TCGCGTTGCGA
1 TCGCGTTGCGA
2193611 ATCTGGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:2199642 original size:131 final size:131
Alignment explanation
Indices: 2199408--2199667 Score: 389
Period size: 131 Copynumber: 2.0 Consensus size: 131
2199398 TTTTAAGAGA
*
2199408 AAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAACAATCA
1 AAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAACAATCA
* * * *
2199473 TTTATTTCTCTAATGGAAATGAAGAGATATCACTATTTCATCTTAAAATTCAATATTGATTCGAA
66 TTTATTACTCTAATGGAAATGAAGAGATATCAATATTTCATCTTAAAAATCAATATCGATTCGAA
2199538 T
131 T
* * * *
2199539 AAAAATGATAATATCTAATGATTTCCAATCGAGAA-ATAATGACTTCTCATGCCTTAAAGCAGTC
1 AAAAACGATAATATCTAATGATTTCCAATCGAGAATA-AATGACCTCTCATGCCTTAAAACAATC
* *
2199603 ATTTATTACT-TCAATTGAAATGAAGAGATATCAATATTTCGTCTTAAAAATCAATATCGATTCG
65 ATTTATTACTCT-AATGGAAATGAAGAGATATCAATATTTCATCTTAAAAATCAATATCGATTCG
2199667 A
129 A
2199668 GTGTTACTAT
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
130 2 0.02
131 114 0.98
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.34
Consensus pattern (131 bp):
AAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAACAATCA
TTTATTACTCTAATGGAAATGAAGAGATATCAATATTTCATCTTAAAAATCAATATCGATTCGAA
T
Found at i:2200805 original size:2 final size:2
Alignment explanation
Indices: 2200798--2200847 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
2200788 TAAAACCCAA
2200798 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2200840 AT AT AT AT
1 AT AT AT AT
2200848 TAAAAAACTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2210904 original size:3 final size:3
Alignment explanation
Indices: 2210898--2210964 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
2210888 ATAATATTTT
2210898 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2210946 TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
2210965 TTAAGGTACT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2214462 original size:3 final size:3
Alignment explanation
Indices: 2214456--2214492 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
2214446 ATATTTTTAA
2214456 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2214493 TTTTTAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2218660 original size:17 final size:17
Alignment explanation
Indices: 2218638--2218670 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2218628 GTTTAGGTTA
2218638 AGGTTTTCGTTCGGGCC
1 AGGTTTTCGTTCGGGCC
2218655 AGGTTTTCGTTCGGGC
1 AGGTTTTCGTTCGGGC
2218671 ATTTTTGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.21, G:0.36, T:0.36
Consensus pattern (17 bp):
AGGTTTTCGTTCGGGCC
Found at i:2218702 original size:3 final size:3
Alignment explanation
Indices: 2218696--2218745 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
2218686 TAATATTTGT
* *
2218696 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AAA ATA ATA ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2218744 AT
1 AT
2218746 GATGATGATG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2221148 original size:4 final size:4
Alignment explanation
Indices: 2221139--2221168 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
2221129 ATGCTTATTC
2221139 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
2221169 CCTAACCGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:2222812 original size:3 final size:3
Alignment explanation
Indices: 2222804--2222872 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
2222794 ATATTTTTAA
2222804 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2222852 AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
2222873 TTAAGGTAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2226226 original size:3 final size:3
Alignment explanation
Indices: 2226218--2226313 Score: 183
Period size: 3 Copynumber: 31.7 Consensus size: 3
2226208 GGGTTTAGGT
2226218 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
2226264 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2226312 TA
1 TA
2226314 GCAATAATGT
Statistics
Matches: 92, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 89 0.97
4 3 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2227818 original size:23 final size:23
Alignment explanation
Indices: 2227788--2227836 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
2227778 AGATTCGATA
2227788 TAACAGTCTTTTCTCGATGAATT
1 TAACAGTCTTTTCTCGATGAATT
2227811 TAACAGTCTTTTCTCGATGAATT
1 TAACAGTCTTTTCTCGATGAATT
2227834 TAA
1 TAA
2227837 TTAAAATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (23 bp):
TAACAGTCTTTTCTCGATGAATT
Found at i:2229332 original size:18 final size:19
Alignment explanation
Indices: 2229309--2229370 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 19
2229299 GGTCCTTGTA
2229309 TTTATGTTTATTTTAT-TT
1 TTTATGTTTATTTTATATT
2229327 TTTATG-TTACTTTTATAGTT
1 TTTATGTTTA-TTTTATA-TT
* *
2229347 TTTATTTTTATTTTTTATT
1 TTTATGTTTATTTTATATT
*
2229366 GTTAT
1 TTTAT
2229371 TTTTTTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.08
18 12 0.32
19 6 0.16
20 13 0.35
21 3 0.08
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.74
Consensus pattern (19 bp):
TTTATGTTTATTTTATATT
Found at i:2229362 original size:22 final size:21
Alignment explanation
Indices: 2229337--2229377 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
2229327 TTTATGTTAC
*
2229337 TTTTATAGTTTTTATTTTTATT
1 TTTTATAGTTATT-TTTTTATT
*
2229359 TTTTATTGTTATTTTTTTA
1 TTTTATAGTTATTTTTTTA
2229378 AATTAGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTTATAGTTATTTTTTTATT
Found at i:2229363 original size:13 final size:13
Alignment explanation
Indices: 2229345--2229375 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2229335 ACTTTTATAG
*
2229345 TTTTTATTTTTAT
1 TTTTTATTGTTAT
2229358 TTTTTATTGTTAT
1 TTTTTATTGTTAT
2229371 TTTTT
1 TTTTT
2229376 TAAATTAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (13 bp):
TTTTTATTGTTAT
Found at i:2232909 original size:2 final size:2
Alignment explanation
Indices: 2232902--2232951 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
2232892 CCTTTCAAAC
2232902 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2232944 AT AT AT AT
1 AT AT AT AT
2232952 CCCTTGTTGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2233239 original size:4 final size:4
Alignment explanation
Indices: 2233190--2233298 Score: 64
Period size: 4 Copynumber: 25.8 Consensus size: 4
2233180 AAACATAAAA
* * *
2233190 AAAG ATAG AAATG AAAT AAAG AAGAA AAAG AAGAGG AAA- AAA- AAAG
1 AAAG AAAG AAA-G AAAG AAAG AA-AG AAAG AA-A-G AAAG AAAG AAAG
2233236 AAAG AAAAG AAAG AAAAG AAAG AAA- AAAGG AAAAG AAAAG AAAAG AAAG
1 AAAG -AAAG AAAG -AAAG AAAG AAAG AAA-G -AAAG -AAAG -AAAG AAAG
*
2233285 AAA- TAAG AAAG AAA
1 AAAG AAAG AAAG AAA
2233299 ATCGATTAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
3 11 0.13
4 41 0.48
5 28 0.33
6 6 0.07
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (4 bp):
AAAG
Found at i:2233244 original size:5 final size:5
Alignment explanation
Indices: 2233215--2233287 Score: 71
Period size: 5 Copynumber: 14.6 Consensus size: 5
2233205 ATAAAGAAGA
* * *
2233215 AAAAG AAGAGG AAAAA AAAAG -AAAG AAAAG -AAAG AAAAG AAAGAA AAAAGG
1 AAAAG AA-AAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA-AG AAAA-G
2233266 AAAAG AAAAG AAAAG -AAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAA
2233288 TAAGAAAGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
4 12 0.21
5 32 0.57
6 12 0.21
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:2233262 original size:31 final size:36
Alignment explanation
Indices: 2233225--2233299 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 36
2233215 AAAAGAAGAG
2233225 GAAAAA-AAAAG-AAAGAAAAGAAAG-AA-AAGAAA
1 GAAAAAGAAAAGAAAAGAAAAGAAAGAAATAAGAAA
*
2233257 GAAAAAAGGAAAAGAAAAGAAAAGAAAGAAATAAGAAA
1 G-AAAAAGAAAA-GAAAAGAAAAGAAAGAAATAAGAAA
2233295 GAAAA
1 GAAAA
2233300 TCGATTAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
32 1 0.03
33 5 0.14
34 3 0.08
35 1 0.03
36 13 0.36
37 6 0.17
38 7 0.19
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (36 bp):
GAAAAAGAAAAGAAAAGAAAAGAAAGAAATAAGAAA
Found at i:2235223 original size:42 final size:42
Alignment explanation
Indices: 2235157--2235364 Score: 301
Period size: 42 Copynumber: 5.0 Consensus size: 42
2235147 GAAGTATTCT
*
2235157 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAATTTCC
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCC
* *
2235199 CATGTCCCTTTGCTGTGTGTAAAGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCC
* * *
2235241 TAGGTCCTTTTGCTGTGTGCAAAGGTAAGCCTTTATAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCC-TTACAGTTTCC
* *
2235284 CAGGT-CCTTTACTGTGTGCAAAGGTAAACCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCC
* * *
2235325 CAGGTTCATTTGCTGTGTGCAAGGGTAAGCCTTACAGTTT
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTT
2235365 TCCTAGGCTC
Statistics
Matches: 147, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
41 15 0.10
42 118 0.80
43 14 0.10
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.35
Consensus pattern (42 bp):
CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCC
Found at i:2235367 original size:84 final size:83
Alignment explanation
Indices: 2235157--2235403 Score: 305
Period size: 84 Copynumber: 2.9 Consensus size: 83
2235147 GAAGTATTCT
* * * * *
2235157 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAATTTCCCATGTCCCTTTGCTGTGTGTAAA
1 CAGGTCCATTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCCCAGGT-CCTTTACTGTGTGCAAA
*
2235222 GGTAAGCCTTACAGTTTCC
65 GGTAAACCTTACAGTTTCC
* * *
2235241 TAGGTCCTTTTGCTGTGTGCAAAGGTAAGCCTTTATAGTTTCCCAGGTCCTTTACTGTGTGCAAA
1 CAGGTCCATTTGCTGTGTGCAAAGGTAAGCC-TTACAGTTTCCCAGGTCCTTTACTGTGTGCAAA
2235306 GGTAAACCTTACAGTTTCC
65 GGTAAACCTTACAGTTTCC
* * * * * *
2235325 CAGGTTCATTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCTAGGCTCCTCTACTTTGTGCAT
1 CAGGTCCATTTGCTGTGTGCAAAGGTAAGCCTTACAG-TTTCCCAGG-TCCTTTACTGTGTGCAA
*
2235390 AGGTTAACCCTTAC
64 AGG-TAAACCTTAC
2235404 TGGTGTACAG
Statistics
Matches: 141, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
83 5 0.04
84 97 0.69
85 30 0.21
86 9 0.06
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (83 bp):
CAGGTCCATTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCCCAGGTCCTTTACTGTGTGCAAAG
GTAAACCTTACAGTTTCC
Found at i:2235388 original size:43 final size:41
Alignment explanation
Indices: 2235157--2235403 Score: 269
Period size: 42 Copynumber: 5.8 Consensus size: 41
2235147 GAAGTATTCT
* *
2235157 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAATTTCC
1 CAGGT-CCTTTACTGTGTGCAAAGGTAAGCCTTACAGTTTCC
* * *
2235199 CATGTCCCTTTGCTGTGTGTAAAGGTAAGCCTTACAGTTTCC
1 CAGGT-CCTTTACTGTGTGCAAAGGTAAGCCTTACAGTTTCC
* * *
2235241 TAGGTCCTTTTGCTGTGTGCAAAGGTAAGCCTTTATAGTTTCC
1 CAGGTCC-TTTACTGTGTGCAAAGGTAAGCC-TTACAGTTTCC
*
2235284 CAGGTCCTTTACTGTGTGCAAAGGTAAACCTTACAGTTTCC
1 CAGGTCCTTTACTGTGTGCAAAGGTAAGCCTTACAGTTTCC
* * *
2235325 CAGGTTCATTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCC
1 CAGG-TCCTTTACTGTGTGCAAAGGTAAGCCTTACAG-TTTCC
* * * * *
2235368 TAGGCTCCTCTACTTTGTGCATAGGTTAACCCTTAC
1 CAGG-TCCTTTACTGTGTGCAAAGG-TAAGCCTTAC
2235404 TGGTGTACAG
Statistics
Matches: 176, Mismatches: 24, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
41 16 0.09
42 113 0.64
43 38 0.22
44 9 0.05
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (41 bp):
CAGGTCCTTTACTGTGTGCAAAGGTAAGCCTTACAGTTTCC
Found at i:2242565 original size:42 final size:42
Alignment explanation
Indices: 2242506--2242713 Score: 335
Period size: 42 Copynumber: 5.0 Consensus size: 42
2242496 GATGTATTCT
* * *
2242506 CAGGTCCCTTTGTTGTGTGCAAATGTAAGACTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCC
2242548 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCC
*
2242590 CAGGTCCCTTTGTTGTGTGCAAAGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCC
*
2242632 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCC
* * * *
2242674 CAGGTTCCTTTGATGCGTGCAAGGGTAAGCCTTACAGTTT
1 CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTT
2242714 TCCTAGACTC
Statistics
Matches: 157, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 157 1.00
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.33
Consensus pattern (42 bp):
CAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCC
Found at i:2252213 original size:21 final size:21
Alignment explanation
Indices: 2252184--2252230 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2252174 GCTTTGGAAT
* *
2252184 TTTTTCTGGGATGTAACCAGC
1 TTTTCCTGGGACGTAACCAGC
* *
2252205 TTTTCCTGGGACGTGACTAGC
1 TTTTCCTGGGACGTAACCAGC
2252226 TTTTC
1 TTTTC
2252231 TTGTGAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.40
Consensus pattern (21 bp):
TTTTCCTGGGACGTAACCAGC
Found at i:2259648 original size:3 final size:3
Alignment explanation
Indices: 2259635--2259718 Score: 150
Period size: 3 Copynumber: 28.0 Consensus size: 3
2259625 ATTGGCCTGT
* *
2259635 ATA AAA ATA ATA ATA ATA TTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2259683 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2259719 GCGAGATGAA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2260320 original size:135 final size:133
Alignment explanation
Indices: 2259906--2260484 Score: 638
Period size: 133 Copynumber: 4.3 Consensus size: 133
2259896 CTGAGAAGAG
* * * * *
2259906 ATATGAAAATGTTAATTCATTCCACTATTCTTCAGGGAAGATTAAATCGAGGCAGACTTGTTCCG
1 ATATGGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCA
* * * *
2259971 CTATTCCTCAAGGAAGATCAAATCTAGAAAAAAAGAGGGATTTGTTCTGCTGCTTCTTGAGGGAA
66 CTATTCCTCAAGAAAGATCAAATAT-G--GAAAAGAGGGATTTATTCTGCTGCTTCTTGAGGGAA
2260036 AATCAT
128 AATCAT
* * * * *
2260042 ATATGGAAATGTTGATTCATTCCATTGTTATTCAGGGAAGATTGAATTGAGACAAACTTGTTCCA
1 ATATGGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCA
* * * * *
2260107 CTATTCCTCAAGAAAGATCAAGTATGGAAAAAAGGGATATATTCTGCTGATTCTTGAGGAAAAAT
66 CTATTCCTCAAGAAAGATCAAATATGGAAAAGAGGGATTTATTCTGCTGCTTCTTGAGGGAAAAT
*
2260172 CAA
131 CAT
* * * * * * * * *
2260175 ATCTAGAAATGCTAATTTATTCCACTATTCTTTAGGAAAGATTGAATTGAGGCAGACTTGTTCCA
1 ATATGGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCA
** * * * * * * * *
2260240 CCGTTCTTTAGGGAAGATCAAATCTGAAGAAAATAGGGATTTGTTCTGCTGCTTCTTGAGGGATA
66 CTATTCCTCAAGAAAGATCAAATATG--GAAAAGAGGGATTTATTCTGCTGCTTCTTGAGGGAAA
*
2260305 ATCAG
129 ATCAT
* * * *
2260310 ATCTGGAAATGTTGATTCATTCCACTGTTCTTCATGGAAGATTGAATCAAGGCAGACTTGTTCAA
1 ATATGGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCA
* * * * * * *
2260375 CTGTTCTTCAGGAAAGATCAAATATGGAAAAGATGGATCTATTCCGCTGCTTCTTGAGAGAAAAT
66 CTATTCCTCAAGAAAGATCAAATATGGAAAAGAGGGATTTATTCTGCTGCTTCTTGAGGGAAAAT
2260440 CAT
131 CAT
2260443 ATATGGAAATGTTGATTCATTCCACTGTTCCTT-AGGGAAGAT
1 ATATGGAAATGTTGATTCATTCCACTGTT-CTTCAGGGAAGAT
2260485 CAAATCTAAA
Statistics
Matches: 368, Mismatches: 72, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
133 176 0.48
134 3 0.01
135 112 0.30
136 77 0.21
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (133 bp):
ATATGGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCA
CTATTCCTCAAGAAAGATCAAATATGGAAAAGAGGGATTTATTCTGCTGCTTCTTGAGGGAAAAT
CAT
Found at i:2260403 original size:268 final size:269
Alignment explanation
Indices: 2259912--2260490 Score: 766
Period size: 268 Copynumber: 2.2 Consensus size: 269
2259902 AGAGATATGA
* * *
2259912 AAATGTTAATTCATTCCACTATTCTTCAGGGAAGATTAAATCGAGGCAGACTTGTTCCGCTATTC
1 AAATGTTAATTCATTCCACTATTCTTTAGGGAAGATTAAATCGAGGCAGACTTGTTCCACCATTC
*
2259977 CTCAAGGAAGATCAAATCTAGAAAAAAAGAGGGATTTGTTCTGCTGCTTCTTGAGGGAAAATCAT
66 CTCAAGGAAGATCAAATCTAGAAAAAAAGAGGGATTTGTTCTGCTGCTTCTTGAGGGAAAATCAG
* ** *
2260042 ATATGGAAATGTTGATTCATTCCATTGTTATTCAGGGAAGATTGAATTGAGACAAACTTGTTCCA
131 ATATGGAAATGTTGATTCATTCCACTGTTATTCAGGGAAGATTGAATCAAGACAAACTTGTTCAA
* *
2260107 CTATTCCTCAAGAAAGATCAAGTATGGAAAAAAGGGATATATTCTGCTGATTCTTGAG-GAAAAA
196 CTATTCCTCAAGAAAGATCAAATATGGAAAAAAGGGATATATTCCGCTGATTCTTGAGAG-AAAA
*
2260171 TCAAATCTAG
260 TCAAATATAG
* * * * * *
2260181 AAATGCTAATTTATTCCACTATTCTTTAGGAAAGATTGAATTGAGGCAGACTTGTTCCACCGTTC
1 AAATGTTAATTCATTCCACTATTCTTTAGGGAAGATTAAATCGAGGCAGACTTGTTCCACCATTC
* * * * * *
2260246 TTTAGGGAAGATCAAATCT-GAAGAAAATAGGGATTTGTTCTGCTGCTTCTTGAGGGATAATCAG
66 CTCAAGGAAGATCAAATCTAGAAAAAAAGAGGGATTTGTTCTGCTGCTTCTTGAGGGAAAATCAG
* * * * *
2260310 ATCTGGAAATGTTGATTCATTCCACTGTTCTTCATGGAAGATTGAATCAAGGCAGACTTGTTCAA
131 ATATGGAAATGTTGATTCATTCCACTGTTATTCAGGGAAGATTGAATCAAGACAAACTTGTTCAA
* * * * * * *
2260375 CTGTTCTTCAGGAAAGATCAAATATGGAAAAGATGGATCTATTCCGCTGCTTCTTGAGAGAAAAT
196 CTATTCCTCAAGAAAGATCAAATATGGAAAAAAGGGATATATTCCGCTGATTCTTGAGAGAAAAT
* *
2260440 CATATATGG
261 CAAATATAG
* * * *
2260449 AAATGTTGATTCATTCCACTGTTCCTTAGGGAAGATCAAATC
1 AAATGTTAATTCATTCCACTATTCTTTAGGGAAGATTAAATC
2260491 TAAAAAAGGG
Statistics
Matches: 263, Mismatches: 46, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
268 190 0.72
269 73 0.28
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (269 bp):
AAATGTTAATTCATTCCACTATTCTTTAGGGAAGATTAAATCGAGGCAGACTTGTTCCACCATTC
CTCAAGGAAGATCAAATCTAGAAAAAAAGAGGGATTTGTTCTGCTGCTTCTTGAGGGAAAATCAG
ATATGGAAATGTTGATTCATTCCACTGTTATTCAGGGAAGATTGAATCAAGACAAACTTGTTCAA
CTATTCCTCAAGAAAGATCAAATATGGAAAAAAGGGATATATTCCGCTGATTCTTGAGAGAAAAT
CAAATATAG
Found at i:2260567 original size:45 final size:44
Alignment explanation
Indices: 2260374--2260571 Score: 130
Period size: 45 Copynumber: 4.4 Consensus size: 44
2260364 GACTTGTTCA
*
2260374 ACTGTTCTTCA-GGAAAGATCAAATATGGAAAAGATGGATCTATTCC
1 ACTGTTCTTTAGGGAAA-ATCAAATATGGAAAAG-TGGAT-TATTCC
* * * * * *
2260420 GCTGCTTCTTGAGAGAAAATCATATATGGAAATGTTGATTCATTCC
1 ACTG-TTCTTTAGGGAAAATCAAATATGGAAAAGTGGATT-ATTCC
* * * ** * *
2260466 ACTGTTCCTTAGGGAAGATCAAATCTAAAAAAG-GGATTTGTTTC
1 ACTGTTCTTTAGGGAAAATCAAATATGGAAAAGTGGA-TTATTCC
* * * * * *
2260510 GCTTCTTTTTTAGGGAAAATCAGATATGGAAATGTTGATTAATTCC
1 AC-TGTTCTTTAGGGAAAATCAAATATGGAAAAGTGGATT-ATTCC
2260556 ACTGTTCTTTAGGGAA
1 ACTGTTCTTTAGGGAA
2260572 GATTGAATCG
Statistics
Matches: 110, Mismatches: 35, Indels: 15
0.69 0.22 0.09
Matches are distributed among these distances:
44 6 0.05
45 59 0.54
46 21 0.19
47 20 0.18
48 4 0.04
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (44 bp):
ACTGTTCTTTAGGGAAAATCAAATATGGAAAAGTGGATTATTCC
Found at i:2268508 original size:132 final size:132
Alignment explanation
Indices: 2268266--2268528 Score: 391
Period size: 132 Copynumber: 2.0 Consensus size: 132
2268256 TTTAAGAGAG
* *
2268266 AAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAACAATAAT
1 AAAACGATAATATCTAATGATTTCCAATCAAGAATAAATGACCTCTCATGCCTTAAAACAATAAT
* * * * * * * *
2268331 TTATTTCTCCAATTAAAATGAAGAGATATCACTATTTCATCTTAAAATTCAATATTGATTCGAGT
66 TTATTACTACAATCAAAATGAAGAGATATCAATATTCCATCTTAAAAATCAATATCGATTCAAGT
2268396 GA
131 GA
* * *
2268398 AAAATGATAATATCTAATGATTTCCAATCAAGAATAAATGACCTCTCATGCCTTAAAGCAGTAAT
1 AAAACGATAATATCTAATGATTTCCAATCAAGAATAAATGACCTCTCATGCCTTAAAACAATAAT
* *
2268463 TTATTACTACAATCGAAATGAAGAGATATCAATATTCCGTCTTAAAAATCAATATCGATTCAAGT
66 TTATTACTACAATCAAAATGAAGAGATATCAATATTCCATCTTAAAAATCAATATCGATTCAAGT
2268528 G
131 G
2268529 TTACTACTTT
Statistics
Matches: 116, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 116 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.32
Consensus pattern (132 bp):
AAAACGATAATATCTAATGATTTCCAATCAAGAATAAATGACCTCTCATGCCTTAAAACAATAAT
TTATTACTACAATCAAAATGAAGAGATATCAATATTCCATCTTAAAAATCAATATCGATTCAAGT
GA
Found at i:2270543 original size:3 final size:3
Alignment explanation
Indices: 2270531--2270686 Score: 210
Period size: 3 Copynumber: 53.0 Consensus size: 3
2270521 ATTGGCATGC
* * *
2270531 ATA A-A ATA ATA ATA ATA ATA TTA ATA ATA CTA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * **
2270578 ATA ACA ATA CTA AAA ATA ATA ATA CTA CGA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2270626 ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2270672 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
2270687 GCATAACGAA
Statistics
Matches: 134, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
2 6 0.04
3 128 0.96
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2279768 original size:25 final size:24
Alignment explanation
Indices: 2279735--2279782 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
2279725 ATAAGTCTTT
2279735 AATATATATTTAATTTGAATTAATTA
1 AATATATATTTAATTT--ATTAATTA
*
2279761 AATA-ATATTTTATTTATTAATT
1 AATATATATTTAATTTATTAATT
2279783 TGAAATAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
25 10 0.48
26 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
AATATATATTTAATTTATTAATTA
Found at i:2285079 original size:13 final size:12
Alignment explanation
Indices: 2285046--2285089 Score: 61
Period size: 12 Copynumber: 3.5 Consensus size: 12
2285036 TAATGGGCAA
2285046 AATTTTGAAAAC
1 AATTTTGAAAAC
*
2285058 TATTTTGAAAAC
1 AATTTTGAAAAC
2285070 AATGTTTGAAAATC
1 AAT-TTTGAAAA-C
2285084 AATTTT
1 AATTTT
2285090 TAGTTTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 13 0.46
13 11 0.39
14 4 0.14
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (12 bp):
AATTTTGAAAAC
Found at i:2285185 original size:16 final size:17
Alignment explanation
Indices: 2285146--2285178 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2285136 TCAAAACAAT
*
2285146 AATATTTTTTTATTTTA
1 AATAATTTTTTATTTTA
2285163 AATAATTTTTT-TTTTA
1 AATAATTTTTTATTTTA
2285179 CAAAATTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
AATAATTTTTTATTTTA
Found at i:2285633 original size:44 final size:44
Alignment explanation
Indices: 2285570--2285673 Score: 145
Period size: 44 Copynumber: 2.4 Consensus size: 44
2285560 TACACTGTAG
* * * *
2285570 AGTGTATCGATGCACATTCAAGGCATGCATTAGTGCACCTTCTT
1 AGTGTATCGATGCATATTCAAGGCATGCATTAGTACAACTTCAT
* *
2285614 AGTGTATCGATGCATATTCAAGGGATGCATTGGTACAACTTCAT
1 AGTGTATCGATGCATATTCAAGGCATGCATTAGTACAACTTCAT
*
2285658 AGTGTATCAATGCATA
1 AGTGTATCGATGCATA
2285674 GTGCACAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (44 bp):
AGTGTATCGATGCATATTCAAGGCATGCATTAGTACAACTTCAT
Found at i:2290490 original size:65 final size:64
Alignment explanation
Indices: 2290380--2290535 Score: 190
Period size: 65 Copynumber: 2.4 Consensus size: 64
2290370 AACACTTGGG
* * * *
2290380 GTGCATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTGTATCGATGCATGGTCT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAGGAGTGCATCGATGCATGGT-T
* * * *
2290445 GTGCATTGGTACATAAAATGCATTCGATGTTTCTATAAA-A-TCAGGATTGCATCGATGCATGGT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTC-A-AAAGAGCCAGGAGTGCATCGATGCATGGT
2290508 T
64 T
*
2290509 GTGCATCGGTACACAAAATGAATTCGA
1 GTGCATCGGTACACAAAATGCATTCGA
2290536 ATTAGGGTGT
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 25 0.32
65 48 0.62
66 2 0.03
67 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (64 bp):
GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAGGAGTGCATCGATGCATGGTT
Found at i:2296162 original size:2 final size:2
Alignment explanation
Indices: 2296155--2296207 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
2296145 AGAAAGGTTC
2296155 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2296197 AT AT AT AT AT A
1 AT AT AT AT AT A
2296208 AACGTACGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2303912 original size:9 final size:10
Alignment explanation
Indices: 2303892--2303928 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
2303882 TTATTAAAGA
2303892 TATTATTAAT
1 TATTATTAAT
2303902 TATTATT-AT
1 TATTATTAAT
*
2303911 TATTATTCAT
1 TATTATTAAT
2303921 T-TTATTAA
1 TATTATTAA
2303929 CAATGAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 15 0.60
10 10 0.40
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (10 bp):
TATTATTAAT
Found at i:2305476 original size:30 final size:30
Alignment explanation
Indices: 2305413--2305527 Score: 126
Period size: 30 Copynumber: 3.9 Consensus size: 30
2305403 GTTCAATCCT
* ** * *
2305413 TTAAATTTCTATTTCTTCTA-TTTAGTTCT
1 TTAAGTTTCTATTTCAGCTATTTTAGTCCC
2305442 TTAAGTTTCTATTTCAGCTATTTTAGTCCC
1 TTAAGTTTCTATTTCAGCTATTTTAGTCCC
* *
2305472 TTAAGTTTCTTTTTTTA-CTATTTTAGTCCC
1 TTAAGTTTC-TATTTCAGCTATTTTAGTCCC
**
2305502 TTAAGTTTCTATTTTTGCTATTTTAG
1 TTAAGTTTCTATTTCAGCTATTTTAG
2305528 ACCTTTAGAT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
29 22 0.30
30 47 0.64
31 5 0.07
ACGTcount: A:0.19, C:0.15, G:0.08, T:0.58
Consensus pattern (30 bp):
TTAAGTTTCTATTTCAGCTATTTTAGTCCC
Found at i:2305506 original size:60 final size:60
Alignment explanation
Indices: 2305433--2305569 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 60
2305423 ATTTCTTCTA
* * * *
2305433 TTTAGTTCTTTAAGTTTCTATTTCAGCTATTTTAGTCCCTTAAG-TTTCTTTTTTTA-CTAT
1 TTTAGTCCATTAAGTTTCTATTTCAGCTATTTTAG-ACCTTAAGATTT-TTGTTTTAGCTAT
* ** *
2305493 TTTAGTCCCTTAAGTTTCTATTTTTGCTATTTTAGACCTTTAGATTTTTGTTTTAGCTAT
1 TTTAGTCCATTAAGTTTCTATTTCAGCTATTTTAGACCTTAAGATTTTTGTTTTAGCTAT
2305553 TTTA-TCCATTCAAGTTT
1 TTTAGTCCATT-AAGTTT
2305570 AGTTAAATAT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 18 0.27
60 48 0.73
ACGTcount: A:0.19, C:0.15, G:0.09, T:0.57
Consensus pattern (60 bp):
TTTAGTCCATTAAGTTTCTATTTCAGCTATTTTAGACCTTAAGATTTTTGTTTTAGCTAT
Found at i:2305552 original size:30 final size:30
Alignment explanation
Indices: 2305433--2305569 Score: 127
Period size: 30 Copynumber: 4.6 Consensus size: 30
2305423 ATTTCTTCTA
* * * *
2305433 TTTAGTTCTTTAAGTTTCTATTTCAGCTAT
1 TTTAGTCCCTTAAGTTTTTATTTTAGCTAT
*
2305463 TTTAGTCCCTTAAGTTTCTTTTTTTA-CTAT
1 TTTAGTCCCTTAAGTTT-TTATTTTAGCTAT
* *
2305493 TTTAGTCCCTTAAGTTTCTATTTTTGCTAT
1 TTTAGTCCCTTAAGTTTTTATTTTAGCTAT
* * *
2305523 TTTAG-ACCTTTAGATTTTTGTTTTAGCTAT
1 TTTAGTCCCTTAAG-TTTTTATTTTAGCTAT
*
2305553 TTTA-TCCATTCAAGTTT
1 TTTAGTCCCTT-AAGTTT
2305570 AGTTAAATAT
Statistics
Matches: 86, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
29 11 0.13
30 68 0.79
31 7 0.08
ACGTcount: A:0.19, C:0.15, G:0.09, T:0.57
Consensus pattern (30 bp):
TTTAGTCCCTTAAGTTTTTATTTTAGCTAT
Found at i:2310372 original size:19 final size:20
Alignment explanation
Indices: 2310336--2310373 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2310326 TTCGTCAAGT
*
2310336 TATTTTCAAAAGAAGAAAAA
1 TATTTTCAAAACAAGAAAAA
2310356 TATTTTC-AAACAAGAAAA
1 TATTTTCAAAACAAGAAAA
2310374 TATCTCTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.26
Consensus pattern (20 bp):
TATTTTCAAAACAAGAAAAA
Found at i:2310618 original size:16 final size:16
Alignment explanation
Indices: 2310593--2310632 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
2310583 CACCAAGAAA
* * *
2310593 ACATAAATCAATATAT
1 ACATACATCAACACAT
2310609 ACATACATCAACACAT
1 ACATACATCAACACAT
2310625 ACATACAT
1 ACATACAT
2310633 GATACATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.25
Consensus pattern (16 bp):
ACATACATCAACACAT
Found at i:2311399 original size:66 final size:68
Alignment explanation
Indices: 2311340--2311467 Score: 163
Period size: 67 Copynumber: 1.9 Consensus size: 68
2311330 AACATATATG
* * *
2311340 TTTGAGATCGTTTCCCTTGAAAA-GAATTTTATC-TCCTTTGAGACAGTTTCCCATGAAACA-AC
1 TTTGAGAACGTTTCCCTTAAAAACAAATTTTATCTTCC-TTGAGACAGTTTCCCATGAAACATAC
2311402 GATC
65 GATC
* * * *
2311406 TTTGAGAACGTTTCCCTTAAAAACAAATTTTATCTTGCTTGAGACATTTTCCCTTTAAACAT
1 TTTGAGAACGTTTCCCTTAAAAACAAATTTTATCTTCCTTGAGACAGTTTCCCATGAAACAT
2311468 CATCTCTGAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
66 21 0.40
67 29 0.56
68 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (68 bp):
TTTGAGAACGTTTCCCTTAAAAACAAATTTTATCTTCCTTGAGACAGTTTCCCATGAAACATACG
ATC
Found at i:2311885 original size:131 final size:131
Alignment explanation
Indices: 2311499--2311939 Score: 523
Period size: 131 Copynumber: 3.3 Consensus size: 131
2311489 TAAAACAAAT
* ** * *
2311499 CCCCTAGATAATCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA-TCTCTAAAGATGGCCTGT
1 CCCCTAGATAACCAGCCGTCCTCATTGCGTAGGAATCGTGTTATCATTC-CTAAAGATGGCATGT
* * *
2311563 CGTCCTCATCACATAGGAACCATGTCATCCACCGACCA-AGCCTTCTCATAACGTAGGAGCCGTG
65 CATCCTCATCACATAGGAACCGTGTCATCCACCGACCAGA-CCTCCTCATAACGTAGGAGCCGTG
*
2311627 ACA
129 TCA
* * * **
2311630 CCCCTATATAACTAGCCGTCCTCATTGCGTAGGAA-CTGTGTTATCACAAATCCCTAAAGATTTC
1 CCCCTAGATAACCAGCCGTCCTCATTGCGTAGGAATC-GTGTTAT--C--ATTCCTAAAGA-TGG
* * *
2311694 CA-GCCATCCTCATCACATAGGAACCGTTTCATCCACCGACCAGACCTCCTCATCACGTAGGAGC
60 CATGTCATCCTCATCACATAGGAACCGTGTCATCCACCGACCAGACCTCCTCATAACGTAGGAGC
*
2311758 CATGTCA
125 CGTGTCA
* * *
2311765 CCCCTAGATAACCACCCGTTCTCATTGCGTAGGAATCGTGTTATCATTCCAAAAGATGGCATGTC
1 CCCCTAGATAACCAGCCGTCCTCATTGCGTAGGAATCGTGTTATCATTCCTAAAGATGGCATGTC
* *
2311830 ATCCTCATCACATAGGAACCGTGAT-ATCCACCGACCAGATCTCCTCATAATGTAGGAGCCGTGT
66 ATCCTCATCACATAGGAACCGTG-TCATCCACCGACCAGACCTCCTCATAACGTAGGAGCCGTGT
2311894 CA
130 CA
* ** *
2311896 CCCCTAGATAACCAGTCGTCCTCATTGTATAGGAGTCGTGTTAT
1 CCCCTAGATAACCAGCCGTCCTCATTGCGTAGGAATCGTGTTAT
2311940 AACCCTTACT
Statistics
Matches: 262, Mismatches: 37, Indels: 22
0.82 0.12 0.07
Matches are distributed among these distances:
130 4 0.02
131 145 0.55
132 1 0.00
133 2 0.01
135 105 0.40
136 5 0.02
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (131 bp):
CCCCTAGATAACCAGCCGTCCTCATTGCGTAGGAATCGTGTTATCATTCCTAAAGATGGCATGTC
ATCCTCATCACATAGGAACCGTGTCATCCACCGACCAGACCTCCTCATAACGTAGGAGCCGTGTC
A
Found at i:2312031 original size:134 final size:132
Alignment explanation
Indices: 2311499--2312044 Score: 423
Period size: 131 Copynumber: 4.1 Consensus size: 132
2311489 TAAAACAAAT
* ** * * * * *
2311499 CCCCTAGATAATCAGCCGTCCTCATCACGTAGGAACCGTGTTATCATCT-CTAAAGATGGCCTGT
1 CCCCTAGATAACCAGCCGTCCTCATTGCATAGGAATCGTGTTATCAT-TACAAAAGATGGCATGA
* * * * *
2311563 CGTCCTCATCACATAGGAACCA-TG-TCATCCACCGACCA-AGCCTTCTCATAACGTAGGAGCCG
65 CATCCTCATCACATAGGAA-CAGTGATCATCCACCGACCAGA-TCTCCTCATCACGTAGGAGCCA
*
2311625 TGACA
128 TGTCA
* * * ** * **
2311630 CCCCTATATAACTAGCCGTCCTCATTGCGTAGGAA-CTGTGTTATCACAAATCCCTAAAGATTTC
1 CCCCTAGATAACCAGCCGTCCTCATTGCATAGGAATC-GTGTTAT--C--ATTACAAAAGA-TGG
* * * *
2311694 CA-GCCATCCTCATCACATAGGAACCGT-TTCATCCACCGACCAGACCTCCTCATCACGTAGGAG
60 CATGACATCCTCATCACATAGGAACAGTGATCATCCACCGACCAGATCTCCTCATCACGTAGGAG
2311757 CCATGTCA
125 CCATGTCA
* * * * *
2311765 CCCCTAGATAACCACCCGTTCTCATTGCGTAGGAATCGTGTTATCATTCCAAAAGATGGCATGTC
1 CCCCTAGATAACCAGCCGTCCTCATTGCATAGGAATCGTGTTATCATTACAAAAGATGGCATGAC
* * * *
2311830 ATCCTCATCACATAGGAACCGTGAT-ATCCACCGACCAGATCTCCTCATAATGTAGGAGCCGTGT
66 ATCCTCATCACATAGGAACAGTGATCATCCACCGACCAGATCTCCTCATCACGTAGGAGCCATGT
2311894 CA
131 CA
* * * * *
2311896 CCCCTAGATAACCAGTCGTCCTCATTGTATAGGAGTCGTGTTATAACCCTTACTAAAGATGGCCA
1 CCCCTAGATAACCAGCCGTCCTCATTGCATAGGAATCGTGTTAT---CATTACAAAAGATGG-CA
* * ** * *
2311961 -GA-ACTCTTCATCA-AGTATGATTAGTG-TCATCCACCGACCATATCTCCTCATCACGTAGAAG
62 TGACA-TCCTCATCACA-TAGGAACAGTGATCATCCACCGACCAGATCTCCTCATCACGTAGGAG
* *
2312022 CTATATCA
125 CCATGTCA
* *
2312030 CCCTTAGATGACCAG
1 CCCCTAGATAACCAG
2312045 AGATCTTCAT
Statistics
Matches: 341, Mismatches: 54, Indels: 37
0.79 0.12 0.09
Matches are distributed among these distances:
130 4 0.01
131 145 0.43
132 1 0.00
133 5 0.01
134 76 0.22
135 106 0.31
136 4 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (132 bp):
CCCCTAGATAACCAGCCGTCCTCATTGCATAGGAATCGTGTTATCATTACAAAAGATGGCATGAC
ATCCTCATCACATAGGAACAGTGATCATCCACCGACCAGATCTCCTCATCACGTAGGAGCCATGT
CA
Found at i:2313624 original size:30 final size:30
Alignment explanation
Indices: 2313561--2313707 Score: 163
Period size: 30 Copynumber: 5.0 Consensus size: 30
2313551 GCCCAATCCT
* * * *
2313561 TTAAATTTTTGTTTCTGCTA-TTTAGTTCT
1 TTAAGTTTTTGTTTCTACTATTTTAGTCCC
*
2313590 TTAAGTTTTTATTTCTACTATTTTAGTCCC
1 TTAAGTTTTTGTTTCTACTATTTTAGTCCC
* *
2313620 TTAAGTTTTTGTTTTTTCTATTTTAGTCCC
1 TTAAGTTTTTGTTTCTACTATTTTAGTCCC
* *
2313650 TTAAGTTTTTGTTT-TTCTATTTTAATCCC
1 TTAAGTTTTTGTTTCTACTATTTTAGTCCC
* * * *
2313679 TTAACTTTCTATTTTTACTATTTTAGTCC
1 TTAAGTTTTTGTTTCTACTATTTTAGTCC
2313708 TTTAGATTTC
Statistics
Matches: 102, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
29 42 0.41
30 60 0.59
ACGTcount: A:0.18, C:0.14, G:0.07, T:0.61
Consensus pattern (30 bp):
TTAAGTTTTTGTTTCTACTATTTTAGTCCC
Found at i:2313633 original size:59 final size:59
Alignment explanation
Indices: 2313555--2313733 Score: 164
Period size: 59 Copynumber: 3.0 Consensus size: 59
2313545 TTTATTGCCC
* * *
2313555 AATCCTTTAAATTTTTGTTTCTGCTA-TTTAGTTCTTTAAGTTTTTATTTCTACTATTTT
1 AATCCCTTAAATTTTTGTTTCTGCTATTTTAGTCCCTTAAGTTTTTATTT-TACTATTTT
* * * * * *
2313614 AGTCCCTTAAGTTTTTGTTTTTTCTATTTTAGTCCCTTAAGTTTTTGTTTTTCTATTTT
1 AATCCCTTAAATTTTTGTTTCTGCTATTTTAGTCCCTTAAGTTTTTATTTTACTATTTT
* * * * * * * *
2313673 AATCCCTTAACTTTCTATTTTTACTATTTTAGT-CCTTTAGATTTCTATTTTAATTATTTT
1 AATCCCTTAAATTTTTGTTTCTGCTATTTTAGTCCCTTAAG-TTTTTATTTT-ACTATTTT
2313733 A
1 A
2313734 GCTCTTTAAG
Statistics
Matches: 98, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
58 6 0.06
59 65 0.66
60 27 0.28
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.60
Consensus pattern (59 bp):
AATCCCTTAAATTTTTGTTTCTGCTATTTTAGTCCCTTAAGTTTTTATTTTACTATTTT
Found at i:2313718 original size:30 final size:30
Alignment explanation
Indices: 2313581--2313734 Score: 168
Period size: 30 Copynumber: 5.2 Consensus size: 30
2313571 GTTTCTGCTA
* * *
2313581 TTTAGTTCTTTAAGTTTTTATTTCTACTAT
1 TTTAGTCCCTTAAGTTTTTATTTTTACTAT
* *
2313611 TTTAGTCCCTTAAGTTTTTGTTTTTTCTAT
1 TTTAGTCCCTTAAGTTTTTATTTTTACTAT
*
2313641 TTTAGTCCCTTAAGTTTTTGTTTTT-CTAT
1 TTTAGTCCCTTAAGTTTTTATTTTTACTAT
* * *
2313670 TTTAATCCCTTAACTTTCTATTTTTACTAT
1 TTTAGTCCCTTAAGTTTTTATTTTTACTAT
* * * *
2313700 TTTAGT-CCTTTAGATTTCTATTTTAATTAT
1 TTTAGTCCCTTAAG-TTTTTATTTTTACTAT
2313730 TTTAG
1 TTTAG
2313735 CTCTTTAAGT
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
29 30 0.28
30 78 0.72
ACGTcount: A:0.19, C:0.13, G:0.07, T:0.61
Consensus pattern (30 bp):
TTTAGTCCCTTAAGTTTTTATTTTTACTAT
Found at i:2313743 original size:89 final size:89
Alignment explanation
Indices: 2313557--2313746 Score: 199
Period size: 89 Copynumber: 2.1 Consensus size: 89
2313547 TATTGCCCAA
* * * * * *
2313557 TCCTTTAAATTTTTGTTTCTGCTATTTAGTTCTTTAAGTTTTTATTTCTACTATTTTAGTCCCTT
1 TCCTTTAAGTTTTTGTTTCTGCTATTTAATCCCTTAACTTTCTATTTCTACTATTTTAGTCCCTT
* * *
2313622 AAGTTTTTGTTTTTTCTATTTTAG
66 AAGTTTCTATTTTATCTATTTTAG
* * *
2313646 TCCCTTAAGTTTTTGTTT-TTCTATTTTAATCCCTTAACTTTCTATTTTTACTATTTTAGT-CCT
1 TCCTTTAAGTTTTTGTTTCTGCTA-TTTAATCCCTTAACTTTCTATTTCTACTATTTTAGTCCCT
*
2313709 TTAGATTTCTATTTTAAT-TATTTTAG
65 TAAG-TTTCTATTTT-ATCTATTTTAG
2313735 -CTCTTTAAGTTT
1 TC-CTTTAAGTTT
2313747 AGTTAAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
88 11 0.13
89 71 0.86
90 1 0.01
ACGTcount: A:0.18, C:0.14, G:0.07, T:0.61
Consensus pattern (89 bp):
TCCTTTAAGTTTTTGTTTCTGCTATTTAATCCCTTAACTTTCTATTTCTACTATTTTAGTCCCTT
AAGTTTCTATTTTATCTATTTTAG
Found at i:2315200 original size:139 final size:139
Alignment explanation
Indices: 2314809--2315570 Score: 991
Period size: 139 Copynumber: 5.5 Consensus size: 139
2314799 GATTTGAGAA
* * * ** * *
2314809 AAGGTTGAACAAGTTCTTCTTAGTATGAACGTCTTCTCCCTGTTCGGACGAGTTATTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
* * * *
2314874 GAACCCTTCCATTTAGAAAATATTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTG
66 GAACTC-TCCA-CT-GGAAATATTGATCCCTAGAGTGAGGTGTTGCTGATTCAACTCCATATGTG
*
2314939 ATAAATCGAGCT
128 ATGAATCGAGCT
* *
2314951 AAGGTTGAACATGTTCTTCTCATTATGAACTTCTTC-CCCTCATCGAATGAG---TTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
* * * * * * * *
2315012 GAATTATCTACTCGAAATATTAATCCCTTGAGTGAGGTGTTGCTGATTCAA-TATCATATATGAT
66 GAACTCTCCACTGGAAATATTGATCCCTAGAGTGAGGTGTTGCTGATTCAACT-CCATATGTGAT
2315076 GAATCGAGCT
130 GAATCGAGCT
* * * *
2315086 AAGGTTGAACAAGTTCTACTCACTATAAACTTTTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
* * *
2315151 GAACTCTCCACTGGAAATGTTGATTCCTAGAGTGAGGTGTTGCTAATTCAACTCCATATGTGATG
66 GAACTCTCCACTGGAAATATTGATCCCTAGAGTGAGGTGTTGCTGATTCAACTCCATATGTGATG
*
2315216 AATTGAGCT
131 AATCGAGCT
*
2315225 AAGGTTGAACAATTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
* * * *
2315290 GAACTCTCTATTGGAAATATTGATCCCTCA-AGTGAGGTGTTGTTGATTCAACTCCGTATGTGAT
66 GAACTCTCCACTGGAAATATTGATCCCT-AGAGTGAGGTGTTGCTGATTCAACTCCATATGTGAT
*
2315354 GAATTGAGCT
130 GAATCGAGCT
* * *
2315364 AAGGTT-AAAAAGTTCTTCTCATTATG-ATTTCCGTCTCCCTCATCGGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTT-CTTCTCCCTCATCGGATGAGTTCTTCTCATTA
* * * * * *
2315427 TGAACTCTCCACTAGAATTGTTGATTCCTCGAGTGAGGTGTTGCTGATTCAACTCTATATGTGAT
65 TGAACTCTCCACTGGAAATATTGATCCCTAGAGTGAGGTGTTGCTGATTCAACTCCATATGTGAT
2315492 GAATCGAGCT
130 GAATCGAGCT
* *
2315502 AAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTTTTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
2315567 GAAC
66 GAAC
2315571 AATGTTGAGC
Statistics
Matches: 539, Mismatches: 70, Indels: 25
0.85 0.11 0.04
Matches are distributed among these distances:
134 1 0.00
135 84 0.16
136 15 0.03
137 6 0.01
138 131 0.24
139 254 0.47
140 5 0.01
141 11 0.02
142 32 0.06
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (139 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
GAACTCTCCACTGGAAATATTGATCCCTAGAGTGAGGTGTTGCTGATTCAACTCCATATGTGATG
AATCGAGCT
Found at i:2315468 original size:277 final size:277
Alignment explanation
Indices: 2314843--2315570 Score: 1004
Period size: 277 Copynumber: 2.6 Consensus size: 277
2314833 ATGAACGTCT
** * * * * * *
2314843 TCTCCCTGTTCGGACGAGTTATTCTCATTATGAACCCTTCCATTTAGAAAATATTGATCCCTCGA
1 TCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTC-TCCA-CTAG-AAATGTTGATTCCTCGA
*
2314908 GTGAGGTGTTGCTGATTCAACTCCATATGTGATAAATCGAGCTAAGGTTGAAC-ATGTTCTTCTC
63 GTGAGGTGTTGCTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAT-TTCTTCTC
* *
2314972 ATTATGAACTTCTTC-CCCTCATCGAATGAG--TTCTCATTATGAATTATCTACTCGAAATATTA
127 ATTATGAACTTCTTCTCCCTCATCGGATGAGTTTTCTCATTATGAACTATCTACTCGAAATATTA
** * *
2315034 ATCCCTTGAGTGAGGTGTTGCTGATTCAATATCATATATGATGAATCGAGCTAAGGTTGAACAAG
192 ATCCCTCAAGTGAGGTGTTGCTGATTCAATACCATATATGATGAATCGAGCTAAGGTTGAAAAAG
*
2315099 TTCTACTCACTATAAACTTTT
257 TTCTACTCACTATAAACTTTG
* *
2315120 TCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATTCCTAGAGTG
1 TCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATTCCTCGAGTG
* *
2315185 AGGTGTTGCTAATTCAACTCCATATGTGATGAATTGAGCTAAGGTTGAACAATTTCTTCTCATTA
66 AGGTGTTGCTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAATTTCTTCTCATTA
* * * *
2315250 TGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCTATTGGAAATATTGATC
131 TGAACTTCTTCTCCCTCATCGGATGAGTT-TTCTCATTATGAACTATCTACTCGAAATATTAATC
* * * *
2315315 CCTCAAGTGAGGTGTTGTTGATTCAACT-CCGTATGTGATGAATTGAGCTAAGGTT-AAAAAGTT
195 CCTCAAGTGAGGTGTTGCTGATTCAA-TACCATATATGATGAATCGAGCTAAGGTTGAAAAAGTT
* * *
2315378 CTTCTCATTAT-GA-TTTCCG
259 CTACTCACTATAAACTTT--G
*
2315397 TCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTAGAATTGTTGATTCCTCGAGTG
1 TCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATTCCTCGAGTG
* *
2315462 AGGTGTTGCTGATTCAACTCTATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTA
66 AGGTGTTGCTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAATTTCTTCTCATTA
*
2315527 TGAACTTATTCTCCCTCATCGGATGAGTTTTTCTCATTATGAAC
131 TGAACTTCTTCTCCCTCATCGGATGAG-TTTTCTCATTATGAAC
2315571 AATGTTGAGC
Statistics
Matches: 403, Mismatches: 39, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
274 87 0.22
275 21 0.05
276 5 0.01
277 211 0.52
278 78 0.19
279 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (277 bp):
TCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACTAGAAATGTTGATTCCTCGAGTG
AGGTGTTGCTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAATTTCTTCTCATTA
TGAACTTCTTCTCCCTCATCGGATGAGTTTTCTCATTATGAACTATCTACTCGAAATATTAATCC
CTCAAGTGAGGTGTTGCTGATTCAATACCATATATGATGAATCGAGCTAAGGTTGAAAAAGTTCT
ACTCACTATAAACTTTG
Found at i:2315635 original size:80 final size:80
Alignment explanation
Indices: 2315497--2315650 Score: 220
Period size: 80 Copynumber: 1.9 Consensus size: 80
2315487 GTGATGAATC
* * *
2315497 GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTT-TTTCT
1 GAGCCAAGGTTCAACAAGATCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTTC-
2315561 CATTATGAACAATGTT
65 CATTATGAACAATGTT
* * ** *
2315577 GAGCCAAGGTTCAACAAGATCTTCTCATTATGAACTTCTTCTCCTTTGTTGGATGAGTTCTTTCC
1 GAGCCAAGGTTCAACAAGATCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTTCC
2315642 ATTATGAAC
66 ATTATGAAC
2315651 TCTCCACTGG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
80 61 0.94
81 4 0.06
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (80 bp):
GAGCCAAGGTTCAACAAGATCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTTCC
ATTATGAACAATGTT
Found at i:2316331 original size:196 final size:194
Alignment explanation
Indices: 2315975--2316544 Score: 788
Period size: 196 Copynumber: 2.9 Consensus size: 194
2315965 AAACAATTCT
* * *
2315975 AAAATCTATGTTCCAAGGGGAACTATCTCAAGCAAAATTGATTTTAAGAAAAAACCATCTCGACT
1 AAAATCTATGTTCCAAGGGGAACTATTTCAAGCAAAATTGATTTTAAGAAAAAACCATCTCAAGT
* * * *
2316040 GATAGATTTTTTGTGTT-AAGTAAA-AATTTTCAAAATTTGTGTTCCAAGGGAAACTATTTCAAA
66 GATA-AATTTTTGT-TTCGAGTAAATATTTTTCAAAA--TGTGTTCCAAGGGGAACTATTTCAAA
* * *
2316103 AGAAATGAAATTGGTTTTAAGAAAAGCCATCTCAAGTGATAAATTTTTGTTTCGAGTGAAAAATA
127 AGAAATGAAATTGATTTTAAGAAAAACCATCTCAAGTGATAAATTTTTGTTTCAAGTGAAAAA-A
2316168 TTTC
191 TTTC
** *
2316172 AAGCTCTATGTTCCATGGGGAACTATTTCAAGCAAAATTGATTTTAAGAAAAAACCATCTCAAGT
1 AAAATCTATGTTCCAAGGGGAACTATTTCAAGCAAAATTGATTTTAAGAAAAAACCATCTCAAGT
* *
2316237 GATAAATTTTTGTTTCGAGTGAAATGTTTTTCAAAATGTGTTCCAAGGGGAACTATTTCAAAAGC
66 GATAAATTTTTGTTTCGAGT-AAATATTTTTCAAAATGTGTTCCAAGGGGAACTATTTCAAAAGA
* *
2316302 AATGAAATAGATTTTAATAAAAACCATCTCAAGTGATAAATTTTTGTTTCAAGTGAAAAAATTTC
130 AATGAAATTGATTTTAAGAAAAACCATCTCAAGTGATAAATTTTTGTTTCAAGTGAAAAAATTTC
*
2316367 AAAATCTGTGTTCCAAGGGGAACTATTTCAAGCAAAATTGATTTTAAG-AAAAACCATCTCAAGT
1 AAAATCTATGTTCCAAGGGGAACTATTTCAAGCAAAATTGATTTTAAGAAAAAACCATCTCAAGT
* *
2316431 GATAAATTTTTGTTTCGAGTAAATTTTTTTTTTAAAATTATGTGTTCCAAGGGGAACTATTTCAA
66 GATAAATTTTTGTTTCGAGTAAA---TATTTTTCAAA--ATGTGTTCCAAGGGGAACTATTTCAA
* * * *
2316496 AA-AAATGAATTTGCTTATAAGAAAAACCATCTCAAGTGAGAAAGTTTTT
126 AAGAAATGAAATTGATTTTAAGAAAAACCATCTCAAGTGATAAA-TTTTT
2316545 TATCTTTTTC
Statistics
Matches: 334, Mismatches: 30, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
193 3 0.01
194 36 0.11
195 51 0.15
196 102 0.31
197 100 0.30
198 42 0.13
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (194 bp):
AAAATCTATGTTCCAAGGGGAACTATTTCAAGCAAAATTGATTTTAAGAAAAAACCATCTCAAGT
GATAAATTTTTGTTTCGAGTAAATATTTTTCAAAATGTGTTCCAAGGGGAACTATTTCAAAAGAA
ATGAAATTGATTTTAAGAAAAACCATCTCAAGTGATAAATTTTTGTTTCAAGTGAAAAAATTTC
Found at i:2321452 original size:2 final size:2
Alignment explanation
Indices: 2321445--2321508 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
2321435 AAGAACCAAG
2321445 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2321487 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
2321509 TAGAAAACCA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2326329 original size:28 final size:28
Alignment explanation
Indices: 2326289--2326344 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
2326279 CATTGAAGCA
2326289 TAACATAGTTTCTTAATATGATTATGTC
1 TAACATAGTTTCTTAATATGATTATGTC
2326317 TAACATAGTTTCTTAATATGATTATGTC
1 TAACATAGTTTCTTAATATGATTATGTC
2326345 GACACCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (28 bp):
TAACATAGTTTCTTAATATGATTATGTC
Found at i:2327504 original size:2 final size:2
Alignment explanation
Indices: 2327497--2327553 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
2327487 ATCCTACGGG
2327497 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2327539 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
2327554 TTTACTAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2335921 original size:21 final size:21
Alignment explanation
Indices: 2335896--2335946 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
2335886 ACCAAGGACG
*
2335896 AGAAGATCATTCATAAAGACA
1 AGAAGACCATTCATAAAGACA
2335917 AGAAGACCATTCATAAAGACA
1 AGAAGACCATTCATAAAGACA
*
2335938 TGAAGACCA
1 AGAAGACCA
2335947 CTTCGCATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.51, C:0.18, G:0.16, T:0.16
Consensus pattern (21 bp):
AGAAGACCATTCATAAAGACA
Found at i:2342637 original size:36 final size:35
Alignment explanation
Indices: 2342590--2342700 Score: 150
Period size: 36 Copynumber: 3.1 Consensus size: 35
2342580 GGGCAAGTCA
2342590 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACCA-AGAGTAGTGAAGCAAACC
** * *
2342626 ATCTTAAGCCTTCATGAAGAGGAGTGAAGCAATCC
1 ATCTTAAGCCTTCACCAAGAGTAGTGAAGCAAACC
*
2342661 ATTTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCACC-AAGAGTAGTGAAGCAAA-CC
2342698 ATC
1 ATC
2342701 CATAAGACCT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
35 29 0.46
36 30 0.48
37 4 0.06
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (35 bp):
ATCTTAAGCCTTCACCAAGAGTAGTGAAGCAAACC
Found at i:2342668 original size:35 final size:35
Alignment explanation
Indices: 2342590--2342700 Score: 141
Period size: 35 Copynumber: 3.1 Consensus size: 35
2342580 GGGCAAGTCA
* *
2342590 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCA-CAAAGAGTAGTGAAGCAATCC
** *
2342626 ATCTTAAGCCTTCATGAAGAGGAGTGAAGCAATCC
1 ATCTTAAGCCTTCACAAAGAGTAGTGAAGCAATCC
*
2342661 ATTTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCA-CAAAGAGTAGTGAAGC-AATCC
2342698 ATC
1 ATC
2342701 CATAAGACCT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
35 29 0.46
36 27 0.43
37 7 0.11
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (35 bp):
ATCTTAAGCCTTCACAAAGAGTAGTGAAGCAATCC
Found at i:2348496 original size:29 final size:30
Alignment explanation
Indices: 2348453--2348517 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
2348443 TAAAACAATT
* *
2348453 AATAAACATAATAAAAACAACA-AATA-AAA
1 AATAAAAATAATAAAAA-AACATAAAATAAA
*
2348482 AATAAAAATAGTAAAAAAACATAAAATAAA
1 AATAAAAATAATAAAAAAACATAAAATAAA
2348512 AATAAA
1 AATAAA
2348518 CTATGAGGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 4 0.13
29 18 0.58
30 9 0.29
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.15
Consensus pattern (30 bp):
AATAAAAATAATAAAAAAACATAAAATAAA
Found at i:2350200 original size:39 final size:39
Alignment explanation
Indices: 2350146--2350850 Score: 948
Period size: 39 Copynumber: 18.1 Consensus size: 39
2350136 AAATGCCATG
* *
2350146 AATCTTCTGTTTTGAGTGAAACTATCTCAAGCGAGATAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
* ** * *
2350185 AATCTTCTGTTTTGAGCAAAACCATCTCAAACGAGATAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
* * *
2350224 AATCTTCTGTTTTGAGTGAAACTATCTCAAGCAAGAT--
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
** * *
2350261 GTTTTTCTGTTTCAAGGGAAACTATCTCAAGCGAGATAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
* * *
2350300 AATCTTCTATTTCGAGGGAAACTATCTCAAGCAAGACAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
* *
2350339 AATCCTCTTTTTCGAGGGAAACTATCTCAAGCGAGATAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
* * *
2350378 AATCTTCTGTTTCAAGGGAAACTATCTCAAGTGAGACAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
* *
2350417 AATCCTCTATTTCGAGGGAAACTATCTCAAGCGAGATAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
* *
2350456 AATCTTCTGTTTCTAGGGAAACTATCTCAAGCGAGACAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
* * *
2350495 AATCTTTTGTTTCAAGGGAAACTATCTCAAGCGAGACAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
* * *
2350534 AATCTTTTGTTTCAAGGGAAACTATCTCAAGCGAGACAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
*
2350573 AATCTTCTATTTCGAGGGAAACTATCTCAAGCGAGATAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
* * *
2350612 AATCTTCTGTTTTGAGGGAAAATATCTCAAACGAGATAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
* *
2350651 AATCTTATGTTTCAAGGGAAACTATCTCAAGCGAGATAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
* * *
2350690 AATCTTCTGTTTTGAGGGAAAATATCTCAAGCG-GAACAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG-ATAA
* * *
2350729 AATCTTCTATTTTGAGGGAAACTATCTCAAACGAGATAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
* * *
2350768 AATCTTTTGTTTCGAGGGAAATTATCTCAAGCGAGACAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
*
2350807 AATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAGATAA
1 AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
2350846 AATCT
1 AATCT
2350851 GGTTTTAAGA
Statistics
Matches: 587, Mismatches: 75, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
37 30 0.05
38 1 0.00
39 555 0.95
40 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (39 bp):
AATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAA
Found at i:2350940 original size:76 final size:77
Alignment explanation
Indices: 2350825--2351055 Score: 276
Period size: 76 Copynumber: 3.0 Consensus size: 77
2350815 GTTTCAAGGG
* *
2350825 AAACTATCTCAAGCGAGATAAAATCTGGTTTTAAG-AAAACAATCTTGAGTGAAATGAATAT-TC
1 AAACTATCTCAAGCAAGATAAAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAAT-AATATATC
*
2350888 TTGTTTCGAGTAA
65 TTATTTCGAGTAA
* * *
2350901 AAACTATCTCAAGAAAGATGAAA-CTTGTTTTAAGAAAAACAATC-TGTAGTGAAATAAAATATC
1 AAACTATCTCAAGCAAGATAAAATCTTGTTTTAAGAAAAACAATCTTG-AGTGAAATAATATATC
*
2350964 TTATTTTGAGTAA
65 TTATTTCGAGTAA
* * * * *
2350977 AAGCTGTCTCAAGCAAGA-CAAATCTTGTTTTAAGAAAAATAATCTTGAGTGAAATAA-ATTGTC
1 AAACTATCTCAAGCAAGATAAAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAATAATA-TATC
*
2351040 TTTTTTCGAGTAA
65 TTATTTCGAGTAA
2351053 AAA
1 AAA
2351056 ACTACCTCGA
Statistics
Matches: 133, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
75 20 0.15
76 111 0.83
77 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (77 bp):
AAACTATCTCAAGCAAGATAAAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAATAATATATCT
TATTTCGAGTAA
Found at i:2352390 original size:14 final size:13
Alignment explanation
Indices: 2352360--2352455 Score: 101
Period size: 14 Copynumber: 7.3 Consensus size: 13
2352350 TGCTTCTTGA
2352360 CTTTTTTTCTTTG
1 CTTTTTTTCTTTG
2352373 -TTTTTTTCTTATG
1 CTTTTTTTCTT-TG
*
2352386 C-TTTTTTATTTG
1 CTTTTTTTCTTTG
2352398 CTTTTTTTTCTTTG
1 C-TTTTTTTCTTTG
2352412 CTTTTTCCTT-TTTG
1 CTTTTT--TTCTTTG
2352426 CTTTTTTCTCTTTG
1 CTTTTTT-TCTTTG
*
2352440 -TTTTTCTCTTTG
1 CTTTTTTTCTTTG
2352452 CTTT
1 CTTT
2352456 GATTTGATCT
Statistics
Matches: 71, Mismatches: 3, Indels: 18
0.77 0.03 0.20
Matches are distributed among these distances:
12 20 0.28
13 24 0.34
14 25 0.35
15 2 0.03
ACGTcount: A:0.02, C:0.16, G:0.07, T:0.75
Consensus pattern (13 bp):
CTTTTTTTCTTTG
Found at i:2352402 original size:26 final size:26
Alignment explanation
Indices: 2352360--2352455 Score: 108
Period size: 26 Copynumber: 3.7 Consensus size: 26
2352350 TGCTTCTTGA
*
2352360 CTTTTTTTCTTTG-TTTTTTTCTTATG
1 CTTTTTCTCTTTGCTTTTTTTCTT-TG
*
2352386 CTTTTT-TATTTGCTTTTTTTTCTTTG
1 CTTTTTCTCTTTGC-TTTTTTTCTTTG
*
2352412 CTTTTTCCTTTTTGCTTTTTTCTCTTTG
1 CTTTTT-CTCTTTGCTTTTTT-TCTTTG
2352440 -TTTTTCTCTTTGCTTT
1 CTTTTTCTCTTTGCTTT
2352456 GATTTGATCT
Statistics
Matches: 62, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
25 5 0.08
26 24 0.39
27 21 0.34
28 12 0.19
ACGTcount: A:0.02, C:0.16, G:0.07, T:0.75
Consensus pattern (26 bp):
CTTTTTCTCTTTGCTTTTTTTCTTTG
Found at i:2353802 original size:20 final size:20
Alignment explanation
Indices: 2353751--2353808 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
2353741 ACATATTCAA
2353751 AGATGCAAATGC-AAATGTG
1 AGATGCAAATGCAAAATGTG
* ****
2353770 AAATGGGTGTGCAAAATGTG
1 AGATGCAAATGCAAAATGTG
2353790 AGATGCAAATGCAACAATG
1 AGATGCAAATGCAA-AATG
2353809 AATTGATCCA
Statistics
Matches: 27, Mismatches: 10, Indels: 2
0.69 0.26 0.05
Matches are distributed among these distances:
19 7 0.26
20 16 0.59
21 4 0.15
ACGTcount: A:0.41, C:0.10, G:0.28, T:0.21
Consensus pattern (20 bp):
AGATGCAAATGCAAAATGTG
Found at i:2354209 original size:137 final size:137
Alignment explanation
Indices: 2353976--2354229 Score: 339
Period size: 137 Copynumber: 1.9 Consensus size: 137
2353966 TCCAGAAGTC
* * * * *
2353976 TTTCGAGCTGGTTTGTGATCTTTAAATATTGGCTTCGATGTTGAATCATCTCGAGTCCAACTTGT
1 TTTCGAGCTAGTTCGTGATCTTCAAATATTGGCTTCGACGTCGAATCATCTCGAGTCCAACTTGT
* *
2354041 TACCTCAGCAGGCAAATGTCTGGATCGTCTCCTTGGTATATAGACTCCCTCTAGCTCCTACTTCC
66 TACCTCAGCAGACAAATGTCTGGATCGTCTCCTTGGTAGATAGACTCCCTCTAGCTCCTACTTCC
2354106 AAAAATA
131 AAAAATA
* * * *
2354113 TTTCGAGCTAGTTCGTGATCTTCAACTTTTGGCTTC-AGCGTCGAATTATCTTGAGTCCAACTTG
1 TTTCGAGCTAGTTCGTGATCTTCAAATATTGGCTTCGA-CGTCGAATCATCTCGAGTCCAACTTG
* * * * * *
2354177 TTACCTTAGTAGACAGATGTCTGGCTCGTCTCCTTGGTAGGTAGGCTCCCTCT
65 TTACCTCAGCAGACAAATGTCTGGATCGTCTCCTTGGTAGATAGACTCCCTCT
2354230 TGGCACCATT
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
136 1 0.01
137 98 0.99
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (137 bp):
TTTCGAGCTAGTTCGTGATCTTCAAATATTGGCTTCGACGTCGAATCATCTCGAGTCCAACTTGT
TACCTCAGCAGACAAATGTCTGGATCGTCTCCTTGGTAGATAGACTCCCTCTAGCTCCTACTTCC
AAAAATA
Found at i:2354891 original size:28 final size:28
Alignment explanation
Indices: 2354850--2354905 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
2354840 GTAGTTCATT
*
2354850 AAGTGAAAATATATAAATCTTTTAAAAC
1 AAGTGAAAAGATATAAATCTTTTAAAAC
2354878 AAGTGAAAAGATATAAATCTTTTAAAAC
1 AAGTGAAAAGATATAAATCTTTTAAAAC
2354906 CATAGTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (28 bp):
AAGTGAAAAGATATAAATCTTTTAAAAC
Found at i:2355115 original size:80 final size:80
Alignment explanation
Indices: 2354975--2355281 Score: 445
Period size: 80 Copynumber: 3.8 Consensus size: 80
2354965 CTTGCCCTCA
* ** *
2354975 GCACACAGCAAAAAGGAGAGCCAACCTAAGGATATACCTT-GGATCTACCCAAGGACATCCTTAG
1 GCACACAGC--AAAGG-GAACCAACCTAAGGATATACCTTGGGGCCTACCCAA-GATATCCTTAG
* * *
2355039 ATCTGTAGGGTTACCTTAA
62 GTCCGTAGGGTTACCTTAT
* * *
2355058 GCACACAGCTAAGGGAGCCAACCTAAGGATATACCTTGGGGCTTACCCAAGATATCCTTAGGTCC
1 GCACACAGCAAAGGGAACCAACCTAAGGATATACCTTGGGGCCTACCCAAGATATCCTTAGGTCC
2355123 GTAGGGTTACCTTAT
66 GTAGGGTTACCTTAT
* *
2355138 GCACACAGCAAAGGGAACCAACCTAAGAATATACCTTGGGACCTACCCAAGATATCCTTAGGTCC
1 GCACACAGCAAAGGGAACCAACCTAAGGATATACCTTGGGGCCTACCCAAGATATCCTTAGGTCC
2355203 GTAGGGTTACCTTAT
66 GTAGGGTTACCTTAT
* *
2355218 GCACACAACAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTACCCAAGATATCCTTAGGTC
1 GCACACAGCAAAGGGAACCAACCTAAGGATATACCTTGGGGCCTACCCAAGATATCCTTAGGTC
2355282 TGTAATGACT
Statistics
Matches: 206, Mismatches: 17, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
80 184 0.89
81 13 0.06
83 9 0.04
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (80 bp):
GCACACAGCAAAGGGAACCAACCTAAGGATATACCTTGGGGCCTACCCAAGATATCCTTAGGTCC
GTAGGGTTACCTTAT
Found at i:2359622 original size:32 final size:32
Alignment explanation
Indices: 2359586--2359650 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
2359576 GGTGTAGAGT
*
2359586 TTGAAAAGGGTATTCATTTATTGAGACCGATA
1 TTGAAAAGGGTATTCATTTATTGAGACCAATA
*
2359618 TTGAAAATGGTATTCATTTATTGAGACCAATA
1 TTGAAAAGGGTATTCATTTATTGAGACCAATA
2359650 T
1 T
2359651 CATTCTCCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.37
Consensus pattern (32 bp):
TTGAAAAGGGTATTCATTTATTGAGACCAATA
Found at i:2360564 original size:5 final size:5
Alignment explanation
Indices: 2360548--2360578 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
2360538 AAAATAGTAA
*
2360548 AAAAT AACAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
2360579 TGAGGACCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:2361869 original size:24 final size:24
Alignment explanation
Indices: 2361829--2361896 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
2361819 TTAGACCCGG
* *
2361829 GTCGGGTCTATAATTGGTACACGT
1 GTCGGGTCTATAGTTGGGACACGT
*
2361853 GTCGGGTCAATAGTTGGGACACGT
1 GTCGGGTCTATAGTTGGGACACGT
*
2361877 GTTGGGTCTATAGTTGGGAC
1 GTCGGGTCTATAGTTGGGAC
2361897 CCGGGTCGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.19, C:0.15, G:0.35, T:0.31
Consensus pattern (24 bp):
GTCGGGTCTATAGTTGGGACACGT
Found at i:2363674 original size:21 final size:22
Alignment explanation
Indices: 2363650--2363693 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
2363640 AAACATTTTC
2363650 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
2363671 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
2363693 T
1 T
2363694 ATTCAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:2363908 original size:2 final size:2
Alignment explanation
Indices: 2363903--2363939 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2363893 ATTATTTAAA
2363903 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2363940 TTATTTATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2363975 original size:17 final size:17
Alignment explanation
Indices: 2363953--2363986 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2363943 TTTATGTGAC
2363953 TAATATGAAAA-TAATAA
1 TAATAT-AAAAGTAATAA
2363970 TAATATAAAAGTAATAA
1 TAATATAAAAGTAATAA
2363987 CAAATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TAATATAAAAGTAATAA
Found at i:2364011 original size:16 final size:16
Alignment explanation
Indices: 2363992--2364024 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2363982 AATAACAAAT
2363992 TAATA-TTATAAATAAA
1 TAATATTTA-AAATAAA
2364008 TAATATTTAAAATAAA
1 TAATATTTAAAATAAA
2364024 T
1 T
2364025 TTAAAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATATTTAAAATAAA
Found at i:2365253 original size:3 final size:3
Alignment explanation
Indices: 2365245--2365307 Score: 60
Period size: 3 Copynumber: 21.3 Consensus size: 3
2365235 TATAATTATT
*
2365245 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TATT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA
**
2365289 TAA TAA TTT TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
2365308 TTAAGTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
2 6 0.12
3 38 0.78
4 5 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:2365981 original size:229 final size:228
Alignment explanation
Indices: 2365461--2366023 Score: 1054
Period size: 229 Copynumber: 2.5 Consensus size: 228
2365451 GAGGTCTTAA
2365461 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
2365526 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
*
2365591 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCAGTGCAGGACTTACAGATGACCCTAAGGCTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
2365656 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
196 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
*
2365689 AAACATCGTGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
2365754 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
* *
2365819 AAAGCTCCCTAAGGCTTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTT
131 AAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTT
*
2365884 TGAAAACATCAAAAAGCTCCCTAAGGCTTTTTGG
195 TGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
*
2365918 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
2365983 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
66 AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
2366024 TGGGAAATAG
Statistics
Matches: 326, Mismatches: 8, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
228 142 0.44
229 184 0.56
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (228 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
Found at i:2366050 original size:76 final size:76
Alignment explanation
Indices: 2365461--2366023 Score: 1045
Period size: 76 Copynumber: 7.4 Consensus size: 76
2365451 GAGGTCTTAA
*
2365461 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
2365526 AGGCTTTTTGG
66 AGGCTTTTTGG
*
2365537 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
2365602 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
2365613 AAACATCATGCAGTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
2365678 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
2365689 AAACATCGTGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
2365754 AGGCTTTTTGG
66 AGGCTTTTTGG
*
2365765 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCTA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
2365830 AGGCTTTTTTGG
66 AGGC-TTTTTGG
*
2365842 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCTA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
2365907 AGGCTTTTTGG
66 AGGCTTTTTGG
2365918 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
2365983 AGGCTTTTTGG
66 AGGCTTTTTGG
2365994 AAACATCATGCACTGTAGGACTTACAGATG
1 AAACATCATGCACTGTAGGACTTACAGATG
2366024 TGGGAAATAG
Statistics
Matches: 479, Mismatches: 7, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
76 403 0.84
77 76 0.16
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Done.