Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 754 of 770
Found at i:239117625 original size:59 final size:57
Alignment explanation
Indices: 239117497--239117655 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
239117487 CGGTGACAAG
* * * * *
239117497 GCACTAAGTGTGCGGGTTTAAAAT-TGTACGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA-GCACTAAGTGTGCGAGTCTGATTATATA
239117554 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
239117613 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
239117656 GATTCACTAT
Statistics
Matches: 93, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
56 2 0.02
57 37 0.40
58 3 0.03
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:239117667 original size:29 final size:29
Alignment explanation
Indices: 239117497--239117655 Score: 216
Period size: 29 Copynumber: 5.5 Consensus size: 29
239117487 CGGTGACAAG
* * * *
239117497 GCACTAAGTGTGCGGGTTTAAAAT-TGTA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
* *
239117525 CGCACTAAGTGTGCGAGTTTG--ATTATATA
1 -GCACTAAGTGTGCGAG-CTGAAAATATATA
239117554 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
239117583 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
239117613 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
239117642 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
239117656 GATTCACTAT
Statistics
Matches: 119, Mismatches: 6, Indels: 10
0.88 0.04 0.07
Matches are distributed among these distances:
27 2 0.02
28 18 0.15
29 68 0.57
30 31 0.26
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:239120548 original size:40 final size:40
Alignment explanation
Indices: 239120504--239120613 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
239120494 TTCACAATTT
* *
239120504 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
239120544 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
239120584 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
239120614 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:239122554 original size:30 final size:30
Alignment explanation
Indices: 239122520--239122579 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
239122510 GAGTATCTGC
*
239122520 CAAGATGTATCTCAATAGTTAGTTCTTGTA
1 CAAGATGTATCTCAATAATTAGTTCTTGTA
239122550 CAAGATGTATCTCAATAATTAGTTCTTGTA
1 CAAGATGTATCTCAATAATTAGTTCTTGTA
239122580 GTATTTTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (30 bp):
CAAGATGTATCTCAATAATTAGTTCTTGTA
Found at i:239129857 original size:29 final size:29
Alignment explanation
Indices: 239129824--239129897 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
239129814 CCTTCGAGCT
239129824 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
239129853 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
239129882 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
239129898 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:239129858 original size:58 final size:58
Alignment explanation
Indices: 239129765--239129897 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
239129755 ATACTCGATT
* * * * *
239129765 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
239129823 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
239129881 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
239129898 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:239137677 original size:29 final size:29
Alignment explanation
Indices: 239137644--239137717 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
239137634 CCTTCGAGCT
239137644 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
239137673 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
239137702 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
239137718 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:239137678 original size:58 final size:58
Alignment explanation
Indices: 239137585--239137717 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
239137575 ATACTCGATT
* * * * *
239137585 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
239137643 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
239137701 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
239137718 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:239141906 original size:39 final size:39
Alignment explanation
Indices: 239141810--239141986 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 39
239141800 TCAAATGATG
* * *
239141810 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCTTTATGC-GAGTTACTATA
* *
239141850 TCCGGACTAGGAT-CCGAAGGCATTTATGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGC-TTTATGCGAGTTACTATA
* *
239141889 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGC-TTTATGCGAGTTACTATA
* *
239141929 TCCGGGTTAAGTCCCGAAGGCTTT-TGCGAGTTGCTATA
1 TCCGGGCTAAGTCCCGAAGGCTTTATGCGAGTTACTATA
* *
239141967 ACC-GGCTATGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
239141987 GTTTGAACGA
Statistics
Matches: 120, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
37 15 0.12
38 15 0.12
39 37 0.31
40 46 0.38
41 7 0.06
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCTTTATGCGAGTTACTATA
Found at i:239141946 original size:79 final size:78
Alignment explanation
Indices: 239141810--239141986 Score: 191
Period size: 79 Copynumber: 2.3 Consensus size: 78
239141800 TCAAATGATG
* * *
239141810 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTATGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGC-TTT
239141875 ATGCGAGTTACTA-A
65 -TGCGAGTTACTATA
* * * **
239141889 TCCGGGTTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCTT
1 TCCGGGCTAAGTCCCGAAGGC-TTTATGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCTT
*
239141952 TTGCGAGTTGCTATA
64 TTGCGAGTTACTATA
* *
239141967 ACC-GGCTATGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
239141987 GTTTGAACGA
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
77 26 0.31
78 7 0.08
79 44 0.53
80 6 0.07
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCTTTATGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCTTTT
GCGAGTTACTATA
Found at i:239141998 original size:77 final size:78
Alignment explanation
Indices: 239141863--239142024 Score: 172
Period size: 77 Copynumber: 2.1 Consensus size: 78
239141853 GGACTAGGAT
* * *
239141863 CCGAAGGCATTTATGCGAGTTACTAATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTA-CTA
1 CCGAAGGCATTTATGCGAGTTACTAAACCGGGCTAAGTCCCGAAGGCATTTATACGAG-TAGCTA
*
239141927 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATC
* * *
239141942 CCGAAGGC-TTT-TGCGAGTTGCTATAACC-GGCTATGTCCCGAAGGCGTTTGA-ACGAGTAGCT
1 CCGAAGGCATTTATGCGAGTTACTA-AACCGGGCTAAGTCCCGAAGGCATTT-ATACGAGTAGCT
* *
239142003 ATATCCGGTTAAATT
64 AAATCCGGTTAAATC
239142018 CCGAAGG
1 CCGAAGG
239142025 TACGTGATTC
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
76 16 0.23
77 40 0.56
78 7 0.10
79 8 0.11
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (78 bp):
CCGAAGGCATTTATGCGAGTTACTAAACCGGGCTAAGTCCCGAAGGCATTTATACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:239150229 original size:40 final size:40
Alignment explanation
Indices: 239150184--239150351 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
239150174 CGGAATATAA
239150184 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
239150224 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
239150264 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
239150304 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
239150344 CCGGATAT
1 CCGGATAT
239150352 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:239152976 original size:24 final size:25
Alignment explanation
Indices: 239152948--239152997 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
239152938 AATGTTTGGT
239152948 TTGAGC-TTGCTAATGAAAATGAAA
1 TTGAGCTTTGCTAATGAAAATGAAA
239152972 TTGAGCTTTGCTAATGAAAATGAAA
1 TTGAGCTTTGCTAATGAAAATGAAA
239152997 T
1 T
239152998 ACGGATGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (25 bp):
TTGAGCTTTGCTAATGAAAATGAAA
Found at i:239153232 original size:40 final size:40
Alignment explanation
Indices: 239153048--239153228 Score: 170
Period size: 40 Copynumber: 4.5 Consensus size: 40
239153038 TCAAATGATG
* * * * *
239153048 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAA
** * *
239153088 TCCGGACTAGGAT-CCGAAGGCATTTATACGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTATGCGAGTTACTAAA
*
239153128 TCCAGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
* * *
239153168 TCCGGGTTAAATCCCGAAGGCGTTTATGCGAGTTGCTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTA-AA
* * *
239153209 -CCGGGCTATGTCCTGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
239153229 GTTTGAACGA
Statistics
Matches: 117, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
39 1 0.01
40 108 0.92
41 8 0.07
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
Found at i:239156708 original size:27 final size:27
Alignment explanation
Indices: 239156667--239156752 Score: 136
Period size: 27 Copynumber: 3.2 Consensus size: 27
239156657 ATCCTATTAA
* *
239156667 CCTTTGTGGCGTACTATGTATGAATTG
1 CCTTTGTGGCATACTATGTATGGATTG
*
239156694 CCTTTGTGGCATACTTTGTATGGATTG
1 CCTTTGTGGCATACTATGTATGGATTG
*
239156721 CCTTTGTGGCATACTCTGTATGGATTG
1 CCTTTGTGGCATACTATGTATGGATTG
239156748 CCTTT
1 CCTTT
239156753 TTGGTGTATT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.15, C:0.17, G:0.24, T:0.43
Consensus pattern (27 bp):
CCTTTGTGGCATACTATGTATGGATTG
Found at i:239156765 original size:27 final size:27
Alignment explanation
Indices: 239156667--239156767 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
239156657 ATCCTATTAA
* * * *
239156667 CCTTTGTGGCGTACTATGTATGAATTG
1 CCTTTGTGGCATATTCTGTATGGATTG
239156694 CCTTTGTGGCATACTT-TGTATGGATTG
1 CCTTTGTGGCATA-TTCTGTATGGATTG
*
239156721 CCTTTGTGGCATACTCTGTATGGATTG
1 CCTTTGTGGCATATTCTGTATGGATTG
* **
239156748 CCTTTTTGGTGTATTCTGTA
1 CCTTTGTGGCATATTCTGTA
239156768 ATAATAAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.02
27 62 0.97
28 1 0.02
ACGTcount: A:0.15, C:0.16, G:0.25, T:0.45
Consensus pattern (27 bp):
CCTTTGTGGCATATTCTGTATGGATTG
Found at i:239158440 original size:30 final size:30
Alignment explanation
Indices: 239158404--239158504 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
239158394 GACAAGATTG
* * *
239158404 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
239158434 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
239158462 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
239158491 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
239158505 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:239158516 original size:29 final size:28
Alignment explanation
Indices: 239158433--239158508 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
239158423 AAAATTGTAC
* *
239158433 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
239158461 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
239158490 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
239158509 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:239166307 original size:30 final size:30
Alignment explanation
Indices: 239166271--239166371 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
239166261 GACAAGATTG
* * *
239166271 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
239166301 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
239166329 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
239166358 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
239166372 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:239166383 original size:29 final size:28
Alignment explanation
Indices: 239166300--239166375 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
239166290 AAAATTGTAC
* *
239166300 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
239166328 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
239166357 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
239166376 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:239170203 original size:29 final size:28
Alignment explanation
Indices: 239170141--239170241 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
239170131 GTGACGAGAT
* * *
239170141 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-GATATA
* *
239170170 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGA-TATA
* *
239170199 TGGCACTATGTGTGCGGGCTT-GA-ATCA
1 TGGCACTAAGTGTGCGAGCTTGGATAT-A
239170226 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
239170242 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.03
27 16 0.27
28 3 0.05
29 39 0.65
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGGATATA
Found at i:239170248 original size:27 final size:27
Alignment explanation
Indices: 239170171--239170248 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
239170161 TGTAATGTAC
*
239170171 GGCACTAAGTGTGCGAGTTTGGACTATAT
1 GGCACTAAGTGTGCGAGATT-GAC-ATAT
* * *
239170200 GGCACTATGTGTGCGGGCTTGA-ATCAT
1 GGCACTAAGTGTGCGAGATTGACAT-AT
*
239170227 GGCACTAAGTGTGCGTGATTGA
1 GGCACTAAGTGTGCGAGATTGA
239170249 GTATTAAGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 21 0.50
28 2 0.05
29 17 0.40
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.29
Consensus pattern (27 bp):
GGCACTAAGTGTGCGAGATTGACATAT
Found at i:239175512 original size:2 final size:2
Alignment explanation
Indices: 239175505--239175537 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
239175495 CTTTTCCATA
239175505 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
239175538 AATTTAGTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:239175584 original size:32 final size:33
Alignment explanation
Indices: 239175535--239175606 Score: 105
Period size: 32 Copynumber: 2.2 Consensus size: 33
239175525 ATATATATAT
239175535 ATAAA-TTTAGTGCTGTACTCCTGAGAAAGAAG
1 ATAAATTTTAGTGCTGTACTCCTGAGAAAGAAG
*
239175567 ATAAATTTTA-TGTTGTACTCCTGAGAAAGAAG
1 ATAAATTTTAGTGCTGTACTCCTGAGAAAGAAG
239175599 -TCAAATTT
1 AT-AAATTT
239175607 GTTCGTCACT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
31 1 0.03
32 32 0.86
33 4 0.11
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (33 bp):
ATAAATTTTAGTGCTGTACTCCTGAGAAAGAAG
Found at i:239176795 original size:17 final size:18
Alignment explanation
Indices: 239176762--239176796 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
239176752 TTGAATTCTA
239176762 TTTGAAAAGAAACATCAT
1 TTTGAAAAGAAACATCAT
*
239176780 TTTGAATAGAAA-ATCAT
1 TTTGAAAAGAAACATCAT
239176797 GAAGTTGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (18 bp):
TTTGAAAAGAAACATCAT
Found at i:239181073 original size:27 final size:27
Alignment explanation
Indices: 239181034--239181095 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
239181024 ATTTTCAACA
*
239181034 TTCATGTC-CCATGTACCCTTCTAATG
1 TTCATTTCTCCATGTACCCTTCTAATG
239181060 TTCATTTCTCCATGTACCCTTCTAATG
1 TTCATTTCTCCATGTACCCTTCTAATG
*
239181087 CTCATTTCT
1 TTCATTTCT
239181096 TACTTACCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 7 0.21
27 26 0.79
ACGTcount: A:0.18, C:0.31, G:0.08, T:0.44
Consensus pattern (27 bp):
TTCATTTCTCCATGTACCCTTCTAATG
Found at i:239183518 original size:22 final size:23
Alignment explanation
Indices: 239183475--239183527 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
239183465 ATAATGAAAT
*
239183475 AATAATAATGAGAACAAAACGA-
1 AATAAAAATGAGAACAAAACGAC
*
239183497 AATAAAAATGA-AATAAATACGAC
1 AATAAAAATGAGAACAAA-ACGAC
*
239183520 GATAAAAA
1 AATAAAAA
239183528 AATAACAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 5 0.19
22 14 0.54
23 7 0.27
ACGTcount: A:0.66, C:0.08, G:0.11, T:0.15
Consensus pattern (23 bp):
AATAAAAATGAGAACAAAACGAC
Found at i:239183968 original size:26 final size:24
Alignment explanation
Indices: 239183904--239183970 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 24
239183894 AATAAAGAAT
239183904 AATAGTAATAATAATAATGAAAATA
1 AATAGTAA-AATAATAATGAAAATA
* * *
239183929 AAGTAATATTAATAATACATTAAAATA
1 AA-TAGTA-AAATAATA-ATGAAAATA
239183956 CAATAGTAAAATAAT
1 -AATAGTAAAATAAT
239183971 GACAATAGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
25 2 0.06
26 17 0.52
27 12 0.36
28 2 0.06
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (24 bp):
AATAGTAAAATAATAATGAAAATA
Found at i:239184044 original size:3 final size:3
Alignment explanation
Indices: 239184030--239184129 Score: 130
Period size: 3 Copynumber: 33.3 Consensus size: 3
239184020 ATATAGTAGA
* * * *
239184030 AAT AAT AGT AAT AAT -AT GAAC AAT AGT GAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
239184075 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
239184123 AAT AAT A
1 AAT AAT A
239184130 TATGAGTTAT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.02
3 80 0.96
4 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:239185752 original size:44 final size:43
Alignment explanation
Indices: 239185687--239186192 Score: 200
Period size: 44 Copynumber: 11.7 Consensus size: 43
239185677 TTGATTTCAA
* * **
239185687 CTGTTACCCTTCTGTTTAGGGGGTTAAGGCTCATCACCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTC-TCATATTCGAT
* * * * * *
239185731 CTGTTCCCCTACTGCTTAGGGGGTTTAA-GATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGG-TTAAGGCTCT-CATATTCGAT
* * * *
239185775 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTCTTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCTCATATTCGAT
* ** * * * *
239185818 CTGCTCTA--CTACTGCTTAGGGAGACAA-GATCT-GTAATTCAAC
1 CTG-T-TACCCTACTGCTTAGGGGGTTAAGGCTCTCAT-ATTCGAT
* * *
239185860 CTGTTACCCTACTGCTTAAGGGGTTAAGGCCCATCATTTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTC-TCATATTCGAT
** * * * * * * *
239185904 CCCTTTCCCTACTGCTTAGGGAGTTAA-GATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCT-CATATTCGAT
** * * *
239185947 CTGTTACCCTACTGCTTAGGGCTTTAAGGCCCATCTTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTC-TCATATTCGAT
* * * * * * * * *
239185991 CTGTTTCCCTACTGCTTATGGTGATAA-GATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCT-CATATTCGAT
* * * * *
239186034 CTGCTACCCTACTGCTTAGGGGTTTAAGGCCTATCTTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGG-CTCTCATATTCGAT
* * * * * * * * *
239186078 CTGTTTCCTTACTGCTTAGGGTGATAA-GATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCT-CATATTCGAT
* * * ** *
239186121 CTGCTACCCTACTGCTTAGGGGTTTAAGGCCCATTGTTTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTC-TCATATTCGAT
** * *
239186165 CCATTTCCCTACTGCTTAGGGAGTTAAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG
239186193 ATCTGTAAAT
Statistics
Matches: 318, Mismatches: 124, Indels: 40
0.66 0.26 0.08
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 29 0.09
43 111 0.35
44 163 0.51
45 11 0.03
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.35
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCTCATATTCGAT
Found at i:239185830 original size:87 final size:88
Alignment explanation
Indices: 239185682--239186205 Score: 696
Period size: 87 Copynumber: 6.0 Consensus size: 88
239185672 AGTTTTTGAT
* * * * ** *
239185682 TTCAA-CTGTTACCCTTCTGTTTAGGGGGTTAAGGCTCATCACCTTCGATCTG-TTCCCCTACTG
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGATCTGCTTTCCCTACTG
* *
239185745 CTTAGGGGGTTTAAGATCTGTAAA
66 CTTAGGGAG-ATAAGATCTGTAAA
* *
239185769 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCC-TCTTCTTCGATCTGCTCT-ACTACTG
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGATCTGCTTTCCCTACTG
*
239185832 CTTAGGGAGACAAGATCTGT-AA
66 CTTAGGGAGATAAGATCTGTAAA
*
239185854 TTCAACCTGTTACCCTACTGCTTAAGGGG-TTAAGGCCCATCATT-TTCGATC-CCTTTCCCTAC
1 TTCAACCTGTTACCCTACTGCTT-AGGGGTTTAAGGCCCATC-TTCTTCGATCTGCTTTCCCTAC
*
239185916 TGCTTAGGGAGTTAAGATCTGTAAA
64 TGCTTAGGGAGATAAGATCTGTAAA
*
239185941 TTCAACCTGTTACCCTACTGCTTAGGGCTTTAAGGCCCATCTTCTTCGATCTG-TTTCCCTACTG
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGATCTGCTTTCCCTACTG
* *
239186005 CTTATGGTGATAAGATCTGTAAA
66 CTTAGGGAGATAAGATCTGTAAA
* * *
239186028 TTCAACCTGCTACCCTACTGCTTAGGGGTTTAAGGCCTATCTTCTTCGATCTG-TTTCCTTACTG
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGATCTGCTTTCCCTACTG
*
239186092 CTTAGGGTGATAAGATCTGTAAA
66 CTTAGGGAGATAAGATCTGTAAA
* *
239186115 TTCAACCTGCTACCCTACTGCTTAGGGGTTTAAGGCCCAT-TGTTTTCGATC--CATTTCCCTAC
1 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCT-TCTTCGATCTGC-TTTCCCTAC
*
239186177 TGCTTAGGGAGTTAAGATCTGTAAA
64 TGCTTAGGGAGATAAGATCTGTAAA
239186202 TTCA
1 TTCA
239186206 GCAATGTATT
Statistics
Matches: 392, Mismatches: 32, Indels: 26
0.87 0.07 0.06
Matches are distributed among these distances:
85 37 0.09
86 54 0.14
87 272 0.69
88 29 0.07
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (88 bp):
TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGATCTGCTTTCCCTACTG
CTTAGGGAGATAAGATCTGTAAA
Found at i:239185974 original size:43 final size:43
Alignment explanation
Indices: 239185731--239186148 Score: 252
Period size: 43 Copynumber: 9.7 Consensus size: 43
239185721 CACCTTCGAT
*
239185731 CTGTTCCCCTACTGCTTAGGGGGTTTAAGATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTA-GGGGTTTAAGATCTGTAAATTCAAC
** * ** * *
239185775 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTCT-TCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAA-GATCTGTAAATTCAAC
**
239185818 CTGCTCTA--CTACTGCTTAGGGAG-ACAAGATCTGT-AATTCAAC
1 CTG-T-TACCCTACTGCTTAGGG-GTTTAAGATCTGTAAATTCAAC
** ** ** *
239185860 CTGTTACCCTACTGCTTAAGGGG-TTAAGGCCCATCATTTTCGATCC
1 CTGTTACCCTACTGCTT-AGGGGTTTAAGATCTGT-AAATTC-A-AC
239185906 CT-TT-CCCTACTGCTTAGGGAG-TTAAGATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGG-GTTTAAGATCTGTAAATTCAAC
* * * *
239185947 CTGTTACCCTACTGCTTAGGGCTTTAAGGCCCATCT-T--CTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAA-G---ATCTGTAAATTCAAC
* * *
239185991 CTGTTTCCCTACTGCTTA-TGGTGATAAGATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGT-TTAAGATCTGTAAATTCAAC
* ** * *** * *
239186034 CTGCTACCCTACTGCTTAGGGGTTTAAGGCCTATCTTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGATCTGT-AAATTCAAC
* * *
239186078 CTGTTTCCTTACTGCTTA-GGGTGATAAGATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGT-TTAAGATCTGTAAATTCAAC
*
239186121 CTGCTACCCTACTGCTTAGGGGTTTAAG
1 CTGTTACCCTACTGCTTAGGGGTTTAAG
239186149 GCCCATTGTT
Statistics
Matches: 275, Mismatches: 72, Indels: 55
0.68 0.18 0.14
Matches are distributed among these distances:
40 6 0.02
41 5 0.02
42 29 0.11
43 119 0.43
44 103 0.37
45 5 0.02
46 4 0.01
47 4 0.01
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTCAAC
Found at i:239191991 original size:40 final size:40
Alignment explanation
Indices: 239191932--239192100 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
239191922 CGGGACTTTA
* * *
239191932 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
239191972 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
239192012 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
239192052 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
239192092 CCCGGATAT
1 CCCGGATAT
239192101 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:239196795 original size:39 final size:39
Alignment explanation
Indices: 239196725--239196835 Score: 145
Period size: 39 Copynumber: 2.8 Consensus size: 39
239196715 TACTCGTTCG
* *
239196725 AATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACA
1 AATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCACA
* *
239196765 AATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACA
*
239196804 AATGCCTTCGGGCTTAGCCCGGA-TTAGTAACT
1 AATGCCTTCGGACTTAGCCCGGATTTAGTAACT
239196836 TTGTGACAGC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
38 9 0.14
39 44 0.69
40 11 0.17
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACA
Found at i:239198600 original size:39 final size:39
Alignment explanation
Indices: 239198505--239198684 Score: 156
Period size: 40 Copynumber: 4.6 Consensus size: 39
239198495 AAATTGAATG
* * * *
239198505 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT-T
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCT--AGATGT
* *
239198545 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGATG-T
*
239198584 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTTGT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGATGT
* *
239198622 -TATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAT-GT
* * *
239198660 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
239198685 CTTGGTGCGG
Statistics
Matches: 118, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
37 30 0.25
38 11 0.09
39 29 0.25
40 48 0.41
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGATGT
Found at i:239198635 original size:37 final size:37
Alignment explanation
Indices: 239198544--239198653 Score: 143
Period size: 37 Copynumber: 2.9 Consensus size: 37
239198534 TGCTGGAAAT
* *
239198544 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-AGTGC
239198583 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTTG-
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCAG-TGC
239198621 T-TATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCA
239198654 AATCGTGATA
Statistics
Matches: 66, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
37 29 0.44
38 8 0.12
39 29 0.44
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (37 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCAGTGC
Found at i:239207764 original size:40 final size:40
Alignment explanation
Indices: 239207679--239207829 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
239207669 AATTGAATGA
* * *
239207679 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
239207719 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
239207760 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
239207799 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
239207830 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:239207843 original size:40 final size:40
Alignment explanation
Indices: 239207715--239207845 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
239207705 TATGCTGGAA
* * *
239207715 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
239207755 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
239207795 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
239207835 ATTATATCCGG
1 ATTATATCCGG
239207846 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:239215752 original size:80 final size:79
Alignment explanation
Indices: 239215630--239215778 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
239215620 ATTGAATGAT
*
239215630 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATT
1 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
239215695 GTGCTAGTGGCTAC
66 GTGCTAGTGGCTAC
* * * *
239215709 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
239215772 TTTGTGC
63 ATTGTGC
239215779 ACGTGATTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 16 0.26
80 45 0.74
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (79 bp):
ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
GTGCTAGTGGCTAC
Found at i:239215792 original size:40 final size:40
Alignment explanation
Indices: 239215628--239215794 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
239215618 AAATTGAATG
* * *
239215628 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGAGATT
* * * **
239215667 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAGATT
* *
239215707 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGAGATT
* * *
239215747 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GAGATT
239215787 ATATCCGG
1 ATATCCGG
239215795 TTATATTCCG
Statistics
Matches: 102, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
39 17 0.17
40 83 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAGATT
Found at i:239215793 original size:80 final size:79
Alignment explanation
Indices: 239215628--239215794 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 79
239215618 AAATTGAATG
*
239215628 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
239215693 TTGTGCTAGTGGCT
66 TTGTGCTAGTGACT
* * * * *
239215707 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
239215770 CATTTGTGC-ACGTGATT
63 CAATTGTGCTA-GTGACT
239215787 ATATCCGG
1 ATATCCGG
239215795 TTATATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 18 0.24
80 56 0.76
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGACT
Found at i:239217342 original size:26 final size:26
Alignment explanation
Indices: 239217306--239217441 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
239217296 TGATACAAAT
*
239217306 TGATAATAGGTTAGGTAAATATTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
239217332 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
239217358 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
239217384 TGATAATGGGTTAGGTAAATGCTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
239217410 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
239217436 TGATAA
1 TGATAA
239217442 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:239219442 original size:136 final size:135
Alignment explanation
Indices: 239219196--239219479 Score: 473
Period size: 136 Copynumber: 2.1 Consensus size: 135
239219186 GAGTAGTCTC
* * *
239219196 CCCAAATGGGTTTGCATATGTTATTGATGTTGCATGTATTTGAAATGGGCCTATGGGCCATACTG
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTGAAATGGGCCTATGAGCCATACTG
239219261 TTATCTGAATAAGGGACTAAGGCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTACCAC
66 TTATCTGAATAAGGGACTAAGGCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTACCAC
239219326 TGTTA
131 TGTTA
239219331 CCCAAATGGGCTTGCA-ATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGAGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTA-TTTGAAATGGGCCTATGAGCCATAC
*
239219395 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTG-AAAAGGGCTCTGGCCCAGTAC
64 TGTTATCTGAATAAGGGACTAAGG-CCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTAC
239219459 CACTGTTA
128 CACTGTTA
**
239219467 CCTGAATGGGCTT
1 CCCAAATGGGCTT
239219480 AGGCCCAATG
Statistics
Matches: 140, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
134 3 0.02
135 32 0.23
136 87 0.62
137 18 0.13
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (135 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTGAAATGGGCCTATGAGCCATACTG
TTATCTGAATAAGGGACTAAGGCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTACCAC
TGTTA
Found at i:239227115 original size:40 final size:40
Alignment explanation
Indices: 239227056--239227224 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
239227046 CGGGACTTTA
* * *
239227056 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
239227096 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
239227136 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
239227176 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
239227216 CCCGGATAT
1 CCCGGATAT
239227225 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:239235256 original size:39 final size:40
Alignment explanation
Indices: 239235084--239235260 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
239235074 ACCAAGGCCA
* * * * * *
239235084 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * *
239235123 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-TGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCAC-AATTGCCTT
*
239235163 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * * * *
239235203 CGGGTCTTAACCCGGATATAATTTC-AGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
*
239235242 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
239235261 CATTCAATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 39 0.33
40 77 0.65
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
Found at i:239239422 original size:29 final size:29
Alignment explanation
Indices: 239239389--239239462 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
239239379 GTGACGAGAT
239239389 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
239239418 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
239239447 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
239239463 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:239239478 original size:29 final size:29
Alignment explanation
Indices: 239239446--239239521 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
239239436 CTGGAAATAT
* *
239239446 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
239239475 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
239239504 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
239239522 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:239239489 original size:58 final size:58
Alignment explanation
Indices: 239239389--239239521 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
239239379 GTGACGAGAT
* * * * * *
239239389 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
239239447 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
239239505 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
239239522 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:239247304 original size:29 final size:29
Alignment explanation
Indices: 239247271--239247344 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
239247261 GTGACGAGAT
239247271 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
239247300 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
239247329 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
239247345 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:239247360 original size:29 final size:29
Alignment explanation
Indices: 239247328--239247403 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
239247318 CTGGAAATAT
* *
239247328 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
239247357 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
239247386 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
239247404 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:239247371 original size:58 final size:58
Alignment explanation
Indices: 239247271--239247403 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
239247261 GTGACGAGAT
* * * * * *
239247271 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
239247329 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
239247387 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
239247404 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:239251003 original size:24 final size:24
Alignment explanation
Indices: 239250973--239251239 Score: 462
Period size: 24 Copynumber: 11.1 Consensus size: 24
239250963 GAATGTGACT
* *
239250973 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
239250997 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
239251021 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
239251045 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
239251069 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
239251093 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
239251117 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
239251141 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
239251165 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
239251189 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
239251213 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
239251237 ATA
1 ATA
239251240 TGGTCTTTGC
Statistics
Matches: 235, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 235 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:239256086 original size:40 final size:40
Alignment explanation
Indices: 239255990--239256168 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 40
239255980 CGAATGGTGT
* * * *
239255990 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
239256031 CCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
239256071 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
239256111 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
239256151 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
239256169 ACAATCGAGC
Statistics
Matches: 114, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
40 89 0.78
41 25 0.22
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:239256129 original size:80 final size:80
Alignment explanation
Indices: 239255990--239256182 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
239255980 CGAATGGTGT
* * * *
239255990 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
* *
239256055 GTGCGAGTTACCAAAA
65 GTGCGAATCACCAAAA
* * * *
239256071 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGG-CTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAATT
* *
239256135 GTGCGAATCACTATAA
65 GTGCGAATCACCAAAA
* * * *
239256151 CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
239256183 CGCTATATCC
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 68 0.72
81 25 0.27
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATTG
TGCGAATCACCAAAA
Found at i:239256189 original size:40 final size:40
Alignment explanation
Indices: 239256111--239256194 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
239256101 GTTATTAAAT
* * *
239256111 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
239256151 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
239256191 CCGG
1 CCGG
239256195 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:239259649 original size:40 final size:40
Alignment explanation
Indices: 239259553--239259731 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 40
239259543 CGAATGGTGT
* * * *
239259553 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
239259594 CCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
239259634 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
239259674 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
239259714 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
239259732 ACAATCGAGC
Statistics
Matches: 114, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
40 89 0.78
41 25 0.22
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:239259692 original size:80 final size:80
Alignment explanation
Indices: 239259553--239259745 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
239259543 CGAATGGTGT
* * * *
239259553 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
* *
239259618 GTGCGAGTTACCAAAA
65 GTGCGAATCACCAAAA
* * * *
239259634 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGG-CTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAATT
* *
239259698 GTGCGAATCACTATAA
65 GTGCGAATCACCAAAA
* * * *
239259714 CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
239259746 CGCTATATCC
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 68 0.72
81 25 0.27
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATTG
TGCGAATCACCAAAA
Found at i:239259752 original size:40 final size:40
Alignment explanation
Indices: 239259674--239259757 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
239259664 GTTATTAAAT
* * *
239259674 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
239259714 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
239259754 CCGG
1 CCGG
239259758 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:239267727 original size:40 final size:40
Alignment explanation
Indices: 239267631--239267809 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 40
239267621 CGAATGGTGT
* * * *
239267631 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
239267672 CCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
239267712 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
239267752 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
239267792 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
239267810 ACAATCGAGC
Statistics
Matches: 114, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
40 89 0.78
41 25 0.22
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:239267770 original size:80 final size:80
Alignment explanation
Indices: 239267631--239267823 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
239267621 CGAATGGTGT
* * * *
239267631 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
* *
239267696 GTGCGAGTTACCAAAA
65 GTGCGAATCACCAAAA
* * * *
239267712 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGG-CTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAATT
* *
239267776 GTGCGAATCACTATAA
65 GTGCGAATCACCAAAA
* * * *
239267792 CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
239267824 CGCTATATCC
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 68 0.72
81 25 0.27
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATTG
TGCGAATCACCAAAA
Found at i:239267830 original size:40 final size:40
Alignment explanation
Indices: 239267752--239267835 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
239267742 GTTATTAAAT
* * *
239267752 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
239267792 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
239267832 CCGG
1 CCGG
239267836 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:239272056 original size:39 final size:39
Alignment explanation
Indices: 239272002--239272157 Score: 242
Period size: 39 Copynumber: 4.0 Consensus size: 39
239271992 GATGTGTATG
239272002 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
239272041 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC-
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
** *
239272079 AATGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
239272118 ATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
239272158 TTTGTGCGGG
Statistics
Matches: 108, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
38 35 0.32
39 63 0.58
40 10 0.09
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:239272181 original size:40 final size:40
Alignment explanation
Indices: 239272021--239272196 Score: 162
Period size: 39 Copynumber: 4.5 Consensus size: 40
239272011 ATTGTGATAT
* * *** *
239272021 CCGGGCTAAG-CCCGAAGGCAAATGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* ** *
239272060 CCGGGCTAAG-CCCGAAGGCAA-TGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
239272098 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
239272137 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
239272177 CCGGGCTATGTCCCGAAGGC
1 CCGGGCTAAGTCCCGAAGGC
239272197 GTTTTGAACG
Statistics
Matches: 121, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 35 0.29
39 45 0.37
40 41 0.34
ACGTcount: A:0.24, C:0.23, G:0.32, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:239280169 original size:38 final size:38
Alignment explanation
Indices: 239280118--239280272 Score: 247
Period size: 38 Copynumber: 4.0 Consensus size: 38
239280108 GATGTGTATG
239280118 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
239280156 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
** *
239280194 AATGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGC
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
* *
239280232 AATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 AA-TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
239280272 A
1 A
239280273 TTTGTGCGGG
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 75 0.69
39 24 0.22
40 10 0.09
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.22
Consensus pattern (38 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
Found at i:239280296 original size:40 final size:40
Alignment explanation
Indices: 239280137--239280316 Score: 145
Period size: 38 Copynumber: 4.6 Consensus size: 40
239280127 ATTGTGATAT
* * *** *
239280137 CCGGGCTAAG-CCCGAAGGCA-ATGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * ** *
239280175 CCGGGCTAAG-CCCGAAGGCA-ATGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
239280213 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
239280252 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
239280292 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
239280317 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
38 55 0.44
39 24 0.19
40 45 0.36
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:239289004 original size:25 final size:25
Alignment explanation
Indices: 239288975--239289022 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
239288965 TTATAATATG
* *
239288975 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
239289000 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
239289023 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:239289094 original size:38 final size:39
Alignment explanation
Indices: 239289061--239289158 Score: 164
Period size: 38 Copynumber: 2.5 Consensus size: 39
239289051 TTGATAAACC
239289061 TGATATGTATGATATGCACATGACATGTATGATATGCACA
1 TGATATGTATGATATGCACATGACATGTATGATA-GCACA
239289101 TGATATG--TGATATGCACATGACATGTATGATATGCACA
1 TGATATGTATGATATGCACATGACATGTATGATA-GCACA
239289139 TGATATGTATGATATGCACA
1 TGATATGTATGATATGCACA
239289159 CGAGATGTTC
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
38 38 0.68
40 18 0.32
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (39 bp):
TGATATGTATGATATGCACATGACATGTATGATAGCACA
Found at i:239289166 original size:20 final size:20
Alignment explanation
Indices: 239289065--239289158 Score: 156
Period size: 20 Copynumber: 4.8 Consensus size: 20
239289055 TAAACCTGAT
239289065 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
239289085 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
239289105 ATG--TGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
239289123 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
239289143 ATGTATGATATGCACA
1 ATGTATGATATGCACA
239289159 CGAGATGTTC
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
18 17 0.25
20 52 0.75
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:239289278 original size:24 final size:24
Alignment explanation
Indices: 239289212--239289375 Score: 234
Period size: 24 Copynumber: 7.0 Consensus size: 24
239289202 GAGGAAGTGC
239289212 AAAAGGGCTTATG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
239289235 -AAAGGG-TTATG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
239289256 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
239289280 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
239289304 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
239289327 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
239289352 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
239289376 ATGATAAAGC
Statistics
Matches: 131, Mismatches: 1, Indels: 16
0.89 0.01 0.11
Matches are distributed among these distances:
21 15 0.11
22 12 0.09
23 34 0.26
24 40 0.31
25 21 0.16
26 9 0.07
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:239289310 original size:47 final size:47
Alignment explanation
Indices: 239289213--239289354 Score: 222
Period size: 47 Copynumber: 3.1 Consensus size: 47
239289203 AGGAAGTGCA
239289213 AAAGGGCTTATG-CCCAGTTATT-AAAGGG-TTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
239289256 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
239289304 AAAGGGCTTATGCCCCAGTTATTAAAAAAGGGCTT-TGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT--AAAAGGGCTTATGCCCCAGTTATT
239289352 AAA
1 AAA
239289355 AGAGGCTAGG
Statistics
Matches: 92, Mismatches: 0, Indels: 8
0.92 0.00 0.08
Matches are distributed among these distances:
44 12 0.13
45 10 0.11
46 6 0.07
47 28 0.30
48 26 0.28
49 10 0.11
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:239289604 original size:31 final size:31
Alignment explanation
Indices: 239289569--239289632 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
239289559 CGTTTACAGT
239289569 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
239289600 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
239289631 AA
1 AA
239289633 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:239297161 original size:25 final size:25
Alignment explanation
Indices: 239297132--239297179 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
239297122 TTATAATATG
* * *
239297132 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
239297157 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
239297180 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:239297262 original size:40 final size:40
Alignment explanation
Indices: 239297218--239297317 Score: 200
Period size: 40 Copynumber: 2.5 Consensus size: 40
239297208 TTTGATAAAC
239297218 TGATATGTATGATATGCACATGACATGTATGATATGCACA
1 TGATATGTATGATATGCACATGACATGTATGATATGCACA
239297258 TGATATGTATGATATGCACATGACATGTATGATATGCACA
1 TGATATGTATGATATGCACATGACATGTATGATATGCACA
239297298 TGATATGTATGATATGCACA
1 TGATATGTATGATATGCACA
239297318 CGAGATGTTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (40 bp):
TGATATGTATGATATGCACATGACATGTATGATATGCACA
Found at i:239297325 original size:20 final size:20
Alignment explanation
Indices: 239297222--239297317 Score: 174
Period size: 20 Copynumber: 4.8 Consensus size: 20
239297212 ATAAACTGAT
239297222 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
239297242 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
239297262 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
239297282 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
239297302 ATGTATGATATGCACA
1 ATGTATGATATGCACA
239297318 CGAGATGTTC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 73 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:239297398 original size:24 final size:24
Alignment explanation
Indices: 239297371--239297467 Score: 135
Period size: 24 Copynumber: 4.0 Consensus size: 24
239297361 GAGGAAGTGC
239297371 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
239297395 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
239297419 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
239297444 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
239297468 ATGATAAAGC
Statistics
Matches: 67, Mismatches: 1, Indels: 9
0.87 0.01 0.12
Matches are distributed among these distances:
23 6 0.09
24 30 0.45
25 21 0.31
26 10 0.15
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:239297444 original size:49 final size:51
Alignment explanation
Indices: 239297371--239297467 Score: 155
Period size: 49 Copynumber: 1.9 Consensus size: 51
239297361 GAGGAAGTGC
*
239297371 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCC-CCAGTTATTAA
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTAA
239297421 AAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
239297468 ATGATAAAGC
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
49 23 0.52
50 21 0.48
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTAA
Found at i:239297695 original size:31 final size:31
Alignment explanation
Indices: 239297660--239297723 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
239297650 CGTTTACAGT
239297660 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
239297691 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
239297722 AA
1 AA
239297724 TATGAAAGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:239299622 original size:39 final size:40
Alignment explanation
Indices: 239299508--239299692 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
239299498 GCTACTCGTT
*
239299508 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
239299548 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
239299588 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
** * * * *
239299627 CAAATGCCTTC-GGATCTTAGTTCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
239299668 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
239299693 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:239299653 original size:79 final size:81
Alignment explanation
Indices: 239299510--239299692 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
239299500 TACTCGTTCA
* *
239299510 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
239299574 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
***
239299590 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTTCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
239299652 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
239299669 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
239299693 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:239302899 original size:21 final size:22
Alignment explanation
Indices: 239302863--239302903 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
239302853 TGAAAAATAA
*
239302863 AAAAATAAAATTAAGAATTTGG
1 AAAAATAAAATAAAGAATTTGG
239302885 AAAAATAAAA-AAAGAATTT
1 AAAAATAAAATAAAGAATTT
239302904 AAAGTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (22 bp):
AAAAATAAAATAAAGAATTTGG
Found at i:239303240 original size:29 final size:30
Alignment explanation
Indices: 239303209--239303335 Score: 183
Period size: 30 Copynumber: 4.4 Consensus size: 30
239303199 AAACTTTTCT
*
239303209 CACTAGCTACACCTTTTCCACCACCAACT-
1 CACTAGCCACACCTTTTCCACCACCAACTC
*
239303238 CACTAGCCACACC-TTTCCACCACAAACTC
1 CACTAGCCACACCTTTTCCACCACCAACTC
*
239303267 CACTAGCCACTCCTTTTCCACCACCAACTC
1 CACTAGCCACACCTTTTCCACCACCAACTC
*
239303297 CACTAGCCACACCTTCTCCACCA--AA-TC
1 CACTAGCCACACCTTTTCCACCACCAACTC
239303324 CACTAGCCACAC
1 CACTAGCCACAC
239303336 TTGCTCCATT
Statistics
Matches: 90, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
27 14 0.16
28 16 0.18
29 24 0.27
30 36 0.40
ACGTcount: A:0.28, C:0.48, G:0.04, T:0.20
Consensus pattern (30 bp):
CACTAGCCACACCTTTTCCACCACCAACTC
Found at i:239303273 original size:58 final size:57
Alignment explanation
Indices: 239303209--239303335 Score: 195
Period size: 58 Copynumber: 2.2 Consensus size: 57
239303199 AAACTTTTCT
*
239303209 CACTAGCTACACCTTTTCCACCACCAACT-CACTAGCCACACCTT-TCCACCACAAACTC
1 CACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCA-C-CAAA-TC
*
239303267 CACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCAAATC
1 CACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCAAATC
239303324 CACTAGCCACAC
1 CACTAGCCACAC
239303336 TTGCTCCATT
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
57 13 0.20
58 31 0.48
59 16 0.25
60 4 0.06
ACGTcount: A:0.28, C:0.48, G:0.04, T:0.20
Consensus pattern (57 bp):
CACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCAAATC
Found at i:239303957 original size:27 final size:27
Alignment explanation
Indices: 239303927--239304002 Score: 84
Period size: 25 Copynumber: 2.9 Consensus size: 27
239303917 ATTTTAAATT
* *
239303927 CTATATTACGTATATATATATATTATA
1 CTATATTATGTATATATATATATAATA
* *
239303954 CTATTTTATGTATATATCT-T-TAATA
1 CTATATTATGTATATATATATATAATA
* *
239303979 TTATATTATTTATATATATATATA
1 CTATATTATGTATATATATATATA
239304003 TATTTTTACA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 19 0.49
26 2 0.05
27 18 0.46
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (27 bp):
CTATATTATGTATATATATATATAATA
Found at i:239304031 original size:36 final size:35
Alignment explanation
Indices: 239303964--239304031 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
239303954 CTATTTTATG
*
239303964 TATATATCTTTAATATTATATTATTTATATATATA
1 TATATATCTTTAATATTATATTATGTATATATATA
* * *
239303999 TATATATTTTTACATGTTATCTTATGTATATAT
1 TATATATCTTTA-ATATTATATTATGTATATAT
239304032 CTTAACTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 11 0.39
36 17 0.61
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (35 bp):
TATATATCTTTAATATTATATTATGTATATATATA
Found at i:239304066 original size:23 final size:24
Alignment explanation
Indices: 239304036--239304082 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
239304026 ATATATCTTA
*
239304036 ACTATATTA-TATATATTTTTAAC
1 ACTATATTAGTACATATTTTTAAC
239304059 ACTATATTATGTACATATTTTTAA
1 ACTATATTA-GTACATATTTTTAA
239304083 TATTATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
25 12 0.57
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (24 bp):
ACTATATTAGTACATATTTTTAAC
Found at i:239304074 original size:61 final size:61
Alignment explanation
Indices: 239303959--239304074 Score: 132
Period size: 61 Copynumber: 1.9 Consensus size: 61
239303949 TTATACTATT
* * * *
239303959 TTATGTATATATCTTTAATATTATATTATTTATATATATATATATATTTTTACATGTTATC
1 TTATGTATATATCTTAAATATTATATTATTTATATATACATATATATATGTACATGTTATC
239304020 TTATGTATATATCTTAACTATATTATATATATTT-T-TA-ACACTATAT-TATGTACAT
1 TTATGTATATATCTTAA--ATATTATAT-TATTTATATATACA-TATATATATGTACAT
239304075 ATTTTTAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
61 25 0.53
62 7 0.15
63 10 0.21
64 5 0.11
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.54
Consensus pattern (61 bp):
TTATGTATATATCTTAAATATTATATTATTTATATATACATATATATATGTACATGTTATC
Found at i:239304118 original size:22 final size:23
Alignment explanation
Indices: 239304074--239304118 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
239304064 ATTATGTACA
*
239304074 TATTTTTAATATTATCACGTATT
1 TATTTTTAATATTATCACATATT
* *
239304097 TATTTTTTATA-TATTACATATT
1 TATTTTTAATATTATCACATATT
239304119 GATGTAGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTTTTAATATTATCACATATT
Found at i:239304258 original size:16 final size:15
Alignment explanation
Indices: 239304234--239304281 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
239304224 TAATTATTAT
*
239304234 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
239304250 TATTTTAATATTTTA
1 TATTTTAATATTTTA
239304265 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
239304281 T
1 T
239304282 TGTTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:239304269 original size:7 final size:8
Alignment explanation
Indices: 239304234--239304280 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
239304224 TAATTATTAT
*
239304234 TATTCTAA
1 TATTTTAA
*
239304242 TATTTTGA
1 TATTTTAA
239304250 TATTTTAA
1 TATTTTAA
239304258 TATTTT-A
1 TATTTTAA
239304265 TATTTTATA
1 TATTTTA-A
239304274 TATTTTA
1 TATTTTA
239304281 TTGTTCACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
7 7 0.21
8 19 0.56
9 8 0.24
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (8 bp):
TATTTTAA
Found at i:239305842 original size:12 final size:12
Alignment explanation
Indices: 239305825--239305860 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
239305815 ATTCATTTGA
239305825 CATTCATGCATT
1 CATTCATGCATT
239305837 CATTCATGCATT
1 CATTCATGCATT
*
239305849 CATTCATACATT
1 CATTCATGCATT
239305861 GCATATCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:239314135 original size:73 final size:73
Alignment explanation
Indices: 239314053--239314399 Score: 376
Period size: 73 Copynumber: 4.6 Consensus size: 73
239314043 TTTCTGATTT
* ** *
239314053 TTCAAAAAAAATCAACTCATA-TGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTT
1 TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
*
239314117 AATTTATG
66 AATTTCTG
* * * * *
239314125 TTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATT
1 TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAAT
239314189 TTCAATTTCTGG
63 TTCAATTTCT-G
**
239314201 TTTTCAATTTCTGTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1 --TTC-A-------TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
239314266 AGGTAATTTCAATTTCTG
56 AGGTAATTTCAATTTCTG
** * *
239314284 TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
1 TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
239314349 AATTT-TG
66 AATTTCTG
** *
239314356 TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
239314400 GGCTCACATG
Statistics
Matches: 238, Mismatches: 21, Indels: 32
0.82 0.07 0.11
Matches are distributed among these distances:
72 66 0.28
73 83 0.35
75 21 0.09
76 1 0.00
78 3 0.01
79 1 0.00
81 2 0.01
83 1 0.00
84 24 0.10
86 34 0.14
87 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (73 bp):
TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
AATTTCTG
Found at i:239314206 original size:14 final size:13
Alignment explanation
Indices: 239314187--239314217 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
239314177 CGCTGAGGTA
239314187 TTTTCAATTTCTGG
1 TTTTCAATTTCT-G
239314201 TTTTCAATTTCTG
1 TTTTCAATTTCTG
239314214 TTTT
1 TTTT
239314218 AAAATCAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.65
Consensus pattern (13 bp):
TTTTCAATTTCTG
Found at i:239314476 original size:165 final size:165
Alignment explanation
Indices: 239314290--239314602 Score: 488
Period size: 165 Copynumber: 1.9 Consensus size: 165
239314280 TCTGTTTGTC
*
239314290 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA-ATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATATTTAAATTT
* * *
239314354 -TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTC
66 CTGTTTGTCAAAAATCAACTCATATTGCGA-AAGTGAGTTGAGCCTCGG--CACACGCTGAGGTA
* *
239314418 TTTTCAATTT-TGTTTTTCAATTTCTGTTCGTAAAAAA
128 ATTTCAATTTCTGTTTGTCAATTTCTGTTCGTAAAAAA
* *
239314455 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATATTTAAATTT
* *
239314520 CTGTTTTTCAAAAATCAACTCATATTGCGAAAGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
66 CTGTTTGTCAAAAATCAACTCATATTGCGAAAGTGAGTTGAGCCTCGGCACACGCTGAGGTAATT
239314585 TCAATTTCTGTTTGTCAA
131 TCAATTTCTGTTTGTCAA
239314603 AAATTAACTC
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
164 20 0.15
165 62 0.46
166 25 0.19
167 28 0.21
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (165 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATATTTAAATTT
CTGTTTGTCAAAAATCAACTCATATTGCGAAAGTGAGTTGAGCCTCGGCACACGCTGAGGTAATT
TCAATTTCTGTTTGTCAATTTCTGTTCGTAAAAAA
Found at i:239314573 original size:73 final size:73
Alignment explanation
Indices: 239314455--239314677 Score: 322
Period size: 73 Copynumber: 3.0 Consensus size: 73
239314445 TCGTAAAAAA
* *
239314455 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-TTTTCAATTT
239314520 CTGTTTTTC
65 CTGTTTTTC
* *
239314529 AAAAATCAACTCATATTGCGA-AAGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
*
239314593 TGTTTGTC
66 TGTTTTTC
* * * *
239314601 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATT
*
239314666 TCTGTTCTTC
64 TCTGTTTTTC
239314676 AA
1 AA
239314678 TTTCTGTTCG
Statistics
Matches: 133, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
72 36 0.27
73 47 0.35
74 21 0.16
75 29 0.22
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.33
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTC
Found at i:239314650 original size:239 final size:240
Alignment explanation
Indices: 239314059--239315402 Score: 2242
Period size: 239 Copynumber: 5.7 Consensus size: 240
239314049 ATTTTTCAAA
* ** * *
239314059 AAAAATCAACTCATA-TGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
** * * * * * *
239314123 TGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTAT
66 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCT
*
239314188 TTTCAATTTCTGGTT-TTCAATTTCTGTT--T-----TAAAATCAACTCATATTGCGAGAGGTGA
131 TTTCAATTTCT-GTTCTTCAATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGTGA
* * *
239314245 GTTGAGCCTCAGGACACGCTGAGGTA-ATTTCAATTTCTGTTTGTC
195 GTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTC
**
239314290 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
*
239314354 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCT
66 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCT
*
239314419 TTTCAATTT-TGTTTTTCAATTTCTGTTCGTAAAAAAAAAAATCAACTCATATTGCGAGAGGTGA
131 TTTCAATTTCTGTTCTTCAATTTCTGTTCGT-AAAAAAAAAATCAACTCATATTGCGAGAGGTGA
239314483 GTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTC
195 GTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTC
*
239314529 AAAAATCAACTCATATTGCGA-AAGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
239314593 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCT
66 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCT
239314658 TTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAAAAAAATCAACTCATATTGCGAGAGGTGA
131 TTTCAATTTCTGTTCTTCAATTTCTGTTCGT-AAAAAAAAAATCAACTCATATTGCGAGAGGTGA
239314723 GTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTC
195 GTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTC
239314769 AAAAATCAACTCATATTGCGAGAGGTGAG-TGAGCCTCGGGACA-GCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
239314832 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCT
66 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCT
*
239314897 TTTCAATTTCTGTTCTT-AATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCAAGAGGTGAG
131 TTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
*
239314961 TTGAGCCTCAGGACATGCTGAGGTATTTTTAAATTTCTGTTTTTC
196 TTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTC
239315006 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
239315071 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCT
66 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCT
239315136 TTTCAATTTCTGTTCTTCAATTTCTGTTCGT--AAAAAAAATCAACTCATATTGCGAGAGGTGAG
131 TTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
239315199 TTGAGCCTCAGGACACGCTGAGGTATTTTTAAA-TTCTGTTTTTC
196 TTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTC
* *
239315243 AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATATCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
*
239315308 TCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGT
64 TCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGT
*
239315373 CTTTTTAATTTCTGCTT-TTCAATTTCTGTT
129 CTTTTCAATTTCTG-TTCTTCAATTTCTGTT
239315403 TTTCAATTTA
Statistics
Matches: 1062, Mismatches: 31, Indels: 32
0.94 0.03 0.03
Matches are distributed among these distances:
229 3 0.00
230 14 0.01
231 80 0.08
232 45 0.04
237 117 0.11
238 182 0.17
239 465 0.44
240 150 0.14
241 6 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (240 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCT
TTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
TTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTC
Found at i:239314678 original size:14 final size:14
Alignment explanation
Indices: 239314659--239314686 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
239314649 CTGAGGTCTT
239314659 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
239314673 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
239314687 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:239314740 original size:167 final size:163
Alignment explanation
Indices: 239314529--239315313 Score: 537
Period size: 164 Copynumber: 4.9 Consensus size: 163
239314519 TCTGTTTTTC
* *
239314529 AAAAATCAACTCATATTGCGAAAGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTTC
1 AAAAATCAACTCATATTGCGAAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTTC
* **
239314593 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCT
66 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAG-TGAGCCTCGG--CACA-GCTGAGGTAA
239314658 TTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAA
127 TTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAA
* *
239314695 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGA-AAGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTT
* *
239314760 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTGAGCCTCGGGACAGCTGAGGTAATTT
65 CTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTGAGCCTCGGCACAGCTGAGGTAATTT
239314825 CAATTTCTG---------TT-TG-TC---AAAAA
130 CAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAA
** * * * * * * * * *
239314845 TTAACTC-A-T-AT-TGCGAG-AGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCT-TTTCAAT
1 AAAAATCAACTCATAT-TGCGAAAGTGAGTTGAGCCTCAG--GACACGCTGAGGTATATTTAAAT
*
239314904 TTCTGTTCTTAATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
63 TTCTG--------TT-TG-TC-------AAAAATCAACTCATATTGCGAGAGGTGAG-TGAGCCT
* *
239314969 CAGG-ACATGCTGAGGTATTTTTAAATTTCTG---------TT-T-TTC---AAAAA
110 C-GGCACA-GCTGAGGTA-ATTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAA
** * * * * * *
239315011 TCAACTC-A-T-AT-TGCGAG-AGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTT
1 AAAAATCAACTCATAT-TGCGAAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTT
* *
239315070 CTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTC
65 CTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAG-TGAGCCTCGG--CACA-GCTGAGGTA
*
239315135 TTTTCAATTTCTGTTCTTCAATTTCTGTTCGT---AAA
126 ATTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAA
* *
239315170 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAA-TT
1 AAAAATCAACTCATATTGCGA-AAGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTT
* * *
239315234 CTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA
65 CTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAG-TGAGCCTCGGCACA-GCTGAGGTA
*
239315299 ATATCAATTTCTGTT
126 ATTTCAATTTCTGTT
239315314 TGTCAAAAAT
Statistics
Matches: 519, Mismatches: 47, Indels: 108
0.77 0.07 0.16
Matches are distributed among these distances:
145 17 0.03
146 14 0.03
147 52 0.10
148 13 0.03
149 13 0.03
150 9 0.02
153 2 0.00
154 6 0.01
155 5 0.01
156 4 0.01
157 2 0.00
158 1 0.00
159 10 0.02
160 1 0.00
161 1 0.00
162 4 0.01
163 29 0.06
164 119 0.23
165 19 0.04
166 114 0.22
167 40 0.08
168 44 0.08
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (163 bp):
AAAAATCAACTCATATTGCGAAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTTC
TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTGAGCCTCGGCACAGCTGAGGTAATTTC
AATTTCTGTTCTTCAATTTCTGTTCGTAAAAAA
Found at i:239314857 original size:71 final size:73
Alignment explanation
Indices: 239314695--239315149 Score: 416
Period size: 73 Copynumber: 5.9 Consensus size: 73
239314685 TCGTAAAAAA
* *
239314695 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-TTTTCAATTT
*
239314760 CTGTTTTTC
65 CTGTTTGTC
*
239314769 AAAAATCAACTCATATTGCGAGAGGTGAG-TGAGCCTCGGGACA-GCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
239314832 TGTTTGTC
66 TGTTTGTC
* * * *
239314840 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATT
239314905 TCTGTTCTTAATTTCTGTTC
64 TCTG--------TT-TG-TC
** * * * ** * * *
239314925 GTAAAAAAAAAATCA-ACT-C-ATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAT
1 --AAAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCGGGACACGCTGAGGTA-
* *
239314987 TTTTAAATTTCTGTTTTTC
55 TTTTCAATTTCTGTTTGTC
*
239315006 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
239315071 TGTTTGTC
66 TGTTTGTC
* * * *
239315079 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATT
239315144 TCTGTT
64 TCTGTT
239315150 CTTCAATTTC
Statistics
Matches: 312, Mismatches: 39, Indels: 59
0.76 0.10 0.14
Matches are distributed among these distances:
71 44 0.14
72 19 0.06
73 68 0.22
74 50 0.16
75 45 0.14
79 17 0.05
80 3 0.01
81 3 0.01
82 3 0.01
83 4 0.01
84 4 0.01
85 3 0.01
86 3 0.01
87 17 0.05
90 12 0.04
91 12 0.04
92 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
TGTTTGTC
Found at i:239314968 original size:164 final size:157
Alignment explanation
Indices: 239314276--239315386 Score: 704
Period size: 166 Copynumber: 7.0 Consensus size: 157
239314266 AGGTAATTTC
* * * ** *
239314276 AATTTCTGTTTGT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
1 AATTTCTGTTCGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACATGCTGA
239314340 GGTAATTTCAATTT-TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCT
66 GGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--
* *
239314404 CACATGCTGAGGTCTTTTCAATTT-TGTTTTT
129 CACACGCTGAGGTCTTTTTAATTTCTG---TT
* * *
239314435 CAATTTCTGTTCGTAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 -AATTTCTGTTCGT----AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACAT
* * * *
239314500 GCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGA-AAGTGAGTTGAGCC
61 GCTGAGGTA-ATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
239314564 TCGGGACACGCTGAGG------TAATTTC----
125 TCGGCACACGCTGAGGTCTTTTTAATTTCTGTT
* * * * *
239314587 AATTTCTGTTTGT-CAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCT
1 AATTTCTGTTCGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG--GACATGCT
* * ** * * *
239314651 GAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAAAAAAATCA-ACT-C-ATATTG
64 GAGG-----T-AA-------T-TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGA--G
* * * * * * *** *
239314713 CGAGAGGTGAG--TTGAGCCTCAGGAC--ACG-CTGAGGT-ATTT-T-TA
113 -GTGAGTTGAGCCTCG-G-CACACG-CTGAGGTCT-TTTTAATTTCTGTT
* ** *
239314755 AATTTCTGTT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAG-TGAGCCTCGGGACA-GCTGA
1 AATTTCTGTTCGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACATGCTGA
*
239314817 GGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCT
66 GGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--
* *
239314882 CACATGCTGAGGTCTTTTCAATTTCTGTTCTT
129 CACACGCTGAGGTCTTTTTAATTTCTG---TT
*
239314914 AATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGC
1 AATTTCTGTTCGT---AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACATGC
* * *
239314979 TGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
63 TGAGGTA-ATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
239315044 GGGACACGCTGAGG------TAATTTC----
127 GGCACACGCTGAGGTCTTTTTAATTTCTGTT
* * * * *
239315065 AATTTCTGTTTGT-CAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCT
1 AATTTCTGTTCGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG--GACATGCT
* *
239315129 GAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAG
64 GAGG-----T-AA-------T-TTCAATTTCTGTTTGT--CAAAAATCAACTCATATTGCGAGAG
* *
239315194 GTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTTAAATTCTG--
113 GTGAGTTGAGCCTC-GGCACACGCTGAGGTCTTTTTAATTTCTGTT
*
239315237 ---TT-T-TTC--AAAAAAATCAACTCATATTGCGAA-AGGTGAGTTGAGCCTCGGGACACGCTG
1 AATTTCTGTTCGTAAAAAAATCAACTCATATTGC-AAGAGGTGAGTTGAGCCTCGGGACATGCTG
* * *
239315294 AGGTAATATCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGC
65 AGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-
*
239315359 TCACATGCTGAGGTCTTTTTAATTTCTG
129 -CACACGCTGAGGTCTTTTTAATTTCTG
239315387 CTTTTCAATT
Statistics
Matches: 763, Mismatches: 93, Indels: 200
0.72 0.09 0.19
Matches are distributed among these distances:
146 38 0.05
147 39 0.05
148 46 0.06
149 11 0.01
150 70 0.09
151 31 0.04
152 7 0.01
153 5 0.01
154 8 0.01
155 2 0.00
158 16 0.02
159 15 0.02
160 18 0.02
161 27 0.04
162 24 0.03
163 29 0.04
164 99 0.13
165 67 0.09
166 120 0.16
167 43 0.06
168 40 0.05
169 2 0.00
170 6 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (157 bp):
AATTTCTGTTCGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACATGCTGA
GGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCA
CACGCTGAGGTCTTTTTAATTTCTGTT
Found at i:239315156 original size:14 final size:14
Alignment explanation
Indices: 239315137--239315164 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
239315127 CTGAGGTCTT
239315137 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
239315151 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
239315165 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:239315238 original size:89 final size:87
Alignment explanation
Indices: 239315062--239315313 Score: 251
Period size: 75 Copynumber: 3.0 Consensus size: 87
239315052 CTGAGGTAAT
* * * *
239315062 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
1 TTCAATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACACG
* *
239315127 CTGAGGTCTTTTCAATTTCTGTTC
64 CTGAGGTATTTTCAAATTCTGTTC
239315151 TTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC
1 TTCAATTTCTGTTCGT--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCACAC
*
239315215 GCTGAGGTATTTTTAAATTCTG---
63 GCTGAGGTATTTTCAAATTCTGTTC
* * *
239315237 ------TT-T-TTC-AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCT
1 TTCAATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCT
* * *
239315293 GAGGTAATATCAATTTCTGTT
66 GAGGTATTTTCAAATTCTGTT
239315314 TGTCAAAAAT
Statistics
Matches: 144, Mismatches: 13, Indels: 24
0.80 0.07 0.13
Matches are distributed among these distances:
74 2 0.01
75 60 0.42
78 3 0.02
79 1 0.01
80 2 0.01
89 37 0.26
91 37 0.26
92 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (87 bp):
TTCAATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCT
GAGGTATTTTCAAATTCTGTTC
Found at i:239315280 original size:75 final size:74
Alignment explanation
Indices: 239315154--239315394 Score: 297
Period size: 75 Copynumber: 3.2 Consensus size: 74
239315144 TCTGTTCTTC
** *
239315154 AATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTG
239315219 AGGTATTTTT
65 AGGTATTTTT
* *
239315229 AAATTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTG
1 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTG
* * *
239315294 AGGTAATATC
65 AGGTATTTTT
* * * *
239315304 AATTTCTGTTTGTC--AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGC
1 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGC
*
239315367 TGAGGTCTTTTT
63 TGAGGTATTTTT
*
239315379 AATTTCTGCTTTTCAA
1 AATTTCTGTTTTTCAA
239315395 TTTCTGTTTT
Statistics
Matches: 140, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
72 2 0.01
73 35 0.25
75 103 0.74
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (74 bp):
AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGA
GGTATTTTT
Found at i:239315396 original size:14 final size:14
Alignment explanation
Indices: 239315373--239315411 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
239315363 ATGCTGAGGT
*
239315373 CTTTTTAATTTCTG
1 CTTTTCAATTTCTG
239315387 CTTTTCAATTTCTG
1 CTTTTCAATTTCTG
*
239315401 TTTTTCAATTT
1 CTTTTCAATTT
239315412 ATATTTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.64
Consensus pattern (14 bp):
CTTTTCAATTTCTG
Found at i:239315418 original size:14 final size:14
Alignment explanation
Indices: 239315388--239315422 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
239315378 TAATTTCTGC
* *
239315388 TTTTCAATTTCTGT
1 TTTTCAATTTATAT
239315402 TTTTCAATTTATAT
1 TTTTCAATTTATAT
239315416 TTTTCAA
1 TTTTCAA
239315423 AAATCAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.23, C:0.11, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:239315494 original size:103 final size:103
Alignment explanation
Indices: 239315302--239315494 Score: 237
Period size: 103 Copynumber: 1.9 Consensus size: 103
239315292 TGAGGTAATA
* * * *
239315302 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGC
1 TCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
* * ** *
239315367 TGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTGTTTT
66 TGAGGTATTTTCAAAATCTACTTTTCAATTTCTGTTTT
* * * *
239315405 TCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTTGGGTTCACATG
1 TCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGCTCACATG
239315470 -TCGAGGTATTTTCAAAAT-TACTTTT
65 CT-GAGGTATTTTCAAAATCTACTTTT
239315495 GCGAGAGGTG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
103 53 0.71
104 22 0.29
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.42
Consensus pattern (103 bp):
TCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
TGAGGTATTTTCAAAATCTACTTTTCAATTTCTGTTTT
Found at i:239316200 original size:30 final size:30
Alignment explanation
Indices: 239316164--239316337 Score: 219
Period size: 30 Copynumber: 5.8 Consensus size: 30
239316154 ACTTTTCTCA
*
239316164 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
239316194 ACTAGCCAC-CCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* * *
239316223 ACTAGCCACTCCTTTTTCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
239316253 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
239316283 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
239316313 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
239316338 CTTGTACCTA
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
29 32 0.25
30 97 0.75
ACGTcount: A:0.26, C:0.48, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:239316907 original size:22 final size:22
Alignment explanation
Indices: 239316859--239316908 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
239316849 TATTCTTTTA
* * *
239316859 ATATATTAGGTATATTTAAATT
1 ATATATTACGTATATATAAAGT
* *
239316881 CTATATTACGTATATATATAGT
1 ATATATTACGTATATATAAAGT
239316903 ATATAT
1 ATATAT
239316909 ATATATATTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (22 bp):
ATATATTACGTATATATAAAGT
Found at i:239316959 original size:22 final size:23
Alignment explanation
Indices: 239316902--239316960 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
239316892 ATATATATAG
239316902 TATATATATATATATTTTAACTAT
1 TATATATAT-TATATTTTAACTAT
* *
239316926 TTTATGTA-TATATCTTTAA-TAT
1 TATATATATTATAT-TTTAACTAT
239316948 TATAT-TATTATAT
1 TATATATATTATAT
239316961 ATATATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 2 0.07
22 17 0.57
23 5 0.17
24 6 0.20
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (23 bp):
TATATATATTATATTTTAACTAT
Found at i:239317210 original size:16 final size:16
Alignment explanation
Indices: 239317186--239317229 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
239317176 TAATTATTGT
*
239317186 TATTCTAATATTT-TGA
1 TATTTTAATATTTAT-A
239317202 TATTTTAATATTTATA
1 TATTTTAATATTTATA
*
239317218 TATTTTATTATT
1 TATTTTAATATT
239317230 CACATCATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 24 0.96
17 1 0.04
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (16 bp):
TATTTTAATATTTATA
Found at i:239319637 original size:28 final size:27
Alignment explanation
Indices: 239319605--239319685 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
239319595 TTAGAATACT
* *
239319605 TTAGTTTACTAAAATTACCGAAATACCC
1 TTAGTTT-GTAAAATTACTGAAATACCC
*
239319633 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTTGTAAAATTACTGAAATACCC
*
239319660 -TCGATTTGTAAAATTACTGAAATACC
1 TTAG-TTTGTAAAATTACTGAAATACC
239319686 TCGACTTGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
26 2 0.04
27 38 0.81
28 7 0.15
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
TTAGTTTGTAAAATTACTGAAATACCC
Found at i:239319687 original size:26 final size:26
Alignment explanation
Indices: 239319614--239319702 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 26
239319604 TTTAGTTTAC
* *
239319614 TAAAATTACCGAAATACC-CTTAGTTTG
1 TAAAATTACTGAAATACCTC-GA-TTTG
*
239319641 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATA-CCTCGATTTG
*
239319668 TAAAATTACTGAAATACCTCGACTTG
1 TAAAATTACTGAAATACCTCGATTTG
239319694 TAAAATTAC
1 TAAAATTAC
239319703 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
26 18 0.33
27 33 0.60
28 3 0.05
29 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.31
Consensus pattern (26 bp):
TAAAATTACTGAAATACCTCGATTTG
Found at i:239319711 original size:26 final size:26
Alignment explanation
Indices: 239319638--239319711 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
239319628 TACCCTTAGT
* * *
239319638 TTGTAAAAATACTGAAATACCCTCGAT
1 TTGTAAAATTACTCAAATA-CCTCGAC
*
239319665 TTGTAAAATTACTGAAATACCTCGAC
1 TTGTAAAATTACTCAAATACCTCGAC
239319691 TTGTAAAATTAC-CAAAGTACC
1 TTGTAAAATTACTCAAA-TACC
239319712 CCGATTTACA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 3 0.07
26 22 0.51
27 18 0.42
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (26 bp):
TTGTAAAATTACTCAAATACCTCGAC
Found at i:239319747 original size:27 final size:26
Alignment explanation
Indices: 239319708--239320023 Score: 368
Period size: 27 Copynumber: 11.8 Consensus size: 26
239319698 ATTACCAAAG
239319708 TACCC-CGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
* *
239319734 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
*
239319761 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
239319788 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTAC-GTTT
*
239319815 TACCCTCGATTTATA-AATTACCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
239319841 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTAC-GTTT
* *
239319868 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
*
239319895 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTAC-GTTT
*
239319922 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
* * *
239319949 TACCGTCGATTTATA-AATTACTATTT
1 TACCCTCGATTTACAGAATTAC-GTTT
* * * *
239319975 TTCTCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTAC-GTTT
*
239320002 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
239320024 AGAAATACCC
Statistics
Matches: 254, Mismatches: 26, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
25 1 0.00
26 49 0.19
27 202 0.80
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (26 bp):
TACCCTCGATTTACAGAATTACGTTT
Found at i:239319840 original size:107 final size:106
Alignment explanation
Indices: 239319708--239320023 Score: 436
Period size: 107 Copynumber: 3.0 Consensus size: 106
239319698 ATTACCAAAG
* * *
239319708 TACCC-CGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTA-AAAATTATCGTTTTACCCTCGATTTACA-AATTACTGTTTTACCCTCGATT
239319772 TACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
64 TACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* *
239319815 TACCCTCGATTTATAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTT
1 TACCCTCGATTTAAAAATTATCGTTTTACCCTCGATTTACA-AATTACTGTTTTACCCTCGATTT
* *
239319880 ATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
65 ACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * * * * *
239319922 TACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAAATTACTATTTTTCTCTTGATTT
1 TACCCTCGATTTA-AAAATTATCGTTTTACCCTCGATTTACAAATTACTGTTTTACCCTCGATTT
* ** *
239319987 ACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
65 ACAAAATTACCGTTTTACCCTCGATTTACAGAATTAC
239320024 AGAAATACCC
Statistics
Matches: 185, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
107 154 0.83
108 31 0.17
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (106 bp):
TACCCTCGATTTAAAAATTATCGTTTTACCCTCGATTTACAAATTACTGTTTTACCCTCGATTTA
CAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
Found at i:239320016 original size:80 final size:79
Alignment explanation
Indices: 239319708--239320023 Score: 404
Period size: 80 Copynumber: 3.9 Consensus size: 79
239319698 ATTACCAAAG
* ** *
239319708 TACCC-CGATTTACAGAATTA-TCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGAT
1 TACCCTCGATTTATA-AATTACT-GTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCGAT
239319771 TTACAAAATTACCGTTT
64 TTACAAAATTA-CGTTT
* * *
239319788 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATA-AATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTATA-AATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATT
*
239319852 TACAGAATTACTGTTT
65 TACAAAATTAC-GTTT
* *
239319868 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTAT-AAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATT
239319933 TACAAAATTATCGTTT
65 TACAAAATTA-CGTTT
* * * * **
239319949 TACCGTCGATTTATAAATTACTATTTTTCTCTTGATTTACAGAATTACTATTTTACCCTCGATTT
1 TACCCTCGATTTATAAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTT
239320014 ACAAAATTAC
66 ACAAAATTAC
239320024 AGAAATACCC
Statistics
Matches: 215, Mismatches: 15, Indels: 13
0.88 0.06 0.05
Matches are distributed among these distances:
79 2 0.01
80 131 0.61
81 80 0.37
82 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (79 bp):
TACCCTCGATTTATAAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTT
ACAAAATTACGTTT
Found at i:239320032 original size:27 final size:27
Alignment explanation
Indices: 239320002--239320087 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
239319992 ATTACTATTT
*
239320002 TACCCTCGATTTACAAAATTA-CAGAAA
1 TACCCTCAATTTACAAAATTACCA-AAA
**
239320029 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* **
239320056 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTACAAAATTACCAAAA
239320083 TACCC
1 TACCC
239320088 ATGGTTTGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 50 0.94
28 2 0.04
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.28
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:239320033 original size:107 final size:108
Alignment explanation
Indices: 239319695--239320049 Score: 403
Period size: 107 Copynumber: 3.3 Consensus size: 108
239319685 CTCGACTTGT
* * * * *
239319695 AAAATTACCA-AAGTACCC-CGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCG
1 AAAATTA-CAGAATTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACTG
239319758 TTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTAC
65 TTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTAC
* * ** * *
239319802 AGAATTACTGTTTTACCCTCGATTTA-TAAATTACCGTTTTACCCTCGATTTACAGAATTACTGT
1 AAAATTACAGAATTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACTGT
* *
239319866 TTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTAC
66 TTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTAC
* * ** * * *
239319909 AGAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATA-AATTACTAT
1 AAAATTACAGAATTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACTGT
* * * * **
239319973 TTTTCTCTTGATTTACAGAATTACTATTTTACCCTCGATTTAC
66 TTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTAC
* * **
239320016 AAAATTACAGAAATACCCTCAATTTGTAAAATTA
1 AAAATTACAGAATTACCCTCGATTTACAAAATTA
239320050 CCAAAATACC
Statistics
Matches: 211, Mismatches: 34, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
106 1 0.00
107 179 0.85
108 31 0.15
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.39
Consensus pattern (108 bp):
AAAATTACAGAATTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACTGT
TTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTAC
Found at i:239320060 original size:134 final size:134
Alignment explanation
Indices: 239319655--239320023 Score: 469
Period size: 134 Copynumber: 2.8 Consensus size: 134
239319645 AATACTGAAA
** *** ***
239319655 TACCCTCGATTTGTAAAATTACTGAAATA-CCTCGACTTGTA-AAATTACCAAAGTACCC-CGAT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGA-TT-TATAAATTACCATTTTACCCTCGAT
* *
239319717 TTACAGAATTA-TCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTACAAAATT
64 TTACAGAATTACT-GTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATT
239319781 ACCGTTT
128 ACCGTTT
* *
239319788 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAAATTACCGTTTTACCCTCGATTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAAATTACCATTTTACCCTCGATTT
* * * *
239319853 ACAGAATTACTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACT
66 ACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACC
239319918 GTTT
131 GTTT
* * * * *
239319922 TACCCTCGATTTACAAAATTA-TCGTTTTACCGTCGATTTATAAATTACTATTTTTCTCTTGATT
1 TACCCTCGATTTACAAAATTACT-GTTTTACCCTCGATTTATAAATTACCATTTTACCCTCGATT
*
239319986 TACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
65 TACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC
239320024 AGAAATACCC
Statistics
Matches: 206, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
132 2 0.01
133 39 0.19
134 164 0.80
135 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.40
Consensus pattern (134 bp):
TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAAATTACCATTTTACCCTCGATTT
ACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACC
GTTT
Found at i:239320074 original size:54 final size:53
Alignment explanation
Indices: 239320016--239320142 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 53
239320006 CTCGATTTAC
* **
239320016 AAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGT-TTGT
1 AAAATTACAGAAATACCCT-AATTTGAAAAATTACCAAAATACCCCT-GTAGGGT
** *
239320070 AAAATTACCA-AAATACCCATGGTTTGAAAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTA-CAGAAATACCC-TAATTTGAAAAATTACCAAAATACCCCTGTAGGGT
*
239320124 AAAATTACTGAAATACCCT
1 AAAATTACAGAAATACCCT
239320143 TGTGGGGTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
53 4 0.06
54 55 0.89
55 3 0.05
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (53 bp):
AAAATTACAGAAATACCCTAATTTGAAAAATTACCAAAATACCCCTGTAGGGT
Found at i:239320076 original size:134 final size:134
Alignment explanation
Indices: 239319708--239320060 Score: 334
Period size: 134 Copynumber: 2.6 Consensus size: 134
239319698 ATTACCAAAG
* * * * *** *
239319708 TACCC-CGATTTACAGAATTA-TCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGAT
1 TACCCTCGATTTACAGAATTACT-ATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAAT
**** * *
239319771 TTACAAAATTACCGTTTTACCCTCGATTTACAGAATTA-CTGTTTTACCCTCGATTTATAAATTA
65 TTACAAAATTACCAAAATACCCTAGATTTACAAAATTATC-GTTTTACCCTCGATTTATAAATTA
*
239319835 CCGTTT
129 CCATTT
* * * *** **
239319841 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
* ***** * * *
239319906 TACAGAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAAATTACT
66 TACAAAATTACCAAAATACCCTAGATTTACAAAATTATCGTTTTACCCTCGATTTATAAATTACC
239319971 ATTT
131 ATTT
* * *
239319975 TTCTCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
**
239320040 TGTAAAATTACCAAAATACCC
66 TACAAAATTACCAAAATACCC
239320061 CTAGTTTGTA
Statistics
Matches: 188, Mismatches: 29, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
133 5 0.03
134 181 0.96
135 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.39
Consensus pattern (134 bp):
TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
TACAAAATTACCAAAATACCCTAGATTTACAAAATTATCGTTTTACCCTCGATTTATAAATTACC
ATTT
Done.