Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 340 of 344
Found at i:110427151 original size:10 final size:10
Alignment explanation
Indices: 110427128--110427160 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
110427118 TAAATAAAAT
110427128 TATTT-TTAA
1 TATTTATTAA
*
110427137 TATTTATTTA
1 TATTTATTAA
110427147 TATTTATTAA
1 TATTTATTAA
110427157 TATT
1 TATT
110427161 AAATATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TATTTATTAA
Found at i:110434807 original size:17 final size:17
Alignment explanation
Indices: 110434787--110434848 Score: 79
Period size: 17 Copynumber: 3.5 Consensus size: 17
110434777 CAATGATATG
110434787 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
* *
110434804 CAATTTTAGATATGATTG
1 CAATCTTAGATATGA-TA
110434822 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
110434841 CAATCTTA
1 CAATCTTA
110434849 AAAGATATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 14 0.37
18 14 0.37
19 9 0.24
20 1 0.03
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:110440632 original size:12 final size:11
Alignment explanation
Indices: 110440615--110440697 Score: 71
Period size: 11 Copynumber: 7.5 Consensus size: 11
110440605 CTTCTATTTC
*
110440615 AAAAAAATAAG
1 AAAAAAAAAAG
110440626 AAAAAAAATAAG
1 AAAAAAAA-AAG
*
110440638 AAAAGAAAAAG
1 AAAAAAAAAAG
*
110440649 AAAAGAAAAAG
1 AAAAAAAAAAG
*
110440660 -AGAAAAAAAG
1 AAAAAAAAAAG
110440670 AAAAAAGAGAAA-
1 AAAAAA-A-AAAG
* *
110440682 AGAGAAAAAAG
1 AAAAAAAAAAG
110440693 AAAAA
1 AAAAA
110440698 TGGAGAGGCC
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
10 11 0.19
11 29 0.50
12 15 0.26
13 3 0.05
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:110440645 original size:17 final size:16
Alignment explanation
Indices: 110440618--110440697 Score: 81
Period size: 17 Copynumber: 4.8 Consensus size: 16
110440608 CTATTTCAAA
*
110440618 AAAATAAGAAAAAAAAT
1 AAAA-AAGAAAAAAAAG
110440635 AAGAAAAGAAAAAGAAA-
1 AA-AAAAGAAAAA-AAAG
110440652 AGAAAAAGAGAAAAAAAG
1 A-AAAAAGA-AAAAAAAG
* *
110440670 AAAAAAGAGAAAAGAG
1 AAAAAAGAAAAAAAAG
110440686 AAAAAAGAAAAA
1 AAAAAAGAAAAA
110440698 TGGAGAGGCC
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
16 17 0.31
17 27 0.49
18 11 0.20
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAG
Found at i:110440663 original size:24 final size:24
Alignment explanation
Indices: 110440615--110440691 Score: 90
Period size: 24 Copynumber: 3.2 Consensus size: 24
110440605 CTTCTATTTC
*
110440615 AAAAAAATAAGAAAA-AAAATA-AG
1 AAAAAAAGAAGAAAAGAAAA-AGAG
110440638 AAAAGAAA-AAGAAAAGAAAAAGAG
1 AAAA-AAAGAAGAAAAGAAAAAGAG
110440662 AAAAAAAGAA-AAAAGAGAAAAGAG
1 AAAAAAAGAAGAAAAGA-AAAAGAG
110440686 AAAAAA
1 AAAAAA
110440692 GAAAAATGGA
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
23 21 0.43
24 28 0.57
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (24 bp):
AAAAAAAGAAGAAAAGAAAAAGAG
Found at i:110440689 original size:23 final size:23
Alignment explanation
Indices: 110440617--110440697 Score: 89
Period size: 23 Copynumber: 3.6 Consensus size: 23
110440607 TCTATTTCAA
*
110440617 AAAAATAAGAAAAAA-AATAAGA-
1 AAAAA-AAGAAAAAAGAAAAAGAG
*
110440639 AAAGAAAA-AGAAAAGAAAAAGAG
1 AAA-AAAAGAAAAAAGAAAAAGAG
110440662 AAAAAAAGAAAAAAGAGAAAAGAG
1 AAAAAAAGAAAAAAGA-AAAAGAG
110440686 -AAAAAAGAAAAA
1 AAAAAAAGAAAAA
110440698 TGGAGAGGCC
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
21 5 0.10
22 15 0.29
23 24 0.47
24 7 0.14
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (23 bp):
AAAAAAAGAAAAAAGAAAAAGAG
Found at i:110441683 original size:43 final size:43
Alignment explanation
Indices: 110441636--110441778 Score: 132
Period size: 43 Copynumber: 3.3 Consensus size: 43
110441626 CGCCTTAACC
110441636 CCCTAAGCAGTAGGGTAACAGG-CTAAAATTATAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTC-AAAATTATAGATCTTATCT
* * ** * *
110441679 CCCTAAGTAGTAGTGG-AACAGATCAACAACGACTCG-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTCAA-AATTA-TAGATCTT-ATCT
* * *
110441723 CCCTAAGCAATAGGGTAACAGGTCAAAATTGTGGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTCAAAATTATAGATCTTATCT
110441766 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
110441779 TGGAGCAGAT
Statistics
Matches: 77, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
42 5 0.06
43 38 0.49
44 29 0.38
45 5 0.06
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGGTCAAAATTATAGATCTTATCT
Found at i:110441772 original size:87 final size:85
Alignment explanation
Indices: 110441625--110441833 Score: 291
Period size: 87 Copynumber: 2.5 Consensus size: 85
110441615 ACAAAATTCA
*
110441625 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGG-CTAAAATTATAGATCTTATCTCCCTAAGTAG
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTATAGATCTTATCTCCCTAAGCAG
110441689 TAGTGGAACAGATCAACAACGACT
66 TAGTGGAACAGATC--CAA-GA-T
* * * *
110441713 -CGCCTTAATCCCCTAAGCAATAGGGTAACAGGTC-AAAATTGTGGATCTTATCTCCCTAAGCAG
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTATAGATCTTATCTCCCTAAGCAG
* *
110441776 TAGTGGAGCAGATCGAAGAT
66 TAGTGGAACAGATCCAAGAT
110441796 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGT-TAAA
1 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTCTAAA
110441834 GTATAGCAGA
Statistics
Matches: 109, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
83 1 0.01
84 36 0.33
85 2 0.02
87 69 0.63
88 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (85 bp):
GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTATAGATCTTATCTCCCTAAGCAG
TAGTGGAACAGATCCAAGAT
Found at i:110442316 original size:207 final size:207
Alignment explanation
Indices: 110441958--110443085 Score: 1828
Period size: 207 Copynumber: 5.5 Consensus size: 207
110441948 CGGAGAGCAG
* * * * *
110441958 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGATGAAGCAAATCTAAGATGATTTGGGA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* *
110442023 TCTTTGTATTGTCAAAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
110442088 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
110442153 TACAAGGAACAA
196 TACAAGGAACAA
* *
110442165 ATTGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTAAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
*
110442230 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
*
110442295 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTATGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
*
110442360 TACAATGAACAA
196 TACAAGGAACAA
*
110442372 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGAA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * * *
110442437 TCTCTGTATTGTTAGAGAACAAATCAAAGTTTGGCGTCTCCATGTTTGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
110442502 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
110442567 TACAAGGAACAA
196 TACAAGGAACAA
* *
110442579 ATTGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTAAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * *
110442644 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTTGACGGAGTGCAGACACAA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
* * *
110442709 AGCAGATCTGGCCTTCAGATGTTTATACTAAAACAAGATCCAAGATGGTTTGGCATCCTTGTCCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
110442774 TACAAGGAACAA
196 TACAAGGAACAA
* *
110442786 ATCGAAGGCATAGCTGATTTGGATTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * * *
110442851 TCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCATCTCCATATTCGACGGAGGACAGACATAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
** * * * *
110442916 AGCAGATCTAACCTTCAGATGATTAGACTGAAGC-AGATCCAAGATGGTTTGGTATCATTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
**
110442980 TACAAGGAGTAA
196 TACAAGGAACAA
** * *
110442992 ATCGAAGACATAGCTGATTTGGCTTTTGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* *
110443057 TCTCTGTATTATCA-AGGAACAAATTGAAG
66 TCTCTGTATTGTCAGA-GAACAAATCGAAG
110443086 AAGCAGATTT
Statistics
Matches: 856, Mismatches: 64, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
205 1 0.00
206 120 0.14
207 735 0.86
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (207 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
TACAAGGAACAA
Found at i:110443549 original size:35 final size:36
Alignment explanation
Indices: 110443488--110443621 Score: 200
Period size: 35 Copynumber: 3.8 Consensus size: 36
110443478 CAATGATATG
* *
110443488 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATACAATCTTAGATATGATA
* *
110443524 CAATTTTAGATATGAT-TGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATACAATCTTAGATATGATA
*
110443559 CAATCTTAGATATGAT-TACAATCTTAGATATGATTG
1 CAATCTTAGATATGATATACAATCTTAGATATGA-TA
110443595 CAATCTTAGATATGATATACAATCTTA
1 CAATCTTAGATATGATATACAATCTTA
110443622 AAAGATATGA
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
35 50 0.55
36 31 0.34
37 10 0.11
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.38
Consensus pattern (36 bp):
CAATCTTAGATATGATATACAATCTTAGATATGATA
Found at i:110443550 original size:18 final size:18
Alignment explanation
Indices: 110443488--110443621 Score: 191
Period size: 18 Copynumber: 7.4 Consensus size: 18
110443478 CAATGATATG
* *
110443488 CAATCTTAGATGTGATATG
1 CAATCTTAGATATGAT-TA
110443507 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
* *
110443524 CAATTTTAGATATGATTG
1 CAATCTTAGATATGATTA
110443542 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
110443559 CAATCTTAGATATGATTA
1 CAATCTTAGATATGATTA
*
110443577 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
110443595 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
110443614 CAATCTTA
1 CAATCTTA
110443622 AAAGATATGA
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
17 31 0.30
18 50 0.48
19 23 0.22
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.38
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:110443593 original size:53 final size:52
Alignment explanation
Indices: 110443480--110443621 Score: 212
Period size: 53 Copynumber: 2.6 Consensus size: 52
110443470 ATAATCTTCA
* *
110443480 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGATATGATACAATTTTAGAT
1 ATGAT-TGCAATCTTAGATATGATA--CAATCTTAGATATGATACAATCTTAGAT
110443535 ATGATTGCAATCTTAGATATGATACAATCTTAGATATGATTACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGATATGA-TACAATCTTAGAT
110443588 ATGATTGCAATCTTAGATATGATATACAATCTTA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTA
110443622 AAAGATATGA
Statistics
Matches: 82, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
52 15 0.18
53 33 0.40
54 18 0.22
55 16 0.20
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (52 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGATATGATACAATCTTAGAT
Found at i:110445253 original size:31 final size:30
Alignment explanation
Indices: 110445192--110445258 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
110445182 CTAGTCTTAC
*
110445192 ATCAACATAAAAGCCTAATTTATAAGAAAAA
1 ATCAA-ATAAAAGCCTAAGTTATAAGAAAAA
110445223 ATCAAATAAAAGCCTAAGTTATAAGAAAAA
1 ATCAAATAAAAGCCTAAGTTATAAGAAAAA
110445253 ATCAAA
1 ATCAAA
110445259 CTTTCTGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 30 0.86
31 5 0.14
ACGTcount: A:0.60, C:0.12, G:0.07, T:0.21
Consensus pattern (30 bp):
ATCAAATAAAAGCCTAAGTTATAAGAAAAA
Found at i:110450127 original size:15 final size:15
Alignment explanation
Indices: 110450107--110450140 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
110450097 GAAGAGGAAG
110450107 AAGAATAAGCCATGA
1 AAGAATAAGCCATGA
110450122 AAGAATAAGCCATGA
1 AAGAATAAGCCATGA
110450137 AAGA
1 AAGA
110450141 GTAGTTAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.12, G:0.21, T:0.12
Consensus pattern (15 bp):
AAGAATAAGCCATGA
Found at i:110451019 original size:3 final size:3
Alignment explanation
Indices: 110451006--110451045 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
110450996 ATTTCAAAGA
110451006 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
110451046 GGCCTCAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:110462569 original size:5 final size:5
Alignment explanation
Indices: 110462559--110462590 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
110462549 ATGTGTGTTC
110462559 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
110462591 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:110462578 original size:14 final size:14
Alignment explanation
Indices: 110462559--110462589 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
110462549 ATGTGTGTTC
110462559 TTTATTTTATTTTA
1 TTTATTTTATTTTA
110462573 TTTATTTTATTTTA
1 TTTATTTTATTTTA
110462587 TTT
1 TTT
110462590 TTCACAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:110465639 original size:41 final size:41
Alignment explanation
Indices: 110465582--110465664 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
110465572 TTTAGACAGT
110465582 TGTGTTTACTTTAAGAAAAACAGTGATGGTTCTTTTGTGTA
1 TGTGTTTACTTTAAGAAAAACAGTGATGGTTCTTTTGTGTA
110465623 TGTGTTTACTTTAAGAAAAACAGTGATGGTTCTTTTGTGTA
1 TGTGTTTACTTTAAGAAAAACAGTGATGGTTCTTTTGTGTA
110465664 T
1 T
110465665 CTGCTTCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.45
Consensus pattern (41 bp):
TGTGTTTACTTTAAGAAAAACAGTGATGGTTCTTTTGTGTA
Found at i:110467061 original size:5 final size:5
Alignment explanation
Indices: 110467051--110467082 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
110467041 ATTTGTGTTC
110467051 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
110467083 TCACATTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:110467065 original size:9 final size:9
Alignment explanation
Indices: 110467051--110467081 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
110467041 ATTTGTGTTC
110467051 TTTATTTTA
1 TTTATTTTA
110467060 TTTATTTTA
1 TTTATTTTA
110467069 TTTTATTTTA
1 -TTTATTTTA
110467079 TTT
1 TTT
110467082 TTCACATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:110469414 original size:17 final size:17
Alignment explanation
Indices: 110469394--110469429 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
110469384 TCCTCTCTGA
110469394 TCTTAATTCCTTCTTCT
1 TCTTAATTCCTTCTTCT
**
110469411 TCTTTTTTCCTTCTTCT
1 TCTTAATTCCTTCTTCT
110469428 TC
1 TC
110469430 ACCTACTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.64
Consensus pattern (17 bp):
TCTTAATTCCTTCTTCT
Found at i:110472982 original size:38 final size:38
Alignment explanation
Indices: 110472939--110473048 Score: 157
Period size: 38 Copynumber: 2.9 Consensus size: 38
110472929 AGATTGGTAC
* * *
110472939 TAAATGGCCCCTATGCAATGTTGTTTTCTTCTTGAATT
1 TAAATGGCCCCTATCCAATGTTGTTTTCTTCCTGAACT
* *
110472977 TAAATGGCCCCTGTCCAATGTTGTTTACTTCCTGAACT
1 TAAATGGCCCCTATCCAATGTTGTTTTCTTCCTGAACT
* *
110473015 TAAGTGGCCCCTTTCCAATGTTGTTTTCTTCCTG
1 TAAATGGCCCCTATCCAATGTTGTTTTCTTCCTG
110473049 TATCAAATGG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.42
Consensus pattern (38 bp):
TAAATGGCCCCTATCCAATGTTGTTTTCTTCCTGAACT
Found at i:110474231 original size:46 final size:46
Alignment explanation
Indices: 110474166--110474349 Score: 253
Period size: 46 Copynumber: 4.0 Consensus size: 46
110474156 TTATCTTTGA
* * * * * *
110474166 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
***
110474212 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
110474258 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
110474304 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
110474350 TTCAACCATG
Statistics
Matches: 125, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 121 0.97
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:110474361 original size:28 final size:28
Alignment explanation
Indices: 110474321--110474377 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
110474311 CCATGGTATC
110474321 TTTCAACCATGGTCTTACACATTTCATA
1 TTTCAACCATGGTCTTACACATTTCATA
110474349 TTTCAACCATGGTCTTACACATTTCATA
1 TTTCAACCATGGTCTTACACATTTCATA
110474377 T
1 T
110474378 CAGGTTGCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (28 bp):
TTTCAACCATGGTCTTACACATTTCATA
Found at i:110474362 original size:74 final size:74
Alignment explanation
Indices: 110474275--110474423 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
110474265 CCATGGTATC
*
110474275 TTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACA
1 TTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACA
110474340 CATTTCATA
66 CATTTCATA
110474349 TTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACA
1 TTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACA
110474414 CATTTCATA
66 CATTTCATA
110474423 T
1 T
110474424 CAGAGAGCAC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.38
Consensus pattern (74 bp):
TTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACA
CATTTCATA
Found at i:110484114 original size:17 final size:17
Alignment explanation
Indices: 110484092--110484127 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
110484082 CAATGATTTC
* *
110484092 TTATTTATTTATTATTA
1 TTATTTAATAATTATTA
110484109 TTATTTAATAATTATTA
1 TTATTTAATAATTATTA
110484126 TT
1 TT
110484128 TATAGTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTTAATAATTATTA
Found at i:110484122 original size:14 final size:14
Alignment explanation
Indices: 110484096--110484129 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
110484086 GATTTCTTAT
*
110484096 TTATTT-ATTATTA
1 TTATTTAATAATTA
110484109 TTATTTAATAATTA
1 TTATTTAATAATTA
110484123 TTATTTA
1 TTATTTA
110484130 TAGTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTAATAATTA
Found at i:110501640 original size:18 final size:18
Alignment explanation
Indices: 110501617--110501713 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
110501607 CAATCCCAAC
*
110501617 TACCGTATACGTGAACAG
1 TACCGTATACGTGAATAG
*
110501635 TACCGTATACGTGAATAA
1 TACCGTATACGTGAATAG
* *
110501653 TGCCGTATACATGAATAG
1 TACCGTATACGTGAATAG
*
110501671 TACCGTATACGTAAATAG
1 TACCGTATACGTGAATAG
* *
110501689 TGCTGTATACGTGAATAG
1 TACCGTATACGTGAATAG
110501707 TACCGTA
1 TACCGTA
110501714 AACGATCGTA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (18 bp):
TACCGTATACGTGAATAG
Found at i:110501673 original size:36 final size:36
Alignment explanation
Indices: 110501619--110501713 Score: 145
Period size: 36 Copynumber: 2.6 Consensus size: 36
110501609 ATCCCAACTA
* *
110501619 CCGTATACGTGAACAGTACCGTATACGTGAATAATG
1 CCGTATACGTGAATAGTACCGTATACGTAAATAATG
* *
110501655 CCGTATACATGAATAGTACCGTATACGTAAATAGTG
1 CCGTATACGTGAATAGTACCGTATACGTAAATAATG
*
110501691 CTGTATACGTGAATAGTACCGTA
1 CCGTATACGTGAATAGTACCGTA
110501714 AACGATCGTA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (36 bp):
CCGTATACGTGAATAGTACCGTATACGTAAATAATG
Found at i:110505236 original size:33 final size:33
Alignment explanation
Indices: 110505189--110505259 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
110505179 CCCAATACAT
*
110505189 CAAATATAATTTTTTATTTGGATAGAGTCTAAG
1 CAAATATAAATTTTTATTTGGATAGAGTCTAAG
110505222 CAAATATAAATTTTTATTTGGATAGAGTCTAAG
1 CAAATATAAATTTTTATTTGGATAGAGTCTAAG
*
110505255 TAAAT
1 CAAAT
110505260 GATGCTCAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (33 bp):
CAAATATAAATTTTTATTTGGATAGAGTCTAAG
Found at i:110510173 original size:21 final size:21
Alignment explanation
Indices: 110510147--110510187 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
110510137 AGACGAGCAA
* *
110510147 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
110510168 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
110510188 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:110525164 original size:31 final size:31
Alignment explanation
Indices: 110525126--110525188 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
110525116 CTTTGTTGAA
110525126 GTTGGTAAATTAAAAGGGTGGCATATAGAAG
1 GTTGGTAAATTAAAAGGGTGGCATATAGAAG
110525157 GTTGGTAAATTAAAAGGGTGGCATATAGAAG
1 GTTGGTAAATTAAAAGGGTGGCATATAGAAG
110525188 G
1 G
110525189 AGGCAAATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.03, G:0.33, T:0.25
Consensus pattern (31 bp):
GTTGGTAAATTAAAAGGGTGGCATATAGAAG
Found at i:110526748 original size:11 final size:11
Alignment explanation
Indices: 110526732--110526762 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
110526722 ATACCCATAC
110526732 CCCATACCTTG
1 CCCATACCTTG
*
110526743 CCCATACCTTT
1 CCCATACCTTG
110526754 CCCATACCT
1 CCCATACCT
110526763 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:110527334 original size:18 final size:18
Alignment explanation
Indices: 110527313--110527363 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
110527303 CGTTTACGGT
110527313 ACTATTCACGTATACGAC
1 ACTATTCACGTATACGAC
**
110527331 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGAC
*
110527349 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
110527364 AGTAGTTGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (18 bp):
ACTATTCACGTATACGAC
Found at i:110531433 original size:11 final size:11
Alignment explanation
Indices: 110531417--110531447 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
110531407 ATACCCATAC
110531417 CCCATACCTTG
1 CCCATACCTTG
*
110531428 CCCATACCTTT
1 CCCATACCTTG
110531439 CCCATACCT
1 CCCATACCT
110531448 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:110534573 original size:39 final size:38
Alignment explanation
Indices: 110534405--110534573 Score: 194
Period size: 39 Copynumber: 4.3 Consensus size: 38
110534395 TATTTTATGT
* * * *
110534405 GGATGAAGATCAGTTTGATGAGATGAGCAAAGATGTATC
1 GGATGAAGATCA-ATTGATGAGACGAGCAATGATGCATC
* * *
110534444 GGGTGAAGGTCAGATTGATGAGACGAGCAATGATGAATC
1 GGATGAAGATCA-ATTGATGAGACGAGCAATGATGCATC
* * *
110534483 AGATGAAGATCAGATTGATGAGACGAGCAGTGAGGCATC
1 GGATGAAGATCA-ATTGATGAGACGAGCAATGATGCATC
* *
110534522 GGATGAAGATCAATTTGATAAGACGAGCAGTGATGCATC
1 GGATGAAGATCAA-TTGATGAGACGAGCAATGATGCATC
110534561 GGATGAAGATCAA
1 GGATGAAGATCAA
110534574 GAAAAGTTCA
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 1 0.01
39 113 0.99
ACGTcount: A:0.36, C:0.11, G:0.32, T:0.21
Consensus pattern (38 bp):
GGATGAAGATCAATTGATGAGACGAGCAATGATGCATC
Found at i:110538166 original size:142 final size:142
Alignment explanation
Indices: 110537670--110539075 Score: 1691
Period size: 142 Copynumber: 9.9 Consensus size: 142
110537660 AAAAATGTGA
* *
110537670 TTGTTGTCATTGATGATGTTAATGACCCAGATTAGATAGATTGTATGAGTGTTAAATATTTTAGT
1 TTGTTGTCATTGATGATATTAATGACCCAGATTAGATAGATTGTATGGGTGTTAAATATTTTAGT
* * * *
110537735 GATGGAAGTAGAATTATTTTGACAACTCAAAATAGATAAAGATGGGTTAACTA-GGTAAAGGACT
66 GATGGAAGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTAAC-AGGGTAAAGGACT
110537799 TTCTT-AGGTCTT
130 TTCTTCAGGTCTT
* * *
110537811 TTGTTGTCATTGATGATGTTAATGGCCCATATTAGATAGATTGTATGGGTGTTAAATATTTTAGT
1 TTGTTGTCATTGATGATATTAATGACCCAGATTAGATAGATTGTATGGGTGTTAAATATTTTAGT
* * * *
110537876 GATGGAAGTAGAATCATTGTAACATCT-AGAGATAGACAAAGATGGGTTAACAAGG-AAAAGAGC
66 GATGGAAGTAGAATCATTGTAACATCTCA-AAATAGATAAAGATGGGTTAACAGGGTAAAGGA-C
110537939 TTTCTTCAGGTC--
129 TTTCTTCAGGTCTT
*
110537951 -TGTTGTCCTTGATGATATTAATGACCCAGATTAGATAGATTGTATGGGTGTTAAATATTTTAGT
1 TTGTTGTCATTGATGATATTAATGACCCAGATTAGATAGATTGTATGGGTGTTAAATATTTTAGT
* *
110538015 GATGGAAGTAGAACCATTATAACATCTCAAAATAGATAAAGATGGGTTAACAGGGTAAAGGACTT
66 GATGGAAGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTAACAGGGTAAAGGACTT
*
110538080 TCTTCAAGTCTT
131 TCTTCAGGTCTT
* * * *
110538092 TTGTTGTCATTGATGATGTTAATGACCCAGATTAGATAGATTGTATGGGTATTTAATATTTTGGT
1 TTGTTGTCATTGATGATATTAATGACCCAGATTAGATAGATTGTATGGGTGTTAAATATTTTAGT
* * * * * *
110538157 GATGGAAGTAG-ATCCATTGTAACATCTCGAGATAGACAAAGATGGGTTAACAAGGAAAATGACT
66 GATGGAAGTAGAAT-CATTGTAACATCTCAAAATAGATAAAGATGGGTTAACAGGGTAAAGGACT
*
110538221 TTCTTTAGGTC--
130 TTCTTCAGGTCTT
* * * *
110538232 -TGTTGTCCTTGATGATATTAATGACCCAAAATTCGATAGATTGTATGGGTATTAAATATTTTAG
1 TTGTTGTCATTGATGATATTAATGACCC-AGATTAGATAGATTGTATGGGTGTTAAATATTTTAG
110538296 TGATGGGTTGAAGAATCTTATTAGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTA
65 TGA-----TG--G------A--AGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTA
* *
110538361 ATAAGGTAAAGGACTTTCTTCAGGTCTT
115 ACAGGGTAAAGGACTTTCTTCAGGTCTT
* * * *
110538389 TTGTTGTCATTGATGATGTTAATAACCGAGATTAGATAGATTGTATGGGTGTTAAATATTTTGGT
1 TTGTTGTCATTGATGATATTAATGACCCAGATTAGATAGATTGTATGGGTGTTAAATATTTTAGT
* * * * * * *
110538454 GATGGAAGTCGAATCATTGTAACATCTCGAGATAGACAAAGACGGGTTAACAGGGAAAAGGATTT
66 GATGGAAGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTAACAGGGTAAAGGACTT
110538519 TCTTCAGG-C--
131 TCTTCAGGTCTT
* * * * *
110538528 CTGTTGTCCTTAATGATATTAATGACCTAGATTAGATAGATTGTATGGGTGTTAAATATTCTT-C
1 TTGTTGTCATTGATGATATTAATGACCCAGATTAGATAGATTGTATGGGTGTTAAATATT-TTAG
* * * * *
110538592 TGATGGAAGTAGAATCATTGTAACATCTCAAAATAGATAATGTTTGGTTAATAGTGTAAACGG-C
65 TGATGGAAGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTAACAGGGTAAA-GGAC
110538656 TTTCTTCAGGTCTT
129 TTTCTTCAGGTCTT
*
110538670 TTGTTGTCATTGATGATATTAATGACTCAGATTAGATAGATTGTATGGGTGTTAAATATTTTAGT
1 TTGTTGTCATTGATGATATTAATGACCCAGATTAGATAGATTGTATGGGTGTTAAATATTTTAGT
* * * *
110538735 GATGGAAGTAGAGTCATTATAAAATCTCAAAATAGATAAAGATGGGTTAACAAGGTAAAGGACTT
66 GATGGAAGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTAACAGGGTAAAGGACTT
*
110538800 TCTTCTGGTCTT
131 TCTTCAGGTCTT
* *
110538812 TTGTTGTCATTGATGATGTTAATGACCCAGATT-GAATAGATTGTATGGGTGTTAAATATGTTAA
1 TTGTTGTCATTGATGATATTAATGACCCAGATTAG-ATAGATTGTATGGGTGTTAAATAT-TTTA
* * * * *
110538876 GTGATAGAAGTAGAATCATTGTAACATCTCTAGATAGACAAAGAT--G-----AGGGAAAAGGAC
64 GTGATGGAAGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTAACAGGGTAAAGGAC
110538934 TTT-TTGCAGG-C--
129 TTTCTT-CAGGTCTT
* * * * * *
110538945 CTGTTGTCCTTAATAATATTAATGACTCTA-ATTAGATAGATTTTATGGGTGTTAAATATTTTAG
1 TTGTTGTCATTGATGATATTAATGAC-CCAGATTAGATAGATTGTATGGGTGTTAAATATTTTAG
* *
110539009 AGATGGAAGTAGAATCATTGTAACTTCTCAAAATAGATAAAGATGGGTTAACAGGGTAAAGGACT
65 TGATGGAAGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTAACAGGGTAAAGGACT
110539074 TT
130 TT
110539076 GCTTAATCTT
Statistics
Matches: 1087, Mismatches: 129, Indels: 100
0.83 0.10 0.08
Matches are distributed among these distances:
132 42 0.04
133 47 0.04
134 4 0.00
135 3 0.00
136 16 0.01
139 272 0.25
140 53 0.05
141 122 0.11
142 360 0.33
143 41 0.04
144 1 0.00
145 2 0.00
147 1 0.00
150 1 0.00
152 2 0.00
153 1 0.00
155 59 0.05
156 2 0.00
157 35 0.03
158 23 0.02
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.35
Consensus pattern (142 bp):
TTGTTGTCATTGATGATATTAATGACCCAGATTAGATAGATTGTATGGGTGTTAAATATTTTAGT
GATGGAAGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTAACAGGGTAAAGGACTT
TCTTCAGGTCTT
Found at i:110538225 original size:281 final size:281
Alignment explanation
Indices: 110537671--110539075 Score: 1786
Period size: 281 Copynumber: 5.0 Consensus size: 281
110537661 AAAATGTGAT
* * *
110537671 TGTTGTCATTGATGATGTTAATGACCCAGATTAGATAGATTGTATGAGTGTTAAATATTTTAGTG
1 TGTTGTCCTTGATGATATTAATGACCCAGATTAGATAGATTGTATGGGTGTTAAATATTTTAGTG
* * * *
110537736 ATGGAAGTAGAATTATTTTGACAACTCAAAATAGATAAAGATGGGTTAACTA-GGTAAAGGACTT
66 ATGGAAGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTAAC-AGGGTAAAGGACTT
* *
110537800 TCTT-AGGTCTTTTGTTGTCATTGATGATGTTAATGGCCCATATTAGATAGATTGTATGGGTGTT
130 TCTTCAGGTCTTTTGTTGTCATTGATGATGTTAATGACCCAGATTAGATAGATTGTATGGGTGTT
*
110537864 AAATATTTTAGTGATGGAAGTAGAATCATTGTAACATCTAGAGATAGACAAAGATGGGTTAACAA
195 AAATATTTTAGTGATGGAAGTAGAATCATTGTAACATCTCGAGATAGACAAAGATGGGTTAACAA
110537929 GGAAAA-GAGCTTTCTTCAGGTC
260 GGAAAAGGA-CTTTCTTCAGGTC
110537951 TGTTGTCCTTGATGATATTAATGACCCAGATTAGATAGATTGTATGGGTGTTAAATATTTTAGTG
1 TGTTGTCCTTGATGATATTAATGACCCAGATTAGATAGATTGTATGGGTGTTAAATATTTTAGTG
* *
110538016 ATGGAAGTAGAACCATTATAACATCTCAAAATAGATAAAGATGGGTTAACAGGGTAAAGGACTTT
66 ATGGAAGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTAACAGGGTAAAGGACTTT
* * *
110538081 CTTCAAGTCTTTTGTTGTCATTGATGATGTTAATGACCCAGATTAGATAGATTGTATGGGTATTT
131 CTTCAGGTCTTTTGTTGTCATTGATGATGTTAATGACCCAGATTAGATAGATTGTATGGGTGTTA
*
110538146 AATATTTTGGTGATGGAAGTAG-ATCCATTGTAACATCTCGAGATAGACAAAGATGGGTTAACAA
196 AATATTTTAGTGATGGAAGTAGAAT-CATTGTAACATCTCGAGATAGACAAAGATGGGTTAACAA
* *
110538210 GGAAAATGACTTTCTTTAGGTC
260 GGAAAAGGACTTTCTTCAGGTC
* * *
110538232 TGTTGTCCTTGATGATATTAATGACCCAAAATTCGATAGATTGTATGGGTATTAAATATTTTAGT
1 TGTTGTCCTTGATGATATTAATGACCC-AGATTAGATAGATTGTATGGGTGTTAAATATTTTAGT
110538297 GATGGGTTGAAGAATCTTATTAGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTAA
65 GA-----TG--G------A--AGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTAA
* * * *
110538362 TAAGGTAAAGGACTTTCTTCAGGTCTTTTGTTGTCATTGATGATGTTAATAACCGAGATTAGATA
115 CAGGGTAAAGGACTTTCTTCAGGTCTTTTGTTGTCATTGATGATGTTAATGACCCAGATTAGATA
* *
110538427 GATTGTATGGGTGTTAAATATTTTGGTGATGGAAGTCGAATCATTGTAACATCTCGAGATAGACA
180 GATTGTATGGGTGTTAAATATTTTAGTGATGGAAGTAGAATCATTGTAACATCTCGAGATAGACA
* * * *
110538492 AAGACGGGTTAACAGGGAAAAGGATTTTCTTCAGGCC
245 AAGATGGGTTAACAAGGAAAAGGACTTTCTTCAGGTC
* * *
110538529 TGTTGTCCTTAATGATATTAATGACCTAGATTAGATAGATTGTATGGGTGTTAAATATTCTT-CT
1 TGTTGTCCTTGATGATATTAATGACCCAGATTAGATAGATTGTATGGGTGTTAAATATT-TTAGT
* * * * *
110538593 GATGGAAGTAGAATCATTGTAACATCTCAAAATAGATAATGTTTGGTTAATAGTGTAAACGG-CT
65 GATGGAAGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTAACAGGGTAAA-GGACT
* *
110538657 TTCTTCAGGTCTTTTGTTGTCATTGATGATATTAATGACTCAGATTAGATAGATTGTATGGGTGT
129 TTCTTCAGGTCTTTTGTTGTCATTGATGATGTTAATGACCCAGATTAGATAGATTGTATGGGTGT
* * * * * *
110538722 TAAATATTTTAGTGATGGAAGTAGAGTCATTATAAAATCTCAAAATAGATAAAGATGGGTTAACA
194 TAAATATTTTAGTGATGGAAGTAGAATCATTGTAACATCTCGAGATAGACAAAGATGGGTTAACA
* *
110538787 AGGTAAAGGACTTTCTTCTGGTC
259 AGGAAAAGGACTTTCTTCAGGTC
* *
110538810 TTTTGTTGTCATTGATGATGTTAATGACCCAGATT-GAATAGATTGTATGGGTGTTAAATATGTT
1 ---TGTTGTCCTTGATGATATTAATGACCCAGATTAG-ATAGATTGTATGGGTGTTAAATAT-TT
* * * * * *
110538874 AAGTGATAGAAGTAGAATCATTGTAACATCTCTAGATAGACAAAGAT--G-----AGGGAAAAGG
61 TAGTGATGGAAGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTAACAGGGTAAAGG
* * * * * * *
110538932 ACTTT-TTGCAGG-C--CTGTTGTCCTTAATAATATTAATGACTCTA-ATTAGATAGATTTTATG
126 ACTTTCTT-CAGGTCTTTTGTTGTCATTGATGATGTTAATGAC-CCAGATTAGATAGATTGTATG
* * * * *
110538992 GGTGTTAAATATTTTAGAGATGGAAGTAGAATCATTGTAACTTCTCAAAATAGATAAAGATGGGT
189 GGTGTTAAATATTTTAGTGATGGAAGTAGAATCATTGTAACATCTCGAGATAGACAAAGATGGGT
* *
110539057 TAACAGGGTAAAGGACTTT
254 TAACAAGGAAAAGGACTTT
110539076 GCTTAATCTT
Statistics
Matches: 1002, Mismatches: 91, Indels: 69
0.86 0.08 0.06
Matches are distributed among these distances:
275 116 0.12
276 1 0.00
277 5 0.00
278 14 0.01
279 1 0.00
280 125 0.12
281 345 0.34
282 40 0.04
283 3 0.00
284 53 0.05
285 39 0.04
287 2 0.00
289 2 0.00
291 2 0.00
295 1 0.00
296 32 0.03
297 219 0.22
298 2 0.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.35
Consensus pattern (281 bp):
TGTTGTCCTTGATGATATTAATGACCCAGATTAGATAGATTGTATGGGTGTTAAATATTTTAGTG
ATGGAAGTAGAATCATTGTAACATCTCAAAATAGATAAAGATGGGTTAACAGGGTAAAGGACTTT
CTTCAGGTCTTTTGTTGTCATTGATGATGTTAATGACCCAGATTAGATAGATTGTATGGGTGTTA
AATATTTTAGTGATGGAAGTAGAATCATTGTAACATCTCGAGATAGACAAAGATGGGTTAACAAG
GAAAAGGACTTTCTTCAGGTC
Found at i:110540469 original size:75 final size:75
Alignment explanation
Indices: 110540378--110540516 Score: 224
Period size: 75 Copynumber: 1.9 Consensus size: 75
110540368 TCAAACTGAC
*
110540378 ACATGCCTTAACTTCATCACTTATCTACTCAAAGCTGTGAAAGAGGCAATGATGAAGGTCTTCTT
1 ACATGCCTTAACTTCATCACTCATCTACTCAAAGCTGTGAAAGAGGCAATGATGAAGGTCTTCTT
110540443 CTTCTTCTTT
66 CTTCTTCTTT
* * * * *
110540453 ACATGCTTTAACTTCATCACTCATCTACTCAAAGCTTTGAAAGAGGTAATTATGAATGTCTTCT
1 ACATGCCTTAACTTCATCACTCATCTACTCAAAGCTGTGAAAGAGGCAATGATGAAGGTCTTCT
110540517 CCCATGATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 58 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (75 bp):
ACATGCCTTAACTTCATCACTCATCTACTCAAAGCTGTGAAAGAGGCAATGATGAAGGTCTTCTT
CTTCTTCTTT
Found at i:110544355 original size:98 final size:99
Alignment explanation
Indices: 110544242--110544439 Score: 335
Period size: 99 Copynumber: 2.0 Consensus size: 99
110544232 TTCTAGAAAT
* * *
110544242 AGATGCAAGATG-TTTTGAAATGATTGATTTAGGTTTGATGACTTATTTTCTTAGCTTTGAAGTG
1 AGATGCAAGATGTTTTTAAAATGATTGATTTAGGTTTGATGACTTATTTTCTTAGCATGGAAGTG
110544306 AATCAAATTGAACATGGCATCCTCATAAGCCAAC
66 AATCAAATTGAACATGGCATCCTCATAAGCCAAC
*
110544340 AGATGTAAGATGTTTTTAAAATGATTGATTTAGGTTTGATGACTTATTTTCTTAGCATGGAAGTG
1 AGATGCAAGATGTTTTTAAAATGATTGATTTAGGTTTGATGACTTATTTTCTTAGCATGGAAGTG
* *
110544405 AATCAGATTGAACATGGCATCTTCATAAGCCAAC
66 AATCAAATTGAACATGGCATCCTCATAAGCCAAC
110544439 A
1 A
110544440 AGCTTTTGCA
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 11 0.12
99 82 0.88
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (99 bp):
AGATGCAAGATGTTTTTAAAATGATTGATTTAGGTTTGATGACTTATTTTCTTAGCATGGAAGTG
AATCAAATTGAACATGGCATCCTCATAAGCCAAC
Found at i:110545754 original size:168 final size:167
Alignment explanation
Indices: 110545463--110545798 Score: 609
Period size: 168 Copynumber: 2.0 Consensus size: 167
110545453 AATGTAATGA
110545463 AGCTATTTATGCAAATTGTATTGCTACTAATTATAGTAATGAGAGTTGTCAATTTTTCTCTCAAC
1 AGCTATTTATGCAAATTGTATTGCTACTAATTATAGTAATGAGAGTTGTCAATTTTTCTCTCAAC
**
110545528 CGATTTGTTTTTACTTCTGTTTTTCAACTTTCAAACACAAATTTTCTTTGTTTTGATCTTTGGAT
66 CGATTTGTTTTTACTTCTGGCTTTCAACTTTCAAACACAAATTTTCTTTGTTTTGATCTTTGGAT
*
110545593 GTTGATATAACTCAACAAACTGTCATGCTCTAGTCCG
131 GCTGATATAACTCAACAAACTGTCATGCTCTAGTCCG
110545630 AGCTATTTATGCAAATTGTATTGCTACTAATTATAGTAATGAGAGTTGTCAATTTTTTCTCTCAA
1 AGCTATTTATGCAAATTGTATTGCTACTAATTATAGTAATGAGAGTTGTCAA-TTTTTCTCTCAA
* *
110545695 CCGATTTGTTTTTGCTTCTGGCTTTCATCTTTCAAACACAAATTTTCTTTGTTTTGATCTTTGGA
65 CCGATTTGTTTTTACTTCTGGCTTTCAACTTTCAAACACAAATTTTCTTTGTTTTGATCTTTGGA
*
110545760 TGCTGATATAGCTCAACAAACTGTCATGCTCTAGTCCG
130 TGCTGATATAACTCAACAAACTGTCATGCTCTAGTCCG
110545798 A
1 A
110545799 AGCTTCAAGC
Statistics
Matches: 162, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
167 52 0.32
168 110 0.68
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (167 bp):
AGCTATTTATGCAAATTGTATTGCTACTAATTATAGTAATGAGAGTTGTCAATTTTTCTCTCAAC
CGATTTGTTTTTACTTCTGGCTTTCAACTTTCAAACACAAATTTTCTTTGTTTTGATCTTTGGAT
GCTGATATAACTCAACAAACTGTCATGCTCTAGTCCG
Found at i:110550072 original size:14 final size:14
Alignment explanation
Indices: 110550053--110550101 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
110550043 TACCAAGGAA
110550053 GATTTTCTTGGCCT
1 GATTTTCTTGGCCT
***
110550067 GATTTTCTT--TAA
1 GATTTTCTTGGCCT
110550079 GATTTTCTTGGCCT
1 GATTTTCTTGGCCT
110550093 GATTTTCTT
1 GATTTTCTT
110550102 TAAGCCAAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
12 9 0.33
14 18 0.67
ACGTcount: A:0.12, C:0.16, G:0.16, T:0.55
Consensus pattern (14 bp):
GATTTTCTTGGCCT
Found at i:110550087 original size:26 final size:26
Alignment explanation
Indices: 110550051--110550105 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
110550041 CATACCAAGG
110550051 AAGATTTTCTTGGCCTGATTTTCTTT
1 AAGATTTTCTTGGCCTGATTTTCTTT
110550077 AAGATTTTCTTGGCCTGATTTTCTTT
1 AAGATTTTCTTGGCCTGATTTTCTTT
110550103 AAG
1 AAG
110550106 CCAAAGATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.18, C:0.15, G:0.16, T:0.51
Consensus pattern (26 bp):
AAGATTTTCTTGGCCTGATTTTCTTT
Found at i:110551206 original size:33 final size:34
Alignment explanation
Indices: 110551131--110551214 Score: 91
Period size: 33 Copynumber: 2.5 Consensus size: 34
110551121 TGGGGAAATC
* * * *
110551131 TAAGGGATTTGGGG-ATTTTGATTTGGGGAAAAAT
1 TAAGGGATTTGGGGAAATTT-ATTAGGCGAAAAAA
*
110551165 TAAAGGATTTGGGGAAATTT-TTAGGCGAAAAAA
1 TAAGGGATTTGGGGAAATTTATTAGGCGAAAAAA
*
110551198 TAAGGGATTTCGGGAAA
1 TAAGGGATTTGGGGAAA
110551215 ATGATTTGGG
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 25 0.60
34 13 0.31
35 4 0.10
ACGTcount: A:0.36, C:0.02, G:0.32, T:0.30
Consensus pattern (34 bp):
TAAGGGATTTGGGGAAATTTATTAGGCGAAAAAA
Found at i:110551696 original size:13 final size:15
Alignment explanation
Indices: 110551643--110551693 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
110551633 ATAAATTAAA
* *
110551643 TTTAACATTTAATAT
1 TTTAACACTTAATTT
*
110551658 TTTAATA-TATAATTT
1 TTTAACACT-TAATTT
110551673 TTTAACACTTAATTT
1 TTTAACACTTAATTT
110551688 TTTAAC
1 TTTAAC
110551694 TTATCATACA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 1 0.03
15 29 0.94
16 1 0.03
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTAACACTTAATTT
Found at i:110554012 original size:17 final size:16
Alignment explanation
Indices: 110553982--110554015 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
110553972 GTGTAAATTT
*
110553982 TTTTTAATAATTTAAA
1 TTTTTAAAAATTTAAA
110553998 TTTTTAAAAAGTTTAAA
1 TTTTTAAAAA-TTTAAA
110554015 T
1 T
110554016 GAAAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTTAAAAATTTAAA
Found at i:110558565 original size:189 final size:189
Alignment explanation
Indices: 110558233--110558721 Score: 653
Period size: 189 Copynumber: 2.6 Consensus size: 189
110558223 GTTGGAATCA
* * * *
110558233 CTTCATGATCTGGATCTTAGTCATTGCCCAATAGCCGAATTCCCAAAAATCCCAAGAAGCTTGAC
1 CTTCGTGATCTGAATCTTAGTCATTGCCCAATAGCCGAATTCCCAGAAATCCCAAGAAGCTTAAC
* * *
110558298 AGAATTAAACTTATCTGAAACTCAAATTGAAGATGTGTGCTTGTCTAGCGACACTCCAAGCAATC
66 AGAATTAAACTTATCTGGAACTCAAATTGAAGAAGTGTCCTTGTCTAGCGACACTCCAAGCAATC
* * **
110558363 TTCAGAAGTTAGATATGAGTGGCTCAAGGGTGAAA-AATGTATCCATCAAGATGGATTCC
131 TTCAGAAGTTAGATATGAGGGGCTCAAGAGT-AAAGAATGTATCCATCAAGATGGAAGCC
* * *
110558422 CTTCGTGATCTGAATCTTAGTCATTGCCCAATAGTCAAATTTCCC-GAAATCCCAAGAACCTTAA
1 CTTCGTGATCTGAATCTTAGTCATTGCCCAATAGCCGAA-TTCCCAGAAATCCCAAGAAGCTTAA
* * ** * ** *
110558486 CAAAATTAAACTTATCTGGAACTCAAATTGAAGAGGTGTCCTTGTCTCTCGACTCTGTAGGCAAT
65 CAGAATTAAACTTATCTGGAACTCAAATTGAAGAAGTGTCCTTGTCTAGCGACACTCCAAGCAAT
*
110558551 CTTCA-AACGTTAGATATGAGGGGCTCAAGAGTAAAGAATGTATCGATCAAGATGGAAGCC
130 CTTCAGAA-GTTAGATATGAGGGGCTCAAGAGTAAAGAATGTATCCATCAAGATGGAAGCC
* * *
110558611 CTCCGTGATCTGAATCTTAGTCATTGCCCAATAACCGAATTCCCAGAAATCCCAAGAAGCTTAAG
1 CTTCGTGATCTGAATCTTAGTCATTGCCCAATAGCCGAATTCCCAGAAATCCCAAGAAGCTTAAC
* * *
110558676 AGAATTAAATTTATCTGGGACTCAAATT-AAGGAAGTGACCTTGTCT
66 AGAATTAAACTTATCTGGAACTCAAATTGAA-GAAGTGTCCTTGTCT
110558722 TTAGACTCCC
Statistics
Matches: 262, Mismatches: 33, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
188 12 0.05
189 245 0.94
190 5 0.02
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (189 bp):
CTTCGTGATCTGAATCTTAGTCATTGCCCAATAGCCGAATTCCCAGAAATCCCAAGAAGCTTAAC
AGAATTAAACTTATCTGGAACTCAAATTGAAGAAGTGTCCTTGTCTAGCGACACTCCAAGCAATC
TTCAGAAGTTAGATATGAGGGGCTCAAGAGTAAAGAATGTATCCATCAAGATGGAAGCC
Found at i:110561690 original size:23 final size:21
Alignment explanation
Indices: 110561632--110561690 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 21
110561622 AAATAATATG
*
110561632 GTATTAAAGGTATATACATAA
1 GTATTAAAGATATATACATAA
110561653 -TATATATAAGAATATATACATAAA
1 GTAT-TA-AAG-ATATATACAT-AA
110561677 GTATTAAAG-TATAT
1 GTATTAAAGATATAT
110561691 GTGTAAGATG
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
20 3 0.09
21 7 0.22
22 3 0.09
23 12 0.38
24 4 0.12
25 3 0.09
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (21 bp):
GTATTAAAGATATATACATAA
Found at i:110561948 original size:3 final size:3
Alignment explanation
Indices: 110561940--110561990 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
110561930 AAGGATACTG
*
110561940 ATA ATA ATA ATA ATA ATA ACA ATA A-A TATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
110561985 ATA ATA
1 ATA ATA
110561991 GGCAAAGTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 1 0.02
3 42 0.95
4 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:110570745 original size:3 final size:3
Alignment explanation
Indices: 110570737--110570771 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
110570727 TCTTTCATGG
* *
110570737 CTT CTT CTT CTT CTT CTT CTT CCT CTT CCT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
110570772 CCTCAAACAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (3 bp):
CTT
Found at i:110572736 original size:44 final size:44
Alignment explanation
Indices: 110572673--110572759 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
110572663 TATCACTGTG
110572673 AATGAGCATTGTCTTAGGATACATAACATGAGATTTTCACAATT
1 AATGAGCATTGTCTTAGGATACATAACATGAGATTTTCACAATT
*
110572717 AATGAGCATTGTCTTAGGATATATAACATGAGATTTTCACAAT
1 AATGAGCATTGTCTTAGGATACATAACATGAGATTTTCACAAT
110572760 GATTTATTGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (44 bp):
AATGAGCATTGTCTTAGGATACATAACATGAGATTTTCACAATT
Found at i:110574174 original size:189 final size:187
Alignment explanation
Indices: 110573678--110574221 Score: 648
Period size: 189 Copynumber: 2.9 Consensus size: 187
110573668 ATTTCAAAGT
* * * * *
110573678 TGGAATCACTTCGTGATATGGATCTTAGTCATTGTCCAATGGTCGAATTCCCAGAAATTCCC-AG
1 TGGAATCCCTTCGTGATCTGAATCTTAGTCATTGCCCAATGATCGAATTCCCAGAAA-TCCCAAG
* * * * * * *
110573742 AAGCTTGACAGATTTAAACTTATCTGAAACTCAAATTGAAGAGGTGTGCTTGTCTCTTGCCACTC
65 AAGCTT-AGAGAATTAAACTTATCTGGAACTCAAATTGAAGAGGTGTACTTGTCTCTAGACTCTC
* * * *
110573807 CAAGTAATCTTCAGAGCTTAAATATGAGTGGCTCAAGGGTCAAAATTGTATCGATCAAGA
129 TAAATAATCTTCAGAG-TTAAATATGAGTTGCTCAAGGGTAAAAATTGTATCGATCAAGA
*
110573867 TGGAATCCCTTCGTGATCTGAATCTTAGTCATTGCCCAAT-AGTCAAATTTCCC-GAAATCCCAA
1 TGGAATCCCTTCGTGATCTGAATCTTAGTCATTGCCCAATGA-TCGAA-TTCCCAGAAATCCCAA
* * * *
110573930 GAAGCTTAGCAAAATTAAACTTATCCGGAACTCAAATTGAAGAGGTGTCCTTGTCTCTCGACTCT
64 GAAGCTTAG-AGAATTAAACTTATCTGGAACTCAAATTGAAGAGGTGTACTTGTCTCTAGACTCT
* ** *
110573995 TTATTTAATCTTCAGACGTTAGATATGAGTTGCTCAAGGGTAAAAAGTT-TATCGATCAAGA
128 CTAAATAATCTTCAGA-GTTAAATATGAGTTGCTCAAGGGTAAAAA-TTGTATCGATCAAGA
*
110574056 TGGAATCCCTTTGTGATCTGAATCTTAGTCATTGCCCAATGATCGAATTCCCAGAAATCCCAAGA
1 TGGAATCCCTTCGTGATCTGAATCTTAGTCATTGCCCAATGATCGAATTCCCAGAAATCCCAAGA
* * * * * *
110574121 AGCTTAAGAGAATTAAATTTATCTGGGACTCAAATT-AAGGAAGCGAACTTGTCTTTAGACTCTC
66 AGCTT-AGAGAATTAAACTTATCTGGAACTCAAATTGAA-GAGGTGTACTTGTCTCTAGACTCTC
* *
110574185 TAAATAATCTTCAGAAGTTAAAGATGAGCTGCTCAAG
129 TAAATAATCTTCAG-AGTTAAATATGAGTTGCTCAAG
110574222 TATTCAAAAG
Statistics
Matches: 304, Mismatches: 40, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
188 12 0.04
189 280 0.92
190 12 0.04
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (187 bp):
TGGAATCCCTTCGTGATCTGAATCTTAGTCATTGCCCAATGATCGAATTCCCAGAAATCCCAAGA
AGCTTAGAGAATTAAACTTATCTGGAACTCAAATTGAAGAGGTGTACTTGTCTCTAGACTCTCTA
AATAATCTTCAGAGTTAAATATGAGTTGCTCAAGGGTAAAAATTGTATCGATCAAGA
Found at i:110576405 original size:25 final size:25
Alignment explanation
Indices: 110576377--110576456 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
110576367 AATTGTTCAT
110576377 AATAAATACAAATTTATTTACACAA
1 AATAAATACAAATTTATTTACACAA
* * * *
110576402 AATAAATA-TAA-TAATTGT--TCAT
1 AATAAATACAAATTTATT-TACACAA
*
110576424 AATAAATACAAATTTATTTACATAA
1 AATAAATACAAATTTATTTACACAA
110576449 AATAAATA
1 AATAAATA
110576457 AACATATTTA
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 10 0.24
23 7 0.17
24 7 0.17
25 17 0.41
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.35
Consensus pattern (25 bp):
AATAAATACAAATTTATTTACACAA
Found at i:110576422 original size:47 final size:47
Alignment explanation
Indices: 110576365--110576456 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
110576355 TGCAACAATT
110576365 ATAATTGTTCATAATAAATACAAATTTATTTACACAAAATAAATATA
1 ATAATTGTTCATAATAAATACAAATTTATTTACACAAAATAAATATA
*
110576412 ATAATTGTTCATAATAAATACAAATTTATTTACATAAAATAAATA
1 ATAATTGTTCATAATAAATACAAATTTATTTACACAAAATAAATA
110576457 AACATATTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (47 bp):
ATAATTGTTCATAATAAATACAAATTTATTTACACAAAATAAATATA
Found at i:110581540 original size:41 final size:41
Alignment explanation
Indices: 110581483--110581721 Score: 290
Period size: 41 Copynumber: 5.8 Consensus size: 41
110581473 GAATATAATA
* *
110581483 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
*
110581524 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
110581565 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
110581606 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
110581647 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
110581688 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
110581722 ATCTGTTTAA
Statistics
Matches: 179, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 3 0.02
40 8 0.04
41 166 0.93
42 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:110581704 original size:123 final size:123
Alignment explanation
Indices: 110581493--110581721 Score: 322
Period size: 123 Copynumber: 1.9 Consensus size: 123
110581483 CAGACGTTAC
*
110581493 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGA
* * **
110581558 TACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAT
66 TACATATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGATACATTTCAGACTATAT
* *
110581616 GTCTAGCAGGCTTAATGCCGGTG-A-TACATTTCAGACTATATGTCTAGCAGGCTAAGTGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TTCAGACTATAAGTCTAGCAGGCTAAATGCCGGT
*
110581679 G-TAC-TGAATCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
64 GATACAT--ATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGA
110581722 ATCTGTTTAA
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
121 3 0.03
122 5 0.05
123 86 0.91
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (123 bp):
GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGA
TACATATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGATACATTTCAGACTATAT
Found at i:110601412 original size:18 final size:19
Alignment explanation
Indices: 110601389--110601424 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
110601379 TCAAAACTTT
110601389 ATTTTAATTTTT-TTATAA
1 ATTTTAATTTTTATTATAA
110601407 ATTTTAATTTTTATTATA
1 ATTTTAATTTTTATTATA
110601425 CTTTAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTAATTTTTATTATAA
Found at i:110601433 original size:18 final size:18
Alignment explanation
Indices: 110601389--110601435 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
110601379 TCAAAACTTT
*
110601389 ATTTTAATTTTTTTATAA
1 ATTTAAATTTTTTTATAA
*
110601407 ATTTTAATTTTTATTAT-A
1 ATTTAAATTTTT-TTATAA
*
110601425 CTTTAAATTTT
1 ATTTAAATTTT
110601436 GTTTTACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTAAATTTTTTTATAA
Found at i:110602896 original size:19 final size:19
Alignment explanation
Indices: 110602853--110602896 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
110602843 TTTAATAAAA
110602853 TATAAAATTTAAATTTTAT
1 TATAAAATTTAAATTTTAT
*
110602872 TA-AAAA-TTAGAATTTTTT
1 TATAAAATTTA-AATTTTAT
110602890 TATAAAA
1 TATAAAA
110602897 ACTGTAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 13 0.59
19 6 0.27
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TATAAAATTTAAATTTTAT
Found at i:110603036 original size:11 final size:10
Alignment explanation
Indices: 110603008--110603032 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
110602998 ACACTTGGTG
110603008 AAAAATAATA
1 AAAAATAATA
110603018 AAAAATAATA
1 AAAAATAATA
110603028 AAAAA
1 AAAAA
110603033 ATAAAAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATAATA
Found at i:110603187 original size:9 final size:9
Alignment explanation
Indices: 110603152--110603264 Score: 72
Period size: 9 Copynumber: 12.3 Consensus size: 9
110603142 TATAAAATTC
110603152 TATAATTTT
1 TATAATTTT
*
110603161 T-TTATTTT
1 TATAATTTT
110603169 TAT-ATATTT
1 TATAAT-TTT
110603178 TATAATTTTTT
1 TATAA--TTTT
*
110603189 TACAATTTT
1 TATAATTTT
*
110603198 TATAAAATTT
1 TAT-AATTTT
*
110603208 TATGATTTT
1 TATAATTTT
*
110603217 TATGATTTT
1 TATAATTTT
*
110603226 TCTAATTTT
1 TATAATTTT
*
110603235 TAATAAATTT
1 T-ATAATTTT
*
110603245 T-TAATATT
1 TATAATTTT
110603253 TA-AACTTTT
1 TATAA-TTTT
110603262 TAT
1 TAT
110603265 TTAAATTTTA
Statistics
Matches: 81, Mismatches: 13, Indels: 19
0.72 0.12 0.17
Matches are distributed among these distances:
8 17 0.21
9 40 0.49
10 16 0.20
11 7 0.09
12 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (9 bp):
TATAATTTT
Found at i:110603244 original size:48 final size:48
Alignment explanation
Indices: 110603155--110603247 Score: 118
Period size: 48 Copynumber: 1.9 Consensus size: 48
110603145 AAAATTCTAT
* * *
110603155 AATTTTTTTATTTTTATATATTTTATAATTTTTTTACAATTTTTATAA
1 AATTTTATGATTTTTATATATTTTATAATTTTTATACAATTTTTATAA
*
110603203 AATTTTATGATTTTTATGAT-TTTTCTAATTTTTAATA-AATTTTTA
1 AATTTTATGATTTTTAT-ATATTTTATAATTTTT-ATACAATTTTTA
110603248 ATATTTAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 35 0.90
49 4 0.10
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (48 bp):
AATTTTATGATTTTTATATATTTTATAATTTTTATACAATTTTTATAA
Found at i:110603261 original size:27 final size:27
Alignment explanation
Indices: 110603231--110603283 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
110603221 ATTTTTCTAA
*
110603231 TTTTTA-ATAAATTTTTAATATTTAAAC
1 TTTTTATATAAA-TTTTAATATATAAAC
*
110603258 TTTTTATTTAAATTTTAATATATAAA
1 TTTTTATATAAATTTTAATATATAAA
110603284 ATCTCCCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTTATATAAATTTTAATATATAAAC
Found at i:110603522 original size:30 final size:30
Alignment explanation
Indices: 110603486--110603545 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
110603476 ATTTCATCAG
110603486 TAGTTTTTGTGGAAATAAGTTAGCCATAAC
1 TAGTTTTTGTGGAAATAAGTTAGCCATAAC
110603516 TAGTTTTTGTGGAAATAAGTTAGCCATAAC
1 TAGTTTTTGTGGAAATAAGTTAGCCATAAC
110603546 GTAGAGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (30 bp):
TAGTTTTTGTGGAAATAAGTTAGCCATAAC
Found at i:110604314 original size:34 final size:34
Alignment explanation
Indices: 110604271--110604340 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
110604261 TGTCTTGGAG
110604271 TTCAATTTTAAGCAATCAAATGATAGTTAGAGAT
1 TTCAATTTTAAGCAATCAAATGATAGTTAGAGAT
110604305 TTCAATTTTAAGCAATCAAATGATAGTTAGAGAT
1 TTCAATTTTAAGCAATCAAATGATAGTTAGAGAT
110604339 TT
1 TT
110604341 TAGAATGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (34 bp):
TTCAATTTTAAGCAATCAAATGATAGTTAGAGAT
Found at i:110606598 original size:18 final size:16
Alignment explanation
Indices: 110606566--110606604 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
110606556 CCTAAAGGTG
*
110606566 ATTTTATCTTCTTTTTT
1 ATTTTATCTT-ATTTTT
110606583 ATTTTACTCTTATTTTT
1 ATTTTA-TCTTATTTTT
110606600 ATTTT
1 ATTTT
110606605 TATTTTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTATCTTATTTTT
Found at i:110613242 original size:21 final size:22
Alignment explanation
Indices: 110613218--110613261 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
110613208 TTATTTCGAA
110613218 TATATAACATAGGTTTA-GACT
1 TATATAACATAGGTTTACGACT
*
110613239 TATATAGCATAGGTTTACGACT
1 TATATAACATAGGTTTACGACT
110613261 T
1 T
110613262 TCATAAGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (22 bp):
TATATAACATAGGTTTACGACT
Found at i:110614836 original size:4 final size:5
Alignment explanation
Indices: 110614809--110614837 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
110614799 GTGAAACAAT
110614809 ATAAA ATAAA ATAAA ATAAA AT-AA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
110614838 GCACTTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:110615276 original size:26 final size:25
Alignment explanation
Indices: 110615247--110615311 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
110615237 AAAAATAAGT
110615247 GTATATGTATATATATAGTACAAAAA
1 GTATATGTATATATATA-TACAAAAA
*
110615273 GTATGCATGTA-A-ATATATAGAAAAA
1 GTAT--ATGTATATATATATACAAAAA
*
110615298 -TATATTTATATATA
1 GTATATGTATATATA
110615312 AAAGAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
24 6 0.18
25 7 0.21
26 9 0.27
27 1 0.03
28 5 0.15
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (25 bp):
GTATATGTATATATATATACAAAAA
Found at i:110615359 original size:3 final size:3
Alignment explanation
Indices: 110615344--110615405 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
110615334 GAGAGCAACT
* *
110615344 ATA ATA ATG ATA ATA ATA ATA ATA CAAA ATA ATA AT- ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
110615388 GA-A AT- ATA ATA ATGA ATA
1 -ATA ATA ATA ATA AT-A ATA
110615406 GATGAGTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
2 7 0.15
3 35 0.73
4 6 0.12
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:110616943 original size:44 final size:44
Alignment explanation
Indices: 110616828--110616945 Score: 116
Period size: 44 Copynumber: 2.7 Consensus size: 44
110616818 ATTTTAACCC
* * ** * *
110616828 ACTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCT
1 ACTCCACTGTAACTTCAGGGGGATAAGATCTCTGGCTTCAATCT
* *
110616871 GCTCCGCTGTAA-TCTC-GGGGAGATAAGATCTCTGGCTTCAATCT
1 ACTCCACTGTAACT-TCAGGGG-GATAAGATCTCTGGCTTCAATCT
*
110616915 ACTCCACTGTAACTTCAGGGGGACAAGATCT
1 ACTCCACTGTAACTTCAGGGGGATAAGATCT
110616946 GTAATTTCCA
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
42 4 0.07
43 19 0.32
44 31 0.53
45 5 0.08
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (44 bp):
ACTCCACTGTAACTTCAGGGGGATAAGATCTCTGGCTTCAATCT
Found at i:110617185 original size:86 final size:86
Alignment explanation
Indices: 110617079--110617291 Score: 331
Period size: 86 Copynumber: 2.5 Consensus size: 86
110617069 AATCTGTAAC
* *
110617079 CTTTAACCAGCTCCAATGCAACCGATGGAGGCAAGGCTTTGTTTTTGATCTGCTTTGCCGTTAAT
1 CTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTTGCCGTTAAT
110617144 GCAGGAAGGCAAGATCTGCTT
66 GCAGGAAGGCAAGATCTGCTT
* * * *
110617165 CTTTAACTAGCTCCACTGCAATCGATGGATGCAAGGCTTTGTTTTCGATCTGCTTTGCTGTTAAT
1 CTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTTGCCGTTAAT
*
110617230 GTAGGAAGGCAAGATCTGCTT
66 GCAGGAAGGCAAGATCTGCTT
*
110617251 CTTTAACCAGCTCCACTTCAACCGA-GAGAGGCAAGG-TTTGT
1 CTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTTGT
110617292 GTCTTCGCTT
Statistics
Matches: 115, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
85 6 0.05
86 109 0.95
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (86 bp):
CTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTTGCCGTTAAT
GCAGGAAGGCAAGATCTGCTT
Found at i:110617509 original size:44 final size:42
Alignment explanation
Indices: 110617460--110617615 Score: 141
Period size: 44 Copynumber: 3.6 Consensus size: 42
110617450 ATCTACTCTG
* *
110617460 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAG-GAGATAAGATCCTTT-TTTCAATCTGCTCCA
* * ** * * *
110617504 CTGTAACTTCAGGGAGATAGGATAGTGTTTTCGATCTGCTCCG
1 CTGTAACCTCA-GGAGATAAGATCCTTTTTTCAATCTGCTCCA
* ***
110617547 CTGTAATCTCAGGAAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGG-AGATAAGATC-CTTTTTTCAATCTGCTCCA
110617591 CTGTAACCTCATGGAGATAAGATCC
1 CTGTAACCTCA-GGAGATAAGATCC
110617616 GAAATTCTTT
Statistics
Matches: 89, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
42 2 0.02
43 29 0.33
44 55 0.62
45 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (42 bp):
CTGTAACCTCAGGAGATAAGATCCTTTTTTCAATCTGCTCCA
Found at i:110617657 original size:90 final size:86
Alignment explanation
Indices: 110617547--110617872 Score: 244
Period size: 87 Copynumber: 3.8 Consensus size: 86
110617537 ATCTGCTCCG
* *
110617547 CTGTAATCTCAGGAAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCATGGAGATAAG
1 CTGTAATCTCAGGGAGATAAGATCTCT-GCTT-GATCTGCTCCACTGTAACCTCA-GGAGATAAG
110617612 ATCCGAAATTCTTTGGTCTATTCCA
63 ATCCGAAATTCTTTGGTCT-TTCCA
* * * *
110617637 CTGTAATCTCAGGGAGATAAGA-C-CTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGATCTCTGCT-TGATCTGCTCCACTGTAACCTCAG-GAGATAAGA
** *
110617700 TCCTTTAA-TC---CG-C--TCCA
64 TCC-GAAATTCTTTGGTCTTTCCA
* * * * * * *
110617717 TTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGACCTGCTCCGCTGTAATCTCAGGGAGATAA
1 CTGTAATCTCAGGGAGATAAGATCT-CT-GC-TTGATCTGCTCCACTGTAACCTCA-GGAGATAA
*
110617781 GATCTGAAATTCTTTGGTCTGTTCCA
62 GATCCGAAATTCTTTGGTCT-TTCCA
* * * * *
110617807 CTATAATCTCAGGGAGATAAGA-C-CTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGATCTCTGCT-TGATCTGCTCCACTGTAACCTCAG-GAGATAAGA
110617870 TCC
64 TCC
110617873 TTTAATCCGC
Statistics
Matches: 179, Mismatches: 37, Indels: 43
0.69 0.14 0.17
Matches are distributed among these distances:
80 23 0.13
82 4 0.02
83 31 0.17
84 3 0.02
86 4 0.02
87 63 0.35
88 7 0.04
89 1 0.01
90 43 0.24
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (86 bp):
CTGTAATCTCAGGGAGATAAGATCTCTGCTTGATCTGCTCCACTGTAACCTCAGGAGATAAGATC
CGAAATTCTTTGGTCTTTCCA
Found at i:110617681 original size:87 final size:86
Alignment explanation
Indices: 110617581--110617872 Score: 269
Period size: 87 Copynumber: 3.4 Consensus size: 86
110617571 TCTGGCTTCA
110617581 ATCTGCTCCACTGTAACCTCATG-GAGATAAGATCCGAAATTCTTTGGTCTATTCCACTGTAATC
1 ATCTGCTCCACTGTAACCTCA-GAGAGATAAGATCCGAAATTCTTTGGTCT-TTCCACTGTAATC
110617645 TCAGGGAGATAAGACCTGATGTG
64 TCAGGGAGATAAGACCTGATGTG
* * * ** * *
110617668 ATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAA-TC---CG-C--TCCATTGTAATCT
1 ATCTGCTCCACTGTAACCTCAGAGAGATAAGATCC-GAAATTCTTTGGTCTTTCCACTGTAATCT
* * * *
110617726 CAAGGAGATAGGATTACT-ATCTTTG
65 CAGGGAGATAAGA--CCTGA--TGTG
* * * * * *
110617751 ACCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTATAATCT
1 ATCTGCTCCACTGTAACCTCAGAGAGATAAGATCCGAAATTCTTTGGTCT-TTCCACTGTAATCT
110617816 CAGGGAGATAAGACCTGATGTG
65 CAGGGAGATAAGACCTGATGTG
* * *
110617838 ATCTTCTCTACTGTAACTTCAGAGAGATAAGATCC
1 ATCTGCTCCACTGTAACCTCAGAGAGATAAGATCC
110617873 TTTAATCCGC
Statistics
Matches: 154, Mismatches: 36, Indels: 30
0.70 0.16 0.14
Matches are distributed among these distances:
80 23 0.15
81 1 0.01
82 4 0.03
83 33 0.21
84 1 0.01
86 2 0.01
87 63 0.41
88 4 0.03
89 1 0.01
90 22 0.14
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (86 bp):
ATCTGCTCCACTGTAACCTCAGAGAGATAAGATCCGAAATTCTTTGGTCTTTCCACTGTAATCTC
AGGGAGATAAGACCTGATGTG
Found at i:110617777 original size:44 final size:43
Alignment explanation
Indices: 110617498--110617979 Score: 191
Period size: 44 Copynumber: 11.3 Consensus size: 43
110617488 ATTTTAATCC
* * * *
110617498 GCTCCACTGTAA-CTTCAGGGAGATAGGATAGTGT-TTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATACTATCTTT-GACCT
* * * ** *
110617541 GCTCCGCTGTAATCTCAGGAAGATAAGAT-CTCTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATACTAT--CTTTGACCT
* * * * **
110617585 GCTCCACTGTAACCTCATGGAGATAAGATCCGAAATTCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATAC--TA-TCTTTGACCT
** * * *
110617631 ATTCCACTGTAATCTCAGGGAGATAAGA-CCTGA--TGTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATACT-ATCTTTGACCT
* * * *
110617672 TCTCTACTGTAA-CTTCAGAGAGATAAGAT-C---CTTTAATCC-
1 GCTCCACTGTAATC-TCAGGGAGATAAGATACTATCTTTGA-CCT
* * *
110617711 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGACCT
1 GCTCCACTGTAATCTCAGGGAGATAAGA-TACTATCTTTGACCT
* **
110617755 GCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATACT---A-TCTTTGACCT
* * * * *
110617801 GTTCCACTATAATCTCAGGGAGATAAGA-CCTGA--TGTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATACT-ATCTTTGACCT
* * * *
110617842 TCTCTACTGTAA-CTTCAGAGAGATAAGAT-C---CTTTAATCC-
1 GCTCCACTGTAATC-TCAGGGAGATAAGATACTATCTTTGA-CCT
* * * * *
110617881 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGA-TACTATCTTTGACCT
* * *
110617925 GCTCCGCTGTAATCTCAGGGAGATAAGAT-CTATTCTTTAACCA
1 GCTCCACTGTAATCTCAGGGAGATAAGATACTA-TCTTTGACCT
110617968 GCTCCACTGTAA
1 GCTCCACTGTAA
110617980 CCAATGAAGG
Statistics
Matches: 327, Mismatches: 75, Indels: 74
0.69 0.16 0.16
Matches are distributed among these distances:
39 46 0.14
40 8 0.02
41 59 0.18
42 7 0.02
43 46 0.14
44 89 0.27
45 6 0.02
46 65 0.20
48 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (43 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATACTATCTTTGACCT
Found at i:110617784 original size:83 final size:83
Alignment explanation
Indices: 110617678--110617954 Score: 269
Period size: 83 Copynumber: 3.3 Consensus size: 83
110617668 ATCTTCTCTA
110617678 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
1 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
*
110617743 TATCTTTGACCTGCTCCG
66 TATCTTTGATCTGCTCCG
* ** * * * * *
110617761 CTGTAA-TCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTATAATCTCAGGGAGAT
1 CTGTAACT-TCAGAGAGATAAGATC-------CTTTAATCCGCTCCATTGTAATCTCAAGGAGAT
* * * * **
110617825 AAGA--CCTGA--TGTGATCTTCTCTA
58 AGGATTACT-ATCTTTGATCTGCTCCG
110617848 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
1 CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
*
110617913 TATCCTTGATCTGCTCCG
66 TATCTTTGATCTGCTCCG
*
110617931 CTGTAA-TCTCAGGGAGATAAGATC
1 CTGTAACT-TCAGAGAGATAAGATC
110617955 TATTCTTTAA
Statistics
Matches: 148, Mismatches: 31, Indels: 30
0.71 0.15 0.14
Matches are distributed among these distances:
80 29 0.20
81 1 0.01
82 4 0.03
83 51 0.34
87 30 0.20
88 3 0.02
89 1 0.01
90 29 0.20
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (83 bp):
CTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
TATCTTTGATCTGCTCCG
Found at i:110617955 original size:170 final size:170
Alignment explanation
Indices: 110617581--110617955 Score: 678
Period size: 170 Copynumber: 2.2 Consensus size: 170
110617571 TCTGGCTTCA
* * * * *
110617581 ATCTGCTCCACTGTAACCTCATGGAGATAAGATCCGAAATTCTTTGGTCTATTCCACTGTAATCT
1 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCACTATAATCT
110617646 CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
66 CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
*
110617711 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTG
131 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
* *
110617751 ACCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTATAATCT
1 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCACTATAATCT
110617816 CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
66 CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
110617881 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
131 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
110617921 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
110617956 ATTCTTTAAC
Statistics
Matches: 196, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
170 196 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (170 bp):
ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCACTATAATCT
CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCC
GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
Found at i:110619124 original size:21 final size:21
Alignment explanation
Indices: 110619098--110619144 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
110619088 GGTATAGCAG
110619098 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
110619119 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
110619140 GATCA
1 GATCA
110619145 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:110622333 original size:19 final size:20
Alignment explanation
Indices: 110622304--110622352 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
110622294 CACTTCGTGA
* *
110622304 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
110622323 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
110622343 AAATG-AATGC
1 AAATGTAATGC
110622353 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:110624230 original size:4 final size:5
Alignment explanation
Indices: 110624203--110624231 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
110624193 GTGAAACAAT
110624203 ATAAA ATAAA ATAAA ATAAA AT-AA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
110624232 GCACTTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:110624670 original size:26 final size:25
Alignment explanation
Indices: 110624641--110624705 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
110624631 AAAAATAAGT
110624641 GTATATGTATATATATAGTACAAAAA
1 GTATATGTATATATATA-TACAAAAA
*
110624667 GTATGCATGTA-A-ATATATAGAAAAA
1 GTAT--ATGTATATATATATACAAAAA
*
110624692 -TATATTTATATATA
1 GTATATGTATATATA
110624706 AAAGAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
24 6 0.18
25 7 0.21
26 9 0.27
27 1 0.03
28 5 0.15
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (25 bp):
GTATATGTATATATATATACAAAAA
Found at i:110626546 original size:24 final size:24
Alignment explanation
Indices: 110626519--110626570 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
110626509 TTAGTAAGTC
*
110626519 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
110626543 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
110626567 AAAT
1 AAAT
110626571 CTTCCAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:110629044 original size:34 final size:34
Alignment explanation
Indices: 110628950--110629073 Score: 124
Period size: 34 Copynumber: 3.6 Consensus size: 34
110628940 TTCTTATCTT
* * * *
110628950 ATATGACATTCCGATCTGACATATGCTTCTGGAA
1 ATATGACATTCTGATCTGATATATGTTTCTAGAA
* *
110628984 ATATGACATTCTGATCCGATAAATGTTTCTAGAA
1 ATATGACATTCTGATCTGATATATGTTTCTAGAA
* * *
110629018 ATATGACATTCTGA-CTTGATATATGTTTATGGTA
1 ATATGACATTCTGATC-TGATATATGTTTCTAGAA
* * *
110629052 ATATGATATTTTGATATGATAT
1 ATATGACATTCTGATCTGATAT
110629074 TTGTATATGT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
33 1 0.01
34 73 0.99
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (34 bp):
ATATGACATTCTGATCTGATATATGTTTCTAGAA
Found at i:110634559 original size:30 final size:30
Alignment explanation
Indices: 110634525--110634589 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
110634515 ATATCTAATT
* *
110634525 ATTATTTTTCATAAAAAA-TAAAGTTAAATA
1 ATTATATTACATAAAAAATTAAA-TTAAATA
* *
110634555 ATTATATTAGATAAAAAATTAAATTTAATA
1 ATTATATTACATAAAAAATTAAATTAAATA
110634585 ATTAT
1 ATTAT
110634590 GAACTCTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.42
Consensus pattern (30 bp):
ATTATATTACATAAAAAATTAAATTAAATA
Found at i:110635719 original size:28 final size:28
Alignment explanation
Indices: 110635688--110635766 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 28
110635678 TTCCTTTTTT
110635688 ATAATAATTAATATTATATATAAACTTA
1 ATAATAATTAATATTATATATAAACTTA
**
110635716 ATAATAAAAAATACTTA-AT-TAAAACTTA
1 ATAATAATTAATA-TTATATAT-AAACTTA
*
110635744 AT-TTAAATTACATATTATATATA
1 ATAAT-AATTA-ATATTATATATA
110635767 TATATGAGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
27 2 0.05
28 28 0.70
29 9 0.22
30 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (28 bp):
ATAATAATTAATATTATATATAAACTTA
Found at i:110635947 original size:19 final size:19
Alignment explanation
Indices: 110635923--110635959 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
110635913 AAATTATTAT
*
110635923 TAAAATCTTATTATTAAAA
1 TAAAATCTTAATATTAAAA
*
110635942 TAAAATTTTAATATTAAA
1 TAAAATCTTAATATTAAA
110635960 TAATTTATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAAATCTTAATATTAAAA
Found at i:110637006 original size:10 final size:10
Alignment explanation
Indices: 110636991--110637073 Score: 57
Period size: 10 Copynumber: 8.5 Consensus size: 10
110636981 TTCCAAGCAT
110636991 ATTTTTAATA
1 ATTTTTAATA
110637001 ATTTTTAA-A
1 ATTTTTAATA
* *
110637010 CATATTTATTA
1 -ATTTTTAATA
110637021 A-TTTTAAT-
1 ATTTTTAATA
110637029 ATTTTTAATA
1 ATTTTTAATA
* *
110637039 TTTTTTTATA
1 ATTTTTAATA
* *
110637049 ACCTCTT-ATA
1 A-TTTTTAATA
*
110637059 ATTATTAATA
1 ATTTTTAATA
110637069 ATTTT
1 ATTTT
110637074 CCATCATTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
8 1 0.02
9 16 0.29
10 34 0.62
11 4 0.07
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:110637046 original size:11 final size:9
Alignment explanation
Indices: 110636989--110637043 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
110636979 CATTCCAAGC
110636989 ATATTTTTA
1 ATATTTTTA
110636998 ATAATTTTTAA
1 AT-ATTTTT-A
* *
110637009 ACATATTTA
1 ATATTTTTA
* *
110637018 TTAATTTTA
1 ATATTTTTA
110637027 ATATTTTTA
1 ATATTTTTA
110637036 ATATTTTT
1 ATATTTTT
110637044 TTATAACCTC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
9 23 0.64
10 11 0.31
11 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
ATATTTTTA
Found at i:110637061 original size:38 final size:39
Alignment explanation
Indices: 110636989--110637073 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
110636979 CATTCCAAGC
*
110636989 ATATTTTTAATAATTTTTAAACATATTTATTAATT-TTA
1 ATATTTTTAATAATTTTTAAACATACTTATTAATTATTA
* *
110637027 ATATTTTTAATATTTTTTTATAACCT-CTTA-TAATTATTA
1 ATATTTTTAATA-ATTTTTA-AACATACTTATTAATTATTA
*
110637066 ATAATTTT
1 ATATTTTT
110637074 CCATCATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 17 0.43
39 19 0.47
40 4 0.10
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (39 bp):
ATATTTTTAATAATTTTTAAACATACTTATTAATTATTA
Found at i:110638192 original size:3 final size:3
Alignment explanation
Indices: 110638186--110638276 Score: 182
Period size: 3 Copynumber: 30.3 Consensus size: 3
110638176 TTATTTAGAC
110638186 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
110638234 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
110638277 TATTTTTTTG
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:110642702 original size:46 final size:46
Alignment explanation
Indices: 110642634--110642792 Score: 228
Period size: 46 Copynumber: 3.5 Consensus size: 46
110642624 TACCACGGTG
*
110642634 ATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCACGTTGCT
1 ATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCACGTTGCC
* * * *
110642680 TTGGTATCTTTTAACCATGGTCTTATTCATTTCCTGTCATGTTGCC
1 ATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCACGTTGCC
* **
110642726 ATGGTATGTTTCAACCATGGTCTTATTCATTTCTTGTCATATTGCC
1 ATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCACGTTGCC
* *
110642772 ATAGTATCTTTCAACTATGGT
1 ATGGTATCTTTCAACCATGGT
110642793 TTTACACATT
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 100 1.00
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (46 bp):
ATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCACGTTGCC
Found at i:110642835 original size:45 final size:45
Alignment explanation
Indices: 110642768--110642893 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 45
110642758 CTTGTCATAT
* * * *
110642768 TGCCATAGTATCTTTCAACTATGGTTTTACACATTTGAATCGCGA
1 TGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTGAATCGCGA
* * * * *
110642813 TGCCATAGCGTCTTTTAGCTATGGTCTTACTCGTCTGAATCGTGA
1 TGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTGAATCGCGA
*
110642858 TGCCATAACATCTTTCAGCTATGGTCTTACTCATTT
1 TGCCATAGCATCTTTCAGCTATGGTCTTACTCATTT
110642894 ATGGTATGAT
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (45 bp):
TGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTGAATCGCGA
Found at i:110644961 original size:30 final size:31
Alignment explanation
Indices: 110644905--110644963 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
110644895 CACCCTTAAA
* *
110644905 ATATTTACACTATTAGTCATTCAAATTTTTT
1 ATATTTACACTATTAATCACTCAAATTTTTT
*
110644936 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCACTCAAATTTT
110644964 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAATCACTCAAATTTTTT
Found at i:110644971 original size:30 final size:31
Alignment explanation
Indices: 110644905--110644973 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
110644895 CACCCTTAAA
* * *
110644905 ATATTTACACTATTAGTCATTCAAATTTTTT
1 ATATTTACACTATTAATCACTCAAATTTTTG
*
110644936 ATATTTACACT-TTAATCCCTCAAA-TTTTG
1 ATATTTACACTATTAATCACTCAAATTTTTG
110644965 AGTATTTAC
1 A-TATTTAC
110644974 TCTTGTGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 17 0.52
31 11 0.33
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.48
Consensus pattern (31 bp):
ATATTTACACTATTAATCACTCAAATTTTTG
Found at i:110656981 original size:24 final size:24
Alignment explanation
Indices: 110656954--110657000 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
110656944 TAGGTCCCAA
110656954 AATTATT-ATTTTAGAATTTTTTTT
1 AATTATTAATTTTA-AATTTTTTTT
* *
110656978 AATTTTTAATTTTATATTTTTTT
1 AATTATTAATTTTAAATTTTTTT
110657001 AAAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (24 bp):
AATTATTAATTTTAAATTTTTTTT
Found at i:110661326 original size:13 final size:14
Alignment explanation
Indices: 110661308--110661340 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
110661298 ATTTCTAATA
110661308 TTTTAAAATTAT-T
1 TTTTAAAATTATAT
*
110661321 TTTTAAAATTTTAT
1 TTTTAAAATTATAT
110661335 TTTTAA
1 TTTTAA
110661341 TAAAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTAAAATTATAT
Found at i:110661333 original size:21 final size:20
Alignment explanation
Indices: 110661294--110661333 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
110661284 CTTCGTATTC
*
110661294 AATTATTTCTAATATTTTAA
1 AATTATTTCTAAAATTTTAA
*
110661314 AATTATTTTTTAAAATTTTA
1 AATTA-TTTCTAAAATTTTA
110661334 TTTTTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTATTTCTAAAATTTTAA
Found at i:110662355 original size:37 final size:37
Alignment explanation
Indices: 110662314--110662489 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
110662304 TTTGAGTACT
110662314 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
110662351 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
110662388 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
110662425 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
110662462 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
110662490 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:110662561 original size:45 final size:46
Alignment explanation
Indices: 110662452--110662575 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
110662442 GTGATAAGTG
* *
110662452 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
110662498 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
110662543 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
110662576 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:110663945 original size:13 final size:13
Alignment explanation
Indices: 110663923--110663957 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
110663913 AAATTAATAA
110663923 CAAC-TTGAACTT
1 CAACATTGAACTT
110663935 CAACATTGAACTT
1 CAACATTGAACTT
110663948 CAACATTGAA
1 CAACATTGAA
110663958 AGAAAAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (13 bp):
CAACATTGAACTT
Found at i:110668784 original size:36 final size:35
Alignment explanation
Indices: 110668714--110668785 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
110668704 AGTAAGGATG
*
110668714 ACTTATCTATCATTTTTTCGGTATCACCCTAAAAA
1 ACTTATCTATCATTTTTTCGCTATCACCCTAAAAA
*
110668749 ACTTATCTATCATTTTTTTGCTATCACCCTAAAAA
1 ACTTATCTATCATTTTTTCGCTATCACCCTAAAAA
110668784 AC
1 AC
110668786 CAAACTCTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (35 bp):
ACTTATCTATCATTTTTTCGCTATCACCCTAAAAA
Found at i:110674445 original size:3 final size:3
Alignment explanation
Indices: 110674437--110674471 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
110674427 GCCTTACATG
110674437 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
110674472 CTACATGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:110683123 original size:31 final size:31
Alignment explanation
Indices: 110683088--110683147 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
110683078 CTTTATTAAT
*
110683088 AAAATGTATTTTCTGAGAAAAAATCAAAAAA
1 AAAATGTATTTGCTGAGAAAAAATCAAAAAA
*
110683119 AAAATGTATTTGCTGATAAAAAATCAAAA
1 AAAATGTATTTGCTGAGAAAAAATCAAAA
110683148 TAGTGTCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.27
Consensus pattern (31 bp):
AAAATGTATTTGCTGAGAAAAAATCAAAAAA
Found at i:110687815 original size:6 final size:6
Alignment explanation
Indices: 110687804--110687839 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
110687794 ACATACGTGC
110687804 ATACAT ATACAT AT--AT ATACAT ATACAT ATACAT AT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT AT
110687840 CAACCACTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
6 24 0.86
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (6 bp):
ATACAT
Found at i:110687825 original size:16 final size:16
Alignment explanation
Indices: 110687804--110687834 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
110687794 ACATACGTGC
110687804 ATACATATACATATAT
1 ATACATATACATATAT
110687820 ATACATATACATATA
1 ATACATATACATATA
110687835 CATATCAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (16 bp):
ATACATATACATATAT
Found at i:110700184 original size:18 final size:17
Alignment explanation
Indices: 110700161--110700197 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
110700151 AAAATTGATA
110700161 TCTTTATTGCTATCCGCC
1 TCTTTATTGCTATCC-CC
110700179 TCTTTATTGCTATCCCC
1 TCTTTATTGCTATCCCC
110700196 TC
1 TC
110700198 CACTACAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.11, C:0.35, G:0.08, T:0.46
Consensus pattern (17 bp):
TCTTTATTGCTATCCCC
Found at i:110700849 original size:40 final size:40
Alignment explanation
Indices: 110700795--110701025 Score: 268
Period size: 40 Copynumber: 5.7 Consensus size: 40
110700785 TCTTTCGTCT
* *
110700795 GCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCT
1 GCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCC
* * **
110700835 GCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTG-TCC
1 GCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GATGCGATCC
* *
110700877 GCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCT
1 GCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCC
* * **
110700917 GCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTG-TCC
1 GCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GATGCGATCC
*
110700959 GCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCC
1 GCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCC
*
110700999 GCTCCACTATTGCTTAGGGAGATAAGA
1 GCTCCACTACTGCTTAGGGAGATAAGA
110701026 TCTGTAATCT
Statistics
Matches: 158, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
39 6 0.04
40 82 0.52
41 8 0.05
42 56 0.35
43 6 0.04
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (40 bp):
GCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCC
Found at i:110700884 original size:82 final size:82
Alignment explanation
Indices: 110700795--110701030 Score: 463
Period size: 82 Copynumber: 2.9 Consensus size: 82
110700785 TCTTTCGTCT
110700795 GCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAA
1 GCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAA
110700860 GATCTGTGGTTTTGTCC
66 GATCTGTGGTTTTGTCC
110700877 GCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAA
1 GCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAA
110700942 GATCTGTGGTTTTGTCC
66 GATCTGTGGTTTTGTCC
*
110700959 GCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCCGCTCCACTATTGCTTAGGGAGATAA
1 GCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAA
110701024 GATCTGT
66 GATCTGT
110701031 AATCTTCGAT
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 153 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (82 bp):
GCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAA
GATCTGTGGTTTTGTCC
Found at i:110701178 original size:44 final size:44
Alignment explanation
Indices: 110701000--110701180 Score: 118
Period size: 44 Copynumber: 4.2 Consensus size: 44
110700990 ATGCGATCCG
* *
110701000 CTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTA
1 CTCCACTATTGCTTAGGGAGATAAGATCTGCAATCTTCAATCTA
* * ** * * * *** * *
110701044 TTCCACTGTTGCCCAGGAAGAT-AGAACTACTGGCTTTAATGTA
1 CTCCACTATTGCTTAGGGAGATAAGATCTGCAATCTTCAATCTA
* * * * * * * *
110701087 CTCCACCGTAAT-C--GGGGAGGTAAAATCTGCCATCTTCGACCTG
1 CTCCA-C-TATTGCTTAGGGAGATAAGATCTGCAATCTTCAATCTA
110701130 CTCCACTATTGCTTAGGGAGATAAGATCTGCAATCTTCAATCTA
1 CTCCACTATTGCTTAGGGAGATAAGATCTGCAATCTTCAATCTA
110701174 CTCCACT
1 CTCCACT
110701181 GCCAAGTACA
Statistics
Matches: 92, Mismatches: 39, Indels: 12
0.64 0.27 0.08
Matches are distributed among these distances:
41 3 0.03
42 7 0.08
43 31 0.34
44 49 0.53
45 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCCACTATTGCTTAGGGAGATAAGATCTGCAATCTTCAATCTA
Found at i:110701263 original size:132 final size:130
Alignment explanation
Indices: 110700993--110701268 Score: 347
Period size: 132 Copynumber: 2.1 Consensus size: 130
110700983 AGACTTGATG
* * * * ** *
110700993 CGATCCGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGTTGCCC
1 CGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTGAAGCAC
* * *
110701058 AGGAAGATAGAACTACTGGCTTTAATGTACTCCACCGTAATCGGGGAGGTAAAATCTGCCATCTT
66 AGGAAGATAGAACTACTGGCTTCAATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCTT
* *
110701123 CGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTGCCAAGT
1 CGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTG--AAGC
** * * * *
110701188 ACA-GAGAGATAGAGTTATTGGCTTCAATGTACTCCACTGTAGTTAGGGAGGTAAAATCCGCCAT
64 ACAGGA-AGATAGAACTACTGGCTTCAATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCAT
110701252 CTT
128 CTT
*
110701255 CGATCTGCTTCACT
1 CGATCTGCTCCACT
110701269 GCCAAATACA
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
130 54 0.44
131 2 0.02
132 67 0.54
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (130 bp):
CGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAATCTTCAATCTACTCCACTGAAGCAC
AGGAAGATAGAACTACTGGCTTCAATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCTT
Found at i:110702028 original size:130 final size:130
Alignment explanation
Indices: 110701790--110702056 Score: 410
Period size: 130 Copynumber: 2.1 Consensus size: 130
110701780 TGGATGTGAT
* ** *
110701790 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGCTCTTCACTCTATTCCACTGTTGCCCCGAG
1 CTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGAG
*
110701855 AGATAGAACTACCAGCTTCTATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCTTCGAC
66 AGATAGAACTACCAGCTTCTATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCGTCGAC
* *
110701920 CTGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGGG
1 CTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGAG
* ** *
110701985 AGATAGAATTACTGGCTT-TAATGTACTCCACCGTAATCGGGGAGGTAAAATCCGCCATCGTCGA
66 AGATAGAACTACCAGCTTCT-ATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCGTCGA
*
110702049 T
130 C
110702050 CTGCTCC
1 CTGCTCC
110702057 GCTGCCAAAT
Statistics
Matches: 124, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
129 1 0.01
130 123 0.99
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (130 bp):
CTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGAG
AGATAGAACTACCAGCTTCTATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCGTCGAC
Found at i:110702324 original size:132 final size:132
Alignment explanation
Indices: 110702118--110703139 Score: 1785
Period size: 132 Copynumber: 7.7 Consensus size: 132
110702108 CAAATACAGG
* * * *
110702118 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
110702183 TCCACTTCCTATCAATATAGAAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
110702248 AA
131 AA
* *
110702250 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCCTCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
110702315 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
110702380 AA
131 AA
** *
110702382 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTATATCTTGGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
110702447 TCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
110702512 AA
131 AA
*
110702514 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCCTCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
110702579 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
110702644 AA
131 AA
** *
110702646 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTATATCTTGGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
110702711 TCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
110702776 AA
131 AA
110702778 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
110702843 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTA-CTTTCGATCTACTTCACGCCAATACAT
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATC-TTCGATCTACTTCACGCCAATACAT
110702907 GAA
130 GAA
** *
110702910 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTATATCTTGGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
110702975 TCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
110703040 AA
131 AA
*
110703042 GACAAGATCTGCTTTTTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
110703107 TCTACTTCCTACCAATATAGGAAGATAGGACCT
66 TCCACTTCCTACCAATATAGGAAGATAGGACCT
110703140 ATTTACGCCT
Statistics
Matches: 842, Mismatches: 46, Indels: 4
0.94 0.05 0.00
Matches are distributed among these distances:
131 1 0.00
132 840 1.00
133 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
AA
Found at i:110703703 original size:108 final size:108
Alignment explanation
Indices: 110703514--110703710 Score: 331
Period size: 108 Copynumber: 1.8 Consensus size: 108
110703504 GAAAAATGCT
*
110703514 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
110703579 CAATCAAGATAGCAAATTTTGCTAAGATACGAGATGAATAAGA
66 CAATCAAGATAGCAAATTTTGCTAAGATACGAGATGAATAAGA
* * * **
110703622 TGAAAAAGATTATCACAATGGATAAGATGAAAATTTGTTGAGAGCAAAGCTCTAAATGAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
*
110703687 TAATCAAGATAGCAAATTTTGCTA
66 CAATCAAGATAGCAAATTTTGCTA
110703711 GAATACAAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 82 1.00
ACGTcount: A:0.48, C:0.11, G:0.17, T:0.25
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
CAATCAAGATAGCAAATTTTGCTAAGATACGAGATGAATAAGA
Found at i:110704528 original size:11 final size:10
Alignment explanation
Indices: 110704495--110704549 Score: 56
Period size: 12 Copynumber: 5.0 Consensus size: 10
110704485 TCCTGGTAGA
110704495 GTTTTTTTTT
1 GTTTTTTTTT
110704505 GTTTTTGCTTTT
1 GTTTTT--TTTT
110704517 GTTTTTTATTT
1 GTTTTTT-TTT
*
110704528 GGTTTTTATTT
1 -GTTTTTTTTT
110704539 GTTCTTTTTTT
1 GTT-TTTTTTT
110704550 TGCCTCCACT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 10 0.26
11 12 0.32
12 16 0.42
ACGTcount: A:0.04, C:0.04, G:0.13, T:0.80
Consensus pattern (10 bp):
GTTTTTTTTT
Found at i:110705905 original size:62 final size:62
Alignment explanation
Indices: 110705801--110705984 Score: 314
Period size: 62 Copynumber: 3.0 Consensus size: 62
110705791 CTAAACTCGA
* * *
110705801 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
* *
110705863 CGTATTTTTGGATTTTAAGAAATTTATTGTATGTAATAAAATGTAATGTTAATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
*
110705925 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGAATGAA
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAA
110705985 GAGATACGTG
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 114 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (62 bp):
CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
Found at i:110709297 original size:18 final size:17
Alignment explanation
Indices: 110709274--110709310 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
110709264 AAAATCGATA
110709274 TCTTTATTGCTATCCGCC
1 TCTTTATTGCTATCC-CC
110709292 TCTTTATTGCTATCCCC
1 TCTTTATTGCTATCCCC
110709309 TC
1 TC
110709311 CACTACAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.11, C:0.35, G:0.08, T:0.46
Consensus pattern (17 bp):
TCTTTATTGCTATCCCC
Found at i:110713397 original size:16 final size:16
Alignment explanation
Indices: 110713361--110713414 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
110713351 GAGTTGATAA
* *
110713361 ATTTTGAGTTTAGATT
1 ATTTTAAGTTCAGATT
*
110713377 GTTTTAAGTTCA-AGTT
1 ATTTTAAGTTCAGA-TT
*
110713393 ATTTTGAGTTCAGATT
1 ATTTTAAGTTCAGATT
110713409 ATTTTA
1 ATTTTA
110713415 GTCGGGTTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.54
Consensus pattern (16 bp):
ATTTTAAGTTCAGATT
Found at i:110718007 original size:23 final size:23
Alignment explanation
Indices: 110717963--110718014 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
110717953 ATTTTGCATT
* * *
110717963 TTTTTATTAATTTATTAATTAAG
1 TTTTTATTAATTGAGTAATTAAA
* *
110717986 TTTTTATTAATTGGGTATTTAAA
1 TTTTTATTAATTGAGTAATTAAA
110718009 TTTTTA
1 TTTTTA
110718015 AAATATTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTTTATTAATTGAGTAATTAAA
Found at i:110720731 original size:40 final size:40
Alignment explanation
Indices: 110720665--110720928 Score: 320
Period size: 40 Copynumber: 6.6 Consensus size: 40
110720655 GGATATAACC
* * * * * *
110720665 ACTCGCAC-AAGGCCGTCGGGTCTTAGCCTGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * * *
110720704 ACTAGCACAAATGTCTTCGGGTCTTAGCCCGG-ATATAGCA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
110720744 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
110720784 ACTCGCACCAATGCCTTCGGGACTTGGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
110720824 ACTCGCACAATTGCCTTCGGGACTTAGCCCGG-ATGTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
110720864 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
110720904 ACTAGCACAAATGTCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTT
110720929 GACCCCGTTA
Statistics
Matches: 199, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 9 0.05
40 186 0.93
41 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Done.