Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 273 of 318
Found at i:86562835 original size:21 final size:21
Alignment explanation
Indices: 86562788--86562835 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
86562778 TATAGATTAG
* * *
86562788 TGTTTATGGTTTATGTTTTAA
1 TGTTTAGGGTTTAGGGTTTAA
**
86562809 AATTTAGGGTTTAGGGTTTAA
1 TGTTTAGGGTTTAGGGTTTAA
86562830 TGTTTA
1 TGTTTA
86562836 AGATTTAATG
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (21 bp):
TGTTTAGGGTTTAGGGTTTAA
Found at i:86563197 original size:41 final size:40
Alignment explanation
Indices: 86563140--86563823 Score: 838
Period size: 41 Copynumber: 16.9 Consensus size: 40
86563130 AACTTTTTGC
*
86563140 GGCGTTTGGACCAAAAACGCCGCTATTGATCATTTTTTAGT
1 GGCGTTTGGA-CAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
86563181 GGCATTTGAGATAAAAACGCCACTATTGATCAGTTTTTAGT
1 GGCGTTTG-GACAAAAACGCCGCTATTGATCAGTTTTTAGT
* *
86563222 GGCGTTTGGGATAAAAACGCCGCTATTGATAAGTTTTTAGT
1 GGCGTTT-GGACAAAAACGCCGCTATTGATCAGTTTTTAGT
* *
86563263 GGCGTTT-GACCAAAAACGCTGCTATTCA-CAAGTTTTTAGT
1 GGCGTTTGGA-CAAAAACGCCGCTATTGATC-AGTTTTTAGT
* * * * *
86563303 GGCGTTTGGGAGAAAAATGACACTATTAATCAGTTTTTAGT
1 GGCGTTT-GGACAAAAACGCCGCTATTGATCAGTTTTTAGT
* *
86563344 GGCGCTTGGGCAAAACACGCCGCTATTGATCAGTTTTTAGT
1 GGCGTTTGGACAAAA-ACGCCGCTATTGATCAGTTTTTAGT
* *
86563385 GGCGTTTGGACAAAAATGGCGCTATTGATCAG-TTTTAGT
1 GGCGTTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
*
86563424 GGCGTTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
1 GGCGTTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
* *
86563464 GGCGTTTGGACAAAAACGCCACTATTGATCAATTTTTAGT
1 GGCGTTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
* **
86563504 GGCGTTTGGCCAAAAGTGCCGCTATTGATCAGTTTTTAGT
1 GGCGTTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
* *
86563544 GGCGTTTGGCCAAAAACACCGCTATTGATCAGTTTTTAGT
1 GGCGTTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
*
86563584 GGCGTTTGGGATAAAAACGCCGCTATTGATCA-TTTTTAGT
1 GGCGTTT-GGACAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * *
86563624 GGTGTTTGGTCAAAAACGCCGCTATTGTTTAGTTTTTAGT
1 GGCGTTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * *
86563664 GGCGTTTGGGATAAAAATGCCACTATTGATCAGCTTTTAGT
1 GGCGTTT-GGACAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * *
86563705 GGCGTTTGGCCAAAAATGCCGCTATTGATAAGTTTGTAGT
1 GGCGTTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
*
86563745 GGCGTTTTGG-CAAAAAACGCCGCTATTGTTCAGTTTTTAGT
1 GGCG-TTTGGAC-AAAAACGCCGCTATTGATCAGTTTTTAGT
* * * *
86563786 GGCGTTTTGGCCAAAAATGCCGTTATTGTTCAGTTTTT
1 GGCG-TTTGGACAAAAACGCCGCTATTGATCAGTTTTT
86563824 TGCGACGTTT
Statistics
Matches: 558, Mismatches: 70, Indels: 30
0.85 0.11 0.05
Matches are distributed among these distances:
39 58 0.10
40 236 0.42
41 257 0.46
42 7 0.01
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (40 bp):
GGCGTTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
Found at i:86563549 original size:80 final size:80
Alignment explanation
Indices: 86563140--86563823 Score: 793
Period size: 80 Copynumber: 8.5 Consensus size: 80
86563130 AACTTTTTGC
* * ** *
86563140 GGCGTTTGGACCAAAAACGCCGCTATTGATCATTTTTTAGTGGCATTTGAGATAAAAACGCCACT
1 GGCGTTTGGA-CAAAAACGCCGCTATTGATCAATTTTTAGTGGCGTTTG-GCCAAAAACGCCGCT
86563205 ATTGATCAGTTTTTAGT
64 ATTGATCAGTTTTTAGT
* * *
86563222 GGCGTTTGGGATAAAAACGCCGCTATTGAT-AAGTTTTTAGTGGCGTTTGACCAAAAACGCTGCT
1 GGCGTTT-GGACAAAAACGCCGCTATTGATCAA-TTTTTAGTGGCGTTTGGCCAAAAACGCCGCT
*
86563286 ATTCA-CAAGTTTTTAGT
64 ATTGATC-AGTTTTTAGT
* * * * * * * *
86563303 GGCGTTTGGGAGAAAAATGACACTATTAATCAGTTTTTAGTGGCGCTTGGGCAAAACACGCCGCT
1 GGCGTTT-GGACAAAAACGCCGCTATTGATCAATTTTTAGTGGCGTTTGGCCAAAA-ACGCCGCT
86563368 ATTGATCAGTTTTTAGT
64 ATTGATCAGTTTTTAGT
* * *
86563385 GGCGTTTGGACAAAAATGGCGCTATTGATC-AGTTTTAGTGGCGTTTGGCCAAAAACGCCGCTAT
1 GGCGTTTGGACAAAAACGCCGCTATTGATCAATTTTTAGTGGCGTTTGGCCAAAAACGCCGCTAT
86563449 TGATCAGTTTTTAGT
66 TGATCAGTTTTTAGT
* **
86563464 GGCGTTTGGACAAAAACGCCACTATTGATCAATTTTTAGTGGCGTTTGGCCAAAAGTGCCGCTAT
1 GGCGTTTGGACAAAAACGCCGCTATTGATCAATTTTTAGTGGCGTTTGGCCAAAAACGCCGCTAT
86563529 TGATCAGTTTTTAGT
66 TGATCAGTTTTTAGT
* * * **
86563544 GGCGTTTGGCCAAAAACACCGCTATTGATCAGTTTTTAGTGGCGTTTGGGATAAAAACGCCGCTA
1 GGCGTTTGGACAAAAACGCCGCTATTGATCAATTTTTAGTGGCGTTT-GGCCAAAAACGCCGCTA
86563609 TTGATCA-TTTTTAGT
65 TTGATCAGTTTTTAGT
* * * * * ** * *
86563624 GGTGTTTGGTCAAAAACGCCGCTATTGTTTAGTTTTTAGTGGCGTTTGGGATAAAAATGCCACTA
1 GGCGTTTGGACAAAAACGCCGCTATTGATCAATTTTTAGTGGCGTTT-GGCCAAAAACGCCGCTA
*
86563689 TTGATCAGCTTTTAGT
65 TTGATCAGTTTTTAGT
* * * *
86563705 GGCGTTTGGCCAAAAATGCCGCTATTGAT-AAGTTTGTAGTGGCGTTTTGGCAAAAAACGCCGCT
1 GGCGTTTGGACAAAAACGCCGCTATTGATCAA-TTTTTAGTGGCG-TTTGGCCAAAAACGCCGCT
*
86563769 ATTGTTCAGTTTTTAGT
64 ATTGATCAGTTTTTAGT
* * * * *
86563786 GGCGTTTTGGCCAAAAATGCCGTTATTGTTCAGTTTTT
1 GGCG-TTTGGACAAAAACGCCGCTATTGATCAATTTTT
86563824 TGCGACGTTT
Statistics
Matches: 523, Mismatches: 66, Indels: 26
0.85 0.11 0.04
Matches are distributed among these distances:
79 52 0.10
80 184 0.35
81 183 0.35
82 99 0.19
83 5 0.01
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (80 bp):
GGCGTTTGGACAAAAACGCCGCTATTGATCAATTTTTAGTGGCGTTTGGCCAAAAACGCCGCTAT
TGATCAGTTTTTAGT
Found at i:86565189 original size:12 final size:13
Alignment explanation
Indices: 86565164--86565204 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
86565154 CCAAACCTGA
86565164 TTATATTAATTTT
1 TTATATTAATTTT
86565177 TTATATT-ATTTT
1 TTATATTAATTTT
*
86565189 TTATATAAATATTT
1 TTATATTAAT-TTT
86565203 TT
1 TT
86565205 TTAAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 11 0.44
13 9 0.36
14 5 0.20
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATATTAATTTT
Found at i:86566899 original size:2 final size:2
Alignment explanation
Indices: 86566892--86566925 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
86566882 ACCACAACCA
86566892 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
86566926 CAACCACATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86567716 original size:41 final size:41
Alignment explanation
Indices: 86567659--86567742 Score: 109
Period size: 41 Copynumber: 2.0 Consensus size: 41
86567649 ACATAAAGTT
* *
86567659 TGCTAGGCATAAAGCCTAGA-ATAATACACCGGCACAGAGCC
1 TGCTAGGCATAAAGCCT-GATATAACACACCGGCACAAAGCC
*
86567700 TGCTAGGCA-ATAAGCCTGATATAACACACCGGCATAAAGCC
1 TGCTAGGCATA-AAGCCTGATATAACACACCGGCACAAAGCC
86567741 TG
1 TG
86567743 ATATAATACA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 3 0.08
41 35 0.92
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (41 bp):
TGCTAGGCATAAAGCCTGATATAACACACCGGCACAAAGCC
Found at i:86567733 original size:25 final size:25
Alignment explanation
Indices: 86567711--86567767 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
86567701 GCTAGGCAAT
86567711 AAGCCTGATATAACACACCGGCATA
1 AAGCCTGATATAACACACCGGCATA
* *
86567736 AAGCCTGATATAATACACCGACATA
1 AAGCCTGATATAACACACCGGCATA
86567761 AAGCCTG
1 AAGCCTG
86567768 CTAGGCAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.18
Consensus pattern (25 bp):
AAGCCTGATATAACACACCGGCATA
Found at i:86569431 original size:28 final size:30
Alignment explanation
Indices: 86569400--86569475 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 30
86569390 TTTAGACTGC
*
86569400 GCCACATAGGCATTCCTT-TTTAGAGA-TA
1 GCCACATAGGCATTCCTTGTCTAGAGATTA
* *
86569428 GCCACAAAGGC-TT-CTGTGTCTAGAGATTT
1 GCCACATAGGCATTCCT-TGTCTAGAGATTA
86569457 GCCACATAGGCATTTCCTT
1 GCCACATAGGCA-TTCCTT
86569476 CCAAAGGTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
26 2 0.05
27 3 0.08
28 17 0.45
29 11 0.29
31 3 0.08
32 2 0.05
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (30 bp):
GCCACATAGGCATTCCTTGTCTAGAGATTA
Found at i:86578206 original size:39 final size:39
Alignment explanation
Indices: 86578152--86578295 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
86578142 GAATGTTCGA
86578152 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
86578191 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
86578230 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
86578269 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
86578296 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:86578242 original size:78 final size:79
Alignment explanation
Indices: 86578153--86578333 Score: 265
Period size: 78 Copynumber: 2.3 Consensus size: 79
86578143 AATGTTCGAG
86578153 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
86578217 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* *
86578231 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
** *
86578296 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
86578310 CCATAACCGGGCTATGTCCCGAAG
1 TGATATCCGGGCTAAG-CCCGAAG
86578334 CCGTTTGAAC
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
78 53 0.58
79 32 0.35
80 7 0.08
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:86583511 original size:39 final size:39
Alignment explanation
Indices: 86583457--86583600 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
86583447 GAATGTTCGA
86583457 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
86583496 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
86583535 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
86583574 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
86583601 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:86583547 original size:78 final size:79
Alignment explanation
Indices: 86583458--86583638 Score: 265
Period size: 78 Copynumber: 2.3 Consensus size: 79
86583448 AATGTTCGAG
86583458 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
86583522 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* *
86583536 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
** *
86583601 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
86583615 CCATAACCGGGCTATGTCCCGAAG
1 TGATATCCGGGCTAAG-CCCGAAG
86583639 CCGTTTGAAC
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
78 53 0.58
79 32 0.35
80 7 0.08
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:86593768 original size:2 final size:2
Alignment explanation
Indices: 86593761--86593805 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
86593751 TAACATAAAC
*
86593761 TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
86593803 TA T
1 TA T
86593806 TAATATAAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:86594807 original size:17 final size:17
Alignment explanation
Indices: 86594785--86594823 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
86594775 CCTTTACAAA
* *
86594785 TTATATTCGGTTTTCTT
1 TTATATTCAGTTTTATT
86594802 TTATATTCAGTTTTATT
1 TTATATTCAGTTTTATT
86594819 TTATA
1 TTATA
86594824 CTCGAATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.08, G:0.08, T:0.64
Consensus pattern (17 bp):
TTATATTCAGTTTTATT
Found at i:86594886 original size:162 final size:162
Alignment explanation
Indices: 86594718--86595041 Score: 612
Period size: 162 Copynumber: 2.0 Consensus size: 162
86594708 TGAATCGTAA
*
86594718 ATTACCTTCAATCTTTGAGTGTTTTCTTTATTTTCTTTGTATTTGAAAAGTTCAAACCCTTTACA
1 ATTACCTTCAATCTTTGAGTGTTTTCTTTATTTTCTTTGTATTCGAAAAGTTCAAACCCTTTACA
*
86594783 AATTATATTCGGTTTTCTTTTATATTCAGTTTTATTTTATACTCGAATAAGGAGAAAAAATAAAA
66 AATTATATTCGGTTTTCTTTTATATTCAGTTTTATTTTATACTCGAATAAGGAGAAAAAAGAAAA
86594848 AAGAAAAATAATAGAAATTTTCTCCTAGATCT
131 AAGAAAAATAATAGAAATTTTCTCCTAGATCT
86594880 ATTACCTTCAATCTTTGAGTGTTTTCTTTATTTTCTTTGTATTCGAAAAGTTCAAACCCTTTACA
1 ATTACCTTCAATCTTTGAGTGTTTTCTTTATTTTCTTTGTATTCGAAAAGTTCAAACCCTTTACA
* *
86594945 AATTATATTCGGTTTTCTTTTATATTCAGTTTTCTTTTATACTTGAATAAGGAGAAAAAAGAAAA
66 AATTATATTCGGTTTTCTTTTATATTCAGTTTTATTTTATACTCGAATAAGGAGAAAAAAGAAAA
86595010 AAGAAAAATAATAGAAATTTTCTCCTAGATCT
131 AAGAAAAATAATAGAAATTTTCTCCTAGATCT
86595042 TTCTGCTATA
Statistics
Matches: 158, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
162 158 1.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (162 bp):
ATTACCTTCAATCTTTGAGTGTTTTCTTTATTTTCTTTGTATTCGAAAAGTTCAAACCCTTTACA
AATTATATTCGGTTTTCTTTTATATTCAGTTTTATTTTATACTCGAATAAGGAGAAAAAAGAAAA
AAGAAAAATAATAGAAATTTTCTCCTAGATCT
Found at i:86594969 original size:17 final size:17
Alignment explanation
Indices: 86594947--86594985 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
86594937 CCTTTACAAA
*
86594947 TTATATTCGGTTTTCTT
1 TTATATTCAGTTTTCTT
86594964 TTATATTCAGTTTTCTT
1 TTATATTCAGTTTTCTT
86594981 TTATA
1 TTATA
86594986 CTTGAATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.64
Consensus pattern (17 bp):
TTATATTCAGTTTTCTT
Found at i:86595986 original size:45 final size:44
Alignment explanation
Indices: 86595934--86596051 Score: 116
Period size: 41 Copynumber: 2.7 Consensus size: 44
86595924 GCTACTGCAT
** *
86595934 AGGGAGATAAGATTTACAATCTTCAGTCTGCTCTGCTGTAACTTC
1 AGGGAGATAAGATTTAC-ATCTTCAGTCTGCTCCACTGCAACTTC
* * * *
86595979 AGGGAGATAAGACTTGC-T-TTGA-TATGCTCCACTGCAACTTC
1 AGGGAGATAAGATTTACATCTTCAGTCTGCTCCACTGCAACTTC
* *
86596020 AGAGAGATAAGATCTACCATCTTCAGTCTGCT
1 AGGGAGATAAGATTTA-CATCTTCAGTCTGCT
86596052 TCCTTGCTAC
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
41 27 0.48
42 4 0.07
43 2 0.04
44 3 0.05
45 20 0.36
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
AGGGAGATAAGATTTACATCTTCAGTCTGCTCCACTGCAACTTC
Found at i:86596095 original size:44 final size:44
Alignment explanation
Indices: 86596024--86596286 Score: 191
Period size: 44 Copynumber: 5.9 Consensus size: 44
86596014 AACTTCAGAG
* *
86596024 AGATAAGATCTACCATCTTCAGTCTGCTTCCTTGCTACCGT-AGGA
1 AGATAAGA-CTACAATCTTCAATCTGCTTCCTTGCTACC-TCAGGA
* *
86596069 AGATAAGACTACAATCTTCAACCTGCTCCCTTGCTACCTCAAGG-
1 AGATAAGACTACAATCTTCAATCTGCTTCCTTGCTACCTC-AGGA
* ** ** * * * *
86596113 AGATAAGGC--CTGTGGCTAAAATCTGCTCCCCTGTTACCTCGGGA
1 AGATAAGACTACAAT--CTTCAATCTGCTTCCTTGCTACCTCAGGA
* ** * * *
86596157 AGATAAGATTCACCCTCTTCTATCTGC-TCC--ACTACTGCTCAGGG
1 AGATAAGACT-ACAATCTTCAATCTGCTTCCTTGCTAC--CTCAGGA
86596201 AGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCTCAGGA
1 AGATAAGA-CTACAATCTTCAATCTGCTTCCTTGCTACCTCAGGA
* *
86596246 AGATAAGACTACAATCTTCAACCTAC-TCTCTTGCTACCTCA
1 AGATAAGACTACAATCTTCAATCTGCTTC-CTTGCTACCTCA
86596287 AAGAAATAAG
Statistics
Matches: 170, Mismatches: 33, Indels: 31
0.73 0.14 0.13
Matches are distributed among these distances:
42 5 0.03
43 5 0.03
44 117 0.69
45 37 0.22
47 6 0.04
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (44 bp):
AGATAAGACTACAATCTTCAATCTGCTTCCTTGCTACCTCAGGA
Found at i:86596229 original size:177 final size:177
Alignment explanation
Indices: 86596018--86596343 Score: 521
Period size: 177 Copynumber: 1.8 Consensus size: 177
86596008 CACTGCAACT
* *
86596018 TCAGAGAGATAAGATCTACCATCTTCAGTCTGCTTCCTTGCTACCGT-AGGAAGATAAGACTACA
1 TCAGAGAGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACC-TCAGGAAGATAAGACTACA
* * * *
86596082 ATCTTCAACCTGCTCCCTTGCTACCTCAAGGAGATAAGGCCT-GTGGCTAAAATCTGCTCCCCTG
65 ATCTTCAACCTACTCCCTTGCTACCTCAAAGAAATAAGG-CTGGTGGCTAAAATCTGCTCCCCTA
* *
86596146 TTACCTCGGGAAGATAAGATTCACCCTCTTCTATCTGCTCCACTACTGC
129 CTACCTCGGGAAAATAAGATTCACCCTCTTCTATCTGCTCCACTACTGC
*
86596195 TCAGGGAGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
1 TCAGAGAGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
*
86596260 TCTTCAACCTACTCTCTTGCTACCTCAAAGAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTACT
66 TCTTCAACCTACTCCCTTGCTACCTCAAAGAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTACT
*
86596325 ACCTTGGGAAAATAAGATT
131 ACCTCGGGAAAATAAGATT
86596344 TGCCATTTTC
Statistics
Matches: 136, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
176 3 0.02
177 133 0.98
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (177 bp):
TCAGAGAGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
TCTTCAACCTACTCCCTTGCTACCTCAAAGAAATAAGGCTGGTGGCTAAAATCTGCTCCCCTACT
ACCTCGGGAAAATAAGATTCACCCTCTTCTATCTGCTCCACTACTGC
Found at i:86596296 original size:44 final size:45
Alignment explanation
Indices: 86596201--86596296 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 45
86596191 CTGCTCAGGG
* * *
86596201 AGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCTCAGGA
1 AGATAAGATCTACAATCTTCAACCTACTTCCTTGCTACCTCAAGA
86596246 AGATAAGA-CTACAATCTTCAACCTAC-TCTCTTGCTACCTCAAAGA
1 AGATAAGATCTACAATCTTCAACCTACTTC-CTTGCTACCTC-AAGA
86596291 A-ATAAG
1 AGATAAG
86596297 GCTGGTGGCT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
43 2 0.04
44 32 0.70
45 12 0.26
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.28
Consensus pattern (45 bp):
AGATAAGATCTACAATCTTCAACCTACTTCCTTGCTACCTCAAGA
Found at i:86596364 original size:177 final size:178
Alignment explanation
Indices: 86595999--86596364 Score: 513
Period size: 177 Copynumber: 2.1 Consensus size: 178
86595989 GACTTGCTTT
* * *
86595999 GATATGCTCCACTGCAACTTCAGAGAGATAAGATCTACCATCTTCAGTCTGCTTCCTTGCTACCG
1 GATATGCTCCACTACAACTTCAGAGAGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCG
* * *
86596064 TAGGAAGATAAGACTACAATCTTCAACCTGCTCCCTTGCTACCTCAAGGAGATAAGGCCTGTGGC
66 TAGGAAGATAAGACTACAATCTTCAACCTACTCCCTTGCTACCTCAAAGAAATAAGGCCTGTGGC
** * *
86596129 TAAAATCTGCTCCCCTGTTACCTCGGGAAGATAAGATTCACCCTCTTC
131 TAAAATCTGCTCCCCTACTACCTCGGGAAAATAAGATTCACCATCTTC
* * ** *
86596177 TATCTGCTCCACTACTGC-TCAGGGAGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACC-
1 GATATGCTCCACTACAACTTCAGAGAGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCG
*
86596240 TCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCTCAAAGAAATAAGG-CTGGTG
66 T-AGGAAGATAAGACTACAATCTTCAACCTACTCCCTTGCTACCTCAAAGAAATAAGGCCT-GTG
* ** *
86596304 GCTAAAATCTGCTCCCCTACTACCTTGGGAAAATAAGATTTGCCATTTTC
129 GCTAAAATCTGCTCCCCTACTACCTCGGGAAAATAAGATTCACCATCTTC
86596354 GATATGCTCCA
1 GATATGCTCCA
86596365 TTGCTACCTC
Statistics
Matches: 164, Mismatches: 22, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
176 3 0.02
177 148 0.90
178 13 0.08
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (178 bp):
GATATGCTCCACTACAACTTCAGAGAGATAAGATCTACAATCTTCAATCTGCTTCCTTGCTACCG
TAGGAAGATAAGACTACAATCTTCAACCTACTCCCTTGCTACCTCAAAGAAATAAGGCCTGTGGC
TAAAATCTGCTCCCCTACTACCTCGGGAAAATAAGATTCACCATCTTC
Found at i:86606574 original size:16 final size:16
Alignment explanation
Indices: 86606553--86606585 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
86606543 GGATTCGAAA
86606553 TAACTAACCCCTTTTT
1 TAACTAACCCCTTTTT
86606569 TAACTAACCCCTTTTT
1 TAACTAACCCCTTTTT
86606585 T
1 T
86606586 GCCATCTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.45
Consensus pattern (16 bp):
TAACTAACCCCTTTTT
Found at i:86610136 original size:15 final size:15
Alignment explanation
Indices: 86610116--86610147 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
86610106 TAGTTCACTA
*
86610116 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
86610131 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
86610146 TT
1 TT
86610148 TGTATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:86617612 original size:20 final size:21
Alignment explanation
Indices: 86617587--86617628 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
86617577 CAAACAAATA
86617587 CAAAAAGTATCAATACATTTT
1 CAAAAAGTATCAATACATTTT
* *
86617608 CAAAAAGTATCGATACCTTTT
1 CAAAAAGTATCAATACATTTT
86617629 ACCAGGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (21 bp):
CAAAAAGTATCAATACATTTT
Found at i:86618128 original size:74 final size:75
Alignment explanation
Indices: 86618050--86618189 Score: 174
Period size: 74 Copynumber: 1.9 Consensus size: 75
86618040 AAGTTTAATT
* ** * * * *
86618050 TTTTTTCAATTTAGTCCTTTGTAAATATACTATGGCCCTCCCAAAAATATAAGT-AGGCTCTCCA
1 TTTTTGCAATTTACCCCTTTGTAAATATACTATAGCCCTCCAAAAAATAGAAGTAAGCCTCTCCA
86618114 AGGTTTAAGA
66 AGGTTTAAGA
* * * *
86618124 TTTTTGCAATTTCCCCCTTTGTATATATATTATAGCCTTCCAAAAAATAGAAGTAAGCCTCTCCA
1 TTTTTGCAATTTACCCCTTTGTAAATATACTATAGCCCTCCAAAAAATAGAAGTAAGCCTCTCCA
86618189 A
66 A
86618190 TATTTTTATA
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
74 44 0.81
75 10 0.19
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (75 bp):
TTTTTGCAATTTACCCCTTTGTAAATATACTATAGCCCTCCAAAAAATAGAAGTAAGCCTCTCCA
AGGTTTAAGA
Found at i:86620612 original size:30 final size:29
Alignment explanation
Indices: 86620578--86620639 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 29
86620568 ACTGAACAAG
86620578 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAA-AAAATTAA
*
86620608 CAAATGCCTTTAAAATAATAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAATTAA
86620637 CAA
1 CAA
86620640 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 11 0.35
30 20 0.65
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (29 bp):
CAAATGCCTCTAAAATAATAAAAAATTAA
Found at i:86624269 original size:27 final size:27
Alignment explanation
Indices: 86624238--86624340 Score: 138
Period size: 27 Copynumber: 3.8 Consensus size: 27
86624228 AGCATGGCTG
* *
86624238 CCAGATACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
86624265 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
86624293 CCAGA-ACAAATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
86624320 CCAGAT-CAGATAATCGTGGCA
1 CCAGATACAGATAAT-GTGGCA
86624341 TAACCATCAG
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
26 2 0.03
27 49 0.72
28 17 0.25
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:86625846 original size:48 final size:48
Alignment explanation
Indices: 86625790--86625887 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
86625780 AATTTTCCTC
*
86625790 CTCCTAGTGACCGAATACTCAAGAGCTTTCTCCTCTCCTTTCTCTTCT
1 CTCCTAGTGACAGAATACTCAAGAGCTTTCTCCTCTCCTTTCTCTTCT
*
86625838 CTCCTAGTGACATAATACTCAAGAGCTTTCTCCTCTCCTTTCTCTTCT
1 CTCCTAGTGACAGAATACTCAAGAGCTTTCTCCTCTCCTTTCTCTTCT
86625886 CT
1 CT
86625888 AACTTTCGGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.17, C:0.35, G:0.09, T:0.39
Consensus pattern (48 bp):
CTCCTAGTGACAGAATACTCAAGAGCTTTCTCCTCTCCTTTCTCTTCT
Found at i:86626306 original size:12 final size:12
Alignment explanation
Indices: 86626284--86626313 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
86626274 ATTTCACTCA
86626284 CAAATGACAAAAT
1 CAAA-GACAAAAT
86626297 CAAAGACAAAAT
1 CAAAGACAAAAT
86626309 CAAAG
1 CAAAG
86626314 CATGAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.63, C:0.17, G:0.10, T:0.10
Consensus pattern (12 bp):
CAAAGACAAAAT
Found at i:86631216 original size:115 final size:115
Alignment explanation
Indices: 86631008--86631343 Score: 631
Period size: 115 Copynumber: 2.9 Consensus size: 115
86630998 AGGTGAGGTG
86631008 AGGTGAAGTCCAAATTCCTCCTCCGCTGGGCTGAATATATATAGAAAAAAAAAAAAAGAGGGTTT
1 AGGTGAAGTCCAAATTCCTCCTCCGCTGGGCTGAATATATATAG--AAAAAAAAAAAGAGGGTTT
86631073 CATGGTAAAATTTTGGTATCAGTCCTTATAATTTAGTACTTTATGATACAGA
64 CATGGTAAAATTTTGGTATCAGTCCTTATAATTTAGTACTTTATGATACAGA
86631125 AGGTGAAGTCCAAATTCCTCCTCCGCTGGGCTGAATATATATAGAAAAAAAAAAAGAGGGTTTCA
1 AGGTGAAGTCCAAATTCCTCCTCCGCTGGGCTGAATATATATAGAAAAAAAAAAAGAGGGTTTCA
*
86631190 TGGTAAAATTTTGGTATCAGTCCTTATAATTTAGTACTTTATGATACAGG
66 TGGTAAAATTTTGGTATCAGTCCTTATAATTTAGTACTTTATGATACAGA
86631240 AGGTGAAGTCCAAATTCCTCCTCCGCTGGGCTGAATATATATAG--AAAAAAAAAGAGGGTTTCA
1 AGGTGAAGTCCAAATTCCTCCTCCGCTGGGCTGAATATATATAGAAAAAAAAAAAGAGGGTTTCA
86631303 TGGTAAAATTTTGGTATCAGTCCTTATAATTTAGTACTTTA
66 TGGTAAAATTTTGGTATCAGTCCTTATAATTTAGTACTTTA
86631344 CTTCATTTAT
Statistics
Matches: 218, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
113 60 0.28
115 114 0.52
117 44 0.20
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (115 bp):
AGGTGAAGTCCAAATTCCTCCTCCGCTGGGCTGAATATATATAGAAAAAAAAAAAGAGGGTTTCA
TGGTAAAATTTTGGTATCAGTCCTTATAATTTAGTACTTTATGATACAGA
Found at i:86634489 original size:26 final size:28
Alignment explanation
Indices: 86634460--86634512 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
86634450 ATTTTTAATT
* *
86634460 TATTTTAAACTTATT-TT-GTTAGTAAC
1 TATTATAAACTAATTGTTAGTTAGTAAC
86634486 TATTATAAACTAATTGTTAGTTAGTAA
1 TATTATAAACTAATTGTTAGTTAGTAA
86634513 TGACACCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
27 2 0.09
28 8 0.35
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (28 bp):
TATTATAAACTAATTGTTAGTTAGTAAC
Found at i:86635107 original size:7 final size:7
Alignment explanation
Indices: 86635095--86635123 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
86635085 GAATTTGAAA
86635095 AGAATTT
1 AGAATTT
86635102 AGAATTT
1 AGAATTT
86635109 AGAATTT
1 AGAATTT
86635116 AGAATTT
1 AGAATTT
86635123 A
1 A
86635124 ATATAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (7 bp):
AGAATTT
Found at i:86638276 original size:47 final size:47
Alignment explanation
Indices: 86638124--86638341 Score: 196
Period size: 48 Copynumber: 4.6 Consensus size: 47
86638114 TAATATACTC
* * *
86638124 CAATGTATCTAATTTATATTACAAAGTTTGTTCTGTGTTTTAATGTTG
1 CAATGAATCTAATTTAAATTACAAAG-TTGTTCTGAGTTTTAATGTTG
* * ** *
86638172 CAATTAATCTAATTTAAATTACAAATTTTGTTCCAAGTTTGAATGTTG
1 CAATGAATCTAATTTAAATTACAAA-GTTGTTCTGAGTTTTAATGTTG
* *
86638220 CAATGAATCTCAA-TTAAATTACAAAGTTATTCTGCGTTTTAATGTTG
1 CAATGAATCT-AATTTAAATTACAAAGTTGTTCTGAGTTTTAATGTTG
* * *
86638267 CAATGAATCTCAA-TTAAATAAATACAAAATTTTTCTAAAG--TT--TGTTG
1 CAATGAATCT-AATTTAAAT---TACAAAGTTGTTCT-GAGTTTTAATGTTG
*
86638314 CAATTAATCTAATTTAAATTACAAAGTT
1 CAATGAATCTAATTTAAATTACAAAGTT
86638342 TATAATTTTG
Statistics
Matches: 142, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
44 8 0.06
46 2 0.01
47 55 0.39
48 60 0.42
49 4 0.03
50 12 0.08
51 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (47 bp):
CAATGAATCTAATTTAAATTACAAAGTTGTTCTGAGTTTTAATGTTG
Found at i:86645058 original size:75 final size:73
Alignment explanation
Indices: 86644970--86645141 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
86644960 GGTTTTCCTC
*** * * **
86644970 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
86645034 TCAGTATGG
65 TCAGTATGG
*
86645043 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
86645108 CTCAGTATGG
64 CTCAGTATGG
86645118 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
86645142 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:86645139 original size:35 final size:35
Alignment explanation
Indices: 86644975--86645141 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
86644965 TCCTCATTGA
*** *
86644975 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
86645010 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
86645050 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
86645085 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
86645120 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
86645142 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:86652555 original size:75 final size:73
Alignment explanation
Indices: 86652467--86652638 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
86652457 GGTTTTCCTC
*** * * **
86652467 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
86652531 TCAGTATGG
65 TCAGTATGG
*
86652540 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
86652605 CTCAGTATGG
64 CTCAGTATGG
86652615 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
86652639 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:86652636 original size:35 final size:35
Alignment explanation
Indices: 86652472--86652638 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
86652462 TCCTCATTGA
*** *
86652472 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
86652507 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
86652547 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
86652582 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
86652617 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
86652639 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:86660135 original size:7 final size:7
Alignment explanation
Indices: 86660125--86660158 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
86660115 ATTTTAAGGT
86660125 TTATGGA
1 TTATGGA
86660132 TTATGGA
1 TTATGGA
86660139 TTATGGA
1 TTATGGA
*
86660146 CTTAGGGA
1 -TTATGGA
86660154 TTATG
1 TTATG
86660159 ATTTATGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.41
Consensus pattern (7 bp):
TTATGGA
Found at i:86660156 original size:15 final size:14
Alignment explanation
Indices: 86660125--86660158 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
86660115 ATTTTAAGGT
*
86660125 TTATGGATTATGGA
1 TTATGGATTAGGGA
86660139 TTATGGACTTAGGGA
1 TTATGGA-TTAGGGA
86660154 TTATG
1 TTATG
86660159 ATTTATGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.41
Consensus pattern (14 bp):
TTATGGATTAGGGA
Found at i:86660237 original size:29 final size:29
Alignment explanation
Indices: 86660203--86660331 Score: 100
Period size: 29 Copynumber: 4.4 Consensus size: 29
86660193 GGGTTTATAA
*
86660203 TTTAGGGGTTAAGAGTTAAGGGTTAAGGG
1 TTTAGGGGTTAAGAGTTAAAGGTTAAGGG
* *
86660232 TCTAGGAGTTAA-AGGTTAAAGGTATAA-GG
1 TTTAGGGGTTAAGA-GTTAAAGGT-TAAGGG
* * * ** *
86660261 TTTAGGGTTTAAAATTTAGTGGTTAAGGA
1 TTTAGGGGTTAAGAGTTAAAGGTTAAGGG
* * * *
86660290 TTTAAGGTTTATGAGTTAAAGGTTAGGGG
1 TTTAGGGGTTAAGAGTTAAAGGTTAAGGG
*
86660319 TTTATGGGTTAAG
1 TTTAGGGGTTAAG
86660332 GCATTAAGAG
Statistics
Matches: 75, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
28 4 0.05
29 67 0.89
30 4 0.05
ACGTcount: A:0.30, C:0.01, G:0.33, T:0.36
Consensus pattern (29 bp):
TTTAGGGGTTAAGAGTTAAAGGTTAAGGG
Found at i:86662059 original size:18 final size:17
Alignment explanation
Indices: 86662022--86662056 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
86662012 TATATAAGTG
86662022 ATTGTTTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
86662039 ATTG-TTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
86662055 AT
1 AT
86662057 ATTAAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
ATTGTTTTTTAATTTAT
Found at i:86662566 original size:34 final size:32
Alignment explanation
Indices: 86662490--86662566 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
86662480 CTAAAGTATT
*
86662490 ATCACCCATTTTTCCCCAATTCGACATCCGAAA
1 ATCACCC-TTTTTCCCCAATTCGAAATCCGAAA
* * *
86662523 ATAACCCCTTTTTCCCCAATTTGAAATCCCTAAA
1 ATCA-CCCTTTTTCCCCAATTCGAAAT-CCGAAA
86662557 ATTCACCCTT
1 A-TCACCCTT
86662567 CCCACTGGCC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
33 20 0.56
34 14 0.39
35 2 0.06
ACGTcount: A:0.30, C:0.35, G:0.04, T:0.31
Consensus pattern (32 bp):
ATCACCCTTTTTCCCCAATTCGAAATCCGAAA
Found at i:86665203 original size:105 final size:100
Alignment explanation
Indices: 86665054--86665342 Score: 470
Period size: 100 Copynumber: 2.8 Consensus size: 100
86665044 TATGTTATTT
* * *
86665054 TATTTTATTTTAATTTAAGCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
1 TATTTTATTTTATTTTAATCAAGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
86665119 ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
66 ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
86665154 TATTTTATTTTATTTTAATCAAGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
1 TATTTTATTTTATTTTAATCAAGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
86665219 ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
66 ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
* *
86665254 TATTTTATTTTATTTTATTTTAAGCACGAAAAGTATTTTGTCTACTTTTATTTTATTTTTAAATT
1 TATTTTATTTTATTTTA-ATCAAG-A--AAAA-TATTTTGTCTACTTTTATTTTATTTTTAAATT
* *
86665319 ATCTAATTAAGTTAAATTGTATTT
61 ACCTAATTAAATTAAATTGTATTT
86665343 TTAAATATTG
Statistics
Matches: 177, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
100 114 0.64
101 4 0.02
102 1 0.01
104 4 0.02
105 54 0.31
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (100 bp):
TATTTTATTTTATTTTAATCAAGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
Found at i:86670669 original size:13 final size:14
Alignment explanation
Indices: 86670653--86670681 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
86670643 TTATAAATAT
86670653 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
86670666 TTATAATGGTTTAA
1 TTATAATGGTTTAA
86670680 TT
1 TT
86670682 CATCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:86671649 original size:19 final size:20
Alignment explanation
Indices: 86671625--86671663 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
86671615 CGTTTTTTGT
*
86671625 GGCTAAAAGA-GCCGCTAAA
1 GGCTAAAAAATGCCGCTAAA
86671644 GGCTAAAAAATGCCGCTAAA
1 GGCTAAAAAATGCCGCTAAA
86671664 AGTCTGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.13
Consensus pattern (20 bp):
GGCTAAAAAATGCCGCTAAA
Found at i:86671908 original size:26 final size:25
Alignment explanation
Indices: 86671879--86671931 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
86671869 AATTACTAAC
*
86671879 AAAATAATAAATTTAAAATAATTAAA
1 AAAATAA-AAAATTAAAATAATTAAA
* *
86671905 AAAATAAAAAATTAAATTTATTAAA
1 AAAATAAAAAATTAAAATAATTAAA
86671930 AA
1 AA
86671932 TCACACTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (25 bp):
AAAATAAAAAATTAAAATAATTAAA
Found at i:86672042 original size:104 final size:100
Alignment explanation
Indices: 86671717--86672056 Score: 336
Period size: 104 Copynumber: 3.3 Consensus size: 100
86671707 ACATTATAAC
* * *
86671717 AAATCACAATACACATTTAACTAAACA-AATA-ATTTATAACCTAATCATAAATTACTAACAAAA
1 AAATCACAATAAACACTAAACTAAACACAA-ACATTTA-AACCTAATCATAAATTACTAACAAAA
* * ** *
86671780 TAACTTTAAAATAATTTTTAAAAAATTATATTCA-TAA
64 TAACTTTAAAAT-ATTTTTAAAAAATAAAATAAATTTA
* *
86671817 AAATTCACAATAAATACTAAACTAAACACAAACAATTAATAACCTAATCATAAATTACTAACAAA
1 AAA-TCACAATAAACACTAAACTAAACACAAAC-ATTTA-AACCTAATCATAAATTACTAAC--A
* * *
86671882 ATAATAAATTTAAAATA-ATTAAAAAAATAAAAAATTAAATTTA
61 A-AATAACTTTAAAATATTTTTAAAAAAT--AAAA-TAAATTTA
* *
86671925 TTAA--A-AAT-CACACTAAACTAAACACAAACAGTTTAACACCTAATCATAAATTACTAACAAA
1 -AAATCACAATAAACACTAAACTAAACACAAACA-TTTAA-ACCTAATCATAAATTACTAACAAA
86671986 ATAACTTTAAAATCATTTTTAAAAAATAAAATAAAATTTA
63 ATAACTTTAAAAT-ATTTTTAAAAAATAAAAT-AAATTTA
86672026 AAATCACAATAAACACTAAACTAAACACAAA
1 AAATCACAATAAACACTAAACTAAACACAAA
86672057 TAATATAATT
Statistics
Matches: 197, Mismatches: 22, Indels: 38
0.77 0.09 0.15
Matches are distributed among these distances:
100 6 0.03
101 45 0.23
102 6 0.03
103 41 0.21
104 71 0.36
105 6 0.03
106 16 0.08
107 2 0.01
108 2 0.01
109 2 0.01
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (100 bp):
AAATCACAATAAACACTAAACTAAACACAAACATTTAAACCTAATCATAAATTACTAACAAAATA
ACTTTAAAATATTTTTAAAAAATAAAATAAATTTA
Found at i:86672155 original size:27 final size:26
Alignment explanation
Indices: 86672105--86672164 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
86672095 AAAACAACAT
**
86672105 AAAAAAA-ACTAATCCCTTCTATTTA
1 AAAAAAATACTAATCCCTTAAATTTA
*
86672130 AAAAAAATACTAATCCCTTAAAATTTT
1 AAAAAAATACTAATCCCTT-AAATTTA
86672157 AAAAAAAT
1 AAAAAAAT
86672165 TACAAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 7 0.23
26 11 0.37
27 12 0.40
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (26 bp):
AAAAAAATACTAATCCCTTAAATTTA
Found at i:86672160 original size:26 final size:26
Alignment explanation
Indices: 86672103--86672163 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
86672093 TAAAAACAAC
**
86672103 ATAAAAAAAACTAATCCCTTCTATTT
1 ATAAAAAAAACTAATCCCTTAAATTT
86672129 A-AAAAAAATACTAATCCCTTAAAATTT
1 ATAAAAAAA-ACTAATCCCTT-AAATTT
86672156 -TAAAAAAA
1 ATAAAAAAA
86672164 TTACAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 7 0.23
26 12 0.40
27 11 0.37
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (26 bp):
ATAAAAAAAACTAATCCCTTAAATTT
Found at i:86673989 original size:18 final size:17
Alignment explanation
Indices: 86673955--86673993 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
86673945 CTTGAGGACT
*
86673955 AAATTTAAAATATTTTA
1 AAATTTAAAATAATTTA
*
86673972 AAATTTTAAATAAATTTA
1 AAATTTAAAAT-AATTTA
86673990 AAAT
1 AAAT
86673994 ATGAATCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATTTAAAATAATTTA
Found at i:86680770 original size:27 final size:27
Alignment explanation
Indices: 86680740--86680852 Score: 93
Period size: 27 Copynumber: 4.0 Consensus size: 27
86680730 TTTTACAAAA
* *
86680740 TTTATATTTCTTTACATTTTGTATTTT
1 TTTATATTTCTATACATTTTATATTTT
*
86680767 TTTATATTTCTATATATTTTATATTTT
1 TTTATATTTCTATACATTTTATATTTT
* * * *
86680794 TTTACAATTTTTATAAAATTTTACAAATTTT
1 TTTA-TATTTCTAT-ACATTTT--ATATTTT
* *
86680825 TTTATGATTTTTA-ATATTTTATATTTT
1 TTTAT-ATTTCTATACATTTTATATTTT
86680852 T
1 T
86680853 ATTAAAATTT
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
27 35 0.49
28 7 0.10
29 12 0.17
31 17 0.24
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.66
Consensus pattern (27 bp):
TTTATATTTCTATACATTTTATATTTT
Found at i:86680805 original size:19 final size:19
Alignment explanation
Indices: 86680783--86680853 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 19
86680773 TTTCTATATA
*
86680783 TTTTATATTTTTTTACAAT
1 TTTTATATATTTTTACAAT
* *
86680802 TTTTATAAAATTTTACAAAT
1 TTTTATATATTTTTAC-AAT
*
86680822 TTTTTTATGATTTTT--AAT
1 TTTTATAT-ATTTTTACAAT
*
86680840 ATTT-TATATTTTTA
1 TTTTATATATTTTTA
86680854 TTAAAATTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
16 6 0.14
17 3 0.07
18 6 0.14
19 13 0.31
20 9 0.21
21 5 0.12
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (19 bp):
TTTTATATATTTTTACAAT
Found at i:86680857 original size:19 final size:20
Alignment explanation
Indices: 86680831--86680874 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
86680821 TTTTTTTATG
* *
86680831 ATTT-TTAATATTTTATATT
1 ATTTATTAAAATTTAATATT
86680850 -TTTATTAAAATTTAATATT
1 ATTTATTAAAATTTAATATT
86680869 ATTTAT
1 ATTTAT
86680875 AGATTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 3 0.14
19 13 0.62
20 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTATTAAAATTTAATATT
Found at i:86681133 original size:91 final size:89
Alignment explanation
Indices: 86680935--86681135 Score: 219
Period size: 91 Copynumber: 2.2 Consensus size: 89
86680925 AAGCAGTGGT
* * * * *
86680935 TTAATTGCTTTTTTTGAAAAAGTTAGAGAGTATTTTTGATGCATTGAAAGTTTAAGTACTCAATT
1 TTAATTGCTTTTTTTGAAAAACTTAGAGAGTATTTTTGATGCATTGAAAGTTAAAATACCCAAAT
86681000 GAGTGAAAAAAAAAGAGTAAGGGC
66 GAGTGAAAAAAAAAGAGTAAGGGC
* * * *
86681024 TTAAATACTTTTTTTGAAAAACTTTGA-AGGCT-TTTTTGATGTATTTTGAAAGTTAAAATACCC
1 TTAATTGCTTTTTTTGAAAAACTTAGAGA-G-TATTTTTGATGCA--TTGAAAGTTAAAATACCC
* * *
86681087 AAATGAGTGGAAAAAAGAGAG-AAGGAGG
62 AAATGAGTGAAAAAAAAAGAGTAAGG-GC
*
86681115 TTAATTGGTTTTTTTGAAAAA
1 TTAATTGCTTTTTTTGAAAAA
86681136 AAATGGAGGA
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
88 1 0.01
89 34 0.37
90 5 0.05
91 52 0.57
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.36
Consensus pattern (89 bp):
TTAATTGCTTTTTTTGAAAAACTTAGAGAGTATTTTTGATGCATTGAAAGTTAAAATACCCAAAT
GAGTGAAAAAAAAAGAGTAAGGGC
Found at i:86687997 original size:20 final size:20
Alignment explanation
Indices: 86687972--86688014 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
86687962 TTAAAGAATG
86687972 TTGGAAATTCTGTTTTTAAA
1 TTGGAAATTCTGTTTTTAAA
*
86687992 TTGGAAATTCTGTTTTTGAA
1 TTGGAAATTCTGTTTTTAAA
86688012 TTG
1 TTG
86688015 TTACAATGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.05, G:0.19, T:0.51
Consensus pattern (20 bp):
TTGGAAATTCTGTTTTTAAA
Found at i:86690206 original size:23 final size:23
Alignment explanation
Indices: 86690173--86690217 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
86690163 CTCACCGTAG
*
86690173 CTTGTATGAGCTTACTGATTCAA
1 CTTGTAAGAGCTTACTGATTCAA
*
86690196 CTTGTAAGAGCTTACTGTTTCA
1 CTTGTAAGAGCTTACTGATTCA
86690218 GCTCATTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (23 bp):
CTTGTAAGAGCTTACTGATTCAA
Found at i:86690252 original size:46 final size:45
Alignment explanation
Indices: 86690202--86690330 Score: 161
Period size: 46 Copynumber: 2.8 Consensus size: 45
86690192 TCAACTTGTA
* * * * *
86690202 AGAGCTTACTGTTTCAGCTCATTGGAGCTTATTGATTCAGTTCGAT
1 AGAGCTTACTGTTTCAGCTCAATAGAGCTTACTG-TTCAGCTCAAT
86690248 AGAGCTTACTG-TTCAGCTCAATAGAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAATAGAGCTTACTGTTCAGCTCAAT
* * *
86690292 AGAGCTTACCGTTTTTAGCTCAGTAGAGCTTACTGTTCA
1 AGAGCTTACTG-TTTCAGCTCAATAGAGCTTACTGTTCA
86690331 TCAGCTCAGG
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 19 0.26
45 19 0.26
46 35 0.48
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (45 bp):
AGAGCTTACTGTTTCAGCTCAATAGAGCTTACTGTTCAGCTCAAT
Found at i:86690271 original size:22 final size:22
Alignment explanation
Indices: 86690202--86690330 Score: 150
Period size: 22 Copynumber: 5.7 Consensus size: 22
86690192 TCAACTTGTA
*
86690202 AGAGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTG-TTCAGCTCAAT
* * * *
86690225 GGAGCTTATTGATTCAGTTCGAT
1 AGAGCTTACTG-TTCAGCTCAAT
86690248 AGAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
86690270 AGAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
* * *
86690292 AGAGCTTACCGTTTTTAGCTCAGT
1 AGAGCTTA-C-TGTTCAGCTCAAT
86690316 AGAGCTTACTGTTCA
1 AGAGCTTACTGTTCA
86690331 TCAGCTCAGG
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
22 43 0.48
23 28 0.31
24 18 0.20
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:86696036 original size:43 final size:43
Alignment explanation
Indices: 86695967--86696136 Score: 220
Period size: 43 Copynumber: 4.0 Consensus size: 43
86695957 ACATATAACT
* * * *
86695967 CATA-CAATGCC-ATATCCCAGATATGGTCTAACATGTTATCA
1 CATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
* *
86696008 CATATCGATGCCAATGTCCCAGACATGGTCTTACATGAAATCA
1 CATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
* * * *
86696051 TATAACAATACCAATGTCCCAGACATGGTCTTACACGTAATCA
1 CATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
86696094 CA-ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
1 CATAT-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
86696137 TATCTCGGTA
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
41 4 0.04
42 7 0.06
43 99 0.90
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (43 bp):
CATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
Found at i:86696108 original size:86 final size:86
Alignment explanation
Indices: 86695981--86696139 Score: 248
Period size: 86 Copynumber: 1.8 Consensus size: 86
86695971 CAATGCCATA
* * * *
86695981 TCCCAGATATGGTCTAACATGTTATCACATATCGATGCCAATGTCCCAGACATGGTCTTACATGA
1 TCCCAGACATGGTCTAACACGTAATCACATATCAATGCCAATGTCCCAGACATGGTCTTACATGA
86696046 AATCATATAACAATACCAATG
66 AATCATATAACAATACCAATG
*
86696067 TCCCAGACATGGTCTTACACGTAATCACA-ATACAATGCCAATGTCCCAGACATGGTCTTACATG
1 TCCCAGACATGGTCTAACACGTAATCACATAT-CAATGCCAATGTCCCAGACATGGTCTTACATG
*
86696131 TAATCATAT
65 AAATCATAT
86696140 CTCGGTAATC
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
85 2 0.03
86 64 0.97
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (86 bp):
TCCCAGACATGGTCTAACACGTAATCACATATCAATGCCAATGTCCCAGACATGGTCTTACATGA
AATCATATAACAATACCAATG
Found at i:86699645 original size:23 final size:23
Alignment explanation
Indices: 86699613--86699658 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
86699603 AGGAAAACCC
*
86699613 ATAATGACCTTTCCTAGTGGCCT
1 ATAATAACCTTTCCTAGTGGCCT
*
86699636 ATAATAACCTTTCCTGGTGGCCT
1 ATAATAACCTTTCCTAGTGGCCT
86699659 TGTTTAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAATAACCTTTCCTAGTGGCCT
Found at i:86703672 original size:22 final size:22
Alignment explanation
Indices: 86703635--86703678 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
86703625 GAAAATAATC
*
86703635 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
* *
86703657 AAAATTAATTACAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
86703679 GTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:86710327 original size:9 final size:11
Alignment explanation
Indices: 86710299--86710324 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
86710289 ATTATAATAA
86710299 TTATATTATAT
1 TTATATTATAT
86710310 TTATATTATAT
1 TTATATTATAT
86710321 TTAT
1 TTAT
86710325 TATGAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATATTATAT
Found at i:86710746 original size:3 final size:3
Alignment explanation
Indices: 86710738--86710785 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
86710728 AAATAGATAT
* *
86710738 TTA TTA TTA -TA TTA TTA TTA TAA TGTA TTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
86710783 TTA
1 TTA
86710786 ACTAACAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:86710801 original size:2 final size:2
Alignment explanation
Indices: 86710794--86710831 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
86710784 TAACTAACAA
86710794 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
86710832 GAAATAAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86711377 original size:16 final size:17
Alignment explanation
Indices: 86711356--86711388 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
86711346 TAAATGAGTT
86711356 AATTAGGAT-TAAATTG
1 AATTAGGATATAAATTG
*
86711372 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
86711389 GATAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.36
Consensus pattern (17 bp):
AATTAGGATATAAATTG
Found at i:86711767 original size:70 final size:75
Alignment explanation
Indices: 86711691--86711866 Score: 184
Period size: 70 Copynumber: 2.3 Consensus size: 75
86711681 ACTTGAACAA
* * *
86711691 ATTGGAAATTAAAAGTGATTTAAATT-AAGT-AATTGAATT-AT-G-AATTATGTGAATATTTGA
1 ATTGGAAACTAAAAGTGATTTGAATTGAA-TAAATTGAATTAATAGAAACTATGTGAATATTTGA
86711751 AA-GTATATTG
65 AATGTATATTG
* *
86711761 ATTGGAAACTAAGAGTGATTTGAATTGAATCAAATTGAATTGAATGAAGAAACTATGTGAGTATT
1 ATTGGAAACTAAAAGTGATTTGAATTGAAT-AAATTGAATT-AAT--AGAAACTATGTGAATATT
86711826 TGAAATGTATATTG
62 TGAAATGTATATTG
* * *
86711840 ATTGAAAAGTAATTAGTGATTTGAATT
1 ATTGGAAACTAA-AAGTGATTTGAATT
86711867 TGATTGGAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
70 24 0.28
71 2 0.02
72 9 0.10
74 2 0.02
77 1 0.01
78 18 0.21
79 18 0.21
80 13 0.15
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.38
Consensus pattern (75 bp):
ATTGGAAACTAAAAGTGATTTGAATTGAATAAATTGAATTAATAGAAACTATGTGAATATTTGAA
ATGTATATTG
Found at i:86714967 original size:26 final size:26
Alignment explanation
Indices: 86714931--86715040 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
86714921 TGATACAAAT
86714931 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
86714957 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
86714983 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
86715009 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
86715035 TGATAA
1 TGATAA
86715041 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:86718268 original size:21 final size:21
Alignment explanation
Indices: 86718244--86718283 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
86718234 TTCAATAACT
* *
86718244 ATCATCAAACTTTCAAAATTC
1 ATCAACAAACATTCAAAATTC
*
86718265 ATCAACAATCATTCAAAAT
1 ATCAACAAACATTCAAAAT
86718284 CTCAAGCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (21 bp):
ATCAACAAACATTCAAAATTC
Found at i:86721372 original size:45 final size:46
Alignment explanation
Indices: 86721283--86721388 Score: 112
Period size: 45 Copynumber: 2.4 Consensus size: 46
86721273 AAAATGAATA
* *
86721283 GAAATAGAGAAATGAAAAACATTCAGAAATGGTTATGGTTTTCTCT
1 GAAATAGAGAAATGAAAAACATTCAGAAATGATTATAGTTTTCTCT
* * ** *
86721329 GAAATAGAGAAATG-GAATCATTTGGAAATGATTGTAGTTTTCTC-
1 GAAATAGAGAAATGAAAAACATTCAGAAATGATTATAGTTTTCTCT
*
86721373 AAAAT-G-GAAATGAAAA
1 GAAATAGAGAAATGAAAA
86721389 TGAAAATGAG
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
42 6 0.12
43 3 0.06
44 4 0.08
45 23 0.46
46 14 0.28
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (46 bp):
GAAATAGAGAAATGAAAAACATTCAGAAATGATTATAGTTTTCTCT
Found at i:86723838 original size:9 final size:9
Alignment explanation
Indices: 86723806--86723832 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
86723796 GTTCGTTTAA
86723806 GTATGAAAT
1 GTATGAAAT
86723815 GTATGAAAT
1 GTATGAAAT
86723824 GTATGAAAT
1 GTATGAAAT
86723833 TGATGATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (9 bp):
GTATGAAAT
Found at i:86725117 original size:18 final size:19
Alignment explanation
Indices: 86725079--86725119 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
86725069 TGGTTCATGT
86725079 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
86725098 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
86725116 TTTC
1 TTTC
86725120 TTATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:86725309 original size:39 final size:38
Alignment explanation
Indices: 86725242--86725376 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
86725232 ACCAATATGG
* * *
86725242 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
86725281 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
86725319 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
86725360 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
86725377 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:86725643 original size:7 final size:7
Alignment explanation
Indices: 86725633--86725657 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
86725623 TAATCAATAT
86725633 ATATTCA
1 ATATTCA
86725640 ATATTCA
1 ATATTCA
86725647 ATATTCA
1 ATATTCA
86725654 ATAT
1 ATAT
86725658 ATATATCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATTCA
Found at i:86726023 original size:5 final size:5
Alignment explanation
Indices: 86726013--86726065 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
86726003 TTACTTATTT
* * *
86726013 ATATA ATATAA TATATA ATATA ATATA CTATA CTATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
86726061 ATATA
1 ATATA
86726066 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:86726029 original size:12 final size:12
Alignment explanation
Indices: 86726012--86726067 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
86726002 TTTACTTATT
86726012 TATATAATATAA
1 TATATAATATAA
86726024 TATATAATATAA
1 TATATAATATAA
86726036 TATACTATACTATAA
1 TATA-TA-A-TATAA
*
86726051 TA-ATAATTTAA
1 TATATAATATAA
86726062 TATATA
1 TATATA
86726068 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:86728834 original size:20 final size:21
Alignment explanation
Indices: 86728811--86728875 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
86728801 GAATCAGGTT
86728811 AAATAATAAAA-AATCGATTC
1 AAATAATAAAACAATCGATTC
* *
86728831 AAATAGA-AAAACAATTGATTT
1 AAATA-ATAAAACAATCGATTC
*
86728852 AAA-CATAAAGACAATCGATTC
1 AAATAATAAA-ACAATCGATTC
86728873 AAA
1 AAA
86728876 AGAAGAAGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.03
20 12 0.33
21 23 0.64
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.23
Consensus pattern (21 bp):
AAATAATAAAACAATCGATTC
Found at i:86733250 original size:26 final size:26
Alignment explanation
Indices: 86733214--86733323 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
86733204 CATGATATTC
86733214 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
86733240 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
86733266 TTAGCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
86733292 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
86733318 TTATCA
1 TTATCA
86733324 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:86736000 original size:31 final size:30
Alignment explanation
Indices: 86735965--86736041 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 30
86735955 TTTGTCCTTC
* * *
86735965 AATTTTATCATATTTATGCTTTAACCCTTAA
1 AATTTTATCATATTTATACTTGAA-CCTCAA
* *
86735996 AATTTTA-AATAATTATACTTGAACCTCAA
1 AATTTTATCATATTTATACTTGAACCTCAA
*
86736025 AATTTTTTACATATTTA
1 AATTTTAT-CATATTTA
86736042 CAATTTGGTC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
29 11 0.31
30 12 0.33
31 13 0.36
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.47
Consensus pattern (30 bp):
AATTTTATCATATTTATACTTGAACCTCAA
Found at i:86736907 original size:107 final size:107
Alignment explanation
Indices: 86736770--86736991 Score: 399
Period size: 107 Copynumber: 2.1 Consensus size: 107
86736760 TACATTCAAA
*
86736770 TAAACAAAATTAGAGAAAATAAACTATTAAGGGCCTTTCCTTAAAATTTTTACTCTATTTTCATT
1 TAAACAAAATTAGAGAAAATAAACTATTAAGGGCCTTTCCTTAAAATTTTTACTCTATTCTCATT
*
86736835 ATTTCCGAACACAAAACATAAAAAGGCTCATTTTTTTAAGTC
66 ATTTCCGAACACAAAACATAAAAAAGCTCATTTTTTTAAGTC
* *
86736877 TAAACAAAATTGGAGAAAATAAACTATTAAGGGCCTTTCCTTAGAATTTTTACTCTATTCTCATT
1 TAAACAAAATTAGAGAAAATAAACTATTAAGGGCCTTTCCTTAAAATTTTTACTCTATTCTCATT
86736942 ATTTCCGAACACAAAACATAAAAAAGCTCATTTTTTTAAGTC
66 ATTTCCGAACACAAAACATAAAAAAGCTCATTTTTTTAAGTC
*
86736984 TAAGCAAA
1 TAAACAAA
86736992 GTTGCGATTG
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 110 1.00
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (107 bp):
TAAACAAAATTAGAGAAAATAAACTATTAAGGGCCTTTCCTTAAAATTTTTACTCTATTCTCATT
ATTTCCGAACACAAAACATAAAAAAGCTCATTTTTTTAAGTC
Found at i:86737279 original size:17 final size:17
Alignment explanation
Indices: 86737226--86737279 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
86737216 AATATTAATA
86737226 AATAAAAAATACAATTAT
1 AATAAAAAA-ACAATTAT
* *
86737244 AATAATATAAA-AATGAT
1 AATAA-AAAAACAATTAT
*
86737261 AATAACAAAACAATTAT
1 AATAAAAAAACAATTAT
86737278 AA
1 AA
86737280 AATAATAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
16 3 0.10
17 17 0.59
18 6 0.21
19 3 0.10
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.26
Consensus pattern (17 bp):
AATAAAAAAACAATTAT
Found at i:86738270 original size:18 final size:19
Alignment explanation
Indices: 86738239--86738290 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
86738229 TAAAATATAA
86738239 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AA-TTTTATAAATT
*
86738259 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTATAAATT
86738278 ATTTT-AATTTTAT
1 ATTTTGAATTTTAT
86738291 TTTTGTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 15 0.52
19 8 0.28
20 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTATAAATT
Found at i:86738270 original size:19 final size:20
Alignment explanation
Indices: 86738202--86738288 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 20
86738192 ATTCTTTATA
* *
86738202 AATTTTAAAAAATTATTAT-
1 AATTTTTAAAAATTATTTTG
*
86738221 AATTTTTTTAAAATATAAATTTTG
1 AA--TTTTTAAAA-AT-TATTTTG
*
86738245 AAATTTTTATAAA-TATTTTG
1 -AATTTTTAAAAATTATTTTG
86738265 AA-TTTTAAAAATTATTTT-
1 AATTTTTAAAAATTATTTTG
86738283 AATTTT
1 AATTTT
86738289 ATTTTTGTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
18 10 0.19
19 13 0.24
20 6 0.11
21 8 0.15
22 3 0.06
23 12 0.22
25 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTG
Found at i:86738526 original size:7 final size:7
Alignment explanation
Indices: 86738478--86738525 Score: 87
Period size: 7 Copynumber: 6.9 Consensus size: 7
86738468 ATTTGATAAA
86738478 CTCAAAG
1 CTCAAAG
86738485 CTCAAAG
1 CTCAAAG
86738492 CTCAAAG
1 CTCAAAG
86738499 CTCAAAG
1 CTCAAAG
86738506 CTCAAAG
1 CTCAAAG
*
86738513 CTCAAAA
1 CTCAAAG
86738520 CTCAAA
1 CTCAAA
86738526 ATTCAATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.46, C:0.29, G:0.10, T:0.15
Consensus pattern (7 bp):
CTCAAAG
Found at i:86738531 original size:7 final size:7
Alignment explanation
Indices: 86738475--86738531 Score: 60
Period size: 7 Copynumber: 8.1 Consensus size: 7
86738465 TGAATTTGAT
86738475 AAACTCA
1 AAACTCA
*
86738482 AAGCTCA
1 AAACTCA
*
86738489 AAGCTCA
1 AAACTCA
*
86738496 AAGCTCA
1 AAACTCA
*
86738503 AAGCTCA
1 AAACTCA
*
86738510 AAGCTCA
1 AAACTCA
86738517 AAACTCA
1 AAACTCA
*
86738524 AAATTCA
1 AAACTCA
86738531 A
1 A
86738532 TTTTTATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.49, C:0.26, G:0.09, T:0.16
Consensus pattern (7 bp):
AAACTCA
Found at i:86744707 original size:23 final size:24
Alignment explanation
Indices: 86744674--86744723 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
86744664 CATTTTTTTC
86744674 TTCTAAATTTA-ATGTAAAATAATT
1 TTCTAAATTTATAT-TAAAATAATT
*
86744698 TTCT-AATTTATATTAAAATAGTT
1 TTCTAAATTTATATTAAAATAATT
86744721 TTC
1 TTC
86744724 CTCTAAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (24 bp):
TTCTAAATTTATATTAAAATAATT
Found at i:86746466 original size:21 final size:22
Alignment explanation
Indices: 86746422--86746466 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
86746412 ATTAAAATTG
* *
86746422 ACCTAAACTCAAAATGATTAAA
1 ACCTAAAATCAAAATGACTAAA
*
86746444 ACCTAAAAT-AAAATGACTCAA
1 ACCTAAAATCAAAATGACTAAA
86746465 AC
1 AC
86746467 ACATAACTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.56, C:0.20, G:0.04, T:0.20
Consensus pattern (22 bp):
ACCTAAAATCAAAATGACTAAA
Found at i:86749835 original size:22 final size:22
Alignment explanation
Indices: 86749804--86749847 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
86749794 AATTATTAAC
*
86749804 ATAATGAATTTTAAATAATTTT
1 ATAATAAATTTTAAATAATTTT
* *
86749826 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTTAAATAATTTT
86749848 GATCATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
ATAATAAATTTTAAATAATTTT
Found at i:86750010 original size:22 final size:22
Alignment explanation
Indices: 86749984--86750028 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
86749974 ATTATGTGTA
86749984 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
86750006 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
86750028 T
1 T
86750029 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:86750320 original size:33 final size:33
Alignment explanation
Indices: 86750278--86750343 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
86750268 GAAAACTTCA
* * *
86750278 AACTTGCCACATGTGTGGCTGGCCATGGGAGGG
1 AACTTGCCACATGTGCGGCAGGCCAAGGGAGGG
86750311 AACTTGCCACATGTGCGGCAGGCCAAGGGAGGG
1 AACTTGCCACATGTGCGGCAGGCCAAGGGAGGG
86750344 CTCTTTGGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.21, C:0.23, G:0.39, T:0.17
Consensus pattern (33 bp):
AACTTGCCACATGTGCGGCAGGCCAAGGGAGGG
Found at i:86752651 original size:46 final size:46
Alignment explanation
Indices: 86752598--86752773 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
86752588 TATTTGGGCA
86752598 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
86752644 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
86752689 CATCCGAACTCGTTGAGTTGAGTCCGAGGTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
86752737 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
86752774 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:86752753 original size:93 final size:93
Alignment explanation
Indices: 86752594--86752766 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
86752584 GGGATATTTG
* * * *
86752594 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGGTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
86752659 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
86752687 GGCATCCGAACTCGTTGAGTTGAGTCCGAGGTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGGTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
86752752 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
86752767 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGGTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:86762102 original size:15 final size:15
Alignment explanation
Indices: 86762084--86762122 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
86762074 TCCAAGATTG
86762084 AGAAACCCAGAATAA
1 AGAAACCCAGAATAA
*
86762099 AGAAATCCAGAATAA
1 AGAAACCCAGAATAA
86762114 AGAAACCCA
1 AGAAACCCA
86762123 AGATACGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.59, C:0.21, G:0.13, T:0.08
Consensus pattern (15 bp):
AGAAACCCAGAATAA
Found at i:86762118 original size:30 final size:30
Alignment explanation
Indices: 86762063--86762122 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
86762053 CAAGAAAACT
**
86762063 GAATAAAGAAATCCAAGATTGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAGAAACCCA
86762093 GAATAAAGAAATCC-AGAATAAAGAAACCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCA
86762123 AGATACGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.57, C:0.17, G:0.15, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCA
Found at i:86772868 original size:14 final size:14
Alignment explanation
Indices: 86772849--86772879 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
86772839 CAAAATGGTA
86772849 ATTTTGCCTAGACC
1 ATTTTGCCTAGACC
*
86772863 ATTTTGCCTAGAGC
1 ATTTTGCCTAGACC
86772877 ATT
1 ATT
86772880 AATTAAATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (14 bp):
ATTTTGCCTAGACC
Found at i:86773540 original size:46 final size:46
Alignment explanation
Indices: 86773488--86774022 Score: 793
Period size: 46 Copynumber: 11.6 Consensus size: 46
86773478 GCTTTCTGAA
*
86773488 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
86773534 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
86773580 ATGAAATGTGTAAGACCATGGTTAAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
86773626 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
86773672 ATGAAATGTGTAAGACTTTGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
86773718 ATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
86773764 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
86773810 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
86773856 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* ** * *
86773902 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * * * *
86773948 ATGAAATGAACAAGACCATGGTTAAAAGATACCATGGCAACCTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
86773994 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
86774023 CATTATGGCA
Statistics
Matches: 455, Mismatches: 33, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
45 1 0.00
46 454 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:86775444 original size:9 final size:9
Alignment explanation
Indices: 86775430--86775475 Score: 56
Period size: 9 Copynumber: 4.8 Consensus size: 9
86775420 TAATAGAGTG
86775430 AAAGAAAAA
1 AAAGAAAAA
86775439 AAAGAAAAAAA
1 AAAG--AAAAA
86775450 AAAGAAAAA
1 AAAGAAAAA
*
86775459 AAAGAAAGGA
1 AAAGAAA-AA
86775469 AAAGAAA
1 AAAGAAA
86775476 GATGAAGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
9 16 0.48
10 8 0.24
11 9 0.27
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:86775450 original size:11 final size:11
Alignment explanation
Indices: 86775434--86775461 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
86775424 AGAGTGAAAG
86775434 AAAAAAAAGAA
1 AAAAAAAAGAA
86775445 AAAAAAAAGAA
1 AAAAAAAAGAA
86775456 AAAAAA
1 AAAAAA
86775462 GAAAGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:86775470 original size:14 final size:13
Alignment explanation
Indices: 86775429--86775487 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
86775419 ATAATAGAGT
86775429 GAAAGAAAAA-AAA
1 GAAA-AAAAAGAAA
86775442 G-AAAAAAA-AAA
1 GAAAAAAAAGAAA
86775453 GAAAAAAAAGAAA
1 GAAAAAAAAGAAA
*
86775466 GGAAAAGAAAGATGAA
1 -GAAAAAAAAGA--AA
86775482 GAAAAA
1 GAAAAA
86775488 GAGAAATGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
11 9 0.23
12 9 0.23
13 4 0.10
14 10 0.26
15 5 0.13
16 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (13 bp):
GAAAAAAAAGAAA
Found at i:86775471 original size:20 final size:19
Alignment explanation
Indices: 86775430--86775475 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
86775420 TAATAGAGTG
86775430 AAAGAAAAAAAAGAAAAAAA
1 AAAGAAAAAAAAG-AAAAAA
**
86775450 AAAGAAAAAAAAGAAAGGA
1 AAAGAAAAAAAAGAAAAAA
86775469 AAAGAAA
1 AAAGAAA
86775476 GATGAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAGAAAAAAAAGAAAAAA
Found at i:86775476 original size:10 final size:10
Alignment explanation
Indices: 86775430--86775477 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
86775420 TAATAGAGTG
86775430 AAAGAAA-AA
1 AAAGAAAGAA
*
86775439 AAAGAAAAAAA
1 AAAG-AAAGAA
86775450 AAAGAAA-AA
1 AAAGAAAGAA
*
86775459 AAAGAAAGGA
1 AAAGAAAGAA
86775469 AAAGAAAGA
1 AAAGAAAGA
86775478 TGAAGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 13 0.38
10 15 0.44
11 6 0.18
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:86779441 original size:45 final size:47
Alignment explanation
Indices: 86779375--86779475 Score: 113
Period size: 45 Copynumber: 2.2 Consensus size: 47
86779365 AAATGTATAC
*
86779375 ATATAACTAATAATTATAAATTATAAAAT-TTA-TATTAA-ATA-TAAA
1 ATATAA-TAATAATTATAAATT-TAAAATATTACTAATAATATATTAAA
*
86779420 ATATAATAATTATATTA-AAATTTTAAATATTACTAATAATATATTAAA
1 ATATAATAA-TA-ATTATAAATTTAAAATATTACTAATAATATATTAAA
86779468 ATATAATA
1 ATATAATA
86779476 TAGTAATTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
44 8 0.17
45 16 0.33
46 9 0.19
47 3 0.06
48 12 0.25
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (47 bp):
ATATAATAATAATTATAAATTTAAAATATTACTAATAATATATTAAA
Found at i:86779475 original size:27 final size:27
Alignment explanation
Indices: 86779389--86779476 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 27
86779379 AACTAATAAT
86779389 TATAA-ATTATAA-AATTTATATT-AAA
1 TATAATATTATAATAA-TTATATTAAAA
*
86779414 TATAA-AATATAATAATTATATTAAAA
1 TATAATATTATAATAATTATATTAAAA
*
86779440 TTTTAAATATTACTAATAA-TATATTAAAA
1 -TAT-AATATTA-TAATAATTATATTAAAA
86779469 TATAATAT
1 TATAATAT
86779477 AGTAATTTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
25 18 0.34
26 5 0.09
27 7 0.13
28 4 0.08
29 13 0.25
30 6 0.11
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (27 bp):
TATAATATTATAATAATTATATTAAAA
Found at i:86782990 original size:20 final size:20
Alignment explanation
Indices: 86782965--86783002 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
86782955 GTAACTTAAT
*
86782965 AAACCTTATTTTGATTAAAC
1 AAACCTTATTTTAATTAAAC
86782985 AAACCTTATTTTAATTAA
1 AAACCTTATTTTAATTAA
86783003 TCTAATGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (20 bp):
AAACCTTATTTTAATTAAAC
Found at i:86784232 original size:24 final size:22
Alignment explanation
Indices: 86784180--86784236 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
86784170 GATTCTACAA
86784180 AATTTAAATTAGATAACTTATT
1 AATTTAAATTAGATAACTTATT
* * *
86784202 ATTTTTAAATTATTATAGCTTAATT
1 A-ATTTAAATTA-GATAACTT-ATT
86784227 AATTTAAATT
1 AATTTAAATT
86784237 TATAATAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 1 0.04
23 9 0.32
24 14 0.50
25 4 0.14
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (22 bp):
AATTTAAATTAGATAACTTATT
Found at i:86786453 original size:46 final size:44
Alignment explanation
Indices: 86786349--86786456 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
86786339 TGTCTTTGAC
** * * *
86786349 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
86786393 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
86786439 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
86786457 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:86793825 original size:46 final size:44
Alignment explanation
Indices: 86793721--86793828 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
86793711 TGTCTTTGAC
** * * *
86793721 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
86793765 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
86793811 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
86793829 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:86801186 original size:46 final size:44
Alignment explanation
Indices: 86801082--86801189 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
86801072 TGTCTTTGAC
** * * *
86801082 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
86801126 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
86801172 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
86801190 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:86807862 original size:5 final size:5
Alignment explanation
Indices: 86807852--86807891 Score: 71
Period size: 5 Copynumber: 7.8 Consensus size: 5
86807842 TAGGAAAATC
86807852 TTATT TTATT TTATT TTATT TTATT TTATTT TTATT TTAT
1 TTATT TTATT TTATT TTATT TTATT TTA-TT TTATT TTAT
86807892 ATTAAATTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:86807905 original size:26 final size:26
Alignment explanation
Indices: 86807855--86807905 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
86807845 GAAAATCTTA
* ** *
86807855 TTTTATTTTATTTTATTTTATTTTAT
1 TTTTATTTTATATTAAATTAGTTTAT
86807881 TTTTATTTTATATTAAATTAGTTTA
1 TTTTATTTTATATTAAATTAGTTTA
86807906 GGCTAAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (26 bp):
TTTTATTTTATATTAAATTAGTTTAT
Found at i:86810714 original size:46 final size:45
Alignment explanation
Indices: 86810610--86810740 Score: 142
Period size: 46 Copynumber: 2.8 Consensus size: 45
86810600 GGAAATTGAT
*
86810610 ATCCGAACTCGTTGAGTTGCAT-TTCGAGTTCACCTATGGATGCAAGC
1 ATCCGAACTCGTTGAGTTG--TGTTCGAGTTCA-TTATGGATGCAAGC
86810657 ATCCGAACTCGTTGAGTTGTGTTCTGAGTTCATTATGGATGCGAA-C
1 ATCCGAACTCGTTGAGTTGTGTTC-GAGTTCATTATGGATGC-AAGC
* * *
86810703 A-CTCGAGCTCGTTGAGTTGCGTTCCAAGTTCATTATGG
1 ATC-CGAACTCGTTGAGTTGTGTT-CGAGTTCATTATGG
86810741 GTGAGATTAT
Statistics
Matches: 75, Mismatches: 4, Indels: 11
0.83 0.04 0.12
Matches are distributed among these distances:
45 2 0.03
46 44 0.59
47 29 0.39
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (45 bp):
ATCCGAACTCGTTGAGTTGTGTTCGAGTTCATTATGGATGCAAGC
Found at i:86818793 original size:46 final size:46
Alignment explanation
Indices: 86818698--86818863 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 46
86818688 TGTCGACGCG
* * * *
86818698 ATGTCCAAGACATGGTCTTACACTGAC--ACATCTCGTAGCCGATGC
1 ATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCG-AGCCGATAC
*
86818743 ATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCTGATAC
1 ATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGA-GCCGATAC
* * * *
86818789 ATGTCCCAGACAT-GTCTTACACTAGCACT-CGTCTCAATGCCGATGCC
1 ATGTCCCAGACATGGTCTTACACTGGC-TTACGTCTCGA-GCCGAT-AC
*
86818836 ATGTTCCAGACATGGTCTTACACTGGCT
1 ATGTCCCAGACATGGTCTTACACTGGCT
86818864 CTCATAATGT
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
44 12 0.12
45 13 0.13
46 50 0.50
47 14 0.14
48 12 0.12
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
ATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGAGCCGATAC
Found at i:86819769 original size:20 final size:20
Alignment explanation
Indices: 86819746--86819790 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
86819736 TTTGGCCTTA
86819746 CCCATATT-AACACAGTTGGG
1 CCCATATTCAACACAGTT-GG
*
86819766 CCCAT-TTCAATACAGTTGG
1 CCCATATTCAACACAGTTGG
86819785 CCCATA
1 CCCATA
86819791 ACAAAACAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (20 bp):
CCCATATTCAACACAGTTGG
Found at i:86819799 original size:19 final size:20
Alignment explanation
Indices: 86819757--86819800 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
86819747 CCATATTAAC
** *
86819757 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
86819777 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
86819796 ACAGT
1 ACAGT
86819801 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:86820256 original size:46 final size:46
Alignment explanation
Indices: 86820189--86820284 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 46
86820179 AGTAATTTTA
* * *
86820189 TCAGTCTTTTTAGGGTTTCATGCTTATTACAGTTATTAACGAGTCT
1 TCAGTCTTTTTACGGTTTCATGCTCATTACAGATATTAACGAGTCT
86820235 TCAGTCTTTTTACGGTTTCATGCTCATTACAGATATTAACGAGTCT
1 TCAGTCTTTTTACGGTTTCATGCTCATTACAGATATTAACGAGTCT
86820281 TCAG
1 TCAG
86820285 AATACTTACC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.43
Consensus pattern (46 bp):
TCAGTCTTTTTACGGTTTCATGCTCATTACAGATATTAACGAGTCT
Found at i:86821020 original size:19 final size:19
Alignment explanation
Indices: 86820992--86821030 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
86820982 CAAGGAAGGA
*
86820992 AGAGATAAGAAAAAGAAAG
1 AGAGAAAAGAAAAAGAAAG
*
86821011 AGAGAAAAGAAGAAGAAAG
1 AGAGAAAAGAAAAAGAAAG
86821030 A
1 A
86821031 ATTCGACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (19 bp):
AGAGAAAAGAAAAAGAAAG
Found at i:86821160 original size:112 final size:113
Alignment explanation
Indices: 86821026--86821252 Score: 438
Period size: 112 Copynumber: 2.0 Consensus size: 113
86821016 AAAGAAGAAG
*
86821026 AAAGAATTCGACTTTAGGTAAAACGGCAAAATAAAAGAATGAAAGCAACCAACAGAATTCAGCCC
1 AAAGAATTCGACTTTAGGTAAAACGGAAAAATAAAAGAATGAAAGCAACCAACAGAATTCAGCCC
86821091 CTAAAGAACCTACACCTATTCGGCAACTAAACAATTGCA-CCCCTACA
66 CTAAAGAACCTACACCTATTCGGCAACTAAACAATTGCACCCCCTACA
86821138 AAAGAATTCGACTTTAGGTAAAACGGAAAAATAAAAGAATGAAAGCAACCAACAGAATTCAGCCC
1 AAAGAATTCGACTTTAGGTAAAACGGAAAAATAAAAGAATGAAAGCAACCAACAGAATTCAGCCC
86821203 CTAAAGAACCTACACCTATTCGGCAACTAAACAATTGCACCCCCTACA
66 CTAAAGAACCTACACCTATTCGGCAACTAAACAATTGCACCCCCTACA
86821251 AA
1 AA
86821253 CTAAAAATGC
Statistics
Matches: 113, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
112 103 0.91
113 10 0.09
ACGTcount: A:0.45, C:0.25, G:0.13, T:0.17
Consensus pattern (113 bp):
AAAGAATTCGACTTTAGGTAAAACGGAAAAATAAAAGAATGAAAGCAACCAACAGAATTCAGCCC
CTAAAGAACCTACACCTATTCGGCAACTAAACAATTGCACCCCCTACA
Found at i:86824162 original size:62 final size:60
Alignment explanation
Indices: 86824024--86824167 Score: 159
Period size: 62 Copynumber: 2.4 Consensus size: 60
86824014 ATCAGAGTTA
* *
86824024 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGGCCCTTACAGTATCAAAGTAT
1 ACTGGGCCTT-GCCCATATTAATATCAATCTGGGCCATAGGCCCTTACAGTATCAAAGTAT
* * * *
86824085 ACTGGGCCTAGCCCATATTAGTATCAATCTGGGCCGTA-GCCCTACTACAAGT-TGAGATA-TAT
1 ACTGGGCCTTGCCCATATTAATATCAATCTGGGCCATAGGCCCT--TAC-AGTATCA-A-AGTAT
86824147 ACTGGGCCTTGCCCATATTAA
1 ACTGGGCCTTGCCCATATTAA
86824168 CATAGTTGGG
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
59 5 0.07
60 24 0.34
61 14 0.20
62 26 0.37
63 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (60 bp):
ACTGGGCCTTGCCCATATTAATATCAATCTGGGCCATAGGCCCTTACAGTATCAAAGTAT
Found at i:86832726 original size:20 final size:21
Alignment explanation
Indices: 86832701--86832740 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
86832691 ACTTTGAAAT
86832701 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
86832721 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
86832741 CCACTTCGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:86835796 original size:26 final size:26
Alignment explanation
Indices: 86835760--86835811 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
86835750 ACAACCTTTA
86835760 GATTGGAGATCAATCAGAAGTTCAAT
1 GATTGGAGATCAATCAGAAGTTCAAT
*
86835786 GATTGGTGATCAATCAGAAGTTCAAT
1 GATTGGAGATCAATCAGAAGTTCAAT
86835812 CCTCTATAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.29
Consensus pattern (26 bp):
GATTGGAGATCAATCAGAAGTTCAAT
Done.