Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01009674.1 Corchorus capsularis cultivar CVL-1 contig09695, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96797
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:3640 original size:30 final size:30
Alignment explanation
Indices: 3600--3662 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
3590 TGTCTTCAAG
*
3600 TCCATAATAAGTCCTT-GGCACATCATTCTC
1 TCCATAATAAG-CCTTGGGCACATCATTCCC
* *
3630 TCCATGATAAGCCTTGGGCGCATCATTCCC
1 TCCATAATAAGCCTTGGGCACATCATTCCC
3660 TCC
1 TCC
3663 CCCTTGAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 4 0.14
30 25 0.86
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.30
Consensus pattern (30 bp):
TCCATAATAAGCCTTGGGCACATCATTCCC
Found at i:4085 original size:33 final size:33
Alignment explanation
Indices: 4048--4121 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
4038 AAAACAGTTC
4048 TATTTTCAATGCTATGATCAACCAAAACAGAAT
1 TATTTTCAATGCTATGATCAACCAAAACAGAAT
* *
4081 TATTTGCAATGCTATGATCAACCAAAACAGATT
1 TATTTTCAATGCTATGATCAACCAAAACAGAAT
4114 TATTTTCA
1 TATTTTCA
4122 TCACAATTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (33 bp):
TATTTTCAATGCTATGATCAACCAAAACAGAAT
Found at i:4174 original size:33 final size:34
Alignment explanation
Indices: 4102--4183 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 34
4092 CTATGATCAA
** *
4102 CCAAAACAGATTTA-TTTTCATCACAATTAGCAT
1 CCAAAACAGATTTAGTTTTCATCACAAACAACAT
4135 CCAAAACAGATTTAGTTTT-ATCACAAACAACA-
1 CCAAAACAGATTTAGTTTTCATCACAAACAACAT
4167 CCTAAAACAGATTTAGT
1 CC-AAAACAGATTTAGT
4184 GTCATTGCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 2 0.05
33 38 0.86
34 4 0.09
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (34 bp):
CCAAAACAGATTTAGTTTTCATCACAAACAACAT
Found at i:4195 original size:33 final size:32
Alignment explanation
Indices: 4137--4241 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 32
4127 ATTAGCATCC
* * *
4137 AAAACAGATTTAGTTTTATCACAAACAACACCT
1 AAAACAGATTTAGTATCATCGCAAACAACA-CT
* *
4170 AAAACAGATTTAGTGTCATTGCAAACAACACT
1 AAAACAGATTTAGTATCATCGCAAACAACACT
** * *
4202 CAAATTAGGTTTAGTATCATCGCAAACGACATCT
1 -AAAACAGATTTAGTATCATCGCAAACAACA-CT
4236 AAAACA
1 AAAACA
4242 ATCTTTGCAA
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
32 2 0.03
33 54 0.93
34 2 0.03
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (32 bp):
AAAACAGATTTAGTATCATCGCAAACAACACT
Found at i:13855 original size:2 final size:2
Alignment explanation
Indices: 13848--13872 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13838 AAATATTGGG
13848 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13873 TTGATACTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14597 original size:256 final size:254
Alignment explanation
Indices: 14113--14600 Score: 554
Period size: 256 Copynumber: 1.9 Consensus size: 254
14103 TATTTGAGCC
* * * *
14113 AATGAATATAATTTTGAGTTAACAACTTAAGTCATGGATAGTGAAGATTTTTATCGGCATGAGAA
1 AATGAATATAATTTTGAATTAACAACTTAAGTCATGGATAGTGAAAATTTTGATCGGCAGGAGAA
* * * * *
14178 AATAAAAGAAGAATATACATAAAGTTTGTGCAGGGTTTATCCATCAAATTCGATGGGAAAATTTG
66 AATAAAAGAAAAATATACATAAAGTTTGAGCAGAGTATATCCATCAAATTCGACGGGAAAATTTG
* * ** * ** **
14243 TTTCGAGCATTAATTTTTCAATTATTAAAAAATGTCCTTTTGTTTCGTGTTTAGTGTGTTTATCT
131 TTTCGAGCAATAATTTTTCAATCAAGAAAAAATGTCCTTTTGTTTC-TGTTAAAAGTAATTATCT
* *
14308 AATTATATTTTTGCTTCACATGTGAATGGGGAAGTTTTAAGTTATCATGTGTATCAAGCA
195 AATTATATTTTTGCTTCACATGCGAACGGGGAAGTTTTAAGTTATCATGTGTATCAAGCA
* ** * *
14368 AATGAATATAATTTTGAATTGACAGGTTAAGTCATGGATGGTGAAAATTTTGATCGGCAGGAGGA
1 AATGAATATAATTTTGAATTAACAACTTAAGTCATGGATAGTGAAAATTTTGATCGGCAGGAGAA
** ** * *
14433 AATAATTAA-AAAAATATTTATTCAGTTTGAGCAGAGTATCTCCTTCAAATTCGACGGGAAAAAT
66 AATAA--AAGAAAAATATACATAAAGTTTGAGCAGAGTATATCCATCAAATTCGACGGG-AAAAT
* * *
14497 TTGTTTCGAGTAATAAGTTTTTCAATCAAGAAAAAGT-TCTTTTTGTTT-TGATCTAAAAG-AAT
128 TTGTTTCGAGCAATAA-TTTTTCAATCAAGAAAAAATGTCCTTTTGTTTCTG-T-TAAAAGTAAT
*
14559 TATTTAATTATATTTTTGCTTTC-CATGCGAACGGGGAAGTTT
190 TATCTAATTATATTTTTGC-TTCACATGCGAACGGGGAAGTTT
14601 GATATAATTC
Statistics
Matches: 191, Mismatches: 35, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
255 63 0.33
256 75 0.39
257 37 0.19
258 16 0.08
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (254 bp):
AATGAATATAATTTTGAATTAACAACTTAAGTCATGGATAGTGAAAATTTTGATCGGCAGGAGAA
AATAAAAGAAAAATATACATAAAGTTTGAGCAGAGTATATCCATCAAATTCGACGGGAAAATTTG
TTTCGAGCAATAATTTTTCAATCAAGAAAAAATGTCCTTTTGTTTCTGTTAAAAGTAATTATCTA
ATTATATTTTTGCTTCACATGCGAACGGGGAAGTTTTAAGTTATCATGTGTATCAAGCA
Found at i:28920 original size:67 final size:67
Alignment explanation
Indices: 28836--28970 Score: 234
Period size: 67 Copynumber: 2.0 Consensus size: 67
28826 GTGGCGTTGC
* *
28836 TAAGGATCAGAGACAGAACAAAAATGTCTCTGAGTGTCAGACACGGAATCAGAGACATCCGTTAG
1 TAAGGATCAAAGACAGAACAAAAATGTCTCTGACTGTCAGACACGGAATCAGAGACATCCGTTAG
28901 AT
66 AT
* *
28903 TAAGGATCAAAGACAGAATAAAAATGTCTTTGACTGTCAGACACGGAATCAGAGACATCCGTTAG
1 TAAGGATCAAAGACAGAACAAAAATGTCTCTGACTGTCAGACACGGAATCAGAGACATCCGTTAG
28968 AT
66 AT
28970 T
1 T
28971 TGAAGATTAA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.21
Consensus pattern (67 bp):
TAAGGATCAAAGACAGAACAAAAATGTCTCTGACTGTCAGACACGGAATCAGAGACATCCGTTAG
AT
Found at i:29047 original size:13 final size:14
Alignment explanation
Indices: 29029--29089 Score: 56
Period size: 13 Copynumber: 4.3 Consensus size: 14
29019 TAGAAACATT
29029 ATTTTCAT-TATTA
1 ATTTTCATATATTA
*
29042 ATTTTCTATAAATTA
1 ATTTTC-ATATATTA
29057 ATTTTC-TATATTA
1 ATTTTCATATATTA
29070 ATAATTCTCAT-TATTA
1 AT--TT-TCATATATTA
29086 ATTT
1 ATTT
29090 AATATATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
13 14 0.35
14 4 0.10
15 12 0.30
16 9 0.22
17 1 0.03
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTCATATATTA
Found at i:29058 original size:15 final size:15
Alignment explanation
Indices: 29038--29066 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29028 TATTTTCATT
29038 ATTAATTTTCTATAA
1 ATTAATTTTCTATAA
29053 ATTAATTTTCTATA
1 ATTAATTTTCTATA
29067 TTAATAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTAATTTTCTATAA
Found at i:29332 original size:22 final size:22
Alignment explanation
Indices: 29304--29346 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
29294 TAAAAACTCA
* *
29304 GACACCCTTTTTCTTGTCTTGT
1 GACACCCATTTTCTTGGCTTGT
29326 GACACCCATTTTCTTGGCTTG
1 GACACCCATTTTCTTGGCTTG
29347 GTTTCTCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.28, G:0.16, T:0.44
Consensus pattern (22 bp):
GACACCCATTTTCTTGGCTTGT
Found at i:42941 original size:81 final size:85
Alignment explanation
Indices: 42791--42953 Score: 217
Period size: 81 Copynumber: 2.0 Consensus size: 85
42781 GGATCAGGGC
* * * *
42791 ACGTTTCATTTAGAGTTCTTTTGTTAGTATTATGACTTGTCGTTAATGTTAGTCGGAGATTTCTT
1 ACGTATCATTTAGAGTTCTTTTGTTACTATTATGACTTGTCGTTAATATTAGTCAGAGATTTCTT
*
42856 TGCTACATTTGGGATATTTT
66 TGCTACATTTGGAATATTTT
* * * *
42876 ACGTATCATTTAGATTTC-TTTGTTACTATTGTGAC-T-T-GTTGATATTAGTTAGAGATTTCTT
1 ACGTATCATTTAGAGTTCTTTTGTTACTATTATGACTTGTCGTTAATATTAGTCAGAGATTTCTT
42937 TGCTACATTTGGAATAT
66 TGCTACATTTGGAATAT
42954 GTTTTCCATT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 36 0.52
82 1 0.01
83 1 0.01
84 15 0.22
85 16 0.23
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.49
Consensus pattern (85 bp):
ACGTATCATTTAGAGTTCTTTTGTTACTATTATGACTTGTCGTTAATATTAGTCAGAGATTTCTT
TGCTACATTTGGAATATTTT
Found at i:58360 original size:9 final size:9
Alignment explanation
Indices: 58315--58368 Score: 58
Period size: 9 Copynumber: 6.0 Consensus size: 9
58305 ATTTTTCTAA
*
58315 ATATATTTT
1 ATATATATT
*
58324 ATATAGTATA
1 ATATA-TATT
58334 ATATATATT
1 ATATATATT
58343 -T-TGATATT
1 ATAT-ATATT
58351 ATATATATT
1 ATATATATT
58360 ATATATATT
1 ATATATATT
58369 TAGAAGTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
7 1 0.03
8 6 0.16
9 23 0.61
10 8 0.21
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (9 bp):
ATATATATT
Found at i:59290 original size:22 final size:22
Alignment explanation
Indices: 59265--60123 Score: 140
Period size: 22 Copynumber: 39.2 Consensus size: 22
59255 GGTTTACCAA
* *
59265 AATTTTATAGGGAAGTTATTAG
1 AATTTAATAGGGAAGTTACTAG
* * *
59287 AATTTCATTGGTAAGTTACTAG
1 AATTTAATAGGGAAGTTACTAG
* * *
59309 GATTTAATA-GTAAGGTTACTAA
1 AATTTAATAGGGAA-GTTACTAG
** * *
59331 AATTTTGTATGG-AGATTAC-CG
1 AATTTAATAGGGAAG-TTACTAG
* * * *
59352 AAATTTCATAGGGAGGTTACCAT
1 -AATTTAATAGGGAAGTTACTAG
*
59375 AATTT-ATAGGGAAGTTACCAG
1 AATTTAATAGGGAAGTTACTAG
* *
59396 AATTTCAA-AGGGAGGTTAC-CG
1 AATTT-AATAGGGAAGTTACTAG
** * * * * *
59417 AAATTTCTTAAGCAGGTTACCAA
1 -AATTTAATAGGGAAGTTACTAG
* * *
59440 AATTT-ATAGCG-AGATTACCAA
1 AATTTAATAGGGAAG-TTACTAG
* *
59461 AATTTCATAGGG-AGATTAC-AA
1 AATTTAATAGGGAAG-TTACTAG
* * *
59482 AATTTCCATAAGGAGGTTACTAG
1 AATTT-AATAGGGAAGTTACTAG
* *
59505 AATTTCATAGGTAAGTTACCT-G
1 AATTTAATAGGGAAGTTA-CTAG
* * *
59527 AATTTCATA-GTAAGGTTACTAA
1 AATTTAATAGGGAA-GTTACTAG
* * * *
59549 AATTTCACAGAGAGGTTA-TCAG
1 AATTTAATAGGGAAGTTACT-AG
* * * * *
59571 AATTTCACAAGGAGGTTA-TCAC
1 AATTTAATAGGGAAGTTACT-AG
* * * * *
59593 AATTTCACAGGGAGGTTACCAA
1 AATTTAATAGGGAAGTTACTAG
*
59615 AATTTAATAGGGAGGTTACTAG
1 AATTTAATAGGGAAGTTACTAG
***
59637 AATTTAATAGCTTAGTTACTAG
1 AATTTAATAGGGAAGTTACTAG
** * *
59659 AATTCCATA-GTAAGGTTACTAA
1 AATTTAATAGGGAA-GTTACTAG
* ** *
59681 AATTTCATAGGGTGGTTAC-CG
1 AATTTAATAGGGAAGTTACTAG
* * * *
59702 AAATTTCATATGGATGTTACCA-
1 -AATTTAATAGGGAAGTTACTAG
* * * *
59724 AAATTCATAGGGAAATTACCAG
1 AATTTAATAGGGAAGTTACTAG
* * * *
59746 AATTTTATAGCGAGGTTACCAG
1 AATTTAATAGGGAAGTTACTAG
* * *** * *
59768 AATTTCAGAGGCTGGTTACCAA
1 AATTTAATAGGGAAGTTACTAG
* * *
59790 AATTTCATAGGGAGGTTAC-CG
1 AATTTAATAGGGAAGTTACTAG
* * *
59811 AAATTTCAGAGGG-AGATTACCAG
1 -AATTTAATAGGGAAG-TTACTAG
* * *
59834 AATTTCATAGGGAGGTTACTAT
1 AATTTAATAGGGAAGTTACTAG
* * *
59856 AATTTCATA-GTAAGGTTACTAA
1 AATTTAATAGGGAA-GTTACTAG
* * *
59878 AATTTCATAGGGAGGTTAC-CG
1 AATTTAATAGGGAAGTTACTAG
** * *
59899 AAATAAAATA-GCAAGGTTACCAG
1 -AATTTAATAGGGAA-GTTACTAG
* ** * *
59922 AGTTCCA-AGGGATGTTAC-CG
1 AATTTAATAGGGAAGTTACTAG
* *
59942 AAATATCATAGGGAAGTTACTAG
1 -AATTTAATAGGGAAGTTACTAG
* *
59965 AATTTCATAGGGAAGTTACTAA
1 AATTTAATAGGGAAGTTACTAG
* * *
59987 AATTTCATAAGG-AGATTAATAG
1 AATTTAATAGGGAAG-TTACTAG
* *
60009 AATTTTATAGGAAAGTTAC-ATG
1 AATTTAATAGGGAAGTTACTA-G
*
60031 AATTTCATAGGGATA-TTACT-G
1 AATTTAATAGGGA-AGTTACTAG
** * *
60052 AAATTTCTTAGGGAGGTTAGC-AA
1 -AATTTAATAGGGAAGTTA-CTAG
* *
60075 AATTTTATAGGG-AGATCACTAG
1 AATTTAATAGGGAAG-TTACTAG
* *
60097 AATTTTATAGGTAAGTTACTAG
1 AATTTAATAGGGAAGTTACTAG
60119 AATTT
1 AATTT
60124 CATAATAAAG
Statistics
Matches: 635, Mismatches: 150, Indels: 104
0.71 0.17 0.12
Matches are distributed among these distances:
20 2 0.00
21 93 0.15
22 514 0.81
23 26 0.04
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (22 bp):
AATTTAATAGGGAAGTTACTAG
Found at i:59371 original size:44 final size:44
Alignment explanation
Indices: 59258--60127 Score: 497
Period size: 44 Copynumber: 19.9 Consensus size: 44
59248 ATTAGGAGGT
* * * * * *
59258 TTACCAAAATTTTATAGGGAAGTTATTAGAATTTCATTGGTA-A
1 TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATAGGGAGA
* ** * ** ** *
59301 GTTACTAGGATTTAATAGTAAGGTTACTAAAATTTTGTATGGAGA
1 -TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATAGGGAGA
* * *
59346 TTACCGAAATTTCATAGGGAGGTTACCATAATTT-ATAGGGA-A
1 TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATAGGGAGA
* * ** * * * *
59388 GTTACCAGAATTTCAAAGGGAGGTTACCGAAATTTCTTAAGCAGG
1 -TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATAGGGAGA
* * *
59433 TTACCAAAATTT-ATAGCGAGATTACCAAAATTTCATAGGGAGA
1 TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATAGGGAGA
* * *
59476 TTA-CAAAATTTCCATAAGGAGGTTACTAGAATTTCATAGGTA-A
1 TTACCAAAATTT-CATAGGGAGGTTACTAAAATTTCATAGGGAGA
** ** * * *
59519 GTTACCTGAATTTCATAGTAAGGTTACTAAAATTTCACAGAGAGG
1 -TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATAGGGAGA
* * * * * * *
59564 TTATCAGAATTTCACAAGGAGGTTA-TCACAATTTCACAGGGAGG
1 TTACCAAAATTTCATAGGGAGGTTACT-AAAATTTCATAGGGAGA
* * * **
59608 TTACCAAAATTTAATAGGGAGGTTACTAGAATTTAATAGCTTAG-
1 TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATAG-GGAGA
* * * ** * *
59652 TTACTAGAATTCCATAGTAAGGTTACTAAAATTTCATAGGGTGG
1 TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATAGGGAGA
* * * * *
59696 TTACCGAAATTTCATATGGATGTTACCAAAA-TTCATAGGGAAA
1 TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATAGGGAGA
* * * * * * ** *
59739 TTACCAGAATTTTATAGCGAGGTTACCAGAATTTCAGAGGCTGG
1 TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATAGGGAGA
** *
59783 TTACCAAAATTTCATAGGGAGGTTACCGAAATTTCAGAGGGAGA
1 TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATAGGGAGA
* * ** *
59827 TTACCAGAATTTCATAGGGAGGTTACTATAATTTCATAGTAAGG
1 TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATAGGGAGA
* ** *** ** *
59871 TTACTAAAATTTCATAGGGAGGTTACCGAAATAAAATAGCAAGG
1 TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATAGGGAGA
* * * * ** *
59915 TTACCAGAGTTCCA-AGGGATGTTACCGAAATATCATAGGGA-A
1 TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATAGGGAGA
* * * *
59957 GTTACTAGAATTTCATAGGGAAGTTACTAAAATTTCATAAGGAGA
1 -TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATAGGGAGA
** * * * * * *
60002 TTAATAGAATTTTATAGGAAAGTTAC-ATGAATTTCATAGGGATA
1 TTACCAAAATTTCATAGGGAGGTTACTA-AAATTTCATAGGGAGA
** * *
60046 TTACTGAAATTTCTTAGGGAGGTTAGC-AAAATTTTATAGGGAGA
1 TTACCAAAATTTCATAGGGAGGTTA-CTAAAATTTCATAGGGAGA
* * * * * * *
60090 TCACTAGAATTTTATAGGTAAGTTACTAGAATTTCATA
1 TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATA
60128 ATAAAGTTAC
Statistics
Matches: 626, Mismatches: 180, Indels: 40
0.74 0.21 0.05
Matches are distributed among these distances:
42 9 0.01
43 131 0.21
44 473 0.76
45 13 0.02
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (44 bp):
TTACCAAAATTTCATAGGGAGGTTACTAAAATTTCATAGGGAGA
Found at i:59564 original size:66 final size:65
Alignment explanation
Indices: 59244--60171 Score: 511
Period size: 66 Copynumber: 14.1 Consensus size: 65
59234 AATATTATCT
* * ** * * * * *
59244 TTTCATTAGGAGGTTTACCAAAATTTTATAGGGAA-GTTATTAGAATTTCATTGGTAAGTTACTA
1 TTTCA-TAGGAAG-TTACCAAAATTTCATA-GGAAGGTTACCAAAATTTCATAGGGAGGTTACCA
*
59308 GGA
63 GAA
* * * ** * * *
59311 TTTAATAGTAAGGTTACTAAAATTTTGTATGG-AGATTACCGAAATTTCATAGGGAGGTTACCAT
1 TTTCATAGGAA-GTTACCAAAATTTCATA-GGAAGGTTACCAAAATTTCATAGGGAGGTTACCAG
59375 AA
64 AA
* * * * * * * *
59377 TTT-ATAGGGAAGTTACCAGAATTTCAAAGGGAGGTTACCGAAATTTCTTAAGCAGGTTACCAAA
1 TTTCATA-GGAAGTTACCAAAATTTCATAGGAAGGTTACCAAAATTTCATAGGGAGGTTACCAGA
59441 A
65 A
* * * *
59442 TTT-ATAGCG-AGATTACCAAAATTTCATAGGGAGATTA-CAAAATTTCCATAAGGAGGTTACTA
1 TTTCATAG-GAAG-TTACCAAAATTTCATAGGAAGGTTACCAAAATTT-CATAGGGAGGTTACCA
59504 GAA
63 GAA
** * * * * *
59507 TTTCATAGGTAAGTTACCTGAATTTCATAGTAAGGTTACTAAAATTTCACAGAGAGGTTATCAGA
1 TTTCATAGG-AAGTTACCAAAATTTCATAGGAAGGTTACCAAAATTTCATAGGGAGGTTACCAGA
59572 A
65 A
* * * * * * * *
59573 TTTCACAAGGAGGTTATCACAATTTCACAGGGAGGTTACCAAAATTTAATAGGGAGGTTACTAGA
1 TTTCA-TAGGAAGTTACCAAAATTTCATAGGAAGGTTACCAAAATTTCATAGGGAGGTTACCAGA
59638 A
65 A
* ** * * * * * *
59639 TTTAATAGCTTAGTTACTAGAATTCCATAGTAAGGTTACTAAAATTTCATAGGGTGGTTACC-GA
1 TTTCATAG-GAAGTTACCAAAATTTCATAGGAAGGTTACCAAAATTTCATAGGGAGGTTACCAG-
59703 AA
64 AA
* * * * *
59705 TTTCATATGGATGTTACCAAAA-TTCATAGGGAA-ATTACCAGAATTTTATAGCGAGGTTACCAG
1 TTTCATA-GGAAGTTACCAAAATTTCATA-GGAAGGTTACCAAAATTTCATAGGGAGGTTACCAG
59768 AA
64 AA
* ** * * * *
59770 TTTCAGAGGCTGGTTACCAAAATTTCATAGGGAGGTTACCGAAATTTCAGAGGGAGATTACCAGA
1 TTTCATAGG-AAGTTACCAAAATTTCATAGGAAGGTTACCAAAATTTCATAGGGAGGTTACCAGA
59835 A
65 A
* * * * *
59836 TTTCATAGGGAGGTTACTATAATTTCATAGTAAGGTTACTAAAATTTCATAGGGAGGTTACC-GA
1 TTTCATA-GGAAGTTACCAAAATTTCATAGGAAGGTTACCAAAATTTCATAGGGAGGTTACCAG-
59900 AA
64 AA
*** * * * * * * * * * *
59902 TAAAATAGCAAGGTTACCAGAGTTCCA-AGGGATGTTACCGAAATATCATAGGGAAGTTACTAGA
1 TTTCATAGGAA-GTTACCAAAATTTCATAGGAAGGTTACCAAAATTTCATAGGGAGGTTACCAGA
59966 A
65 A
* * ** * * * *
59967 TTTCATAGGGAAGTTACTAAAATTTCATAAGG-AGATTAATAGAATTTTATAGGAAAGTTA-CAT
1 TTTCATA-GGAAGTTACCAAAATTTCAT-AGGAAGGTTACCAAAATTTCATAGGGAGGTTACCA-
60030 GAA
63 GAA
** * * * * * * *
60033 TTTCATAGGGATA-TTACTGAAATTTCTTAGGGAGGTTAGCAAAATTTTATAGGGAGATCACTAG
1 TTTCATA-GGA-AGTTACCAAAATTTCATAGGAAGGTTACCAAAATTTCATAGGGAGGTTACCAG
60097 AA
64 AA
* * * ** * * **
60099 TTTTATAGGTAAGTTACTAGAATTTCATAATAAAGTTACTC-AAGTTTCATAGGGAAATTACCCA
1 TTTCATAGG-AAGTTACCAAAATTTCATAGGAAGGTTAC-CAAAATTTCATAGGGAGGTTA-CCA
60163 -AA
63 GAA
60165 TTTCATA
1 TTTCATA
60172 CCCTTCTATT
Statistics
Matches: 653, Mismatches: 173, Indels: 71
0.73 0.19 0.08
Matches are distributed among these distances:
64 14 0.02
65 197 0.30
66 414 0.63
67 28 0.04
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (65 bp):
TTTCATAGGAAGTTACCAAAATTTCATAGGAAGGTTACCAAAATTTCATAGGGAGGTTACCAGAA
Found at i:59969 original size:197 final size:197
Alignment explanation
Indices: 59563--60000 Score: 472
Period size: 197 Copynumber: 2.2 Consensus size: 197
59553 TCACAGAGAG
* * * * * *
59563 GTTATCAGAATTTCACAAGG-AGGTTATCACAATTTCACAGGGAGGTTACCAAAATTTAATAGGG
1 GTTACCAGAATTTCA-GAGGCAGGTTACCAAAATTTCATAGGGAGGTTACCAAAATTTAAGAGGG
* * **
59627 AGGTTACTAGAATTTAATAGCTTAGTTACTAGAATTCCATAGTAAGGTTACTAAAATTTCATAGG
65 AGATTACCAGAATTTAATAGCGGAGTTACTAGAATTCCATAGTAAGGTTACTAAAATTTCATAGG
* *** * * * *
59692 GTGGTTACCGAAATTTCATATGGATGTTACCAAAATTCATAGGGAAATTACCAGAATTTTATAGC
130 GAGGTTACCGAAATAAAATATGAAGGTTACCAAAATTCATAGGGAAATTACCAGAATATCATAGC
*
59757 GAG
195 GAA
* * *
59760 GTTACCAGAATTTCAGAGGCTGGTTACCAAAATTTCATAGGGAGGTTACCGAAATTTCAGAGGGA
1 GTTACCAGAATTTCAGAGGCAGGTTACCAAAATTTCATAGGGAGGTTACCAAAATTTAAGAGGGA
* * *
59825 GATTACCAGAATTTCATAG-GGAGGTTACTATAATTTCATAGTAAGGTTACTAAAATTTCATAGG
66 GATTACCAGAATTTAATAGCGGA-GTTACTAGAATTCCATAGTAAGGTTACTAAAATTTCATAGG
* * **
59889 GAGGTTACCGAAATAAAATA-GCAAGGTTACCAGAGTTCCA-AGGGATGTTACC-GAAATATCAT
130 GAGGTTACCGAAATAAAATATG-AAGGTTACCAAAATT-CATAGGGAAATTACCAG-AATATCAT
*
59951 AGGGAA
192 AGCGAA
* * * * * *
59957 GTTACTAGAATTTCATAGGGAAGTTACTAAAATTTCATAAGGAG
1 GTTACCAGAATTTCAGAGGCAGGTTACCAAAATTTCATAGGGAG
60001 ATTAATAGAA
Statistics
Matches: 199, Mismatches: 37, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
196 6 0.03
197 191 0.96
198 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.29
Consensus pattern (197 bp):
GTTACCAGAATTTCAGAGGCAGGTTACCAAAATTTCATAGGGAGGTTACCAAAATTTAAGAGGGA
GATTACCAGAATTTAATAGCGGAGTTACTAGAATTCCATAGTAAGGTTACTAAAATTTCATAGGG
AGGTTACCGAAATAAAATATGAAGGTTACCAAAATTCATAGGGAAATTACCAGAATATCATAGCG
AA
Found at i:60036 original size:197 final size:196
Alignment explanation
Indices: 59651--60088 Score: 431
Period size: 197 Copynumber: 2.2 Consensus size: 196
59641 TAATAGCTTA
* * *** *
59651 GTTACTAGAATTCCATAGTAAGGTTACTAAAATTTCATAGGGTGGTTACCGAAATTTCATATGGA
1 GTTACTA-AATTTCATAGTAAGGTTACTAAAATTTCATAGGGAGGTTACCGAAATAAAATATGAA
* * * * *
59716 TGTTACCAAAATTCATAGGGAAATTACCAGAATTTTATAGCGAGGTTACCAGAATTTCAGAGGCT
65 GGTTACCAAAATTCATAGGGAAATTACCAGAATATCATAGCGAAGTTACCAGAATTTCAGAGGCA
* * * * *
59781 GGTTACCAAAATTTCATAGGGAGGTTACCGAAATTTCAGAGGGAGATTACCAGAATTTCATAGGG
130 AGTTACCAAAATTTCATAAGGAGATTACAGAAATTTCAGAGGAAGATTACCAGAATTTCATAGGG
59846 AG
195 AG
59848 GTTACTATAATTTCATAGTAAGGTTACTAAAATTTCATAGGGAGGTTACCGAAATAAAATA-GCA
1 GTTACTA-AATTTCATAGTAAGGTTACTAAAATTTCATAGGGAGGTTACCGAAATAAAATATG-A
* * ** * * *
59912 AGGTTACCAGAGTTCCA-AGGGATGTTACC-GAAATATCATAGGGAAGTTACTAGAATTTCATAG
64 AGGTTACCAAAATT-CATAGGGAAATTACCAG-AATATCATAGCGAAGTTACCAGAATTTCAGAG
* * * * *
59975 GGAAGTTACTAAAATTTCATAAGGAGATTA-ATAGAATTTTATAGGAA-AGTTA-CATGAATTTC
127 GCAAGTTACCAAAATTTCATAAGGAGATTACAGA-AATTTCAGAGGAAGA-TTACCA-GAATTTC
*
60037 ATAGGGAT
189 ATAGGGAG
* * ** *
60045 ATTACTGAAATTTCTTAGGGAGGTTAGC-AAAATTTTATAGGGAG
1 GTTACT-AAATTTCATAGTAAGGTTA-CTAAAATTTCATAGGGAG
60089 ATCACTAGAA
Statistics
Matches: 198, Mismatches: 35, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
196 6 0.03
197 188 0.95
198 4 0.02
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (196 bp):
GTTACTAAATTTCATAGTAAGGTTACTAAAATTTCATAGGGAGGTTACCGAAATAAAATATGAAG
GTTACCAAAATTCATAGGGAAATTACCAGAATATCATAGCGAAGTTACCAGAATTTCAGAGGCAA
GTTACCAAAATTTCATAAGGAGATTACAGAAATTTCAGAGGAAGATTACCAGAATTTCATAGGGA
G
Found at i:60134 original size:22 final size:22
Alignment explanation
Indices: 60092--60138 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
60082 TAGGGAGATC
* *
60092 ACTAGAATTTTATAGGTAAGTT
1 ACTAGAATTTCATAGATAAGTT
60114 ACTAGAATTTCATA-ATAAAGTT
1 ACTAGAATTTCATAGAT-AAGTT
60136 ACT
1 ACT
60139 CAAGTTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (22 bp):
ACTAGAATTTCATAGATAAGTT
Found at i:73545 original size:23 final size:23
Alignment explanation
Indices: 73519--73565 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
73509 ATTATTATTC
73519 TAATTTTTATTTTTATATCTTTA
1 TAATTTTTATTTTTATATCTTTA
73542 TAATTTTTATTTTTATATCTTTA
1 TAATTTTTATTTTTATATCTTTA
73565 T
1 T
73566 TCCCTTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (23 bp):
TAATTTTTATTTTTATATCTTTA
Found at i:77832 original size:156 final size:156
Alignment explanation
Indices: 77540--77832 Score: 412
Period size: 156 Copynumber: 1.9 Consensus size: 156
77530 TGTAGCTCAT
*
77540 CTTGGCTAAATTTCATTTCAATCAGACTTAGAATGAAAAACTTATGCATGTTTTTCATTTAAGGA
1 CTTGGCTAAATTTCATCTCAATCAGACTTAGAATGAAAAACTTATGCATGTTTTTCATTTAAGGA
**** * *
77605 CAGTTTGGGGAAAGAAACCAAGTTCACCATCAAGGAGAGCTCGGTTTAACTTAGAATTTTTTCCA
66 CAGTTTGGGGAAAGAAACCAAGTTCACCATCAAGGAGAGCTCGACCAAACTAAGAATTTTTACCA
77670 TAGTTTTGTGGAGATAATCTAAGTTC
131 TAGTTTTGTGGAGATAATCTAAGTTC
77696 CTTGGC-AAAGTTTCATCTCAATCAGACTTAGAATGAAAAACTTATGCATGTTTTTCATTTAAGG
1 CTTGGCTAAA-TTTCATCTCAATCAGACTTAGAATGAAAAACTTATGCATGTTTTTCATTTAAGG
*** * * *
77760 ACAGTTTGGGGTGTGAAACCTAGTTCACCATGAAGGAGGGCTCGAACCAAGAC-AAG-ATTTTTA
65 ACAGTTTGGGGAAAGAAACCAAGTTCACCATCAAGGAGAGCTCG-ACCAA-ACTAAGAATTTTTA
*
77823 CCATGGTTTT
128 CCATAGTTTT
77833 TGGCTGATAT
Statistics
Matches: 120, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
155 3 0.03
156 112 0.93
157 3 0.03
158 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (156 bp):
CTTGGCTAAATTTCATCTCAATCAGACTTAGAATGAAAAACTTATGCATGTTTTTCATTTAAGGA
CAGTTTGGGGAAAGAAACCAAGTTCACCATCAAGGAGAGCTCGACCAAACTAAGAATTTTTACCA
TAGTTTTGTGGAGATAATCTAAGTTC
Found at i:79170 original size:56 final size:57
Alignment explanation
Indices: 79079--79188 Score: 161
Period size: 56 Copynumber: 1.9 Consensus size: 57
79069 TAGAATATAT
* * *
79079 ATTAATCAGCAAAACTCCAAAATATATTAATAAAGAT-AAAAGAAATTAAGGTGAGG
1 ATTAATCAGCAAAACTCCAAAAAATATTAAGAAAGATAAAAAGAAATAAAGGTGAGG
*
79135 ATTAATCAGCAAAACT-TAAGAAAATATTAAGAAAGATAAAAAGAAATAAAGGTG
1 ATTAATCAGCAAAACTCCAA-AAAATATTAAGAAAGATAAAAAGAAATAAAGGTG
79189 TGTCGCAACG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
55 2 0.04
56 31 0.65
57 15 0.31
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (57 bp):
ATTAATCAGCAAAACTCCAAAAAATATTAAGAAAGATAAAAAGAAATAAAGGTGAGG
Found at i:79535 original size:29 final size:28
Alignment explanation
Indices: 79466--79567 Score: 159
Period size: 28 Copynumber: 3.6 Consensus size: 28
79456 GGGTCATCCA
79466 GGGGCATTTTGGTCATTTTCACATCTAG
1 GGGGCATTTTGGTCATTTTCACATCTAG
79494 GGGGCATTTTGGTCATTTTCACATCTAGG
1 GGGGCATTTTGGTCATTTTCACATCTA-G
** *
79523 GGGGCATTTTGGTCATTTTTGCATGTAG
1 GGGGCATTTTGGTCATTTTCACATCTAG
*
79551 GGGGTATTTTGGTCATT
1 GGGGCATTTTGGTCATT
79568 CTTAATCTAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 44 0.64
29 25 0.36
ACGTcount: A:0.16, C:0.14, G:0.29, T:0.41
Consensus pattern (28 bp):
GGGGCATTTTGGTCATTTTCACATCTAG
Found at i:80949 original size:31 final size:31
Alignment explanation
Indices: 80911--80972 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
80901 AAACCCAATC
80911 TCAGTTGGTTACATTTTAGAGAAATTACCTG
1 TCAGTTGGTTACATTTTAGAGAAATTACCTG
80942 TCAGTTGGTTACATTTTAGAGAAATTACCTG
1 TCAGTTGGTTACATTTTAGAGAAATTACCTG
80973 CCACCTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (31 bp):
TCAGTTGGTTACATTTTAGAGAAATTACCTG
Found at i:82901 original size:32 final size:32
Alignment explanation
Indices: 82804--83144 Score: 358
Period size: 32 Copynumber: 10.7 Consensus size: 32
82794 ATTAAACTAT
* *
82804 AAAGTAAAAAGAAGTAATCAG-AAAAT-G-GCA
1 AAAGT-AAAAGAAGTAATCAGTAGAATGGAGTA
* * *
82834 AGAGTAAAGGAAGTAATCAGTAGAATGGAGCA
1 AAAGTAAAAGAAGTAATCAGTAGAATGGAGTA
* *
82866 AAAGTCAGAGGAAGTAATCAGTA-AATGGAGTA
1 AAAGT-AAAAGAAGTAATCAGTAGAATGGAGTA
* *
82898 AAAGTAAGAGGAAGTAATCAGTAAAATGGAGTA
1 AAAGTAA-AAGAAGTAATCAGTAGAATGGAGTA
82931 AAAGTAAAAGTAA-TAATCAGTAGAATGGAGTA
1 AAAGTAAAAG-AAGTAATCAGTAGAATGGAGTA
*
82963 AAAGTAAAAGAGGTAATCAGTA-AATGGAGTA
1 AAAGTAAAAGAAGTAATCAGTAGAATGGAGTA
* ** *
82994 AAAGTAAAATAAGTAATCAACAGAATTGAGTA
1 AAAGTAAAAGAAGTAATCAGTAGAATGGAGTA
*
83026 AAAGTAAAA-AAGGGTAATCAGTAGAATAGAGTA
1 AAAGTAAAAGAA--GTAATCAGTAGAATGGAGTA
* *
83059 AGAGTAAAAGAAGTAATCAGTAAAATGGAGTA
1 AAAGTAAAAGAAGTAATCAGTAGAATGGAGTA
* * *
83091 AAAGTAAAAGAAG-AAGTCAGAAGAATGGGGTG
1 AAAGTAAAAGAAGTAA-TCAGTAGAATGGAGTA
*
83123 AAAGTACAAA-AAGTAAGCAGTA
1 AAAGTA-AAAGAAGTAATCAGTA
83145 ACTTGGTAAT
Statistics
Matches: 268, Mismatches: 28, Indels: 28
0.83 0.09 0.09
Matches are distributed among these distances:
29 14 0.05
30 8 0.03
31 34 0.13
32 146 0.54
33 64 0.24
34 2 0.01
ACGTcount: A:0.53, C:0.05, G:0.25, T:0.18
Consensus pattern (32 bp):
AAAGTAAAAGAAGTAATCAGTAGAATGGAGTA
Found at i:82928 original size:65 final size:63
Alignment explanation
Indices: 82804--83145 Score: 331
Period size: 65 Copynumber: 5.4 Consensus size: 63
82794 ATTAAACTAT
* * * * *
82804 AAAGTAAAAAGAAGTAATCAGAAAAT-G-GCAAGAGTAAAGGAAGTAATCAGTAGAATGGAGCA
1 AAAGT-AAAAGAAGTAATCAGTAAATGGAGTAAAAGTAAAGGAAGTAATCAGTAAAATGGAGTA
* *
82866 AAAGTCAGAGGAAGTAATCAGTAAATGGAGTAAAAGTAAGAGGAAGTAATCAGTAAAATGGAGTA
1 AAAGT-AAAAGAAGTAATCAGTAAATGGAGTAAAAGTAA-AGGAAGTAATCAGTAAAATGGAGTA
* *
82931 AAAGTAAAAGTAA-TAATCAGTAGAATGGAGTAAAAGTAAAAGAGGTAATCAGT-AAATGGAGTA
1 AAAGTAAAAG-AAGTAATCAGTA-AATGGAGTAAAAGTAAAGGAAGTAATCAGTAAAATGGAGTA
* ** * * * *
82994 AAAGTAAAATAAGTAATCAACAGAATTGAGTAAAAGTAAA-AAAGGGTAATCAGTAGAATAGAGT
1 AAAGTAAAAGAAGTAATCAGTA-AATGGAGTAAAAGTAAAGGAA--GTAATCAGTAAAATGGAGT
83058 A
63 A
* * *
83059 AGAGTAAAAGAAGTAATCAGTAAAATGGAGTAAAAGTAAAAGAAG-AAGTCAG-AAGAATGGGGT
1 AAAGTAAAAGAAGTAATCAGT-AAATGGAGTAAAAGTAAAGGAAGTAA-TCAGTAA-AATGGAGT
*
83122 G
63 A
*
83123 AAAGTACAAA-AAGTAAGCAGTAA
1 AAAGTA-AAAGAAGTAATCAGTAA
83146 CTTGGTAATT
Statistics
Matches: 234, Mismatches: 32, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
62 25 0.11
63 49 0.21
64 67 0.29
65 90 0.38
66 3 0.01
ACGTcount: A:0.53, C:0.05, G:0.25, T:0.18
Consensus pattern (63 bp):
AAAGTAAAAGAAGTAATCAGTAAATGGAGTAAAAGTAAAGGAAGTAATCAGTAAAATGGAGTA
Found at i:83191 original size:40 final size:40
Alignment explanation
Indices: 83123--83313 Score: 222
Period size: 40 Copynumber: 4.8 Consensus size: 40
83113 GAATGGGGTG
* *
83123 AAAGTACAAA-AAGTAAGCAGTAACTTGGTAATTAAGAGTA
1 AAAGTA-AAAGAAGTAATCAGTAAATTGGTAATTAAGAGTA
** * * * *
83163 AAAGTAAAAGGGGTAATCGGTAAATTGGTAACTAAAAGTG
1 AAAGTAAAAGAAGTAATCAGTAAATTGGTAATTAAGAGTA
* * * * *
83203 AAAGTAAAAAAATTAATCAGTAAATTGATAAGTAAGAGTC
1 AAAGTAAAAGAAGTAATCAGTAAATTGGTAATTAAGAGTA
*
83243 AAAGTAAAAGAAGTAATCAGTAAAATGGTAATTAAGAGTA
1 AAAGTAAAAGAAGTAATCAGTAAATTGGTAATTAAGAGTA
* *
83283 AGAGTAAAAGAAGTAATCAGTAAATCGGTAA
1 AAAGTAAAAGAAGTAATCAGTAAATTGGTAA
83314 AGAGTAAAAA
Statistics
Matches: 124, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 3 0.02
40 121 0.98
ACGTcount: A:0.51, C:0.05, G:0.21, T:0.23
Consensus pattern (40 bp):
AAAGTAAAAGAAGTAATCAGTAAATTGGTAATTAAGAGTA
Found at i:83313 original size:15 final size:16
Alignment explanation
Indices: 83295--83353 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 16
83285 AGTAAAAGAA
*
83295 GTAATCAGT-AAATCG
1 GTAAACAGTAAAATCG
* *
83310 GTAAAGAGTAAAAATCA
1 GTAAACAGT-AAAATCG
*
83327 GTAAAAAGTAAAAT-G
1 GTAAACAGTAAAATCG
*
83342 GTAATCAGTAAA
1 GTAAACAGTAAA
83354 GAGTAAAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
15 17 0.49
16 5 0.14
17 13 0.37
ACGTcount: A:0.53, C:0.07, G:0.19, T:0.22
Consensus pattern (16 bp):
GTAAACAGTAAAATCG
Found at i:83350 original size:22 final size:22
Alignment explanation
Indices: 83322--83367 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
83312 AAAGAGTAAA
*
83322 AATCAGTAAAAAGTAAAATGGT
1 AATCAGTAAAAAGTAAAATAGT
*
83344 AATCAGTAAAGAGTAAAATAGT
1 AATCAGTAAAAAGTAAAATAGT
83366 AA
1 AA
83368 AAAGTAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.57, C:0.04, G:0.17, T:0.22
Consensus pattern (22 bp):
AATCAGTAAAAAGTAAAATAGT
Found at i:83373 original size:22 final size:22
Alignment explanation
Indices: 83326--83374 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
83316 AGTAAAAATC
* **
83326 AGTAAAAAGTAAAATGGTAATC
1 AGTAAAAAGTAAAATAGTAAAA
*
83348 AGTAAAGAGTAAAATAGTAAAA
1 AGTAAAAAGTAAAATAGTAAAA
83370 AGTAA
1 AGTAA
83375 TCAATAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.59, C:0.02, G:0.18, T:0.20
Consensus pattern (22 bp):
AGTAAAAAGTAAAATAGTAAAA
Found at i:83403 original size:29 final size:29
Alignment explanation
Indices: 83326--83396 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
83316 AGTAAAAATC
* *
83326 AGTAAAA-AGTAAAATGGTAATCAGTAAAG
1 AGTAAAATAGTAAAA-AGTAATCAATAAAG
83355 AGTAAAATAGTAAAAAGTAATCAATAAA-
1 AGTAAAATAGTAAAAAGTAATCAATAAAG
*
83383 AGGTAAAATGGTAA
1 A-GTAAAATAGTAA
83397 TCAGTAAGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 1 0.03
29 29 0.78
30 7 0.19
ACGTcount: A:0.58, C:0.03, G:0.18, T:0.21
Consensus pattern (29 bp):
AGTAAAATAGTAAAAAGTAATCAATAAAG
Found at i:83427 original size:22 final size:22
Alignment explanation
Indices: 83387--83428 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
83377 AATAAAAGGT
*
83387 AAAATGGTAATCAGTAAGAGCA
1 AAAATGGTAATCAGAAAGAGCA
* *
83409 AAAATGGTTATTAGAAAGAG
1 AAAATGGTAATCAGAAAGAG
83429 TAAGATAGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.24, T:0.21
Consensus pattern (22 bp):
AAAATGGTAATCAGAAAGAGCA
Found at i:84468 original size:15 final size:16
Alignment explanation
Indices: 84439--84491 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
84429 TCTTACTCCC
84439 TTTTTTACTGATTACCA
1 TTTTTTACTG-TTACCA
**
84456 TTTTTTACT-TTACTT
1 TTTTTTACTGTTACCA
*
84471 TTTTTTATTGGTTACCA
1 TTTTTTACT-GTTACCA
84488 TTTT
1 TTTT
84492 CTACCCTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 12 0.41
17 17 0.59
ACGTcount: A:0.17, C:0.13, G:0.06, T:0.64
Consensus pattern (16 bp):
TTTTTTACTGTTACCA
Found at i:84544 original size:26 final size:26
Alignment explanation
Indices: 84515--84605 Score: 94
Period size: 26 Copynumber: 3.3 Consensus size: 26
84505 ACTTAAATAA
84515 TGATTACTCTTTTCTACTCTTTTTAC
1 TGATTACTCTTTTCTACTCTTTTTAC
**
84541 TGATTAC-CATTTTCTACTCTAAATTAC
1 TGATTACTC-TTTTCTACTCT-TTTTAC
*
84568 TGATTACCCTTTTCCTACTCCTTTTTTAC
1 TGATTACTCTTTT-CTACT-C-TTTTTAC
84597 TGAATTACT
1 TG-ATTACT
84606 ACTTACCCCT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
25 1 0.02
26 18 0.34
27 15 0.28
28 6 0.11
29 7 0.13
30 6 0.11
ACGTcount: A:0.21, C:0.24, G:0.04, T:0.51
Consensus pattern (26 bp):
TGATTACTCTTTTCTACTCTTTTTAC
Found at i:84635 original size:36 final size:37
Alignment explanation
Indices: 84562--84635 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
84552 TTCTACTCTA
84562 AATTACTGATTACCCTTTTCCTACTCCTTTTTTACTG
1 AATTACTGATTACCCTTTTCCTACTCCTTTTTTACTG
*
84599 AATTACT-ACTTACCCCTTTT-TTACT-CTTTTTTACTG
1 AATTACTGA-TTA-CCCTTTTCCTACTCCTTTTTTACTG
84635 A
1 A
84636 TTGCCATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 13 0.38
37 14 0.41
38 7 0.21
ACGTcount: A:0.20, C:0.26, G:0.04, T:0.50
Consensus pattern (37 bp):
AATTACTGATTACCCTTTTCCTACTCCTTTTTTACTG
Found at i:84645 original size:27 final size:27
Alignment explanation
Indices: 84615--84677 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
84605 TACTTACCCC
* * *
84615 TTTTTTACTCTTTTTTACTGATTGCCA
1 TTTTTTACTCTTCTTTACCGATTACCA
84642 TTTTTTACTCTTCTTTACCGATTACCA
1 TTTTTTACTCTTCTTTACCGATTACCA
*
84669 TTTTCTACT
1 TTTTTTACT
84678 GATTATCCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.16, C:0.22, G:0.05, T:0.57
Consensus pattern (27 bp):
TTTTTTACTCTTCTTTACCGATTACCA
Found at i:84700 original size:28 final size:28
Alignment explanation
Indices: 84669--84791 Score: 162
Period size: 28 Copynumber: 4.5 Consensus size: 28
84659 CCGATTACCA
*
84669 TTTTCTACTGATTATCCTTTTCTTACTC
1 TTTTTTACTGATTATCCTTTTCTTACTC
*
84697 TTTTTTATTGATTATCCTTTTCTTACTC
1 TTTTTTACTGATTATCCTTTTCTTACTC
* * *
84725 TTTTTTATTGATTACCCTTTTCTTACTT
1 TTTTTTACTGATTATCCTTTTCTTACTC
84753 TTTTTTACTGA-TA-CCATTTTC-TACTC
1 TTTTTTACTGATTATCC-TTTTCTTACTC
*
84779 TGTTTTACTGATT
1 TTTTTTACTGATT
84792 CTTACTCTTT
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 16 0.19
27 8 0.09
28 62 0.72
ACGTcount: A:0.15, C:0.20, G:0.05, T:0.60
Consensus pattern (28 bp):
TTTTTTACTGATTATCCTTTTCTTACTC
Found at i:84710 original size:45 final size:44
Alignment explanation
Indices: 84624--84719 Score: 106
Period size: 45 Copynumber: 2.2 Consensus size: 44
84614 CTTTTTTACT
*
84624 CTTTTTTACTGATTGCCATTTTTTACTCTTCTTTACCGATTA-C
1 CTTTTCTACTGATTGCCATTTTTTACTCTTCTTTACCGATTATC
* * **
84667 CATTTTCTACTGATTATCC-TTTTCTTACTCTTTTTTATTGATTATC
1 C-TTTTCTACTGATT-GCCATTTT-TTACTCTTCTTTACCGATTATC
84713 CTTTTCT
1 CTTTTCT
84720 TACTCTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.02
44 16 0.36
45 25 0.57
46 2 0.05
ACGTcount: A:0.16, C:0.22, G:0.05, T:0.57
Consensus pattern (44 bp):
CTTTTCTACTGATTGCCATTTTTTACTCTTCTTTACCGATTATC
Found at i:84885 original size:7 final size:7
Alignment explanation
Indices: 84875--84960 Score: 59
Period size: 7 Copynumber: 11.9 Consensus size: 7
84865 CTATTTTTTT
84875 TTTACTC
1 TTTACTC
84882 TTTAC-C
1 TTTACTC
84888 ATTTTACTC
1 --TTTACTC
*
84897 TTTACTG
1 TTTACTC
* *
84904 ATTACTAT
1 TTTACT-C
84912 TTTACTC
1 TTTACTC
*
84919 TTTACTG
1 TTTACTC
*
84926 ATTACTC
1 TTTACTC
*
84933 TTTCCTC
1 TTTACTC
84940 TTTAC-C
1 TTTACTC
84946 ATTTTACTC
1 --TTTACTC
84955 TTTACT
1 TTTACT
84961 GATTACCATT
Statistics
Matches: 61, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
6 2 0.03
7 42 0.69
8 15 0.25
9 2 0.03
ACGTcount: A:0.19, C:0.24, G:0.02, T:0.55
Consensus pattern (7 bp):
TTTACTC
Found at i:84908 original size:22 final size:22
Alignment explanation
Indices: 84854--85067 Score: 223
Period size: 22 Copynumber: 10.1 Consensus size: 22
84844 CTTACTCTTT
* * *
84854 TTTACTGATTACTATTTT-TTT
1 TTTACTGATTACCATTTTACTC
**
84875 TTTACTCTTTACCATTTTACTC
1 TTTACTGATTACCATTTTACTC
*
84897 TTTACTGATTACTATTTTACTC
1 TTTACTGATTACCATTTTACTC
84919 TTTACTGATTA-C-TCTTT-C-C
1 TTTACTGATTACCAT-TTTACTC
*
84938 --T-CT-T-TACCATTTTACTC
1 TTTACTGATTACCATTTTACTC
*
84955 TTTACTGATTACCATTTTGCTC
1 TTTACTGATTACCATTTTACTC
* *
84977 TTTATTGATTACCATTTTGCTC
1 TTTACTGATTACCATTTTACTC
84999 TTTACTGATTACCATTTTACTC
1 TTTACTGATTACCATTTTACTC
*
85021 TTTACTGATTACTATTTTACTC
1 TTTACTGATTACCATTTTACTC
* * *
85043 ATTATTGATTACTATTTTACTC
1 TTTACTGATTACCATTTTACTC
85065 TTT
1 TTT
85068 GAATTACTAA
Statistics
Matches: 163, Mismatches: 19, Indels: 21
0.80 0.09 0.10
Matches are distributed among these distances:
14 2 0.01
15 4 0.02
16 4 0.02
17 2 0.01
19 2 0.01
20 4 0.02
21 18 0.11
22 127 0.78
ACGTcount: A:0.20, C:0.20, G:0.05, T:0.55
Consensus pattern (22 bp):
TTTACTGATTACCATTTTACTC
Found at i:84908 original size:98 final size:98
Alignment explanation
Indices: 84736--84914 Score: 211
Period size: 98 Copynumber: 1.8 Consensus size: 98
84726 TTTTTATTGA
* * *
84736 TTACCCTTTTCTTACTTTTTTTTACTGATACCATTTTCTACTCTGTTTTACTGATTCTTACTCTT
1 TTACCCTTTTCTTACTCTTTTTTACTGATACCATTTTCTACTCTGCTTTACTCATTCTTACTCTT
** * *
84801 TTTTTATTACTCTTTTTTAAATTAAATTACAGG
66 TACTGATTACTATTTTTTAAATTAAATTACAGG
* * **
84834 TTACCCTTTTCTTACTCTTTTTTACTGATTACTATTTTTTTTTTACT-CTTTAC-CATT-TTACT
1 TTACCCTTTTCTTACTCTTTTTTACTGA-TACCA-TTTTCTACT-CTGCTTTACTCATTCTTACT
84896 CTTTACTGATTACTATTTT
63 CTTTACTGATTACTATTTT
84915 ACTCTTTACT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
98 47 0.70
99 7 0.10
100 11 0.16
101 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.04, T:0.58
Consensus pattern (98 bp):
TTACCCTTTTCTTACTCTTTTTTACTGATACCATTTTCTACTCTGCTTTACTCATTCTTACTCTT
TACTGATTACTATTTTTTAAATTAAATTACAGG
Found at i:84916 original size:58 final size:58
Alignment explanation
Indices: 84853--85046 Score: 201
Period size: 58 Copynumber: 3.2 Consensus size: 58
84843 TCTTACTCTT
* * *
84853 TTTTACTGATTACTATTTTTTTTTTACTCTTTACCATTTTACTCTTTACTGATTACTA
1 TTTTACTCATTACTATTTTCTCTTTACTCTTTACCATTTTACTCTTTACTGATTACTA
* * * *
84911 TTTTACTCTTTACTGA-TTACTCTTTCCTCTTTACCATTTTACTCTTTACTGATTACCA
1 TTTTACTCATTACT-ATTTTCTCTTTACTCTTTACCATTTTACTCTTTACTGATTACTA
* * **
84969 TTTTGCTCTTTATTGATTACCATTTTGCTCTTTACTGATTACCATTTTACTCTTTACTGATTACT
1 TTTTACTC-------ATTACTATTTT-CTCTTTACTCTTTACCATTTTACTCTTTACTGATTACT
85034 A
58 A
85035 TTTTACTCATTA
1 TTTTACTCATTA
85047 TTGATTACTA
Statistics
Matches: 110, Mismatches: 16, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
58 56 0.51
59 5 0.05
64 1 0.01
65 6 0.05
66 42 0.38
ACGTcount: A:0.20, C:0.21, G:0.05, T:0.55
Consensus pattern (58 bp):
TTTTACTCATTACTATTTTCTCTTTACTCTTTACCATTTTACTCTTTACTGATTACTA
Found at i:84931 original size:36 final size:36
Alignment explanation
Indices: 84874--84966 Score: 116
Period size: 36 Copynumber: 2.6 Consensus size: 36
84864 ACTATTTTTT
* * *
84874 TTTTACTCTTTACCAT-TTTACTCTTTACTGATTACTA
1 TTTTACTCTTTA-C-TGATTACTCTTTACTCATTACCA
* *
84911 TTTTACTCTTTACTGATTACTCTTTCCTCTTTACCA
1 TTTTACTCTTTACTGATTACTCTTTACTCATTACCA
84947 TTTTACTCTTTACTGATTAC
1 TTTTACTCTTTACTGATTAC
84967 CATTTTGCTC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
35 1 0.02
36 37 0.74
37 12 0.24
ACGTcount: A:0.19, C:0.24, G:0.03, T:0.54
Consensus pattern (36 bp):
TTTTACTCTTTACTGATTACTCTTTACTCATTACCA
Found at i:84944 original size:14 final size:14
Alignment explanation
Indices: 84875--84960 Score: 59
Period size: 15 Copynumber: 5.9 Consensus size: 14
84865 CTATTTTTTT
84875 TTTACTCTTTAC-C
1 TTTACTCTTTACTC
*
84888 ATTTTACTCTTTACTG
1 --TTTACTCTTTACTC
* *
84904 ATTACTATTTTACTC
1 TTTACT-CTTTACTC
**
84919 TTTACTGATTACTC
1 TTTACTCTTTACTC
*
84933 TTTCCTCTTTAC-C
1 TTTACTCTTTACTC
84946 ATTTTACTCTTTACT
1 --TTTACTCTTTACT
84961 GATTACCATT
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
13 1 0.02
14 20 0.36
15 34 0.62
ACGTcount: A:0.19, C:0.24, G:0.02, T:0.55
Consensus pattern (14 bp):
TTTACTCTTTACTC
Found at i:85135 original size:33 final size:27
Alignment explanation
Indices: 85050--85124 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
85040 CTCATTATTG
* *
85050 ATTACTATTTTACTCTTTGAATTACTA
1 ATTACCATTCTACTCTTTGAATTACTA
85077 ATTACCATTCTACTCTTTGAATTACTA
1 ATTACCATTCTACTCTTTGAATTACTA
*
85104 ATTACCATTCTACTATTTGAA
1 ATTACCATTCTACTCTTTGAA
85125 CTTGAATTAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.47
Consensus pattern (27 bp):
ATTACCATTCTACTCTTTGAATTACTA
Found at i:90071 original size:2 final size:2
Alignment explanation
Indices: 90064--90097 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
90054 TGTTTAGTTG
90064 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
90098 GACTACTCTT
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:94502 original size:233 final size:233
Alignment explanation
Indices: 94095--94563 Score: 893
Period size: 233 Copynumber: 2.0 Consensus size: 233
94085 ACTTTTATAC
*
94095 TTTATGTTATTTAGTCCTTTACATTTATAGGTTGGACGATTTAACGCGTTGGCTTTTATTTTTGT
1 TTTATGTTATTTAGTCCTTTACAATTATAGGTTGGACGATTTAACGCGTTGGCTTTTATTTTTGT
94160 ATTTTTTTCTATTTGTCTGAATAAGGTGATTCAAGTGTCTATTAAAAGATAATTTCATAATCTAC
66 ATTTTTTTCTATTTGTCTGAATAAGGTGATTCAAGTGTCTATTAAAAGATAATTTCATAATCTAC
94225 AATTTTCATTTAGAACTTAAAAGTCAATTTTAATGTTTTGATTCTAAAAAATGCTTTCGAAATTT
131 AATTTTCATTTAGAACTTAAAAGTCAATTTTAATGTTTTGATTCTAAAAAATGCTTTCGAAATTT
* *
94290 TCTGGTTTTGATTGCCGGTTAATTTAATATCGTATAAT
196 TCTGGTTTTGATTGCCAGTTAATTTAATATCATATAAT
*
94328 TTTATGTTATTTTGTCCTTTACAATTATAGGTTGGACGATTTAACGCGTTGGCTTTTATTTTTGT
1 TTTATGTTATTTAGTCCTTTACAATTATAGGTTGGACGATTTAACGCGTTGGCTTTTATTTTTGT
*
94393 ATTTTTTTCTATTTGTCTGAATAAGGTGATTCAAGTGTCTATTAAAAGGTAATTTCATAATCTAC
66 ATTTTTTTCTATTTGTCTGAATAAGGTGATTCAAGTGTCTATTAAAAGATAATTTCATAATCTAC
94458 AATTTTCATTTAGAACTTAAAAGTCAATTTTAATGTTTTGATTCTAAAAAATGCTTTCGAAATTT
131 AATTTTCATTTAGAACTTAAAAGTCAATTTTAATGTTTTGATTCTAAAAAATGCTTTCGAAATTT
94523 TCTGGTTTTGATTGCCAGTTAATTTAATATCATATAAT
196 TCTGGTTTTGATTGCCAGTTAATTTAATATCATATAAT
94561 TTT
1 TTT
94564 TTGTCCATAT
Statistics
Matches: 231, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
233 231 1.00
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (233 bp):
TTTATGTTATTTAGTCCTTTACAATTATAGGTTGGACGATTTAACGCGTTGGCTTTTATTTTTGT
ATTTTTTTCTATTTGTCTGAATAAGGTGATTCAAGTGTCTATTAAAAGATAATTTCATAATCTAC
AATTTTCATTTAGAACTTAAAAGTCAATTTTAATGTTTTGATTCTAAAAAATGCTTTCGAAATTT
TCTGGTTTTGATTGCCAGTTAATTTAATATCATATAAT
Found at i:95405 original size:400 final size:401
Alignment explanation
Indices: 94607--95402 Score: 1034
Period size: 400 Copynumber: 2.0 Consensus size: 401
94597 TCGGTTAAAA
* * * *
94607 GGTTATTGCATGATTTACGACTTTCATGAAGGACCCGAAAGCCGAATTTGATCTACAAGTTTCGT
1 GGTTATTGCATAATCTACGACTTTCATGAAGAACCCGAAAGCCGAATTTGATCTACAAGTTTCAT
* *
94672 GAAGGGTTTAAAAGGGAATTTTTATGTTTCAAGATCTCCATTAACAAACATTTTCTTATTTGGAT
66 GAAGGGTTTAAAAGGGAATTTTTATATTTCAAGATCTCCATTAACAAACATTTTCTTATTTGAAT
* * * * * *
94737 TATTTATCAAATGACCCTCATATTTTTCTGCTTTATACTACTTATTTCTTTACAAATTCTATCTT
131 CAGTTATCAAATCACCCTCATACTTTTCTACTTTATACTACTTATATCTTTACAAATTCTATCTT
* * * * * *
94802 AATCTAATATTTAACCTTTATTTTTTTTATTCTTTGTTCTATTTGTCCAATTAAGTTGATTCATG
196 AATCTAAGATTTAACATTCATTTTTTTTATTCTTTGTTCTATTTGTCCAATTAAGGTAATTCAAG
* * * * *
94867 TGTCTATTAAAAGGTAATTTCATGATTTACAACTTTCATGAAGGACTCAAAAGCAAATTTTTATG
261 TGTCTATTAAAAAGTAATTTCATGATGTACAACTTTCATAAAAGACTCAAAAGCAAATTTTTATA
***
94932 TTTCAATCCAAAAAAATGCTTCCTAAATTTGATCGTTTCGATTGTTGGTCTATTTAATATCATAT
326 TTTCAATCCAAAAAAATGCTTCCTAAATTTGATCGTTTCGATTGACAGTCTATTTAATATCATAT
94997 AATTTTTATAT
391 AATTTTTATAT
* * ** *
95008 GGTTATTGTATAATCTACGACTTTCATGAAGAACTCGAAAG-TTAATTTGATCTACGAGTTTCAT
1 GGTTATTGCATAATCTACGACTTTCATGAAGAACCCGAAAGCCGAATTTGATCTACAAGTTTCAT
* *
95072 GAAGGGTTTAAAAGGGAATTTTTATATTTCAAGATTTCCATTAACAAATATTTTCTTATTTGAAT
66 GAAGGGTTTAAAAGGGAATTTTTATATTTCAAGATCTCCATTAACAAACATTTTCTTATTTGAAT
* **
95137 CAGTTATCAAATCACCCTCATACTTTTCTATTTTATGTTACTTAGTAT-TTTACAAATTCTATCT
131 CAGTTATCAAATCACCCTCATACTTTTCTACTTTATACTACTTA-TATCTTTACAAATTCTATCT
* *
95201 T-A-CT-CGATTTAACAATTCATTTGTTTTATTTTCTTTGTTCTATTT-TCCAATTAAGGTAATT
195 TAATCTAAGATTTAAC-ATTCATTT-TTTT-TATTCTTTGTTCTATTTGTCCAATTAAGGTAATT
* * * *
95262 CAAGTGTCTATTAAAAAGTAATTTTATGATGTGCAACTTTCATAAAAGACTTAAAAGCTAATTTT
257 CAAGTGTCTATTAAAAAGTAATTTCATGATGTACAACTTTCATAAAAGACTCAAAAGCAAATTTT
*** * *
95327 TATATTTCAATTTTAAAAAATGCTT-TTGAAATTTTG-T-GATTTCGATTGACAGTTTATTTAAT
322 TATATTTCAATCCAAAAAAATGCTTCCT-AAA-TTTGATCG-TTTCGATTGACAGTCTATTTAAT
*
95389 ATCATATTATTTTT
384 ATCATATAATTTTT
95403 TATCCAAATG
Statistics
Matches: 340, Mismatches: 48, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
397 7 0.02
398 10 0.03
399 132 0.39
400 153 0.45
401 38 0.11
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (401 bp):
GGTTATTGCATAATCTACGACTTTCATGAAGAACCCGAAAGCCGAATTTGATCTACAAGTTTCAT
GAAGGGTTTAAAAGGGAATTTTTATATTTCAAGATCTCCATTAACAAACATTTTCTTATTTGAAT
CAGTTATCAAATCACCCTCATACTTTTCTACTTTATACTACTTATATCTTTACAAATTCTATCTT
AATCTAAGATTTAACATTCATTTTTTTTATTCTTTGTTCTATTTGTCCAATTAAGGTAATTCAAG
TGTCTATTAAAAAGTAATTTCATGATGTACAACTTTCATAAAAGACTCAAAAGCAAATTTTTATA
TTTCAATCCAAAAAAATGCTTCCTAAATTTGATCGTTTCGATTGACAGTCTATTTAATATCATAT
AATTTTTATAT
Found at i:96396 original size:16 final size:16
Alignment explanation
Indices: 96375--96408 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
96365 TTCAAGTAAC
96375 AAGCATATAT-AAAACA
1 AAGCATA-ATGAAAACA
96391 AAGCATAATGAAAACA
1 AAGCATAATGAAAACA
96407 AA
1 AA
96409 CAATTTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.15
Consensus pattern (16 bp):
AAGCATAATGAAAACA
Done.