Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007521.1 Hibiscus syriacus cultivar Beakdansim tig00020965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 93741
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:5306 original size:28 final size:30
Alignment explanation
Indices: 5262--5317 Score: 82
Period size: 28 Copynumber: 1.9 Consensus size: 30
5252 AATAAACTTA
5262 ATTAAAATAATTAAAATAAATA-ATAAAAAT
1 ATTAAAATAATTAAAATAAA-AGATAAAAAT
5292 ATTAAAA-AATT-AAATAAAAGATAAAA
1 ATTAAAATAATTAAAATAAAAGATAAAA
5318 TAAACATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 1 0.04
28 13 0.52
29 4 0.16
30 7 0.28
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (30 bp):
ATTAAAATAATTAAAATAAAAGATAAAAAT
Found at i:5307 original size:21 final size:22
Alignment explanation
Indices: 5240--5329 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 22
5230 ATTACGAAAC
* *
5240 AAAACAATTAATAATAAACTTAATT
1 AAAATAATTAA-AATAAA--TAATA
5265 AAAATAATTAAAATAAATAATA
1 AAAATAATTAAAATAAATAATA
*
5287 AAAAT-ATTAAAA-AATTAAATA
1 AAAATAATTAAAATAAAT-AATA
*
5308 AAAGATAAAATAAACATAAATA
1 AAA-AT-AATTAAA-ATAAATA
5330 CAAGGACCTA
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
20 3 0.06
21 14 0.26
22 11 0.20
24 11 0.20
25 12 0.22
26 3 0.06
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (22 bp):
AAAATAATTAAAATAAATAATA
Found at i:6871 original size:29 final size:29
Alignment explanation
Indices: 6803--6994 Score: 231
Period size: 29 Copynumber: 6.6 Consensus size: 29
6793 ATCAACCATT
* * *
6803 TTACACAATTATCACCCTTTTAAGAAATAT
1 TTACAAAAATATCACCCTTTTAA-AAATAA
*
6833 TTACGAAAATATCACCCTTTTAAAAATAA
1 TTACAAAAATATCACCCTTTTAAAAATAA
**
6862 TTACGCAAATATCACCCTTTTAAAAATAA
1 TTACAAAAATATCACCCTTTTAAAAATAA
*
6891 TTACACAAATATCACCCTTTTAAAAATAA
1 TTACAAAAATATCACCCTTTTAAAAATAA
* * **
6920 TTACAAAAATAACACCATTTTCCAAATAA
1 TTACAAAAATATCACCCTTTTAAAAATAA
* * ** *
6949 TTACTAAAATAGCACTATTTTCAAAATAA
1 TTACAAAAATATCACCCTTTTAAAAATAA
6978 TTACAAAAATATCACCC
1 TTACAAAAATATCACCC
6995 GGTTAAGGGT
Statistics
Matches: 143, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
29 123 0.86
30 20 0.14
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (29 bp):
TTACAAAAATATCACCCTTTTAAAAATAA
Found at i:8717 original size:11 final size:11
Alignment explanation
Indices: 8701--8726 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8691 AAATCGAATG
8701 TTTTTTTTGTT
1 TTTTTTTTGTT
8712 TTTTTTTTGTT
1 TTTTTTTTGTT
8723 TTTT
1 TTTT
8727 ACTCTTCGAA
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:15133 original size:145 final size:146
Alignment explanation
Indices: 14984--15261 Score: 391
Period size: 145 Copynumber: 1.9 Consensus size: 146
14974 TTGTAATAAA
*
14984 AATTGTAACAAATCTATTTAGTCATAACAACATATTCA-ATTTAATCAAAATAAGAAATTATGCC
1 AATTGTAACAAATCTATTTAATCATAACAACATATT-ATATTTAATCAAAATAAGAAATTATGCC
* * * * * *
15048 AAATTTATTTAGTCACAATA-TTTTCTTAAAATAGCT-AATTATGACAAATTTATATAGTCATAA
65 AAATTTATTTAGTCACAATATTTTTCTCAAAATA-ATAAATGATGAAAAAATTATATAGTCAAAA
15111 TAACAGTTATTTGTAACT
129 TAACAGTTATTTGTAACT
* * * * *
15129 AATTGTAACAAATTTATTTAATCATAATAATATATTATATTTAGTCAAAATAAGAAATTATGTCA
1 AATTGTAACAAATCTATTTAATCATAACAACATATTATATTTAATCAAAATAAGAAATTATGCCA
* *
15194 AATTTATTTAGTCACACTATTTTTCTCAAAATAATAAATGATGAAAAAATTATTTAGTCAAAATA
66 AATTTATTTAGTCACAATATTTTTCTCAAAATAATAAATGATGAAAAAATTATATAGTCAAAATA
15259 ACA
131 ACA
15262 ATAGCAAATA
Statistics
Matches: 116, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
144 1 0.01
145 76 0.66
146 39 0.34
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.38
Consensus pattern (146 bp):
AATTGTAACAAATCTATTTAATCATAACAACATATTATATTTAATCAAAATAAGAAATTATGCCA
AATTTATTTAGTCACAATATTTTTCTCAAAATAATAAATGATGAAAAAATTATATAGTCAAAATA
ACAGTTATTTGTAACT
Found at i:15188 original size:23 final size:23
Alignment explanation
Indices: 15138--15189 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
15128 TAATTGTAAC
* *
15138 AAATT-TATTTAATCATAATAAT
1 AAATTATATTTAATCAAAATAAG
* *
15160 ATATTATATTTAGTCAAAATAAG
1 AAATTATATTTAATCAAAATAAG
15183 AAATTAT
1 AAATTAT
15190 GTCAAATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (23 bp):
AAATTATATTTAATCAAAATAAG
Found at i:15368 original size:195 final size:199
Alignment explanation
Indices: 15124--15551 Score: 491
Period size: 195 Copynumber: 2.2 Consensus size: 199
15114 CAGTTATTTG
* * * * *
15124 TAACTAATTGTAACAAATTTATTTAATCATAATAATATATTATATTTAGTCAAAATAAGA-AATT
1 TAACAAATTATAACAAATTTATTTAGTCACAATAATATATTAAATTTAGTCAAAATAA-ATAATT
* * * *
15188 ATGTCAAATTTATTTAGTCACACTATTTTTCTC-AAAATAAT-AAATG-ATGAAAAAATTATTTA
65 ATGTAAAATTTATTTAGTCACAATA-TTTTCTCAAAAAAAATAAAACGTATGAAAAAATTATTTA
* * *
15250 GTCA-AA-ATAACA-ATAGCAAATATTAATTTCTCAATATAAA-AATTTATGACAAATAATAT-G
129 -TCATAATAAAAAATATAACAAATATTAATTTCTCAATATAAAGAA-TTATGA-AAA-AATATAG
15310 T-TTTCACAA
190 TATTTCACAA
*
15319 TAATAAATTATAACAAATTTATTTAGTCACAAT-ATCATATTAAATTTAGTCAAAATAAATAATT
1 TAACAAATTATAACAAATTTATTTAGTCACAATAAT-ATATTAAATTTAGTCAAAATAAATAATT
* * * * *
15383 ATGTAAAATTTGTTTTGTCACAATATTTTCTCAAAAAAAATAAAAACGTTTGATAAATTTATTTA
65 ATGTAAAATTTATTTAGTCACAATATTTTCTCAAAAAAAAT-AAAACGTATGAAAAAATTATTTA
* * *
15448 TCATAATAAAAAATTATAACAAATGTTAATTTTTCAATATAAAGAATTATGAAAAAATATATTAT
129 TCATAATAAAAAA-TATAACAAATATTAATTTCTCAATATAAAGAATTATGAAAAAATATAGTAT
15513 TTCACAA
193 TTCACAA
* *
15520 TAACGAATTATAAAAAATTTATTTAGTCACAA
1 TAACAAATTATAACAAATTTATTTAGTCACAA
15552 AATGTTTTAT
Statistics
Matches: 196, Mismatches: 24, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
194 10 0.05
195 81 0.41
197 7 0.04
198 15 0.08
199 9 0.05
200 4 0.02
201 68 0.35
202 2 0.01
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.38
Consensus pattern (199 bp):
TAACAAATTATAACAAATTTATTTAGTCACAATAATATATTAAATTTAGTCAAAATAAATAATTA
TGTAAAATTTATTTAGTCACAATATTTTCTCAAAAAAAATAAAACGTATGAAAAAATTATTTATC
ATAATAAAAAATATAACAAATATTAATTTCTCAATATAAAGAATTATGAAAAAATATAGTATTTC
ACAA
Found at i:15550 original size:32 final size:32
Alignment explanation
Indices: 15437--15551 Score: 103
Period size: 33 Copynumber: 3.6 Consensus size: 32
15427 AACGTTTGAT
* * *
15437 AAATTTATTTA-TCATAATAAAAAATTATAAC
1 AAATTTATTTATTCACAATAAAGAATTATAAA
15468 AAATGTTAATTT-TTCA-ATATAAAGAATTATGAAA
1 AAAT-TT-ATTTATTCACA-ATAAAGAATTAT-AAA
* *
15502 AAATATA-TTATTTCACAATAACGAATTATAAA
1 AAATTTATTTA-TTCACAATAAAGAATTATAAA
*
15534 AAATTTATTTAGTCACAA
1 AAATTTATTTATTCACAA
15552 AATGTTTTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
31 6 0.09
32 19 0.28
33 37 0.54
34 7 0.10
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.37
Consensus pattern (32 bp):
AAATTTATTTATTCACAATAAAGAATTATAAA
Found at i:15888 original size:22 final size:19
Alignment explanation
Indices: 15844--15889 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 19
15834 GTTAATTATA
*
15844 ACAAAATGTAATTATTGTG
1 ACAAAATGTAATTATAGTG
15863 ACAAAATAGTTAATTGATAGTG
1 ACAAAAT-G-TAATT-ATAGTG
15885 ACAAA
1 ACAAA
15890 TGTTTTATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 1 0.04
21 5 0.22
22 10 0.43
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (19 bp):
ACAAAATGTAATTATAGTG
Found at i:19671 original size:26 final size:26
Alignment explanation
Indices: 19587--19672 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
19577 CCAAACAACT
19587 AATTT-TACTTTTTAAAGGTATATGC
1 AATTTGTACTTTTTAAAGGTATATGC
* ** * *
19612 AATTTGATTCACTTATTACAAAATACA-AC
1 AATTTG--T-ACTTTTTA-AAGGTATATGC
*
19641 TATTTGTACTTTTTAAAGGTATATGC
1 AATTTGTACTTTTTAAAGGTATATGC
19667 AATTTG
1 AATTTG
19673 CTCGTGTACA
Statistics
Matches: 43, Mismatches: 12, Indels: 11
0.65 0.18 0.17
Matches are distributed among these distances:
25 10 0.23
26 13 0.30
27 1 0.02
28 1 0.02
29 13 0.30
30 5 0.12
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.44
Consensus pattern (26 bp):
AATTTGTACTTTTTAAAGGTATATGC
Found at i:20393 original size:375 final size:377
Alignment explanation
Indices: 19684--20431 Score: 880
Period size: 375 Copynumber: 2.0 Consensus size: 377
19674 TCGTGTACAA
* * *
19684 AACAATTATATATCCTTTAAAAACAAATTATGTTATATCCTTTTTTTTGTTATATTATAGTCTAG
1 AACAATTATATATCCTTTAAAAACAAATTATATTAAATCCTATTTTTTGTTATATTATAGTCTAG
*
19749 CTCATCAAAATCCTACTTAGAATCTTGTTTGTTTTACTGTAATTATTTTTTAAAAATTATTTTTT
66 CTCATCAAAATACTACTTAGAATCTTGTTTGTTTTACTGTAATTATTTTTTAAAAATTATTTTTT
* * * * * * *
19814 TCTTATTTCAAATGTTTGGTTGGCGGAAAATAGATTAACTAATGTAATTCATTTTCTTAGTGAAT
131 TCTTATTTCAAATGTTTGGTTGGAGAAAAATAGAGTAACTAATATAATTCAGTTTCATAGTCAAT
* * * * ** *
19879 AGAATTTCCTTTGTATATTTTGAAAAAAATATTTACGGCTTGATTTTTTGTAAGTCATTTTTTGA
196 AAAATTTCCTTTGCATATTTTG-AAAAAATACTTACGGCTTAATTTTTCATAAGTCATTTTCTGA
* * *
19944 ACTTTTCACTTCAAAACATAAATACTCAAATCAATTTTATTTATGTGTTTAATATTGATAATATT
260 ACTTTTCACTTCAAAACATAAATACTCAAAACAATTTTATTTATGTATTTAATATTGATAACATT
* * *
20009 TAGTATCATTTCAATAAAAATGTTAATTATTAAATAT-TTTATTAATAGTTCT
325 TACTATCATTTCAATAAAAATATTAATTATTAAATATATTTAGTAATAGTTCT
*
20061 AACAATTATATATCCTTTAAAAGCAAATTATATTAAAT-C-ATTTTTTGTTA-ACTTATAGTCTA
1 AACAATTATATATCCTTTAAAAACAAATTATATTAAATCCTATTTTTTGTTATA-TTATAGTCTA
* * * ** *
20123 GCTCGTTAAAATACTA-TATGGTGT-TTGTTTGTTTTATTGTAATTAGTTTTTT-AAAATT-TTT
65 GCTCATCAAAATACTACT-TAGAATCTTGTTTGTTTTACTGTAATTA-TTTTTTAAAAATTATTT
** * *
20184 GTTTTCATT-TTTC-GGTGTTTGGTTGGAGAAAAATAGAGT-ACTTGATATAATTTAGTTT-ATA
128 -TTTTC-TTATTTCAAATGTTTGGTTGGAGAAAAATAGAGTAAC-TAATATAATTCAGTTTCATA
* * *
20245 GTCAATAAAATTTTCTTTGCATTTTTTG-AAAAATGACTTATGGAC-TAATTTTTCATAAGTCAT
190 GTCAATAAAATTTCCTTTGCATATTTTGAAAAAAT-ACTTACGG-CTTAATTTTTCATAAGTCAT
*
20308 TTTCTGAACTTTTCACTT-TAAACATAAATACTCAAAACACTATTATT-TTTATGTATTTAATAT
253 TTTCTGAACTTTTCACTTCAAAACATAAATACTCAAAACA--ATT-TTATTTATGTATTTAATAT
* *
20371 TAATATAACATTTTACTATCATTTTAATAAAAATATTAATTATTAAATATATTTAGTAATA
315 T--GATAACA-TTTACTATCATTTCAATAAAAATATTAATTATTAAATATATTTAGTAATA
20432 ATTTTAATGA
Statistics
Matches: 315, Mismatches: 41, Indels: 31
0.81 0.11 0.08
Matches are distributed among these distances:
370 25 0.08
371 38 0.12
372 47 0.15
373 38 0.12
374 42 0.13
375 80 0.25
376 10 0.03
377 35 0.11
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.47
Consensus pattern (377 bp):
AACAATTATATATCCTTTAAAAACAAATTATATTAAATCCTATTTTTTGTTATATTATAGTCTAG
CTCATCAAAATACTACTTAGAATCTTGTTTGTTTTACTGTAATTATTTTTTAAAAATTATTTTTT
TCTTATTTCAAATGTTTGGTTGGAGAAAAATAGAGTAACTAATATAATTCAGTTTCATAGTCAAT
AAAATTTCCTTTGCATATTTTGAAAAAATACTTACGGCTTAATTTTTCATAAGTCATTTTCTGAA
CTTTTCACTTCAAAACATAAATACTCAAAACAATTTTATTTATGTATTTAATATTGATAACATTT
ACTATCATTTCAATAAAAATATTAATTATTAAATATATTTAGTAATAGTTCT
Found at i:20538 original size:64 final size:64
Alignment explanation
Indices: 20470--20606 Score: 174
Period size: 65 Copynumber: 2.1 Consensus size: 64
20460 ATATTATAAT
* *
20470 TTTTAATAGTAT-A-ATGATATTCTTATTTTTAATAAGA-AATTAATATAA-TTCATAATATTTA
1 TTTTAATAATATAATATAATATTCTTA-TTTTAATAA-ATAATTAATATAACTT-ATAATATTT-
20531 TTA
62 TTA
* *
20534 TTTTAATAATATAATATAATATTTTTATTTTAATAAATAATTTATATAACTTATAATATTTTTA
1 TTTTAATAATATAATATAATATTCTTATTTTAATAAATAATTAATATAACTTATAATATTTTTA
20598 TTTTAATAA
1 TTTTAATAA
20607 AATATATTAC
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
64 24 0.37
65 29 0.45
66 12 0.18
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (64 bp):
TTTTAATAATATAATATAATATTCTTATTTTAATAAATAATTAATATAACTTATAATATTTTTA
Found at i:20561 original size:27 final size:29
Alignment explanation
Indices: 20510--20574 Score: 100
Period size: 27 Copynumber: 2.3 Consensus size: 29
20500 AATAAGAAAT
20510 TAATATAATTCATAATATTTATTATTTTAA
1 TAATATAA-TCATAATATTTATTATTTTAA
20540 TAATATAAT-ATAATATTT-TTATTTTAA
1 TAATATAATCATAATATTTATTATTTTAA
20567 TAA-ATAAT
1 TAATATAAT
20575 TTATATAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 5 0.14
27 12 0.34
28 9 0.26
29 1 0.03
30 8 0.23
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TAATATAATCATAATATTTATTATTTTAA
Found at i:20579 original size:28 final size:30
Alignment explanation
Indices: 20510--20579 Score: 103
Period size: 28 Copynumber: 2.5 Consensus size: 30
20500 AATAAGAAAT
*
20510 TAATATAATTCATAATATTTATTATTTTAA
1 TAATATAATTTATAATATTTATTATTTTAA
20540 TAATATAA--TATAATATTT-TTATTTTAA
1 TAATATAATTTATAATATTTATTATTTTAA
20567 TAA-ATAATTTATA
1 TAATATAATTTATA
20580 TAACTTATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
26 4 0.11
27 12 0.32
28 13 0.35
30 8 0.22
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (30 bp):
TAATATAATTTATAATATTTATTATTTTAA
Found at i:20610 original size:19 final size:19
Alignment explanation
Indices: 20545--20611 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
20535 TTTAATAATA
*
20545 TAATATAATATTTTTATTT
1 TAATAAAATATTTTTATTT
* *
20564 TAAT-AAATA-ATTTA-TA
1 TAATAAAATATTTTTATTT
*
20580 TAACTTATAATATTTTTATTT
1 TAA--TAAAATATTTTTATTT
20601 TAATAAAATAT
1 TAATAAAATAT
20612 ATTACTCTTG
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
16 4 0.11
17 4 0.11
18 5 0.14
19 15 0.42
20 4 0.11
21 4 0.11
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATAAAATATTTTTATTT
Found at i:20628 original size:33 final size:33
Alignment explanation
Indices: 20512--20613 Score: 101
Period size: 37 Copynumber: 3.1 Consensus size: 33
20502 TAAGAAATTA
20512 ATATAA-TTCATAATATTTATTATTTTAAT---A-
1 ATATAACTT-ATAATATTT-TTATTTTAATAAAAT
20542 ATATAA--TATAATATTTTTATTTTAATAAATAATTT
1 ATATAACTTATAATATTTTTATTTTAAT-AA-AA--T
20577 ATATAACTTATAATATTTTTATTTTAATAAAAT
1 ATATAACTTATAATATTTTTATTTTAATAAAAT
20610 ATAT
1 ATAT
20614 TACTCTTGAT
Statistics
Matches: 62, Mismatches: 0, Indels: 17
0.78 0.00 0.22
Matches are distributed among these distances:
27 10 0.16
28 9 0.15
29 1 0.02
30 6 0.10
32 1 0.02
33 5 0.08
35 8 0.13
36 2 0.03
37 20 0.32
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (33 bp):
ATATAACTTATAATATTTTTATTTTAATAAAAT
Found at i:20850 original size:13 final size:13
Alignment explanation
Indices: 20832--20856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20822 CAAATATTAT
20832 AAAATTATTTTCA
1 AAAATTATTTTCA
20845 AAAATTATTTTC
1 AAAATTATTTTC
20857 TGAAAGATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAATTATTTTCA
Found at i:22287 original size:29 final size:29
Alignment explanation
Indices: 22245--22303 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
22235 TCTTTGGGTG
*
22245 AATATTTACTCTTAATAAGTTCATAACCT
1 AATATTTACTCTTAATAAGTCCATAACCT
22274 AATATTTACTCTTAATAAGTCCATAACCT
1 AATATTTACTCTTAATAAGTCCATAACCT
22303 A
1 A
22304 GTGTTGAGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (29 bp):
AATATTTACTCTTAATAAGTCCATAACCT
Found at i:40800 original size:24 final size:24
Alignment explanation
Indices: 40773--40842 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
40763 ACGGAGATAT
40773 CAGAAATCAAAACAGAATTCAGAA
1 CAGAAATCAAAACAGAATTCAGAA
* * * * *
40797 CAGATATCATAACAGAATCCATAT
1 CAGAAATCAAAACAGAATTCAGAA
** *
40821 TGGAAATCAGAACAGAATTCAG
1 CAGAAATCAAAACAGAATTCAG
40843 GTCATGTATT
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (24 bp):
CAGAAATCAAAACAGAATTCAGAA
Found at i:43315 original size:18 final size:18
Alignment explanation
Indices: 43294--43334 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
43284 GTGGTCAACG
43294 CGGGTCAACGGGTCGAGT
1 CGGGTCAACGGGTCGAGT
* * *
43312 CGGGTTAATGGGTCGGGT
1 CGGGTCAACGGGTCGAGT
43330 CGGGT
1 CGGGT
43335 TGGAACCAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.17, G:0.49, T:0.22
Consensus pattern (18 bp):
CGGGTCAACGGGTCGAGT
Found at i:45474 original size:15 final size:16
Alignment explanation
Indices: 45456--45527 Score: 69
Period size: 16 Copynumber: 4.6 Consensus size: 16
45446 TATATATATA
45456 TATATT-AATTTAAAT
1 TATATTAAATTTAAAT
*
45471 TATATTAAATTATTAA-
1 TATATTAAATT-TAAAT
* * *
45487 TATTTTAAATATAAAA
1 TATATTAAATTTAAAT
45503 TATATTAAA-TTAAAT
1 TATATTAAATTTAAAT
45518 TATATATAAA
1 TATAT-TAAA
45528 AATAAATAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
15 18 0.39
16 25 0.54
17 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATATTAAATTTAAAT
Found at i:45474 original size:37 final size:36
Alignment explanation
Indices: 45432--45525 Score: 90
Period size: 37 Copynumber: 2.6 Consensus size: 36
45422 CATTTTCTAC
*
45432 ATTATATAATAAATTATATATATATATATT-AATTTAA
1 ATTATATAATAAATTATATATATAT-T-TTAAATATAA
45469 ATTATAT--TAAATTAT-TA-ATATTTTAAATATAA
1 ATTATATAATAAATTATATATATATTTTAAATATAA
*
45501 AATATATTAAATTAAATTATATATA
1 ATTATA-T-AA-TAAATTATATATA
45526 AAAATAAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
31 2 0.04
32 12 0.26
33 5 0.11
34 2 0.04
35 8 0.17
37 15 0.32
38 2 0.04
39 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (36 bp):
ATTATATAATAAATTATATATATATTTTAAATATAA
Found at i:45494 original size:16 final size:17
Alignment explanation
Indices: 45435--45514 Score: 69
Period size: 16 Copynumber: 4.8 Consensus size: 17
45425 TTTCTACATT
*
45435 ATATAATAAATTATATATA
1 ATATATTAAATTATA-A-A
45454 TATATATT-AATT-TAAA
1 -ATATATTAAATTATAAA
* *
45470 TTATATTAAATTAT-TA
1 ATATATTAAATTATAAA
*
45486 ATATTTTAAA-TATAAA
1 ATATATTAAATTATAAA
45502 ATATATTAAATTA
1 ATATATTAAATTA
45515 AATTATATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
15 9 0.18
16 24 0.49
17 4 0.08
18 2 0.04
19 4 0.08
20 6 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTAAATTATAAA
Found at i:45510 original size:32 final size:35
Alignment explanation
Indices: 45435--45525 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 35
45425 TTTCTACATT
* *
45435 ATATAATAAATTATATATATATATATTAATTTAAA
1 ATATATTAAATTATATATATATATATTAATATAAA
*
45470 TTATATTAAATTAT-TA-ATAT-T-TTAAATATAAA
1 ATATATTAAATTATATATATATATATT-AATATAAA
*
45502 ATATATTAAATTAAAT-TATATATA
1 ATATATTAAATTATATATATATATA
45526 AAAATAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
31 2 0.04
32 20 0.43
33 9 0.20
34 3 0.07
35 12 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (35 bp):
ATATATTAAATTATATATATATATATTAATATAAA
Found at i:45527 original size:16 final size:16
Alignment explanation
Indices: 45432--45527 Score: 65
Period size: 15 Copynumber: 5.8 Consensus size: 16
45422 CATTTTCTAC
45432 ATTATATAATAAATTATA
1 ATTATAT-ATAAATTA-A
*
45450 TATATATATATTAATTTAA
1 -AT-TATATA-TAAATTAA
45469 ATTATAT-TAAATT--
1 ATTATATATAAATTAA
*
45482 ATTAATATTTTAAATATAA
1 ATT-ATA-TATAAAT-TAA
*
45501 AATATAT-TAAATTAA
1 ATTATATATAAATTAA
45516 ATTATATATAAA
1 ATTATATATAAA
45528 AATAAATAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 21
0.72 0.04 0.24
Matches are distributed among these distances:
13 3 0.05
14 3 0.05
15 15 0.23
16 14 0.22
17 7 0.11
18 5 0.08
19 6 0.09
20 11 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTATATATAAATTAA
Found at i:45533 original size:32 final size:32
Alignment explanation
Indices: 45466--45533 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
45456 TATATTAATT
* * *
45466 TAAATTATATTAAATTATTAATATTTTAAATA
1 TAAAATATATTAAATTATTAATATTATAAAAA
45498 TAAAATATATTAAATTA--AATTATATATAAAAA
1 TAAAATATATTAAATTATTAA-TAT-TATAAAAA
45530 TAAA
1 TAAA
45534 TAAATATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 2 0.06
31 3 0.10
32 26 0.84
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (32 bp):
TAAAATATATTAAATTATTAATATTATAAAAA
Found at i:45537 original size:26 final size:27
Alignment explanation
Indices: 45495--45559 Score: 84
Period size: 26 Copynumber: 2.5 Consensus size: 27
45485 AATATTTTAA
*
45495 ATAT-AAAATATATTAAAT-TAAATTAT
1 ATATAAAAATATAATAAATAT-AATTAT
45521 ATATAAAAATA-AATAAATATAATTAT
1 ATATAAAAATATAATAAATATAATTAT
45547 A-ATAAAAATATAA
1 ATATAAAAATATAA
45560 AATGAAGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 9 0.26
26 19 0.54
27 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
ATATAAAAATATAATAAATATAATTAT
Found at i:52388 original size:20 final size:19
Alignment explanation
Indices: 52365--52404 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
52355 AAAAGAAGTA
52365 AAAAAAGAAAAAAAACAAAG
1 AAAAAAGAAAAAAAA-AAAG
* *
52385 AAAAGAGAAAATAAAAAAG
1 AAAAAAGAAAAAAAAAAAG
52404 A
1 A
52405 GAAACAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (19 bp):
AAAAAAGAAAAAAAAAAAG
Found at i:52403 original size:19 final size:18
Alignment explanation
Indices: 52348--52404 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
52338 AATCAGACCA
*
52348 AAAAGAGAAAAGAAGTAAA-
1 AAAAGAGAAAA-AA-AAAAG
52367 AAAAGA-AAAAAAACAAAG
1 AAAAGAGAAAAAAA-AAAG
52385 AAAAGAGAAAATAAAAAAG
1 AAAAGAGAAAA-AAAAAAG
52404 A
1 A
52405 GAAACAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.15
18 10 0.30
19 15 0.45
20 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.04
Consensus pattern (18 bp):
AAAAGAGAAAAAAAAAAG
Found at i:52414 original size:14 final size:14
Alignment explanation
Indices: 52377--52414 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
52367 AAAAGAAAAA
52377 AAACAAAGAAAAGAG
1 AAACAAA-AAAAGAG
52392 AAA-ATAAAAAAGAG
1 AAACA-AAAAAAGAG
52406 AAACAAAAA
1 AAACAAAAA
52415 CAAAGGCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.79, C:0.05, G:0.13, T:0.03
Consensus pattern (14 bp):
AAACAAAAAAAGAG
Found at i:53521 original size:32 final size:32
Alignment explanation
Indices: 53472--53560 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 32
53462 GCAAGAAATG
* * *
53472 GGGGCATCTTTGAAGATTCAACATCAAATGTT
1 GGGGCATATTTGGAGATTCAACATCAAATATT
* * *
53504 GGGGTATTTTTGGAGATTCAACATCGAATATT
1 GGGGCATATTTGGAGATTCAACATCAAATATT
53536 GGGGCATATTTGG-GAATTCAACATC
1 GGGGCATATTTGGAG-ATTCAACATC
53561 CTGATACGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
31 1 0.02
32 48 0.98
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (32 bp):
GGGGCATATTTGGAGATTCAACATCAAATATT
Found at i:54274 original size:85 final size:85
Alignment explanation
Indices: 54109--54495 Score: 452
Period size: 85 Copynumber: 4.5 Consensus size: 85
54099 TAAAGGAATT
* * * * * * *
54109 ATTTGCAGCATAGCTCAAGGTGAGAAGGGCTATCTGCCAGCAAAAAACCTTCGAGTTCGATTACA
1 ATTTACAGCATAACTCAAGGCGAGAAAGGTTATCTGTCAAC-AAAAACCTTCGAGTTCGATTACA
* *
54174 CTCAGCTCAATGACATATCAA
65 TTCAGCTCAAGGACATATCAA
* * * *
54195 ATTTACAGCATAACTCAAGGTGAGAATGGTTATCTGTTAACAAAAACCTTTGAGTTCGATTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAAGGTTATCTGTCAACAAAAACCTTCGAGTTCGATTACAT
54260 TCAGCTCAAGGACATATCAA
66 TCAGCTCAAGGACATATCAA
* * * * *
54280 ATTTACAACATAACTCAAGGCAAGAAAGGTTATCTGACAACCAAAACCTTCGAGTTCGGTTACAT
1 ATTTACAGCATAACTCAAGGCGAGAAAGGTTATCTGTCAACAAAAACCTTCGAGTTCGATTACAT
* *
54345 TCACCTCAAGGACATATTAA
66 TCAGCTCAAGGACATATCAA
* * ** * * *
54365 ATTTACAGCATAGCTCAAGGCAAGAAACATTATATGTCAACCAAAACCTTCGAGTTCGATTCCAT
1 ATTTACAGCATAACTCAAGGCGAGAAAGGTTATCTGTCAACAAAAACCTTCGAGTTCGATTACAT
* * *
54430 TCAACTCAAGAACATGTCAA
66 TCAGCTCAAGGACATATCAA
* * *
54450 ATTTACAGCATAACT-AATGGCGAGAAGGGCTATCTGTCAATAAAAA
1 ATTTACAGCATAACTCAA-GGCGAGAAAGGTTATCTGTCAACAAAAA
54496 ACTGTCAAGT
Statistics
Matches: 258, Mismatches: 42, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
84 2 0.01
85 222 0.86
86 34 0.13
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (85 bp):
ATTTACAGCATAACTCAAGGCGAGAAAGGTTATCTGTCAACAAAAACCTTCGAGTTCGATTACAT
TCAGCTCAAGGACATATCAA
Found at i:55301 original size:59 final size:61
Alignment explanation
Indices: 55209--55368 Score: 164
Period size: 65 Copynumber: 2.6 Consensus size: 61
55199 GCTAGAGTCA
* * ** *
55209 ATTTCAACTTCACAGCGAATGATATTGAACTCAAAG-T-GACGCAACTTACAT-AAGATTGG
1 ATTTCAACTTCACAACGAAGGATATCCAACTCAAAGATCGACGAAACTTAC-TCAAGATTGG
* * **
55268 ATTTCAACTTGACAATGAAGGATATCCAACTCAAAGCCAATTCGGTGAAACTTACTCAAGATTGG
1 ATTTCAACTTCACAACGAAGGATATCCAACTCAAAG---A-TCGACGAAACTTACTCAAGATTGG
*
55333 ATTTCAACTTCACAACGAAGGATATCTAACTCAAAG
1 ATTTCAACTTCACAACGAAGGATATCCAACTCAAAG
55369 CCAATTTGGT
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
59 30 0.37
64 2 0.02
65 50 0.61
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (61 bp):
ATTTCAACTTCACAACGAAGGATATCCAACTCAAAGATCGACGAAACTTACTCAAGATTGG
Found at i:55334 original size:65 final size:65
Alignment explanation
Indices: 55251--55383 Score: 214
Period size: 65 Copynumber: 2.0 Consensus size: 65
55241 AAAGTGACGC
* *
55251 AACTTACATAAGATTGGATTTCAACTTGACAATGAAGGATATCCAACTCAAAGCCAATTCGGTGA
1 AACTTACATAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTCGGTGA
* *
55316 AACTTAC-TCAAGATTGGATTTCAACTTCACAACGAAGGATATCTAACTCAAAGCCAATTTGGTG
1 AACTTACAT-AAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTCGGTG
55380 A
65 A
55381 AAC
1 AAC
55384 AATACTTAGT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
64 1 0.02
65 62 0.98
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (65 bp):
AACTTACATAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTCGGTGA
Found at i:66037 original size:21 final size:21
Alignment explanation
Indices: 66012--66082 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
66002 CATTCCAAAT
66012 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCGAAGTTCG
* * *
66033 CGTTGCGATTCATTCCAA-AT--
1 CGTTGCGA-T-AGTCGAAGTTCG
*
66053 CGTTGCGATAGGCGAAGTTCG
1 CGTTGCGATAGTCGAAGTTCG
66074 CGTTGCGAT
1 CGTTGCGAT
66083 TCATTCCAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
18 4 0.11
19 2 0.05
20 8 0.21
21 17 0.45
22 2 0.05
23 5 0.13
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (21 bp):
CGTTGCGATAGTCGAAGTTCG
Found at i:66058 original size:20 final size:20
Alignment explanation
Indices: 65996--66061 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
65986 AATTCGCAAC
65996 GCGATTCATTCCAAATCGTT
1 GCGATTCATTCCAAATCGTT
* * *
66016 GCGA-T-AGTCGAAGTTCGCGTT
1 GCGATTCATTCCAA-AT--CGTT
66037 GCGATTCATTCCAAATCGTT
1 GCGATTCATTCCAAATCGTT
66057 GCGAT
1 GCGAT
66062 AGGCGAAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
18 5 0.14
19 2 0.06
20 13 0.37
21 8 0.23
22 2 0.06
23 5 0.14
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (20 bp):
GCGATTCATTCCAAATCGTT
Found at i:66149 original size:42 final size:42
Alignment explanation
Indices: 65996--66188 Score: 320
Period size: 41 Copynumber: 4.7 Consensus size: 42
65986 AATTCGCAAC
*
65996 GCGATTCATTCCAAA-TCGTTGCGATAGTCGAAGTTCGCGTT
1 GCGATTCATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTT
66037 GCGATTCATTCCAAA-TCGTTGCGATAGGCGAAGTTCGCGTT
1 GCGATTCATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTT
* *
66078 GCGATTCATTCC-AATTCGTTGTGATAGGCGAAGTTCGCATT
1 GCGATTCATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTT
*
66119 GCGATTCATTCCAAATTCGTTGCGACAGGCGAAGTTCGCGTT
1 GCGATTCATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTT
*
66161 GTGATTCATTCCAAATTCGTTGCGATAG
1 GCGATTCATTCCAAATTCGTTGCGATAG
66189 TCCAAATATT
Statistics
Matches: 142, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
40 2 0.01
41 88 0.62
42 52 0.37
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (42 bp):
GCGATTCATTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTT
Found at i:66704 original size:41 final size:41
Alignment explanation
Indices: 66649--66889 Score: 392
Period size: 41 Copynumber: 5.9 Consensus size: 41
66639 AGAACCCGAA
* * * *
66649 TTGGAATGAATCGCAATGCGAACTTCGCCTATCGCAACAAA
1 TTGGAATGAATCGCAACGCGAACTTCGACTATCGCAACGAT
* *
66690 TTGGAATGAATCGCAACGCGAACTTTGCCTATCGCAACGAT
1 TTGGAATGAATCGCAACGCGAACTTCGACTATCGCAACGAT
*
66731 TTGGAATGAATCGCAACGCGAACTTCGACTATTGCAACGAT
1 TTGGAATGAATCGCAACGCGAACTTCGACTATCGCAACGAT
66772 TTGGAATGAATCGCAACGCGAACTTCGACTATCGCAACGAT
1 TTGGAATGAATCGCAACGCGAACTTCGACTATCGCAACGAT
*
66813 TTGGAATGAATCGCAATGCGAACTTCGACTATCGCAACGAAT
1 TTGGAATGAATCGCAACGCGAACTTCGACTATCGCAACG-AT
*
66855 TTGGAATGAATCGTAACGCGAACTTCGACTATCGC
1 TTGGAATGAATCGCAACGCGAACTTCGACTATCGC
66890 GTTGCGAATC
Statistics
Matches: 188, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
41 153 0.81
42 35 0.19
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.24
Consensus pattern (41 bp):
TTGGAATGAATCGCAACGCGAACTTCGACTATCGCAACGAT
Found at i:69275 original size:18 final size:16
Alignment explanation
Indices: 69252--69285 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
69242 TATATATATA
69252 TATTTATGTTTCTATTTT
1 TATTTAT-TTT-TATTTT
69270 TATTTATTTTTATTTT
1 TATTTATTTTTATTTT
69286 ACTATCTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (16 bp):
TATTTATTTTTATTTT
Found at i:74376 original size:110 final size:110
Alignment explanation
Indices: 74180--74719 Score: 751
Period size: 110 Copynumber: 5.0 Consensus size: 110
74170 GATAGTGGTT
74180 GCTCAACTTCACAGCGAA-GGG-G-C-GACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
** *
74241 AATTTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAACGAATGATATTGGACTCGAGACAACACAA
*
74286 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAAAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
74351 AATTTCAACTTCACAACGAATGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAACGAATGATATTGGACTCGAGACAACACAA
* * * * *
74396 GCTCAACTTCACAGGGAAGGGACGACTGATTGTCAAGAAA-AACTTTTCAGTTTCATTTAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
*
74460 AATTTCAACTTCACAACGAAT-ATATTAGACTCGAGACAACACAA
66 AATTTCAACTTCACAACGAATGATATTGGACTCGAGACAACACAA
* * *
74504 GCTCAACTTCACAGCGGAGGGGCGATTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
* * *
74569 AATTTCAACTTCACATCGAATGATACTGGAATCGAGACAACACAA
66 AATTTCAACTTCACAACGAATGATATTGGACTCGAGACAACACAA
* * * * *
74614 GCTCAACTTCACAGCAAAGGGGTTG-TTGGCTGTCAACAAATAACTTTCCAGTTT-A---AGAGT
1 GCTCAACTTCACAGCGAAGGGG-CGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGT
** * * * *
74674 CAATTTCAACTTCACGCCAAAGGATATTGGCCTCGAAACAACACAA
65 CAATTTCAACTTCACAACGAATGATATTGGACTCGAGACAACACAA
74720 ATATTTAGAT
Statistics
Matches: 391, Mismatches: 36, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
106 61 0.16
107 3 0.01
108 57 0.15
109 88 0.23
110 181 0.46
111 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (110 bp):
GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
AATTTCAACTTCACAACGAATGATATTGGACTCGAGACAACACAA
Found at i:74606 original size:218 final size:216
Alignment explanation
Indices: 74180--74719 Score: 741
Period size: 218 Copynumber: 2.5 Consensus size: 216
74170 GATAGTGGTT
74180 GCTCAACTTCACAGCGAAGGGGCGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATT
1 GCTCAACTTCACAGCGAAGGGGCGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATT
** *
74245 TCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCG
66 TCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCG
*
74310 ACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAAAGTCAATTTCAACTTCACAACGAATGAT
131 ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAAAGTCAATTTCAACTTCACAACGAATGAT
* *
74375 ATTGGACTCGAGACAACACAA
196 ACTGGAATCGAGACAACACAA
* * * *
74396 GCTCAACTTCACAGGGAAGGGACGACTGATTGTCAAGAAA-AACTTTTCAGTTTCATTTAGAGTC
1 GCTCAACTTCACAGCGAAGGG--G-C-GACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
* *
74460 AATTTCAACTTCACAACGAA-TATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGGAGG
62 AATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGG
* * *
74524 GGCGATTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACATCGAA
127 GGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAAAGTCAATTTCAACTTCACAACGAA
74589 TGATACTGGAATCGAGACAACACAA
192 TGATACTGGAATCGAGACAACACAA
* * * *
74614 GCTCAACTTCACAGCAAAGGGGTTGTTGGCTGTCAACAAATAACTTTCCAGTTT-A---AGAGTC
1 GCTCAACTTCACAGCGAA-GGG--G-CGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
** * * * *
74675 AATTTCAACTTCACGCCAAAGGATATTGGCCTCGAAACAACACAA
62 AATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAA
74720 ATATTTAGAT
Statistics
Matches: 285, Mismatches: 32, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
215 23 0.08
216 40 0.14
218 153 0.54
219 58 0.20
220 11 0.04
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (216 bp):
GCTCAACTTCACAGCGAAGGGGCGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATT
TCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCG
ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAAAGTCAATTTCAACTTCACAACGAATGAT
ACTGGAATCGAGACAACACAA
Found at i:75095 original size:84 final size:82
Alignment explanation
Indices: 74826--75103 Score: 274
Period size: 84 Copynumber: 3.4 Consensus size: 82
74816 AATCGTGCCC
** *
74826 ACCAAAGACCTTCGAGTTAAACTACACTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGT
*
74891 CGAGAAGGGCTATCTG-
66 GGAGAAGGGCTATCTGT
* * * * * ** * * *
74907 -CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCCCATCATTTACAGCATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATTTGCAGCATAGCTTAAG
* * *
74971 -GCTAGAAGGGTTATATGT
65 TG-GAGAAGGGCTATCTGT
* * *
74989 CACCAAAAGACCTTCTAGTTCGACTATGCTCAGCTCCAAGGCATATCATTTGCAACATAGCTTAA
1 -ACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAA
*
75054 GTGGAGAAGGACTATCTGCT
64 GTGGAGAAGGGCTATCTG-T
* *
75074 AACCAAAGACATTCGAATTCGACTACGCTC
1 -ACCAAAGACCTTCGAGTTCGACTACGCTC
75104 TTAAATCGAG
Statistics
Matches: 152, Mismatches: 37, Indels: 13
0.75 0.18 0.06
Matches are distributed among these distances:
80 27 0.18
81 37 0.24
84 59 0.39
85 29 0.19
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (82 bp):
ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGT
GGAGAAGGGCTATCTGT
Found at i:75274 original size:219 final size:219
Alignment explanation
Indices: 74884--75322 Score: 718
Period size: 219 Copynumber: 2.0 Consensus size: 219
74874 TGCAGCATAG
*
74884 CTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCCC
1 CTTAAATCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCCC
* * *
74949 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCACCAAAAGACCTTCTAGTTCGACT
66 ATAATTTACAGCATAACTCAAGGCTAGAAGGATTATATGTCACCAAAAGACCTTCAAGTTCGACT
* * * * *
75014 ATGCTCAGCTCCAAGGCATATCATTTGCAACATAGCTTAAGTGGAGAA-GGACTATCTGCTAACC
131 ACGCTAAGCTCCAAGGCATATCATTTGCAACATAACTTAAGTCGAGAATGG-CTATCTGCCAACC
75078 AAAGACATTCGAATTCGACTACGCT
195 AAAGACATTCGAATTCGACTACGCT
*
75103 CTTAAATCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTTGAGGGCCC
1 CTTAAATCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCCC
*
75168 ATAATTTACAGCATAACTCAAGGCTAGAATGATTATATGTCACCAAAAGACCTTCAAGTTCGACT
66 ATAATTTACAGCATAACTCAAGGCTAGAAGGATTATATGTCACCAAAAGACCTTCAAGTTCGACT
* * *
75233 ACGCTAAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAATGGTTATCTGCCAACTA
131 ACGCTAAGCTCCAAGGCATATCATTTGCAACATAACTTAAGTCGAGAATGGCTATCTGCCAACCA
* *
75298 AAGACCTTCGAGTTCGACTACGCT
196 AAGACATTCGAATTCGACTACGCT
75322 C
1 C
75323 AGCTCCAAGG
Statistics
Matches: 203, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
219 201 0.99
220 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (219 bp):
CTTAAATCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCCC
ATAATTTACAGCATAACTCAAGGCTAGAAGGATTATATGTCACCAAAAGACCTTCAAGTTCGACT
ACGCTAAGCTCCAAGGCATATCATTTGCAACATAACTTAAGTCGAGAATGGCTATCTGCCAACCA
AAGACATTCGAATTCGACTACGCT
Found at i:75281 original size:84 final size:83
Alignment explanation
Indices: 75103--75718 Score: 554
Period size: 84 Copynumber: 7.5 Consensus size: 83
75093 CGACTACGCT
* * * * * ** *
75103 CTTAAATCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGATTACACTCAGCTTTGAGGG
1 CTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGG
* * *
75165 CCCATAATTTACAGCATAA
65 CACATCATTTGCAGCATAA
* * * * * * * *
75184 CTCAAGGCTAGAATGATTATATGTCACCAAAAGACCTTCAAGTTCGACTACGCTAAGCTCCAAGG
1 CTTAAGTCGAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
*
75249 CATATCATTTGCAGCATAA
65 CACATCATTTGCAGCATAA
* * *
75268 CTTAAGTCGAGAATGGTTATCTGCCAACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
1 CTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
*
75333 CACATCATTTGCAGCATAG
65 CACATCATTTGCAGCATAA
* * * * * * * *
75352 CTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCAAGTTAGATTACACTCAGCTTCGAGGG
1 CTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGG
*
75414 CACATCATTTACAGCATAA
65 CACATCATTTGCAGCATAA
* * * *
75433 CTCAA-TGCTAAAAGGGTTATATGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
1 CTTAAGT-CGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* *
75497 CACATCTTTTGCAGCATAG
65 CACATCATTTGCAGCATAA
* * * *
75516 CTTAAGTCGAGAAGGGTTATCTG---CCAAAGACCCTT-GAGTTCGATTACACTCAGCTTCGATG
1 CTTAAGTCGAGAAGGGTTATCTGTCACCAAAGA-CCTTCGAGTTCGACTACGCTCAGC-TCCAAG
** * *
75577 GCACGCCATTTACAACATAA
64 GCACATCATTTGCAGCATAA
* * * * * *
75597 CTCAA-TGCTAGAAGGGTTATCTATCACCAAAGACCTTCGAGTTTGACTACGCTCAGATCCAATG
1 CTTAAGT-CGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
75661 CACATCATTTGCAGCATAA
65 CACATCATTTGCAGCATAA
* * * *
75680 TTTAAGTCGAGAAGGGCTATCTGCCAACCGAAGACCTTC
1 CTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAGACCTTC
75719 AAGGTCGATT
Statistics
Matches: 422, Mismatches: 93, Indels: 37
0.76 0.17 0.07
Matches are distributed among these distances:
80 51 0.12
81 93 0.22
83 78 0.18
84 174 0.41
85 26 0.06
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (83 bp):
CTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
ACATCATTTGCAGCATAA
Found at i:75470 original size:164 final size:164
Alignment explanation
Indices: 75297--75770 Score: 673
Period size: 164 Copynumber: 2.9 Consensus size: 164
75287 TCTGCCAACT
75297 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
*
75362 GAAGGGCTATCTGCCAAAGACCCTCAAGTTAGATTACACTCAGCTTCGAGGGCACATCATTTACA
66 GAAGGGCTATCTGCCAAAGACCCTCAAGTTAGATTACACTCAGCTTCGAGGGCACACCATTTACA
* *
75427 GCATAACTCAATGCTAAAAGGGTTATATGTCACC
131 ACATAACTCAATGCTAAAAGGGTTATATATCACC
*
75461 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCTTTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
* ** * * *
75526 GAAGGGTTATCTGCCAAAGACCCTTGAGTTCGATTACACTCAGCTTCGATGGCACGCCATTTACA
66 GAAGGGCTATCTGCCAAAGACCCTCAAGTTAGATTACACTCAGCTTCGAGGGCACACCATTTACA
* *
75591 ACATAACTCAATGCTAGAAGGGTTATCTATCACC
131 ACATAACTCAATGCTAAAAGGGTTATATATCACC
* * * **
75625 AAAGACCTTCGAGTTTGACTACGCTCAGATCCAATGCACATCATTTGCAGCATAATTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
* * * * *
75690 GAAGGGCTATCTGCCAACCGAAGACCTTCAAGGTCGATTACACTCAAC-TC-AGAGGCAAACCAA
66 GAAGGGCTATCTGCC-A---AAGACCCTCAAGTTAGATTACACTCAGCTTCGAG-GGCACACC--
75753 ATTTACAACATAACTCAA
124 ATTTACAACATAACTCAA
75771 GGTAAGAAGG
Statistics
Matches: 276, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
164 225 0.82
165 1 0.00
166 1 0.00
167 8 0.03
168 23 0.08
169 18 0.07
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.24
Consensus pattern (164 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
GAAGGGCTATCTGCCAAAGACCCTCAAGTTAGATTACACTCAGCTTCGAGGGCACACCATTTACA
ACATAACTCAATGCTAAAAGGGTTATATATCACC
Found at i:75631 original size:248 final size:248
Alignment explanation
Indices: 75109--75619 Score: 683
Period size: 249 Copynumber: 2.1 Consensus size: 248
75099 CGCTCTTAAA
* * * * *
75109 TCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTTGAGGGCCCATAATT
1 TCGAGAAGGGCTATCTACCAAAGACCCTCAAGTTAGATTACACTCAGCTTCGAGGGCACATAATT
* *
75174 TACAGCATAACTCAAGGCTAGAATGATTATATGTCACCAAAAGACCTTCAAGTTCGACTACGCTA
66 TACAGCATAACTCAAGGCTAAAAGGATTATATGTCACCAAAAGACCTTCAAGTTCGACTACGCTA
* *
75239 AGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAATGGTTATCTGCCAACTAAAGACC
131 AGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACTAAAGACC
* * * * * *
75304 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAG
195 TTCGAGTTCGACTACACTCAGCTCCAAGGCACACCATTTACAACATAACTCAAG
* *
75358 TCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTAGATTACACTCAGCTTCGAGGGCACATCATT
1 TCGAGAAGGGCTATCTACCAAAGACCCTCAAGTTAGATTACACTCAGCTTCGAGGGCACATAATT
* * * *
75423 TACAGCATAACTCAATGCTAAAAGGGTTATATGTCACC-AAAGACCTTCGAGTTCGACTACGCTC
66 TACAGCATAACTCAAGGCTAAAAGGATTATATGTCACCAAAAGACCTTCAAGTTCGACTACGCTA
* *
75487 AGCTCCAAGGCACATCTTTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG-C-C-AAAGACCC
131 AGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACTAAAGA-CC
* * * *
75549 TT-GAGTTCGATTACACTCAGCTTCGATGGCACGCCATTTACAACATAACTCAA-
195 TTCGAGTTCGACTACACTCAGC-TCCAAGGCACACCATTTACAACATAACTCAAG
* *
75602 TGCTAGAAGGGTTATCTA
1 T-CGAGAAGGGCTATCTA
75620 TCACCAAAGA
Statistics
Matches: 231, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
244 23 0.10
245 41 0.18
247 1 0.00
248 72 0.31
249 94 0.41
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (248 bp):
TCGAGAAGGGCTATCTACCAAAGACCCTCAAGTTAGATTACACTCAGCTTCGAGGGCACATAATT
TACAGCATAACTCAAGGCTAAAAGGATTATATGTCACCAAAAGACCTTCAAGTTCGACTACGCTA
AGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACTAAAGACCT
TCGAGTTCGACTACACTCAGCTCCAAGGCACACCATTTACAACATAACTCAAG
Found at i:75716 original size:248 final size:247
Alignment explanation
Indices: 75109--75726 Score: 602
Period size: 248 Copynumber: 2.5 Consensus size: 247
75099 CGCTCTTAAA
* * * * * ** * * *
75109 TCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTTGAGGGCCCATAATT
1 TCGAGAAGGGCTATCTACCAAAGACCCTCAAGTTAGACTACACTCAGCATCCAAGGCACATCATT
* * * * ** *
75174 TACAGCATAACTCAAGGCTAGAATGATTATATGTCACCAAAAGACCTTCAAGTTCGACTACGCTA
66 TACAGCATAACTCAATGCGAAAAGGGCTATATGCCACC-AAAGACCTTCAAGTTCGACTACGCTA
* *
75239 AGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAATGGTTATCTGCCAACTAAAGACC
130 AGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACTAAAGACC
* * * * * *
75304 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAG
194 TTCGAGTTCGACTACACTCAGCTCCAAGGCACACCATTTACAACATAACTCAAG
* * * * *
75358 TCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTAGATTACACTCAGCTTCGAGGGCACATCATT
1 TCGAGAAGGGCTATCTACCAAAGACCCTCAAGTTAGACTACACTCAGCATCCAAGGCACATCATT
* * * * *
75423 TACAGCATAACTCAATGCTAAAAGGGTTATATGTCACCAAAGACCTTCGAGTTCGACTACGCTCA
66 TACAGCATAACTCAATGCGAAAAGGGCTATATGCCACCAAAGACCTTCAAGTTCGACTACGCTAA
* *
75488 GCTCCAAGGCACATCTTTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG-C-C-AAAGACCCT
131 GCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACTAAAGA-CCT
* * * *
75550 T-GAGTTCGATTACACTCAGCTTCGATGGCACGCCATTTACAACATAACTCAA-
195 TCGAGTTCGACTACACTCAGC-TCCAAGGCACACCATTTACAACATAACTCAAG
* * * * * * *
75602 TGCTAGAAGGGTTATCTATCACCAAAGACCTTCGAGTTTGACTACGCTCAG-ATCCAATGCACAT
1 T-CGAGAAGGGCTATC--T-ACCAAAGACCCTCAAGTTAGACTACACTCAGCATCCAAGGCACAT
* * * * * * *
75666 CATTTGCAGCATAATTTAA-GTCGAGAAGGGCTATCTGCCAACCGAAGACCTTCAAGGTCGA
62 CATTTACAGCATAACTCAATG-CGAAAAGGGCTATATGCC-ACCAAAGACCTTCAAGTTCGA
75727 TTACACTCAA
Statistics
Matches: 313, Mismatches: 48, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
244 23 0.07
245 40 0.13
246 1 0.00
247 40 0.13
248 115 0.37
249 94 0.30
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (247 bp):
TCGAGAAGGGCTATCTACCAAAGACCCTCAAGTTAGACTACACTCAGCATCCAAGGCACATCATT
TACAGCATAACTCAATGCGAAAAGGGCTATATGCCACCAAAGACCTTCAAGTTCGACTACGCTAA
GCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACTAAAGACCTT
CGAGTTCGACTACACTCAGCTCCAAGGCACACCATTTACAACATAACTCAAG
Found at i:78219 original size:5 final size:5
Alignment explanation
Indices: 78209--78306 Score: 69
Period size: 5 Copynumber: 19.2 Consensus size: 5
78199 ATATTATTAT
* * *
78209 TTTTA TTTTA TTTTA TTGTA TTTTA TTTTA --TTA TTTTC TATTTC TTTT-
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA
* *
78257 TTTAA CTTTTG TTTATA TTTGTCA -TTTA TTTTA TTTTA TTTTA TTATTA
1 TTTTA -TTTTA TTT-TA TTT-T-A TTTTA TTTTA TTTTA TTTTA TT-TTA
78306 T
1 T
78307 ATTAATACAT
Statistics
Matches: 76, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
3 3 0.04
4 4 0.05
5 49 0.64
6 19 0.25
7 1 0.01
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:81437 original size:42 final size:42
Alignment explanation
Indices: 81390--81474 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
81380 AAAAGACTTT
81390 TATATTGTGTAAATTAAGCTTAACTCACGAATTATATATTGA
1 TATATTGTGTAAATTAAGCTTAACTCACGAATTATATATTGA
*
81432 TATATTGTGTAAATTAATCTTAACTCACGAATTATATATTGA
1 TATATTGTGTAAATTAAGCTTAACTCACGAATTATATATTGA
81474 T
1 T
81475 TGATAATTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (42 bp):
TATATTGTGTAAATTAAGCTTAACTCACGAATTATATATTGA
Found at i:82365 original size:20 final size:19
Alignment explanation
Indices: 82310--82375 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
82300 ATATGTCACT
*
82310 AAATTATAACTCTCATTTTA
1 AAATTATAATTCTCA-TTTA
82330 AATATTCA-AATT-TCATTTA
1 AA-ATT-ATAATTCTCATTTA
*
82349 GAAATTATAATTCTCATTTC
1 -AAATTATAATTCTCATTTA
82369 AAATTAT
1 AAATTAT
82376 TTCTTAAACT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
18 1 0.03
19 18 0.46
20 13 0.33
21 6 0.15
22 1 0.03
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.45
Consensus pattern (19 bp):
AAATTATAATTCTCATTTA
Found at i:87285 original size:13 final size:15
Alignment explanation
Indices: 87269--87305 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
87259 ATTAAGAGTT
87269 AAATTT-AA-TTAAA
1 AAATTTAAATTTAAA
87282 AAATTTAAATTTAAA
1 AAATTTAAATTTAAA
*
87297 AAATATAAA
1 AAATTTAAA
87306 GATATTGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.29
14 2 0.10
15 13 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATTTAAATTTAAA
Done.