Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009286.1 Hibiscus syriacus cultivar Beakdansim tig00112977_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: 116065
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:4283 original size:31 final size:31
Alignment explanation
Indices: 4247--4305 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
4237 AACTTAAAAG
*
4247 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
4278 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
4306 CCATACAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:8620 original size:17 final size:18
Alignment explanation
Indices: 8598--8632 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
8588 TGTGTAAAGT
8598 AGTATCGGTACCT-TTTG
1 AGTATCGGTACCTATTTG
8615 AGTATCGGTACCTATTTG
1 AGTATCGGTACCTATTTG
8633 GCATTATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (18 bp):
AGTATCGGTACCTATTTG
Found at i:11397 original size:29 final size:30
Alignment explanation
Indices: 11365--11432 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 30
11355 GAAACTCACT
*
11365 GCTACAACCAATACAAACCT-AAACAACCA
1 GCTACAACCAATACAAACCTCAAAAAACCA
*
11394 GCTACAACCAATACAAGCCTCAAAAAACCA
1 GCTACAACCAATACAAACCTCAAAAAACCA
*
11424 GCAACAACC
1 GCTACAACC
11433 TCCTAGGGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
29 19 0.54
30 16 0.46
ACGTcount: A:0.50, C:0.35, G:0.06, T:0.09
Consensus pattern (30 bp):
GCTACAACCAATACAAACCTCAAAAAACCA
Found at i:19157 original size:36 final size:36
Alignment explanation
Indices: 19110--19191 Score: 155
Period size: 36 Copynumber: 2.3 Consensus size: 36
19100 TATTGTTGAG
*
19110 CTCGACTCGACTCAAAAACTCTAAATTGAAGCTCGA
1 CTCGACTCGACTCAAAAACTCTAAATTGAAGCTAGA
19146 CTCGACTCGACTCAAAAACTCTAAATTGAAGCTAGA
1 CTCGACTCGACTCAAAAACTCTAAATTGAAGCTAGA
19182 CTCGACTCGA
1 CTCGACTCGA
19192 AAACTCACGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (36 bp):
CTCGACTCGACTCAAAAACTCTAAATTGAAGCTAGA
Found at i:20992 original size:13 final size:13
Alignment explanation
Indices: 20966--21015 Score: 68
Period size: 13 Copynumber: 3.8 Consensus size: 13
20956 TTCATTTGAT
20966 TATTATATTATTTA
1 TATTATA-TATTTA
20980 TATTATATATTTA
1 TATTATATATTTA
20993 TATTATATA-TTA
1 TATTATATATTTA
21005 TTATTAT-TATT
1 -TATTATATATT
21016 ATTAAAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.15
13 22 0.65
14 7 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTATATATTTA
Found at i:21029 original size:3 final size:3
Alignment explanation
Indices: 20964--21019 Score: 55
Period size: 3 Copynumber: 18.3 Consensus size: 3
20954 TCTTCATTTG
20964 ATT ATT A-T ATT ATT -TAT ATT ATAT ATT -TAT ATT ATAT ATT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT AT-T ATT AT-T ATT AT-T ATT ATT ATT
21010 ATT ATT ATT A
1 ATT ATT ATT A
21020 AAATATTATT
Statistics
Matches: 46, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
2 4 0.09
3 34 0.74
4 8 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:21671 original size:24 final size:24
Alignment explanation
Indices: 21639--21687 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
21629 TTTAGATCTA
21639 CGCTTTGGGGGTATTTTGTAAATT
1 CGCTTTGGGGGTATTTTGTAAATT
21663 CGCTTTGGGGGTATTTTGTAAATT
1 CGCTTTGGGGGTATTTTGTAAATT
21687 C
1 C
21688 CACCACCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.10, G:0.29, T:0.45
Consensus pattern (24 bp):
CGCTTTGGGGGTATTTTGTAAATT
Found at i:22387 original size:4 final size:4
Alignment explanation
Indices: 22380--22412 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
22370 TAATAAATAA
22380 TATT TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
22413 TGATCCTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:22593 original size:24 final size:23
Alignment explanation
Indices: 22537--22627 Score: 81
Period size: 22 Copynumber: 4.3 Consensus size: 23
22527 CATTTTCTGA
*
22537 TATTTTTAATAAA-TAAATATTT
1 TATTTTTAATAAATTAAATATAT
* *
22559 TACTTTT-ATAAATTATATATAT
1 TATTTTTAATAAATTAAATATAT
22581 TA-TTTT--TAAA-TAAATAT-T
1 TATTTTTAATAAATTAAATATAT
* *
22599 TACTTTT-ATAAATTATATATAT
1 TATTTTTAATAAATTAAATATAT
22621 TATTTTT
1 TATTTTT
22628 TAACGTTTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
18 3 0.05
19 10 0.17
20 8 0.14
21 15 0.26
22 22 0.38
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTTTTAATAAATTAAATATAT
Found at i:22612 original size:40 final size:41
Alignment explanation
Indices: 22546--22627 Score: 157
Period size: 40 Copynumber: 2.0 Consensus size: 41
22536 ATATTTTTAA
22546 TAAATAAATATTTTACTTTTATAAATTATATATATTATTTT
1 TAAATAAATATTTTACTTTTATAAATTATATATATTATTTT
22587 TAAATAAATA-TTTACTTTTATAAATTATATATATTATTTT
1 TAAATAAATATTTTACTTTTATAAATTATATATATTATTTT
22627 T
1 T
22628 TAACGTTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 31 0.76
41 10 0.24
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (41 bp):
TAAATAAATATTTTACTTTTATAAATTATATATATTATTTT
Found at i:22628 original size:41 final size:42
Alignment explanation
Indices: 22537--22630 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 42
22527 CATTTTCTGA
22537 TATTTTTAATAAATAAATATTTTACTTTTATAAATTATATATAT
1 TATTTTT--TAAATAAATATTTTACTTTTATAAATTATATATAT
22581 TA-TTTTTAAATAAATA-TTTACTTTTATAAATTATATATAT
1 TATTTTTTAAATAAATATTTTACTTTTATAAATTATATATAT
22621 TATTTTTTAA
1 TATTTTTTAA
22631 CGTTTTATTA
Statistics
Matches: 49, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
40 26 0.53
41 17 0.35
43 4 0.08
44 2 0.04
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (42 bp):
TATTTTTTAAATAAATATTTTACTTTTATAAATTATATATAT
Found at i:22629 original size:29 final size:28
Alignment explanation
Indices: 22597--22658 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 28
22587 TAAATAAATA
22597 TTTAC-TTTTATAAATTATATATATTATTT
1 TTTACGTTTTATAAA-TATATAT-TTATTT
* *
22626 TTTAACGTTTTATTAATATTTATTTATTT
1 TTT-ACGTTTTATAAATATATATTTATTT
22655 TTTA
1 TTTA
22659 ATATTAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
28 1 0.03
29 12 0.41
30 8 0.28
31 8 0.28
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTACGTTTTATAAATATATATTTATTT
Found at i:25285 original size:7 final size:7
Alignment explanation
Indices: 25269--25310 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
25259 TTTTCATACA
25269 TGCA-TT
1 TGCATTT
25275 TGCATTT
1 TGCATTT
25282 TGCATCTT
1 TGCAT-TT
25290 TGCATTT
1 TGCATTT
*
25297 TTCATTT
1 TGCATTT
25304 TGCATTT
1 TGCATTT
25311 ATACTTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
6 4 0.12
7 21 0.66
8 7 0.22
ACGTcount: A:0.14, C:0.17, G:0.12, T:0.57
Consensus pattern (7 bp):
TGCATTT
Found at i:25293 original size:15 final size:14
Alignment explanation
Indices: 25269--25310 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
25259 TTTTCATACA
25269 TGCA-TTTGCATTT
1 TGCATTTTGCATTT
25282 TGCATCTTTGCATTT
1 TGCAT-TTTGCATTT
*
25297 TTCATTTTGCATTT
1 TGCATTTTGCATTT
25311 ATACTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 4 0.15
14 9 0.35
15 13 0.50
ACGTcount: A:0.14, C:0.17, G:0.12, T:0.57
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:25421 original size:20 final size:20
Alignment explanation
Indices: 25388--25426 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25378 TGCATTTTTT
* *
25388 CATTTTTATGTTTGTATTTA
1 CATTTTCATGTTTGCATTTA
*
25408 CATTTTCATTTTTGCATTT
1 CATTTTCATGTTTGCATTT
25427 GCATCTTGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.64
Consensus pattern (20 bp):
CATTTTCATGTTTGCATTTA
Found at i:26530 original size:91 final size:91
Alignment explanation
Indices: 26411--26594 Score: 305
Period size: 91 Copynumber: 2.0 Consensus size: 91
26401 TTCTCTGATG
* * * * *
26411 CTAAAAAATAAGAAAGAAATAAAAGGAGAGGTAATTTGATATTGGTCCATATGTTTAAAAATGAA
1 CTAAAAAATAAGAAAGAAATAAAAGGAGAGGTAATTCGAGACTGGCCCATAGGTTTAAAAATGAA
26476 TGGGAAAGATGTAACCCTGAAGAAAC
66 TGGGAAAGATGTAACCCTGAAGAAAC
*
26502 CTAAAAAATGAGAAAGAAATAAAAGGAGAGGTAATTCGAGACTGGCCCATAGGTTTAAAAATGAA
1 CTAAAAAATAAGAAAGAAATAAAAGGAGAGGTAATTCGAGACTGGCCCATAGGTTTAAAAATGAA
*
26567 TGGGAAAGATGTAACCTTGAAGAAAC
66 TGGGAAAGATGTAACCCTGAAGAAAC
26593 CT
1 CT
26595 CAAACACCTG
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.21
Consensus pattern (91 bp):
CTAAAAAATAAGAAAGAAATAAAAGGAGAGGTAATTCGAGACTGGCCCATAGGTTTAAAAATGAA
TGGGAAAGATGTAACCCTGAAGAAAC
Found at i:28246 original size:7 final size:7
Alignment explanation
Indices: 28234--28291 Score: 55
Period size: 7 Copynumber: 7.7 Consensus size: 7
28224 ATACTTGAAA
28234 AAAAAAG
1 AAAAAAG
28241 AAAAAAAGG
1 -AAAAAA-G
*
28250 AAAAAGG
1 AAAAAAG
28257 AAAAAAG
1 AAAAAAG
28264 AAAAAAAAG
1 --AAAAAAG
28273 AAAAAA-
1 AAAAAAG
28279 AGAAAAAG
1 A-AAAAAG
28287 AAAAA
1 AAAAA
28292 TTGAACCAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
6 1 0.02
7 22 0.51
8 12 0.28
9 8 0.19
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:28246 original size:8 final size:8
Alignment explanation
Indices: 28233--28285 Score: 72
Period size: 8 Copynumber: 6.6 Consensus size: 8
28223 TATACTTGAA
28233 AAAAAAAG
1 AAAAAAAG
28241 AAAAAAAG
1 AAAAAAAG
*
28249 -GAAAAAG
1 AAAAAAAG
*
28256 GAAAAAAG
1 AAAAAAAG
28264 AAAAAAAAG
1 -AAAAAAAG
28273 AAAAAAAG
1 AAAAAAAG
28281 AAAAA
1 AAAAA
28286 GAAAAATTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
7 6 0.15
8 27 0.68
9 7 0.17
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:28264 original size:23 final size:22
Alignment explanation
Indices: 28231--28291 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 22
28221 ATTATACTTG
*
28231 AAAAAAAAAGAAAAAAAGGAAA
1 AAAAAAAAAGAAAAAAAAGAAA
*
28253 AAGGAAAAAAGAAAAAAAAGAAA
1 AA-AAAAAAAGAAAAAAAAGAAA
28276 AAAAGAAAAAGAAAAA
1 AAAA-AAAAAGAAAAA
28292 TTGAACCAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.09
23 31 0.91
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAGAAAAAAAAGAAA
Found at i:32480 original size:54 final size:54
Alignment explanation
Indices: 32414--32516 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
32404 CTGACCAAAT
* * *
32414 ATCTGAGAAGAAGCCACATGAGATGATGAATGTGTTGTCAAATGTTTTACAAGC
1 ATCTGAGAAGAAGCCACAAGAAATAATGAATGTGTTGTCAAATGTTTTACAAGC
* *
32468 ATCTGAGCAGAAGCCACAAGAAATAATGAATGTGTTGTCAAGTGTTTTA
1 ATCTGAGAAGAAGCCACAAGAAATAATGAATGTGTTGTCAAATGTTTTA
32517 AGAACCAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (54 bp):
ATCTGAGAAGAAGCCACAAGAAATAATGAATGTGTTGTCAAATGTTTTACAAGC
Found at i:33483 original size:113 final size:113
Alignment explanation
Indices: 33281--33962 Score: 787
Period size: 113 Copynumber: 5.9 Consensus size: 113
33271 CAAAGATTCA
* * * * * *
33281 AATCCATCGCTTGATAGATCAACATTGCCAGATAGAGTTCATAATAAGAAGAACTCATCTGAAGA
1 AATCCATCACTTGATGGATCAACATTTCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * *
33346 AGGAAGAGGAAGTTCATAATGAGAAGAACTTGTTCAACATTTCGCTCG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCG
* *
33394 AATCCATCACTTGATGGATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCGTCTGAAGA
1 AATCCATCACTTGATGGATCAACATTTCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * * * **
33459 ATGAAGAATAAGTTCATAACGAGAAGAACTTGTTTAACCTTTTGCTTT
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCG
* * * * *
33507 AATTCATCACTCGATGGATTAGCATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCACTTGATGGATCAACATTTCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
33572 AGGGAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCG
* * *
33620 AATTCATCACTTGATGGATCAACTTTTCCAGATAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCACTTGATGGATCAACATTTCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * *
33685 AGGAATAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGCAT-G
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC-TCG
* * * * * *
33733 ACTCTATCACAGAAAGAGATAGATTAGTATCAACTTTTCTAGAG-AAAGTTCATAATGAGAAGAA
1 AATCCATCAC---------TTGA-T-GGATCAACATTTCCAG-GTAAAGTTCATAATGAGAAGAA
* * * *
33797 CTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGTTTG
54 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCG
* * ** * * *
33857 AATTCATTACTCAATGGATCAACTTTTCCAGAG-AAAGTTCGTAATGAGAAGAACTTATCTGAAG
1 AATCCATCACTTGATGGATCAACATTTCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAG
33921 -AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
65 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
33963 GTTTGATTCT
Statistics
Matches: 489, Mismatches: 66, Indels: 29
0.84 0.11 0.05
Matches are distributed among these distances:
112 40 0.08
113 348 0.71
114 2 0.00
115 2 0.00
122 3 0.01
123 2 0.00
124 92 0.19
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
AATCCATCACTTGATGGATCAACATTTCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCG
Found at i:33876 original size:237 final size:233
Alignment explanation
Indices: 33295--34053 Score: 914
Period size: 226 Copynumber: 3.3 Consensus size: 233
33285 CATCGCTTGA
* * * * *
33295 TAGATCAACATTGCCAGATAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTT
1 TAGATCAAC-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
* * * *
33360 CATAATGAGAAGAACTTGTTCAACATTTCGCTCGAATCCATCACTTGATGGATCAACATTTCCAG
65 CATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTGATGGATCAACTTTTCCAG
* * * * * *
33425 GTAGAGTTCATAATGAGAAGAACTCGTCTGAAGAATGAAGAATAAGTTCATAACGAGAAGAACTT
130 ATAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
* * ** *
33490 GTTTAACCTTTTGCTTTAAT-TCATCAC---TCGATGGAT
195 GTTCAACCTTTTGCTTGAATCT-ATCACAAAGAGATAGAT
* *
33526 TAG--C-A-TTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGGAGAAGAAGTT
1 TAGATCAACTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
*
33586 CATAATGAGAAGAATTTGTTCAACCTTTTGCTCGAATTCATCACTTGATGGATCAACTTTTCCAG
65 CATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTGATGGATCAACTTTTCCAG
* *
33651 ATAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTCATAATGAGAAGAGCTT
130 ATAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
* * *
33716 ATTCAACCTTTTGCATGACTCTATCACAGAAAGAGATAGAT
195 GTTCAACCTTTTGCTTGAATCTATCAC--AAAGAGATAGAT
* *
33757 TAGTATCAACTTTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGT
1 TAG-ATCAAC-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * * * **
33822 TCATAATGAGAAGAACTTGTTTAACCTTTTGTTTGAATTCATTACTCAATGGATCAACTTTTCCA
64 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTGATGGATCAACTTTTCCA
* * *
33887 GAGAAAGTTCGTAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACT
129 GATAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
* *
33951 TGTTCAACC-TTTGTTTGATTCTATCACATAAGGAGATAGAT
194 TGTTCAACCTTTTGCTTGAATCTATCACA-AA-GAGATAGAT
* * * *
33992 CAGAATCAACATTTCCAGA-AGGAGTTCATAATGAGAAGAATTCATCTGAAAAAGG-AGAAGAA
1 TAG-ATCAAC-TTTCCAGAGA-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
34054 TTTGTTCAAC
Statistics
Matches: 457, Mismatches: 54, Indels: 31
0.84 0.10 0.06
Matches are distributed among these distances:
226 186 0.41
227 1 0.00
228 1 0.00
229 1 0.00
231 12 0.03
233 1 0.00
234 11 0.02
235 70 0.15
236 36 0.08
237 137 0.30
238 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (233 bp):
TAGATCAACTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
ATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTGATGGATCAACTTTTCCAGA
TAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
TTCAACCTTTTGCTTGAATCTATCACAAAGAGATAGAT
Found at i:34356 original size:3 final size:3
Alignment explanation
Indices: 34289--34343 Score: 69
Period size: 3 Copynumber: 18.3 Consensus size: 3
34279 TTTTCATTTG
*
34289 ATT ATT A-T ATT ATT -TAT ATT ATAT ATT ATT ATT ATT GTT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT AT-T ATT ATT ATT ATT ATT ATT ATT
34334 ATT ATT ATT A
1 ATT ATT ATT A
34344 ATAAAATATT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 3 0.07
3 39 0.85
4 4 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:35860 original size:22 final size:21
Alignment explanation
Indices: 35822--35909 Score: 83
Period size: 22 Copynumber: 4.2 Consensus size: 21
35812 TTTCTGATAT
*
35822 TTTTAATAAATAAATATTTTAC
1 TTTT-ATAAATAAATATATTAC
*
35844 TTTTATAAATTATATATATTA-
1 TTTTATAAA-TAAATATATTAC
*
35865 -TTT-TAAATAAATATTTTAC
1 TTTTATAAATAAATATATTAC
* *
35884 TTTTATAAATTATATATATTAT
1 TTTTATAAA-TAAATATATTAC
35906 TTTT
1 TTTT
35910 TTAACGTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
18 9 0.17
19 4 0.07
20 6 0.11
21 9 0.17
22 26 0.48
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTATAAATAAATATATTAC
Found at i:35874 original size:40 final size:40
Alignment explanation
Indices: 35828--35908 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
35818 ATATTTTTAA
35828 TAAATAAATATTTTACTTTTATAAATTATATATATTATTT
1 TAAATAAATATTTTACTTTTATAAATTATATATATTATTT
35868 TAAATAAATATTTTACTTTTATAAATTATATATATTATTT
1 TAAATAAATATTTTACTTTTATAAATTATATATATTATTT
35908 T
1 T
35909 TTTAACGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (40 bp):
TAAATAAATATTTTACTTTTATAAATTATATATATTATTT
Found at i:35910 original size:29 final size:29
Alignment explanation
Indices: 35878--35940 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
35868 TAAATAAATA
35878 TTTTAC-TTTTATAAATTATATATATTATTT
1 TTTTACGTTTTATAAA-TATATAT-TTATTT
* *
35908 TTTTAACGTTTTATTAATATTTATTTATTT
1 TTTT-ACGTTTTATAAATATATATTTATTT
35938 TTT
1 TTT
35941 AATATTAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 13 0.45
31 8 0.28
32 8 0.28
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (29 bp):
TTTTACGTTTTATAAATATATATTTATTT
Found at i:38155 original size:3 final size:3
Alignment explanation
Indices: 38147--38173 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
38137 ATTTTTGTCA
38147 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
38174 GAACACCTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:43485 original size:3 final size:3
Alignment explanation
Indices: 43472--43575 Score: 163
Period size: 3 Copynumber: 34.3 Consensus size: 3
43462 TTTTACCCAC
* *
43472 ATT ACT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
43520 ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
43568 ATAT ATT A
1 AT-T ATT A
43576 AATATATATA
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
3 89 0.97
4 3 0.03
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:44150 original size:16 final size:15
Alignment explanation
Indices: 44120--44155 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
44110 CAATCATAGC
*
44120 AAAGAAACAGAAGAG
1 AAAGAAAAAGAAGAG
44135 AAAGAAAAAGGAAGAG
1 AAAGAAAAA-GAAGAG
44151 AAAGA
1 AAAGA
44156 CTTACCGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.69, C:0.03, G:0.28, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAGAG
Found at i:45010 original size:19 final size:20
Alignment explanation
Indices: 44972--45013 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
44962 ATTTTTATTT
**
44972 TATTTTATTATATTGTTAAA
1 TATTTTATTATATTCATAAA
44992 TATTTTA-TATATTCATAAA
1 TATTTTATTATATTCATAAA
45011 TAT
1 TAT
45014 ATATATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TATTTTATTATATTCATAAA
Found at i:46330 original size:16 final size:17
Alignment explanation
Indices: 46309--46346 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
46299 TATGTAAATG
* *
46309 TTATTAT-TAAATTTCT
1 TTATTATGTAAACTACT
46325 TTATTATGTAAACTACT
1 TTATTATGTAAACTACT
46342 TTATT
1 TTATT
46347 TTCTTTTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (17 bp):
TTATTATGTAAACTACT
Found at i:56686 original size:16 final size:16
Alignment explanation
Indices: 56660--56704 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
56650 TTTGAATACA
*
56660 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
56677 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
56692 ATTCAATTTATTT
1 ATTCAATTTATTT
56705 TTGGAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:58100 original size:84 final size:84
Alignment explanation
Indices: 57449--58090 Score: 1150
Period size: 84 Copynumber: 7.7 Consensus size: 84
57439 TGGAACAAAT
57449 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
1 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
57514 AATCATTGAATTTGGAAGA
66 AATCATTGAATTTGGAAGA
*
57533 ATAATGTGCTCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
1 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
57598 AATCATTGAATTTGGAAG-
66 AATCATTGAATTTGGAAGA
* * *
57616 ATGAATATGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACCGAAC
1 AT-AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
57681 CAATCATTGAATTTGGAAGA
65 CAATCATTGAATTTGGAAGA
57701 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
1 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
57766 AATCATTGAATTTGGAAGA
66 AATCATTGAATTTGGAAGA
*
57785 ATAATGTGCTCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
1 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
57850 AATCATTGAATTTGGAAG-
66 AATCATTGAATTTGGAAGA
* *
57868 ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACATAAC
1 AT-AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
57933 CAATCATTGAATTTGGAAGA
65 CAATCATTGAATTTGGAAGA
57953 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAGAAC
1 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAAC
58017 CAATCATTGAATTTGGAAG-
65 CAATCATTGAATTTGGAAGA
58036 ATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 AT-AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
58091 TGGTAAGAAC
Statistics
Matches: 538, Mismatches: 14, Indels: 14
0.95 0.02 0.02
Matches are distributed among these distances:
82 2 0.00
83 47 0.09
84 482 0.90
85 7 0.01
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (84 bp):
ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
AATCATTGAATTTGGAAGA
Found at i:59084 original size:116 final size:113
Alignment explanation
Indices: 58742--59384 Score: 850
Period size: 114 Copynumber: 5.6 Consensus size: 113
58732 ATTCAAATAT
** * *
58742 ATCATTTGATGGATTGACATTTCAAGAGAAGGTTCATAATGAGAAGAACTCATTTGAAGAAGGAA
1 ATCATTTGATGGATCAACATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
58807 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTC
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTTTCTGAATTC
* * * *
58855 ATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATC-ATTTGATGGATCAACATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
58920 AGAAGAAG-TCATAATGAGAAGAACTTGTTCAATCTTTTGTT-TGAATTC
65 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTT-TTCTGAATTC
* *
58968 ATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATCATTTGATGGATCAACATTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* *
59032 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTC
62 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTTTCTGAATTC
* * * *
59084 ATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATC-ATTTGATGGATCAACATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
59149 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAATC-TTTTGCTTGAATTC
65 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTTTC-TGAATTC
* *
59198 ATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATCATTTGATGGATCAACATTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* *
59262 TGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATC-TTTTGCTTGAATTC
62 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTTTC-TGAATTC
* ** * * *
59314 ATCATTTGATGGATCATCATCCCCAGCAGAAAGTTCATAATGAAAAGAACTCATCTGAAGAAAG-
1 ATCATTTGATGGATCAACATTTCCAG-AGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
59378 AGAAGAA
65 AGAAGAA
59385 TTTATTCAAT
Statistics
Matches: 474, Mismatches: 39, Indels: 34
0.87 0.07 0.06
Matches are distributed among these distances:
111 3 0.01
112 38 0.08
113 88 0.19
114 137 0.29
115 28 0.06
116 124 0.26
117 51 0.11
118 5 0.01
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (113 bp):
ATCATTTGATGGATCAACATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTTTCTGAATTC
Found at i:59140 original size:229 final size:230
Alignment explanation
Indices: 58742--59384 Score: 1032
Period size: 230 Copynumber: 2.8 Consensus size: 230
58732 ATTCAAATAT
** * * * *
58742 ATCATTTGATGGATTGACATTTCAAGAGAAG-GTTCATAATGAGAAGAA--C-TCATTTGAAGAA
1 ATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
58803 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTCATCAAATTGATGG
65 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTCATCAAATTGATGG
58868 ATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG-TCAT
130 ATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
*
58932 AATGAGAAGAACTTGTTCAATCTTTTGTTTGAATTC
195 AATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTC
58968 ATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
1 ATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
59033 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTCATCAAATTGATGGA
66 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTCATCAAATTGATGGA
59098 TTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
131 TTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
59163 ATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTC
196 ATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTC
*
59198 ATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAT
1 ATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
* * * *
59263 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATC-TTTTGCTTGAATTCATC-ATTTGATGG
66 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTTC-TGAATTCATCAAATTGATGG
* * ** * * *
59326 ATCATCATCCCCAGCAGAAAGTTCATAATGAAAAGAACTCATCTGAAGAAAG-AGAAGAA
130 ATTATCTTTTCCAG-AGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
59385 TTTATTCAAT
Statistics
Matches: 391, Mismatches: 19, Indels: 11
0.93 0.05 0.03
Matches are distributed among these distances:
225 3 0.01
226 39 0.10
228 1 0.00
229 166 0.42
230 182 0.47
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (230 bp):
ATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTCATCAAATTGATGGA
TTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTC
Found at i:59534 original size:3 final size:3
Alignment explanation
Indices: 59521--59614 Score: 161
Period size: 3 Copynumber: 31.3 Consensus size: 3
59511 TTTTACCCAC
* *
59521 ATT ACT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
59569 ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
59615 AATATATATT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:59626 original size:11 final size:11
Alignment explanation
Indices: 59610--59641 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
59600 TTATTATTAT
59610 TATTAAATATA
1 TATTAAATATA
59621 TATTAAATATA
1 TATTAAATATA
59632 TATATAAATA
1 TAT-TAAATA
59642 ATTAATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATTAAATATA
Found at i:60203 original size:16 final size:15
Alignment explanation
Indices: 60173--60208 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
60163 AATCAGTAGC
*
60173 AAAGAAACAGAAGAG
1 AAAGAAAAAGAAGAG
60188 AAAGAAAAAGGAAGAG
1 AAAGAAAAA-GAAGAG
60204 AAAGA
1 AAAGA
60209 CTTACCGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.69, C:0.03, G:0.28, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAGAG
Found at i:61065 original size:20 final size:21
Alignment explanation
Indices: 61028--61068 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
61018 TTTATTTTTA
**
61028 TTTTATTATATTGTTAAATAT
1 TTTTATTATATTCATAAATAT
61049 TTTTA-TATATTCATAAATAT
1 TTTTATTATATTCATAAATAT
61069 ATATATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATTATATTCATAAATAT
Found at i:64320 original size:16 final size:17
Alignment explanation
Indices: 64299--64331 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
64289 ACACACTAAA
64299 TCGGTT-TCGGTTTTTT
1 TCGGTTATCGGTTTTTT
64315 TCGGTTATCGGTTTTTT
1 TCGGTTATCGGTTTTTT
64332 GGATTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.12, G:0.24, T:0.61
Consensus pattern (17 bp):
TCGGTTATCGGTTTTTT
Found at i:64535 original size:46 final size:46
Alignment explanation
Indices: 64468--64560 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
64458 TAAAAAAGGG
64468 ATAACTATCCTCCACCTTATTATTTCCTCTCTATTAGAATACATTA
1 ATAACTATCCTCCACCTTATTATTTCCTCTCTATTAGAATACATTA
64514 ATAACTATCCTCCACCTTATTATTTCCTCTCTATTAGAATACATTA
1 ATAACTATCCTCCACCTTATTATTTCCTCTCTATTAGAATACATTA
64560 A
1 A
64561 CTGTAATTAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.31, C:0.26, G:0.02, T:0.41
Consensus pattern (46 bp):
ATAACTATCCTCCACCTTATTATTTCCTCTCTATTAGAATACATTA
Found at i:70007 original size:37 final size:37
Alignment explanation
Indices: 69922--70018 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
69912 CCTTTTCGTC
*
69922 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * *
69959 TTAATAGGATTTAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* *
69996 CTACTATGATTTAAATTCCTAAA
1 CTACTAGGATTTAAACTCCTAAA
70019 GATATGATCC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:70600 original size:24 final size:24
Alignment explanation
Indices: 70573--70673 Score: 86
Period size: 24 Copynumber: 4.3 Consensus size: 24
70563 CTTTGCATTT
70573 TTATTATTACTATTATATTTATTA
1 TTATTATTACTATTATATTTATTA
* **
70597 TTATTTTTACTATTATATTT-TCC
1 TTATTATTACTATTATATTTATTA
*
70620 TT-TTATT-CTACT-TATTTATTA
1 TTATTATTACTATTATATTTATTA
* *
70641 TATATGTA-TATTTTTATATTTTATTA
1 T-TAT-TATTACTATTATA-TTTATTA
70667 TTATTAT
1 TTATTAT
70674 ATTTTTATTT
Statistics
Matches: 59, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
20 5 0.08
21 6 0.10
22 5 0.08
23 5 0.08
24 25 0.42
25 5 0.08
26 8 0.14
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (24 bp):
TTATTATTACTATTATATTTATTA
Found at i:70679 original size:24 final size:26
Alignment explanation
Indices: 70634--70681 Score: 82
Period size: 24 Copynumber: 1.9 Consensus size: 26
70624 ATTCTACTTA
70634 TTTATTATATATGTATATTTTTATAT
1 TTTATTATATATGTATATTTTTATAT
70660 TTTATTAT-TAT-TATATTTTTAT
1 TTTATTATATATGTATATTTTTAT
70682 TTTCTCTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 11 0.50
25 3 0.14
26 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (26 bp):
TTTATTATATATGTATATTTTTATAT
Found at i:70704 original size:12 final size:11
Alignment explanation
Indices: 70696--70735 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
70686 TCTTTCTTTT
70696 TATTATTCTTG
1 TATTATTCTTG
70707 TATTATTACTTG
1 TATTATT-CTTG
* *
70719 TATTATTTTTA
1 TATTATTCTTG
70730 TATTAT
1 TATTAT
70736 ATATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:71129 original size:2 final size:2
Alignment explanation
Indices: 71122--71146 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
71112 GTATTGTTAC
71122 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
71147 TGTAATTATC
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:71358 original size:15 final size:15
Alignment explanation
Indices: 71294--71361 Score: 56
Period size: 14 Copynumber: 4.7 Consensus size: 15
71284 TTTATTTGTT
71294 TTATTTATTTTTTT-
1 TTATTTATTTTTTTA
*
71308 TT-TCTT-TTTCTTTA
1 TTAT-TTATTTTTTTA
* *
71322 TTATATA-TATTTTA
1 TTATTTATTTTTTTA
71336 TTATTTATTTTTTTA
1 TTATTTATTTTTTTA
71351 CTTA-TTATTTT
1 -TTATTTATTTT
71362 ATCTTTGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
13 7 0.17
14 18 0.43
15 14 0.33
16 3 0.07
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTATTTTTTTA
Found at i:71371 original size:77 final size:80
Alignment explanation
Indices: 71230--71381 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 80
71220 TATATATTTA
*
71230 CTTTTTATTTATTATATATATATATATTATTCGTACTTTGTTATTATTATTTTGTTTATTTGTTT
1 CTTTTTATTTATTATATATATATATATTATTC-TACTTTGTTATTATTATTTTGTATATTTGTTT
71295 TATTTATTTTTTTTTT
65 TATTTATTTTTTTTTT
* * * * *
71311 CTTTTTCTTTATTATATATAT-TTTATTATT-TATTTTTTTACTTATTA-TTT-TATCTTTGTTT
1 CTTTTTATTTATTATATATATATATATTATTCTACTTTGTTA-TTATTATTTTGTATATTTGTTT
*
71372 TCTTTATTTT
65 TATTTATTTT
71382 ATCATTTTAC
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
77 18 0.29
78 11 0.17
79 6 0.10
80 8 0.13
81 20 0.32
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (80 bp):
CTTTTTATTTATTATATATATATATATTATTCTACTTTGTTATTATTATTTTGTATATTTGTTTT
ATTTATTTTTTTTTT
Found at i:71377 original size:27 final size:30
Alignment explanation
Indices: 71313--71407 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 30
71303 TTTTTTTTCT
*
71313 TTTTCTTTATTATATATATTTTATTATTTA
1 TTTTCTTTACTATATATATTTTATTATTTA
* *
71343 TTTT-TTTACT-TAT-TATTTTA-TCTTTG
1 TTTTCTTTACTATATATATTTTATTATTTA
* *
71369 TTTTCTTTA-T-TTTATCATTTTACTTAATTTG
1 TTTTCTTTACTATATAT-ATTTTA-TT-ATTTA
71400 TTTTCTTT
1 TTTTCTTT
71408 TCATTTTAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
26 11 0.20
27 12 0.22
28 9 0.17
29 5 0.09
30 5 0.09
31 12 0.22
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (30 bp):
TTTTCTTTACTATATATATTTTATTATTTA
Found at i:72131 original size:20 final size:20
Alignment explanation
Indices: 72106--72171 Score: 123
Period size: 20 Copynumber: 3.3 Consensus size: 20
72096 CTAAGGGTCT
72106 GGCAAGCCCAAGGGGGCACC
1 GGCAAGCCCAAGGGGGCACC
72126 GGCAAGCCCAAGGGGGCACC
1 GGCAAGCCCAAGGGGGCACC
*
72146 GGCAAGCCCAAGGGAGCACC
1 GGCAAGCCCAAGGGGGCACC
72166 GGCAAG
1 GGCAAG
72172 GAGAACTCGG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.27, C:0.33, G:0.39, T:0.00
Consensus pattern (20 bp):
GGCAAGCCCAAGGGGGCACC
Found at i:75641 original size:20 final size:19
Alignment explanation
Indices: 75616--75680 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
75606 AAAAAGGACA
75616 AAAAAAAAGAAGCAAAAAAG
1 AAAAAAAA-AAGCAAAAAAG
75636 AAAAAAAGAAAAG-AAAAAAG
1 -AAAAAA-AAAAGCAAAAAAG
*
75656 AAAGAACAAAAATC-AAAAAG
1 AAA-AA-AAAAAGCAAAAAAG
75676 AAAAA
1 AAAAA
75681 GGGACAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
19 5 0.13
20 22 0.56
21 10 0.26
22 2 0.05
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAAGCAAAAAAG
Found at i:75642 original size:24 final size:23
Alignment explanation
Indices: 75606--75680 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 23
75596 CAATCAGAAC
* * *
75606 AAAAAGGACAAAAAAAAAGAAGCA
1 AAAAAGAAAAAAAAAAAAGAA-AA
*
75630 AAAAAGAAAAAAAGAAAAGAAAA
1 AAAAAGAAAAAAAAAAAAGAAAA
75653 AAGAAAGAACAAAAATCAAAAAGAAAA
1 AA-AAAGAA-AAAAA--AAAAAGAAAA
75680 A
1 A
75681 GGGACAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
23 3 0.07
24 24 0.57
25 5 0.12
27 10 0.24
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.01
Consensus pattern (23 bp):
AAAAAGAAAAAAAAAAAAGAAAA
Found at i:75659 original size:11 final size:11
Alignment explanation
Indices: 75618--75666 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
75608 AAAGGACAAA
75618 AAAAAAG-AAG
1 AAAAAAGAAAG
75628 CAAAAAAGAAA-
1 -AAAAAAGAAAG
*
75639 AAAAGA-AAAG
1 AAAAAAGAAAG
75649 AAAAAAGAAAG
1 AAAAAAGAAAG
75660 AACAAAA
1 AA-AAAA
75667 ATCAAAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
9 3 0.09
10 10 0.31
11 13 0.41
12 6 0.19
ACGTcount: A:0.82, C:0.04, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:75679 original size:13 final size:12
Alignment explanation
Indices: 75615--75680 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 12
75605 CAAAAAGGAC
75615 AAAAAAAAAG-A
1 AAAAAAAAAGAA
**
75626 AGCAAAAAAGAA
1 AAAAAAAAAGAA
75638 AAAAAGAAAAGAA
1 AAAAA-AAAAGAA
*
75651 AAAAGAAAGAACAA
1 AAAA-AAA-AAGAA
*
75665 AAATCAAAAAGAA
1 AAA-AAAAAAGAA
75678 AAA
1 AAA
75681 GGGACAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 8 0.19
12 4 0.09
13 20 0.47
14 11 0.26
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:76310 original size:22 final size:22
Alignment explanation
Indices: 76282--76337 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
76272 AGCTACCCCA
*
76282 TCAAACCTTTGAGCATCAAGTG
1 TCAAACCTTTGAGCATCAAATG
*
76304 TCAAACCTTTTAGCATCAAATG
1 TCAAACCTTTGAGCATCAAATG
76326 TCAAACCTTTGA
1 TCAAACCTTTGA
76338 CCAAACATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.30
Consensus pattern (22 bp):
TCAAACCTTTGAGCATCAAATG
Found at i:77354 original size:106 final size:105
Alignment explanation
Indices: 77147--77673 Score: 604
Period size: 106 Copynumber: 5.0 Consensus size: 105
77137 ATATCGTGCC
* * * * * * *
77147 ACTCAAGAAAACACAAGTTCAACTTCACAACGAATGGACGGCTGGTTGTCAACAACAATTTTCCA
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAATTTCCCA
* * *
77212 ATTTCGGAGCCAATTTCAACTTCACAACGAATGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
77252 ACTCCATACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAACAATTTCCC
*
77317 AATTTCAGAGCCAATTTAAACTTCACAGCGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
77358 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAACAATTTCCC
* * * *
77423 AATTTTAGAGTCAATTTCAACTTCACATCGAAGGATATTGA
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
77464 ACTCAAGGCAACACAAGCTCAACTTCACGACGAAAAGG--CGACTGATTGTCAACAA-AATTT--
1 ACTCCAGACAACACAAGTTCAACTTCACGACG-AAGGGACCG-CTGGTTGTCAAAAACAATTTCC
* *
77524 C-A-TTCAGAGTCAATTTCAACTTCACATCGAAGGATATTGG
64 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
77564 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGTCTGGTTGTCAACAAACAATTTCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAA-AAACAATTTCC
** * * *
77628 CGGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTAG
64 CAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
77670 ACTC
1 ACTC
77674 AGAACAATGC
Statistics
Matches: 363, Mismatches: 48, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
99 4 0.01
100 76 0.21
101 3 0.01
102 6 0.02
104 5 0.01
105 48 0.13
106 217 0.60
107 4 0.01
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (105 bp):
ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAATTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:77575 original size:206 final size:208
Alignment explanation
Indices: 77147--77667 Score: 617
Period size: 206 Copynumber: 2.5 Consensus size: 208
77137 ATATCGTGCC
* * * * *
77147 ACTCAAGAAAACACAAGTTCAACTTCACAACGAATGGACGGCTGGTTGTCAAC-AACAATTTTCC
1 ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTCT-C
* * * * * * *
77211 AATTTCGGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCATACAACGCAAGTTCAACT
65 AATTTCAGAGCCAATTTCAACTTCAC-ACGAAGGATATTGAACTCAAGACAACACAAGCTCAACT
* * *
77276 TCATGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTAAACTTC
129 TCACGACGAAAGGA-CGCTGATTGTCAATAAACAATTT-CCAATTTCAGAGCCAATTTAAACTTC
77341 ACAGCGAAGGATATTGG
192 ACAGCGAAGGATATTGG
* *
77358 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAA-TTCTC
* * *
77423 AATTTTAGAGTCAATTTCAACTTCACATCGAAGGATATTGAACTCAAGGCAACACAAGCTCAACT
65 AATTTCAGAGCCAATTTCAACTTCACA-CGAAGGATATTGAACTCAAGACAACACAAGCTCAACT
* * *
77488 TCACGACGAAAAGG-CGACTGATTGTCAA-CAA-AATTT-C-A-TTCAGAGTCAATTTCAACTTC
129 TCACGACG-AAAGGACG-CTGATTGTCAATAAACAATTTCCAATTTCAGAGCCAATTTAAACTTC
*
77547 ACATCGAAGGATATTGG
192 ACAGCGAAGGATATTGG
* *
77564 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGTCTGGTTGTCAACAAACAATTTCC
1 ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCG-CTGGTTGTCAACAAACAA-TTCT
** * *
77628 CGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATT
64 CAATTTCAGAGCCAATTTCAACTTCAC-ACGAAGGATATT
77668 AGACTCAGAA
Statistics
Matches: 268, Mismatches: 35, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
205 2 0.01
206 123 0.46
207 2 0.01
208 1 0.00
210 5 0.02
211 52 0.19
212 76 0.28
213 7 0.03
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (208 bp):
ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTCTCA
ATTTCAGAGCCAATTTCAACTTCACACGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTC
ACGACGAAAGGACGCTGATTGTCAATAAACAATTTCCAATTTCAGAGCCAATTTAAACTTCACAG
CGAAGGATATTGG
Found at i:78471 original size:37 final size:37
Alignment explanation
Indices: 78402--78506 Score: 140
Period size: 37 Copynumber: 2.8 Consensus size: 37
78392 CATTTTCGTC
* * *
78402 CTACTAGGATTCAAATTCCTAAAAATAGGATAGAATT
1 CTACTATGATTTAAACTCCTAAAAATAGGATAGAATT
* *
78439 TTGA-TATGATTTAAACTCCTAAAAATATGATAGAATT
1 CT-ACTATGATTTAAACTCCTAAAAATAGGATAGAATT
*
78476 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTATGATTTAAACTCCTAAAAATAGGAT
78507 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
36 1 0.02
37 56 0.97
38 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (37 bp):
CTACTATGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:78955 original size:2 final size:2
Alignment explanation
Indices: 78948--78979 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
78938 TAATTAGTTT
78948 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78980 CATACTTGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:79053 original size:2 final size:2
Alignment explanation
Indices: 79048--79101 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
79038 CGTATTACCC
79048 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79090 AT AT AT AT AT AT
1 AT AT AT AT AT AT
79102 TTTCTTTGCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79185 original size:5 final size:5
Alignment explanation
Indices: 79171--79216 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
79161 TTTATTCTAC
* *
79171 TTAT- TTATA TTATA TGTATA TT-TT TTATA TTTTA TTATA TTATA TT
1 TTATA TTATA TTATA T-TATA TTATA TTATA TTATA TTATA TTATA TT
79217 TTTTATTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
4 7 0.20
5 23 0.66
6 5 0.14
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (5 bp):
TTATA
Found at i:79199 original size:20 final size:19
Alignment explanation
Indices: 79174--79211 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
79164 ATTCTACTTA
79174 TTTATATTATATGTATATTT
1 TTTATATTATAT-TATATTT
*
79194 TTTATATTTTATTATATT
1 TTTATATTATATTATATT
79212 ATATTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTATATTATATTATATTT
Found at i:79218 original size:22 final size:24
Alignment explanation
Indices: 79172--79225 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 24
79162 TTATTCTACT
79172 TATTTATATTATATGTATATTTTTTA
1 TATTT-TATTATATGTATA-TTTTTA
79198 TATTTTATTATAT-TATATTTTT-
1 TATTTTATTATATGTATATTTTTA
79220 TATTTT
1 TATTTT
79226 CTCTTTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.21
23 5 0.18
24 4 0.14
25 8 0.29
26 5 0.18
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (24 bp):
TATTTTATTATATGTATATTTTTA
Found at i:79219 original size:25 final size:26
Alignment explanation
Indices: 79172--79222 Score: 88
Period size: 24 Copynumber: 2.0 Consensus size: 26
79162 TTATTCTACT
79172 TATTTATATTATATGTATATTTTTTA
1 TATTTATATTATATGTATATTTTTTA
79198 TATTT-TATTATAT-TATATTTTTTA
1 TATTTATATTATATGTATATTTTTTA
79222 T
1 T
79223 TTTCTCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 12 0.48
25 8 0.32
26 5 0.20
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (26 bp):
TATTTATATTATATGTATATTTTTTA
Found at i:79225 original size:5 final size:5
Alignment explanation
Indices: 79049--79216 Score: 57
Period size: 6 Copynumber: 32.2 Consensus size: 5
79039 GTATTACCCA
79049 TATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
1 TATAT -TATAT -TATAT -TATAT -TATAT -TATAT -TATAT -TATAT -TATAT
* *
79102 TTTCT T-TGCAT T-T-T TATTAT TACTAT TATAT T-TAT TAT-T T-T-T
1 TATAT TAT--AT TATAT TA-TAT TA-TAT TATAT TATAT TATAT TATAT
* * * *
79144 TACTAT TATAT TTTCCT TTTAT TCTACT TAT-T TATAT TATAT GTATAT
1 TA-TAT TATAT TAT-AT TATAT TATA-T TATAT TATAT TATAT -TATAT
* *
79192 T-TTT TATAT TTTAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT T
79217 TTTTATTTTC
Statistics
Matches: 135, Mismatches: 13, Indels: 29
0.76 0.07 0.16
Matches are distributed among these distances:
3 5 0.04
4 14 0.10
5 43 0.32
6 73 0.54
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:79521 original size:2 final size:2
Alignment explanation
Indices: 79514--79544 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
79504 TTACTATTAT
79514 TA TA TA 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 TA TA TA T
79545 TCTATACAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:79913 original size:14 final size:13
Alignment explanation
Indices: 79846--79914 Score: 50
Period size: 14 Copynumber: 5.1 Consensus size: 13
79836 TACTTTATTA
* *
79846 TTATTAATTTGTT
1 TTATTTATTTTTT
79859 TTATTTATTTTCTT
1 TTATTTATTTT-TT
*
79873 TT-TCTTTTTCTTTT
1 TTAT-TTATT-TTTT
* *
79887 TTATATATATTTTA
1 TTATTTAT-TTTTT
79901 TTATTTATTTTTT
1 TTATTTATTTTTT
79914 T
1 T
79915 ACTTACTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
13 15 0.35
14 24 0.56
15 4 0.09
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.77
Consensus pattern (13 bp):
TTATTTATTTTTT
Found at i:83018 original size:3 final size:3
Alignment explanation
Indices: 83010--83077 Score: 91
Period size: 3 Copynumber: 22.0 Consensus size: 3
83000 TATCCATATC
* *
83010 ATT ATT ATT AAT ATT ATT ATT ATT ATT ATT ATT AGT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
*
83056 ATT ATT AAT ATT ATAT ATT ATT
1 ATT ATT ATT ATT AT-T ATT ATT
83078 TAATAAATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
3 52 0.91
4 5 0.09
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:84468 original size:19 final size:17
Alignment explanation
Indices: 84446--84480 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
84436 ATATATATAA
84446 TAATAAATCATATTTTTTT
1 TAATAAAT--TATTTTTTT
84465 TAATAAATTATTTTTT
1 TAATAAATTATTTTTT
84481 ATATCGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATAAATTATTTTTTT
Found at i:95683 original size:1 final size:1
Alignment explanation
Indices: 95677--95742 Score: 105
Period size: 1 Copynumber: 66.0 Consensus size: 1
95667 ATGCTTGAAG
* * *
95677 AAAAAAAAAAAAAAAAAAAGAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
95742 A
1 A
95743 GGGGTCAAGG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.95, C:0.00, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:95721 original size:29 final size:29
Alignment explanation
Indices: 95678--95742 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 29
95668 TGCTTGAAGA
95678 AAAAAAAAAAAAAAAAAAGAAAAAAAAAAG
1 AAAAAAAAAAAAAAAAAA-AAAAAAAAAAG
95708 AAAAAAAAAAAAAAAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAG
95737 AAAAAA
1 AAAAAA
95743 GGGGTCAAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 17 0.49
30 18 0.51
ACGTcount: A:0.95, C:0.00, G:0.05, T:0.00
Consensus pattern (29 bp):
AAAAAAAAAAAAAAAAAAAAAAAAAAAAG
Found at i:96104 original size:18 final size:17
Alignment explanation
Indices: 96066--96110 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
96056 CTATTTCAAG
*
96066 TTCAATTTA-TTTGAGA
1 TTCAATTTATTTTGAAA
96082 TTCAATTTATTTTGGAAA
1 TTCAATTTATTTT-GAAA
96100 TTCAATTTATT
1 TTCAATTTATT
96111 CTTTTCTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 9 0.35
17 3 0.12
18 14 0.54
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (17 bp):
TTCAATTTATTTTGAAA
Found at i:96847 original size:50 final size:51
Alignment explanation
Indices: 96670--97117 Score: 773
Period size: 50 Copynumber: 8.8 Consensus size: 51
96660 TATGTGCTCA
96670 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
96721 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
*
96772 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG-A-
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
96822 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
* *
96874 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAAAAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
*
96925 ATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
*
96975 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAA-AAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
*
97025 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG-A-
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
97075 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
97118 TGGCAGAACC
Statistics
Matches: 381, Mismatches: 10, Indels: 13
0.94 0.02 0.03
Matches are distributed among these distances:
50 185 0.49
51 149 0.39
52 47 0.12
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (51 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAAC
Found at i:96946 original size:153 final size:151
Alignment explanation
Indices: 96669--97114 Score: 763
Period size: 153 Copynumber: 2.9 Consensus size: 151
96659 TTATGTGCTC
96669 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTG
*
96734 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGA
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAAAACATAGCATCTTCTGGAAGTGTTCTTTGA
96799 GTTATCTGATCTGATTAGACAG-
131 GTTATCTGATCTGATT-GA-AGA
96821 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAACATAGCATCTTCT
* *
96886 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAAAAACATAGCATCTTATGGAAGTGTTCTTTG
65 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAAAACATAGCATCTTCTGGAAGTGTTCTTTG
*
96951 AGTTATCTGATCTGGTTGAAGA
130 AGTTATCTGATCTGATTGAAGA
*
96973 ACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAA-AACATAGCATCTTCT
1 A-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCT
* * *
97037 GGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA-ATAGCATCTTCTGGAAGTGTTCTTTG
65 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAAAACATAGCATCTTCTGGAAGTGTTCTTTG
97101 AGTTATCTGATCTG
130 AGTTATCTGATCTG
97115 GTTTGGCAGA
Statistics
Matches: 281, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
150 39 0.14
151 51 0.18
152 51 0.18
153 140 0.50
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (151 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTG
GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAAAACATAGCATCTTCTGGAAGTGTTCTTTGA
GTTATCTGATCTGATTGAAGA
Found at i:97215 original size:50 final size:50
Alignment explanation
Indices: 97156--97296 Score: 282
Period size: 50 Copynumber: 2.8 Consensus size: 50
97146 TGAATTTGCC
97156 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
97206 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
97256 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
97297 GTTTGGTAAG
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 91 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (50 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
Found at i:97282 original size:182 final size:182
Alignment explanation
Indices: 96975--97302 Score: 613
Period size: 182 Copynumber: 1.8 Consensus size: 182
96965 GTTGAAGAAC
* *
96975 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAAAACATAGCATCTTCTGGA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGAAAACATAGCATCTTCTGGA
97040 AGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTT
66 AGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTT
97105 ATCTGATCTGGTTTGGCAGAACCATCATTGAAATTAGAAGATGAATTTGCCA
131 ATCTGATCTGGTTTGGCAGAACCATCATTGAAATTAGAAGATGAATTTGCCA
*
97157 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA-ATAGCATCTTCTGG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGA-AAACATAGCATCTTCTGG
97221 AAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGT
65 AAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGT
97286 TATCTGATCTGGTTTGG
130 TATCTGATCTGGTTTGG
97303 TAAGAACTAC
Statistics
Matches: 142, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
182 140 0.99
183 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (182 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGAAAACATAGCATCTTCTGGA
AGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGGAAGTGTTCTTTGAGTT
ATCTGATCTGGTTTGGCAGAACCATCATTGAAATTAGAAGATGAATTTGCCA
Found at i:98126 original size:112 final size:116
Alignment explanation
Indices: 97939--98573 Score: 919
Period size: 112 Copynumber: 5.6 Consensus size: 116
97929 CATCATTTGG
*
97939 TGGATCAACATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAG
1 TGGATCATCATTTCCAGAGAAAGAGTTCATAA-GAGAAGAAC-CGTCATCTGAAGAAGGAAGAAG
98004 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCGCCAGA
64 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCGCCAGA
98057 TGGATCATCATTTCCAGAGAAAGAGTTCAT-A-AGAAGAA-C-TCATCTGAAGAAGGAAGAAGAA
1 TGGATCATCATTTCCAGAGAAAGAGTTCATAAGAGAAGAACCGTCATCTGAAGAAGGAAGAAGAA
*
98118 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCGCCAGA
66 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCGCCAGA
98169 TGGATCATCATTTCCAGAGAAAGAGTTCATAATG-GAAGAA-C-TCATCTGAAGAAGGAAGAAGA
1 TGGATCATCATTTCCAGAGAAAGAGTTCATAA-GAGAAGAACCGTCATCTGAAGAAGGAAGAAGA
* **
98231 AGTTCATAATGAGAAGAACTTGTTC-ACCTTTTGCTTGAATTCATCACTTGA
65 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCGCCAGA
* *
98282 TGGATCAACATTTCCAGAGAAAGAGTTCATAA-TG-AGAACTCGTCATCTGAAGAA-G--GAAGA
1 TGGATCATCATTTCCAGAGAAAGAGTTCATAAGAGAAGAAC-CGTCATCTGAAGAAGGAAGAAGA
*
98342 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCGCCAAA
65 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCGCCAGA
98394 TGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAG
1 TGGATCATCATTTCCAGAGAAAGAGTTCATAA-GAGAAGAAC-CGTCATCTGAAGAAGGAAGAAG
* ****
98459 AAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGA
64 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCGCCAGA
* ** *
98512 TGGAACATCATCCCCAGCAG-AA-AGTTCATAATGAGAAGAA-C-TCATCTGAAGAA-AAAGAAG
1 TGGATCATCATTTCCAG-AGAAAGAGTTCATAA-GAGAAGAACCGTCATCTGAAGAAGGAAGAAG
98572 AA
64 AA
98574 TTTATTCAAT
Statistics
Matches: 479, Mismatches: 23, Indels: 35
0.89 0.04 0.07
Matches are distributed among these distances:
111 34 0.07
112 156 0.33
113 65 0.14
114 78 0.16
115 28 0.06
116 1 0.00
117 19 0.04
118 96 0.20
119 2 0.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (116 bp):
TGGATCATCATTTCCAGAGAAAGAGTTCATAAGAGAAGAACCGTCATCTGAAGAAGGAAGAAGAA
GTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCGCCAGA
Found at i:98343 original size:225 final size:228
Alignment explanation
Indices: 97939--98573 Score: 982
Period size: 225 Copynumber: 2.8 Consensus size: 228
97929 CATCATTTGG
*
97939 TGGATCAACATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAG
1 TGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAAC-CGTCATCTGAAGAAGGAAGAAG
* **
98004 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCGCCAGATGGATCATCATT
65 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCATT
98069 TCCAGAGAAAGAGTTCATAA-GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
130 TCCAGAGAAAGAGTTCATAATG-AGAACTCATCTGAAGAAGG-AGAAGAAGTTCATAATGAGAAG
* *
98133 AACTTGTTCAACCTTTTGTTTGAATTCATCGCCAGA
193 AACTTGTTCAACCTTTTGCTTGAATTCATCGCCAAA
98169 TGGATCATCATTTCCAGAGAAAGAGTTCATAATG-GAAGAA-C-TCATCTGAAGAAGGAAGAAGA
1 TGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGGAAGAAGA
*
98231 AGTTCATAATGAGAAGAACTTGTTC-ACCTTTTGCTTGAATTCATCACTTGATGGATCAACATTT
66 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCATTT
98295 CCAGAGAAAGAGTTCATAATGAGAACTCGTCATCTGAAGAA-G-GAAGAAGTTCATAATGAGAAG
131 CCAGAGAAAGAGTTCATAATGAGAA--C-TCATCTGAAGAAGGAGAAGAAGTTCATAATGAGAAG
98358 AACTTGTTCAACCTTTTGCTTGAATTCATCGCCAAA
193 AACTTGTTCAACCTTTTGCTTGAATTCATCGCCAAA
98394 TGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAG
1 TGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAAC-CGTCATCTGAAGAAGGAAGAAG
* * * *
98459 AAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGGAACATCATC
65 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCATT
* **
98524 CCCAGCAG-AA-AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGAAGAA
130 TCCAG-AGAAAGAGTTCATAAT--G-AGAACTCATCTGAAGAAGGAGAAGAA
98574 TTTATTCAAT
Statistics
Matches: 376, Mismatches: 14, Indels: 29
0.90 0.03 0.07
Matches are distributed among these distances:
225 147 0.39
226 53 0.14
227 3 0.01
228 13 0.03
229 74 0.20
230 73 0.19
231 9 0.02
232 4 0.01
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (228 bp):
TGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGGAAGAAGA
AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCATTT
CCAGAGAAAGAGTTCATAATGAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAGAAGAAC
TTGTTCAACCTTTTGCTTGAATTCATCGCCAAA
Found at i:98721 original size:3 final size:3
Alignment explanation
Indices: 98713--98792 Score: 115
Period size: 3 Copynumber: 26.0 Consensus size: 3
98703 TATCCATATC
* *
98713 ATT ATT ATT AAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AGT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
*
98762 ATT ATT ATT ATT AAT ATT ATAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
98793 TAATAAATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
3 64 0.93
4 5 0.07
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:102304 original size:21 final size:20
Alignment explanation
Indices: 102276--102314 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
102266 AATTTACTGC
*
102276 TTAACTCGACTCGTTGCTTG
1 TTAACTCGACTCATTGCTTG
102296 TTAAGCTCGACTCATTGCT
1 TTAA-CTCGACTCATTGCT
102315 CATTAAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (20 bp):
TTAACTCGACTCATTGCTTG
Found at i:102320 original size:21 final size:21
Alignment explanation
Indices: 102276--102321 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
102266 AATTTACTGC
* **
102276 TTAA-CTCGACTCGTTGCTTG
1 TTAAGCTCGACTCATTGCTCA
102296 TTAAGCTCGACTCATTGCTCA
1 TTAAGCTCGACTCATTGCTCA
102317 TTAAG
1 TTAAG
102322 ATTTCTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (21 bp):
TTAAGCTCGACTCATTGCTCA
Found at i:102486 original size:19 final size:20
Alignment explanation
Indices: 102448--102508 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
102438 ATTATTTTTG
*
102448 TATATTTTAAATTAAAATAA
1 TATATGTTAAATTAAAATAA
102468 TATATGTTAAATT-AAATAA
1 TATATGTTAAATTAAAATAA
*
102487 TATATGTTTAAGTTTAAAATAA
1 TATATG-TTAA-ATTAAAATAA
102509 AAGAAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.33
20 16 0.44
21 2 0.06
22 6 0.17
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
TATATGTTAAATTAAAATAA
Found at i:102994 original size:20 final size:20
Alignment explanation
Indices: 102971--103010 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
102961 TCATTATTTG
102971 TTGTATCATGGGACATAAAT
1 TTGTATCATGGGACATAAAT
*
102991 TTGTATCATGGGAGATAAAT
1 TTGTATCATGGGACATAAAT
103011 GAAAAACGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (20 bp):
TTGTATCATGGGACATAAAT
Found at i:109028 original size:19 final size:19
Alignment explanation
Indices: 109006--109056 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
108996 AGGTTTTTGT
109006 ATTAATTTTTAGT-TTTTAA
1 ATTAATTTTTA-TATTTTAA
*
109025 ATTAATATTTATATTTTAA
1 ATTAATTTTTATATTTTAA
*
109044 AAT-ATTTTTATAT
1 ATTAATTTTTATAT
109057 CAATCCTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 10 0.36
19 18 0.64
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTAATTTTTATATTTTAA
Found at i:111352 original size:29 final size:29
Alignment explanation
Indices: 111319--111375 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
111309 AACATAAATG
*
111319 AATAGTCGAGTGACCATTT-TATAACTTTT
1 AATAGTCGAGGGACCATTTGTAT-ACTTTT
111348 AATAGTCGAGGGACCATTTGTATACTTT
1 AATAGTCGAGGGACCATTTGTATACTTT
111376 ACCCAATCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (29 bp):
AATAGTCGAGGGACCATTTGTATACTTTT
Done.