Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002883.1 Hibiscus syriacus cultivar Beakdansim tig00005946_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: 131533
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:6360 original size:43 final size:43
Alignment explanation
Indices: 6260--6486 Score: 140
Period size: 43 Copynumber: 5.2 Consensus size: 43
6250 GGTCAAGATC
* *
6260 TATAGCGACGTTTTTGGAACAAACGCCGTAAAAGGTCGATATT
1 TATAGCGACGTTTTTGGAACAAACGCCGCAAAAAGTCGATATT
* * *
6303 TATAAC-AGCGTTTTTGGAACAAACGTCGCAAAAAGTTGATATT
1 TATAGCGA-CGTTTTTGGAACAAACGCCGCAAAAAGTCGATATT
* * * *
6346 TATAGCGACATTTTTGGTTTATTCCAAAAACGCCG-AAAATGAT-GATATC
1 TATAGCGACGTTTTTGG---A----ACAAACGCCGCAAAAAG-TCGATATT
* ** * * *
6395 TATAGTGGTGTTTTTGGAACAAACGCCGCAATAAGTC-AGATC
1 TATAGCGACGTTTTTGGAACAAACGCCGCAAAAAGTCGATATT
* * * * * *
6437 TATAGCGGCGTTTTTTGGTACAAACGTCACAAAATGTC-ATATC
1 TATAGCGACG-TTTTTGGAACAAACGCCGCAAAAAGTCGATATT
6480 TATAGCG
1 TATAGCG
6487 GCCTTTTTTT
Statistics
Matches: 144, Mismatches: 27, Indels: 26
0.73 0.14 0.13
Matches are distributed among these distances:
42 23 0.16
43 86 0.60
44 1 0.01
46 2 0.01
49 23 0.16
50 9 0.06
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (43 bp):
TATAGCGACGTTTTTGGAACAAACGCCGCAAAAAGTCGATATT
Found at i:6487 original size:43 final size:43
Alignment explanation
Indices: 6373--6504 Score: 126
Period size: 43 Copynumber: 3.1 Consensus size: 43
6363 TTTATTCCAA
* * * * *
6373 AAACGCC-GAAAATGATGATATCTATAGTGGTG-TTTTTGGAAC
1 AAACGCCACAAAATG-TCATATCTATAGCGGCGTTTTTTGGTAC
* *
6415 AAACGCCGCAATAA-GTCAGATCTATAGCGGCGTTTTTTGGTAC
1 AAACGCCACAA-AATGTCATATCTATAGCGGCGTTTTTTGGTAC
* * **
6458 AAACGTCACAAAATGTCATATCTATAGCGGCCTTTTTTTATAC
1 AAACGCCACAAAATGTCATATCTATAGCGGCGTTTTTTGGTAC
6501 AAAC
1 AAAC
6505 ACCGCTAATT
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
42 22 0.30
43 50 0.68
44 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (43 bp):
AAACGCCACAAAATGTCATATCTATAGCGGCGTTTTTTGGTAC
Found at i:8488 original size:20 final size:21
Alignment explanation
Indices: 8460--8500 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
8450 ATAAATAATT
* *
8460 TTTATTTGATAAAATA-AAAG
1 TTTAATTGAAAAAATATAAAG
8480 TTTAATTGAAAAAATATAAAG
1 TTTAATTGAAAAAATATAAAG
8501 AGATTATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (21 bp):
TTTAATTGAAAAAATATAAAG
Found at i:9826 original size:27 final size:27
Alignment explanation
Indices: 9796--9858 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
9786 TATTAATAAA
* *
9796 TAAGAAATAATTCTAGATAATAATTCT
1 TAAGAAATAATTCTAAATAATAATTCC
* * *
9823 TAAGAGATAGTTCTAAATGATAATTCC
1 TAAGAAATAATTCTAAATAATAATTCC
*
9850 TAAAAAATA
1 TAAGAAATA
9859 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (27 bp):
TAAGAAATAATTCTAAATAATAATTCC
Found at i:14759 original size:45 final size:45
Alignment explanation
Indices: 14710--14800 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
14700 TTTTCTCACA
*
14710 TTGAATTAAACCAGTCATCCTTTGTAGAAGCATGTTAGAGATTGT
1 TTGAATTAAACCAGTCATCCTTTGTAGAAGCATGTTAGAAATTGT
14755 TTGAATTAAACCAGTCATCCTTTGTAGAAGCATGTTAGAAATTGT
1 TTGAATTAAACCAGTCATCCTTTGTAGAAGCATGTTAGAAATTGT
14800 T
1 T
14801 GGCATAGATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (45 bp):
TTGAATTAAACCAGTCATCCTTTGTAGAAGCATGTTAGAAATTGT
Found at i:20553 original size:18 final size:18
Alignment explanation
Indices: 20530--20564 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20520 ACTGAATATT
*
20530 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
20548 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
20565 GATAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:28059 original size:29 final size:30
Alignment explanation
Indices: 28024--28084 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
28014 CTTCATATAT
* *
28024 AATATTAATTTAA-ACTTAAATTTTAGATA
1 AATATTAATTTAAGACCTAAAATTTAGATA
* *
28053 AATATTATTTTAAGTCCTAAAATTTAGATA
1 AATATTAATTTAAGACCTAAAATTTAGATA
28083 AA
1 AA
28085 ATATCAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (30 bp):
AATATTAATTTAAGACCTAAAATTTAGATA
Found at i:28216 original size:2 final size:2
Alignment explanation
Indices: 28211--28244 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
28201 ATCCTCGCGT
28211 TA 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 TA
28245 AAAATTTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:28454 original size:217 final size:216
Alignment explanation
Indices: 28226--28651 Score: 786
Period size: 217 Copynumber: 2.0 Consensus size: 216
28216 ATATATATAT
*
28226 ATATATATATATATATATAAAAATTTATCATATTTAAT-ATT-TAAATATTAAAAATATATATTA
1 ATATATATATATATATATTAAAATTTATCATATTTAATCATTATAAATATTAAAAATATATATTA
28289 ATATTATAAACATAAC-AAAAAAGCTTAACATATGCAGATTTATATTTTGGATCTCCTTATTCTT
66 ATATTATAAACATAACAAAAAAAGCTTAACATATGCAGATTTATATTTTGGATCTCCTTATTCTT
28353 AAAGAAATATTAATGATATATTTATTATTATGATTTAATTATAATGAAAACCGTTGGGTTGTAAG
131 AAAGAAATATTAATGATATATTTATTATTATGATTTAATTATAATGAAAACCGTTGGGTTGTAAG
28418 CTAGATGTATTTAGTTTTGGA
196 CTAGATGTATTTAGTTTTGGA
*
28439 ATATATATATATATATATTAAAATTTATCATATTTAATCTTTATAAATATTAAAAATATATATTA
1 ATATATATATATATATATTAAAATTTATCATATTTAATCATTATAAATATTAAAAATATATATTA
*
28504 ATATTATAAACATAACAAAAAAAATCTTAACATATGCAGATTTATATTTTGGATCTCCTTATTCT
66 ATATTATAAACATAAC-AAAAAAAGCTTAACATATGCAGATTTATATTTTGGATCTCCTTATTCT
28569 TAAAGAAATATTAATGATATATTTATTATTATGATTTAATTATAATGAAAACCGTTGGGTTGTAA
130 TAAAGAAATATTAATGATATATTTATTATTATGATTTAATTATAATGAAAACCGTTGGGTTGTAA
*
28634 GCTAGATTTATTTAGTTT
195 GCTAGATGTATTTAGTTT
28652 GGAGTATTTT
Statistics
Matches: 205, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
213 37 0.18
214 2 0.01
215 38 0.19
217 128 0.62
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.43
Consensus pattern (216 bp):
ATATATATATATATATATTAAAATTTATCATATTTAATCATTATAAATATTAAAAATATATATTA
ATATTATAAACATAACAAAAAAAGCTTAACATATGCAGATTTATATTTTGGATCTCCTTATTCTT
AAAGAAATATTAATGATATATTTATTATTATGATTTAATTATAATGAAAACCGTTGGGTTGTAAG
CTAGATGTATTTAGTTTTGGA
Found at i:31589 original size:59 final size:60
Alignment explanation
Indices: 31479--31656 Score: 168
Period size: 59 Copynumber: 3.0 Consensus size: 60
31469 AGTATGACCC
* * * * * * * * * *
31479 TCATTTTAAATTGGTCACTAAACTT-TTAAATATTCTAATTTCATGCTAAACTATGA-TT
1 TCATTCTAAATTAGTCCCTAAACTTGATGAACATTCCAATTTCATCCCAAACTATGACAT
*
31537 ATCATTCTAAATTAGT-CCTAAAC-TGATGAACATTTCAATTTCATCCCCAAACTATGACAT
1 -TCATTCTAAATTAGTCCCTAAACTTGATGAACATTCCAATTTCAT-CCCAAACTATGACAT
** *
31597 TCATTCTAAATTAGTCCCCTAAACTTTTTGAACATTCCAATTTTATCCCAAACTAT-ACAT
1 TCATTCTAAATTAGT-CCCTAAACTTGATGAACATTCCAATTTCATCCCAAACTATGACAT
31657 ATATACTAAT
Statistics
Matches: 98, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
57 1 0.01
58 20 0.20
59 38 0.39
60 5 0.05
61 17 0.17
62 17 0.17
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.39
Consensus pattern (60 bp):
TCATTCTAAATTAGTCCCTAAACTTGATGAACATTCCAATTTCATCCCAAACTATGACAT
Found at i:31864 original size:60 final size:60
Alignment explanation
Indices: 31762--31924 Score: 211
Period size: 60 Copynumber: 2.7 Consensus size: 60
31752 CGAATGAATC
* ** *
31762 TAGGGATGAAATTGGAATATTCAAAAGTTTGGGGACCAATTTAGAAAGAGGGTCA-TAATT
1 TAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACCAATTTAGAAAGAGAGT-AGTAATT
* * ** * *
31822 TAGGGATAAAATTAGAATGTTCAAAAGTTTAAGGACTTATTTAGAATGAGAGTAGTATTT
1 TAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACCAATTTAGAAAGAGAGTAGTAATT
*
31882 TGGGGATGAAATTAGAATATTCAAAAGTTTAAGGACCAATTTA
1 TAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACCAATTTA
31925 AAATAAAGGT
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
59 1 0.01
60 86 0.99
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (60 bp):
TAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACCAATTTAGAAAGAGAGTAGTAATT
Found at i:32777 original size:262 final size:259
Alignment explanation
Indices: 32318--32837 Score: 759
Period size: 262 Copynumber: 2.0 Consensus size: 259
32308 ATTCATATAT
*
32318 TCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCAGGTC
1 TCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGATTTTTTAAGTGTGATATTCAGGTC
* * * *
32383 GGGTCGAGTTTGGGTTTAGGGTGAAAAATACCCGTCCCGAAAATATATATAATTTTTACCTTATA
66 GGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAATAAATATAATTTTTACATTATA
* * *
32448 TATTTAGGAATAATTACAATAATACCCCTTTATATATAATTTTTTTCAATTAAGTCACTGTTTTT
131 TATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCAATGCTTTT
*
32513 ATTGAATACAAATA-TTTTTTTATTTCG-G-A-TCGGGTCG-GATTTCTAATTCATATATTCGGG
196 ATTGAATAAAAATATTTTTTTTATTTCGTGAAGTCGGGTCGAG-TTTCTAATTCATATATTCGGG
* *
32573 TCGGGTCGGGTGAAACTTTATTTTGTTCGGGTCGGGTCGGATTTTTTAAGTGTGATATTTAGGTT
1 TCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGATTTTTTAAGTGTGATATTCA----
32638 GAGTCGGGTCG-GATTCGGGTTTAGGGTGAAAAAATCGGACCCGACCCGAAAA-AAATATAA-TT
62 G-GTCGGGTCGAG-TTCGGGTTTAGGGTG-AAAAAT---ACCCGACCCGAAAATAAATATAATTT
32700 TTACATTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGT
121 TTACATTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGT
32765 CAATGCTTTTATTGAATAAAAATATTTTTTTTTATTTCGTGACATGTCGGGTCGAGTTTCTAATT
186 CAATGCTTTTATTGAATAAAAATA-TTTTTTTTATTTCGTGA-A-GTCGGGTCGAGTTTCTAATT
32830 CATATATT
248 CATATATT
32838 GAATAAAAAT
Statistics
Matches: 236, Mismatches: 11, Indels: 22
0.88 0.04 0.08
Matches are distributed among these distances:
255 58 0.25
259 2 0.01
260 23 0.10
261 6 0.03
262 86 0.36
263 7 0.03
264 26 0.11
265 1 0.00
267 1 0.00
269 25 0.11
270 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (259 bp):
TCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGATTTTTTAAGTGTGATATTCAGGTC
GGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAATAAATATAATTTTTACATTATA
TATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCAATGCTTTT
ATTGAATAAAAATATTTTTTTTATTTCGTGAAGTCGGGTCGAGTTTCTAATTCATATATTCGGG
Found at i:35553 original size:20 final size:20
Alignment explanation
Indices: 35530--35571 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
35520 TAATTTAATA
35530 TAGGATGATATATTA-TATTT
1 TAGGATGATAT-TTATTATTT
* *
35550 TAGGGTTATATTTATTATTT
1 TAGGATGATATTTATTATTT
35570 TA
1 TA
35572 TTAAGAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (20 bp):
TAGGATGATATTTATTATTT
Found at i:37189 original size:2 final size:2
Alignment explanation
Indices: 37182--37210 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
37172 CAAAGGATTA
37182 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37211 CAAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:40858 original size:59 final size:59
Alignment explanation
Indices: 40795--40911 Score: 155
Period size: 59 Copynumber: 2.0 Consensus size: 59
40785 GTCTCCAACT
* * * *
40795 ATAGGATATTGTTTTATTAAATCTCTC-AATTGTTTAAAGTTATAAAATGATCCCCGACG
1 ATAGGATATTGTTTTATTAAAT-TCACGAATTATTAAAAGTTATAAAATAATCCCCGACG
* * *
40854 ATAGGATATTGTTTTGTTAAGTTCACGGATTATTAAAAGTTATAAAATAATCCCCGAC
1 ATAGGATATTGTTTTATTAAATTCACGAATTATTAAAAGTTATAAAATAATCCCCGAC
40912 TATTCATTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 3 0.06
59 47 0.94
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (59 bp):
ATAGGATATTGTTTTATTAAATTCACGAATTATTAAAAGTTATAAAATAATCCCCGACG
Found at i:42316 original size:16 final size:16
Alignment explanation
Indices: 42295--42335 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
42285 TTAAATGCCT
42295 GACATAAAAGAACCTC
1 GACATAAAAGAACCTC
42311 GACATAAAAGAACCTC
1 GACATAAAAGAACCTC
42327 GACATAAAA
1 GACATAAAA
42336 ATGAGGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.54, C:0.22, G:0.12, T:0.12
Consensus pattern (16 bp):
GACATAAAAGAACCTC
Found at i:56975 original size:29 final size:29
Alignment explanation
Indices: 56932--56997 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
56922 TGAATTCTAC
56932 AGCGACCTTGGAGGTCGCCATGGCATCCG
1 AGCGACCTTGGAGGTCGCCATGGCATCCG
*
56961 GGCGACCTTGGAGGTCGCCATGGCATCCG
1 AGCGACCTTGGAGGTCGCCATGGCATCCG
56990 AGCGACCT
1 AGCGACCT
56998 GTGTGGTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.17, C:0.32, G:0.35, T:0.17
Consensus pattern (29 bp):
AGCGACCTTGGAGGTCGCCATGGCATCCG
Found at i:57075 original size:20 final size:20
Alignment explanation
Indices: 57050--57087 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57040 GTATTGGAGC
*
57050 ATGCATGGGGGAGTTGTGGG
1 ATGCATGGGGGAGCTGTGGG
*
57070 ATGCATGTGGGAGCTGTG
1 ATGCATGGGGGAGCTGTG
57088 CATGGGACGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.08, G:0.50, T:0.26
Consensus pattern (20 bp):
ATGCATGGGGGAGCTGTGGG
Found at i:57099 original size:20 final size:20
Alignment explanation
Indices: 57076--57113 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
57066 TGGGATGCAT
*
57076 GTGGGAGCTGTGCATGGGAC
1 GTGGGAACTGTGCATGGGAC
57096 GTGGGAACTGTGCATGGG
1 GTGGGAACTGTGCATGGG
57114 CCATGCACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.13, G:0.50, T:0.21
Consensus pattern (20 bp):
GTGGGAACTGTGCATGGGAC
Found at i:57669 original size:21 final size:21
Alignment explanation
Indices: 57644--57687 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
57634 AATCTAGTTA
57644 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
57665 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
57686 AT
1 AT
57688 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:57697 original size:28 final size:30
Alignment explanation
Indices: 57664--57726 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
57654 TAGTATAAAT
*
57664 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
57692 TATTAGTTTATTAGTTTAAGTTATATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
57722 TATTA
1 TATTA
57727 TATAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (30 bp):
TATTAGTTTATTAGTTTAAGTTATATATTA
Found at i:58280 original size:20 final size:21
Alignment explanation
Indices: 58236--58280 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
58226 AAATATTGTG
**
58236 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
58257 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
58277 TTTA
1 TTTA
58281 CATTGATGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:58570 original size:26 final size:25
Alignment explanation
Indices: 58541--58599 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
58531 AAATCATATT
*
58541 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
58567 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
58593 ATTATTA
1 ATTATTA
58600 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:61511 original size:26 final size:26
Alignment explanation
Indices: 61482--62031 Score: 402
Period size: 26 Copynumber: 22.2 Consensus size: 26
61472 TTTGATGATT
61482 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
61508 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
61534 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** * *
61560 TAAAAAT-AATT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
61582 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
61606 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
61632 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
61658 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
61684 TAAAAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
61706 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
61730 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
61756 TAGTAATGATTTGATAATAAACATTA
1 TAGTAATGATTTGATAATAATCATTA
*
61782 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
* *
61808 TA-AAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
61829 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
61853 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
61879 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
61905 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
61931 TAAAAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
61953 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
61977 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* * *
62003 TAATAATGATTTTATAATAATTATT-
1 TAGTAATGATTTGATAATAATCATTA
62028 TAGT
1 TAGT
62032 TATTATTTAG
Statistics
Matches: 441, Mismatches: 44, Indels: 79
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.01
20 21 0.05
21 2 0.00
22 20 0.05
23 34 0.08
24 38 0.09
25 43 0.10
26 256 0.58
27 24 0.05
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (26 bp):
TAGTAATGATTTGATAATAATCATTA
Found at i:61647 original size:124 final size:124
Alignment explanation
Indices: 61427--62067 Score: 1155
Period size: 124 Copynumber: 5.2 Consensus size: 124
61417 ATGTATTTAT
*
61427 TAATCATTATAAAAATTATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
61492 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
*
61551 TAATCATTATAAAAATAATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
61616 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
61675 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
*
61740 TTGATAATAATCATTATAGTAATGATTTGATAATAAACATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
61799 TAATCATTAT-AAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
61863 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
61922 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
* * * * * *
61987 TTGATAATAATCATTATAATAATGATTTTATAATAATTATT-TAGTTATTATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
* *
62045 TTAT--TTATAATAATGATTTAATA
1 TAATCATTATAAAAATGATTTAATA
62068 CTAATGATTT
Statistics
Matches: 504, Mismatches: 12, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
121 18 0.04
123 139 0.28
124 347 0.69
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.45
Consensus pattern (124 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
Found at i:61939 original size:97 final size:97
Alignment explanation
Indices: 61746--62024 Score: 290
Period size: 98 Copynumber: 2.8 Consensus size: 97
61736 TGATTTGATA
* * *
61746 ATAATCATTATAGTAATGATTTGATAATAAACATTATAATAATGATTT-AGTAATAATCATTATA
1 ATAATGATT-TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGA-TAATAATCATTATA
*
61810 A-AATGATTTAATAATGATTTAAATATTTAATGA-TT
64 ATAATGATTT-ATAATAATTTAAATA--TAATGATTT
*
61845 -TGATGATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAAT
1 ATAATGATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAAT
61909 AATGATTTAGTAATAATCATTATAA-A-AATGATTT
66 AATGATTTA-TAATAAT--TTA-AATATAATGATTT
* * * *
61943 AATAATGATTTA--AAT-ATTTAATGATTTGATGATT-TAGTAATGATTTGATAATAATCATTAT
1 -ATAATGATTTAGTAATGATTTGAT-A-ATAATCATTATAGTAATGATTTGATAATAATCATTAT
62004 AATAATGATTTTATAATAATT
63 AATAATGA-TTTATAATAATT
62025 ATTTAGTTAT
Statistics
Matches: 158, Mismatches: 10, Indels: 27
0.81 0.05 0.14
Matches are distributed among these distances:
96 1 0.01
97 63 0.40
98 69 0.44
99 10 0.06
100 13 0.08
101 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (97 bp):
ATAATGATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAAT
AATGATTTATAATAATTTAAATATAATGATTT
Found at i:62074 original size:14 final size:14
Alignment explanation
Indices: 61485--62083 Score: 183
Period size: 14 Copynumber: 44.1 Consensus size: 14
61475 GATGATTTAG
*
61485 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
61499 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
61511 TAATGATTTGATAA
1 TAATGATTTAATAA
*
61525 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
61537 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
61551 TAATCA-TT-ATAA
1 TAATGATTTAATAA
* *
61563 AAAT-AATT--TAA
1 TAATGATTTAATAA
*
61574 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
61590 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
61609 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
61623 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
61635 TAATGATTTGATAA
1 TAATGATTTAATAA
*
61649 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
61661 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
61675 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
61687 AAATGA-TT--TAA
1 TAATGATTTAATAA
*
61698 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
61714 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
61733 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
61747 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
61759 TAATGATTTGATAA
1 TAATGATTTAATAA
**
61773 TAAACA-TT-ATAA
1 TAATGATTTAATAA
*
61785 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
61799 TAATCA-TT-ATAA
1 TAATGATTTAATAA
61811 -AATGA-TT--TAA
1 TAATGATTTAATAA
*
61821 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
61837 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
61856 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
61870 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
61882 TAATGATTTGATAA
1 TAATGATTTAATAA
*
61896 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
61908 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
61922 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
61934 AAATGA-TT--TAA
1 TAATGATTTAATAA
*
61945 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
61961 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
61980 TAATGATTTGATAA
1 TAATGATTTAATAA
*
61994 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
62006 TAATGATTTTATAA
1 TAATGATTTAATAA
* *
62020 TAATTATTTAGT--
1 TAATGATTTAATAA
* *
62032 T-ATTATTTAGTAA
1 TAATGATTTAATAA
62045 T--T-ATTT-ATAA
1 TAATGATTTAATAA
*
62055 TAATGATTTAATAC
1 TAATGATTTAATAA
62069 TAATGATTTAATAA
1 TAATGATTTAATAA
62083 T
1 T
62084 TATTACTAAT
Statistics
Matches: 447, Mismatches: 76, Indels: 124
0.69 0.12 0.19
Matches are distributed among these distances:
10 7 0.02
11 48 0.11
12 117 0.26
13 49 0.11
14 126 0.28
15 8 0.02
16 44 0.10
18 4 0.01
19 36 0.08
20 8 0.02
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:62106 original size:38 final size:38
Alignment explanation
Indices: 62036--62109 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
62026 TTTAGTTATT
* **
62036 ATTTAGTAATTATTTATAATAATGATTTAATACTAATG
1 ATTTAATAATTATTTATAATAATGATAGAATACTAATG
*
62074 ATTTAATAATTA-TTACTAATAATTATAGAATACTAA
1 ATTTAATAATTATTTA-TAATAATGATAGAATACTAA
62110 CAAATGAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.10
38 28 0.90
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (38 bp):
ATTTAATAATTATTTATAATAATGATAGAATACTAATG
Found at i:62316 original size:17 final size:17
Alignment explanation
Indices: 62291--62323 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62281 ACTAAATATT
*
62291 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
62308 TAATGATTTGATACTA
1 TAATGATTTGATACTA
62324 AAAATCATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:62316 original size:25 final size:23
Alignment explanation
Indices: 62237--62316 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 23
62227 GATTTATTGT
62237 TAATATTTAATTATTTGATAC--
1 TAATATTTAATTATTTGATACTA
* *
62258 TAATGATTTAAAATAGTTGATTTACTA
1 TAAT-ATTT-AATTATTTGA--TACTA
62285 -AATATTTAATTATTTGATACTA
1 TAATATTTAATTATTTGATACTA
62307 GTAATGATTT
1 -TAAT-ATTT
62317 GATACTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
21 4 0.09
22 9 0.20
23 8 0.17
24 11 0.24
25 11 0.24
26 3 0.07
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (23 bp):
TAATATTTAATTATTTGATACTA
Found at i:64494 original size:15 final size:14
Alignment explanation
Indices: 64471--64501 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
64461 TACAACACTA
64471 AACTTTAATATAAT
1 AACTTTAATATAAT
64485 AACTTATAATATAAT
1 AACTT-TAATATAAT
64500 AA
1 AA
64502 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:64509 original size:16 final size:16
Alignment explanation
Indices: 64476--64522 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
64466 CACTAAACTT
*
64476 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
64491 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
64507 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
64523 CTTTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:64642 original size:32 final size:34
Alignment explanation
Indices: 64562--64643 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
64552 CTAAACCCTT
*
64562 AAAC-AACTAATAAAATATTCTTTTATATAACTA
1 AAACTAACTAATAAACTATTCTTTTATATAACTA
*
64595 AAACTAACTAATAAACTATTTTTTTATTATAA-T-
1 AAACTAACTAATAAACTATTCTTTTA-TATAACTA
*
64628 ATACT-ACTAATAAACT
1 AAACTAACTAATAAACT
64644 TACTAACTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
32 11 0.25
33 8 0.18
34 20 0.45
35 5 0.11
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (34 bp):
AAACTAACTAATAAACTATTCTTTTATATAACTA
Found at i:64786 original size:47 final size:48
Alignment explanation
Indices: 64684--64788 Score: 135
Period size: 47 Copynumber: 2.2 Consensus size: 48
64674 CAACAAACAA
* *
64684 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAAC-TAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTCT
*
64733 ATATAACTAACTA-TTAAC-AAAACAAACTAATT-AATTATTTTTTAACT
1 ATATAACTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTT--CT
64780 ATATAACTA
1 ATATAACTA
64789 TCAAACATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
45 10 0.20
46 13 0.25
47 15 0.29
48 6 0.12
49 7 0.14
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (48 bp):
ATATAACTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTCT
Found at i:64844 original size:41 final size:40
Alignment explanation
Indices: 64756--64844 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 40
64746 TTAACAAAAC
* *
64756 AAACTAATTAATTATTTTTTAACTATATAACTATCAAACAT
1 AAACTAATTAAATAATTTTTAACTATATAACTAT-AAACAT
* * *
64797 ATACTAATTAAATAATTTTTAATTTATATATACTAT-AACTT
1 AAACTAATTAAATAATTTTTAA-CTATATA-ACTATAAACAT
64838 AAACTAA
1 AAACTAA
64845 CAATCATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
41 29 0.73
42 6 0.15
43 5 0.12
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (40 bp):
AAACTAATTAAATAATTTTTAACTATATAACTATAAACAT
Found at i:65383 original size:29 final size:29
Alignment explanation
Indices: 65350--65482 Score: 212
Period size: 29 Copynumber: 4.6 Consensus size: 29
65340 TCGTGAGCTA
**
65350 GGACTACATGGCGACCTACTTGGTCGCCG
1 GGACTACATGGCGACCTACAAGGTCGCCG
*
65379 GGACTACATGGTGACCTACAAGGTCGCCG
1 GGACTACATGGCGACCTACAAGGTCGCCG
65408 GGACTACATGGCGACCTACAAGGTCGCCG
1 GGACTACATGGCGACCTACAAGGTCGCCG
*
65437 GGACTACATGGCGACCTACAAGGTCGCCC
1 GGACTACATGGCGACCTACAAGGTCGCCG
* *
65466 AGACTGCATGGCGACCT
1 GGACTACATGGCGACCT
65483 CTCCATTGGC
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 97 1.00
ACGTcount: A:0.23, C:0.31, G:0.30, T:0.17
Consensus pattern (29 bp):
GGACTACATGGCGACCTACAAGGTCGCCG
Found at i:65390 original size:17 final size:17
Alignment explanation
Indices: 65365--65447 Score: 51
Period size: 17 Copynumber: 5.5 Consensus size: 17
65355 ACATGGCGAC
*
65365 CTACTTGGTCGCCGGGA
1 CTACATGGTCGCCGGGA
*
65382 CTACATGGT-GAC----
1 CTACATGGTCGCCGGGA
*
65394 CTACAAGGTCGCCGGGA
1 CTACATGGTCGCCGGGA
*
65411 CTACATGG-CGAC----
1 CTACATGGTCGCCGGGA
*
65423 CTACAAGGTCGCCGGGA
1 CTACATGGTCGCCGGGA
65440 CTACATGG
1 CTACATGG
65448 CGACCTACAA
Statistics
Matches: 47, Mismatches: 9, Indels: 20
0.62 0.12 0.26
Matches are distributed among these distances:
12 15 0.32
13 5 0.11
16 5 0.11
17 22 0.47
ACGTcount: A:0.22, C:0.29, G:0.31, T:0.18
Consensus pattern (17 bp):
CTACATGGTCGCCGGGA
Found at i:65849 original size:30 final size:31
Alignment explanation
Indices: 65804--65956 Score: 154
Period size: 30 Copynumber: 5.1 Consensus size: 31
65794 TAAATTAAAC
65804 ATCTTAACATTAAAAATATATATTTTATT-TT
1 ATCTTAAC-TTAAAAATATATATTTTATTCTT
*
65835 ATCTTAACTTAAAAA-A-ATATTTTATTATT
1 ATCTTAACTTAAAAATATATATTTTATTCTT
* * *
65864 GTTTTAACTT-AAAATATATATTTTATTTTT
1 ATCTTAACTTAAAAATATATATTTTATTCTT
* * * **
65894 TTATTAAATTAAAAA-ATATAAGTTATTCTT
1 ATCTTAACTTAAAAATATATATTTTATTCTT
* * *
65924 ACCTTAACTTAAATATTTATATTTTATTCTT
1 ATCTTAACTTAAAAATATATATTTTATTCTT
65955 AT
1 AT
65957 AATATTTTAA
Statistics
Matches: 99, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
28 14 0.14
29 12 0.12
30 48 0.48
31 25 0.25
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (31 bp):
ATCTTAACTTAAAAATATATATTTTATTCTT
Found at i:66067 original size:37 final size:37
Alignment explanation
Indices: 65992--66060 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
65982 TAAAATATAT
* *
65992 TTTAAATAAAAATAATATATATATATATAAATTTAAA
1 TTTAAATAAAAATAATAAATATAAATATAAATTTAAA
*
66029 TTTAAATAAAAATAA-AAATA-AAATATACATTT
1 TTTAAATAAAAATAATAAATATAAATATAAATTT
66061 TTAAATTGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 10 0.34
36 4 0.14
37 15 0.52
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (37 bp):
TTTAAATAAAAATAATAAATATAAATATAAATTTAAA
Found at i:66077 original size:43 final size:43
Alignment explanation
Indices: 65995--66078 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
65985 AATATATTTT
* * *
65995 AAATAAAAATAATATATATATATATAAATTTAAATTTAAATAA
1 AAATAAAAATAAAATATACATATATAAATTCAAATTTAAATAA
* *
66038 AAATAAAAATAAAATATACATTTTTAAATTGCAAA-TTAAAT
1 AAATAAAAATAAAATATACATATATAAATT-CAAATTTAAAT
66079 CCTCTATGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 32 0.91
44 3 0.09
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (43 bp):
AAATAAAAATAAAATATACATATATAAATTCAAATTTAAATAA
Found at i:67088 original size:14 final size:12
Alignment explanation
Indices: 67045--67292 Score: 55
Period size: 12 Copynumber: 19.5 Consensus size: 12
67035 AAATTTAACT
67045 TTTTTTATTTTA
1 TTTTTTATTTTA
67057 TTATTTTATTAATTA
1 TT-TTTTATT--TTA
67072 TTTTTTATTCTTCA
1 TTTTTTATT-TT-A
** *
67086 TTTTTT-CGTTG
1 TTTTTTATTTTA
*
67097 TTTTTGA-TTTA
1 TTTTTTATTTTA
67108 TTTTTT-TATTT-
1 TTTTTTAT-TTTA
**
67119 TTCATTATATTT-
1 TTTTTTAT-TTTA
*
67131 TTATTTATTTTA
1 TTTTTTATTTTA
*
67143 TTTTTTCTTTCT-
1 TTTTTTATTT-TA
* *
67155 TTGATTTATTCTTT
1 TT-TTTTATT-TTA
*
67169 TTTTATTTTTCTTA
1 TTTT-TTATT-TTA
* *
67183 TTTTTCAATTTA
1 TTTTTTATTTTA
***
67195 TTTAAAATTTCT-
1 TTTTTTATTT-TA
67207 TTTCTTT-TTTTCA
1 TTT-TTTATTTT-A
*
67220 TTTTTTCTTTTGA
1 TTTTTTATTTT-A
*
67233 TTTATTATTTTA
1 TTTTTTATTTTA
67245 TTTTTT-TCTTTGA
1 TTTTTTAT-TTT-A
67258 TTATTTTAATATTTA
1 TT-TTTT-AT-TTTA
*
67273 TTTATTATTATTA
1 TTTTTTATT-TTA
67286 TTATTTT
1 TT-TTTT
67293 GTCTAACATT
Statistics
Matches: 174, Mismatches: 36, Indels: 50
0.67 0.14 0.19
Matches are distributed among these distances:
11 21 0.12
12 56 0.32
13 47 0.27
14 38 0.22
15 8 0.05
16 4 0.02
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:67120 original size:20 final size:19
Alignment explanation
Indices: 67048--67170 Score: 69
Period size: 18 Copynumber: 6.6 Consensus size: 19
67038 TTTAACTTTT
* *
67048 TTTATTTTATTATTTTATTA
1 TTTATTTTTTTATTTT-TGA
* * *
67068 ATTA-TTTTTTATTCTTCA
1 TTTATTTTTTTATTTTTGA
** *
67086 TTT-TTTCGTTGTTTTTGA
1 TTTATTTTTTTATTTTTGA
*
67104 TTTATTTTTTTATTTTTCA
1 TTTATTTTTTTATTTTTGA
* *
67123 -TTATATTTTTATTTAT--
1 TTTATTTTTTTATTTTTGA
67139 TTTATTTTTTCT-TTCTTTGA
1 TTTATTTTTT-TATT-TTTGA
67159 TTTATTCTTTTT
1 TTTATT-TTTTT
67171 TTATTTTTCT
Statistics
Matches: 77, Mismatches: 18, Indels: 16
0.69 0.16 0.14
Matches are distributed among these distances:
17 10 0.13
18 33 0.43
19 20 0.26
20 10 0.13
21 4 0.05
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTATTTTTTTATTTTTGA
Found at i:67129 original size:12 final size:10
Alignment explanation
Indices: 67097--67145 Score: 50
Period size: 9 Copynumber: 4.9 Consensus size: 10
67087 TTTTTCGTTG
67097 TTTTTGATTTA
1 TTTTT-ATTTA
67108 -TTTT-TTTA
1 TTTTTATTTA
67116 TTTTTCATTATA
1 TTTTT-ATT-TA
67128 TTTTTATTTA
1 TTTTTATTTA
67138 -TTTTATTT
1 TTTTTATTT
67146 TTTCTTTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
8 4 0.12
9 12 0.35
10 6 0.18
11 5 0.15
12 7 0.21
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:67130 original size:56 final size:52
Alignment explanation
Indices: 67048--67187 Score: 126
Period size: 58 Copynumber: 2.5 Consensus size: 52
67038 TTTAACTTTT
* *
67048 TTTATTTTATTA-TTTT-ATTAATTATTTTTTATTCTTCATTTTTTCGTTGTTTTTGA
1 TTTATTTTTTTATTTTTCATT-A-TATTTTTTATT-TT-ATTTTTTC-TT-TCTTTGA
67104 TTTATTTTTTTATTTTTCATTATATTTTTATTTATTTTATTTTTTCTTTCTTTGA
1 TTTATTTTTTTATTTTTCATTATA--TTT-TTTATTTTATTTTTTCTTTCTTTGA
67159 TTTATTCTTTTTTTATTTTTC-TTAT-TTTT
1 TTTA---TTTTTTTATTTTTCATTATATTTT
67188 CAATTTATTT
Statistics
Matches: 74, Mismatches: 2, Indels: 19
0.78 0.02 0.20
Matches are distributed among these distances:
53 1 0.01
54 3 0.04
55 10 0.14
56 15 0.20
57 17 0.23
58 22 0.30
59 6 0.08
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.76
Consensus pattern (52 bp):
TTTATTTTTTTATTTTTCATTATATTTTTTATTTTATTTTTTCTTTCTTTGA
Found at i:67161 original size:16 final size:15
Alignment explanation
Indices: 67104--67187 Score: 62
Period size: 16 Copynumber: 5.2 Consensus size: 15
67094 TTGTTTTTGA
*
67104 TTTATTTTTTTATTTT
1 TTTA-TTTTTTCTTTT
*
67120 TCATTATATTTTTATTTAT
1 T--TTAT-TTTTTCTTT-T
67139 TTTATTTTTTCTTTCT
1 TTTATTTTTTCTTT-T
* *
67155 TTGATTTATTCTTTT
1 TTTATTTTTTCTTTT
67170 TTTA-TTTTTCTTATT
1 TTTATTTTTTCTT-TT
67185 TTT
1 TTT
67188 CAATTTATTT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
14 7 0.12
15 9 0.16
16 22 0.39
17 5 0.09
18 12 0.21
19 2 0.04
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.79
Consensus pattern (15 bp):
TTTATTTTTTCTTTT
Found at i:67171 original size:25 final size:26
Alignment explanation
Indices: 67133--67181 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
67123 TTATATTTTT
67133 ATTTATTTTATTTTT-TCTTTCTTTG
1 ATTTATTTTATTTTTATCTTTCTTTG
*
67158 ATTTATTCTT-TTTTTATTTTTCTT
1 ATTTATT-TTATTTTTATCTTTCTT
67182 ATTTTTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (26 bp):
ATTTATTTTATTTTTATCTTTCTTTG
Found at i:67183 original size:20 final size:19
Alignment explanation
Indices: 67128--67187 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
67118 TTTCATTATA
67128 TTTTTATTTATTTTATTTT
1 TTTTTATTTATTTTATTTT
*
67147 TTCTTTCTTTGA-TTTATTCTT
1 TT-TTTATTT-ATTTTATT-TT
67168 TTTTTATTT-TTCTTATTTT
1 TTTTTATTTATT-TTATTTT
67187 T
1 T
67188 CAATTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
19 6 0.18
20 23 0.68
21 5 0.15
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTATTTATTTTATTTT
Found at i:67194 original size:57 final size:58
Alignment explanation
Indices: 67075--67197 Score: 148
Period size: 57 Copynumber: 2.1 Consensus size: 58
67065 TTAATTATTT
* *
67075 TTTATTCTTCATTTTTTCGTTGTTTTTGATTTATTTTTTTATTTTTCATTATATTTTTA
1 TTTATT-TTCATTTTTTCGTTGTCTTTGATTTATTTTTTTATTTTTCATTATATTTTAA
67134 TTTATTTT-ATTTTTTC-TT-TCTTTGATTTATTCTTTTTTTATTTTTC-TTAT-TTTTCAA
1 TTTATTTTCATTTTTTCGTTGTCTTTGATTTA---TTTTTTTATTTTTCATTATATTTT-AA
67191 TTTATTT
1 TTTATTT
67198 AAAATTTCTT
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
55 10 0.17
56 6 0.10
57 20 0.34
58 16 0.28
59 6 0.10
ACGTcount: A:0.15, C:0.07, G:0.03, T:0.75
Consensus pattern (58 bp):
TTTATTTTCATTTTTTCGTTGTCTTTGATTTATTTTTTTATTTTTCATTATATTTTAA
Found at i:67228 original size:61 final size:56
Alignment explanation
Indices: 67108--67249 Score: 142
Period size: 61 Copynumber: 2.4 Consensus size: 56
67098 TTTTGATTTA
* * *
67108 TTTTTTTATTTTTCATTATATTTTTATTTATTTTATTTTTTCTTTCTTTGATTTATTC
1 TTTTTTTATTTTTC-TTAT-TTTTAATTTATTTAATTTTTTCTTTCTTTCATTTATTC
* *
67166 TTTTTTTATTTTTCTTATTTTTCAATTTATTTAAAATTTCTTTTCTTTTTTTCATTTTTTC
1 TTTTTTTATTTTTCTTATTTTT-AATTTATTT--AA-TT-TTTTCTTTCTTTCATTTATTC
*
67227 TTTTGATTTATTATT-TTATTTTT
1 TTTT--TTTATTTTTCTTATTTTT
67250 TTCTTTGATT
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
56 4 0.06
57 12 0.17
58 14 0.20
59 1 0.01
60 2 0.03
61 22 0.31
62 8 0.11
63 8 0.11
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.75
Consensus pattern (56 bp):
TTTTTTTATTTTTCTTATTTTTAATTTATTTAATTTTTTCTTTCTTTCATTTATTC
Found at i:68065 original size:21 final size:21
Alignment explanation
Indices: 68025--68065 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
68015 AGGGGGCACC
*
68025 AGCAAGGAGAACTCGGGTACT
1 AGCAAGGAGAACTCGAGTACT
*
68046 AGCAAGGAGAACTTGAGTAC
1 AGCAAGGAGAACTCGAGTAC
68066 CTTTTTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.17, G:0.32, T:0.15
Consensus pattern (21 bp):
AGCAAGGAGAACTCGAGTACT
Found at i:72964 original size:84 final size:81
Alignment explanation
Indices: 72526--73835 Score: 1193
Period size: 84 Copynumber: 15.9 Consensus size: 81
72516 TTAAAGACAA
* * * * *
72526 CATTTGCATCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG--ACCAAAGACCTTCGAGTTCGACTACG
*
72591 TTCAGCTCCAAGGCACAT
64 CTCAGCTCCAAGGCACAT
* * * * * * * *
72609 TATTTGCAGCATAGCTTAAGTCGAGAATGGCTATCT-ACC---GACCCTCGAGTTCTATTACACT
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCT
* *
72670 CAGCTTCGAGGGCACAT
66 CAGC-TCCAAGGCACAT
* * * * * *
72687 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCAACTACG
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG--ACCAAAGACCTTCGAGTTCGACTACG
72752 CTCAGCTCCAAGGCACAT
64 CTCAGCTCCAAGGCACAT
* * * * * * * *
72770 TATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CTAAAG-GCTCTCGAGTTCAATTACAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCT-TCGAGTTCGACTACGC
* ***
72833 TCATCTTCTGGGGCACAT
65 TCAGC-TCCAAGGCACAT
* * * *
72851 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG--ACC-AAAGACCTTCGAGTTCGACTAC
*
72916 GCTCAGCTCCAAGGCATAT
63 GCTCAGCTCCAAGGCACAT
* *
72935 TATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCT-ACCAACTAAAGACCTTCGAGTTCGACTA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGA-C--C-AAAGACCTTCGAGTTCGACTA
*
72999 CGCTCAGCTCCAAGGCATAT
62 CGCTCAGCTCCAAGGCACAT
* * * * * * * ***
73019 CATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCTCAAGTTTGATTATATT
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCT
* *
73083 CAGCTTCAAGGGCACAC
66 CAGCTCCAA-GGCACAT
* * * * * *
73100 CATTTACAGCATAACTCAAGACTAGAAGGGTTATCTGTGACCAAAAAGATCTTCGATTTCGACTA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC--TGACC--AAAGACCTTCGAGTTCGACTA
* *
73165 CGCTCAGCTTCAAGGCATAT
62 CGCTCAGCTCCAAGGCACAT
73185 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG---ACCAAAGACCTTCGAGTTCGACTAC
*
73250 GCTCAGCTCTAAGGCACAT
63 GCTCAGCTCCAAGGCACAT
* * * * * * *
73269 CATTTGCAACATAACTTAAATCGAGAAGGGCTATCTG-CTAAAGACCCTCGAGTTCGATTACACT
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCT
*** * *
73333 CAGCTTTGAGGTAAAT
66 CAGCTCCAAGGCACAT
* * * * *
73349 CATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC--TGACC-AAAGACCTTCGAGTTCGACTAC
*
73414 GTTCAGCTCCAAGGCACAT
63 GCTCAGCTCCAAGGCACAT
* * * * * * *
73433 CATTTGCAGCATAGCTTAAGTCGATAAGGGCTATCTG-CCAAAGACCCTCAAGTTCGATTACACT
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCT
* *
73497 CAGCTTCGAGGGCACAT
66 CAGC-TCCAAGGCACAT
* * * * *
73514 TATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACG
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC--TGACCAAAGACCTTCGAGTTCGACTACG
*
73579 CTTAGCTCCAAGGCACAT
64 CTCAGCTCCAAGGCACAT
* * * *
73597 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCGAAGACCTTCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG---ACCAAAGACCTTCGAGTTCGACTAC
* * *
73662 ACTCAGCTTCGAGGGCACAT
63 GCTCAGC-TCCAAGGCACAT
* * * * * *
73682 CATTTACAACATAACTCAAGGCTAGAAGGGTTATATGCCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG--ACC-AAAGACCTTCGAGTTCGACTAC
73747 GCTCAGCTCCAAGGCACAT
63 GCTCAGCTCCAAGGCACAT
* * * * * *
73766 CATTTGCAACATAGCTTAAGTCGAGAATGGCTATCTG-CCAAAGACCTTCGAGTTCGATTACACT
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCT
73830 CAGCTC
66 CAGCTC
73836 AGAGGCAAAT
Statistics
Matches: 981, Mismatches: 206, Indels: 83
0.77 0.16 0.07
Matches are distributed among these distances:
77 21 0.02
78 37 0.04
79 2 0.00
80 166 0.17
81 122 0.12
82 5 0.01
83 113 0.12
84 363 0.37
85 122 0.12
86 30 0.03
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (81 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCT
CAGCTCCAAGGCACAT
Found at i:73380 original size:164 final size:163
Alignment explanation
Indices: 72526--73877 Score: 1561
Period size: 164 Copynumber: 8.2 Consensus size: 163
72516 TTAAAGACAA
* *
72526 CATTTGCATCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTAC
* * * **
72590 GTTCAGCTCCAAGGCACATTATTTGCAGCATAGCTTAAGTCGAGAATGGCTA--T-CTACCGACC
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACC
*
72652 CTCGAGTTCTATTACACTCAGCTTCGAGGGCACAT
130 CTCGAGTTCGATTACACTCAGCTTCGA-GGCACAT
* * *
72687 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCAACTACG
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACG
* * *
72752 CTCAGCTCCAAGGCACATTATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGGCTC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCC
* * *
72817 TCGAGTTCAATTACACTCATCTTCTGGGGCACAT
131 TCGAGTTCGATTACACTCAGCTTC-GAGGCACAT
72851 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTA
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-CAACC-AAAGACCTTCGAGTTCGACTA
* * * * * *
72915 CGCTCAGCTCCAAGGCATATTATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTACCAACTAA
64 CGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT----GCTAA
* * * * * *
72980 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
125 AGACCCTCGAGTTCGATTACACTCAGCTTCGAGGCACAT
* * * * * * * * * **
73019 CATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCAAGTTTGATTATA
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACG
* * * * * * * * * *
73081 TTCAGCTTCAAGGGCACACCATTTACAGCATAACTCAAGACTAGAAGGGTTATCTGTGACCAAAA
66 CTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG--C-TAA
* * * * * * *
73146 AGATCTTCGATTTCGACTACGCTCAGCTTCAAGGCATAT
125 AGACCCTCGAGTTCGATTACACTCAGCTTCGAGGCACAT
* * * *
73185 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTAC
* * * *
73250 GCTCAGCTCTAAGGCACATCATTTGCAACATAACTTAAATCGAGAAGGGCTATCTGCTAAAGACC
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACC
* * *
73315 CTCGAGTTCGATTACACTCAGCTTTGAGGTAAAT
130 CTCGAGTTCGATTACACTCAGCTTCGAGGCACAT
* **
73349 CATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCAACC-AAAGACCTTCGAGTTCGACTAC
* * *
73414 GTTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGATAAGGGCTATCTGCCAAAGACC
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACC
*
73479 CTCAAGTTCGATTACACTCAGCTTCGAGGGCACAT
130 CTCGAGTTCGATTACACTCAGCTTCGA-GGCACAT
* **
73514 TATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACG
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACG
* *
73579 CTTAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCGAAG
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CTA---AAG
*
73644 ACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
127 ACCCTCGAGTTCGATTACACTCAGCTTCGA-GGCACAT
* * *
73682 CATTTACAACATAACTCAAGGCTAGAAGGGTTATATGCCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCAACC-AAAGACCTTCGAGTTCGACTAC
* * *
73747 GCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAATGGCTATCTGCCAAAGACC
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACC
* *
73812 TTCGAGTTCGATTACACTCAGC-TCAGAGGCAAAT
130 CTCGAGTTCGATTACACTCAGCTTC-GAGGCACAT
* * **
73846 CAAATTTACAGAATAGCTCAAGGGAAGAAGGG
1 C--ATTTACAGCATAACTCAAGGCTAGAAGGG
73878 CTATTTGCCA
Statistics
Matches: 1032, Mismatches: 128, Indels: 57
0.85 0.11 0.05
Matches are distributed among these distances:
160 2 0.00
161 107 0.10
163 4 0.00
164 353 0.34
165 189 0.18
166 96 0.09
167 3 0.00
168 116 0.11
169 135 0.13
170 27 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (163 bp):
CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCC
TCGAGTTCGATTACACTCAGCTTCGAGGCACAT
Found at i:73908 original size:249 final size:247
Alignment explanation
Indices: 72648--73877 Score: 1348
Period size: 249 Copynumber: 4.9 Consensus size: 247
72638 GCTATCTACC
* * * * * * * * * *
72648 GACCCTCGAGTTCTATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGA
1 GACCTTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGA
** * *
72713 AGGGTTATCTGTAACCAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACATTATTTGCA
66 AGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCA
* * * * *
72778 GCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAG-GCTCTCGAGTTCAATTACACTCATCTTCT
131 GCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCT-TCGAGTTCGATTACACTCAGC-TCA
* *
72842 GGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAA
194 GAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGT-GCCAAAA
* * * *
72897 GACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATTATTTGCAGCATAACTTAAGTCAAGA
1 GACCTTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGA
* * * *
72961 AGGGTTATCTACCAACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTAC
66 AGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
* * * * *
73026 AGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTTGATTATATTCAGCTTCA
130 AGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGC-TCA
* *
73091 -AGGGCACACCATTTACAGCATAACTCAAGACTAGAAGGGTTATCTGTGACCAAAAA
194 GA-GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTG-CC-AAAA
* * * *
73147 GATCTTCGATTTCGACTACGCTCAGCTT-CAAGGCATATCATTTGCAGCATAACTTAAGTCGAGA
1 GACCTTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGA
*
73211 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGC
66 AGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
* * * * * **
73276 AACATAACTTAAATCGAGAAGGGCTATCTGCTAAAGACCCTCGAGTTCGATTACACTCAGCTTTG
130 AGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAG
* * *
73341 AGGTAAATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAA
195 AGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTG-CCAAAA
** * *
73395 GACCTTCGAGTTCGACTACGTTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGATA
1 GACCTTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGA
* * * * * * * * *
73459 AGGGCTATCTG---CCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATTATTTAC
66 AGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGC
* * * * * * * *
73521 AGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGCTTAGCT
130 AGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCTTCGAGTTCGATTACACTCAGCT
* * * * * *
73586 CCA-AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TGCCAACCGAA
192 -CAGAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGCCAA---AA
* * * * * * * *
73643 GACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGA
1 GACCTTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGA
*
73708 AGGGTTATATGCCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
66 AGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
* *
73773 AACATAGCTTAAGTCGAGAATGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAG
130 AGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAG
* * * **
73838 AGGCAAATCAAATTTACAGAATAGCTCAAGGGAAGAAGGG
195 AGGCACATC--ATTTACAGCATAACTCAAGGCTAGAAGGG
73878 CTATTTGCCA
Statistics
Matches: 822, Mismatches: 135, Indels: 46
0.82 0.13 0.05
Matches are distributed among these distances:
244 27 0.03
245 41 0.05
246 2 0.00
247 3 0.00
248 197 0.24
249 286 0.35
250 179 0.22
251 24 0.03
252 38 0.05
253 25 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (247 bp):
GACCTTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGA
AGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCA
GCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAGA
GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGCCAAAA
Found at i:75305 original size:16 final size:15
Alignment explanation
Indices: 75272--75325 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
75262 ATTATTTTTT
* *
75272 TTATTTTTTATAAAA
1 TTATTTTTTATTATA
*
75287 TTATTTTTTCTTCATA
1 TTATTTTTTATT-ATA
*
75303 TTATTTTTTATTTTA
1 TTATTTTTTATTATA
75318 TTATTTTT
1 TTATTTTT
75326 AAAATTTAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
15 20 0.61
16 13 0.39
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTTTTTATTATA
Found at i:75433 original size:17 final size:16
Alignment explanation
Indices: 75410--75452 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
75400 TTGTCTTTGA
75410 TTTATTTTTTT-ATTT
1 TTTATTTTTTTAATTT
75425 TCATTATTTTTTTAATTT
1 T--TTATTTTTTTAATTT
75443 TTTATTTTTT
1 TTTATTTTTT
75453 CTTTCTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.04
16 9 0.36
17 10 0.40
18 5 0.20
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTATTTTTTTAATTT
Found at i:75442 original size:9 final size:8
Alignment explanation
Indices: 75410--75543 Score: 69
Period size: 8 Copynumber: 16.4 Consensus size: 8
75400 TTGTCTTTGA
75410 TTTATTTT
1 TTTATTTT
75418 TTTATTTT
1 TTTATTTT
*
75426 CATTATTTT
1 -TTTATTTT
*
75435 TTTAATTT
1 TTTATTTT
75443 TTTATTTT
1 TTTATTTT
*
75451 TTCT-TTCT
1 TT-TATTTT
*
75459 TTGA-TTT
1 TTTATTTT
* *
75466 ATTCTTTT
1 TTTATTTT
75474 TTTATTTT
1 TTTATTTT
**
75482 TCAATTTAT
1 TTTATTT-T
*
75491 TTAAATTTT
1 TT-TATTTT
*
75500 CTT-TTTT
1 TTTATTTT
*
75507 TTCATTTT
1 TTTATTTT
*
75515 TTCT-TTTGA
1 TT-TATTT-T
75524 TTTATTTT
1 TTTATTTT
75532 TTTATTTAT
1 TTTATTT-T
75541 TTT
1 TTT
75544 TTTCTTTGAT
Statistics
Matches: 93, Mismatches: 22, Indels: 21
0.68 0.16 0.15
Matches are distributed among these distances:
7 8 0.09
8 59 0.63
9 21 0.23
10 5 0.05
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (8 bp):
TTTATTTT
Found at i:75465 original size:23 final size:23
Alignment explanation
Indices: 75410--75493 Score: 64
Period size: 23 Copynumber: 3.5 Consensus size: 23
75400 TTGTCTTTGA
* *
75410 TTTATTTTTTTATTTTCATTATTTT
1 TTTAATTTTTTATTTT--TTATTTC
*
75435 TTTAATTTTTTATTTTTTCTTTC
1 TTTAATTTTTTATTTTTTATTTC
*
75458 TTTGATTTATTCT-TTTTTTATTT-
1 TTTAATTT-TT-TATTTTTTATTTC
*
75481 TTCAATTTATTTA
1 TTTAATTT-TTTA
75494 AATTTTCTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 1 0.02
23 21 0.43
24 11 0.22
25 16 0.33
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (23 bp):
TTTAATTTTTTATTTTTTATTTC
Found at i:75472 original size:65 final size:63
Alignment explanation
Indices: 75351--75482 Score: 144
Period size: 65 Copynumber: 2.0 Consensus size: 63
75341 TTTCTTTTTC
*
75351 TTTTTATTTCATTAATTTTTTTAATTATTTTTTATTCTTCCTTTTTTCGTTGTCTTTGATTTATT
1 TTTTTATTTCATTAATTTTTTTAATTATTTTTTATTCTTCCTTTTTTC-ATGTCTTT-ATTTATT
* * * *
75416 TTTTTATTTTCATT-ATTTTTTTAATTTTTTATTTTTTCTTTCTTTGATTT-AT-TCTTTTTTTA
1 TTTTTA-TTTCATTAATTTTTTTAATTATTT-TTTATTCTTCCTTT--TTTCATGTCTTTATTTA
75478 TT
62 TT
75480 TTT
1 TTT
75483 CAATTTATTT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
64 9 0.16
65 26 0.45
66 20 0.34
68 3 0.05
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.75
Consensus pattern (63 bp):
TTTTTATTTCATTAATTTTTTTAATTATTTTTTATTCTTCCTTTTTTCATGTCTTTATTTATT
Found at i:75530 original size:17 final size:16
Alignment explanation
Indices: 75403--75546 Score: 79
Period size: 16 Copynumber: 8.9 Consensus size: 16
75393 TTTTTCGTTG
*
75403 TCTTTGATTTATTTTTT
1 TCTTTTATTTA-TTTTT
*
75420 TATTTTCA-TTATTTTT
1 TCTTTT-ATTTATTTTT
75436 T-TAATTT-TTTATTTTT
1 TCT--TTTATTTATTTTT
* *
75452 TCTTTCT-TTGATTTAT
1 TCTTT-TATTTATTTTT
75468 TCTTTT-TTTA-TTTT
1 TCTTTTATTTATTTTT
* **
75482 TCAATTTATTTAAATTT
1 TC-TTTTATTTATTTTT
*
75499 TCTTTTTTTTCATTTTT
1 TCTTTTATTT-ATTTTT
75516 TCTTTTGATTTATTTTT
1 TCTTTT-ATTTATTTTT
75533 T-TATTTATTT-TTTT
1 TCT-TTTATTTATTTT
75547 CTTTGATTAA
Statistics
Matches: 102, Mismatches: 13, Indels: 26
0.72 0.09 0.18
Matches are distributed among these distances:
14 5 0.05
15 14 0.14
16 43 0.42
17 36 0.35
18 4 0.04
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.76
Consensus pattern (16 bp):
TCTTTTATTTATTTTT
Found at i:75533 original size:12 final size:12
Alignment explanation
Indices: 75503--75545 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
75493 AAATTTTCTT
*
75503 TTTTTTCATTTT
1 TTTTTTCATTTA
*
75515 TTCTTTTGATTTA
1 TT-TTTTCATTTA
*
75528 TTTTTTTATTTA
1 TTTTTTCATTTA
75540 TTTTTT
1 TTTTTT
75546 TCTTTGATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (12 bp):
TTTTTTCATTTA
Found at i:75544 original size:13 final size:13
Alignment explanation
Indices: 75501--75546 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
75491 TTAAATTTTC
75501 TTTTTTTTCATTT-
1 TTTTTTTT-ATTTA
*
75514 TTTCTTTTGATTTA
1 TTT-TTTTTATTTA
75528 -TTTTTTTATTTA
1 TTTTTTTTATTTA
75540 TTTTTTT
1 TTTTTTT
75547 CTTTGATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 9 0.32
13 15 0.54
14 4 0.14
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.83
Consensus pattern (13 bp):
TTTTTTTTATTTA
Found at i:76160 original size:16 final size:16
Alignment explanation
Indices: 76139--76171 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
76129 ATAACTGGTC
76139 ACTATGTAGTTTACCT
1 ACTATGTAGTTTACCT
76155 ACTATGTAGTTTACCT
1 ACTATGTAGTTTACCT
76171 A
1 A
76172 AAATATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.42
Consensus pattern (16 bp):
ACTATGTAGTTTACCT
Found at i:78098 original size:210 final size:210
Alignment explanation
Indices: 77850--78708 Score: 1263
Period size: 210 Copynumber: 4.1 Consensus size: 210
77840 TGCGATGGGA
* * * * *
77850 AGAAGCAACAAGCTTGCTCAATAGGATGATGAATGAAGGTGTCCATCCTGATGTTGTGATTTTCA
1 AGAAGCAACAAGCTTGCTCGATAGAATGATGAATGAAGGAGTCCATCCTAATGTTGTGACTTTCA
*
77915 ATTCTTTAATCAATGCTTTTTGCAAGGAAAAGAGGACCGAAGAAGCCATTACCATGTTGGAGTTG
66 ATTCTTTAATCAATGCTTTTTGCAAGGAAAAGAGGACCGAAGAAGCCATTACCATGTTGGAATTG
* * *
77980 ATGAGTCAGAGGAATGTAAAACCCGACATTGTAACCTACAATTGTTTAATACATGGATTTTGCAA
131 ATGAGTCAGAGGAATGTAAAACCCGACATAGTCACCTACAATTGTTTAATACATGGATTCTGCAA
78045 TTCAGGTAAATGGAC
196 TTCAGGTAAATGGAC
* *
78060 TGAAGCAACAAGCTTGCTCGATAGAATGATGAATGAAGGTGTCCATCCTAATGTTGTGACTTTCA
1 AGAAGCAACAAGCTTGCTCGATAGAATGATGAATGAAGGAGTCCATCCTAATGTTGTGACTTTCA
* *
78125 GTTCTTTAATCAATGCTTTTTGCAAGGAAAAGAGGACCAAAGAAGCCATTACCATGTTGGAATTG
66 ATTCTTTAATCAATGCTTTTTGCAAGGAAAAGAGGACCGAAGAAGCCATTACCATGTTGGAATTG
* * *
78190 ATGAGTCAGACGAATGTAAAACCCAACATTA-TCACCTACAATTGTTTGATACATGGATTCTGCA
131 ATGAGTCAGAGGAATGTAAAACCCGACA-TAGTCACCTACAATTGTTTAATACATGGATTCTGCA
78254 ATTCAGGTAAATGGAC
195 ATTCAGGTAAATGGAC
* *
78270 AGAAGCAACAAGCTTGCTCGATAGAATGATGAATGAAGGAGTTCATCCTGATGTTGTGACTTTCA
1 AGAAGCAACAAGCTTGCTCGATAGAATGATGAATGAAGGAGTCCATCCTAATGTTGTGACTTTCA
* *
78335 ATTCTTTAATCAATGCTTTTTGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTG
66 ATTCTTTAATCAATGCTTTTTGCAAGGAAAAGAGGACCGAAGAAGCCATTACCATGTTGGAATTG
* * *
78400 ATGAGTCAGAGGAATGTAAAACCTGACATAGTCACCTACAGTTGTTTGATACATGGATTCTGCAA
131 ATGAGTCAGAGGAATGTAAAACCCGACATAGTCACCTACAATTGTTTAATACATGGATTCTGCAA
78465 TTCAGGTAAATGGAC
196 TTCAGGTAAATGGAC
* * * * * *
78480 AGAAGCAACAAACTTGCTCGAGAGAATGATGAATGACGGAATCCATCCTAATGTAGTAACTTTCA
1 AGAAGCAACAAGCTTGCTCGATAGAATGATGAATGAAGGAGTCCATCCTAATGTTGTGACTTTCA
* * * * * * * *
78545 ATTCTTTAATCGATGCTTTATGCAAGGAAAAGAGAACAGAAGAAGCCATTACCTTATTGGAAGTA
66 ATTCTTTAATCAATGCTTTTTGCAAGGAAAAGAGGACCGAAGAAGCCATTACCATGTTGGAATTG
* * * ** *
78610 ATGAGTCAAAGAAATGTAAAACCTGACATAGTCACCTACGGTTGTTTAATACATGGATTGTGCAA
131 ATGAGTCAGAGGAATGTAAAACCCGACATAGTCACCTACAATTGTTTAATACATGGATTCTGCAA
* **
78675 ATCAGGCCAATGTGA-
196 TTCAGGTAAATG-GAC
*
78690 AGAAGCCACAAGCTTGCTC
1 AGAAGCAACAAGCTTGCTC
78709 AGTAAGATGG
Statistics
Matches: 594, Mismatches: 52, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
209 2 0.00
210 589 0.99
211 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (210 bp):
AGAAGCAACAAGCTTGCTCGATAGAATGATGAATGAAGGAGTCCATCCTAATGTTGTGACTTTCA
ATTCTTTAATCAATGCTTTTTGCAAGGAAAAGAGGACCGAAGAAGCCATTACCATGTTGGAATTG
ATGAGTCAGAGGAATGTAAAACCCGACATAGTCACCTACAATTGTTTAATACATGGATTCTGCAA
TTCAGGTAAATGGAC
Found at i:83991 original size:19 final size:21
Alignment explanation
Indices: 83967--84008 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
83957 AAAATAATCT
*
83967 TATTCA-AACTAT-TAGACAA
1 TATTCATAACTATATAGAAAA
83986 TATTCATAACTATATAGAAAA
1 TATTCATAACTATATAGAAAA
84007 TA
1 TA
84009 GAAGAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 8 0.40
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (21 bp):
TATTCATAACTATATAGAAAA
Found at i:85061 original size:11 final size:11
Alignment explanation
Indices: 85045--85073 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
85035 GGGAATATTC
85045 GTTTTGCAGTT
1 GTTTTGCAGTT
85056 GTTTTGCAGTT
1 GTTTTGCAGTT
85067 GTTTTGC
1 GTTTTGC
85074 TGATAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.10, G:0.28, T:0.55
Consensus pattern (11 bp):
GTTTTGCAGTT
Found at i:85988 original size:210 final size:210
Alignment explanation
Indices: 85621--86219 Score: 867
Period size: 210 Copynumber: 2.9 Consensus size: 210
85611 CGTAAAGGTG
*
85621 ACCTACAATTCTTTGATTCATGGATTTTGTCATTCAGGGAAATGGGAAGAAGCGACAAGCTTGCT
1 ACCTACAATTCTTTGATTCACGGATTTTGTCATTCAGGGAAATGGGAAGAAGCGACAAGCTTGCT
*
85686 CGATAGAATGATGAATGAAAGAGTCGATCCTGATGTAGTAACTTTCAATTCTTTTATCAATTCTT
66 CGATAGAATGATGAATGAAAGAGTCGATCCTGATGTAGTAACTTTCAATTCTTTTATCAATGCTT
*
85751 TATGCAGGGAAAAGAGAACCGAAGAAGCCAACACCATGTTGGAACTAATGTGTCAAAGAAATGTA
131 TATGCAGGGAAAAGAGAACCAAAGAAGCCAACACCATGTTGGAACTAATGTGTCAAAGAAATGTA
* *
85816 AAATCAGACGCCATC
196 AAACCAGAAGCCATC
* *
85831 ACCTACAATTCTTTGATTCACGGATTTTGTTATTCAGGGAAATGGGAAGAAGCGACAAGTTTGCT
1 ACCTACAATTCTTTGATTCACGGATTTTGTCATTCAGGGAAATGGGAAGAAGCGACAAGCTTGCT
* * *
85896 CCATAGAATGATGAATGAAAGAGTTGATCCTGATGTAGCAACTTTCAATTCTTTTATCAATGCTT
66 CGATAGAATGATGAATGAAAGAGTCGATCCTGATGTAGTAACTTTCAATTCTTTTATCAATGCTT
* * *
85961 TATGCGGGGAAAAGAGAACCAAAGAAGCCAACACCATGTTGGAGCTACTGTGTCAAAGAAATGTA
131 TATGCAGGGAAAAGAGAACCAAAGAAGCCAACACCATGTTGGAACTAATGTGTCAAAGAAATGTA
* * *
86026 AAACCAGAAGTCGTG
196 AAACCAGAAGCCATC
**
86041 ACCTACAATTCTTTGATTCACGGATTTTGTCATTCAGGGAAATGGGAAGAAGCGATGAGCTTGCT
1 ACCTACAATTCTTTGATTCACGGATTTTGTCATTCAGGGAAATGGGAAGAAGCGACAAGCTTGCT
* * * * * * * * * * *
86106 TGATAGGATGATGAATGAAGGAGTCCATCCTGATGTTGTGACCTTCAGTTCATTAATCGATG-TT
66 CGATAGAATGATGAATGAAAGAGTCGATCCTGATGTAGTAACTTTCAATTCTTTTATCAATGCTT
* * * ** * *
86170 TATGCAAGGAAAAGAGGACTAAAGAAGCCATTACAATGTTTGAACTAATG
131 TATGCAGGGAAAAGAGAACCAAAGAAGCCAACACCATGTTGGAACTAATG
86220 GTTCAGAGAG
Statistics
Matches: 345, Mismatches: 44, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
209 42 0.12
210 303 0.88
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (210 bp):
ACCTACAATTCTTTGATTCACGGATTTTGTCATTCAGGGAAATGGGAAGAAGCGACAAGCTTGCT
CGATAGAATGATGAATGAAAGAGTCGATCCTGATGTAGTAACTTTCAATTCTTTTATCAATGCTT
TATGCAGGGAAAAGAGAACCAAAGAAGCCAACACCATGTTGGAACTAATGTGTCAAAGAAATGTA
AAACCAGAAGCCATC
Found at i:98841 original size:210 final size:209
Alignment explanation
Indices: 98508--99120 Score: 678
Period size: 210 Copynumber: 2.9 Consensus size: 209
98498 GGCGATGCGA
* * * *
98508 AGAAGCAACAAGCTTGCTTAATAGGATGATGAATGAAGGTGTCCATCCTGATGTCGTGACTTTCA
1 AGAAGCGACAAACTTGCTTAATAGAATGATGAATGAAGGAGTCCATCCTGATGT-GTGACTTTCA
* * * * * *
98573 GTTCTTTAAT-AGGA-GCTTTATGCAGGGAAAAGAGAACTGAAGAAGCCAATACCATGTTGGAAT
65 GTTCTTTAATCA--ATGCTTTATGCAAGGAAAAGAGAATTAAAGAAGCCATTAACATGTTGGAAC
* * *
98636 TAATGTGTCAAAGAAATGTAAAACCCAACATTGTCACCTATAGTTGTTTAATAGATGGATTGTGC
128 TAATGAGTCAGAGAAATGTAAAACCCAACATTGTCACCTACAGTTGTTTAATAGATGGATTGTGC
*
98701 AAATCAAATAAATGGAC
193 AAATCAAAAAAATGGAC
* * * * * *
98718 AGAAGCGACAATCTTG-TTCAATAGAATGTTGAATGAAGGAATCCGTCCTGATGTAGTAACCTTC
1 AGAAGCGACAAACTTGCTT-AATAGAATGATGAATGAAGGAGTCCATCCTGATGT-GTGACTTTC
* ** * **
98782 AGTTCTTTAATCAATGCTTTATGCAAGGAACAGAGGGTTAAAGAAGCCGTTGTCATGTTGGAACT
64 AGTTCTTTAATCAATGCTTTATGCAAGGAAAAGAGAATTAAAGAAGCCATTAACATGTTGGAACT
** * * * * **
98847 AATGAGTCAGAGAAATGTAATTCCAAATATTGTCACATACAATTGTTTAATAGATGGATTCAGCA
129 AATGAGTCAGAGAAATGTAAAACCCAACATTGTCACCTACAGTTGTTTAATAGATGGATTGTGCA
*
98912 AATCAAAAAAATGGAT
194 AATCAAAAAAATGGAC
* * * * * *
98928 AGAATCGATAAACTTGCTTGATAGAATGATGGATGAAGGAGTCCATCCTCATGT-TGACTTTCAA
1 AGAAGCGACAAACTTGCTTAATAGAATGATGAATGAAGGAGTCCATCCTGATGTGTGACTTTCAG
* * * * *
98992 TTCTTTGATCAATGCTTTATGCAAGGAAAAGAAAATCAAAGAAGCCATTAACATGTTGGAGCTAT
66 TTCTTTAATCAATGCTTTATGCAAGGAAAAGAGAATTAAAGAAGCCATTAACATGTTGGAACTAA
* * * * *
99057 TGAGTCGGAGAAATGT-AAACCCTGACATTGTCACCTGCGGTTGTTTAATACATGGATTGTGCAA
131 TGAGTCAGAGAAATGTAAAACCC-AACATTGTCACCTACAGTTGTTTAATAGATGGATTGTGCAA
99121 TTCAGGCCAA
Statistics
Matches: 328, Mismatches: 70, Indels: 12
0.80 0.17 0.03
Matches are distributed among these distances:
207 3 0.01
208 108 0.33
209 3 0.01
210 211 0.64
211 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (209 bp):
AGAAGCGACAAACTTGCTTAATAGAATGATGAATGAAGGAGTCCATCCTGATGTGTGACTTTCAG
TTCTTTAATCAATGCTTTATGCAAGGAAAAGAGAATTAAAGAAGCCATTAACATGTTGGAACTAA
TGAGTCAGAGAAATGTAAAACCCAACATTGTCACCTACAGTTGTTTAATAGATGGATTGTGCAAA
TCAAAAAAATGGAC
Found at i:107416 original size:31 final size:31
Alignment explanation
Indices: 107378--107441 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
107368 TGGTGACTAC
107378 ATCTTAATTAAATAAAAACGAAAGT-GATCAT
1 ATCTTAATTAAATAAAAACGAAAGTAG-TCAT
*
107409 ATCTTAATTAAATAAAAATGAAAGTAGTCAT
1 ATCTTAATTAAATAAAAACGAAAGTAGTCAT
107440 AT
1 AT
107442 ATTATATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.31
Consensus pattern (31 bp):
ATCTTAATTAAATAAAAACGAAAGTAGTCAT
Found at i:115610 original size:20 final size:20
Alignment explanation
Indices: 115564--115610 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
115554 AGCTTACTTA
*
115564 AAAAAACTTATTATATTTTT
1 AAAAAACTTAATATATTTTT
115584 AATAAAAC-TAATATATGTTTT
1 AA-AAAACTTAATATAT-TTTT
115605 AAAAAA
1 AAAAAA
115611 TAGTTGTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (20 bp):
AAAAAACTTAATATATTTTT
Found at i:118988 original size:65 final size:65
Alignment explanation
Indices: 118884--119028 Score: 290
Period size: 65 Copynumber: 2.2 Consensus size: 65
118874 CCGTTAAATG
118884 TTAACATAAATTTAATCATCTGTGTCATCATCTGATTATATGATTTAACTTAATAAGTTTATGAT
1 TTAACATAAATTTAATCATCTGTGTCATCATCTGATTATATGATTTAACTTAATAAGTTTATGAT
118949 TTAACATAAATTTAATCATCTGTGTCATCATCTGATTATATGATTTAACTTAATAAGTTTATGAT
1 TTAACATAAATTTAATCATCTGTGTCATCATCTGATTATATGATTTAACTTAATAAGTTTATGAT
119014 TTAACATAAATTTAA
1 TTAACATAAATTTAA
119029 CCATTGTCCT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 80 1.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.44
Consensus pattern (65 bp):
TTAACATAAATTTAATCATCTGTGTCATCATCTGATTATATGATTTAACTTAATAAGTTTATGAT
Found at i:121838 original size:16 final size:16
Alignment explanation
Indices: 121817--121847 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
121807 CTTTTCTAAG
121817 CGAGAATGATTTCAAA
1 CGAGAATGATTTCAAA
121833 CGAGAATGATTTCAA
1 CGAGAATGATTTCAA
121848 TACTTCTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (16 bp):
CGAGAATGATTTCAAA
Found at i:124619 original size:13 final size:14
Alignment explanation
Indices: 124601--124634 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
124591 ATAATGAAAC
124601 TTTATTAAAC-ACA
1 TTTATTAAACAACA
*
124614 TTTATTCAACAACA
1 TTTATTAAACAACA
124628 TTTATTA
1 TTTATTA
124635 TAATTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTATTAAACAACA
Found at i:126919 original size:20 final size:20
Alignment explanation
Indices: 126891--126928 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
126881 TTTGGTTCAC
126891 GGAACATAAGATTACCAGTG
1 GGAACATAAGATTACCAGTG
*
126911 GGAATATAAGATTACCAG
1 GGAACATAAGATTACCAG
126929 AGAATGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
GGAACATAAGATTACCAGTG
Found at i:128301 original size:2 final size:2
Alignment explanation
Indices: 128294--128333 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
128284 TTAATTGAAA
*
128294 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
128334 TATTGTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.