Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014463.1 Kokia drynarioides strain JFW-HI SEQ_129502, 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: 129719
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Found at i:2114 original size:13 final size:13
Alignment explanation
Indices: 2093--2123 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2083 AATAAATGAA
2093 AAATAAATAAATT
1 AAATAAATAAATT
*
2106 AAATCAATAAATT
1 AAATAAATAAATT
2119 AAATA
1 AAATA
2124 TCAAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAAATAAATT
Found at i:8281 original size:20 final size:18
Alignment explanation
Indices: 8229--8296 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
8219 AAGTTTCAAT
*
8229 AAATAAAAAATA-TATAA
1 AAATAAAAAATATTAAAA
* **
8246 AATTATTAAATATTAAAATA
1 AAATAAAAAATATT-AAA-A
*
8266 AAATAAAAAATTTTAAAA
1 AAATAAAAAATATTAAAA
8284 AAATAAAAAATAT
1 AAATAAAAAATAT
8297 GAAGGAACCT
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
17 9 0.23
18 14 0.36
19 5 0.13
20 11 0.28
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAAAAATATTAAAA
Found at i:8748 original size:37 final size:36
Alignment explanation
Indices: 8662--8750 Score: 87
Period size: 37 Copynumber: 2.4 Consensus size: 36
8652 AATAACATAT
*
8662 AATAAAT-AATAAAATATATGATTTAAAATTAATTAG
1 AATAAATAAATAAAATATATAATTTAAAATTAA-TAG
*
8698 TAAT-AATATATAAAATATGTATAATATTAAAATTAA-A-
1 -AATAAATAAATAAAATA--TATAAT-TTAAAATTAATAG
8735 AATAAATAAATAAAAT
1 AATAAATAAATAAAAT
8751 TATTTATCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
36 6 0.14
37 22 0.50
38 1 0.02
39 5 0.11
40 10 0.23
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (36 bp):
AATAAATAAATAAAATATATAATTTAAAATTAATAG
Found at i:16750 original size:11 final size:10
Alignment explanation
Indices: 16734--16774 Score: 55
Period size: 10 Copynumber: 3.8 Consensus size: 10
16724 TTATTTTAGG
16734 TTTAAATTTA
1 TTTAAATTTA
16744 TTATAAATTTAA
1 TT-TAAATTT-A
16756 GTTTAAATTTA
1 -TTTAAATTTA
16767 TTTAAATT
1 TTTAAATT
16775 AAAAATTCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.36
11 8 0.29
12 8 0.29
13 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
TTTAAATTTA
Found at i:16754 original size:17 final size:17
Alignment explanation
Indices: 16714--16760 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
16704 GAGCCCAACA
*
16714 AAATTTAAATTTATTTT
1 AAATTTAAATTTATTAT
**
16731 AGGTTTAAATTTATTAT
1 AAATTTAAATTTATTAT
*
16748 AAATTTAAGTTTA
1 AAATTTAAATTTA
16761 AATTTATTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
AAATTTAAATTTATTAT
Found at i:16754 original size:23 final size:22
Alignment explanation
Indices: 16728--16774 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
16718 TTAAATTTAT
*
16728 TTTAGGTTTAAATTTATTATAAA
1 TTTAAGTTTAAATTTATT-TAAA
16751 TTTAAGTTTAAATTTATTTAAA
1 TTTAAGTTTAAATTTATTTAAA
16773 TT
1 TT
16775 AAAAATTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (22 bp):
TTTAAGTTTAAATTTATTTAAA
Found at i:17475 original size:12 final size:12
Alignment explanation
Indices: 17437--17506 Score: 72
Period size: 12 Copynumber: 5.8 Consensus size: 12
17427 TAAGTTAACA
17437 AGTAATAAAATAT
1 AGTAAT-AAATAT
*
17450 AGTCATAAAT-T
1 AGTAATAAATAT
17461 AGTAATAAATAT
1 AGTAATAAATAT
*
17473 AGTAATGAATAAT
1 AGTAATAAAT-AT
*
17486 ATTAAT-AATATT
1 AGTAATAAATA-T
17498 AGTAATAAA
1 AGTAATAAA
17507 GAAATAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
11 11 0.23
12 23 0.48
13 14 0.29
ACGTcount: A:0.56, C:0.01, G:0.09, T:0.34
Consensus pattern (12 bp):
AGTAATAAATAT
Found at i:18673 original size:30 final size:30
Alignment explanation
Indices: 18618--18771 Score: 144
Period size: 30 Copynumber: 5.2 Consensus size: 30
18608 TGAACTGTCC
* *
18618 AAAAATTACA-TTTA-ACCATAAACTTTCT
1 AAAAATTACATTTTAGCCCCTAAACTTTCT
*
18646 AAAAATTATATTTTAAGCCCC-AAACTTTCT
1 AAAAATTACATTTT-AGCCCCTAAACTTTCT
18676 AAAAATTACATTTTGAG--CCTAGAACTTTCT
1 AAAAATTACATTTT-AGCCCCTA-AACTTTCT
*
18706 AAAAATTATATTTT-GCCCCTAAACTTT-T
1 AAAAATTACATTTTAGCCCCTAAACTTTCT
* *
18734 CAAAAAGTACATTTTTA-CCCCTAAACTTTTCA
1 -AAAAATTACA-TTTTAGCCCCTAAAC-TTTCT
18766 AAAAAT
1 AAAAAT
18772 CACAAATTTC
Statistics
Matches: 104, Mismatches: 10, Indels: 21
0.77 0.07 0.16
Matches are distributed among these distances:
28 13 0.12
29 18 0.17
30 63 0.61
31 10 0.10
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.36
Consensus pattern (30 bp):
AAAAATTACATTTTAGCCCCTAAACTTTCT
Found at i:18710 original size:60 final size:58
Alignment explanation
Indices: 18617--18771 Score: 174
Period size: 60 Copynumber: 2.6 Consensus size: 58
18607 TTGAACTGTC
18617 CAAAAATTACA-TTTAACCATAAACTTTCTAAAAATTATATTTTAAGCCCC-AAAC-TTT
1 CAAAAATTACATTTTAACCATAAACTTTCTAAAAATTATATTTT--GCCCCTAAACTTTT
*
18674 CTAAAAATTACATTTTGAGCC-TAGAACTTTCTAAAAATTATATTTTGCCCCTAAACTTTT
1 C-AAAAATTACATTTT-AACCATA-AACTTTCTAAAAATTATATTTTGCCCCTAAACTTTT
* * * *
18734 CAAAAAGTACATTTTTACCCCTAAACTTTTCAAAAAAT
1 CAAAAATTACA-TTTTAACCATAAAC-TTTCTAAAAAT
18772 CACAAATTTC
Statistics
Matches: 85, Mismatches: 4, Indels: 15
0.82 0.04 0.14
Matches are distributed among these distances:
57 1 0.01
58 15 0.18
59 24 0.28
60 45 0.53
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.36
Consensus pattern (58 bp):
CAAAAATTACATTTTAACCATAAACTTTCTAAAAATTATATTTTGCCCCTAAACTTTT
Found at i:18813 original size:29 final size:29
Alignment explanation
Indices: 18781--18988 Score: 244
Period size: 29 Copynumber: 7.2 Consensus size: 29
18771 TCACAAATTT
* * *
18781 CCCTCGAACTTGCAAAAATT-CTATTTTTA
1 CCCTCGAACATCCAAAAATTACCA-TTTTA
* *
18810 CCCTCAAACTTCCAAAAATTACCATTTTA
1 CCCTCGAACATCCAAAAATTACCATTTTA
*
18839 CCCTCGAGCATCCAAAAATTACCATTTTA
1 CCCTCGAACATCCAAAAATTACCATTTTA
*
18868 CCCTCGAGCATCCAAAAATTACCATTTTA
1 CCCTCGAACATCCAAAAATTACCATTTTA
* **
18897 CCCTCGGATGTCCAAAAATTACCATTTTGA
1 CCCTCGAACATCCAAAAATTACCATTTT-A
*
18927 -TCTCGAACATTCCAAAAATTACCA-TTTA
1 CCCTCGAACA-TCCAAAAATTACCATTTTA
*
18955 -CCTCGAACATCTAAAAAATTACCATTTTA
1 CCCTCGAACATC-CAAAAATTACCATTTTA
18984 CCCTC
1 CCCTC
18989 AGATGTCTGA
Statistics
Matches: 157, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
27 2 0.01
28 20 0.13
29 114 0.73
30 21 0.13
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.31
Consensus pattern (29 bp):
CCCTCGAACATCCAAAAATTACCATTTTA
Found at i:30271 original size:40 final size:42
Alignment explanation
Indices: 30200--30277 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
30190 AATAAAAAGA
30200 AAAAAAAGATTGAGATGAAAACCCACAAAAGGGCGTCTCGAT
1 AAAAAAAGATTGAGATGAAAACCCACAAAAGGGCGTCTCGAT
* *
30242 AAAAAAA-ATT-AGGATGAAAGCCCGC-AAAGGGCGTCT
1 AAAAAAAGATTGA-GATGAAAACCCACAAAAGGGCGTCT
30278 TAAAACCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 12 0.36
41 14 0.42
42 7 0.21
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (42 bp):
AAAAAAAGATTGAGATGAAAACCCACAAAAGGGCGTCTCGAT
Found at i:31533 original size:198 final size:198
Alignment explanation
Indices: 31180--32306 Score: 1507
Period size: 209 Copynumber: 5.5 Consensus size: 198
31170 GATATTGAGA
* * * * *
31180 AGTGGACCGAATTCTTCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAGTGATGCGATCAT
1 AGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGCGGTCAT
* *
31245 CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGCTAGGCTCAATGTGAGCAAATCTT
66 CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGCCAGGCTCAAAGTGAGCAAATCTT
* * * *
31310 CGAACCCCAGCTTCCTGATGAGATACTCAGAAGTAGGTCGAAGCAATAAAATAGTTAGCATCCTG
131 CGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTG
31375 ATG
196 ATG
31378 AGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGCGGTCAT
1 AGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGCGGTCAT
*
31443 CTTCCTGATGAGATACTGAGAAGTAGGCCAAATCAATGAAGCCAGGCTCAAAGTGAGCAAATCTT
66 CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGCCAGGCTCAAAGTGAGCAAATCTT
* * *
31508 CGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCTTCTTG
131 CGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTG
31573 ATG
196 ATG
31576 AGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGT
1 AG----T--G-A----ACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGT
*
31641 GATGCTGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGCCAGGCTCAAAGT
55 GATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGCCAGGCTCAAAGT
* * *
31706 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTTGAAGTAATAAAATGG
120 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGG
31771 TTAGCTTCCTGATG
185 TTAGCTTCCTGATG
* * * *
31785 AGTGGATCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGGAACAAGTGATACGGTCAT
1 AGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGCGGTCAT
*
31850 CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGCCAGACTCAAAGTGAGCAAATCTT
66 CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGCCAGGCTCAAAGTGAGCAAATCTT
* * * * *
31915 TGAACCCCAACTTCTTGATGAGATACTGAGAAGCAAGTTGAAGCAATAAAATGGTTAGCTTCCTG
131 CGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTG
31980 ATG
196 ATG
*
31983 AGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCGGATTGAAACAAGT
1 AG----T--G-A----ACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGT
* * *
32048 GATGTGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGCCAAGCTCAAAGT
55 GATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGCCAGGCTCAAAGT
* * ** *
32113 AAGCAAATCTTCGAACCCCAGCTTTCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGA
120 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGG
*
32178 TTACCTTCCCGATGAGATACAAAG
185 TTAGCTT-CC--T--GAT-----G
* * * * * ** * *
32202 AAGTGAACCAGATCCGTCTTCTTGATGAGACACAGAGAAGTGGATCAAAACAAGTAATGCAGTCA
1 -AGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGCGGTCA
* *
32267 TCTTCCTGATGAGACACTGAGAAGTGGACCAAATCAATGA
65 TCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGA
32307 CACCAAGCCA
Statistics
Matches: 827, Mismatches: 69, Indels: 55
0.87 0.07 0.06
Matches are distributed among these distances:
198 369 0.45
202 2 0.00
203 1 0.00
204 2 0.00
205 2 0.00
209 439 0.53
210 2 0.00
212 1 0.00
213 1 0.00
214 4 0.00
216 1 0.00
219 1 0.00
220 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (198 bp):
AGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGCGGTCAT
CTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGCCAGGCTCAAAGTGAGCAAATCTT
CGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTG
ATG
Found at i:31922 original size:407 final size:408
Alignment explanation
Indices: 31157--32306 Score: 1750
Period size: 407 Copynumber: 2.8 Consensus size: 408
31147 TTCGAACCCC
* * * *
31157 AGCTTCCTGATGAGATATTGAGAAGTGGACCGAATTCTTCTTCCTGATGAGATACAGAGAAGCGA
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
31222 ATTGAAACAAGTGATGC-GATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAG
66 ATTGAAACAAGTGATGCTGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAG
* * * *
31286 CTAGGCTCAATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTCAGAAGTAGGTCGA
131 CCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGA
31351 AGCAATAAAATAGTTAGCATCCTGATGAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAA
196 AGCAATAAAATAGTTAGCATCCTGATGAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAA
* *
31416 GCGGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGGCCAAATCAATG
261 GCGGATTGAAACAAGTGATACGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATG
* *
31481 AAGCCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGT
326 AAGCCAGACTCAAAGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAAGT
31546 CAAAGCAATAAAATGGTT
391 CAAAGCAATAAAATGGTT
*
31564 AGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
31629 ATTGAAACAAGTGATGCTG-TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAG
66 ATTGAAACAAGTGATGCTGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAG
*
31693 CCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTTGA
131 CCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGA
* * * * *
31758 AGTAATAAAATGGTTAGCTTCCTGATGAGTGGATCAAATTCGTCTTCCTGATGAGATACAGAGAA
196 AGCAATAAAATAGTTAGCATCCTGATGAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAA
*
31823 GCGGATTGGAACAAGTGATACGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATG
261 GCGGATTGAAACAAGTGATACGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATG
* *
31888 AAGCCAGACTCAAAGTGAGCAAATCTTTGAACCCCAACTTCTTGATGAGATACTGAGAAGCAAGT
326 AAGCCAGACTCAAAGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAAGT
**
31953 TGAAGCAATAAAATGGTT
391 CAAAGCAATAAAATGGTT
* *
31971 AGCTTCCTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
32036 ATTGAAACAAGTGATG-TGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAG
66 ATTGAAACAAGTGATGCTGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAG
* * * *
32100 CCAAGCTCAAAGTAAGCAAATCTTCGAACCCCAGCTTTCTGATGAGATACTGAGAAGCAGGTCGA
131 CCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGA
** * * * * *
32165 AGCAAT-AAAGCGATTACCTTCCCGATGAGATACAAAGAAGTGAACCAGATCCGTCTTCTTGATG
196 AGCAATAAAATAG-TTAGCAT-CC--T--GAT-----G-AGTGAACCAAATTCGTCTTCCTGATG
* * ** * * * * *
32229 AGACACAGAGAAGTGGATCAAAACAAGTAATGCAGTCATCTTCCTGATGAGACACTGAGAAGTGG
249 AGATACAGAGAAGCGGATTGAAACAAGTGATACGGTCATCTTCCTGATGAGATACTGAGAAGTAG
32294 ACCAAATCAATGA
314 ACCAAATCAATGA
32307 CACCAAGCCA
Statistics
Matches: 678, Mismatches: 51, Indels: 17
0.91 0.07 0.02
Matches are distributed among these distances:
406 6 0.01
407 575 0.85
408 3 0.00
410 1 0.00
412 3 0.00
417 1 0.00
418 89 0.13
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (408 bp):
AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
ATTGAAACAAGTGATGCTGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAG
CCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGA
AGCAATAAAATAGTTAGCATCCTGATGAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAA
GCGGATTGAAACAAGTGATACGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATG
AAGCCAGACTCAAAGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAAGT
CAAAGCAATAAAATGGTT
Found at i:32608 original size:17 final size:17
Alignment explanation
Indices: 32586--32640 Score: 85
Period size: 17 Copynumber: 3.3 Consensus size: 17
32576 GGGCCCAACA
32586 AAATTTAAATTTATTTT
1 AAATTTAAATTTATTTT
32603 AAATTTAAATTTATTTT
1 AAATTTAAATTTATTTT
**
32620 AGGTTTAAATTTA-TTT
1 AAATTTAAATTTATTTT
32636 AAATT
1 AAATT
32641 AAAAAATCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 6 0.18
17 28 0.82
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (17 bp):
AAATTTAAATTTATTTT
Found at i:32615 original size:23 final size:24
Alignment explanation
Indices: 32586--32640 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
32576 GGGCCCAACA
*
32586 AAATTTAAATTTA-TTTTAAATTT
1 AAATTTAAATTTAGGTTTAAATTT
*
32609 AAATTT-ATTTTAGGTTTAAATTT
1 AAATTTAAATTTAGGTTTAAATTT
32632 --ATTTAAATT
1 AAATTTAAATT
32641 AAAAAATCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 4 0.15
22 8 0.30
23 15 0.56
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (24 bp):
AAATTTAAATTTAGGTTTAAATTT
Found at i:33317 original size:12 final size:12
Alignment explanation
Indices: 33291--33351 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
33281 ATATTAAGTT
33291 AATA-AGTAATAA
1 AATATAGTAAT-A
*
33303 AATATAGTCATA
1 AATATAGTAATA
33315 AAT-TAGTAATA
1 AATATAGTAATA
* *
33326 AATATAATAATT
1 AATATAGTAATA
*
33338 AATAATAATAATA
1 AAT-ATAGTAATA
33351 A
1 A
33352 TAATAATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
11 10 0.24
12 17 0.41
13 14 0.34
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (12 bp):
AATATAGTAATA
Found at i:33337 original size:19 final size:19
Alignment explanation
Indices: 33315--33359 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
33305 TATAGTCATA
*
33315 AATTAGTAATAA-ATATAAT
1 AATTAATAATAATA-ATAAT
33334 AATTAATAATAATAATAAT
1 AATTAATAATAATAATAAT
33353 AA-TAATA
1 AATTAATA
33360 TTAGCAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 18 0.75
20 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AATTAATAATAATAATAAT
Found at i:33343 original size:3 final size:3
Alignment explanation
Indices: 33329--33359 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
33319 AGTAATAAAT
33329 ATA ATA ATTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
33360 TTAGCAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:33599 original size:20 final size:21
Alignment explanation
Indices: 33574--33613 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
33564 AAATCAAACC
*
33574 TAGATCTAGGGTT-TTCCAAA
1 TAGATCTAGGATTCTTCCAAA
33594 TAGATCTAGGATTCTTCCAA
1 TAGATCTAGGATTCTTCCAA
33614 GAAATAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
TAGATCTAGGATTCTTCCAAA
Found at i:33702 original size:25 final size:25
Alignment explanation
Indices: 33662--33709 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33652 CAAAACATTT
** *
33662 TTTTTTTAAATGAAAAAGAAAGGGA
1 TTTTTTTAAAAAAAAAAAAAAGGGA
33687 TTTTTTTAAAAAAAAAAAAAAGG
1 TTTTTTTAAAAAAAAAAAAAAGG
33710 AAAATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (25 bp):
TTTTTTTAAAAAAAAAAAAAAGGGA
Found at i:34590 original size:29 final size:29
Alignment explanation
Indices: 34525--34840 Score: 172
Period size: 29 Copynumber: 10.8 Consensus size: 29
34515 CCCTAAATCG
*
34525 TCCAGAAATTACATTTTGACTCCTAAACTT
1 TCCAAAAATTACATTTTGAC-CCTAAACTT
* *
34555 TTCAAAAATTATATTTTGACCCTAAACTT
1 TCCAAAAATTACATTTTGACCCTAAACTT
* * * *
34584 TCTAAAAAATAAAATTTTAACCCTCAAACTT
1 TC-CAAAAATTACATTTTGACCCT-AAACTT
* ** **
34615 TTCAAAAATTACATTTTTCCCCCGAACTT
1 TCCAAAAATTACATTTTGACCCTAAACTT
**
34644 T-CAAAAATCATA-ATTTT-ACCCCCGAACTT
1 TCCAAAAAT--TACATTTTGA-CCCTAAACTT
* *
34673 T-CAAAAATT-CTATTTTTGCCCCCAAAC-T
1 TCCAAAAATTAC-A-TTTTGACCCTAAACTT
* *
34701 TCCAAAATTTACCATTTT-ACCCTTAAAC-A
1 TCCAAAAATTA-CATTTTGACCC-TAAACTT
* *
34730 TCCAAAAATTACCATTTT-ACCCTCGAA-TG
1 TCCAAAAATTA-CATTTTGACCCT-AAACTT
* *
34759 TCCAAAAATTATCATTTTGATCCTGAACTT
1 TCCAAAAATTA-CATTTTGACCCTAAACTT
* * *
34789 TCCAAAAATTACCATATT-ACCCTCGAAC-A
1 TCCAAAAATTA-CATTTTGACCCT-AAACTT
34818 TCCAAAAATTACCATTTT-ACCCT
1 TCCAAAAATTA-CATTTTGACCCT
34841 TGAATGTTCG
Statistics
Matches: 234, Mismatches: 34, Indels: 37
0.77 0.11 0.12
Matches are distributed among these distances:
27 1 0.00
28 14 0.06
29 134 0.57
30 77 0.33
31 8 0.03
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.34
Consensus pattern (29 bp):
TCCAAAAATTACATTTTGACCCTAAACTT
Found at i:34796 original size:59 final size:59
Alignment explanation
Indices: 34701--34897 Score: 231
Period size: 58 Copynumber: 3.4 Consensus size: 59
34691 CCCCCAAACT
* * *** **
34701 TCCAAAATTTACCATTTTACCCTT-AAACATCCAAAAATTACCATTTTACCCTCGAATG
1 TCCAAAAATTACCATTTTATCCTTGAATGTTCCAAAAATTACCATTTTACCCTCGAACA
* *
34759 TCCAAAAATTATCATTTTGATCC-TGAACT-TTCCAAAAATTACCATATTACCCTCGAACA
1 TCCAAAAATTACCATTTT-ATCCTTGAA-TGTTCCAAAAATTACCATTTTACCCTCGAACA
* * * *
34818 TCCAAAAATTACCATTTTACCCTTGAATGTT-CGAAAATTACCGTTTTACCCTCGAGCA
1 TCCAAAAATTACCATTTTATCCTTGAATGTTCCAAAAATTACCATTTTACCCTCGAACA
34876 TCCAAAAATTACCATTTTATCC
1 TCCAAAAATTACCATTTTATCC
34898 CCAGCATCCA
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
58 65 0.55
59 54 0.45
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (59 bp):
TCCAAAAATTACCATTTTATCCTTGAATGTTCCAAAAATTACCATTTTACCCTCGAACA
Found at i:34820 original size:88 final size:86
Alignment explanation
Indices: 34697--34912 Score: 265
Period size: 88 Copynumber: 2.5 Consensus size: 86
34687 TTTGCCCCCA
* *
34697 AACTTCCAAAATTTACCATTTTACCCTTAAACATCCAAAAATTACCATTTTACCCTCGAATGTCC
1 AACTTCCAAAAATTACCATTTTACCC-TCAACATCCAAAAATTACCATTTTACCCTCGAATGTCC
* *
34762 AAAAATTATCATTTTGATCCT-G
65 AAAAATTACCATTTT-ACCCTCG
* * *
34784 AACTTTCCAAAAATTACCATATTACCCTCGAACATCCAAAAATTACCATTTTACCCTTGAATGTT
1 AAC-TTCCAAAAATTACCATTTTACCCTC-AACATCCAAAAATTACCATTTTACCCTCGAATGTC
* *
34849 CGAAAATTACCGTTTTACCCTCG
64 CAAAAATTACCATTTTACCCTCG
* * *
34872 AGCATCCAAAAATTACCATTTTATCCC-CAGCATCCAAAAAT
1 AACTTCCAAAAATTACCATTTTA-CCCTCAACATCCAAAAAT
34913 CGTATTTTTT
Statistics
Matches: 112, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
86 12 0.11
87 27 0.24
88 73 0.65
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (86 bp):
AACTTCCAAAAATTACCATTTTACCCTCAACATCCAAAAATTACCATTTTACCCTCGAATGTCCA
AAAATTACCATTTTACCCTCG
Found at i:34854 original size:29 final size:29
Alignment explanation
Indices: 34701--34894 Score: 201
Period size: 29 Copynumber: 6.7 Consensus size: 29
34691 CCCCCAAACT
* * *
34701 TCCAAAATTTACCATTTTACCCTTAAACA
1 TCCAAAAATTACCATTTTACCCTTGAATA
* *
34730 TCCAAAAATTACCATTTTACCCTCGAATG
1 TCCAAAAATTACCATTTTACCCTTGAATA
* * *
34759 TCCAAAAATTATCATTTTGATCC-TGAACTT
1 TCCAAAAATTACCATTTT-ACCCTTGAA-TA
* * *
34789 TCCAAAAATTACCATATTACCCTCGAACA
1 TCCAAAAATTACCATTTTACCCTTGAATA
*
34818 TCCAAAAATTACCATTTTACCCTTGAATG
1 TCCAAAAATTACCATTTTACCCTTGAATA
* * * * **
34847 TTCGAAAATTACCGTTTTACCCTCGAGCA
1 TCCAAAAATTACCATTTTACCCTTGAATA
34876 TCCAAAAATTACCATTTTA
1 TCCAAAAATTACCATTTTA
34895 TCCCCAGCAT
Statistics
Matches: 133, Mismatches: 29, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
29 110 0.83
30 23 0.17
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.33
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTACCCTTGAATA
Found at i:36212 original size:22 final size:22
Alignment explanation
Indices: 36187--36235 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
36177 TAATAGAAAA
*
36187 TATTTCATTA-ATAATTTGGGTT
1 TATTTAATTATATAA-TTGGGTT
*
36209 TATTTAATTATTTAATTGGGTT
1 TATTTAATTATATAATTGGGTT
*
36231 AATTT
1 TATTT
36236 TATCTTTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (22 bp):
TATTTAATTATATAATTGGGTT
Found at i:40713 original size:39 final size:39
Alignment explanation
Indices: 40659--40742 Score: 141
Period size: 39 Copynumber: 2.2 Consensus size: 39
40649 ACCTGGGAAG
** *
40659 TATACTGAATTGGCAGTGACACTATAAACACTGCAATGT
1 TATACTGAACCGGCAGTGACACTATAAACACTGCAATGC
40698 TATACTGAACCGGCAGTGACACTATAAACACTGCAATGC
1 TATACTGAACCGGCAGTGACACTATAAACACTGCAATGC
40737 TATACT
1 TATACT
40743 AAACTGGTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (39 bp):
TATACTGAACCGGCAGTGACACTATAAACACTGCAATGC
Found at i:40756 original size:39 final size:39
Alignment explanation
Indices: 40670--40764 Score: 136
Period size: 39 Copynumber: 2.4 Consensus size: 39
40660 ATACTGAATT
* *
40670 GGCAGTGACACTATAAACACTGCAATGTTATACTGAACC
1 GGCAGTGACACTATAAACACTGCAATGCTATACTAAACC
*
40709 GGCAGTGACACTATAAACACTGCAATGCTATACTAAACT
1 GGCAGTGACACTATAAACACTGCAATGCTATACTAAACC
** *
40748 GGTGGTGACACTGTAAA
1 GGCAGTGACACTATAAA
40765 TATCACAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (39 bp):
GGCAGTGACACTATAAACACTGCAATGCTATACTAAACC
Found at i:47424 original size:39 final size:39
Alignment explanation
Indices: 47375--47545 Score: 207
Period size: 39 Copynumber: 4.4 Consensus size: 39
47365 GAATAGGTAG
*
47375 TGACACTGTAAACACTGCAAAGCTATACTGAACTGGCAA
1 TGACACTGTAAACACTGCAATGCTATACTGAACTGGCAA
* * * * * *
47414 AGACATTGTAAACACTTCAATGCTATATTGAACTGACAG
1 TGACACTGTAAACACTGCAATGCTATACTGAACTGGCAA
* *
47453 TGACACTGTAAACACTTGCAATGTTATAATGAACTGGCAA
1 TGACACTGTAAACAC-TGCAATGCTATACTGAACTGGCAA
* * * **
47493 TGACATTATAAACAATGCAATGCTATACTGAACTGGCGG
1 TGACACTGTAAACACTGCAATGCTATACTGAACTGGCAA
47532 TGACACTGTAAACA
1 TGACACTGTAAACA
47546 TCACAATACA
Statistics
Matches: 108, Mismatches: 23, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 77 0.71
40 31 0.29
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (39 bp):
TGACACTGTAAACACTGCAATGCTATACTGAACTGGCAA
Found at i:47498 original size:79 final size:78
Alignment explanation
Indices: 47373--47545 Score: 247
Period size: 79 Copynumber: 2.2 Consensus size: 78
47363 CTGAATAGGT
* * * *
47373 AGTGACACTGTAAACACTGCAAAGCTATACTGAACTGGCAAAGACATTGTAAACACTTCAATGCT
1 AGTGACACTGTAAACACTGCAAAGCTATAATGAACTGGCAAAGACATTATAAACAATGCAATGCT
*
47438 ATATTGAACTGAC
66 ATACTGAACTGAC
* * *
47451 AGTGACACTGTAAACACTTGCAATGTTATAATGAACTGGCAATGACATTATAAACAATGCAATGC
1 AGTGACACTGTAAACAC-TGCAAAGCTATAATGAACTGGCAAAGACATTATAAACAATGCAATGC
*
47516 TATACTGAACTGGC
65 TATACTGAACTGAC
*
47530 GGTGACACTGTAAACA
1 AGTGACACTGTAAACA
47546 TCACAATACA
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 17 0.20
79 67 0.80
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (78 bp):
AGTGACACTGTAAACACTGCAAAGCTATAATGAACTGGCAAAGACATTATAAACAATGCAATGCT
ATACTGAACTGAC
Found at i:52525 original size:51 final size:51
Alignment explanation
Indices: 52406--52635 Score: 279
Period size: 51 Copynumber: 4.5 Consensus size: 51
52396 TTTCATTTAA
* * * *
52406 TACTCACGATGACA-TATAGTCATCGGACCCCTT-GTTCCGTATAGGAATTCATA
1 TACTCACGATGACACT-TAGTCATCGGA-CCTTTAATT-CGTAAAGG-ATTCATT
* * *
52459 TACTCACGATGACACTGAGTCATCGGACCTTTAATTCGTCATGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTAAAGGATTCATT
* *
52510 TACTCACGATGACACTTAGTCATCGAACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTAAAGGATTCATT
*
52561 TACTCACGATGACACTTAGTCATC-GATCCTTTAA-TCTGTAAGGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGA-CCTTTAATTC-GTAAAGGATTCATT
*
52612 TACTCACAATGACACTTAGTCATC
1 TACTCACGATGACACTTAGTCATC
52636 AAACTCTTTC
Statistics
Matches: 157, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
50 2 0.01
51 119 0.76
52 9 0.06
53 26 0.17
54 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTAAAGGATTCATT
Found at i:59796 original size:17 final size:17
Alignment explanation
Indices: 59770--59814 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
59760 GTAGTATAAT
*
59770 TGTCCCTGCATTATTAA
1 TGTCACTGCATTATTAA
* * *
59787 TGTCATTGCATTTTTAT
1 TGTCACTGCATTATTAA
59804 TGTCACTGCAT
1 TGTCACTGCAT
59815 CTACATTGGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (17 bp):
TGTCACTGCATTATTAA
Found at i:60415 original size:24 final size:24
Alignment explanation
Indices: 60380--60425 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
60370 TCAATCACTT
* *
60380 GAAAAAGAAAAATGAGAAAAAAGG
1 GAAAAAGAAAAAAGAAAAAAAAGG
60404 GAAAAATG-AAAAAGAAAAAAAA
1 GAAAAA-GAAAAAAGAAAAAAAA
60426 TTTAAATGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (24 bp):
GAAAAAGAAAAAAGAAAAAAAAGG
Found at i:62342 original size:39 final size:39
Alignment explanation
Indices: 62287--62394 Score: 162
Period size: 39 Copynumber: 2.8 Consensus size: 39
62277 ACCTTGGAAG
* * * *
62287 TATACTGAACTAGCAGTGTCACTGTAAACACTACAATGT
1 TATACTGAACTGGCAGTGACACTATAAACACTACAATGC
*
62326 TATACTAAACTGGCAGTGACACTATAAACACTACAATGC
1 TATACTGAACTGGCAGTGACACTATAAACACTACAATGC
*
62365 TATACTGAACTGGCGGTGACACTATAAACA
1 TATACTGAACTGGCAGTGACACTATAAACA
62395 TCGCAATACA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 62 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (39 bp):
TATACTGAACTGGCAGTGACACTATAAACACTACAATGC
Found at i:66980 original size:432 final size:432
Alignment explanation
Indices: 66177--67042 Score: 1545
Period size: 432 Copynumber: 2.0 Consensus size: 432
66167 TTTCATAACC
* *
66177 TATACATGATAGCAATTGTTTCATCATATAACCACAAGATACAATTATTCATGAGCACACCTGAC
1 TATACATGATAACAATTGTTTCATCAAATAACCACAAGATACAATTATTCATGAGCACACCTGAC
* **
66242 AATTCATTTCAATGCATATTAGCCTACTTAAAACATTAAGCAAGCATGCAAGCTTAAATTCAGTA
66 AATTCATTTCAATGCATATTAGCCTACTTAAAACATTAAGCAAGCATACAAGCTTAAATTCAACA
66307 TTCAACTAAGTTAGACAATGAACCAATCAACCCAAAATCAAGCATTTCAAAGATAATATCATCCT
131 TTCAACTAAGTTAGACAATGAACCAATCAACCCAAAATCAAGCATTTCAAAGATAATATCATCCT
66372 AGTACATGTCATATAACCATGTGATGTAAAAACTACTAAACGACCTCTCAAGATATTGTGATTTC
196 AGTACATGTCATATAACCATGTGATGTAAAAACTACTAAACGACCTCTCAAGATATTGTGATTTC
*
66437 TTGAGGTGATCCGATCTTCTAGCAGCAAATATAATCTACAAAACAACAACAATTTCATAGGTAAG
261 TTAAGGTGATCCGATCTTCTAGCAGCAAATATAATCTACAAAACAACAACAATTTCATAGGTAAG
* *
66502 CTTACATAGCTTAGTAAGTTCATAGAGTTTAATAAGTTATCGAATAACATGTGTTGTACAATCTA
326 CTTACATAACTTAGTAAGTTCATAGAGTTTAATAAGTTACCGAATAACATGTGTTGTACAATCTA
*
66567 TAAGTCAATCGAACCATAATAGAATTGTGCTTCAATAAGCCA
391 TAAGTCAATCGAACCAGAATAGAATTGTGCTTCAATAAGCCA
*
66609 TATACATGATAACACTTGTTTCATCAAATAACCACAAGATACAATTATTCATGAGCACACCTGAC
1 TATACATGATAACAATTGTTTCATCAAATAACCACAAGATACAATTATTCATGAGCACACCTGAC
*
66674 AATTCATTTCAATGCATATTAGCCTACTTAAAACATTAAGCGAGCATACAAGCTTAAATTCAACA
66 AATTCATTTCAATGCATATTAGCCTACTTAAAACATTAAGCAAGCATACAAGCTTAAATTCAACA
*
66739 TTCAACTAAGTTTGGA-AATGAACCAATCAACCCAAAATCAAGCATTTCAAAGATAATATCATCC
131 TTCAACTAAG-TTAGACAATGAACCAATCAACCCAAAATCAAGCATTTCAAAGATAATATCATCC
* * *
66803 TAGTACATGTCATATAACCATGTGATGTAAAAACTACTAAACGACCTCTCGAGGTATTTTGATTT
195 TAGTACATGTCATATAACCATGTGATGTAAAAACTACTAAACGACCTCTCAAGATATTGTGATTT
* *
66868 CTTAAGGTGATCTGATCTTCTAGCAGCAAATATAATCTAGAAAACAACAACAATTTCATAGGTAA
260 CTTAAGGTGATCCGATCTTCTAGCAGCAAATATAATCTACAAAACAACAACAATTTCATAGGTAA
66933 GCTTACATAACTTAGTAAGTTCATAGAGTTTAATAAGTTACCGAATAACATGTGTTGTACAATCT
325 GCTTACATAACTTAGTAAGTTCATAGAGTTTAATAAGTTACCGAATAACATGTGTTGTACAATCT
* *
66998 ATAAGTTAATCTAACCAGAATAGAATTGTGCTTCAATAAGCCA
390 ATAAGTCAATCGAACCAGAATAGAATTGTGCTTCAATAAGCCA
67041 TA
1 TA
67043 ACTAGGATAC
Statistics
Matches: 414, Mismatches: 19, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
432 410 0.99
433 4 0.01
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (432 bp):
TATACATGATAACAATTGTTTCATCAAATAACCACAAGATACAATTATTCATGAGCACACCTGAC
AATTCATTTCAATGCATATTAGCCTACTTAAAACATTAAGCAAGCATACAAGCTTAAATTCAACA
TTCAACTAAGTTAGACAATGAACCAATCAACCCAAAATCAAGCATTTCAAAGATAATATCATCCT
AGTACATGTCATATAACCATGTGATGTAAAAACTACTAAACGACCTCTCAAGATATTGTGATTTC
TTAAGGTGATCCGATCTTCTAGCAGCAAATATAATCTACAAAACAACAACAATTTCATAGGTAAG
CTTACATAACTTAGTAAGTTCATAGAGTTTAATAAGTTACCGAATAACATGTGTTGTACAATCTA
TAAGTCAATCGAACCAGAATAGAATTGTGCTTCAATAAGCCA
Found at i:67239 original size:94 final size:94
Alignment explanation
Indices: 67075--67360 Score: 401
Period size: 94 Copynumber: 3.0 Consensus size: 94
67065 AAATTGCCTC
* * * * *
67075 TGTTACCAGTATATGATGCTGCTCACACTAAGCTGATGAGGACTCGCAACATATGTGGTACCTCA
1 TGTTAACAGTATACGATGCTGCTCACACTAAGCTAATGAGGACTCGCAACATATGCGATACCTCA
* *
67140 ACCATCGATATAGTATATGTACATATAAT
66 ACCATCGATATGGTATATGTACATATAAA
* * * * *
67169 TGTTAATAGTATACGATGCTGCTCACACTAAACTAATGAGAACTCACAATATATGCGATACCTCA
1 TGTTAACAGTATACGATGCTGCTCACACTAAGCTAATGAGGACTCGCAACATATGCGATACCTCA
* * *
67234 GCCATCGATATGGTATCTATACATATAAA
66 ACCATCGATATGGTATATGTACATATAAA
* *
67263 TGTTACCAGTATACGATGTTGCTCACACTAAGCTAATGAGGACTCGCAACATATGCGATACCTCA
1 TGTTAACAGTATACGATGCTGCTCACACTAAGCTAATGAGGACTCGCAACATATGCGATACCTCA
* *
67328 ACCATCGATATGGTATTTGTACATATAAC
66 ACCATCGATATGGTATATGTACATATAAA
67357 TGTT
1 TGTT
67361 CTCTAATGAT
Statistics
Matches: 166, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 166 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (94 bp):
TGTTAACAGTATACGATGCTGCTCACACTAAGCTAATGAGGACTCGCAACATATGCGATACCTCA
ACCATCGATATGGTATATGTACATATAAA
Found at i:76499 original size:23 final size:23
Alignment explanation
Indices: 76473--76517 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
76463 CCCAAAATAA
76473 TAGAAAAACAAAT-AAATAAAAAG
1 TAGAAAAA-AAATGAAATAAAAAG
*
76496 TAGACAAAAAATGAAATAAAAA
1 TAGAAAAAAAATGAAATAAAAA
76518 ATAAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.73, C:0.04, G:0.09, T:0.13
Consensus pattern (23 bp):
TAGAAAAAAAATGAAATAAAAAG
Found at i:77414 original size:2 final size:2
Alignment explanation
Indices: 77407--77432 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
77397 AGGTTTAGTT
77407 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
77433 AAGGGGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90008 original size:18 final size:18
Alignment explanation
Indices: 89985--90021 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
89975 TTTGTGATCA
89985 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
90003 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
90021 A
1 A
90022 TATGAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:94668 original size:48 final size:47
Alignment explanation
Indices: 93341--94674 Score: 259
Period size: 49 Copynumber: 27.3 Consensus size: 47
93331 AGATATTGAG
* * * ** *
93341 GGAAAGGTTGAAGTCGTAACAGCAAACCTTGTAAATCAGAAACATACTG
1 GGAAAGGTTGAAGTCGCAACAGCGAACCTTGT-ACTCAGAAA-ATGTTA
* * ** * * * *
93390 GGAAAGATTGAAGCCATAACGGCGAATCTGGTAC-CACGAAGATATG-GA
1 GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTACTCA-GAA-A-ATGTTA
* * * *
93438 GGGAAAGGTCGAAGTCGCAACGGCGAACCTTATACCTCAAAAACATG-TA
1 -GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTA-CTCAGAAA-ATGTTA
* * * * * *
93487 GGGAAAGATTGAAGCCGCAACGGCGAATCTGGTAC-CACGAAGATATG-GA
1 -GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTACTCA-GAA-A-ATGTTA
* * * *
93536 GGGAAAGATTGAAGTCGCAACGGCGAACCTTGTACCTTAGAAACATGCT-
1 -GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTA-CTCAGAAA-ATGTTA
* * * *
93585 GAGAAAGATTGAAGTCGCAAC-GACGAATCTGGTAC-CACGAAGATATG-AA
1 G-GAAAGGTTGAAGTCGCAACAG-CGAACCTTGTACTCA-GAA-A-ATGTTA
* * * * * *
93634 GGGAAAGGTCGAAGTTGCAACAACGAACCTTATACCTCAGAAACATGCTG
1 -GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTA-CTCAGAAA-ATGTTA
* * * ** * *
93684 GGAAAGGTTGAAGCCGCAACGGTGAATATGGTAC-CATGAAGATATG-GA
1 GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTACTCA-GAA-A-ATGTTA
* * *
93732 GGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTG
1 -GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTA-CTCAGAAA-ATGTTA
* * * * * *
93782 GGAAAGATTGAAG-CTGTAACGGCGAATCTAGTAC-CACGAAGATATG-GA
1 GGAAAGGTTGAAGTC-GCAACAGCGAACCTTGTACTCA-GAA-A-ATGTTA
* * * ** * *
93830 GGGAAAGGTCGAAGTCGTAACGGTAAACCTTGTACCTGAGAAACATG-CA
1 -GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTA-CTCAGAAA-ATGTTA
* * * * * *
93879 GGGAAAGATTGAAGCCGCAACGGCGAATCTGGTAC-CACGAAGATATG-GA
1 -GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTACTCA-GAA-A-ATGTTA
* * *
93928 GGGAAAGATT-AGAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCT-
1 -GGAAAGGTTGA-AGTCGCAACAGCGAACCTTGTA-CTCAGAAA-ATGTTA
* * * * *
93977 GAGAAAGATTGAAGCCGCAAC-GACGAATCTGGTAC-CATGAAGATATG-AA
1 G-GAAAGGTTGAAGTCGCAACAG-CGAACCTTGTACTCA-GAA-A-ATGTTA
* * * * * *
94026 GGGAAAGGTCGAAGTCGCAA-TGACGAACCTTATACCTCAAAAACATGCTG
1 -GGAAAGGTTGAAGTCGCAACAG-CGAACCTTGTA-CTCAGAAA-ATGTTA
* * * * * * * * * *
94076 GGAAAGATTGAAGCCGTAACGGTGAATCTGGTAC-CATAAAGATATGGA
1 GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTACTCAGAAA-ATGT-TA
* * * * * *
94124 GGGAAAGGTTGAAGTCGCAACGGTGAGCCTTGTACCTCAGGAACATGCTC
1 -GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTA-CTCA-GAAAATGTTA
* * * * * * * * *
94174 GGAAAGATTGAAGCCGCAACGGCGAATCTAGAAC-CACAAAGATATGGA
1 GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTACTCAGAAA-ATGT-TA
* * * **
94222 GGGAAAGGTCGAAGTCGCAACGGTGAACCTTGTACCTCAGAAACAT-ACA
1 -GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTA-CTCAGAAA-ATGTTA
* * * * * * *
94271 GGGAAAGATTGATGCCGCAACGGCGAATCTGGTAC-CACGAAGATATG-GA
1 -GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTACTCA-GAA-A-ATGTTA
* * *
94320 GGGAAAGGTTGAAGTCGTAACAGCGAACCTTGTACCTCAGAAAAATGCTG
1 -GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTA-CTCAG-AAAATGTTA
** * * * * * * * **
94370 GGAAAAATTTAAGCCGGAACGGTGAATCTAGTAC-CACGAAGATATGAAA
1 GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTACTCA-GAA-A-ATGTTA
* * * *
94419 AGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACATCAGAAACATGCTG
1 GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTAC-TCAGAAA-ATGTTA
* * ** * * *
94468 GGAAAGATTGAAGTCGCAA-TGAAAAATCTGGTAC-CACGAAGATATG-GA
1 GGAAAGGTTGAAGTCGCAACAG-CGAACCTTGTACTCA-GAA-A-ATGTTA
* * *
94516 GGGAAAGGTTGAAGTCGCAACAGCGAACCTTGTACCTCAGAATCATGCTG
1 -GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTA-CTCAGAA-AATGTTA
** * * * * * *
94566 GGAAATATTAAAGTCGCAACGGCGAATCTAGTAC-CACGAAGATATTGA
1 GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTACTCA-GAAAATGTT-A
* *
94614 GGGAAAGGTTGAAGTTGCAACAACGAACCTTGTATCTCAGAAAATGTTA
1 -GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTA-CTCAGAAAATGTTA
94663 GGAAAGGTTGAA
1 GGAAAGGTTGAA
94675 TCCGTAATGG
Statistics
Matches: 944, Mismatches: 255, Indels: 173
0.69 0.19 0.13
Matches are distributed among these distances:
46 2 0.00
47 36 0.04
48 62 0.07
49 757 0.80
50 52 0.06
51 33 0.03
52 2 0.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (47 bp):
GGAAAGGTTGAAGTCGCAACAGCGAACCTTGTACTCAGAAAATGTTA
Found at i:94705 original size:98 final size:98
Alignment explanation
Indices: 93331--94674 Score: 1812
Period size: 98 Copynumber: 13.7 Consensus size: 98
93321 TCCATTCTAC
* * * * ** *
93331 AGATATTGAGGGAAAGGTTGAAGTCGTAACAGCAAACCTTGTAAATCAGAAACATACTGGGAAAG
1 AGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTGGGAAAG
**
93396 ATTGAAGCCATAACGGCGAATCTGGTACCACGA
66 ATTGAAGCCGCAACGGCGAATCTGGTACCACGA
* * *
93429 AGATATGGAGGGAAAGGTCGAAGTCGCAACGGCGAACCTTATACCTCAAAAACATG-TAGGGAAA
1 AGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCT-GGGAAA
93493 GATTGAAGCCGCAACGGCGAATCTGGTACCACGA
65 GATTGAAGCCGCAACGGCGAATCTGGTACCACGA
* * *
93527 AGATATGGAGGGAAAGATTGAAGTCGCAACGGCGAACCTTGTACCTTAGAAACATGCTGAGAAAG
1 AGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTGGGAAAG
* *
93592 ATTGAAGTCGCAACGACGAATCTGGTACCACGA
66 ATTGAAGCCGCAACGGCGAATCTGGTACCACGA
* * * ** *
93625 AGATATGAAGGGAAAGGTCGAAGTTGCAACAACGAACCTTATACCTCAGAAACATGCTGGGAAAG
1 AGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTGGGAAAG
* * * *
93690 GTTGAAGCCGCAACGGTGAATATGGTACCATGA
66 ATTGAAGCCGCAACGGCGAATCTGGTACCACGA
93723 AGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTGGGAAAG
1 AGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTGGGAAAG
* * *
93788 ATTGAAGCTGTAACGGCGAATCTAGTACCACGA
66 ATTGAAGCCGCAACGGCGAATCTGGTACCACGA
* * ** * *
93821 AGATATGGAGGGAAAGGTCGAAGTCGTAACGGTAAACCTTGTACCTGAGAAACATGCAGGGAAAG
1 AGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTGGGAAAG
93886 ATTGAAGCCGCAACGGCGAATCTGGTACCACGA
66 ATTGAAGCCGCAACGGCGAATCTGGTACCACGA
* *
93919 AGATATGGAGGGAAAGATT-AGAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTGAGAAA
1 AGATATGGAGGGAAAGGTTGA-AGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTGGGAAA
* *
93983 GATTGAAGCCGCAACGACGAATCTGGTACCATGA
65 GATTGAAGCCGCAACGGCGAATCTGGTACCACGA
* * * * * *
94017 AGATATGAAGGGAAAGGTCGAAGTCGCAATGACGAACCTTATACCTCAAAAACATGCTGGGAAAG
1 AGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTGGGAAAG
* * **
94082 ATTGAAGCCGTAACGGTGAATCTGGTACCATAA
66 ATTGAAGCCGCAACGGCGAATCTGGTACCACGA
* * * *
94115 AGATATGGAGGGAAAGGTTGAAGTCGCAACGGTGAGCCTTGTACCTCAGGAACATGCTCGGAAAG
1 AGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTGGGAAAG
* * *
94180 ATTGAAGCCGCAACGGCGAATCTAGAACCACAA
66 ATTGAAGCCGCAACGGCGAATCTGGTACCACGA
* * * *
94213 AGATATGGAGGGAAAGGTCGAAGTCGCAACGGTGAACCTTGTACCTCAGAAACATACAGGGAAAG
1 AGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTGGGAAAG
*
94278 ATTGATGCCGCAACGGCGAATCTGGTACCACGA
66 ATTGAAGCCGCAACGGCGAATCTGGTACCACGA
* * * *
94311 AGATATGGAGGGAAAGGTTGAAGTCGTAACAGCGAACCTTGTACCTCAGAAAAATGCTGGGAAAA
1 AGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTGGGAAAG
* * * *
94376 ATTTAAGCCGGAACGGTGAATCTAGTACCACGA
66 ATTGAAGCCGCAACGGCGAATCTGGTACCACGA
* ** *
94409 AGATATGAAAAGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACATCAGAAACATGCTGGGAAAG
1 AGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTGGGAAAG
* * ***
94474 ATTGAAGTCGCAATGAAAAATCTGGTACCACGA
66 ATTGAAGCCGCAACGGCGAATCTGGTACCACGA
* * *
94507 AGATATGGAGGGAAAGGTTGAAGTCGCAACAGCGAACCTTGTACCTCAGAATCATGCTGGGAAAT
1 AGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTGGGAAAG
* * *
94572 ATTAAAGTCGCAACGGCGAATCTAGTACCACGA
66 ATTGAAGCCGCAACGGCGAATCTGGTACCACGA
* * ** * * *
94605 AGATATTGAGGGAAAGGTTGAAGTTGCAACAACGAACCTTGTATCTCAGAAA-ATGTTAGGAAAG
1 AGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTGGGAAAG
*
94669 GTTGAA
66 ATTGAA
94675 TCCGTAATGG
Statistics
Matches: 1086, Mismatches: 156, Indels: 9
0.87 0.12 0.01
Matches are distributed among these distances:
97 15 0.01
98 1069 0.98
99 2 0.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (98 bp):
AGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTCAGAAACATGCTGGGAAAG
ATTGAAGCCGCAACGGCGAATCTGGTACCACGA
Found at i:100059 original size:30 final size:30
Alignment explanation
Indices: 100002--100196 Score: 152
Period size: 30 Copynumber: 6.5 Consensus size: 30
99992 TTGAACTTTC
* * *
100002 CAAAAATCATATTTTGAC-CCTCGAACTTCAT
1 CAAAAATTACATTTTGACTCCT-AAACTTC-T
*
100033 -AAAAATTACATTTTGACTCCTTAACTTCT
1 CAAAAATTACATTTTGACTCCTAAACTTCT
100062 CAAAAATTACA-TTTGACTCCTAAACTTCT
1 CAAAAATTACATTTTGACTCCTAAACTTCT
* * *
100091 CAAAAATTACATTTT-A-ACCTTAACTTTT
1 CAAAAATTACATTTTGACTCCTAAACTTCT
* * * * *
100119 CTAAAATTACCTTTTTTGACTCTTAAAATTTT
1 CAAAAATTA-C-ATTTTGACTCCTAAACTTCT
* *
100151 CCAAAATTACATTTTGA-TCCCAAAC-TCAT
1 CAAAAATTACATTTTGACTCCTAAACTTC-T
*
100180 CCAAAATTACTATTTTG
1 CAAAAATTAC-ATTTTG
100197 CCCTCACACA
Statistics
Matches: 136, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
28 18 0.13
29 47 0.35
30 50 0.37
31 5 0.04
32 16 0.12
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.39
Consensus pattern (30 bp):
CAAAAATTACATTTTGACTCCTAAACTTCT
Found at i:100077 original size:29 final size:29
Alignment explanation
Indices: 100025--100128 Score: 131
Period size: 29 Copynumber: 3.6 Consensus size: 29
100015 TTGACCCTCG
100025 AACTTCAT-AAAAATTACATTTTGACTCCTT
1 AACTTC-TCAAAAATTACA-TTTGACTCCTT
*
100055 AACTTCTCAAAAATTACATTTGACTCCTA
1 AACTTCTCAAAAATTACATTTGACTCCTT
* *
100084 AACTTCTCAAAAATTACATTTTA-ACCTT
1 AACTTCTCAAAAATTACATTTGACTCCTT
* *
100112 AACTTTTCTAAAATTAC
1 AACTTCTCAAAAATTAC
100129 CTTTTTTGAC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
28 18 0.27
29 33 0.49
30 16 0.24
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.38
Consensus pattern (29 bp):
AACTTCTCAAAAATTACATTTGACTCCTT
Found at i:108211 original size:17 final size:17
Alignment explanation
Indices: 108189--108223 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
108179 AGAAGAAAAA
108189 TTGTCAAAATGGGAGAC
1 TTGTCAAAATGGGAGAC
108206 TTGTCAAAATGGGAGAC
1 TTGTCAAAATGGGAGAC
108223 T
1 T
108224 AAAGGAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (17 bp):
TTGTCAAAATGGGAGAC
Found at i:110448 original size:24 final size:24
Alignment explanation
Indices: 110406--110458 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
110396 ACGAAGATTA
* *
110406 AAAATATTTTAAAATATACATAGT
1 AAAATATTTTAAAAGATACATAAT
**
110430 AAAATATTTTAAGGGATACATAAT
1 AAAATATTTTAAAAGATACATAAT
110454 AAAAT
1 AAAAT
110459 TAAAACATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.34
Consensus pattern (24 bp):
AAAATATTTTAAAAGATACATAAT
Found at i:111068 original size:18 final size:18
Alignment explanation
Indices: 111045--111087 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
111035 ATTCAAGGTA
111045 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
111063 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
111081 TAATTAA
1 TAATTAA
111088 AACCTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:128882 original size:14 final size:14
Alignment explanation
Indices: 128865--128904 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
128855 GAAAATAGGT
128865 AAAAGACAAAAGAG
1 AAAAGACAAAAGAG
128879 AAAAGACAAAA-AG
1 AAAAGACAAAAGAG
*
128892 AAAAGAAAAAAGA
1 AAAAGACAAAAGA
128905 AAGAAAAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.78, C:0.05, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAGACAAAAGAG
Found at i:128895 original size:13 final size:13
Alignment explanation
Indices: 128865--128906 Score: 68
Period size: 14 Copynumber: 3.2 Consensus size: 13
128855 GAAAATAGGT
128865 AAAAGACAAAAGAG
1 AAAAGACAAAA-AG
128879 AAAAGACAAAAAG
1 AAAAGACAAAAAG
128892 AAAAGA-AAAAAG
1 AAAAGACAAAAAG
128904 AAA
1 AAA
128907 GAAAAGGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 9 0.32
13 8 0.29
14 11 0.39
ACGTcount: A:0.79, C:0.05, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAGACAAAAAG
Found at i:128909 original size:16 final size:17
Alignment explanation
Indices: 128888--128922 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
128878 GAAAAGACAA
128888 AAAGAAAA-GAAAAAAG
1 AAAGAAAAGGAAAAAAG
*
128904 AAAGAAAAGGGAAAAAG
1 AAAGAAAAGGAAAAAAG
128921 AA
1 AA
128923 TCGTACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAAGAAAAGGAAAAAAG
Found at i:128919 original size:29 final size:27
Alignment explanation
Indices: 128865--128922 Score: 71
Period size: 29 Copynumber: 2.1 Consensus size: 27
128855 GAAAATAGGT
*
128865 AAAAGACAAAAGAGAAAAGACAAAAAG
1 AAAAGAAAAAAGAGAAAAGACAAAAAG
**
128892 AAAAGAAAAAAGAAAGAAAAGGGAAAAAG
1 AAAAGAAAAAAG--AGAAAAGACAAAAAG
128921 AA
1 AA
128923 TCGTACTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 11 0.42
29 15 0.58
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (27 bp):
AAAAGAAAAAAGAGAAAAGACAAAAAG
Found at i:129698 original size:2 final size:2
Alignment explanation
Indices: 129691--129718 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
129681 AAAGTATTTA
129691 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
129719 T
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.