Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167864.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_133, 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: 70240
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Found at i:10096 original size:24 final size:24
Alignment explanation
Indices: 10051--10096 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10041 TTTTTTTATA
* *
10051 TAATAATAAAATAATATTTTTAAT
1 TAATAAGAAAATAATAATTTTAAT
*
10075 TAATAAGATAATAATAATTTTA
1 TAATAAGAAAATAATAATTTTA
10097 TCTATTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TAATAAGAAAATAATAATTTTAAT
Found at i:14413 original size:19 final size:20
Alignment explanation
Indices: 14377--14419 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
14367 ATTATCTAAC
*
14377 ATTTATAAAATTAATAAATA
1 ATTTATAAAATCAATAAATA
* *
14397 ATTTA-AAAATCATTAAATT
1 ATTTATAAAATCAATAAATA
14416 ATTT
1 ATTT
14420 TTATGTTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTATAAAATCAATAAATA
Found at i:14608 original size:15 final size:16
Alignment explanation
Indices: 14583--14612 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14573 TTATTAATTT
14583 TTTATATAATAATAAA
1 TTTATATAATAATAAA
14599 TTTATA-AATAATAA
1 TTTATATAATAATAA
14613 TTTTTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTATATAATAATAAA
Found at i:16405 original size:34 final size:34
Alignment explanation
Indices: 16344--16414 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
16334 GATTTTGAAT
* * *
16344 TAAAGAGATCAAGATTGAACTGTGAATC-GAAGAA
1 TAAAGAGATCAAGATTAAACCGCGAATCAG-AGAA
*
16378 TAAAGAGATCGAGATTAAACCGCGAATCAGAGAA
1 TAAAGAGATCAAGATTAAACCGCGAATCAGAGAA
16412 TAA
1 TAA
16415 TGTTAACCTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.48, C:0.11, G:0.23, T:0.18
Consensus pattern (34 bp):
TAAAGAGATCAAGATTAAACCGCGAATCAGAGAA
Found at i:16497 original size:171 final size:170
Alignment explanation
Indices: 16078--17115 Score: 1165
Period size: 171 Copynumber: 6.1 Consensus size: 170
16068 ATTGGAGAAC
* * *
16078 GTTAGCTTGGATTGAATCATAAGTAAGAAAATAAG--ATTGGGATTAAACCACGAGTCAAAGGAT
1 GTTAACTTGGATTGAATCACAAGTAAGAAAATAAGAAATCGGGATTAAACCACGAGTCAAAGGAT
* * *
16141 AACAACAATCAAGATTAAACTGTGACTTTGAATTAAAGAGATCGAA-ATTGAACCGTAAATCAGA
66 AACAACAACCGAGATTAAACTGTGACTTTGAATTAAAGAGATC-AAGATTGAACCATAAATCAGA
* * * * * *
16205 GAATAAAAAGATCAAGATTAAATCGCGAGTCA-AAAATGAC
130 GAATAAAAAGATCAGGATTAAACCGCGAATCAGAGAATAAT
** * * *
16245 GTTAACTTGGATTGAATCACAAGTTTGAAAATAAGGAGATCGGGATTAGACCATGAGTCAAAGGA
1 GTTAACTTGGATTGAATCACAAGTAAGAAAATAA-GAAATCGGGATTAAACCACGAGTCAAAGGA
* ** *
16310 TAACAACAACCGAGATTAAACTGTGATTTTGAATTAAAGAGATCAAGATTGAACTGTGAATC-GA
65 TAACAACAACCGAGATTAAACTGTGACTTTGAATTAAAGAGATCAAGATTGAACCATAAATCAG-
*
16374 AGAATAAAGAGATC-GAGATTAAACCGCGAATCAGAGAATAAT
129 AGAATAAAAAGATCAG-GATTAAACCGCGAATCAGAGAATAAT
* *
16416 GTTAACCTGGATTGAATCACAAGTAAGAAAATAAGGAAATCGGGATTAAACCACGAGTCAGAGGA
1 GTTAACTTGGATTGAATCACAAGTAAGAAAATAA-GAAATCGGGATTAAACCACGAGTCAAAGGA
* *
16481 TAACAACAATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGAGATTGAACCATAAATCAGA
65 TAACAACAACCGAGATTAAACTGTGACTTTGAATTAAAGAGATCAAGATTGAACCATAAATCAGA
* * * * * * *
16546 GAATAAAAAAAT-TGAGATTAAACCGCGAGTTAGAAAATGAC
130 GAATAAAAAGATCAG-GATTAAACCGCGAATCAGAGAATAAT
** * * * * *
16587 GTTAACTTGGATTGAATCACAAGTCCGAAAATAAGGAGACCGAGATTAGACCATGAGTCAAAGGA
1 GTTAACTTGGATTGAATCACAAGTAAGAAAATAA-GAAATCGGGATTAAACCACGAGTCAAAGGA
* ** * * ** * ** *
16652 TAACAATAACCGAGATTAAACTACGATTTTAAATTAAAGAGATCGGGATCGAACCACGAATCGGA
65 TAACAACAACCGAGATTAAACTGTGACTTTGAATTAAAGAGATCAAGATTGAACCATAAATCAGA
* *
16717 GAATAAAGAGATCAGGATTAAACCGTGAATCAGAGAATAAT
130 GAATAAAAAGATCAGGATTAAACCGCGAATCAGAGAATAAT
16758 GTTAACTTGGATTGAATCACAAGTAAGAAAATAAGAAGA-CTGGGATTAAACCACGAGTCAAAGG
1 GTTAACTTGGATTGAATCACAAGTAAGAAAATAAGAA-ATC-GGGATTAAACCACGAGTCAAAGG
* * ** *
16822 ATAACAACAACCGAGATTAAACTATGATTTTGAATTAAAGAGATCAAGATTGAACCACGAATTAG
64 ATAACAACAACCGAGATTAAACTGTGACTTTGAATTAAAGAGATCAAGATTGAACCATAAATCAG
* * ** * *
16887 AGAATAAAGAGACCAGGATTAAACTACGAATTAGAGAACAAT
129 AGAATAAAAAGATCAGGATTAAACCGCGAATCAGAGAATAAT
* * * *
16929 GTTAACTTGGATTGACTCACAAGTAAGAAAATAAGAAGATCGAGATTAAACTACGAGTCAGAGGA
1 GTTAACTTGGATTGAATCACAAGTAAGAAAATAAGAA-ATCGGGATTAAACCACGAGTCAAAGGA
** * * *** * * *
16994 TAACAACAATTGAGATTAAACTGCGACTTTCAATTAAAGAGATTGGGATTGAATCGTAAATCAAA
65 TAACAACAACCGAGATTAAACTGTGACTTTGAATTAAAGAGATCAAGATTGAACCATAAATCAGA
* * * * * * *
17059 GAATAAAAAGATCAGGATTAAATCGTGAGTTAAAAAATGAT
130 GAATAAAAAGATCAGGATTAAACCGCGAATCAGAGAATAAT
17100 GTTAACTTGGATTGAA
1 GTTAACTTGGATTGAA
17116 CAGCAAGCTA
Statistics
Matches: 739, Mismatches: 119, Indels: 22
0.84 0.14 0.03
Matches are distributed among these distances:
167 30 0.04
168 1 0.00
169 3 0.00
170 109 0.15
171 593 0.80
172 3 0.00
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.22
Consensus pattern (170 bp):
GTTAACTTGGATTGAATCACAAGTAAGAAAATAAGAAATCGGGATTAAACCACGAGTCAAAGGAT
AACAACAACCGAGATTAAACTGTGACTTTGAATTAAAGAGATCAAGATTGAACCATAAATCAGAG
AATAAAAAGATCAGGATTAAACCGCGAATCAGAGAATAAT
Found at i:16740 original size:342 final size:341
Alignment explanation
Indices: 16085--17080 Score: 1363
Period size: 342 Copynumber: 2.9 Consensus size: 341
16075 AACGTTAGCT
* *
16085 TGGATTGAATCATAAGTAAGAAAATAAG--ATTGGGATTAAACCACGAGTCAAAGGATAACAACA
1 TGGATTGAATCACAAGTAAGAAAATAAGAAATCGGGATTAAACCACGAGTCAAAGGATAACAACA
* * *
16148 ATCAAGATTAAACTGTGACTTTGAATTAAAGAGATCGAAATTGAACCGTAAATCAGAGAATAAAA
66 ATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGAGATTGAACCATAAATCAGAGAATAAAA
* * **
16213 AGATCAAGATTAAATCGCGAGTCA-AAAATGACGTTAACTTGGATTGAATCACAAGTTTGAAAAT
131 AGATCAAGATTAAACCGCGAGTTAGAAAATGACGTTAACTTGGATTGAATCACAAGTAAGAAAAT
* * *
16277 AAGGAGATCGGGATTAGACCATGAGTCAAAGGATAACAACAACCGAGATTAAACTGTGATTTTGA
196 AAGGAGATCGAGATTAGACCATGAGTCAAAGGATAACAACAACCGAGATTAAACTGCGATTTTAA
** *
16342 ATTAAAGAGATCAAGATTGAACTGTGAATCGAAGAATAAAGAGATC-GAGATTAAACCGCGAATC
261 ATTAAAGAGATCGGGATTGAACCGTGAATCGAAGAATAAAGAGATCAG-GATTAAACCGCGAATC
16406 AGAGAATAATGTTAACC
325 AGAGAATAATGTTAACC
*
16423 TGGATTGAATCACAAGTAAGAAAATAAGGAAATCGGGATTAAACCACGAGTCAGAGGATAACAAC
1 TGGATTGAATCACAAGTAAGAAAATAA-GAAATCGGGATTAAACCACGAGTCAAAGGATAACAAC
16488 AATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGAGATTGAACCATAAATCAGAGAATAAA
65 AATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGAGATTGAACCATAAATCAGAGAATAAA
* ** **
16553 AAAATTGAGATTAAACCGCGAGTTAGAAAATGACGTTAACTTGGATTGAATCACAAGTCCGAAAA
130 AAGATCAAGATTAAACCGCGAGTTAGAAAATGACGTTAACTTGGATTGAATCACAAGTAAGAAAA
* * *
16618 TAAGGAGACCGAGATTAGACCATGAGTCAAAGGATAACAATAACCGAGATTAAACTACGATTTTA
195 TAAGGAGATCGAGATTAGACCATGAGTCAAAGGATAACAACAACCGAGATTAAACTGCGATTTTA
* ** * *
16683 AATTAAAGAGATCGGGATCGAACCACGAATCGGAGAATAAAGAGATCAGGATTAAACCGTGAATC
260 AATTAAAGAGATCGGGATTGAACCGTGAATCGAAGAATAAAGAGATCAGGATTAAACCGCGAATC
*
16748 AGAGAATAATGTTAACT
325 AGAGAATAATGTTAACC
16765 TGGATTGAATCACAAGTAAGAAAATAAGAAGA-CTGGGATTAAACCACGAGTCAAAGGATAACAA
1 TGGATTGAATCACAAGTAAGAAAATAAGAA-ATC-GGGATTAAACCACGAGTCAAAGGATAACAA
* * * * ** *
16829 CAACCGAGATTAAACTATGATTTTGAATTAAAGAGATCAAGATTGAACCACGAATTAGAGAATAA
64 CAATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGAGATTGAACCATAAATCAGAGAATAA
* * * ** * * ** * *
16894 AGAGACCAGGATTAAACTACGAATTAGAGAACAATGTTAACTTGGATTGACTCACAAGTAAGAAA
129 AAAGATCAAGATTAAACCGCGAGTTAGAAAATGACGTTAACTTGGATTGAATCACAAGTAAGAAA
* * * * * ** *
16959 ATAAGAAGATCGAGATTAAACTACGAGTCAGAGGATAACAACAATTGAGATTAAACTGCGACTTT
194 ATAAGGAGATCGAGATTAGACCATGAGTCAAAGGATAACAACAACCGAGATTAAACTGCGATTTT
* * * * * *
17024 CAATTAAAGAGATTGGGATTGAATCGTAAATCAAAGAATAAAAAGATCAGGATTAAA
259 AAATTAAAGAGATCGGGATTGAACCGTGAATCGAAGAATAAAGAGATCAGGATTAAA
17081 TCGTGAGTTA
Statistics
Matches: 578, Mismatches: 73, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
338 26 0.04
339 1 0.00
341 118 0.20
342 432 0.75
343 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (341 bp):
TGGATTGAATCACAAGTAAGAAAATAAGAAATCGGGATTAAACCACGAGTCAAAGGATAACAACA
ATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGAGATTGAACCATAAATCAGAGAATAAAA
AGATCAAGATTAAACCGCGAGTTAGAAAATGACGTTAACTTGGATTGAATCACAAGTAAGAAAAT
AAGGAGATCGAGATTAGACCATGAGTCAAAGGATAACAACAACCGAGATTAAACTGCGATTTTAA
ATTAAAGAGATCGGGATTGAACCGTGAATCGAAGAATAAAGAGATCAGGATTAAACCGCGAATCA
GAGAATAATGTTAACC
Found at i:16747 original size:34 final size:34
Alignment explanation
Indices: 16686--16756 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
16676 GATTTTAAAT
* * *
16686 TAAAGAGATCGGGATCGAACCACGAATCGGAGAA
1 TAAAGAGATCAGGATCAAACCACGAATCAGAGAA
* **
16720 TAAAGAGATCAGGATTAAACCGTGAATCAGAGAA
1 TAAAGAGATCAGGATCAAACCACGAATCAGAGAA
16754 TAA
1 TAA
16757 TGTTAACTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.45, C:0.14, G:0.25, T:0.15
Consensus pattern (34 bp):
TAAAGAGATCAGGATCAAACCACGAATCAGAGAA
Found at i:16895 original size:34 final size:34
Alignment explanation
Indices: 16857--16924 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
16847 GATTTTGAAT
* *
16857 TAAAGAGATCAAGATTGAACCACGAATTAGAGAA
1 TAAAGAGACCAAGATTAAACCACGAATTAGAGAA
* *
16891 TAAAGAGACCAGGATTAAACTACGAATTAGAGAA
1 TAAAGAGACCAAGATTAAACCACGAATTAGAGAA
16925 CAATGTTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.18
Consensus pattern (34 bp):
TAAAGAGACCAAGATTAAACCACGAATTAGAGAA
Found at i:17269 original size:109 final size:110
Alignment explanation
Indices: 17103--17344 Score: 301
Period size: 110 Copynumber: 2.2 Consensus size: 110
17093 AAATGATGTT
* * *
17103 AACTTGGATTGAA-CAGCAAGCTAGAAAGATAAAAAAGACTGAGATTAAACTGCAAGTCAGA-AA
1 AACTGGGATTGAACCA-CAAGTTAGAAAGATAAAAAAGACTGAGATTAAACCGCAAGTCAGAGAA
* * *
17166 AATA-ATGAAATGATCGGGATTAAACCACGAGCCAAATATTGATGAC
65 AATATA-GAAATGATCGGGATTAAACCACGAGCCAAAGATTAACGAC
* * *
17212 AATTGGGATTGAACCACAAGTTAGAAAGATAAAAGAGACTGAGATTAAACCGTAAGTCAGAGAAA
1 AACTGGGATTGAACCACAAGTTAGAAAGATAAAAAAGACTGAGATTAAACCGCAAGTCAGAGAAA
* * * *
17277 CTATAGAAATGATCGGGATTATATCACGAGTCAAAGATTAACGAC
66 ATATAGAAATGATCGGGATTAAACCACGAGCCAAAGATTAACGAC
* * *
17322 AACTGGGACTAAACCTCAAGTTA
1 AACTGGGATTGAACCACAAGTTA
17345 AAAAAAAATA
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
109 52 0.46
110 60 0.53
111 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (110 bp):
AACTGGGATTGAACCACAAGTTAGAAAGATAAAAAAGACTGAGATTAAACCGCAAGTCAGAGAAA
ATATAGAAATGATCGGGATTAAACCACGAGCCAAAGATTAACGAC
Found at i:17732 original size:217 final size:215
Alignment explanation
Indices: 17348--17977 Score: 649
Period size: 217 Copynumber: 2.9 Consensus size: 215
17338 CAAGTTAAAA
* * * *
17348 AAAAATAAAGAATCGATC-AGGAGAACACCGCGAATCGAATTTATGC-CCAGAAGTCTTAAAAAT
1 AAAAATAAAGAATCGATCGA-GACAACACCGTGAATCGAAATTATGCTCAAGAAGTCTTAAAAAT
* * * * * ** * * * * *
17411 CATGCCTGGATGTCTTACAGAATTGACTAGGATAATACCGCCAATAAAAAATAATGAATCGATTG
65 CATGCCCGAAGGTCTTACAGAATTGACGA-GATAACACC-ATAGTCAGAAATAAAGAATCGATCG
* * ** * *
17476 GGATAACACCGTGAATCGAATTTATGCCTGGAGGTCTTAGAAACCATGCCCAGATGTCTTACAGA
128 GGATAACA-CGCGAATCGAAATTATGCCCAGAGGTCTTAGAAATCATGCCC-GAGGTCTTACAGA
* *
17541 ATTGTTCGAAATAACAT-GCAAGTC
191 ATTGATCGAAATAACATCGCAAATC
* * * * *
17565 AGAAATAAAGAATCGATCGAGACAACACCGTGAATCAAAATTATGCTCAAAAAGTCTCAAAAATT
1 AAAAATAAAGAATCGATCGAGACAACACCGTGAATCGAAATTATGCTCAAGAAGTCTTAAAAATC
*
17630 ATGCCCGTAGGTCTTACAGAATTGATCGAGATAACACCATAGGTCAGAAATAAAGAATCGATCGG
66 ATGCCCGAAGGTCTTACAGAATTGA-CGAGATAACACCATA-GTCAGAAATAAAGAATCGATCGG
* * * *
17695 GACAACATCG-GAATCGAAATTATACCCAGAGGTCTTAGAAATCATGCTCGGAGGTCTTATAGAA
129 GATAACA-CGCGAATCGAAATTATGCCCAGAGGTCTTAGAAATCATGC-CCGAGGTCTTACAGAA
* * *
17759 TTGATCGAGATAATATCGTAAATC
192 TTGATCGAAATAACATCGCAAATC
* * * ** * *
17783 AAAAATAAAGAATCGATCGGGACAACATCATGAATCGAAATTATG-TCTGGAGGTCTTAGAAATC
1 AAAAATAAAGAATCGATCGAGACAACACCGTGAATCGAAATTATGCTCAAGAAGTCTTAAAAATC
* * *
17847 ATGCCCGAAGGTCTTACAGAATCGACTGAAATAACACCGTAAGTCAGAAATAAAGAATCGATCGG
66 ATGCCCGAAGGTCTTACAGAATTGAC-GAGATAACACCAT-AGTCAGAAATAAAGAATCGATCGG
* * * *
17912 GATAACACTGCGAATCAAAATTATGCCCTGAAGTTTTAGAAATCATGCCCGTAGGTCTTACAGAA
129 GATAACAC-GCGAATCGAAATTATGCCCAGAGGTCTTAGAAATCATGCCCG-AGGTCTTACAGAA
17977 T
192 T
17978 CATGCTCGGA
Statistics
Matches: 342, Mismatches: 60, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
216 2 0.01
217 175 0.51
218 163 0.48
219 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (215 bp):
AAAAATAAAGAATCGATCGAGACAACACCGTGAATCGAAATTATGCTCAAGAAGTCTTAAAAATC
ATGCCCGAAGGTCTTACAGAATTGACGAGATAACACCATAGTCAGAAATAAAGAATCGATCGGGA
TAACACGCGAATCGAAATTATGCCCAGAGGTCTTAGAAATCATGCCCGAGGTCTTACAGAATTGA
TCGAAATAACATCGCAAATC
Found at i:17962 original size:326 final size:327
Alignment explanation
Indices: 17350--17977 Score: 827
Period size: 326 Copynumber: 1.9 Consensus size: 327
17340 AGTTAAAAAA
* * *
17350 AAATAAAGAATCGATCAGGAGAACACCGCGAATCGAATTTATGCCCAGAAGTCTTAAAAATCATG
1 AAATAAAGAATCGATCAGGACAACACCGCGAATCGAAATTATACCCAGAAGTCTTAAAAATCATG
* * * * * *
17415 CCTGGATGTCTTACAGAATTGACTAGGATAATACCGCCAATAAAAAATAATGAATCGATTGGGAT
66 CCTGGAGGTCTTACAGAATTGACGAGGATAATACCGCAAATAAAAAATAAAGAATCGATCGGGAC
* * * *
17480 AACACCGTGAATCGAATTTATGCCTGGAGGTCTTAGAAACCATGCCCAGATGTCTTACAGAATTG
131 AACACCATGAATCGAAATTATGCCTGGAGGTCTTAGAAACCATGCCCAGAGGTCTTACAGAATCG
* * *
17545 TTCGAAATAACATGCAAGTCAGAAATAAAGAATCGATCGAGACAACACCGTGAATCAAAATTATG
196 CTCGAAATAACACGCAAGTCAGAAATAAAGAATCGATCGAGACAACACCGCGAATCAAAATTATG
*
17610 CTCAAAAAGTCTCAAAAATTATGCCCGTAGGTCTTACAGAATTGATCGAGATAACACCATAGGTC
261 CTCAAAAAGTCTCAAAAATCATGCCCGTAGGTCTTACAGAATTGATCGAGATAACACCATAGGTC
17675 AG
326 AG
* * * *
17677 AAATAAAGAATCGATCGGGACAACATCG-GAATCGAAATTATACCCAGAGGTCTTAGAAATCATG
1 AAATAAAGAATCGATCAGGACAACACCGCGAATCGAAATTATACCCAGAAGTCTTAAAAATCATG
* * * *
17741 -CTCGGAGGTCTTATAGAATTGATCGA-GATAATATCGTAAATCAAAAATAAAGAATCGATCGGG
66 CCT-GGAGGTCTTACAGAATTGA-CGAGGATAATACCGCAAATAAAAAATAAAGAATCGATCGGG
* * *
17804 ACAACATCATGAATCGAAATTATGTCTGGAGGTCTTAGAAATCATGCCC-GAAGGTCTTACAGAA
129 ACAACACCATGAATCGAAATTATGCCTGGAGGTCTTAGAAACCATGCCCAG-AGGTCTTACAGAA
* * * *
17868 TCGACT-GAAATAACACCGTAAGTCAGAAATAAAGAATCGATCGGGATAACACTGCGAATCAAAA
193 TCG-CTCGAAATAACA-CGCAAGTCAGAAATAAAGAATCGATCGAGACAACACCGCGAATCAAAA
*** * * *
17932 TTATGC-CCTGAAGTTTTAGAAATCATGCCCGTAGGTCTTACAGAAT
256 TTATGCTCAAAAAGTCTCAAAAATCATGCCCGTAGGTCTTACAGAAT
17978 CATGCTCGGA
Statistics
Matches: 258, Mismatches: 38, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
325 3 0.01
326 179 0.69
327 76 0.29
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (327 bp):
AAATAAAGAATCGATCAGGACAACACCGCGAATCGAAATTATACCCAGAAGTCTTAAAAATCATG
CCTGGAGGTCTTACAGAATTGACGAGGATAATACCGCAAATAAAAAATAAAGAATCGATCGGGAC
AACACCATGAATCGAAATTATGCCTGGAGGTCTTAGAAACCATGCCCAGAGGTCTTACAGAATCG
CTCGAAATAACACGCAAGTCAGAAATAAAGAATCGATCGAGACAACACCGCGAATCAAAATTATG
CTCAAAAAGTCTCAAAAATCATGCCCGTAGGTCTTACAGAATTGATCGAGATAACACCATAGGTC
AG
Found at i:17978 original size:109 final size:109
Alignment explanation
Indices: 17350--17977 Score: 627
Period size: 109 Copynumber: 5.8 Consensus size: 109
17340 AGTTAAAAAA
* * * *
17350 AAATAAAGAATCGATCAGGAGAACACCGCGAATCGAATTTATGCCCAGAAGTCTTAAAAATCATG
1 AAATAAAGAATCGATCGGGACAACACCGCGAATCGAAATTATGCCCAGAAGTCTTAGAAATCATG
* * * * * * *
17415 CCTGGATGTCTTACAGAATTGA-CTAGGATAATACCGCCAA-TAAA
66 CCCGGAGGTCTTACAGAATTGATCGA-GATAACACCG-TAAGTCAG
* * * * * ** * *
17459 AAATAATGAATCGATTGGGATAACACCGTGAATCGAATTTATGCCTGGAGGTCTTAGAAACCATG
1 AAATAAAGAATCGATCGGGACAACACCGCGAATCGAAATTATGCCCAGAAGTCTTAGAAATCATG
* * * * * *
17524 CCCAGATGTCTTACAGAATTGTTCGAAATAACA-TGCAAGTCAG
66 CCCGGAGGTCTTACAGAATTGATCGAGATAACACCGTAAGTCAG
* * * * * * * *
17567 AAATAAAGAATCGATCGAGACAACACCGTGAATCAAAATTATGCTCAAAAAGTCTCAAAAATTAT
1 AAATAAAGAATCGATCGGGACAACACCGCGAATCGAAATTATGC-CCAGAAGTCTTAGAAATCAT
* * *
17632 GCCCGTAGGTCTTACAGAATTGATCGAGATAACACCATAGGTCAG
65 GCCCGGAGGTCTTACAGAATTGATCGAGATAACACCGTAAGTCAG
* * *
17677 AAATAAAGAATCGATCGGGACAACATCG-GAATCGAAATTATACCCAGAGGTCTTAGAAATCATG
1 AAATAAAGAATCGATCGGGACAACACCGCGAATCGAAATTATGCCCAGAAGTCTTAGAAATCATG
* * * * * *
17741 CTCGGAGGTCTTATAGAATTGATCGAGATAATATCGTAAATCAA
66 CCCGGAGGTCTTACAGAATTGATCGAGATAACACCGTAAGTCAG
* ** * ** *
17785 AAATAAAGAATCGATCGGGACAACATCATGAATCGAAATTATGTCTGGAGGTCTTAGAAATCATG
1 AAATAAAGAATCGATCGGGACAACACCGCGAATCGAAATTATGCCCAGAAGTCTTAGAAATCATG
* * *
17850 CCCGAAGGTCTTACAGAATCGA-CTGAAATAACACCGTAAGTCAG
66 CCCGGAGGTCTTACAGAATTGATC-GAGATAACACCGTAAGTCAG
* * * * *
17894 AAATAAAGAATCGATCGGGATAACACTGCGAATCAAAATTATGCCCTGAAGTTTTAGAAATCATG
1 AAATAAAGAATCGATCGGGACAACACCGCGAATCGAAATTATGCCCAGAAGTCTTAGAAATCATG
*
17959 CCCGTAGGTCTTACAGAAT
66 CCCGGAGGTCTTACAGAAT
17978 CATGCTCGGA
Statistics
Matches: 426, Mismatches: 87, Indels: 12
0.81 0.17 0.02
Matches are distributed among these distances:
107 3 0.01
108 119 0.28
109 270 0.63
110 34 0.08
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (109 bp):
AAATAAAGAATCGATCGGGACAACACCGCGAATCGAAATTATGCCCAGAAGTCTTAGAAATCATG
CCCGGAGGTCTTACAGAATTGATCGAGATAACACCGTAAGTCAG
Found at i:17980 original size:23 final size:23
Alignment explanation
Indices: 17952--18001 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
17942 AAGTTTTAGA
*
17952 AATCATGCCCGTAGGTCTTACAG
1 AATCATGCCCGGAGGTCTTACAG
*
17975 AATCATGCTCGGAGGTCTTACAG
1 AATCATGCCCGGAGGTCTTACAG
17998 AATC
1 AATC
18002 GACTGAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (23 bp):
AATCATGCCCGGAGGTCTTACAG
Found at i:18136 original size:88 final size:88
Alignment explanation
Indices: 17986--18156 Score: 220
Period size: 88 Copynumber: 1.9 Consensus size: 88
17976 ATCATGCTCG
* * *
17986 GAGGTCTTACAGAATCGACTGAGATAACACCATAAGTCGAAAGATAAGAAATCGATCGGGATAAT
1 GAGGTCTTACAGAATCAACTGAGATAACACCATAAGTCGAAAGATAAGAAATCGATCAGGATAAC
*
18051 ACCGCGAATTGAAATTATACCCA
66 ACCGCGAATCGAAATTATACCCA
* * * * *
18074 GAGGTCTTATAGAATCAATTGGGATAACACCGT-AGATCGAAAGATAA-AGAATTGATCAGGATA
1 GAGGTCTTACAGAATCAACTGAGATAACACCATAAG-TCGAAAGATAAGA-AATCGATCAGGATA
*
18137 ACACCGTGAATCGAAATTAT
64 ACACCGCGAATCGAAATTAT
18157 GCCCGAAGGT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
87 3 0.04
88 68 0.96
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (88 bp):
GAGGTCTTACAGAATCAACTGAGATAACACCATAAGTCGAAAGATAAGAAATCGATCAGGATAAC
ACCGCGAATCGAAATTATACCCA
Found at i:18450 original size:110 final size:110
Alignment explanation
Indices: 18298--18521 Score: 340
Period size: 110 Copynumber: 2.0 Consensus size: 110
18288 GAAGGTCTTA
* *
18298 TAAATATCAAAATCTTTGAATGTTCTTCATAATCAGAAGCAATAAAACTTTAAAAATTTAAAAAT
1 TAAATATCAAAATCTTTGAATGCTCCTCATAATCAGAAGCAATAAAACTTTAAAAATTTAAAAAT
* * *
18363 CTTTTCAAACATGGCTTTTACCTGATCAGAGATTTTTTGAGACTT
66 CTTTTCAAACATAGCTTTCACCTAATCAGAGATTTTTTGAGACTT
* * * * * *
18408 TAAATCTCAAAATCTTTGAATGCTCCTCCTAATTAGAGGCAATGAAACTTTAAAAATTTGAAAAT
1 TAAATATCAAAATCTTTGAATGCTCCTCATAATCAGAAGCAATAAAACTTTAAAAATTTAAAAAT
*
18473 CTTTTCAAACATAGCTTTCGCCTAATCAGAGATTTTTTGAGACTT
66 CTTTTCAAACATAGCTTTCACCTAATCAGAGATTTTTTGAGACTT
18518 TAAA
1 TAAA
18522 GGTCTTATCT
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
110 102 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (110 bp):
TAAATATCAAAATCTTTGAATGCTCCTCATAATCAGAAGCAATAAAACTTTAAAAATTTAAAAAT
CTTTTCAAACATAGCTTTCACCTAATCAGAGATTTTTTGAGACTT
Found at i:20626 original size:13 final size:13
Alignment explanation
Indices: 20608--20632 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20598 GGCTCTAAAC
20608 TTTTTTTTTGGTA
1 TTTTTTTTTGGTA
20621 TTTTTTTTTGGT
1 TTTTTTTTTGGT
20633 TAAAGAAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.00, G:0.16, T:0.80
Consensus pattern (13 bp):
TTTTTTTTTGGTA
Found at i:23068 original size:13 final size:13
Alignment explanation
Indices: 23035--23075 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
23025 CATCATGATG
23035 TATGAAACAAGAAA
1 TATGAAACAA-AAA
*
23049 GATGAAACAAAAA
1 TATGAAACAAAAA
*
23062 TATGAAAAAAAAA
1 TATGAAACAAAAA
23075 T
1 T
23076 TTTGAAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.68, C:0.05, G:0.12, T:0.15
Consensus pattern (13 bp):
TATGAAACAAAAA
Found at i:23785 original size:26 final size:27
Alignment explanation
Indices: 23737--23787 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
23727 TGTATATTTG
**
23737 AAATATTAAAACAAAAGGAATTAAACT
1 AAATATTAAAACAAAACCAATTAAACT
*
23764 AAATATT-AAATAAAACCAATTAAA
1 AAATATTAAAACAAAACCAATTAAA
23788 TCCAATCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.65, C:0.08, G:0.04, T:0.24
Consensus pattern (27 bp):
AAATATTAAAACAAAACCAATTAAACT
Found at i:24973 original size:15 final size:15
Alignment explanation
Indices: 24947--24989 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
24937 GCGTATCAAA
24947 TTTGGATTTTTAAAAT
1 TTTGGA-TTTTAAAAT
***
24963 TTTGGATTTTACGGT
1 TTTGGATTTTAAAAT
24978 TTTGGATTTTAA
1 TTTGGATTTTAA
24990 GGCTTGGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.23, C:0.02, G:0.19, T:0.56
Consensus pattern (15 bp):
TTTGGATTTTAAAAT
Found at i:25017 original size:15 final size:15
Alignment explanation
Indices: 24962--25119 Score: 69
Period size: 15 Copynumber: 10.2 Consensus size: 15
24952 ATTTTTAAAA
*
24962 TTTTGGATTTTACGG
1 TTTTGGATTTTAGGG
24977 TTTTGGATTTTAAGGCTTGGG
1 TTTTGGATTTT-A-----GGG
24998 ATTTTGGATTTTAGGG
1 -TTTTGGATTTTAGGG
* *
25014 TTTTGG--TTTCGAG
1 TTTTGGATTTTAGGG
25027 TTTTGGATTTT-GGG
1 TTTTGGATTTTAGGG
*
25041 ATTTT-GATTTTAAGG
1 -TTTTGGATTTTAGGG
* *
25056 -TTTAGATGGTTTAAGG
1 TTTTGGAT--TTTAGGG
* *
25072 TTTTTGATTTTAAGG
1 TTTTGGATTTTAGGG
*
25087 -TTTGGAGGATTTAGGG
1 TTTTGGA--TTTTAGGG
*
25103 TTTT-AATTTTAGGG
1 TTTTGGATTTTAGGG
25117 TTT
1 TTT
25120 GGAGGTTTGG
Statistics
Matches: 114, Mismatches: 11, Indels: 37
0.70 0.07 0.23
Matches are distributed among these distances:
13 14 0.12
14 26 0.23
15 33 0.29
16 18 0.16
17 9 0.08
21 3 0.03
22 11 0.10
ACGTcount: A:0.17, C:0.02, G:0.29, T:0.52
Consensus pattern (15 bp):
TTTTGGATTTTAGGG
Found at i:25077 original size:31 final size:29
Alignment explanation
Indices: 25007--25177 Score: 136
Period size: 28 Copynumber: 5.9 Consensus size: 29
24997 GATTTTGGAT
* ** *
25007 TTTAGGGTTTTGGTTTCGAGTTTTGGA--
1 TTTAGGGTTTTGATTTTAAGGTTTGGAGG
* *
25034 TTTTGGGATTTTGATTTTAAGGTTTAGATGG
1 TTTAGGG-TTTTGATTTTAAGGTTTGGA-GG
*
25065 TTTAAGGTTTTTGATTTTAAGGTTTGGAGG
1 TTT-AGGGTTTTGATTTTAAGGTTTGGAGG
* *
25095 ATTTAGGGTTTTAATTTTAGGGTTTGGAGG
1 -TTTAGGGTTTTGATTTTAAGGTTTGGAGG
* * *
25125 TTT-GGAGTTTAG-TTTTAGGGTTTGAAGG
1 TTTAGG-GTTTTGATTTTAAGGTTTGGAGG
*
25153 TTT-GGAGTTTCGATTTTAAGGTTTG
1 TTTAGG-GTTTTGATTTTAAGGTTTG
25178 ATTTTAATTT
Statistics
Matches: 119, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
27 6 0.05
28 43 0.36
29 18 0.15
30 25 0.21
31 25 0.21
32 2 0.02
ACGTcount: A:0.18, C:0.01, G:0.32, T:0.50
Consensus pattern (29 bp):
TTTAGGGTTTTGATTTTAAGGTTTGGAGG
Found at i:25530 original size:11 final size:12
Alignment explanation
Indices: 25498--25527 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25488 TTATTACTAC
*
25498 TTTTTTTAGCAT
1 TTTTTTTAGTAT
25510 TTTTTTTAGTAT
1 TTTTTTTAGTAT
25522 TTTTTT
1 TTTTTT
25528 AGTTATTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.03, G:0.07, T:0.77
Consensus pattern (12 bp):
TTTTTTTAGTAT
Found at i:26729 original size:19 final size:19
Alignment explanation
Indices: 26695--26734 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
26685 AGTTCCCTTT
*
26695 TTTTTTTGTTCTTTTTCTA
1 TTTTTTTGTTCGTTTTCTA
* *
26714 TTTTTTTGTTGGTTTTTTA
1 TTTTTTTGTTCGTTTTCTA
26733 TT
1 TT
26735 AATTATTATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.05, G:0.10, T:0.80
Consensus pattern (19 bp):
TTTTTTTGTTCGTTTTCTA
Found at i:29243 original size:20 final size:21
Alignment explanation
Indices: 29208--29288 Score: 87
Period size: 22 Copynumber: 3.7 Consensus size: 21
29198 TATTAAACAA
29208 ATTTTAATTATTTAAAATTATT
1 ATTTT-ATTATTTAAAATTATT
29230 ATTTTATT-TTTAAAATTATT
1 ATTTTATTATTTAAAATTATT
29250 ATTTTTTATTATTTAATTAATT-TT
1 A--TTTTATTATTTAA--AATTATT
29274 ATTCTTATT-TTTAAA
1 ATT-TTATTATTTAAA
29289 TAATTTGATA
Statistics
Matches: 53, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
20 14 0.26
21 3 0.06
22 19 0.36
23 10 0.19
24 3 0.06
25 4 0.08
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTATTATTTAAAATTATT
Found at i:30036 original size:19 final size:19
Alignment explanation
Indices: 30011--30058 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
30001 ATAAAAAATT
*
30011 TAAATTATTTAA-TATTTA
1 TAAATTATTTAATTATTAA
* *
30029 TAAAATTAATAAATTATTAA
1 T-AAATTATTTAATTATTAA
30049 TAAATTATTT
1 TAAATTATTT
30059 TATGTCAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
18 1 0.04
19 16 0.70
20 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAAATTATTTAATTATTAA
Found at i:30047 original size:11 final size:11
Alignment explanation
Indices: 30033--30057 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30023 TATTTATAAA
30033 ATTAATAAATT
1 ATTAATAAATT
30044 ATTAATAAATT
1 ATTAATAAATT
30055 ATT
1 ATT
30058 TTATGTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTAATAAATT
Found at i:33152 original size:11 final size:11
Alignment explanation
Indices: 33136--33160 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33126 TTCAGTTACT
33136 GATTTAATTAG
1 GATTTAATTAG
33147 GATTTAATTAG
1 GATTTAATTAG
33158 GAT
1 GAT
33161 GCCTACATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (11 bp):
GATTTAATTAG
Found at i:35867 original size:34 final size:34
Alignment explanation
Indices: 35829--35912 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 34
35819 TTGTATCTAA
*
35829 AAAATGCCGCTATATTAGTGGCATTTAAACCTAG
1 AAAATGCCGCTATATTAGTGACATTTAAACCTAG
** * *
35863 AAAATGCTAC-ATATTAGTGACATTTGAATCTAG
1 AAAATGCCGCTATATTAGTGACATTTAAACCTAG
*
35896 AAAATGTCGCTATATTA
1 AAAATGCCGCTATATTA
35913 ACAACATTTG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
33 27 0.66
34 14 0.34
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (34 bp):
AAAATGCCGCTATATTAGTGACATTTAAACCTAG
Found at i:35944 original size:34 final size:34
Alignment explanation
Indices: 35882--35967 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 34
35872 CATATTAGTG
* ** *
35882 ACATTTGAATCTAGAAAATGTCGCTATATTAACA
1 ACATTTGTATCTAGAAAATACCACTATATTAACA
* ***
35916 ACATTTGTATCTAGAAAATACCATTATATTAGTG
1 ACATTTGTATCTAGAAAATACCACTATATTAACA
*
35950 GCATTTGTATCTAGAAAA
1 ACATTTGTATCTAGAAAA
35968 CGTTGTTATT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (34 bp):
ACATTTGTATCTAGAAAATACCACTATATTAACA
Found at i:36039 original size:34 final size:34
Alignment explanation
Indices: 36001--36090 Score: 92
Period size: 34 Copynumber: 2.7 Consensus size: 34
35991 TATATTTGAG
* *
36001 ATGCCATTAATTTAGTGGTGTTTTTATCAAAAAA
1 ATGCCATTAATTTAGTGGCGTTTATATCAAAAAA
* * * * *
36035 ATGCCATTACTTTGGTGGCGTTTATGTTAGAAAA
1 ATGCCATTAATTTAGTGGCGTTTATATCAAAAAA
* *
36069 ATACCACTAATTTAGT-GCGTTT
1 ATGCCATTAATTTAGTGGCGTTT
36091 TCTAGCAAGA
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
33 6 0.13
34 39 0.87
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (34 bp):
ATGCCATTAATTTAGTGGCGTTTATATCAAAAAA
Found at i:44273 original size:187 final size:185
Alignment explanation
Indices: 43925--44341 Score: 525
Period size: 187 Copynumber: 2.2 Consensus size: 185
43915 TAGTGAATGC
* * *
43925 CTTCAATAATTTTCTTTTGAAAAATTTTGGAATTAGTAAAGGCATCTTCCAGTGCAAAACGCAAT
1 CTTCAATAATTTTCTTTT-AAAATTTTTGG-ATTATTAAAGGCATCTTCCAGTGAAAAACGCAAT
* *
43990 CAATATTTCACTACTCAAATTTTAAGATGGTTAGTGAAGGCGTTTATTCTAGAAAATCACCTTCA
64 CAATATTTCACTACTCAAATTTTAAGACGGTTAATGAAGGCGTTTATTCTAGAAAATCACCTTCA
* **
44055 TTAATTCTTTTTAATTTACATACATAATTATTGAAT-GCATTTTTTGAGAACAAACACT
129 CTAATTCCATTTAATTTACATACATAATTATTG-ATGGCATTTTTTGAGAACAAA-ACT
* * * **
44113 -TTCAATAATTTTCTTTTAAAATTTTTTGGATTATTAAAGGTATTTTTCAGTGAAAAACGCCTTC
1 CTTCAATAATTTTCTTTTAAAA-TTTTTGGATTATTAAAGGCATCTTCCAGTGAAAAACGCAATC
* * * * *
44177 GATATTTCACTGCTCAAATTTTAAGACGGTTAATGAATGTGTTTATTCTAGAAAAAAT-GCCTTC
65 AATATTTCACTACTCAAATTTTAAGACGGTTAATGAAGGCGTTTATTCTAG--AAAATCACCTTC
* * **
44241 ACTAATTCCATTTAATTTACGTACATAATTATTGATGGCATTTTTTTAGAACAAATGT
128 ACTAATTCCATTTAATTTACATACATAATTATTGATGGCATTTTTTGAGAACAAAACT
*
44299 CTTCAATCATTTTCTTTTAAAAATTTTTGAGATTATTAAAGGC
1 CTTCAATAATTTTCTTTT-AAAATTTTTG-GATTATTAAAGGC
44342 GTTTTTTAGT
Statistics
Matches: 198, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
186 80 0.40
187 97 0.49
188 21 0.11
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (185 bp):
CTTCAATAATTTTCTTTTAAAATTTTTGGATTATTAAAGGCATCTTCCAGTGAAAAACGCAATCA
ATATTTCACTACTCAAATTTTAAGACGGTTAATGAAGGCGTTTATTCTAGAAAATCACCTTCACT
AATTCCATTTAATTTACATACATAATTATTGATGGCATTTTTTGAGAACAAAACT
Found at i:45158 original size:28 final size:28
Alignment explanation
Indices: 45127--45185 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
45117 TGTTGAACCT
* * * *
45127 TATTGTGTGATATTGTTTTGCTAAATGG
1 TATTGTATGATATTGGTATGCTAAATCG
45155 TATTGTATGATATTGGTATGCTAAATCG
1 TATTGTATGATATTGGTATGCTAAATCG
45183 TAT
1 TAT
45186 GTTGAATGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.05, G:0.22, T:0.47
Consensus pattern (28 bp):
TATTGTATGATATTGGTATGCTAAATCG
Found at i:46915 original size:21 final size:21
Alignment explanation
Indices: 46871--46915 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
46861 ATAAGTTTAA
* *
46871 TATTAATTTGTTTATTATATT
1 TATTAATTTGTTTATAATACT
46892 TATTAATTTGGTTT-TAATACT
1 TATTAATTT-GTTTATAATACT
46913 TAT
1 TAT
46916 ATTTTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (21 bp):
TATTAATTTGTTTATAATACT
Found at i:48737 original size:64 final size:62
Alignment explanation
Indices: 48537--48761 Score: 179
Period size: 64 Copynumber: 3.5 Consensus size: 62
48527 TAACAAAATG
* * ** *** *
48537 TTATTGAAGGCATTTTAAACCAAAAATGCCTTCAATAATCCCACCTAAAAATATATTGTGTGGA
1 TTATTAAAGGCATTTTAGA-CAAAAATGCCTTCAATAATATCTGTTAAAAAT-TATTGTATGGA
* * *
48601 ATATTAAAGGCATTTTAGGACAAAAATGCCTTCAA-AA-ATCTGTTCCAAATATT-GTGTATGGA
1 TTATTAAAGGCATTTTA-GACAAAAATGCCTTCAATAATATCTGTT--AAAAATTATTGTATGGA
* * *
48663 TTATTGAAGGCATTTTTGACAAAAACTGCCTTCAATAATTTCTGTTAAAAATTTATTAGT-TGGA
1 TTATTAAAGGCATTTTAGACAAAAA-TGCCTTCAATAATATCTGTTAAAAA-TTATT-GTATGGA
* ** *
48727 TTATTAAAGGCACTTTCACCCGAAAATGCCTTCAA
1 TTATTAAAGGCA-TTTTAGACAAAAATGCCTTCAA
48762 GAATCTATCC
Statistics
Matches: 128, Mismatches: 23, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
61 8 0.06
62 36 0.28
63 7 0.05
64 66 0.52
65 11 0.09
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.34
Consensus pattern (62 bp):
TTATTAAAGGCATTTTAGACAAAAATGCCTTCAATAATATCTGTTAAAAATTATTGTATGGA
Found at i:48767 original size:126 final size:126
Alignment explanation
Indices: 48537--48767 Score: 288
Period size: 126 Copynumber: 1.8 Consensus size: 126
48527 TAACAAAATG
48537 TTATTGAAGGCATTTTAAACCAAAAATGCCTTCAATAATCCCACCTAAAAATATATTGTGTGGAA
1 TTATTGAAGGCATTTTAAACCAAAAATGCCTTCAATAATCCCACCTAAAAATATATTGTGTGGAA
* *
48602 TATTAAAGGCATTTTAGGACAAAAATGCCTTCAAAAATCTGTTCCAAATATTGTGTATGGA
66 TATTAAAGGCATTTCAGCACAAAAATGCCTTCAAAAATCTGTTCCAAATATTGTGTATGGA
** ** *** *
48663 TTATTGAAGGCATTTTTGA-CAAAAACTGCCTTCAATAATTTCTGTTAAAAATTTATTAGT-TGG
1 TTATTGAAGGCATTTTAAACCAAAAA-TGCCTTCAATAATCCCACCTAAAAATATATT-GTGTGG
* * * *
48726 ATTATTAAAGGCACTTTCA-CCCGAAAATGCCTTCAAGAATCT
64 AATATTAAAGGCA-TTTCAGCACAAAAATGCCTTCAAAAATCT
48768 ATCCATATTT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
125 6 0.07
126 76 0.86
127 6 0.07
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.34
Consensus pattern (126 bp):
TTATTGAAGGCATTTTAAACCAAAAATGCCTTCAATAATCCCACCTAAAAATATATTGTGTGGAA
TATTAAAGGCATTTCAGCACAAAAATGCCTTCAAAAATCTGTTCCAAATATTGTGTATGGA
Found at i:49276 original size:243 final size:243
Alignment explanation
Indices: 48819--49282 Score: 589
Period size: 243 Copynumber: 1.9 Consensus size: 243
48809 AGAAAACACT
* **
48819 TTGAATAATCTATAACAAAATGTTATTGAACGCATTTTTTACTAAAATCACCTTCAATAATCCCA
1 TTGAATAATCCATAACAAAATGTTATTGAACGCATTTTTTAAAAAAATCACCTTCAATAATCCCA
* * *
48884 CCTAAAAATTTATTGTGTGGAATATTAAAGGCATTTTGGGCAAAAAATGCCTTCAAGAATCTGTT
66 CCTAAAAATTTATCGTGTGGAATATTAAAGGCATTTTGAGCAAAAAACGCCTTCAAGAATCTGTT
* * * *
48949 CTAATTTTTTTGTATGGATTATTGAAGGCATTTTAAAAACAAACACCTTTAATAATACCAACAAA
131 CCAACTTTTGTGTATGGATTATTGAAGGCATTTTAAAAACAAACACCATTAATAATACCAACAAA
49014 AAATTAATTGAATGGATTATT-AAGGGCATTTTTCTACCAGTAATGTC
196 AAATTAATTGAATGGATTATTGAAGGGCATTTTTCTACCAGTAATGTC
* * * * *
49061 TTGAATAATCCCTAACAAAATGTTATTGAA-GACGTTTTTTAAAAAAATCACCTTTAATAATTCG
1 TTGAATAATCCATAACAAAATGTTATTGAACG-CATTTTTTAAAAAAATCACCTTCAATAATCCC
** * *
49125 ACCATTCAAATTTATCGTGTGGAATATTAAA-GCTGTTTTGAGCTAAAAACGCCTTCAAGAATCT
65 ACC-TAAAAATTTATCGTGTGGAATATTAAAGGC-ATTTTGAGCAAAAAACGCCTTCAAGAATCT
* * * * *
49189 GTTCCAACTTTTGTGTGTGGATTATTGAAGGTATTTTGACAA-AAACTACCATTAGTAAT-CCAA
128 GTTCCAACTTTTGTGTATGGATTATTGAAGGCATTTTAAAAACAAAC-ACCATTAATAATACC-A
** *
49252 ACTGAAAATTTATT-AATTGGATTATTGAAGG
191 ACAAAAAATTAATTGAA-TGGATTATTGAAGG
49283 TGAGTTAGGC
Statistics
Matches: 188, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
241 1 0.01
242 67 0.36
243 116 0.62
244 4 0.02
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (243 bp):
TTGAATAATCCATAACAAAATGTTATTGAACGCATTTTTTAAAAAAATCACCTTCAATAATCCCA
CCTAAAAATTTATCGTGTGGAATATTAAAGGCATTTTGAGCAAAAAACGCCTTCAAGAATCTGTT
CCAACTTTTGTGTATGGATTATTGAAGGCATTTTAAAAACAAACACCATTAATAATACCAACAAA
AAATTAATTGAATGGATTATTGAAGGGCATTTTTCTACCAGTAATGTC
Found at i:58469 original size:11 final size:11
Alignment explanation
Indices: 58453--58485 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
58443 TTTCTTTCCA
58453 TTTTTTCTTTT
1 TTTTTTCTTTT
*
58464 TTTTTT-GTTT
1 TTTTTTCTTTT
58474 TTTTTTCTTTT
1 TTTTTTCTTTT
58485 T
1 T
58486 ATTTAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.91
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:58726 original size:8 final size:8
Alignment explanation
Indices: 58715--58767 Score: 70
Period size: 8 Copynumber: 6.6 Consensus size: 8
58705 CTTTTTTTTT
58715 TTTTTTGC
1 TTTTTTGC
*
58723 TTTTTTAC
1 TTTTTTGC
58731 TTTTTTGC
1 TTTTTTGC
*
58739 TATTTTGC
1 TTTTTTGC
*
58747 TATTTTGC
1 TTTTTTGC
*
58755 TTTTTTTC
1 TTTTTTGC
58763 TTTTT
1 TTTTT
58768 CATTTTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.06, C:0.11, G:0.08, T:0.75
Consensus pattern (8 bp):
TTTTTTGC
Found at i:58728 original size:16 final size:16
Alignment explanation
Indices: 58707--58767 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
58697 CGAGCTTCCT
*
58707 TTTTTTTTTTTTTTGC
1 TTTTTTTCTTTTTTGC
*
58723 TTTTTTACTTTTTTGC
1 TTTTTTTCTTTTTTGC
* * *
58739 TATTTTGCTATTTTGC
1 TTTTTTTCTTTTTTGC
58755 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
58768 CATTTTTTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.05, C:0.10, G:0.07, T:0.79
Consensus pattern (16 bp):
TTTTTTTCTTTTTTGC
Found at i:62559 original size:13 final size:13
Alignment explanation
Indices: 62521--62560 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
62511 TTCACTGCTC
62521 TTGAACATTTTCT
1 TTGAACATTTTCT
** *
62534 TTGGTCATATTCT
1 TTGAACATTTTCT
62547 TTGAACATTTTCT
1 TTGAACATTTTCT
62560 T
1 T
62561 CATGGCTTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.55
Consensus pattern (13 bp):
TTGAACATTTTCT
Found at i:63573 original size:42 final size:42
Alignment explanation
Indices: 63526--63609 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
63516 TTAGCCTCTT
*
63526 GGTTTTATTCACTAACTATAAAGTCAAGTGACGGGATTGGTA
1 GGTTTTATTCACTAACTATAAAGCCAAGTGACGGGATTGGTA
63568 GGTTTTATTCACTAACTATAAAGCCAAGTGACGGGATTGGTA
1 GGTTTTATTCACTAACTATAAAGCCAAGTGACGGGATTGGTA
63610 AAGAAATAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (42 bp):
GGTTTTATTCACTAACTATAAAGCCAAGTGACGGGATTGGTA
Found at i:69647 original size:23 final size:22
Alignment explanation
Indices: 69510--69647 Score: 57
Period size: 23 Copynumber: 5.9 Consensus size: 22
69500 TATTGTATTT
*
69510 TATTATTTATTATGTATTATA-A
1 TATTATTTTTTAT-TATTATATA
***
69532 TTATTATTAAATATTAATTATAT-
1 -TATTATTTTTTATT-ATTATATA
* * *
69555 TGTATATCTTTTATTTATT-TATT
1 TAT-TATTTTTTA-TTATTATATA
* * *
69578 TATTTATTTTCTATTAATATTTA
1 TA-TTATTTTTTATTATTATATA
69601 TATGTATTGTATTTATATAGTTATATA
1 TAT-TATT-T-TTTAT-TA-TTATATA
69628 TATTATTATTTTATTATTAT
1 TATTATT-TTTTATTATTAT
69648 TATTTTTTCT
Statistics
Matches: 86, Mismatches: 17, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
22 11 0.13
23 45 0.52
24 6 0.07
25 9 0.10
26 7 0.08
27 8 0.09
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (22 bp):
TATTATTTTTTATTATTATATA
Found at i:70086 original size:25 final size:25
Alignment explanation
Indices: 70052--70105 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
70042 CTGGGAGTAA
70052 GAAAAATTTTT-TAAAAATTTTTGG
1 GAAAAATTTTTCTAAAAATTTTTGG
**
70076 TGAAAAATTTTTCTGGAAATTTTTGG
1 -GAAAAATTTTTCTAAAAATTTTTGG
70102 GAAA
1 GAAA
70106 TTTCCAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.43
Consensus pattern (25 bp):
GAAAAATTTTTCTAAAAATTTTTGG
Found at i:70199 original size:19 final size:19
Alignment explanation
Indices: 70160--70199 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
70150 GCAAATTTGA
**
70160 AGTTTCCGGCGAGATGCCC
1 AGTTTCCGGCGAGAAACCC
*
70179 AGTTTCCGGCGAGAAATCC
1 AGTTTCCGGCGAGAAACCC
70198 AG
1 AG
70200 AAACCGACCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.28, G:0.30, T:0.20
Consensus pattern (19 bp):
AGTTTCCGGCGAGAAACCC
Done.