Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015213.1 Kokia drynarioides strain JFW-HI SEQ_130257, 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: 191884
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 111 characters in sequence are not A, C, G, or T
Found at i:181 original size:6 final size:6
Alignment explanation
Indices: 135--230 Score: 69
Period size: 6 Copynumber: 16.5 Consensus size: 6
125 CCTTATTTAT
* ** *
135 TTTAAA TTTATA -TT-AA TCTTAAA TTTGAAA AATAAA TTTAAA CTTAAA
1 TTTAAA TTTAAA TTTAAA T-TTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
* *
183 -TTAAA TTTAAA TTCGAAA --TAAA TTTAAA TTT-AA TATAAA TTTAAA
1 TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
228 TTT
1 TTT
231 CTAAACAAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
4 4 0.06
5 11 0.16
6 45 0.64
7 10 0.14
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:192 original size:11 final size:11
Alignment explanation
Indices: 136--229 Score: 52
Period size: 11 Copynumber: 8.2 Consensus size: 11
126 CTTATTTATT
*
136 TTAAATTTATA
1 TTAAATTTAAA
147 TT-AATCTTAAA
1 TTAAAT-TTAAA
**
158 TTTGAAAAATAAA
1 -TT-AAATTTAAA
*
171 TTTAAACTTAAA
1 -TTAAATTTAAA
183 TTAAATTTAAA
1 TTAAATTTAAA
194 TTCGAAA--TAAA
1 TT--AAATTTAAA
205 TTTAAATTT-AA
1 -TTAAATTTAAA
216 TATAAATTTAAA
1 T-TAAATTTAAA
228 TT
1 TT
230 TCTAAACAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 22
0.70 0.06 0.23
Matches are distributed among these distances:
10 7 0.11
11 32 0.48
12 15 0.23
13 10 0.15
14 2 0.03
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:207 original size:34 final size:35
Alignment explanation
Indices: 164--262 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 35
154 TAAATTTGAA
164 AAATAAATTTAAACTTAAATTAAATTTAAA-TTCG
1 AAATAAATTTAAACTTAAATTAAATTTAAATTTCG
* *
198 AAATAAATTTAAA-TTTAATATAAATTTAAATTTCT
1 AAATAAATTTAAACTTAAAT-TAAATTTAAATTTCG
* ** *
233 AAACAAATTTATTCTTAAAATAAATTTAAA
1 AAATAAATTTAAACTTAAATTAAATTTAAA
263 GGGAGTTTGG
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
33 5 0.09
34 23 0.42
35 23 0.42
36 4 0.07
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (35 bp):
AAATAAATTTAAACTTAAATTAAATTTAAATTTCG
Found at i:230 original size:17 final size:16
Alignment explanation
Indices: 135--262 Score: 96
Period size: 17 Copynumber: 7.4 Consensus size: 16
125 CCTTATTTAT
* *
135 TTTAAATTTATATTAA
1 TTTAAATTTAAATAAA
151 TCTTAAATTTGAAAAATAAA
1 T-TTAAATTT---AAATAAA
*
171 TTTAAACTTAAATTAAA
1 TTTAAATTTAAA-TAAA
*
188 TTTAAATTCGAAATAAA
1 TTTAAATT-TAAATAAA
205 TTTAAATTTAATATAAA
1 TTTAAATTTAA-ATAAA
*
222 TTTAAATTTCTAAACAAA
1 TTTAAA-TT-TAAATAAA
*
240 TTT-ATTCTTAAAATAAA
1 TTTAAAT-TT-AAATAAA
257 TTTAAA
1 TTTAAA
263 GGGAGTTTGG
Statistics
Matches: 90, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
16 8 0.09
17 53 0.59
18 13 0.14
19 10 0.11
20 6 0.07
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:6408 original size:12 final size:11
Alignment explanation
Indices: 6375--6422 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
6365 ATATTTAAAT
*
6375 AATATTAAAAA
1 AATAGTAAAAA
*
6386 AGATAGTAAAAC
1 A-ATAGTAAAAA
6398 AATAGTAAAAA
1 AATAGTAAAAA
*
6409 CATA-TAAAAA
1 AATAGTAAAAA
6419 AATA
1 AATA
6423 ACATTCAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
10 9 0.29
11 13 0.42
12 9 0.29
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (11 bp):
AATAGTAAAAA
Found at i:6416 original size:21 final size:22
Alignment explanation
Indices: 6382--6422 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6372 AATAATATTA
* *
6382 AAAAAGATAGTAAAACAATAGT
1 AAAAACATAGTAAAAAAATAGT
6404 AAAAACATA-TAAAAAAATA
1 AAAAACATAGTAAAAAAATA
6423 ACATTCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.17
Consensus pattern (22 bp):
AAAAACATAGTAAAAAAATAGT
Found at i:6454 original size:21 final size:19
Alignment explanation
Indices: 6412--6451 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
6402 GTAAAAACAT
**
6412 ATAAAAAAATAACATTCAA
1 ATAAAAAAATAACAACCAA
6431 ATAATAAAAATAACAACCAA
1 ATAA-AAAAATAACAACCAA
6451 A
1 A
6452 ATAGCAGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.17
Consensus pattern (19 bp):
ATAAAAAAATAACAACCAA
Found at i:6494 original size:53 final size:54
Alignment explanation
Indices: 6418--6531 Score: 126
Period size: 53 Copynumber: 2.1 Consensus size: 54
6408 ACATATAAAA
* * * * * *
6418 AAATAACATTCAAATAATAAAAATAACAACCAAAATAGCAGCAAAAATAACAGC
1 AAATAACATTCAAATAAAAAAAATAACAACAAAAACAACAACAAAAATAACACC
* *
6472 AAATAACATT-AAA-AACAAAAAATAGCAACAAAAACAACAATAAAAATAACACC
1 AAATAACATTCAAATAA-AAAAAATAACAACAAAAACAACAACAAAAATAACACC
6525 AAA-AACA
1 AAATAACA
6532 ACACGAAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
52 6 0.12
53 35 0.69
54 10 0.20
ACGTcount: A:0.68, C:0.17, G:0.04, T:0.12
Consensus pattern (54 bp):
AAATAACATTCAAATAAAAAAAATAACAACAAAAACAACAACAAAAATAACACC
Found at i:6540 original size:23 final size:24
Alignment explanation
Indices: 6436--6552 Score: 83
Period size: 24 Copynumber: 4.7 Consensus size: 24
6426 TTCAAATAAT
* * * *
6436 AAAAATAACAACCAAAATAGCAGC
1 AAAAATAACAACAAAAACAACAAC
* *
6460 AAAAATAACAGCAAATAACATTAAAAAC
1 AAAAATAACAACAAA-AAC---AACAAC
* *
6488 AAAAAATAGCAACAAAAACAACAAT
1 -AAAAATAACAACAAAAACAACAAC
*
6513 AAAAATAACACCAAAAACAAC-AC
1 AAAAATAACAACAAAAACAACAAC
*
6536 GAAAATAACAATCAAAA
1 AAAAATAACAA-CAAAA
6553 TAGTAAAAAA
Statistics
Matches: 72, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
23 10 0.14
24 37 0.51
25 6 0.08
28 6 0.08
29 13 0.18
ACGTcount: A:0.68, C:0.18, G:0.04, T:0.09
Consensus pattern (24 bp):
AAAAATAACAACAAAAACAACAAC
Found at i:11112 original size:6 final size:6
Alignment explanation
Indices: 11100--11140 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
11090 TCTCTTACAC
* *
11100 CAACAG AAACAG AAACAG CAACAG CAACAG CAACAG CAACA
1 CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG CAACA
11141 AATGCTTCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.56, C:0.29, G:0.15, T:0.00
Consensus pattern (6 bp):
CAACAG
Found at i:23710 original size:32 final size:35
Alignment explanation
Indices: 23631--23715 Score: 104
Period size: 38 Copynumber: 2.4 Consensus size: 35
23621 CTGCAAACCC
*
23631 AATTTCAGATATTTCAATTGAGTCCCCAGGATAAACTA
1 AATTTCAGATATTTCAACTGAGTCCCCAGG---AACTA
*
23669 AATTTCAGATATTTCAACTGAGTCCCGAGG-A-T-
1 AATTTCAGATATTTCAACTGAGTCCCCAGGAACTA
23701 AATTTCAGATATTTC
1 AATTTCAGATATTTC
23716 CTGTCAATCC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
32 15 0.33
33 1 0.02
34 1 0.02
38 28 0.62
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (35 bp):
AATTTCAGATATTTCAACTGAGTCCCCAGGAACTA
Found at i:26135 original size:32 final size:32
Alignment explanation
Indices: 26089--26163 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
26079 TGTTTAGTAA
26089 TTATAATTAATATTT-ATTTTAAAAAAAAATTAT
1 TTAT-ATTAATATTTAATTTTAAAAAAAAATT-T
* ** *
26122 TTATATTTATATTTAATTTTTTAAAAATATTT
1 TTATATTAATATTTAATTTTAAAAAAAAATTT
26154 TTATATTAAT
1 TTATATTAAT
26164 TGCATGTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 19 0.53
33 17 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
TTATATTAATATTTAATTTTAAAAAAAAATTT
Found at i:33630 original size:151 final size:151
Alignment explanation
Indices: 33356--33658 Score: 606
Period size: 151 Copynumber: 2.0 Consensus size: 151
33346 CTTTCATTTT
33356 TCTTTGCACACAAAAACCATTGAGGACGATATACAAAGAGTATTAATGTAATTTATAGATAATTG
1 TCTTTGCACACAAAAACCATTGAGGACGATATACAAAGAGTATTAATGTAATTTATAGATAATTG
33421 TATTAAACCAATCTATTCGAAAAAAATACAAGTATACAACCGAATATACTACACTTATGACACCA
66 TATTAAACCAATCTATTCGAAAAAAATACAAGTATACAACCGAATATACTACACTTATGACACCA
33486 ATTCAAACACATCAGAGAGAA
131 ATTCAAACACATCAGAGAGAA
33507 TCTTTGCACACAAAAACCATTGAGGACGATATACAAAGAGTATTAATGTAATTTATAGATAATTG
1 TCTTTGCACACAAAAACCATTGAGGACGATATACAAAGAGTATTAATGTAATTTATAGATAATTG
33572 TATTAAACCAATCTATTCGAAAAAAATACAAGTATACAACCGAATATACTACACTTATGACACCA
66 TATTAAACCAATCTATTCGAAAAAAATACAAGTATACAACCGAATATACTACACTTATGACACCA
33637 ATTCAAACACATCAGAGAGAA
131 ATTCAAACACATCAGAGAGAA
33658 T
1 T
33659 GGACCATTGG
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
151 152 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (151 bp):
TCTTTGCACACAAAAACCATTGAGGACGATATACAAAGAGTATTAATGTAATTTATAGATAATTG
TATTAAACCAATCTATTCGAAAAAAATACAAGTATACAACCGAATATACTACACTTATGACACCA
ATTCAAACACATCAGAGAGAA
Found at i:38521 original size:22 final size:22
Alignment explanation
Indices: 38493--38534 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
38483 TTGTATTGTT
*
38493 AAAAAATTA-AAATAAAAAAAC
1 AAAAAAATATAAATAAAAAAAC
*
38514 AAAAAAATATTAATAAAAAAA
1 AAAAAAATATAAATAAAAAAA
38535 AATTAAACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (22 bp):
AAAAAAATATAAATAAAAAAAC
Found at i:45229 original size:20 final size:19
Alignment explanation
Indices: 45199--45243 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
45189 GTGATTTGAA
*
45199 ATTTAAATTTATTGAAATATT
1 ATTT-AATTTAGT-AAATATT
*
45220 GTTTAATTTAGTAAATATT
1 ATTTAATTTAGTAAATATT
45239 ATTTA
1 ATTTA
45244 TAAATATAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 11 0.52
20 7 0.33
21 3 0.14
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (19 bp):
ATTTAATTTAGTAAATATT
Found at i:45449 original size:25 final size:25
Alignment explanation
Indices: 45408--45457 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
45398 TACCCACTCA
*
45408 TTTAATTTAATAAAATATGAATTTT
1 TTTAATATAATAAAATATGAATTTT
45433 TTTAATATAA-AAGAATATGAATTTT
1 TTTAATATAATAA-AATATGAATTTT
45458 AAATAAGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (25 bp):
TTTAATATAATAAAATATGAATTTT
Found at i:46691 original size:24 final size:25
Alignment explanation
Indices: 46639--46692 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
46629 AACACGTTTT
* * *
46639 TATATAAATATTTTATTTTTGGTGA
1 TATATAAATATCTTATTTTTGATAA
46664 -ATATAAATATCTTATTTTT-ATAA
1 TATATAAATATCTTATTTTTGATAA
46687 TATATA
1 TATATA
46693 GCATGGACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.54
Consensus pattern (25 bp):
TATATAAATATCTTATTTTTGATAA
Found at i:65305 original size:24 final size:23
Alignment explanation
Indices: 65261--65315 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
65251 ATATTAACCC
65261 AAGAGAAAACTCAGATGAAGAA-G
1 AAGAG-AAACTCAGATGAAGAACG
65284 AAAGAGAAACTGCA-ATGTAAGAACG
1 -AAGAGAAACT-CAGATG-AAGAACG
65309 AAGAGAA
1 AAGAGAA
65316 TTTCCAACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 8 0.29
24 19 0.68
25 1 0.04
ACGTcount: A:0.56, C:0.09, G:0.25, T:0.09
Consensus pattern (23 bp):
AAGAGAAACTCAGATGAAGAACG
Found at i:68952 original size:27 final size:27
Alignment explanation
Indices: 68921--68999 Score: 142
Period size: 27 Copynumber: 2.9 Consensus size: 27
68911 TATGTGCCAA
68921 GAATCTTCCTCTTCTGGTGAGTTACTC
1 GAATCTTCCTCTTCTGGTGAGTTACTC
68948 GAATCTTCCTCTTCTGGTGAGTTACTC
1 GAATCTTCCTCTTCTGGTGAGTTACTC
68975 GAATCTTCCTCTT-TCGGTGAGTTAC
1 GAATCTTCCTCTTCT-GGTGAGTTAC
69000 CCACTAATGA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
26 1 0.02
27 50 0.98
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.41
Consensus pattern (27 bp):
GAATCTTCCTCTTCTGGTGAGTTACTC
Found at i:70919 original size:17 final size:17
Alignment explanation
Indices: 70897--70929 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
70887 AACAAAGTAC
70897 AAAGATTTCAATTATAA
1 AAAGATTTCAATTATAA
*
70914 AAAGATTTTAATTATA
1 AAAGATTTCAATTATA
70930 TCCGAGAAAA
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:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (17 bp):
AAAGATTTCAATTATAA
Found at i:79670 original size:18 final size:18
Alignment explanation
Indices: 79647--79682 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
79637 AAGAGATATC
79647 CAAGCAAGTAATCTATAA
1 CAAGCAAGTAATCTATAA
79665 CAAGCAAGTAATCTATAA
1 CAAGCAAGTAATCTATAA
79683 GAAACTGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.22
Consensus pattern (18 bp):
CAAGCAAGTAATCTATAA
Found at i:81299 original size:11 final size:11
Alignment explanation
Indices: 81285--81372 Score: 56
Period size: 11 Copynumber: 8.1 Consensus size: 11
81275 TATTTAAATT
81285 TTTTATTGTTA
1 TTTTATTGTTA
* *
81296 TTTTGTTATT-
1 TTTTATTGTTA
* *
81306 GTTTGTTGTTA
1 TTTTATTGTTA
81317 TTTT-TATGTTA
1 TTTTAT-TGTTA
* *
81328 CTTTATTGTCA
1 TTTTATTGTTA
* *
81339 TTTTGTTATTA
1 TTTTATTGTTA
*
81350 TATTT-CTGTTA
1 T-TTTATTGTTA
81361 TTTTATTGTTA
1 TTTTATTGTTA
81372 T
1 T
81373 GGTTTTGATA
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
10 12 0.21
11 42 0.72
12 4 0.07
ACGTcount: A:0.16, C:0.03, G:0.11, T:0.69
Consensus pattern (11 bp):
TTTTATTGTTA
Found at i:81306 original size:14 final size:14
Alignment explanation
Indices: 81282--81367 Score: 65
Period size: 14 Copynumber: 6.2 Consensus size: 14
81272 TTTTATTTAA
81282 ATTTT-TTATTGTT
1 ATTTTGTTATTGTT
81295 ATTTTGTTATTGTT
1 ATTTTGTTATTGTT
* *
81309 -TGTTGTTATTTTT
1 ATTTTGTTATTGTT
*
81322 ATGTTACT-TTATTGTC
1 AT-TT--TGTTATTGTT
*
81338 ATTTTGTTATT-AT
1 ATTTTGTTATTGTT
81351 ATTTCTGTTATT-TT
1 ATTT-TGTTATTGTT
81365 ATT
1 ATT
81368 GTTATGGTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
13 21 0.36
14 25 0.43
15 3 0.05
16 8 0.14
17 1 0.02
ACGTcount: A:0.16, C:0.03, G:0.10, T:0.70
Consensus pattern (14 bp):
ATTTTGTTATTGTT
Found at i:81344 original size:33 final size:33
Alignment explanation
Indices: 81307--81369 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
81297 TTTGTTATTG
* *
81307 TTTGTTGTTATTTTTATGTTACTTTATTGTCAT
1 TTTGTTATTATATTTATGTTACTTTATTGTCAT
* *
81340 TTTGTTATTATATTTCTGTTATTTTATTGT
1 TTTGTTATTATATTTATGTTACTTTATTGT
81370 TATGGTTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.16, C:0.05, G:0.11, T:0.68
Consensus pattern (33 bp):
TTTGTTATTATATTTATGTTACTTTATTGTCAT
Found at i:81413 original size:12 final size:11
Alignment explanation
Indices: 81394--81424 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
81384 AATAAAATTT
81394 TTATTTTATTA
1 TTATTTTATTA
81405 TTAATTTTATTA
1 TT-ATTTTATTA
81417 TTATTTTA
1 TTATTTTA
81425 GAGTCATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:85259 original size:29 final size:27
Alignment explanation
Indices: 85195--85259 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 27
85185 TCCAAAATGT
* *
85195 AAAA-ATTTTTAATCGTTAATCGAATC
1 AAAATATTTTTAATCATTAACCGAATC
* *
85221 AAAGTTTTTTCTAATACATTAACCGAATC
1 AAAATATTTT-TAAT-CATTAACCGAATC
85250 AAAATATTTT
1 AAAATATTTT
85260 GATTAATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.10
27 4 0.13
28 4 0.13
29 19 0.63
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (27 bp):
AAAATATTTTTAATCATTAACCGAATC
Found at i:86645 original size:19 final size:18
Alignment explanation
Indices: 86614--86654 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 18
86604 TAACACAAAC
86614 TATTTTATATTTTTGTAATA
1 TATTTTATATTTTT-T-ATA
86634 TATTTT-TATTTTTTATA
1 TATTTTATATTTTTTATA
86651 TATT
1 TATT
86655 ATGTAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.33
18 1 0.05
19 7 0.33
20 6 0.29
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TATTTTATATTTTTTATA
Found at i:94822 original size:171 final size:172
Alignment explanation
Indices: 94511--94840 Score: 536
Period size: 171 Copynumber: 1.9 Consensus size: 172
94501 TAACCTGTGG
* * *
94511 TTTTTGATTCTTCTATATTTTTATCTCTTCAATTATTTCTTTTAACTTTATCAAGTTTCTTCTTC
1 TTTTTGATTCTTCTATATCTTTATCCCTTCAATTATTTCTTTTAACCTTATCAAGTTTCTTCTTC
* * ** *
94576 TGTCTGATGTCTCTCTAGTCTTTACTATAATATTTTGGAGTATCTTCCTAATGCTTTTTACTTCT
66 GGTCTGATGTCTCACTAGTCTTTACTATAATATTTCAGAGTATCTTCCTAATGCTTTGTACTTCT
*
94641 AGGGATTTGTGTTTACATTTGCCTAAATTCTTTACTATTTTA
131 AGGAATTTGTGTTTACATTTGCCTAAATTCTTTACTATTTTA
* *
94683 TTTTTGATTCTTCTATATCTTTATCCCTTCAATTTTTTCTTTTAACCTTGTCAAGTTTCTTCTTC
1 TTTTTGATTCTTCTATATCTTTATCCCTTCAATTATTTCTTTTAACCTTATCAAGTTTCTTCTTC
*
94748 GGTCTGA-GTCTCACTAGTCTTTACTATAATATTTCAGAGTATCTTGCTAATGCTTTGTACTTCT
66 GGTCTGATGTCTCACTAGTCTTTACTATAATATTTCAGAGTATCTTCCTAATGCTTTGTACTTCT
*
94812 CGGAATTTGTGTTTACATTTGCCTAAATT
131 AGGAATTTGTGTTTACATTTGCCTAAATT
94841 ATAGGGTGCT
Statistics
Matches: 145, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
171 79 0.54
172 66 0.46
ACGTcount: A:0.20, C:0.18, G:0.10, T:0.52
Consensus pattern (172 bp):
TTTTTGATTCTTCTATATCTTTATCCCTTCAATTATTTCTTTTAACCTTATCAAGTTTCTTCTTC
GGTCTGATGTCTCACTAGTCTTTACTATAATATTTCAGAGTATCTTCCTAATGCTTTGTACTTCT
AGGAATTTGTGTTTACATTTGCCTAAATTCTTTACTATTTTA
Found at i:101687 original size:16 final size:16
Alignment explanation
Indices: 101666--101709 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
101656 TATTTTAAAC
101666 AATATTTAAATTTATT
1 AATATTTAAATTTATT
* *
101682 AATATTTAGATATATT
1 AATATTTAAATTTATT
*
101698 AA-ATATAAATTT
1 AATATTTAAATTT
101710 TAATTATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
AATATTTAAATTTATT
Found at i:103462 original size:27 final size:27
Alignment explanation
Indices: 103432--103495 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
103422 AAGTCATATT
103432 TTTTATTATTTATTTAATGA-TA-TAAAA
1 TTTTA-TATTTATTTAAT-ATTATTAAAA
103459 TTTTA-ATTTATTTAATATTTATTAAAA
1 TTTTATATTTATTTAATA-TTATTAAAA
103486 TTTTATATTT
1 TTTTATATTT
103496 TGATCATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
24 1 0.03
25 11 0.33
26 2 0.06
27 15 0.45
28 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTTATATTTATTTAATATTATTAAAA
Found at i:103868 original size:24 final size:24
Alignment explanation
Indices: 103837--103888 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
103827 CAAGTAAATT
*
103837 AATT-ATTACATATTAGATTAAAG
1 AATTAATTACATATTAGATTAAAA
* **
103860 AATTAATTACCTATTTTATTAAAA
1 AATTAATTACATATTAGATTAAAA
103884 AATTA
1 AATTA
103889 TCCATATGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (24 bp):
AATTAATTACATATTAGATTAAAA
Found at i:105556 original size:2 final size:2
Alignment explanation
Indices: 105549--105586 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
105539 ACATGCATCC
*
105549 AT AT AT AT AT AT AT AT AT AT AT AT A- ACT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
105587 TGTGACGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:107941 original size:20 final size:21
Alignment explanation
Indices: 107906--107947 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
107896 AAAAAAATTT
107906 AAATTTAAATGAAAATT-TTG
1 AAATTTAAATGAAAATTATTG
107926 AAATTTAAGATG-AAATTATTG
1 AAATTTAA-ATGAAAATTATTG
107947 A
1 A
107948 TATGACGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (21 bp):
AAATTTAAATGAAAATTATTG
Found at i:112058 original size:52 final size:52
Alignment explanation
Indices: 111946--112058 Score: 133
Period size: 51 Copynumber: 2.2 Consensus size: 52
111936 TAAGTATTTT
* * * * * *
111946 TTAAACTT-TTAGAATTAGAATTAAATTGAAAATTTTTGTAAATATTGAAAA
1 TTAAATTTGTTAGAAGTAGAACTAAAATGAAAAATTTTGTAAACATTGAAAA
*
111997 TT-AATTTGTTAGAAGTAGAACTAAAATGAAAAATTTTGTAAACATT-AAAGG
1 TTAAATTTGTTAGAAGTAGAACTAAAATGAAAAATTTTGTAAACATTGAAA-A
112048 TTAAATTTGTT
1 TTAAATTTGTT
112059 GATTTTTTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
50 7 0.13
51 37 0.71
52 8 0.15
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (52 bp):
TTAAATTTGTTAGAAGTAGAACTAAAATGAAAAATTTTGTAAACATTGAAAA
Found at i:117276 original size:23 final size:23
Alignment explanation
Indices: 117207--117277 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
117197 TGGCCGAAAC
* *
117207 CAGTGGGCAATCTTCCAATCCCT
1 CAGTGAGCAACCTTCCAATCCCT
* * * *
117230 CATCTGAACAAGCTT-TAAT-CCT
1 CA-GTGAGCAACCTTCCAATCCCT
117252 CAGTGAGCAACCTTCCAATCCCT
1 CAGTGAGCAACCTTCCAATCCCT
117275 CAG
1 CAG
117278 CTGATCGAGG
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
21 9 0.25
22 8 0.22
23 11 0.31
24 8 0.22
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.25
Consensus pattern (23 bp):
CAGTGAGCAACCTTCCAATCCCT
Found at i:119114 original size:28 final size:27
Alignment explanation
Indices: 119075--119152 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 27
119065 GTAAATTTTA
*
119075 AAAAAATT-ATAATATCTAAAAATAATT
1 AAAAATTTAATAATATCTAAAAA-AATT
119102 AAAAATTTAATAATA--T-AAAAAATT
1 AAAAATTTAATAATATCTAAAAAAATT
119126 AAAAATTATATATAA-ATTCTAAAAAAA
1 AAAAATT-TA-ATAATA-TCTAAAAAAA
119153 AAATTTAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
24 11 0.26
25 7 0.16
26 5 0.12
27 7 0.16
28 7 0.16
29 6 0.14
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (27 bp):
AAAAATTTAATAATATCTAAAAAAATT
Found at i:119122 original size:16 final size:15
Alignment explanation
Indices: 119095--119133 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
119085 AATATCTAAA
*
119095 AATAATTAAAAATTT
1 AATAATTAAAAAATT
119110 AATAATATAAAAAATT
1 AATAAT-TAAAAAATT
*
119126 AAAAATTA
1 AATAATTA
119134 TATATAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAATTAAAAAATT
Found at i:119130 original size:24 final size:26
Alignment explanation
Indices: 119076--119139 Score: 82
Period size: 24 Copynumber: 2.6 Consensus size: 26
119066 TAAATTTTAA
*
119076 AAAAATTATAATATCTAAAAATAATT
1 AAAAATTATAATATATAAAAATAATT
119102 AAAAATT-TAATA-ATATAAAA-AATT
1 AAAAATTATAATATATA-AAAATAATT
119126 AAAAATTAT-ATATA
1 AAAAATTATAATATA
119140 AATTCTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
24 16 0.47
25 11 0.32
26 7 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (26 bp):
AAAAATTATAATATATAAAAATAATT
Found at i:119140 original size:26 final size:27
Alignment explanation
Indices: 119076--119140 Score: 84
Period size: 26 Copynumber: 2.5 Consensus size: 27
119066 TAAATTTTAA
*
119076 AAAAATTATAAT-ATCTAAAAATAATT
1 AAAAATTATAATAATATAAAAATAATT
119102 AAAAATT-TAATAATAT-AAAA-AATT
1 AAAAATTATAATAATATAAAAATAATT
119126 AAAAATTATATATAA
1 AAAAATTATA-ATAA
119141 ATTCTAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
24 11 0.31
25 10 0.29
26 14 0.40
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (27 bp):
AAAAATTATAATAATATAAAAATAATT
Found at i:120952 original size:183 final size:182
Alignment explanation
Indices: 120625--120986 Score: 492
Period size: 183 Copynumber: 2.0 Consensus size: 182
120615 TATTAAATGT
* *
120625 TCGTCAGTTTAACTGACTAGCGTTGGGTGCAAAACCGTTGGTTAATCCAACTAGAACTGGCTCAC
1 TCGTCAGTTTAACCGACTAGCGTTGGGCGCAAAACCGTTGGTTAATCCAACTAGAACTGGCTCAC
* * * * *
120690 TTTTGAGGTTTATCCGCTAGGCACTGGGTGCCAGGATTTGACGGATTATTTGTTGGTTAATCTAA
66 TTTTGAGGTTTATCCACTAGGCACTGGGTACCAGGAATTGACGAATTATTTGTTGGTTAATCCAA
* * *
120755 CTAGAGCCGGGCTCACTTTTGCGGTGTATCCGCTAGGCACTGGGTGCCAGGA
131 CTAGAGCCGGGCTCACTTTTGCGATGTATCCGCTAGGCACCGAGTGCCAGGA
* * * * *
120807 TCGTCGGTTTACCCGACTAGCTTTGGGCGTAAAACCGTTGGTTAATCCAACTAGAGCTGGACTCA
1 TCGTCAGTTTAACCGACTAGCGTTGGGCGCAAAACCGTTGGTTAATCCAACTAGAACTGG-CTCA
* * * *
120872 TTTTTGCGGTTTATCCACTAGGCATTGGGTACTAGGAATTGACGAAATTA-TTGTTGGTTAATCC
65 CTTTTGAGGTTTATCCACTAGGCACTGGGTACCAGGAATTGACG-AATTATTTGTTGGTTAATCC
* * * *
120936 AACTAGAGCTGGGCTCACTTTTGTGATTTATCCGCTGGGCACCGAGTGCCA
129 AACTAGAGCCGGGCTCACTTTTGCGATGTATCCGCTAGGCACCGAGTGCCA
120987 TGAATTGACG
Statistics
Matches: 155, Mismatches: 23, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
182 53 0.34
183 98 0.63
184 4 0.03
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (182 bp):
TCGTCAGTTTAACCGACTAGCGTTGGGCGCAAAACCGTTGGTTAATCCAACTAGAACTGGCTCAC
TTTTGAGGTTTATCCACTAGGCACTGGGTACCAGGAATTGACGAATTATTTGTTGGTTAATCCAA
CTAGAGCCGGGCTCACTTTTGCGATGTATCCGCTAGGCACCGAGTGCCAGGA
Found at i:120992 original size:81 final size:81
Alignment explanation
Indices: 120843--120996 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
120833 GCGTAAAACC
* * ** * *
120843 GTTGGTTAATCCAACTAGAGCTGGACTCATTTTTGCGGTTTATCCACTAGGCATTGGGTACTAGG
1 GTTGGTTAATCCAACTAGAGCTGGACTCACTTTTGCGATTTATCCACTAGGCACCGAGTACCAGG
120908 AATTGACGAAATTATT
66 AATTGACGAAATTATT
* * * * * *
120924 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTTTGTGATTTATCCGCTGGGCACCGAGTGCCATG
1 GTTGGTTAATCCAACTAGAGCTGGACTCACTTTTGCGATTTATCCACTAGGCACCGAGTACCAGG
120989 AATTGACG
66 AATTGACG
120997 GATTTACATG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (81 bp):
GTTGGTTAATCCAACTAGAGCTGGACTCACTTTTGCGATTTATCCACTAGGCACCGAGTACCAGG
AATTGACGAAATTATT
Found at i:125493 original size:75 final size:75
Alignment explanation
Indices: 125404--125620 Score: 425
Period size: 75 Copynumber: 2.9 Consensus size: 75
125394 TTCAAGGAGG
*
125404 AAATTACTTTCCTTTTAGATCTCTTAAATCTTTCAGTTATCTGTTTATGATCTGTATCGGATGGC
1 AAATTACTTCCCTTTTAGATCTCTTAAATCTTTCAGTTATCTGTTTATGATCTGTATCGGATGGC
125469 TGTTTATGTT
66 TGTTTATGTT
125479 AAATTACTTCCCTTTTAGATCTCTTAAATCTTTCAGTTATCTGTTTATGATCTGTATCGGATGGC
1 AAATTACTTCCCTTTTAGATCTCTTAAATCTTTCAGTTATCTGTTTATGATCTGTATCGGATGGC
125544 TGTTTATGTT
66 TGTTTATGTT
125554 AAATTACTTCCCTTTTAGATCTCTTAAATCTTTCAGTTATCTGTTTATGATCTGTATCGGATGGC
1 AAATTACTTCCCTTTTAGATCTCTTAAATCTTTCAGTTATCTGTTTATGATCTGTATCGGATGGC
125619 TG
66 TG
125621 CACTTGAAGG
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 141 1.00
ACGTcount: A:0.22, C:0.16, G:0.15, T:0.47
Consensus pattern (75 bp):
AAATTACTTCCCTTTTAGATCTCTTAAATCTTTCAGTTATCTGTTTATGATCTGTATCGGATGGC
TGTTTATGTT
Found at i:127463 original size:31 final size:31
Alignment explanation
Indices: 127406--127464 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
127396 ATGTAATTCA
* *
127406 TATTCAAATTAAATCGAAAAATTTAATTTTT
1 TATTCAAATTAAATCCAAAAAATTAATTTTT
*
127437 TATTCGAATT-AATCCAAATAAATTAATT
1 TATTCAAATTAAATCCAAA-AAATTAATT
127465 AACTTGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.42
Consensus pattern (31 bp):
TATTCAAATTAAATCCAAAAAATTAATTTTT
Found at i:132434 original size:84 final size:84
Alignment explanation
Indices: 132275--132434 Score: 207
Period size: 84 Copynumber: 1.9 Consensus size: 84
132265 AAACGGATTC
* * *
132275 CTGCCTTTTCCAGCTCTGTTGCGCTACGCATCGAGTTCAGTAAGATCTGGTGATTCTCTTCTCTA
1 CTGCCTTTTCCAGCTCTGTTGCGCTAAGCATCGAGTTCAGTAAGATCTGGAGATTCACTTCTCTA
**
132340 TCTATTTCTGCCTGGGTTT
66 TCTACGTCTGCCTGGGTTT
* * * *
132359 CTGCCTTTTCCGGGTCTGTTGCGCTAAGCATTGAGTTC-GTCAAGATTTGGAGATTCACTTCTCT
1 CTGCCTTTTCCAGCTCTGTTGCGCTAAGCATCGAGTTCAGT-AAGATCTGGAGATTCACTTCTCT
132423 -TGCTACGTCTGC
65 AT-CTACGTCTGC
132435 TTGGATTCCT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 3 0.05
84 62 0.95
ACGTcount: A:0.14, C:0.26, G:0.22, T:0.39
Consensus pattern (84 bp):
CTGCCTTTTCCAGCTCTGTTGCGCTAAGCATCGAGTTCAGTAAGATCTGGAGATTCACTTCTCTA
TCTACGTCTGCCTGGGTTT
Found at i:134401 original size:8 final size:8
Alignment explanation
Indices: 134388--134416 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
134378 NNNNNNNNNA
134388 AAAAAAAC
1 AAAAAAAC
134396 AAAAAAA-
1 AAAAAAAC
134403 AAAAAAAC
1 AAAAAAAC
134411 AAAAAA
1 AAAAAA
134417 TGCTTTCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:134407 original size:15 final size:15
Alignment explanation
Indices: 134387--134416 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
134377 NNNNNNNNNN
134387 AAAAAAAACAAAAAA
1 AAAAAAAACAAAAAA
134402 AAAAAAAACAAAAAA
1 AAAAAAAACAAAAAA
134417 TGCTTTCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAACAAAAAA
Found at i:135774 original size:9 final size:9
Alignment explanation
Indices: 135744--135777 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
135734 ATTTTACAAT
135744 TTGAATAAC
1 TTGAATAAC
*
135753 TCGAATAAC
1 TTGAATAAC
*
135762 TTGAATAAT
1 TTGAATAAC
135771 TTGAATA
1 TTGAATA
135778 GTAAATTGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (9 bp):
TTGAATAAC
Found at i:136063 original size:3 final size:3
Alignment explanation
Indices: 136055--136080 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
136045 ACTATCTTAT
136055 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
136081 TTGCTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:144263 original size:109 final size:109
Alignment explanation
Indices: 144072--144271 Score: 253
Period size: 109 Copynumber: 1.8 Consensus size: 109
144062 GAATGAAATG
* * * *
144072 TTTAAATGAGATATTCGGTTATTTAGGTTCAAGGCAAAATCATACCCAACACATTAGGACACAAT
1 TTTAAATGAGATACTCGATTATTTAGGTTCAAAGAAAAATCATACCCAACACATTAGGACACAAT
** *
144137 TTTTTAAGTCTCCTAAAATAACAGAATATTAAGCATTTGTTGGT
66 TTTCGAAGTCTCCTAAAATAAAAGAATATTAAGCATTTGTTGGT
* *
144181 TTTAAAT-AGGATACTCGATTATTTAGGTTCAAAGAAAAATCATACCTAACACGTTAAGG-CACA
1 TTTAAATGA-GATACTCGATTATTTAGGTTCAAAGAAAAATCATACCCAACACATT-AGGACACA
* *
144244 ATTTCTCGGATTC-CCTAAAATAAAAGAA
64 ATTT-TCGAAGTCTCCTAAAATAAAAGAA
144272 CATTGCCTTG
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
108 1 0.01
109 69 0.90
110 7 0.09
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (109 bp):
TTTAAATGAGATACTCGATTATTTAGGTTCAAAGAAAAATCATACCCAACACATTAGGACACAAT
TTTCGAAGTCTCCTAAAATAAAAGAATATTAAGCATTTGTTGGT
Found at i:145502 original size:18 final size:18
Alignment explanation
Indices: 145479--145520 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
145469 ATATCAAGCA
145479 TGCATGCATGCACTGACT
1 TGCATGCATGCACTGACT
145497 TGCATGCATGCACTGACT
1 TGCATGCATGCACTGACT
145515 TGCATG
1 TGCATG
145521 GTTTGATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (18 bp):
TGCATGCATGCACTGACT
Found at i:148656 original size:9 final size:9
Alignment explanation
Indices: 148642--148671 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
148632 ACATCTTTTG
148642 AAAAATAAA
1 AAAAATAAA
148651 AAAAAT-AA
1 AAAAATAAA
148659 AAAAATAAA
1 AAAAATAAA
148668 AAAA
1 AAAA
148672 GATAGGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAATAAA
Found at i:148660 original size:8 final size:8
Alignment explanation
Indices: 148642--148671 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
148632 ACATCTTTTG
148642 AAAAATAAA
1 AAAAAT-AA
148651 AAAAATAA
1 AAAAATAA
148659 AAAAATAA
1 AAAAATAA
148667 AAAAA
1 AAAAA
148672 GATAGGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAATAA
Found at i:151627 original size:15 final size:15
Alignment explanation
Indices: 151607--151636 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
151597 ATATGAATAA
*
151607 TTTTTAAATTTTTTG
1 TTTTTAAATATTTTG
151622 TTTTTAAATATTTTG
1 TTTTTAAATATTTTG
151637 CGTATATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (15 bp):
TTTTTAAATATTTTG
Found at i:157944 original size:20 final size:20
Alignment explanation
Indices: 157919--157956 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
157909 TATTCTTTTA
157919 AATTTTTATGATATTTTTGT
1 AATTTTTATGATATTTTTGT
*
157939 AATTTTTATTATATTTTT
1 AATTTTTATGATATTTTT
157957 TATAAATTTA
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:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
AATTTTTATGATATTTTTGT
Found at i:158927 original size:17 final size:16
Alignment explanation
Indices: 158901--158934 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
158891 AGCATCTACA
*
158901 AAATAATAAATATAAT
1 AAATAATAAATAAAAT
158917 AAATAAATAAATAAAAT
1 AAAT-AATAAATAAAAT
158934 A
1 A
158935 TTTTTTTACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAATAAATAAAAT
Found at i:160640 original size:6 final size:6
Alignment explanation
Indices: 160626--160706 Score: 89
Period size: 6 Copynumber: 14.0 Consensus size: 6
160616 TTTAATTTAT
* * *
160626 TTTAAA TTTAGA TTT-AT TTTAAA TTTAAA -TTAAT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
160672 TTT-AA TTTAAA TTTAAA TTT-AA TTTCAAA GTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA
160707 AAGTCCAAAG
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
5 17 0.27
6 42 0.67
7 4 0.06
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:160642 original size:17 final size:17
Alignment explanation
Indices: 160619--160706 Score: 122
Period size: 17 Copynumber: 5.1 Consensus size: 17
160609 GATCTTTTTT
160619 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
*
160636 GATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
*
160653 AATTAATTTTAAATTTA
1 AATTTATTTTAAATTTA
*
160670 AATTTAATTTAAATTTA
1 AATTTATTTTAAATTTA
* *
160687 AATTTAATTTCAAAGTTA
1 AATTT-ATTTTAAATTTA
160705 AA
1 AA
160707 AAGTCCAAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
17 51 0.82
18 11 0.18
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:160656 original size:23 final size:22
Alignment explanation
Indices: 160626--160693 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
160616 TTTAATTTAT
160626 TTTAAATTTAGATTTATTTTAAA
1 TTTAAATTTA-ATTTATTTTAAA
160649 TTTAAA-TT-A---ATTTTAAA
1 TTTAAATTTAATTTATTTTAAA
*
160666 TTTAAATTTAATTTAAATTTAAA
1 TTTAAATTTAATTT-ATTTTAAA
160689 TTTAA
1 TTTAA
160694 TTTCAAAGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
17 14 0.37
18 2 0.05
19 1 0.03
20 1 0.03
22 2 0.05
23 18 0.47
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (22 bp):
TTTAAATTTAATTTATTTTAAA
Found at i:160696 original size:11 final size:11
Alignment explanation
Indices: 160616--160693 Score: 77
Period size: 11 Copynumber: 6.9 Consensus size: 11
160606 CAGGATCTTT
*
160616 TTTAATTT-AT
1 TTTAATTTAAA
*
160626 TTTAAATTTAGA
1 TTT-AATTTAAA
*
160638 TTTATTTTAAA
1 TTTAATTTAAA
* *
160649 TTTAAATTAAT
1 TTTAATTTAAA
160660 TTTAAATTTAAA
1 TTT-AATTTAAA
160672 TTTAATTTAAA
1 TTTAATTTAAA
160683 TTTAAATTTAA
1 TTT-AATTTAA
160694 TTTCAAAGTT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
10 3 0.05
11 33 0.60
12 19 0.35
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:162498 original size:30 final size:29
Alignment explanation
Indices: 162443--162707 Score: 243
Period size: 30 Copynumber: 8.9 Consensus size: 29
162433 CTAAAATTTT
* *
162443 ATTTTTACCCTCGAAACTTCTAAAAAATTCC
1 ATTTTTACCCTCG-AACTTC-CAAAAATCCC
* *
162474 ATTTTTACCCTCGAACTTCAAAAAATTCC
1 ATTTTTACCCTCGAACTTCCAAAAATCCC
162503 ATTTTTACCCTCGAACTTCCAAAAATCCC
1 ATTTTTACCCTCGAACTTCCAAAAATCCC
*** **
162532 ATTTTTGACCCAAAAACTTATAAAAATCCC
1 ATTTTT-ACCCTCGAACTTCCAAAAATCCC
* *
162562 ATTTTTGACCC-CAAAATTTCCAAAAATCCC
1 ATTTTT-ACCCTC-GAACTTCCAAAAATCCC
* *
162592 ATCTTTGACCC-CAAAACTTCCAAAAATCCC
1 AT-TTTTACCCTC-GAACTTCCAAAAATCCC
* *
162622 ATTTTTTACTC-CGAAACTTCCAAAAATTACC
1 A-TTTTTACCCTCG-AACTTCCAAAAA-TCCC
*
162653 A-TTTTACCCTTGAACTTCCAAAAATCCC
1 ATTTTTACCCTCGAACTTCCAAAAATCCC
162681 ATTTTTGA-CCTCGAAACTTCCAAAAAT
1 ATTTTT-ACCCTCG-AACTTCCAAAAAT
162708 TATTACGTTA
Statistics
Matches: 203, Mismatches: 21, Indels: 21
0.83 0.09 0.09
Matches are distributed among these distances:
28 4 0.02
29 70 0.34
30 108 0.53
31 21 0.10
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.32
Consensus pattern (29 bp):
ATTTTTACCCTCGAACTTCCAAAAATCCC
Found at i:162557 original size:60 final size:59
Alignment explanation
Indices: 162443--162707 Score: 279
Period size: 60 Copynumber: 4.5 Consensus size: 59
162433 CTAAAATTTT
* * ** * *
162443 ATTTTTACCCTCGAAACTTCTAAAAAATTCCATTTTTACCCTCGAACTTCAAAAAATTCC
1 ATTTTTACCCTCGAAACTTC-CAAAAATCCCATTTTTACCCTAAAACTTCCAAAAATCCC
* **
162503 ATTTTTACCCTCG-AACTTCCAAAAATCCCATTTTTGACCCAAAAACTTATAAAAATCCC
1 ATTTTTACCCTCGAAACTTCCAAAAATCCCATTTTT-ACCCTAAAACTTCCAAAAATCCC
* * * *
162562 ATTTTTGACCC-CAAAATTTCCAAAAATCCCATCTTTGACCCCAAAACTTCCAAAAATCCC
1 ATTTTT-ACCCTCGAAACTTCCAAAAATCCCAT-TTTTACCCTAAAACTTCCAAAAATCCC
* * **
162622 ATTTTTTACTC-CGAAACTTCCAAAAATTACCA-TTTTACCCTTGAACTTCCAAAAATCCC
1 A-TTTTTACCCTCGAAACTTCCAAAAA-TCCCATTTTTACCCTAAAACTTCCAAAAATCCC
162681 ATTTTTGA-CCTCGAAACTTCCAAAAAT
1 ATTTTT-ACCCTCGAAACTTCCAAAAAT
162708 TATTACGTTA
Statistics
Matches: 174, Mismatches: 23, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
58 21 0.12
59 70 0.40
60 71 0.41
61 12 0.07
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.32
Consensus pattern (59 bp):
ATTTTTACCCTCGAAACTTCCAAAAATCCCATTTTTACCCTAAAACTTCCAAAAATCCC
Found at i:166338 original size:17 final size:17
Alignment explanation
Indices: 166316--166352 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
166306 ACCTTTGACA
*
166316 TTTAACCTTCCATCTTC
1 TTTAACCTTCCATATTC
*
166333 TTTAACCTTTCATATTC
1 TTTAACCTTCCATATTC
166350 TTT
1 TTT
166353 TAATTACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.27, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAACCTTCCATATTC
Found at i:166788 original size:20 final size:21
Alignment explanation
Indices: 166763--166808 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
166753 TTAATAGCAC
166763 AAATA-CATATATATAA-CTAA
1 AAATACCATAT-TATAACCTAA
166783 AAATACCATATTATAACCTAA
1 AAATACCATATTATAACCTAA
166804 AAATA
1 AAATA
166809 AATAAAGAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATACCATATTATAACCTAA
Found at i:169866 original size:16 final size:13
Alignment explanation
Indices: 169834--169861 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
169824 AAAATATAAT
169834 AATATTAATCCTA
1 AATATTAATCCTA
169847 AATATTAATCCTA
1 AATATTAATCCTA
169860 AA
1 AA
169862 AAATAGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (13 bp):
AATATTAATCCTA
Found at i:172374 original size:18 final size:19
Alignment explanation
Indices: 172332--172375 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
172322 GCCATTCGTG
172332 CTTTTCTCATCTCTCGCTT
1 CTTTTCTCATCTCTCGCTT
* **
172351 CCTTTC-CATCTCTTTCTT
1 CTTTTCTCATCTCTCGCTT
172369 CTTTTCT
1 CTTTTCT
172376 TTTATATCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.05, C:0.36, G:0.02, T:0.57
Consensus pattern (19 bp):
CTTTTCTCATCTCTCGCTT
Found at i:178987 original size:97 final size:96
Alignment explanation
Indices: 178813--178987 Score: 262
Period size: 97 Copynumber: 1.8 Consensus size: 96
178803 AACTTTGGAA
* * *
178813 AAGGATGTTCGATTATCTTGATTTGAAGAAAGTCGCACCTAGTAAGTTAAGGCACAAATTTTCAG
1 AAGGATATTCGATTATCTTGATTTGAAGAAAATCGCACCTAGTAAGTTAAGGCACAAATTTTCAA
*
178878 AACCAGAGATAAAGAAACATTATCTCGATTT
66 AACCAGAAATAAAGAAACATTATCTCGATTT
*
178909 AAGGATATTCGATTAT-TCTGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTC
1 AAGGATATTCGATTATCT-TGATTTGAAG-AAAATCGCACCTAGTAAGTTAAGGCACAAATTTTC
**
178973 AAAACTTGAAATAAA
64 AAAACCAGAAATAAA
178988 AGAATATTGC
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
95 1 0.01
96 25 0.36
97 44 0.63
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (96 bp):
AAGGATATTCGATTATCTTGATTTGAAGAAAATCGCACCTAGTAAGTTAAGGCACAAATTTTCAA
AACCAGAAATAAAGAAACATTATCTCGATTT
Found at i:179493 original size:6 final size:6
Alignment explanation
Indices: 179482--179535 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
179472 TTTTTTAATT
* * *
179482 AATTTA AATTTA AAATCA AA-TTA AATTTA AACTT- AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
179528 AACTTA AA
1 AATTTA AA
179536 AGAAAAGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 8 0.20
6 32 0.80
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (6 bp):
AATTTA
Found at i:179517 original size:12 final size:12
Alignment explanation
Indices: 179482--179554 Score: 51
Period size: 11 Copynumber: 6.2 Consensus size: 12
179472 TTTTTTAATT
*
179482 AATTTAAATTTA
1 AATTTAAACTTA
* *
179494 AAATCAAA-TTA
1 AATTTAAACTTA
179505 AATTTAAACTT-
1 AATTTAAACTTA
*
179516 AATTTAAATTTA
1 AATTTAAACTTA
* ***
179528 AACTTAAAAGAA
1 AATTTAAACTTA
179540 AAGTTTAAACTTA
1 AA-TTTAAACTTA
179553 AA
1 AA
179555 CTAAATTTAA
Statistics
Matches: 45, Mismatches: 13, Indels: 5
0.71 0.21 0.08
Matches are distributed among these distances:
11 19 0.42
12 18 0.40
13 8 0.18
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (12 bp):
AATTTAAACTTA
Found at i:179530 original size:17 final size:17
Alignment explanation
Indices: 179480--179566 Score: 93
Period size: 17 Copynumber: 5.0 Consensus size: 17
179470 ATTTTTTTAA
* *
179480 TTAATTTAAATTTAAAA
1 TTAAATTAAATTTAAAC
*
179497 TCAAATTAAATTTAAAC
1 TTAAATTAAATTTAAAC
*
179514 TTAATTTAAATTTAAAC
1 TTAAATTAAATTTAAAC
**
179531 TTAAAAGAAAAGTTTAAAC
1 TT-AAATTAAA-TTTAAAC
*
179550 TTAAACTAAATTTAAAC
1 TTAAATTAAATTTAAAC
179567 CCAAGATAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
17 38 0.66
18 11 0.19
19 9 0.16
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (17 bp):
TTAAATTAAATTTAAAC
Found at i:179717 original size:59 final size:58
Alignment explanation
Indices: 179669--179984 Score: 241
Period size: 59 Copynumber: 5.4 Consensus size: 58
179659 TTAACACAAA
* *
179669 AAAAAAATTGAA-ATTTTTATCTG-AAAAAAGGGTGTTGGTCATTGCATGACCAACAC
1 AAAAAAATTGAATATTTTTATCAGTAAAAAAGGGTGTCGGTCATTGCATGACCAACAC
* * * *
179725 CAAAAAATTTAATTTTTTTATCAGTAAATAAGGGTGTCGGTCATTGCAT-AGCCAACATC
1 AAAAAAATTGAATATTTTTATCAGTAAAAAAGGGTGTCGGTCATTGCATGA-CCAACA-C
* * * * * * * *
179784 CAAAAATTTGATTTTTTTTATCAG-ATAAATAGGAGTGTCGATCATTACATGGCCAACAC
1 AAAAAAATTGAATATTTTTATCAGTA-AAAAAGG-GTGTCGGTCATTGCATGACCAACAC
* * * *
179843 CAAAAAATTGAAT-TTTTTATCTG-ACAAAAAGGAAGTGTCGGTCATTGTATGATCAACACC
1 AAAAAAATTGAATATTTTTATCAGTA-AAAAAGG--GTGTCGGTCATTGCATGACCAACA-C
* * * * * * *
179903 CAAAAATTTGATTTTTTTTATCAGATAAATAGGGGTGTCGGCCATTGCATGACCAACAC
1 AAAAAAATTGAATATTTTTATCAG-TAAAAAAGGGTGTCGGTCATTGCATGACCAACAC
* * *
179962 TCAAAAATTTG-ATTTTTTTATCA
1 -AAAAAAATTGAATATTTTTATCA
179985 AATTAAAAGG
Statistics
Matches: 214, Mismatches: 33, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
56 10 0.05
57 10 0.05
58 45 0.21
59 71 0.33
60 63 0.29
61 9 0.04
62 5 0.02
63 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (58 bp):
AAAAAAATTGAATATTTTTATCAGTAAAAAAGGGTGTCGGTCATTGCATGACCAACAC
Found at i:179900 original size:119 final size:116
Alignment explanation
Indices: 179682--179984 Score: 378
Period size: 119 Copynumber: 2.6 Consensus size: 116
179672 AAAATTGAAA
* * * *
179682 TTTTTATCTGA-AAAAAGGGTGTTGGTCATTGCATGACCAACACCAAAAAATTTAATTTTTTTAT
1 TTTTTATCAGATAAATAGGGTGTCGGTCATTGCATGACCAACACCAAAAAATTGAA-TTTTTTAT
* *
179746 CAGTAAATAAGGGTGTCGGTCATTGCATAGCCAACATCCAAAAATTTGATTT
65 CAGTAAAAAAGGGTGTCGGTCATTGCATAGCCAACACCCAAAAATTTGATTT
* * *
179798 TTTTTATCAGATAAATAGGAGTGTCGATCATTACATGGCCAACACCAAAAAATTGAATTTTTTAT
1 TTTTTATCAGATAAATAGG-GTGTCGGTCATTGCATGACCAACACCAAAAAATTGAATTTTTTAT
* * *
179863 CTG-ACAAAAAGGAAGTGTCGGTCATTGTAT-GATCAACACCCAAAAATTTGATTT
65 CAGTA-AAAAAGG--GTGTCGGTCATTGCATAG-CCAACACCCAAAAATTTGATTT
* * *
179917 TTTTTATCAGATAAATAGGGGTGTCGGCCATTGCATGACCAACACTCAAAAATTTGATTTTTTTA
1 TTTTTATCAGATAAATA-GGGTGTCGGTCATTGCATGACCAACAC-CAAAAAATTGAATTTTTTA
179982 TCA
64 TCA
179985 AATTAAAAGG
Statistics
Matches: 160, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
116 11 0.07
117 22 0.14
118 33 0.21
119 73 0.46
120 21 0.13
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (116 bp):
TTTTTATCAGATAAATAGGGTGTCGGTCATTGCATGACCAACACCAAAAAATTGAATTTTTTATC
AGTAAAAAAGGGTGTCGGTCATTGCATAGCCAACACCCAAAAATTTGATTT
Found at i:179998 original size:60 final size:58
Alignment explanation
Indices: 179682--180025 Score: 349
Period size: 60 Copynumber: 5.8 Consensus size: 58
179672 AAAATTGAAA
* * * *
179682 TTTTTATCTGA-AAA-AAGGGTGTTGGTCATTGCATGACCAACACCAAAAAATTTAATT
1 TTTTTATCAGATAAATAGGGGTGTCGGTCATTGCATGACCAACACC-AAAAATTTGATT
*
179739 TTTTTATCAG-TAAATAAGGGTGTCGGTCATTGCAT-AGCCAACATCCAAAAATTTGATTT
1 TTTTTATCAGATAAATAGGGGTGTCGGTCATTGCATGA-CCAACA-CCAAAAATTTGA-TT
* * * * * *
179798 TTTTTATCAGATAAATAGGAGTGTCGATCATTACATGGCCAACACCAAAAAATTGAAT
1 TTTTTATCAGATAAATAGGGGTGTCGGTCATTGCATGACCAACACCAAAAATTTGATT
* * * * * *
179856 TTTTTATCTGACAAAAAGGAAGTGTCGGTCATTGTATGATCAACACCCAAAAATTTGATTT
1 TTTTTATCAGATAAATAGG-GGTGTCGGTCATTGCATGACCAACA-CCAAAAATTTGA-TT
*
179917 TTTTTATCAGATAAATAGGGGTGTCGGCCATTGCATGACCAACACTCAAAAATTTGATT
1 TTTTTATCAGATAAATAGGGGTGTCGGTCATTGCATGACCAACAC-CAAAAATTTGATT
* * * *
179976 TTTTTATCAAATTAAA-AGGGGGTGTCCGCCA-TGCAATGGCCAACACCAAA
1 TTTTTATCAGA-TAAATA-GGGGTGTCGGTCATTGC-ATGACCAACACCAAA
180026 TTTTTTTTTT
Statistics
Matches: 243, Mismatches: 30, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
57 13 0.05
58 51 0.21
59 66 0.27
60 96 0.40
61 17 0.07
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (58 bp):
TTTTTATCAGATAAATAGGGGTGTCGGTCATTGCATGACCAACACCAAAAATTTGATT
Found at i:180025 original size:119 final size:117
Alignment explanation
Indices: 179682--180022 Score: 366
Period size: 119 Copynumber: 2.9 Consensus size: 117
179672 AAAATTGAAA
* * * *
179682 TTTTTATCTGA-AAA-AAGGGTGTTGGTCATTGCATGACCAACACCAAAAAATTTAATTTTTTTA
1 TTTTTATCAGATAAATAGGGGTGTCGGTCATTGCATGACCAACACC-AAAAATTTGATTTTTTTA
* * * *
179745 TCAGTAAATA-AGGGTGTCGGTCATTGCATAGCCAACATCCAAAAATTTGATTT
65 TCACTAAA-AGGGGGTGTCGGTCATTGCATGGCCAACACCCAAAAATTTGATTT
* * * * * *
179798 TTTTTATCAGATAAATAGGAGTGTCGATCATTACATGGCCAACACCAAAAAATTGAATTTTTTAT
1 TTTTTATCAGATAAATAGGGGTGTCGGTCATTGCATGACCAACACCAAAAATTTGATTTTTTTAT
* ** * **
179863 CTGACAAAAAGGAAGTGTCGGTCATTGTATGATCAACACCCAAAAATTTGATTT
66 C--ACTAAAAGGGGGTGTCGGTCATTGCATGGCCAACACCCAAAAATTTGATTT
*
179917 TTTTTATCAGATAAATAGGGGTGTCGGCCATTGCATGACCAACACTCAAAAATTTGATTTTTTTA
1 TTTTTATCAGATAAATAGGGGTGTCGGTCATTGCATGACCAACAC-CAAAAATTTGATTTTTTTA
* * *
179982 TCAAATTAAAAGGGGGTGTCCGCCA-TGCAATGGCCAACACC
65 TC--ACTAAAAGGGGGTGTCGGTCATTGC-ATGGCCAACACC
180023 AAATTTTTTT
Statistics
Matches: 180, Mismatches: 38, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
116 10 0.06
117 20 0.11
118 25 0.14
119 81 0.45
120 44 0.24
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (117 bp):
TTTTTATCAGATAAATAGGGGTGTCGGTCATTGCATGACCAACACCAAAAATTTGATTTTTTTAT
CACTAAAAGGGGGTGTCGGTCATTGCATGGCCAACACCCAAAAATTTGATTT
Found at i:181316 original size:22 final size:22
Alignment explanation
Indices: 181290--181337 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
181280 GAAAGGAAAC
181290 AGAGACGCCAACAGCGACAAAG
1 AGAGACGCCAACAGCGACAAAG
181312 AGAGACGCCAACAGCGACAAAG
1 AGAGACGCCAACAGCGACAAAG
181334 AGAG
1 AGAG
181338 CCACCAGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.25, G:0.29, T:0.00
Consensus pattern (22 bp):
AGAGACGCCAACAGCGACAAAG
Found at i:184043 original size:21 final size:22
Alignment explanation
Indices: 183999--184043 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
183989 AAAATTAAAC
*
183999 ATTAGGATATAAATGATATGTT
1 ATTAGGATATAAATAATATGTT
* *
184021 ATTAGGATCTAAA-AATATTTT
1 ATTAGGATATAAATAATATGTT
184042 AT
1 AT
184044 ATAAAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.42
Consensus pattern (22 bp):
ATTAGGATATAAATAATATGTT
Found at i:186984 original size:25 final size:23
Alignment explanation
Indices: 186933--187008 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
186923 GAACATTAGC
* * *
186933 GTGCTCTTCGTTTAGCACGTCT-C
1 GTGCTCTCCGTTTAGCAC-TATGT
*
186956 GTGCTCTCTGTTATTAGCACTATGT
1 GTGCTCTCCG-T-TTAGCACTATGT
* *
186981 GTGCTTTCCGTTTAGCACTTTGT
1 GTGCTCTCCGTTTAGCACTATGT
187004 GTGCT
1 GTGCT
187009 TGCTCTTTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
23 24 0.56
24 4 0.09
25 15 0.35
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (23 bp):
GTGCTCTCCGTTTAGCACTATGT
Done.