Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168193.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_43, 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: 234249
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Warning! 1000 characters in sequence are not A, C, G, or T
File 6 of 6
Found at i:210335 original size:19 final size:20
Alignment explanation
Indices: 210301--210354 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
210291 ATTAATAGTC
*
210301 AAATATTAACATTATTTTATTA
1 AAATA-TAA-ATTATTTAATTA
210323 AAA-ATAAATTA-TTAATTA
1 AAATATAAATTATTTAATTA
*
210341 AAATATTAATTATT
1 AAATATAAATTATT
210355 AATATTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 9 0.32
19 11 0.39
20 4 0.14
21 1 0.04
22 3 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATATAAATTATTTAATTA
Found at i:210355 original size:19 final size:18
Alignment explanation
Indices: 210319--210357 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
210309 ACATTATTTT
210319 ATTAAAAATAAATTATTA
1 ATTAAAAATAAATTATTA
*
210337 ATTAAAATATTAATTATTA
1 ATTAAAA-ATAAATTATTA
210356 AT
1 AT
210358 ATTTCAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTAAAAATAAATTATTA
Found at i:210719 original size:16 final size:16
Alignment explanation
Indices: 210678--210725 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
210668 AAATTACTAA
210678 TATTATAATTATTATAT
1 TATTATAA-TATTATAT
*
210695 TATAATAATATTA-AT
1 TATTATAATATTATAT
210710 TATTAGTAATATTATA
1 TATTA-TAATATTATA
210726 AATATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 6 0.22
16 13 0.48
17 8 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TATTATAATATTATAT
Found at i:210723 original size:41 final size:38
Alignment explanation
Indices: 210670--210746 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 38
210660 GGATAACAAA
*
210670 ATTACTAATATTATAATTATTATATTATAATAATATTAATT
1 ATTACTAATATTATAAATATTA-A-TATAATAA-ATTAATT
*
210711 ATTAGTAATATTATAAATATTAATATAATAAATTAA
1 ATTACTAATATTATAAATATTAATATAATAAATTAA
210747 ATAATAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 5 0.15
39 8 0.24
40 1 0.03
41 20 0.59
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (38 bp):
ATTACTAATATTATAAATATTAATATAATAAATTAATT
Found at i:210731 original size:18 final size:18
Alignment explanation
Indices: 210676--210762 Score: 55
Period size: 18 Copynumber: 5.1 Consensus size: 18
210666 CAAAATTACT
210676 AATATTATAAT--TATT-
1 AATATTATAATAATATTA
210691 -ATATTATAATAATATTA
1 AATATTATAATAATATTA
* *
210708 ATTATTAGTAATATTA-TA
1 AATATTA-TAATAATATTA
210726 AATATTA-ATATAATAAATTA
1 AATATTATA-ATAAT--ATTA
*
210746 AATA--ATAACAATATTA
1 AATATTATAATAATATTA
210762 A
1 A
210763 TTAGTAGTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 19
0.70 0.06 0.23
Matches are distributed among these distances:
14 10 0.18
16 10 0.18
17 4 0.07
18 18 0.32
19 9 0.16
20 6 0.11
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (18 bp):
AATATTATAATAATATTA
Found at i:211735 original size:21 final size:20
Alignment explanation
Indices: 211709--211747 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
211699 GAAAAATAAT
211709 TTATTAATTT-ATTAATATTAG
1 TTATT-ATTTAATT-ATATTAG
211730 TTATTATTTAATTATATT
1 TTATTATTTAATTATATT
211748 TTAATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTATTATTTAATTATATTAG
Found at i:212247 original size:39 final size:40
Alignment explanation
Indices: 212196--212275 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 40
212186 GTAAAATATT
** *
212196 TAAAGATTTGTTTTGTCATAAAACA-ATTGTTTTGTTAATA
1 TAAAGATTTG-TTTGAAATAAAACATATTGTTTTATTAATA
*
212236 TAAAG-TTTGTTTGAAATAAAATATATTGTTTTATTAATA
1 TAAAGATTTGTTTGAAATAAAACATATTGTTTTATTAATA
212275 T
1 T
212276 TAAAAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 11 0.31
39 19 0.54
40 5 0.14
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.49
Consensus pattern (40 bp):
TAAAGATTTGTTTGAAATAAAACATATTGTTTTATTAATA
Found at i:213150 original size:179 final size:180
Alignment explanation
Indices: 212878--213274 Score: 462
Period size: 179 Copynumber: 2.2 Consensus size: 180
212868 TATAATATAA
* *
212878 ATAGTCATAACTATTTGAACTTGTTTGGTAAATAGATTCATTTTTTAAATCTCTTACTCATTAAT
1 ATAGTCATAACTATTTGAACTTGTTTGCTAAACAGATTCATTTTTTAAATCTCTTACTCATTAAT
* * * * * *** *
212943 TTTTGGAATAGTAATAAGTTAGTATTATTTT-ATTTCGAATAAGCCT-ATATGAATTGATATAAT
66 TGTTGAAATAGTAATAAATTAATATTATTTTAATCT-GAATAAG-CTAATATGAACAAAAATAAT
* * *
213006 TGTTTTATGGCGAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAG
129 TG-TTTATGACAAAACAAAAGGTCATAATGATTTGAAATAAATAATTATTCAG
* * * * * *
213059 ATAGTTATTACTATTTGAACTTG-TT-CTAAACATATTTATTTTTTAAATCTTTTACTTATTAAT
1 ATAGTCATAACTATTTGAACTTGTTTGCTAAACAGATTCATTTTTTAAATCTCTTACTCATTAAT
*
213122 TGTTGAAATATTAATAAATTAATATTATTTTAATCTGAATAAGCTAATATGAACAAAAATAATTG
66 TGTTGAAATAGTAATAAATTAATATTATTTTAATCTGAATAAGCTAATATGAACAAAAATAATTG
* *
213187 TTTATGACAAAATAAAAGGTCATAATGATTTGAAATAAATAATTGTTCCA-
131 TTTATGACAAAACAAAAGGTCATAATGATTTGAAATAAATAATTATT-CAG
* ** * * *
213237 ATAATCATAACTATTCAAAATTATTTGGTAAACAGATT
1 ATAGTCATAACTATTTGAACTTGTTTGCTAAACAGATT
213275 TGAAATAAGC
Statistics
Matches: 179, Mismatches: 32, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
178 60 0.34
179 84 0.47
180 14 0.08
181 21 0.12
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (180 bp):
ATAGTCATAACTATTTGAACTTGTTTGCTAAACAGATTCATTTTTTAAATCTCTTACTCATTAAT
TGTTGAAATAGTAATAAATTAATATTATTTTAATCTGAATAAGCTAATATGAACAAAAATAATTG
TTTATGACAAAACAAAAGGTCATAATGATTTGAAATAAATAATTATTCAG
Found at i:214171 original size:21 final size:23
Alignment explanation
Indices: 214134--214175 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
214124 TTGGTAATAT
214134 AATAATTAATAAGATTATTATAA
1 AATAATTAATAAGATTATTATAA
214157 AATAA-TAATAA-ATTATTAT
1 AATAATTAATAAGATTATTAT
214176 CTATTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
AATAATTAATAAGATTATTATAA
Found at i:214218 original size:48 final size:49
Alignment explanation
Indices: 214149--214271 Score: 212
Period size: 49 Copynumber: 2.5 Consensus size: 49
214139 TTAATAAGAT
*
214149 TATTATAAAATAATAATAAATTATTATCTATTTATATAATTATGTA-TATG
1 TATTAT-AATTAAT-ATAAATTATTATCTATTTATATAATTATGTATTATG
214199 TATTATAATTAATATAAATTATTATCTATTTATATAATTATGTATTATG
1 TATTATAATTAATATAAATTATTATCTATTTATATAATTATGTATTATG
214248 TATTATAATTAATATAAATTATTA
1 TATTATAATTAATATAAATTATTA
214272 ATAATTTGAT
Statistics
Matches: 71, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
48 31 0.44
49 34 0.48
50 6 0.08
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (49 bp):
TATTATAATTAATATAAATTATTATCTATTTATATAATTATGTATTATG
Found at i:214557 original size:18 final size:17
Alignment explanation
Indices: 214533--214583 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
214523 TTCCTCATAC
214533 TTATATAATAGAATTAA
1 TTATATAATAGAATTAA
**
214550 TATATATAATTCAATTAA
1 T-TATATAATAGAATTAA
214568 TTATGAATAATAGAAT
1 TTAT--ATAATAGAAT
214584 AAAATTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 4 0.15
18 15 0.56
19 8 0.30
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (17 bp):
TTATATAATAGAATTAA
Found at i:214788 original size:9 final size:8
Alignment explanation
Indices: 214776--214848 Score: 58
Period size: 9 Copynumber: 8.5 Consensus size: 8
214766 TTTATTATAT
214776 TAATATTTA
1 TAATA-TTA
214785 TAATATTA
1 TAATATTA
*
214793 CTAATAAT-
1 -TAATATTA
214801 TAATATTA
1 TAATATTA
* *
214809 TTATAATA
1 TAATATTA
214817 TAATAATTA
1 TAAT-ATTA
214826 TAATATTTTA
1 TAATA--TTA
214836 TAATATTA
1 TAATATTA
214844 GTAAT
1 -TAAT
214849 TTTGTTATCT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
7 6 0.12
8 16 0.31
9 22 0.42
10 8 0.15
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (8 bp):
TAATATTA
Found at i:214806 original size:16 final size:16
Alignment explanation
Indices: 214783--214830 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
214773 TATTAATATT
214783 TATAATATTACTAATAA
1 TATAATATTA-TAATAA
*
214800 T-TAATATTATTATAA
1 TATAATATTATAATAA
214815 TATAATAATTATAATA
1 TATAAT-ATTATAATA
214831 TTTTATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 6 0.22
16 12 0.44
17 9 0.33
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TATAATATTATAATAA
Found at i:214830 original size:32 final size:33
Alignment explanation
Indices: 214783--214848 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
214773 TATTAATATT
*
214783 TATAATATTACTAATAATTAATATTATTA-TAA
1 TATAATATTACTAATAATTAATAATATTAGTAA
* *
214815 TATAATAATTA-TAATATTTTATAATATTAGTAA
1 TATAAT-ATTACTAATAATTAATAATATTAGTAA
214848 T
1 T
214849 TTTGTTATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 21 0.72
33 8 0.28
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (33 bp):
TATAATATTACTAATAATTAATAATATTAGTAA
Found at i:214837 original size:19 final size:19
Alignment explanation
Indices: 214776--214840 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
214766 TTTATTATAT
*
214776 TAATATTTATAATA--TTA
1 TAATAATTATAATATTTTA
*
214793 CTAATAATTAATATTATTATAATA
1 -TAATAATT-ATAATATT-T--TA
214817 TAATAATTATAATATTTTA
1 TAATAATTATAATATTTTA
214836 TAATA
1 TAATA
214841 TTAGTAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
18 7 0.18
19 12 0.32
21 1 0.03
22 8 0.21
23 8 0.21
24 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAATTATAATATTTTA
Found at i:215449 original size:19 final size:18
Alignment explanation
Indices: 215427--215483 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
215417 ATTAATAAGT
215427 TAATTATTAATATTTATTA
1 TAATTATTAATA-TTATTA
*
215446 TAATTA-T-ATATAATTA
1 TAATTATTAATATTATTA
215462 T-ATTATTTAATAATTATTA
1 TAATTA-TTAAT-ATTATTA
215481 TAA
1 TAA
215484 ATTTATATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 4 0.13
16 6 0.19
17 4 0.13
18 3 0.10
19 13 0.42
20 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATTATTAATATTATTA
Found at i:215457 original size:10 final size:9
Alignment explanation
Indices: 215427--215483 Score: 55
Period size: 10 Copynumber: 6.3 Consensus size: 9
215417 ATTAATAAGT
215427 TAATTATTAA
1 TAATTATT-A
*
215437 TATTTATTA
1 TAATTATTA
215446 TAATTATATA
1 TAATTAT-TA
215456 TAATTA-TA
1 TAATTATTA
* *
215464 TTATT-TAA
1 TAATTATTA
215472 TAATTATTA
1 TAATTATTA
215481 TAA
1 TAA
215484 ATTTATATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
8 11 0.29
9 12 0.32
10 15 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TAATTATTA
Found at i:216022 original size:18 final size:18
Alignment explanation
Indices: 215963--216023 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
215953 AATTTAAAAA
*
215963 AAATTA-TAATAATATTAT
1 AAATTATTAATAA-ATAAT
* *
215981 TAATTATTAATAAGTAAT
1 AAATTATTAATAAATAAT
**
215999 TTATTATTAATAAATAAT
1 AAATTATTAATAAATAAT
216017 AAATTAT
1 AAATTAT
216024 ATTTATAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
18 29 0.83
19 6 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
AAATTATTAATAAATAAT
Found at i:216898 original size:19 final size:19
Alignment explanation
Indices: 216876--216942 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
216866 TTGAAACAAT
*
216876 ATTAATAATTTATTTTATA
1 ATTAATAATTTATTTAATA
* *
216895 ATTAATAAAATTAATTTAACA
1 ATTAAT--AATTTATTTAATA
*
216916 ACTAATAATTTATTTAAT-
1 ATTAATAATTTATTTAATA
216934 A-TAATAATT
1 ATTAATAATT
216943 ATAATATACT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
17 8 0.20
18 1 0.03
19 16 0.40
21 15 0.38
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTAATAATTTATTTAATA
Found at i:216979 original size:13 final size:12
Alignment explanation
Indices: 216942--216999 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 12
216932 ATATAATAAT
*
216942 TATAATATACTA
1 TATAATATATTA
*
216954 TTTAA-AT-TTA
1 TATAATATATTA
216964 TATAATATAATTA
1 TATAATAT-ATTA
216977 TATGAATATATTA
1 TAT-AATATATTA
216990 -ATAAT-TATTA
1 TATAATATATTA
217000 AATTAATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
10 11 0.28
11 7 0.18
12 6 0.15
13 10 0.26
14 5 0.13
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (12 bp):
TATAATATATTA
Found at i:217262 original size:24 final size:24
Alignment explanation
Indices: 217217--217263 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
217207 ATTATGCATA
*
217217 TTAATAAATATTTAAATAATATAC
1 TTAATAAATAGTTAAATAATATAC
*
217241 TTAAT-AATAGTTAATATTATATA
1 TTAATAAATAGTTAA-ATAATATA
217264 TAATTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
TTAATAAATAGTTAAATAATATAC
Found at i:218487 original size:11 final size:11
Alignment explanation
Indices: 218471--218513 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
218461 CAAAATTACT
218471 AATATTATAAA
1 AATATTATAAA
218482 AATATTATAATTA
1 AATATTATAA--A
*
218495 TTATATTATAAA
1 -AATATTATAAA
218507 AATATTA
1 AATATTA
218514 ATTATTAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 16 0.59
12 1 0.04
13 1 0.04
14 9 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATATTATAAA
Found at i:218519 original size:23 final size:25
Alignment explanation
Indices: 218472--218520 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
218462 AAAATTACTA
218472 ATATTATAAAAATATTATAATTATT
1 ATATTATAAAAATATTATAATTATT
218497 ATATTATAAAAATA-T-TAATTATT
1 ATATTATAAAAATATTATAATTATT
218520 A
1 A
218521 GTAATGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 9 0.38
24 1 0.04
25 14 0.58
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATTATAAAAATATTATAATTATT
Found at i:218712 original size:29 final size:29
Alignment explanation
Indices: 218646--218712 Score: 66
Period size: 29 Copynumber: 2.3 Consensus size: 29
218636 CATAATAATA
* * **
218646 AAAATTAATTAAATGTTATTATTAAAATC
1 AAAATTAATTAAATATTAATAAAAAAATC
218675 AATAA-TAATTAAATAATTAATAAAAAAAT-
1 AA-AATTAATTAAAT-ATTAATAAAAAAATC
218704 AAAATTAAT
1 AAAATTAAT
218713 ATTATACTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
28 2 0.06
29 17 0.55
30 12 0.39
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (29 bp):
AAAATTAATTAAATATTAATAAAAAAATC
Found at i:219684 original size:180 final size:181
Alignment explanation
Indices: 219351--219725 Score: 427
Period size: 180 Copynumber: 2.1 Consensus size: 181
219341 CATATTTACT
** * * * **
219351 TATTTCAAATTGTTATAACCTTTTATTTTATCATCAAATAATTGTTTCTGTTCATACTATTTTAT
1 TATTTCAAATCATTATAACCTTTTATTTTAACATAAAATAATTGTTTCTGTTCATACAAGCTTAT
* * *
219416 TTAGAATAAAATAATACTAATTTAATGATATTTCGAAACTTAATAACCAAGGAAATTAAAAAATA
66 TTAGAATAAAATAATACTAATTTAATAATATTTCGAAAATTAATAACAAAGGAAATTAAAAAATA
** * * *
219481 AATCTAATTGTTGAACTAGTTCAAATAGTTAAGACTCTA-T-GAATGATTATC
131 AATCTAATTACTAAACTAGTTCAAATAGTTAA-AAT-TATTAGAATAATTATC
* * *
219532 TATTTCAAATCATTATGACCTTTTCTTTTAACATAAAATAATTGTTT-TGTTCGTACAAGCTTAT
1 TATTTCAAATCATTATAACCTTTTATTTTAACATAAAATAATTGTTTCTGTTCATACAAGCTTAT
* * * * *
219596 TTGGATTAAAATAATACTAATTTAATAATATTTTGAAAATTAATAAGAAA-GAGATTTAAAAAAT
66 TTAGAATAAAATAATACTAATTTAATAATATTTCGAAAATTAATAACAAAGGA-AATTAAAAAAT
* ** *
219660 AAATTTGTTTACTAAA-TCAGTTCAAATGGTTAAAATTATTAGAATAATTATC
130 AAATCTAATTACTAAACT-AGTTCAAATAGTTAAAATTATTAGAATAATTATC
*
219712 TATTTCATATCATT
1 TATTTCAAATCATT
219726 TATATTTATT
Statistics
Matches: 162, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
178 2 0.01
179 6 0.04
180 113 0.70
181 41 0.25
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (181 bp):
TATTTCAAATCATTATAACCTTTTATTTTAACATAAAATAATTGTTTCTGTTCATACAAGCTTAT
TTAGAATAAAATAATACTAATTTAATAATATTTCGAAAATTAATAACAAAGGAAATTAAAAAATA
AATCTAATTACTAAACTAGTTCAAATAGTTAAAATTATTAGAATAATTATC
Found at i:220213 original size:181 final size:181
Alignment explanation
Indices: 219894--220272 Score: 476
Period size: 181 Copynumber: 2.1 Consensus size: 181
219884 TTTATAATAT
* *
219894 AAATAGTCATAACTATTTGAACTTGTTTGGTAAATAGATTCATTTTTTAAATCTCTTACTCATTA
1 AAATAGTCATAACTATTTGAACTTGTTCGGTAAACAGATTCATTTTTTAAATCTCTTACTCATTA
* * * * * * ** *
219959 ATTTTTGGAATAGTAATAAGTTAGTATTATTTTATTTCGAATAAGCCTATATGAATTGATATAAT
66 ATTGTTGAAATAGTAATAAATTAATATTATTTTATCTCGAATAAGCCTAAATGAATAAAAATAAT
* * * *
220024 TGTTTTATGGCGAAATAAAAGATCATAACGATTTGAAATAGA-TAATTATTC
131 TATTTTATGACAAAACAAAAGATCATAACGATTTGAAATA-ACTAATTATTC
* * * * * * * *
220075 AGATAGTTATTACTATTTGAACTTGTTCGGTAAACATATTTATTTTTTAAATCCTTTTGCTTATT
1 AAATAGTCATAACTATTTGAACTTGTTCGGTAAACAGATTCATTTTTTAAAT-CTCTTACTCATT
*
220140 AATTGTTGAAATATTAATAAATTAATATTATTTTAATCT-GAATAAG-CTAAATGAATAAAAATA
65 AATTGTTGAAATAGTAATAAATTAATATTATTTT-ATCTCGAATAAGCCTAAATGAATAAAAATA
* *
220203 ATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAACTAATTGTTC
129 ATTATTTTATGACAAAACAAAAGATCATAACGATTTGAAATAACTAATTATTC
220256 AAATAGTCATAACTATT
1 AAATAGTCATAACTATT
220273 CAAAATTATT
Statistics
Matches: 166, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
180 1 0.01
181 117 0.70
182 45 0.27
183 3 0.02
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.41
Consensus pattern (181 bp):
AAATAGTCATAACTATTTGAACTTGTTCGGTAAACAGATTCATTTTTTAAATCTCTTACTCATTA
ATTGTTGAAATAGTAATAAATTAATATTATTTTATCTCGAATAAGCCTAAATGAATAAAAATAAT
TATTTTATGACAAAACAAAAGATCATAACGATTTGAAATAACTAATTATTC
Found at i:220676 original size:181 final size:180
Alignment explanation
Indices: 220416--220873 Score: 453
Period size: 181 Copynumber: 2.5 Consensus size: 180
220406 AAACAGATTT
* * **
220416 ATTTTTTAAATCTCTCATTTATTAATTTTTGGAATATTAATAAATTAGAATTATGTTA-TTCTGA
1 ATTTTTTAAATCTCTTACTTATTAATTTTTAAAATATTAATAAATTAGAATTAT-TTATTTC-GA
* * ** *
220480 ATAAGTTTGTATGAACAAAAACAATTGTTTTGTGGGAAAACAAAAGGTCATAAAGATTTGAAATA
64 ATAAGATTATATGAACAAAAACAATTGTTTTAAGAGAAAACAAAAGGTCATAAAGATTTGAAATA
* * * ** *
220545 GATAATTATTCAAATAGTCATAATTGTTTGCATTGGTCAAGCCAA-AAGATAC
129 AATAATTAGTCAAATAGTCATAACTAATTGAATTGGT-AAGCCAACAAGATAC
*
220597 ATTTTCTT-AATC-CATTACTTATTAATTTTTAAAATATTAATAAATTAGCATTACTTTATTTCG
1 ATTTT-TTAAATCTC-TTACTTATTAATTTTTAAAATATTAATAAATTAGAATTA-TTTATTTCG
* * * * * *
220660 AATAAGATTATATGAACAGAAACAATTATTTTAAGATAAAACAAATGGTTATAACGATTTGAAAT
63 AATAAGATTATATGAACAAAAACAATTGTTTTAAGAGAAAACAAAAGGTCATAAAGATTTGAAAT
* * * * * * **
220725 AAATATTTGGTCAAATAGTTATAACTAATTGAATTGGTATGGCAACCAGATTT
128 AAATAATTAGTCAAATAGTCATAACTAATTGAATTGGTAAGCCAACAAGATAC
* * * *
220778 ATTTTTTAAATCTCTTACGTATTAATTTTTTAAATATAAATAAATTA-ATATTATTTTATTCTAG
1 ATTTTTTAAATCTCTTACTTATTAATTTTTAAAATATTAATAAATTAGA-ATTA-TTTATT-TCG
* *
220842 ACA-AA-CTTATATGAACAAAAACATTTGTTTTA
63 A-ATAAGATTATATGAACAAAAACAATTGTTTTA
220874 TGACAAAATT
Statistics
Matches: 227, Mismatches: 40, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
180 8 0.04
181 206 0.91
182 12 0.05
183 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (180 bp):
ATTTTTTAAATCTCTTACTTATTAATTTTTAAAATATTAATAAATTAGAATTATTTATTTCGAAT
AAGATTATATGAACAAAAACAATTGTTTTAAGAGAAAACAAAAGGTCATAAAGATTTGAAATAAA
TAATTAGTCAAATAGTCATAACTAATTGAATTGGTAAGCCAACAAGATAC
Found at i:221272 original size:19 final size:20
Alignment explanation
Indices: 221248--221291 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
221238 AATAATAATA
*
221248 AATTAT-TATCTATTTATT-T
1 AATTATGTAT-TATGTATTAT
221267 AATTATGTATTATGTATTAT
1 AATTATGTATTATGTATTAT
221287 AATTA
1 AATTA
221292 ATATAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (20 bp):
AATTATGTATTATGTATTAT
Found at i:221456 original size:20 final size:19
Alignment explanation
Indices: 221420--221458 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
221410 TTGTTAATAC
*
221420 TTAATATTAAATTATTTAT
1 TTAATATTAAATAATTTAT
*
221439 TTAACTATTATATAATTTAT
1 TTAA-TATTAAATAATTTAT
221459 AAATTATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATATTAAATAATTTAT
Found at i:221628 original size:18 final size:18
Alignment explanation
Indices: 221597--221631 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
221587 TACTAATCTG
*
221597 TATATAATAGAATTAATA
1 TATATAATACAATTAATA
*
221615 TATATAATTCAATTAAT
1 TATATAATACAATTAAT
221632 TATGAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
TATATAATACAATTAATA
Found at i:221744 original size:29 final size:30
Alignment explanation
Indices: 221712--221772 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
221702 ATAATAGTTA
*
221712 ATTAAATAAATACTTA-ATTTATTTAATAT
1 ATTAAATAAATACTTATAATTATTTAATAT
*
221741 ATTAAATAAATTCTTATTAATTATTTAATAT
1 ATTAAATAAATACTTA-TAATTATTTAATAT
221772 A
1 A
221773 ATAGAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 15 0.54
31 13 0.46
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (30 bp):
ATTAAATAAATACTTATAATTATTTAATAT
Found at i:221802 original size:13 final size:14
Alignment explanation
Indices: 221756--221804 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
221746 ATAAATTCTT
221756 ATTAATT-AT-TTA
1 ATTAATTAATATTA
*
221768 ATATAATAGAATATTA
1 AT-TAAT-TAATATTA
221784 ATTAATTAATATT-
1 ATTAATTAATATTA
221797 ATTAATTA
1 ATTAATTA
221805 TCTAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 12 0.39
14 6 0.19
15 6 0.19
16 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
ATTAATTAATATTA
Found at i:221972 original size:21 final size:21
Alignment explanation
Indices: 221930--221988 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
221920 AAATATATAA
221930 AATATTATATAATTATCCTAAT
1 AATATTA-ATAATTATCCTAAT
* **
221952 AATATTAATCATTATGTTAAT
1 AATATTAATAATTATCCTAAT
221973 AATATTAAGTAATTAT
1 AATATTAA-TAATTAT
221989 TAATATTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (21 bp):
AATATTAATAATTATCCTAAT
Found at i:222213 original size:10 final size:10
Alignment explanation
Indices: 222194--222232 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
222184 TAAGTTATTC
222194 ATTA-TAATA
1 ATTATTAATA
222203 ATTATTAATA
1 ATTATTAATA
222213 ATTAATTAATA
1 ATT-ATTAATA
*
222224 ATAATTAAT
1 ATTATTAAT
222233 TAACCATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 4 0.15
10 14 0.52
11 9 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
ATTATTAATA
Found at i:222235 original size:14 final size:14
Alignment explanation
Indices: 222175--222235 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
222165 ATTAAAGAAT
222175 ATTATATAATAAGTT-
1 ATTA-ATAATAA-TTA
* *
222190 ATTCATTATAA-TA
1 ATTAATAATAATTA
*
222203 ATTATTAATAATTA
1 ATTAATAATAATTA
222217 ATTAATAATAATTA
1 ATTAATAATAATTA
222231 ATTAA
1 ATTAA
222236 CCATTAACTT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
12 1 0.03
13 8 0.21
14 26 0.68
15 3 0.08
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (14 bp):
ATTAATAATAATTA
Found at i:222948 original size:24 final size:25
Alignment explanation
Indices: 222914--222963 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
222904 AAATTATGAC
* *
222914 AATTTATAATTA-ATATTTATTATA
1 AATTTAAAATTAGATATTTATAATA
*
222938 AATTTAAAATTAGTTATTTATAATA
1 AATTTAAAATTAGATATTTATAATA
222963 A
1 A
222964 TTATATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
AATTTAAAATTAGATATTTATAATA
Found at i:223203 original size:17 final size:15
Alignment explanation
Indices: 223185--223214 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
223175 TACATTAGTT
223185 ATTATT-AAATATAA
1 ATTATTAAAATATAA
223199 ATTATTAAAATATAA
1 ATTATTAAAATATAA
223214 A
1 A
223215 CTAAATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTATTAAAATATAA
Found at i:223299 original size:9 final size:9
Alignment explanation
Indices: 223285--223332 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
223275 TAATTAAATA
223285 ATAATATTT
1 ATAATATTT
223294 ATAATATTT
1 ATAATATTT
* *
223303 AAAATAATT
1 ATAATATTT
* *
223312 ATAATCTCT
1 ATAATATTT
223321 -TAATATTT
1 ATAATATTT
223329 ATAA
1 ATAA
223333 CAAGATTATA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
8 6 0.20
9 24 0.80
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (9 bp):
ATAATATTT
Found at i:223736 original size:57 final size:54
Alignment explanation
Indices: 223631--223752 Score: 144
Period size: 57 Copynumber: 2.2 Consensus size: 54
223621 GCTTAATTAT
* *
223631 TAATATTTAT-ATAAATATTATAATTAATATTATTATATATATTGAATATTGAA
1 TAATATTTATAATAAATATTATAATTAATATTATTAAATATATTGAATATTAAA
223684 TAATATTTATAATAATAATAATTATAATTAATATTATTTGAAATA-ATT-AATATTAAA
1 TAATATTTATAAT-A-AAT-ATTATAATTAATATTA-TT-AAATATATTGAATATTAAA
223741 TAAT-TATTATAA
1 TAATAT-TTATAA
223753 ATATTTTATT
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
53 10 0.17
54 2 0.03
55 1 0.02
56 4 0.07
57 34 0.57
58 5 0.08
59 4 0.07
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (54 bp):
TAATATTTATAATAAATATTATAATTAATATTATTAAATATATTGAATATTAAA
Found at i:223842 original size:11 final size:13
Alignment explanation
Indices: 223811--223891 Score: 56
Period size: 13 Copynumber: 5.6 Consensus size: 13
223801 AAATCTATCA
223811 ATTATTAATTA-AT
1 ATTA-TAATTATAT
223824 ATTATATTTATTATAT
1 ATTATA---ATTATAT
223840 ATTATAATTATAT
1 ATTATAATTATAT
* *
223853 ATAATAAATATAT
1 ATTATAATTATAT
223866 AATTATATTAATTATAAT
1 -A-T-TA-TAATTAT-AT
223884 ATTATAAT
1 ATTATAAT
223892 AAGTAAAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 17
0.72 0.05 0.22
Matches are distributed among these distances:
12 2 0.04
13 22 0.40
14 5 0.09
15 7 0.13
16 10 0.18
17 7 0.13
18 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATAATTATAT
Found at i:223843 original size:22 final size:22
Alignment explanation
Indices: 223824--223891 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
223814 ATTAATTAAT
223824 ATTATATTTATTATATATTATA
1 ATTATATTTATTATATATTATA
* * *
223846 ATTATATATAATAAATA-TATA
1 ATTATATTTATTATATATTATA
*
223867 ATTATATTAATTATAATATTATA
1 ATTATATTTATTAT-ATATTATA
223890 AT
1 AT
223892 AAGTAAAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
21 14 0.38
22 17 0.46
23 6 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATATTTATTATATATTATA
Found at i:223869 original size:49 final size:50
Alignment explanation
Indices: 223766--223891 Score: 135
Period size: 49 Copynumber: 2.6 Consensus size: 50
223756 TTTTATTAGT
* *
223766 TTAATTAATATTATATTATTAT-T-TTACTAATTACTAAATCTATCAATTA
1 TTAATTAATATTATATTATTATATATTA-TAATTACTAAATCAATAAATTA
*
223815 TTAATTAATATTATATTTATTATATATTATAATTA-TATAT-AATAAA-TA
1 TTAATTAATATTATA-TTATTATATATTATAATTACTAAATCAATAAATTA
223863 TATAATT-ATATTA-ATTA-TA-ATATTATAAT
1 T-TAATTAATATTATATTATTATATATTATAAT
223892 AAGTAAAATT
Statistics
Matches: 70, Mismatches: 3, Indels: 13
0.81 0.03 0.15
Matches are distributed among these distances:
44 10 0.14
45 2 0.03
46 3 0.04
47 1 0.01
48 9 0.13
49 24 0.34
50 11 0.16
51 7 0.10
52 3 0.04
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (50 bp):
TTAATTAATATTATATTATTATATATTATAATTACTAAATCAATAAATTA
Found at i:223872 original size:17 final size:17
Alignment explanation
Indices: 223842--223893 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
223832 TATTATATAT
223842 TATAATTATATATAATAAA
1 TATAA-TAT-TATAATAAA
* *
223861 TAT-ATAATTATATTAAT
1 TATAAT-ATTATAATAAA
223878 TATAATATTATAATAA
1 TATAATATTATAATAA
223894 GTAAAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 20 0.71
18 5 0.18
19 3 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATAATATTATAATAAA
Found at i:223882 original size:26 final size:26
Alignment explanation
Indices: 223835--223884 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
223825 TTATATTTAT
223835 TATATATTATAATTATATATAATAAA
1 TATATATTATAATTATATATAATAAA
223861 TATATAATTAT-ATTA-ATTATAATA
1 TATAT-ATTATAATTATA-TATAATA
223885 TTATAATAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 1 0.05
26 16 0.73
27 5 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TATATATTATAATTATATATAATAAA
Found at i:223910 original size:30 final size:33
Alignment explanation
Indices: 223833--223916 Score: 86
Period size: 34 Copynumber: 2.6 Consensus size: 33
223823 TATTATATTT
223833 ATTATA-TATTATAATTATATATAATAAATATATA
1 ATTATAGTATTATAA-TAT-TATAATAAATATATA
* *
223867 ATTATATTAATTATAATATTATAATAAGTA-A-A
1 ATTATAGT-ATTATAATATTATAATAAATATATA
*
223899 ATT-TAGTATTATATTATT
1 ATTATAGTATTATAATATT
223917 TATTTATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
30 10 0.22
31 3 0.07
32 4 0.09
33 1 0.02
34 16 0.36
35 4 0.09
36 7 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (33 bp):
ATTATAGTATTATAATATTATAATAAATATATA
Found at i:223974 original size:71 final size:69
Alignment explanation
Indices: 223827--223974 Score: 158
Period size: 71 Copynumber: 2.1 Consensus size: 69
223817 AATTAATATT
* *
223827 ATATTTATTATATATTATAATTATATATAATAAATATATAATTATATTAATTATAATATTATAAT
1 ATATTTAGTATATATTAT-ATTATATATAATAAATATATAATTATATTAATTATAATATTATAAA
*
223892 AAGTA
65 AACTA
* * * *
223897 AAATTTAGTATTATATTAT-TTATTTATAA-AACATTATATAATTCTTATTTATTATAAT-TTAA
1 ATATTTAGTA-TATATTATATTATATATAATAA-A-TATATAATT-ATATTAATTATAATATT-A
223959 TAAAAACTA
61 TAAAAACTA
223968 ATATTTA
1 ATATTTA
223975 TAACTTAATT
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
68 2 0.03
69 10 0.15
70 19 0.29
71 34 0.52
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (69 bp):
ATATTTAGTATATATTATATTATATATAATAAATATATAATTATATTAATTATAATATTATAAAA
ACTA
Found at i:224355 original size:16 final size:16
Alignment explanation
Indices: 224322--224355 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
224312 GTTATTCATG
*
224322 ATATTATATTGAATTA
1 ATATTATATTGAAATA
*
224338 ATATTATATTTAAATA
1 ATATTATATTGAAATA
224354 AT
1 AT
224356 TGTATAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
ATATTATATTGAAATA
Found at i:224948 original size:180 final size:180
Alignment explanation
Indices: 224712--225858 Score: 806
Period size: 180 Copynumber: 6.4 Consensus size: 180
224702 GACTATCTAT
** * * * **
224712 TTCAAATTGTTATGACCTTTTCTTTTGTCATAAAACAATTGTCTT--GTTTGTACAAGCTTATTC
1 TTCAAATCATTATAACCTTTTATTTTGTCATAAAACAATTGT-TTCAATTCATACAAGCTTATTC
* * * ** *
224775 ATATTAAAATAATACTAATTTCA-TAATATTTTAAAAATTAATAAGTAAGTTATTAAAAAAATAA
65 ATAATAAAATAATACTAATTT-ATTAATATTTCAAAAATTAATAAGAAAGAGATTTAAAAAATAA
* * * * ** * * ** *
224839 ATTTATTTATCGAATCATTTCAAATGGTTAAGATTATTAAAATAATTATATA
129 ATTTGTTTACCAAATCAGTTCAAATAATTATGACTATTTGAACAATTATATA
* * * *
224891 CTTCAAATCATTTTAACCATTT-TTTAGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTT
1 -TTCAAATCATTATAACCTTTTATTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTC
* * * **
224955 AGAATAAATTAATACTAATTTATTAACATTTGGAAAATTAATAAGAAAGAGATTTAAAAAATAAA
65 ATAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGAAAGAGATTTAAAAAATAAA
* * * * * * ***
225020 TCTGTTTGCCGAA-CAAGTTTAAATAATTATTATTATTTGAACAATTGCCTA
130 TTTGTTTACCAAATC-AGTTCAAATAATTATGACTATTTGAACAATTATATA
* * * * * * *
225071 TTTAAAACATTATAACCTTTTAATTTGTCATAAAACAATTGTTTTAGTTAATACAAGCTTA--GA
1 TTCAAATCATTATAACCTTTTATTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTCA
** *
225134 TGGAATAAAATAATACTAATTTATTAATATTTCCTAAATTAAT-A-AAA-A-ATTTTAAAAATAA
66 T--AATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGAAAGAGATTTAAAAAATAA
* * * *
225195 ATTTGTTTACCAAATCAGTTAAAATAATTATGACCATTTGAATAATTATCTA
129 ATTTGTTTACCAAATCAGTTCAAATAATTATGACTATTTGAACAATTATATA
* * **
225247 TTTCAAATCATTATGACCTTTTATTTTGTCATAATACAATTGTTT-TTTATCATACAAGCTTATT
1 -TTCAAATCATTATAACCTTTTATTTTGTCATAAAACAATTGTTTCAAT-TCATACAAGCTTATT
* * * *
225311 CGA-AATAAAATAATACTAATTTATTAATATTTCAAAAA-TAATAGGTAACAGATTTAAATAATA
64 C-ATAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGAAAGAGATTTAAAAAATA
*
225374 AATTTGTTTACCAAACCAGTTCAAATAATTATGACTATTTGAACAATTATCA-A
128 AATTTGTTTACCAAATCAGTTCAAATAATTATGACTATTTGAACAATTAT-ATA
** * * *
225427 TCTCAAAT-AGTTA-AAATTTTTGTTTTGTCGTAAAACAATTGTTTCTAA-TCATAAAAGCTTAT
1 T-TCAAATCA-TTATAACCTTTTATTTTGTCATAAAACAATTGTTTC-AATTCATACAAGCTTAT
* * * * *
225489 TCGGTTA-AAAATAATACTAATTTAATAATATTTCAAAAATTAAT----AATAGATTTAAAAATT
63 TC-ATAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGAAAGAGATTTAAAAAAT
* *** * * * * ** * ** * *
225549 GAATACATTTGCTAAA-CTAGTTCAAATAGTAAAAACAATTAAAATAATTATCTA
127 AAATTTGTTTACCAAATC-AGTTCAAATAATTATGACTATTTGAACAATTATATA
* * * * * *
225603 TTTCAAAT-AGTTCA-AACCTTTTGTTTAGTCATAAAATATTTGTTTC-ATGTCTTATAAGCTTA
1 -TTCAAATCA-TT-ATAACCTTTTATTTTGTCATAAAACAATTGTTTCAAT-TCATACAAGCTTA
*** * * * * **
225665 TTTGGAATAAAATAATCCAAATTTATGAACATTTGGAAAATTAATAAGCAAA-AGATTTGAAAAA
62 TTCATAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG-AAAGAGATTT-AAAAA
* * * *
225729 ATAAATTTGTTTACCAAA-CAAGTTTAAA-AAGTTATGACTATTTGATCAATTATTTT
125 ATAAATTTGTTTACCAAATC-AGTTCAAATAA-TTATGACTATTTGAACAATTATATA
* * * * * * * *
225785 TATAAAATCGTTATGACCTTTTGTTTTGACATAAAACAATTGTTTCAATTCTTAAAAGCTTATCC
1 T-TCAAATCATTATAACCTTTTATTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTC
*
225850 AAAATAAAA
65 ATAATAAAA
225859 AGAATTTAAT
Statistics
Matches: 762, Mismatches: 163, Indels: 82
0.76 0.16 0.08
Matches are distributed among these distances:
175 2 0.00
176 118 0.15
177 157 0.21
178 8 0.01
179 114 0.15
180 257 0.34
181 9 0.01
182 95 0.12
183 2 0.00
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.40
Consensus pattern (180 bp):
TTCAAATCATTATAACCTTTTATTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTCA
TAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGAAAGAGATTTAAAAAATAAAT
TTGTTTACCAAATCAGTTCAAATAATTATGACTATTTGAACAATTATATA
Found at i:225402 original size:356 final size:354
Alignment explanation
Indices: 224705--227405 Score: 1892
Period size: 356 Copynumber: 7.6 Consensus size: 354
224695 TATAAATGAC
** * * * **
224705 TATCTATTTCAAATTGTTATGACCTTTTCTTTTGTCATAAAACAATTGTCTTGTTTGTACAAGCT
1 TATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTTATTCATACAAGCT
* * * *
224770 TATT-CATATTAAAATAATACTAATTTCA-TAATATTTTAAAAATTAATAAGTAAGTTATTAAAA
66 TATTGGA-A-TAAAATAATACTAATTT-ATTAATATTTCAAAAATTAATAA--AA--AATTTAAA
* * * * * * * ** * *
224833 AAATAAATTTATTTATCGAA-TCATTTCAAATGGTTAAGATTATTAAAATAATTATATACTTCAA
124 AAATAAATTTGTTTACCAAACT-AGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAA
* * * ** * *
224897 ATCATTTTAACCATTT-TTTAGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTTAGAATA
188 ATCATTATAACCTTTTGTTTTGTCATAAAACAATTGTTT-TGTTCATACAAGCTTATTCAAAATA
* * * * *
224961 AATTAATACTAATTTATTAACATTTGGAAAATTAATAAGAAAGAGATTTAAAAAATAAATCTGTT
252 AAATAATACTAATTTATTAATATTT-CAAAAATAATAAGTAAGAGATTTAAAAAATAAATCTGTT
* * * * *
225026 TGCCGAACAAGTTTAAATAATTATTATTATTTGAACAAT
316 TACCAAACAAGTTCAAATAATTATGACTATTTGAACAAT
** * * ** *
225065 TGCCTATTT-AAAACATTATAACCTTTTAATTTGTCATAAAACAATTGTTTTAGTTAATACAAGC
1 TATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTTA-TTCATACAAGC
* ** *
225129 TTAGATGGAATAAAATAATACTAATTTATTAATATTTCCTAAATTAATAAAAAATTTTAAAAATA
65 TTA-TTGGAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAAAAATTTAAAAAATA
* * *
225194 AATTTGTTTACCAAA-TCAGTTAAAATAATTATGACCATTTGAATAATTATCTATTTCAAATCAT
129 AATTTGTTTACCAAACT-AGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCAT
* * * * *
225258 TATGACCTTTTATTTTGTCATAATACAATTGTTTTTTATCATACAAGCTTATTCGAAATAAAATA
193 TATAACCTTTTGTTTTGTCATAAAACAATTGTTTTGT-TCATACAAGCTTATTCAAAATAAAATA
* * * *
225323 ATACTAATTTATTAATATTTCAAAAATAATAGGTAACAGATTTAAATAATAAATTTGTTTACCAA
257 ATACTAATTTATTAATATTTCAAAAATAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACCAA
*
225388 ACCAGTTCAAATAATTATGACTATTTGAACAAT
322 ACAAGTTCAAATAATTATGACTATTTGAACAAT
* * * ** * * *
225421 TATCAATCTCAAAT-AGTTA-AAATTTTTGTTTTGTCGTAAAACAATTGTTTCTAATCATAAAAG
1 TATCTATTTCAAATCA-TTATGACCTTTTGTTTTGTCATAAAACAATTGTTT-TATTCATACAAG
* * * * *
225484 CTTATTCGG-TTAAAAATAATACTAATTTAATAATATTTCAAAAATTAATAATAGATTTAAAAAT
64 CTTATT-GGAAT-AAAATAATACTAATTTATTAATATTTCAAAAATTAATAAAAAATTTAAAAAA
* *** * * * ** * **
225548 TGAATACATTTGCTAAACTAGTTCAAATAGTAAAAACAATTAAAATAATTATCTATTTCAAAT-A
127 TAAATTTGTTTACCAAACTAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * * * * ***
225612 GTTCA-AACCTTTTGTTTAGTCATAAAATATTTGTTTCATG-TCTTATAAGCTTATTTGGAATAA
192 -TT-ATAACCTTTTGTTTTGTCATAAAACAATTGTTT--TGTTCATACAAGCTTATTCAAAATAA
* * * * * * * * *
225675 AATAATCCAAATTTATGAACATTTGGAAAATTAATAAGCAAAAGATTTGAAAAAATAAATTTGTT
253 AATAATACTAATTTATTAATATTT-CAAAAATAATAAGTAAGAGATTT-AAAAAATAAATCTGTT
* *
225740 TACCAAACAAGTTTAAA-AAGTTATGACTATTTGATCAAT
316 TACCAAACAAGTTCAAATAA-TTATGACTATTTGAACAAT
* * * * * * *
225779 TAT-TTTTATAAAATCGTTATGACCTTTTGTTTTGACATAAAACAATTGTTTCAATTCTTAAAAG
1 TATCTATT-TCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTT-TATTCATACAAG
** * ** *
225843 CTTA-T---CCAAAAT-A-A--AA---A--GA-ATTT----AA-TAAGT-AGGAGTTTAAAAAAA
64 CTTATTGGAATAAAATAATACTAATTTATTAATATTTCAAAAATTAA-TAAAAAATTT-AAAAAA
* * * * * * * * * *
225888 TAAATTTGTTTATCGAGCAAATTCAAATAGTTACGACTATTTAAACAATTGTCTATTTAAAATCA
127 TAAATTTGTTTACCAAACTAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * *
225953 TTATGA-----TGTTTTGTCATAAAATAATTGTTTTAGTTCATACAAGCTTATTCAAAATAACAT
192 TTATAACCTTTTGTTTTGTCATAAAACAATTGTTTT-GTTCATACAAGCTTATTCAAAATAAAAT
* * * * * * *
226013 AATTCTAATTTATTAATATTCCAAAAATTAATAAGTAAGTGATTTAAAAAGTGAATCTATTTACG
256 AATACTAATTTATTAATATTTCAAAAA-TAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACC
** * *
226078 AAATTAGTTCAAATAATTATG-GTCATTTCAACAAT
320 AAACAAGTTCAAATAATTATGACT-ATTTGAACAAT
* * * * * *
226113 TATCTATTTCAAATCGTTATCACCTTTTGTTTCGTCATATAACAATTGTTTTTTTATCATACATG
1 TATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTG-TTTTAT-TCATACAAG
* * * * * *
226178 ATTATTTGAATTAAAATAATAATAATTTATTAATCTTTCAAAAATTAATAAGAGATTTAAAAAAT
64 CTTATTGGAA-TAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAAAAATTTAAAAAAT
* * * * * * * * *
226243 GAATCTATTTACCGAACTAGTTCAAATAGTTATGACTATTTCAACAATTCTATACTTCAAATCAT
128 AAATTTGTTTACCAAACTAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCAT
* * * *
226308 TATAACATTTTGTTATGTCATAAAACAATTATTTTCTGTTCATACAAGCTTATTCAAAATAAAAC
193 TATAACCTTTTGTTTTGTCATAAAACAATT-GTTT-TGTTCATACAAGCTTATTCAAAATAAAAT
* * * * * * **
226373 AATACTAATATAATAATATTCCAAAAATTAATAACTAAGGGATTTAAAAAATAAATATGTTTGTT
256 AATACTAATTTATTAATATTTCAAAAA-TAATAAGTAAGAGATTTAAAAAATAAATCTGTTT-AC
* * * * * *
226438 GAACCAA-TTCAAACAGTTAAGACTATATGAACAAT
319 CAAACAAGTTCAAATAATTATGACTATTTGAACAAT
* * * * * *
226473 TATCTATTTCAAATCGTTATGACCTTTTGTCTTGTCATAAAATAATT-TTCTCAATTCATGCTAG
1 TATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTT-T-TATTCATACAAG
* * * * *
226537 CTTTTTTGAAAAAAAATAA-AATGAATTTATTAATATTTCAAAAAATAATAAGTAAGAGATTTAA
64 C-TTATTGGAATAAAATAATACT-AATTTATTAATATTTCAAAAATTAATAA--AA-A-ATTTAA
* * * * * *
226601 AAAAT-AATTATGTTTACCTAACCAGTTCAAAAAATTAT-ACTATTTGAACAATTATATATTTCA
123 AAAATAAATT-TGTTTACCAAACTAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCA
* * * * * *
226664 AATCATTATTACTTTTTGTTTTGTCATACAACAAATT-TTTTGTTCATATAAGTTTATTCAGAAT
187 AATCATTATAACCTTTTGTTTTGTCATAAAAC-AATTGTTTTGTTCATACAAGCTTATTCAAAAT
* * * * * * *
226728 AAAGTAATACTAATCTATTAATATTTCAAAAAT--TAA-TAAGTGATTTAGACAATAAATCTATG
251 AAAATAATACTAATTTATTAATATTTCAAAAATAATAAGTAAGAGATTTAAAAAATAAATCTGTT
* * * * * *
226790 TATCAAACTAGTTTAAATAGTTATAACTATTTGAGCAAT
316 TACCAAACAAGTTCAAATAATTATGACTATTTGAACAAT
* * *
226829 TATTTATTTCAAATCATTATGACTTTTTGTTTTG-CTGTAAAAC-A-------ATTCATACAAGC
1 TATCTATTTCAAATCATTATGACCTTTTGTTTTGTC-ATAAAACAATTGTTTTATTCATACAAGC
* * ** * *
226885 TTATTTGCATTAAAATAATACTAATTTATTAATATTTTGACAATTAGTAAGTAAAAAATTTTAAA
65 TTA-TTGGAATAAAATAATACTAATTTATTAATA-TTT--CAAAAATTAA-TAAAAAATTTAAAA
* * * * *
226950 AAT--A--TGTTTACCACACTAGATCAAATAATCATGACAATTTGAATAATTATCTATTTCAAAT
125 AATAAATTTGTTTACCAAACTAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAAT
* * * * * *
227011 CGTTATAACTTTTTGATTTGTCATAAAAGAGTTGTTTTAGTTCATATAAGCTTATTCAAAATAAA
190 CATTATAACCTTTTGTTTTGTCATAAAACAATTGTTTT-GTTCATACAAGCTTATTCAAAATAAA
* * * * * *
227076 ATAATATTTATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAATAATAAATTTGTTTA
254 ATAATACTAATTTATTAATATTTC-AAAAATAATAAGTAAGAGATTTAAAAAATAAATCTGTTTA
* * * * * *
227141 TCGAGCAAGTTCAAATAGTTATTACTATTTGAACAGT
318 CCAAACAAGTTCAAATAATTATGACTATTTGAACAAT
* * * * * * *
227178 TATATATTTCAAATCTTTATGATCTTTTATTTTGTCATAAAACAATTGTTTCCATTCACACAAGT
1 TATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTT-TATTCATACAAGC
* *
227243 TTATTTGGAATAAAATAATACTAATTTATTATTA-TTCTAAAAATTAATAAGTTAGATATTTAAA
65 TTA-TTGGAATAAAATAATACTAATTTATTAATATTTC-AAAAATTAATAA---A-AAATTTAAA
* * * * * * * ** *
227307 AAATAAATATGTTTACCGAACAAGTTTAAATAGTCATGTCCATTTGAATTGTTATTTATTTCAAA
124 AAATAAATTTGTTTACCAAACTAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAA
* * ** * * *
227372 TCGTTATGATATTTTGTTTTATTATAAAATAATT
189 TCATTATAACCTTTTGTTTTGTCATAAAACAATT
227406 ATTCAGAATA
Statistics
Matches: 1842, Mismatches: 391, Indels: 214
0.75 0.16 0.09
Matches are distributed among these distances:
333 2 0.00
334 83 0.05
335 89 0.05
336 1 0.00
339 8 0.00
340 60 0.03
341 2 0.00
342 1 0.00
343 25 0.01
344 59 0.03
345 45 0.02
346 8 0.00
347 45 0.02
348 9 0.00
349 89 0.05
350 14 0.01
351 3 0.00
352 1 0.00
353 1 0.00
354 75 0.04
355 24 0.01
356 417 0.23
357 97 0.05
358 120 0.07
359 135 0.07
360 254 0.14
361 12 0.01
362 125 0.07
363 38 0.02
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (354 bp):
TATCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTTATTCATACAAGCT
TATTGGAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAAAAATTTAAAAAATAAA
TTTGTTTACCAAACTAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTAT
AACCTTTTGTTTTGTCATAAAACAATTGTTTTGTTCATACAAGCTTATTCAAAATAAAATAATAC
TAATTTATTAATATTTCAAAAATAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACCAAACAA
GTTCAAATAATTATGACTATTTGAACAAT
Found at i:226710 original size:360 final size:362
Alignment explanation
Indices: 225865--227405 Score: 1323
Period size: 360 Copynumber: 4.3 Consensus size: 362
225855 AAAAAGAATT
* * * * * * *
225865 TAATAAGTAGGAG-TTTAAAAAAATAAATT-TGTTTATCGAGCAAATTCAAATAGTTACGACTAT
1 TAATAAGTAAGAGATTT-AAAAAAT-AATTATGTTTACCGAACTAGTTCAAATAATTATGACTAT
* * * * * *
225928 TTAAACAATTGTCTATTTAAAATCATTATGA-----TGTTTTGTCATAAAATAATTGTTTTAGTT
64 TTGAACAATTATATATTTCAAATCATTATAACTTTTTGTTTTGTCATAAAAGAATTGTTTTAGTT
* *
225988 CATACAAGCTTATTCAAAATAACATAATTCTAATTTATTAATATTCCAAAAATTAATAAGTAAGT
129 CATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAGT
* * ** * * * * *
226053 GATTTAAAAAGTGAATCTATTTA-CGAAATTAGTTCAAATAATTATG-GTCATTTCAACAATTAT
194 GATTTAAAAAATAAATCTATTTATCG-AACCAATTCAAATAGTTAAGACT-ATTTGAACAATTAT
* * * *** * *
226116 CTATTTCAAATCGTTATCACCTTTTGTTTCGTCATATAACAATTGTTTTTTTATCATACATGATT
257 CTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAAT-TCATACAAGCTT
* *
226181 ATTTGAATTAAAATAATAATAATTTATTAATCTTTC-AAAAA
321 ATTTGAAATAAAATAATAATAATTTATTAATATTTCAAAAAA
*
226222 T--TAA-TAAGAGATTTAAAAAATGAATCTA--TTTACCGAACTAGTTCAAATAGTTATGACTAT
1 TAATAAGTAAGAGATTTAAAAAAT-AAT-TATGTTTACCGAACTAGTTCAAATAATTATGACTAT
* * * * * * * *
226282 TTCAACAATTCTATACTTCAAATCATTATAACATTTTGTTATGTCATAAAACAATTATTTTCTGT
64 TTGAACAATTATATATTTCAAATCATTATAACTTTTTGTTTTGTCATAAAAGAATTGTTTT-AGT
* * * *
226347 TCATACAAGCTTATTCAAAATAAAACAATACTAATATAATAATATTCCAAAAATTAATAACTAAG
128 TCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAG
* * * * * * *
226412 GGATTTAAAAAATAAATATGTTTGTTGAACCAATTCAAACAGTTAAGACTATATGAACAATTATC
193 TGATTTAAAAAATAAATCTATTTATCGAACCAATTCAAATAGTTAAGACTATTTGAACAATTATC
* * * * *
226477 TATTTCAAATCGTTATGACCTTTTGTCTTGTCATAAAATAATT-TTCTCAATTCATGCTAGCTTT
258 TATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTT-TCAATTCATACAAGCTTA
*
226541 TTTGAAAAAAAATAA-AATGAATTTATTAATATTTCAAAAAA
322 TTTGAAATAAAATAATAAT-AATTTATTAATATTTCAAAAAA
* * *
226582 TAATAAGTAAGAGATTTAAAAAATAATTATGTTTACCTAACCAGTTCAAAAAATTAT-ACTATTT
1 TAATAAGTAAGAGATTTAAAAAATAATTATGTTTACCGAACTAGTTCAAATAATTATGACTATTT
*
226646 GAACAATTATATATTTCAAATCATTATTACTTTTTGTTTTGTCATACAACA-AATT-TTTT-GTT
66 GAACAATTATATATTTCAAATCATTATAACTTTTTGTTTTGTCATA-AA-AGAATTGTTTTAGTT
* * * * * *
226708 CATATAAGTTTATTCAGAATAAAGTAATACTAATCTATTAATATTTCAAAAA-T--TAA-TAAGT
129 CATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAGT
* * * * * * * * *
226769 GATTTAGACAATAAATCTATGTATCAAACTAGTTTAAATAGTTATA-ACTATTTGAGCAATTATT
194 GATTTAAAAAATAAATCTATTTATCGAACCAATTCAAATAGTTA-AGACTATTTGAACAATTATC
* * **
226833 TATTTCAAATCATTATGACTTTTTGTTTTG-C-TGTAA-AA------CAATTCATACAAGCTTAT
258 TATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTAT
* * * ** * *
226889 TTGCATTAAAATAATACTAATTTATTAATATTTTGACAAT
323 TTGAAATAAAATAATAATAATTTATTAATATTTCAAAAAA
* * * * * * *
226929 TAGTAAGTAAAAAATTT--TAAA-AA-TATGTTTACC-ACACTAGATCAAATAATCATGACAATT
1 TAATAAGTAAGAGATTTAAAAAATAATTATGTTTACCGA-ACTAGTTCAAATAATTATGACTATT
* * * * *
226989 TGAATAATTATCTATTTCAAATCGTTATAACTTTTTGATTTGTCATAAAAGAGTTGTTTTAGTTC
65 TGAACAATTATATATTTCAAATCATTATAACTTTTTGTTTTGTCATAAAAGAATTGTTTTAGTTC
* * * * * **
227054 ATATAAGCTTATTCAAAATAAAATAATATTTATTTATTAATATTTCTAAAATTAATAAGTAAAAG
130 ATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAGTG
* * * * ** * *
227119 ATTTAAATAATAAATTTGTTTATCG-AGCAAGTTCAAATAGTTATTACTATTTGAACAGTTATAT
195 ATTTAAAAAATAAATCTATTTATCGAACCAA-TTCAAATAGTTAAGACTATTTGAACAATTATCT
* * * * * *
227183 ATTTCAAATCTTTATGATCTTTTATTTTGTCATAAAACAATTGTTTCCATTCACACAAGTTTATT
259 ATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATT
* * * *
227248 TGGAATAAAATAATACTAATTTATTATTA-TTCTAAAAAT
324 TGAAATAAAATAATAATAATTTATTAATATTTC-AAAAAA
* * * * * * * * *
227287 TAATAAGTTAGATATTTAAAAAATAAATATGTTTACCGAACAAGTTTAAATAGTCATGTCCATTT
1 TAATAAGTAAGAGATTTAAAAAATAATTATGTTTACCGAACTAGTTCAAATAATTATGACTATTT
*** * * * * * *
227352 GAATTGTTATTTATTTCAAATCGTTATGA-TATTTTGTTTTATTATAAAATAATT
66 GAACAATTATATATTTCAAATCATTATAACT-TTTTGTTTTGTCATAAAAGAATT
227406 ATTCAGAATA
Statistics
Matches: 956, Mismatches: 178, Indels: 95
0.78 0.14 0.08
Matches are distributed among these distances:
342 2 0.00
343 29 0.03
344 53 0.06
345 51 0.05
346 1 0.00
347 58 0.06
348 7 0.01
349 75 0.08
350 1 0.00
351 3 0.00
352 2 0.00
353 2 0.00
354 70 0.07
355 8 0.01
356 78 0.08
357 7 0.01
358 62 0.06
359 61 0.06
360 202 0.21
361 7 0.01
362 130 0.14
363 46 0.05
364 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (362 bp):
TAATAAGTAAGAGATTTAAAAAATAATTATGTTTACCGAACTAGTTCAAATAATTATGACTATTT
GAACAATTATATATTTCAAATCATTATAACTTTTTGTTTTGTCATAAAAGAATTGTTTTAGTTCA
TACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAGTGA
TTTAAAAAATAAATCTATTTATCGAACCAATTCAAATAGTTAAGACTATTTGAACAATTATCTAT
TTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTTG
AAATAAAATAATAATAATTTATTAATATTTCAAAAAA
Found at i:227340 original size:181 final size:179
Alignment explanation
Indices: 225864--227405 Score: 1116
Period size: 181 Copynumber: 8.7 Consensus size: 179
225854 TAAAAAGAAT
* * * * * **
225864 TTAATAAGTAGGAG-TTTAAAAAAATAAATTTGTTTATCGAGCAAATTCAAATAGTTACGACTAT
1 TTAATAAGTAAGAGATTT-AAAAAATAAATATGTTTACCGAACAAGTTCAAATAGTTATTACTAT
* * * * * *
225928 TTAAACAATTGTCTATTTAAAATCATTATGA----TGTTTTGTCATAAAATAATTGTTTTAGTTC
65 TTGAACAATTATATATTTCAAATCGTTATGACTTTTGTTTTGTCATAAAACAATTGTTTTA-TTC
* * *
225989 ATACAAGCTTATTCAAAATAACATAATTCTAATTTATTAATATTCCAAAAA
129 ATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCTAAAAA
* * * * * *
226040 TTAATAAGTAAGTGATTTAAAAAGTGAATCTATTTA-CGAA-ATTAGTTCAAATAATTATGGT-C
1 TTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACCGAACA--AGTTCAAATAGTTAT--TAC
* * * * *
226102 -ATTTCAACAATTATCTATTTCAAATCGTTATCACCTTTTGTTTCGTCATATAACAATTGTTTTT
62 TATTTGAACAATTATATATTTCAAATCGTTATGA-CTTTTGTTTTGTCATAAAACAATTG-TTTT
* * * ** * * *
226166 TTATCATACATGATTATTTGAATTAAAATAATAATAATTTATTAATCTT-TCAAAAA
125 AT-TCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCT-AAAAA
* * * * *
226222 -T--TAA-TAAGAGATTTAAAAAATGAATCTATTTACCGAACTAGTTCAAATAGTTATGACTATT
1 TTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAATAGTTATTACTATT
* * * * * * * *
226283 TCAACAATTCTATACTTCAAATCATTATAACATTTTGTTATGTCATAAAACAATTATTTTCTGTT
66 TGAACAATTATATATTTCAAATCGTTATGAC-TTTTGTTTTGTCATAAAACAATT-GTTT-TATT
* * * *
226348 CATACAAGCTTATTCAAAATAAAACAATACTAATATAATAATATTCCAAAAA
128 CATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCTAAAAA
* * *** * **
226400 TTAATAACTAAGGGATTTAAAAAATAAATATGTTTGTTGAACCAA-TTCAAACAGTTAAGACTAT
1 TTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACCGAA-CAAGTTCAAATAGTTATTACTAT
* * * * *
226464 ATGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTCTTGTCATAAAATAATT-TTCTCAAT
65 TTGAACAATTATATATTTCAAATCGTTATGA-CTTTTGTTTTGTCATAAAACAATTGTT-T-TAT
* * * * *
226528 TCATGCTAGCTTTTTTGAAAA-AAAATAA-AATGAATTTATTAATATT-TCAAAAA
127 TCATACAAGC-TTATTCAAAATAAAATAATACT-AATTTATTAATATTCT-AAAAA
* * * * * *
226581 ATAATAAGTAAGAGATTTAAAAAATAATTATGTTTACCTAACCAGTTCAAAAAATTA-TACTATT
1 TTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAATAGTTATTACTATT
* * * *
226645 TGAACAATTATATATTTCAAATCATTATTACTTTTTGTTTTGTCATACAACAAATT-TTTTGTTC
66 TGAACAATTATATATTTCAAATCGTTATGAC-TTTTGTTTTGTCATAAAAC-AATTGTTTTATTC
* * * * *
226709 ATATAAGTTTATTCAGAATAAAGTAATACTAATCTATTAATATT-TCAAAAA
129 ATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCT-AAAAA
* * * * * * * * * *
226760 TTAATAAGT----GATTTAGACAATAAATCTATGTATCAAACTAGTTTAAATAGTTATAACTATT
1 TTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAATAGTTATTACTATT
* * * *
226821 TGAGCAATTATTTATTTCAAATCATTATGACTTTTTGTTTTG-CTGTAAAAC-A-------ATTC
66 TGAACAATTATATATTTCAAATCGTTATGAC-TTTTGTTTTGTC-ATAAAACAATTGTTTTATTC
*** * * * *
226877 ATACAAGCTTATTTGCATTAAAATAATACTAATTTATTAATATTTTGACAA
129 ATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCTAAAAA
* * * * * * * * * *
226928 TTAGTAAGTAAAAAATTT---TAA-AAATATGTTTACC-ACACTAGATCAAATAATCATGACAAT
1 TTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACCGA-ACAAGTTCAAATAGTTATTACTAT
* * * * * *
226988 TTGAATAATTATCTATTTCAAATCGTTATAACTTTTTGATTTGTCATAAAAGAGTTGTTTTAGTT
65 TTGAACAATTATATATTTCAAATCGTTATGAC-TTTTGTTTTGTCATAAAACAATTGTTTTA-TT
* * *
227053 CATATAAGCTTATTCAAAATAAAATAATATTTATTTATTAATATTTCT-AAAA
128 CATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATA-TTCTAAAAA
* * * * *
227105 TTAATAAGTAAAAGATTTAAATAATAAATTTGTTTATCGAGCAAGTTCAAATAGTTATTACTATT
1 TTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAATAGTTATTACTATT
* * * *
227170 TGAACAGTTATATATTTCAAATCTTTATGATCTTTTATTTTGTCATAAAACAATTGTTTCCATTC
66 TGAACAATTATATATTTCAAATCGTTATGA-CTTTTGTTTTGTCATAAAACAATTGTTT-TATTC
* * *** *
227235 ACACAAGTTTATTTGGAATAAAATAATACTAATTTATTATTATTCTAAAAA
129 ATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCTAAAAA
* * * * *
227286 TTAATAAGTTAGATATTTAAAAAATAAATATGTTTACCGAACAAGTTTAAATAGTCATGT-CCAT
1 TTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAATAGTTAT-TACTAT
*** * * * * *
227350 TTGAATTGTTATTTATTTCAAATCGTTATGATATTTTGTTTTATTATAAAATAATT
65 TTGAACAATTATATATTTCAAATCGTTATGA-CTTTTGTTTTGTCATAAAACAATT
227406 ATTCAGAATA
Statistics
Matches: 1074, Mismatches: 228, Indels: 123
0.75 0.16 0.09
Matches are distributed among these distances:
167 1 0.00
168 119 0.11
169 4 0.00
172 4 0.00
174 2 0.00
175 36 0.03
176 117 0.11
177 63 0.06
178 142 0.13
179 52 0.05
180 64 0.06
181 322 0.30
182 145 0.14
183 3 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (179 bp):
TTAATAAGTAAGAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAATAGTTATTACTATT
TGAACAATTATATATTTCAAATCGTTATGACTTTTGTTTTGTCATAAAACAATTGTTTTATTCAT
ACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCTAAAAA
Found at i:228761 original size:19 final size:19
Alignment explanation
Indices: 228737--228785 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
228727 TTATGACCTT
*
228737 TTGTTTTATCACAAAATAA
1 TTGTTTTATCACAAAACAA
*
228756 TTGTTTCATCACAAAACAA
1 TTGTTTTATCACAAAACAA
228775 TTGTTTCTATC
1 TTGTTT-TATC
228786 CGTACTAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 23 0.88
20 3 0.12
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (19 bp):
TTGTTTTATCACAAAACAA
Found at i:229565 original size:16 final size:18
Alignment explanation
Indices: 229534--229574 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
229524 CACAAATATT
229534 AATTATTAATTAAAAATA
1 AATTATTAATTAAAAATA
229552 AATTA-TAA-TAAAAATA
1 AATTATTAATTAAAAATA
*
229568 AACTATT
1 AATTATT
229575 TGTTATGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 12 0.57
17 4 0.19
18 5 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTATTAATTAAAAATA
Found at i:230430 original size:178 final size:178
Alignment explanation
Indices: 230109--231185 Score: 765
Period size: 178 Copynumber: 5.9 Consensus size: 178
230099 AATATATATC
* * * * *
230109 TAAA-AAAATTA-TTTTTAGATCTA-TTATTAATTTTTAAAATATTAATAGAGTAGTATTAATTT
1 TAAACAAAATTATTTTTTAAATCTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTT
* * * * * * **
230171 ATTCCGAATAAACTTATATGGAC--AAAAATATTTGTTTTATGATAAAACAAAAGGTCATAATTA
66 ATTTCGAATAAGCTTGTATGAACTGAAAAA-A-TTGTTTTATGACAAAACAAAAGATCATAACGA
* * * * *
230234 TTAAAAATAAATAATTGTTTAAATAATCATAATTATTTGAATTGGTTAGG
129 TTTAAAATAGATAATTGTTCAAATAATCATAACTATTTGAATTAGTTAGG
* * *
230284 TAAGCAAAATTATTTCTTAAATCT-CTTATTAATTTTTGAAATATTAATAAATTCA-TTTTATTT
1 TAAACAAAATTATTTTTTAAATCTACTTATTAATTTTTGAAATATTAATAAATT-AGTATTATTT
* * *
230347 TA-TTCTGATTAAGCTAGTATGAATTGAAAAAAATTGTTTTATGACAAAACAAAAGATCATAACG
65 TATTTC-GAATAAGCTTGTATGAACTG-AAAAAATTGTTTTATGACAAAACAAAAGATCATAACG
* * *
230411 ATTTAAAATAGATAATTGTTCATATAATCTTAACTATTTAAATTAGTTCA-G
128 ATTTAAAATAGATAATTGTTCAAATAATCATAACTATTTGAATTAGTT-AGG
* * * * * * *
230462 CAAACAAATTTATTTTTTAAATCTA-TTAGTTATTAATTTTCAGAGTATTATTAGATTAGTATTA
1 TAAACAAAATTATTTTTTAAATCTACTTA-TTA--ATTTTTGA-AATATTAATAAATTAGTATTA
* * *
230526 TTTTATTTCGAATAAGCTTGTATGAACATG-AATAATTGTTTTATGATAGAACAGAAAAGGTTTA
62 TTTTATTTCGAATAAGCTTGTATGAAC-TGAAAAAATTGTTTTATGACA-AA-ACAAAA-G---A
* * * * * * * *** *
230590 TTTTTTAAATAACTGATTTAAACTATACATTTGTTCAAATAGTCATAACTATTTAAACGGGTTTG
120 -----T-CATAAC-GATTTAAAATAGATAATTGTTCAAATAATCATAACTATTTGAATTAGTTAG
*
230655 A
178 G
* * * * *
230656 TAAATAAATTTATTTTTTTAATTTCTTACTTATTAACTTTTGAAAGATTAATAAATTAGTATTAT
1 TAAACAAAATTA-TTTTTTAA-ATC-TACTTATTAATTTTTGAAATATTAATAAATTAGTATTAT
* * * * * * * * * *
230721 TTTATTTTG---AAGCTTATATG-A-TAAAAAACAACTATTATATGACCAAACAAAAGGTAATAT
63 TTTATTTCGAATAAGCTTGTATGAACT-GAAAA-AATTGTTTTATGACAAAACAAAAGATCATAA
* * * * * * * * *
230781 TGATTTCAAATAGATAATTGTTGAAAT-AGCTATAATTATTTGAACTAATTCGA
126 CGATTTAAAATAGATAATTGTTCAAATAATC-ATAACTATTTGAATTAGTTAGG
* * * * *
230834 TAAACATAATCATTTTTTAAATCACCTACTTCTTAATTTTTGGAATATTAATAAATTACTATTAT
1 TAAACAAAATTATTTTTTAAAT---CTACTTATTAATTTTTGAAATATTAATAAATTAGTATTAT
* * * * *
230899 TTTATTTCGAATAAGCTTGTATGAACTGAAACAATTGTTATATGATAAAACAAAAGATTATAATG
63 TTTATTTCGAATAAGCTTGTATGAACTGAAAAAATTGTTTTATGACAAAACAAAAGATCATAACG
* *
230964 ATTTTAAATAGATAATTGTTCAAATAATCATAACTATTTGAATTTATTTA-G
128 ATTTAAAATAGATAATTGTTCAAATAATCATAACTATTTGAA-TTAGTTAGG
* * *
231015 TAAAC-AAATTAATTTTTTTAACTCTTGCTTATTAATTTTTGAAATATTAAGAAATTAGTATTAT
1 TAAACAAAATT-A-TTTTTTAAATC-TACTTATTAATTTTTGAAATATTAATAAATTAGTATTAT
* * * * * * *
231079 TTTATTT-TAGATAAGCTTTTATGAACTGAAACAATTATTTT-TGGTCAAAATAAAAGGTCATAA
63 TTTATTTCGA-ATAAGCTTGTATGAACTGAAAAAATTGTTTTAT-GACAAAACAAAAGATCATAA
* * * *
231142 CAATTTTAAATAAATAATTGTTCAAATAGTCATAACTATTTGAA
126 CGATTTAAAATAGATAATTGTTCAAATAATCATAACTATTTGAA
231186 CTTGATTGGT
Statistics
Matches: 706, Mismatches: 142, Indels: 103
0.74 0.15 0.11
Matches are distributed among these distances:
175 3 0.00
176 10 0.01
177 63 0.09
178 178 0.25
179 13 0.02
180 133 0.19
181 100 0.14
182 56 0.08
183 11 0.02
184 1 0.00
187 1 0.00
188 2 0.00
189 5 0.01
190 5 0.01
191 20 0.03
192 1 0.00
193 5 0.01
194 75 0.11
195 14 0.02
196 2 0.00
197 5 0.01
198 3 0.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.42
Consensus pattern (178 bp):
TAAACAAAATTATTTTTTAAATCTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTT
ATTTCGAATAAGCTTGTATGAACTGAAAAAATTGTTTTATGACAAAACAAAAGATCATAACGATT
TAAAATAGATAATTGTTCAAATAATCATAACTATTTGAATTAGTTAGG
Found at i:231268 original size:13 final size:13
Alignment explanation
Indices: 231247--231287 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
231237 GAATGTTAAT
231247 AATTAAAATTTTA
1 AATTAAAATTTTA
*
231260 AATTTAAATATTTA
1 AATTAAAAT-TTTA
*
231274 AATTAAAATATTA
1 AATTAAAATTTTA
231287 A
1 A
231288 TTTTTATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTAAAATTTTA
Found at i:231273 original size:14 final size:14
Alignment explanation
Indices: 231247--231285 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
231237 GAATGTTAAT
231247 AATTAAAAT-TTTA
1 AATTAAAATATTTA
*
231260 AATTTAAATATTTA
1 AATTAAAATATTTA
231274 AATTAAAATATT
1 AATTAAAATATT
231286 AATTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AATTAAAATATTTA
Found at i:231279 original size:27 final size:27
Alignment explanation
Indices: 231247--231301 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
231237 GAATGTTAAT
*
231247 AATTAAAATTTTAAATTTAAATATTTA
1 AATTAAAATATTAAATTTAAATATTTA
* * *
231274 AATTAAAATATTAATTTTTATTATTTA
1 AATTAAAATATTAAATTTAAATATTTA
231301 A
1 A
231302 TTATTGATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AATTAAAATATTAAATTTAAATATTTA
Found at i:231942 original size:180 final size:180
Alignment explanation
Indices: 231562--232066 Score: 528
Period size: 180 Copynumber: 2.8 Consensus size: 180
231552 ATAGCAACAA
* * * *
231562 CTATTTGAGCAATTGTCTATTTAAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTT
1 CTATTTGAACAATTATCTATTTAAAATCGTTATGACCTTTTGTTTTATCATAAAACAATT-TTTT
* * * *
231627 -AGTTTATACAAGCTTATTCAAAATAAAATAAAACTAATTTATTAATATTTCAAAAATTAATAAC
65 CAGTTCATACAAGATTATCCAAAATAAAATAAAACTAATTTATTAACATTTC-AAAATTAATAAC
** * * * *
231691 TAAGTGATTTAAAAAGTTAATTTGTTTATCGAATCAGTTCAAATAGTCATGT
129 TAAAAGATTTAAAAAATAAATATGTTTATCGAAACAGTTCAAATAGTCATGT
* * * * *
231743 CCATTTGAATAGTTATCTATTTCAAATCGTTATGACCTTTTGTTTTTTCATAAAACAATTTTTTC
1 CTATTTGAACAATTATCTATTTAAAATCGTTATGACCTTTTGTTTTATCATAAAACAATTTTTTC
* * * * *
231808 TGTTCATCCAA-ATTATCCAAAATAAAA-AATACTGATTTATTAACATTCTGC-AAATTAATAAG
66 AGTTCATACAAGATTATCCAAAATAAAATAAAACTAATTTATTAACATT-T-CAAAATTAATAAC
* *
231870 TAAAAGATTTGAAAAAATAAATATGTTTA-CTAAACAAGTTCAAATAGTTATGAT
129 TAAAAGATTT-AAAAAATAAATATGTTTATCGAAAC-AGTTCAAATAGTCATG-T
* * *
231924 -TATTTGAACAATTATCTATTTAAAATTGTTATGAACTTTTGTTTTATCATAAAACAATTGTTTC
1 CTATTTGAACAATTATCTATTTAAAATCGTTATGACCTTTTGTTTTATCATAAAACAATTTTTTC
* * ** * * * *
231988 AG-T-ATAAAAGCTTATGAAAAATAAAATAATACTACTTTATTAATATTTCAAAA--ATTAA-TA
66 AGTTCATACAAGATTATCCAAAATAAAATAAAACTAATTTATTAACATTTCAAAATTAATAACTA
*
232048 AGAGATTTAAAAAATAAAT
131 AAAGATTTAAAAAATAAAT
232067 CAGCTTACCA
Statistics
Matches: 271, Mismatches: 44, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
175 11 0.04
176 9 0.03
177 4 0.01
178 5 0.02
179 57 0.21
180 123 0.45
181 62 0.23
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (180 bp):
CTATTTGAACAATTATCTATTTAAAATCGTTATGACCTTTTGTTTTATCATAAAACAATTTTTTC
AGTTCATACAAGATTATCCAAAATAAAATAAAACTAATTTATTAACATTTCAAAATTAATAACTA
AAAGATTTAAAAAATAAATATGTTTATCGAAACAGTTCAAATAGTCATGT
Found at i:232239 original size:65 final size:67
Alignment explanation
Indices: 232125--232254 Score: 160
Period size: 65 Copynumber: 2.0 Consensus size: 67
232115 TTTCAAATCA
* **
232125 TTATTACCTTTCATTTTGTCATAAAATAATTGTTCTCCAACATGTAAGCTTA-TT-AAATAAAAT
1 TTATTACCTTTCATTTTGTCATAAAACAATTGTTCTCCAACATACAAGCTTATTTGAAATAAAAT
232188 TG
66 TG
** *
232190 TTATTACCTTTC-TTTCTGTCATAAAACAATTGCTT-TTTAACGTACAAGCTTATTTGAAATAAA
1 TTATTACCTTTCATTT-TGTCATAAAACAATTG-TTCTCCAACATACAAGCTTATTTGAAATAAA
232253 AT
64 AT
232255 AATACTAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
64 3 0.05
65 39 0.71
66 4 0.07
67 9 0.16
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.43
Consensus pattern (67 bp):
TTATTACCTTTCATTTTGTCATAAAACAATTGTTCTCCAACATACAAGCTTATTTGAAATAAAAT
TG
Done.