Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, 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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 4 of 64
Found at i:288484 original size:6 final size:6
Alignment explanation
Indices: 288469--288519 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
288459 GATTTATTTA
* * * * *
288469 TTTA-T TTTATT TTTATT CTTAGT TTTATT TTGATT TTTCTT TTGATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
288516 TTTA
1 TTTA
288520 GATAATAGTA
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
5 4 0.11
6 31 0.89
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:288506 original size:12 final size:11
Alignment explanation
Indices: 288469--288519 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 11
288459 GATTTATTTA
288469 TTTATTTTATT
1 TTTATTTTATT
*
288480 TTTATTCTTAGT
1 TTTATT-TTATT
288492 TTTATTTTGATT
1 TTTATTTT-ATT
*
288504 TTTCTTTTGATT
1 TTTATTTT-ATT
288516 TTTA
1 TTTA
288520 GATAATAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
11 8 0.24
12 26 0.76
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.75
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:289664 original size:14 final size:14
Alignment explanation
Indices: 289647--289694 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
289637 TATCTATTAA
289647 TTAATATTAAATTT
1 TTAATATTAAATTT
289661 TTAA-A-TAAATTT
1 TTAATATTAAATTT
289673 ATATAATATTAAATTT
1 -T-TAATATTAAATTT
*
289689 ATAATA
1 TTAATA
289695 ATAGTAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
12 7 0.24
13 2 0.07
14 12 0.41
15 1 0.03
16 7 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAATATTAAATTT
Found at i:289697 original size:17 final size:16
Alignment explanation
Indices: 289648--289697 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
289638 ATCTATTAAT
289648 TAATATTAAATTT-T-
1 TAATATTAAATTTATA
289662 TAA-A-TAAATTTATA
1 TAATATTAAATTTATA
289676 TAATATTAAATTTATAA
1 TAATATTAAATTTAT-A
289693 TAATA
1 TAATA
289698 GTAATTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 7 0.23
13 2 0.06
14 6 0.19
15 1 0.03
16 9 0.29
17 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATATTAAATTTATA
Found at i:289703 original size:16 final size:16
Alignment explanation
Indices: 289666--289701 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
289656 AATTTTTAAA
*
289666 TAAATTTATATAATAT
1 TAAATTTATATAATAG
289682 TAAATTTATAATAATAG
1 TAAATTTAT-ATAATAG
289699 TAA
1 TAA
289702 TTAATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TAAATTTATATAATAG
Found at i:289751 original size:16 final size:17
Alignment explanation
Indices: 289730--289764 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
289720 ATATATATTT
289730 TAATTATAAATA-ATTA
1 TAATTATAAATAGATTA
*
289746 TAATTATTAATAGATTA
1 TAATTATAAATAGATTA
289763 TA
1 TA
289765 TAATTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TAATTATAAATAGATTA
Found at i:290654 original size:16 final size:17
Alignment explanation
Indices: 290624--290656 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
290614 CCAAAATTTA
*
290624 TTTTTTTAATTTTTAAT
1 TTTTTTTAATATTTAAT
290641 TTTTTTTAA-ATTTAAT
1 TTTTTTTAATATTTAAT
290657 CATGTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTTTAATATTTAAT
Found at i:290871 original size:15 final size:15
Alignment explanation
Indices: 290853--290903 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
290843 ATGAATATAA
290853 AATTATAATTATACT
1 AATTATAATTATACT
*
290868 AATTATATAATATACT
1 AATTATA-ATTATACT
*
290884 AATATTTAATTATTACT
1 AAT-TATAATTA-TACT
290901 AAT
1 AAT
290904 ATATTATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 7 0.23
16 13 0.43
17 10 0.33
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTATAATTATACT
Found at i:290876 original size:17 final size:16
Alignment explanation
Indices: 290856--290912 Score: 71
Period size: 17 Copynumber: 3.5 Consensus size: 16
290846 AATATAAAAT
290856 TATAATTATACTAATTA
1 TATAATTATACTAA-TA
290873 TATAA-TATACTAATA
1 TATAATTATACTAATA
*
290888 TTTAATTATTACTAATA
1 TATAATTA-TACTAATA
*
290905 TATTATTA
1 TATAATTA
290913 ATAAATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.17
16 10 0.29
17 19 0.54
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (16 bp):
TATAATTATACTAATA
Found at i:290895 original size:32 final size:32
Alignment explanation
Indices: 290849--290929 Score: 87
Period size: 32 Copynumber: 2.5 Consensus size: 32
290839 ATTAATGAAT
290849 ATAAA-ATTATAATTA-TACTAATTATATAATATA
1 ATAAATATT-TAATTATTACTAA-TATATAAT-TA
* *
290882 CT-AATATTTAATTATTACTAATATATTATTA
1 ATAAATATTTAATTATTACTAATATATAATTA
*
290913 ATAAATATTTAAATATT
1 ATAAATATTTAATTATT
290930 GTTATTATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
31 3 0.07
32 28 0.68
33 10 0.24
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (32 bp):
ATAAATATTTAATTATTACTAATATATAATTA
Found at i:291182 original size:23 final size:22
Alignment explanation
Indices: 291118--291185 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 22
291108 AAAATATTTA
* *
291118 ATTAGTATTAT-ATTAATTTAT
1 ATTAATATTATAATTAATTAAT
* * *
291139 ATTATTGTAATAA-TAATTAAT
1 ATTAATATTATAATTAATTAAT
291160 ATTAAATATTATAATTAATTAAT
1 ATT-AATATTATAATTAATTAAT
291183 ATT
1 ATT
291186 TTAATATAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 18 0.49
22 8 0.22
23 11 0.30
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (22 bp):
ATTAATATTATAATTAATTAAT
Found at i:291201 original size:18 final size:16
Alignment explanation
Indices: 291164--291209 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
291154 ATTAATATTA
*
291164 AATATTATAATTAATT
1 AATATTTTAATTAATT
291180 AATATTTTAATATAATTT
1 AATATTTTAAT-TAA-TT
*
291198 AATAATTTAATT
1 AATATTTTAATT
291210 TAGTAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 10 0.38
17 4 0.15
18 12 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATATTTTAATTAATT
Found at i:291253 original size:21 final size:21
Alignment explanation
Indices: 291216--291276 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
291206 AATTTAGTAA
* *
291216 ATATAATA-ATTATTTATTTAT
1 ATATAATATA-TAATTATATAT
291237 ATATAATATATAATTATATAT
1 ATATAATATATAATTATATAT
* *
291258 ATAGATTATATATATTATA
1 ATATAATATATA-ATTATA
291277 GTAAATAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 27 0.79
22 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATAATATATAATTATATAT
Found at i:291265 original size:13 final size:12
Alignment explanation
Indices: 291216--291272 Score: 55
Period size: 13 Copynumber: 4.7 Consensus size: 12
291206 AATTTAGTAA
291216 ATATA-ATAATT
1 ATATATATAATT
* *
291227 ATTTAT-TTATAT
1 ATATATATAAT-T
291239 ATAATATATAATT
1 AT-ATATATAATT
291252 ATATATATAGATT
1 ATATATATA-ATT
291265 ATATATAT
1 ATATATAT
291273 TATAGTAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 7 0.19
12 10 0.27
13 17 0.46
14 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (12 bp):
ATATATATAATT
Found at i:291541 original size:7 final size:6
Alignment explanation
Indices: 291535--291715 Score: 54
Period size: 6 Copynumber: 28.7 Consensus size: 6
291525 TTATAGTAAT
* * * *
291535 TTATAA TTATATA TTATAA -TATCAA TTATAA TTTATAAA TAATAT TTGTTA
1 TTATAA TTATA-A TTATAA TTAT-AA TTATAA -TTAT-AA TTATAA TTATAA
* * *
291586 TTAATTAA TAAT-A TTATAA TTATAT TTATATTA TTAATAA TTATAG TTAATATA
1 TT-A-TAA TTATAA TTATAA TTATAA TTATA--A TT-ATAA TTATAA TT-ATA-A
* *
291640 TTATTTGAA TATTTAA TT-TAA -TATAA TT-T-A TAATAA TTATAA -TAT-A
1 TTA--T-AA T-TATAA TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA
* *
291686 TAATAA TTATTAA TATATAA TTATAT TTAT
1 TTATAA TTA-TAA T-TATAA TTATAA TTAT
291716 TTTTTAATTT
Statistics
Matches: 130, Mismatches: 20, Indels: 50
0.65 0.10 0.25
Matches are distributed among these distances:
4 4 0.03
5 20 0.15
6 51 0.39
7 35 0.27
8 12 0.09
9 6 0.05
10 2 0.02
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.52
Consensus pattern (6 bp):
TTATAA
Found at i:291645 original size:33 final size:33
Alignment explanation
Indices: 291536--291724 Score: 87
Period size: 31 Copynumber: 5.8 Consensus size: 33
291526 TATAGTAATT
* * *
291536 TATAATTATATATTATAATATCAATT-ATAAT-T
1 TATAATTATAT-TTATATTATTAATTAATAATAG
* * *
291568 TATAAATA-ATATT-TGTTATTAATTAATAATAT
1 TATAATTATAT-TTATATTATTAATTAATAATAG
*
291600 TATAATTATATTTATATTATTAA-TAATTATAG
1 TATAATTATATTTATATTATTAATTAATAATAG
*
291632 T-TAATATATTATTTGAATATTTAATTTAATATAAT-TTA-
1 TATAAT-TA-TATTT--ATA-TT-A-TTAAT-TAATAATAG
* * *
291670 TAATAATTATA-ATATA-TAATAATTATTAATA-
1 T-ATAATTATATTTATATTATTAATTAATAATAG
*
291701 TATAATTATATTTAT-TTTTTAATT
1 TATAATTATATTTATATTATTAATT
291725 TTTTTACTCA
Statistics
Matches: 123, Mismatches: 16, Indels: 37
0.70 0.09 0.21
Matches are distributed among these distances:
30 20 0.16
31 30 0.24
32 28 0.23
33 16 0.13
35 6 0.05
36 2 0.02
37 2 0.02
38 7 0.06
39 4 0.03
40 8 0.07
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.53
Consensus pattern (33 bp):
TATAATTATATTTATATTATTAATTAATAATAG
Found at i:291682 original size:16 final size:16
Alignment explanation
Indices: 291661--291706 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
291651 TTTAATTTAA
*
291661 TATAATTTATAATAAT
1 TATAATATATAATAAT
291677 TATAATATATAATAAT
1 TATAATATATAATAAT
291693 TATTAATATATAAT
1 TA-TAATATATAAT
291707 TATATTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 17 0.61
17 11 0.39
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATAATATATAATAAT
Found at i:292321 original size:21 final size:23
Alignment explanation
Indices: 292296--292349 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
292286 ATAATTATAA
*
292296 ATAATTATTAAAT-TTATATTAT
1 ATAATTATTAAATAATATATTAT
292318 -TAATTATT-AATAATATATTAT
1 ATAATTATTAAATAATATATTAT
*
292339 ATACTTATTAA
1 ATAATTATTAA
292350 TATTATTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 3 0.11
21 16 0.59
22 7 0.26
23 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
ATAATTATTAAATAATATATTAT
Found at i:292338 original size:35 final size:31
Alignment explanation
Indices: 292250--292338 Score: 88
Period size: 32 Copynumber: 2.7 Consensus size: 31
292240 AATTCAAAAA
*
292250 AGTAATTATTATAAGATATTAGTAATTAATTT
1 AGTAATTATTATAA-ATATTATTAATTAATTT
* *
292282 AGTAATAATTATAAATAATTATTAAATTTATATT
1 AGTAATTATTATAAAT-ATTATT-AATTAAT-TT
*
292316 ATTAATTATTAATAATATATTAT
1 AGTAATTATT-ATAA-ATATTAT
292339 ATACTTATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
31 2 0.04
32 18 0.38
33 6 0.13
34 10 0.21
35 9 0.19
36 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.48
Consensus pattern (31 bp):
AGTAATTATTATAAATATTATTAATTAATTT
Found at i:293799 original size:12 final size:12
Alignment explanation
Indices: 293770--293811 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
293760 CTGAAATTGG
*
293770 TAATA-AATAGT
1 TAATATAATAAT
*
293781 TATTATAATAAT
1 TAATATAATAAT
293793 TAATATAATAAT
1 TAATATAATAAT
293805 GTAATAT
1 -TAATAT
293812 TATTTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 4 0.15
12 16 0.62
13 6 0.23
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (12 bp):
TAATATAATAAT
Found at i:293980 original size:13 final size:13
Alignment explanation
Indices: 293959--294000 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
293949 TCATAAAACA
*
293959 AATATTTATAATT
1 AATAATTATAATT
293972 AATAATTATAATT
1 AATAATTATAATT
* *
293985 AATTATTTTAATT
1 AATAATTATAATT
293998 AAT
1 AAT
294001 TTTCAAGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATAATTATAATT
Found at i:294396 original size:27 final size:27
Alignment explanation
Indices: 294366--294431 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 27
294356 AACAATTAAA
*
294366 TTTATATATAATTATCTGAA-TATTGAT
1 TTTATAT-TAATTATCTAAATTATTGAT
* *
294393 TTTA-ATTTAAATATTTAAATTATTGAT
1 TTTATA-TTAATTATCTAAATTATTGAT
294420 TTT-TATTAATTA
1 TTTATATTAATTA
294432 ATAGATATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
26 16 0.50
27 16 0.50
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (27 bp):
TTTATATTAATTATCTAAATTATTGAT
Found at i:295712 original size:181 final size:180
Alignment explanation
Indices: 295114--295727 Score: 609
Period size: 181 Copynumber: 3.4 Consensus size: 180
295104 TAATATGTAA
* **
295114 GAAATATTAATAAATTAATATTATTTTATTTCG-AATAAGCTTGTATGAATAGAAATAATTGGTT
1 GAAATATTAATAAATTAATATTATTTTA-TTCGAAATAAGCTTGTATGAATAGAAACAATTATTT
* * * * *
295178 TATGACAAAATAAATTGTCATAATGATTTGTAATAAATAATTGTTCAAATAGTCATAACTA-TTG
65 TATGACAAAATAAATGGTCATAATTATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTG
* ** * * * *
295242 AA-TGTGTTCAAAAAATATATTTATTTTTAAAATTTTTATTTATTAATTTTT
130 AACT-TGTTTAGTAAACATATTTATTTTTTAAATCTTTACTTATTAATTTTT
* * * ** * *
295293 GGAGTTTTAATAAATTTCTATTATTTTATTCGAAATAAGCTTGCATGAA-AAAAACTAATTATTT
1 GAAATATTAATAAATTAATATTATTTTATTCGAAATAAGCTTGTATGAATAGAAAC-AATTATTT
* * * * *
295357 TATGACAAAACAAATGGTAATAATGT-TTTGAAATAGATAATTATTTAGATAGTCATAATTATTT
65 TATGACAAAATAAATGGTCATAAT-TATTTGAAATAGATAATTATTCAAATAGTCATAACTATTT
* * * *
295421 GAACTTGTTT-GATAAACAGATTCATTTTTTTAATTCTCTTACTCATTAATTTTT
129 GAACTTGTTTAG-TAAACATATTTA-TTTTTTAAATCT-TTACTTATTAATTTTT
** ** * * * *
295475 GGTATATTAATAAATTAGA-GCTATTTTATTTGAAATAAGCTTATGTTAAT-GAAACAATTATTT
1 GAAATATTAATAAATTA-ATATTATTTTATTCGAAATAAGCTTGTATGAATAGAAACAATTATTT
* * ** *
295538 TATTACAAAATAGAA-GGTCACAATTATTTGAAATAGATAATTATTCAAATAGTTTTGACTATTT
65 TATGACAAAATA-AATGGTCATAATTATTTGAAATAGATAATTATTCAAATAGTCATAACTATTT
* *
295602 GAACTTGTTTAGTAAACATATTTATTTTTTAAATCTTTCACTTATTAATTGTC
129 GAACTTGTTTAGTAAACATATTTATTTTTTAAATCTTT-ACTTATTAATTTTT
* * *
295655 AAAATATTAATAAATTAATATTATTTTAATCCG-AATAAGCTTGTATGAATAGAAACAATTGTTT
1 GAAATATTAATAAATTAATATTATTTT-ATTCGAAATAAGCTTGTATGAATAGAAACAATTATTT
*
295719 TATTACAAA
65 TATGACAAA
295728 GCAAAAAGTC
Statistics
Matches: 347, Mismatches: 71, Indels: 32
0.77 0.16 0.07
Matches are distributed among these distances:
178 8 0.02
179 97 0.28
180 74 0.21
181 111 0.32
182 57 0.16
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (180 bp):
GAAATATTAATAAATTAATATTATTTTATTCGAAATAAGCTTGTATGAATAGAAACAATTATTTT
ATGACAAAATAAATGGTCATAATTATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGA
ACTTGTTTAGTAAACATATTTATTTTTTAAATCTTTACTTATTAATTTTT
Found at i:296064 original size:181 final size:179
Alignment explanation
Indices: 295763--296403 Score: 642
Period size: 181 Copynumber: 3.5 Consensus size: 179
295753 ACAAAACTAT
* * * * *
295763 TTCAGATAATTATGATTATTTGAATAATTATCTATTTCAAATTGTTATGACTTTTTGTTTTGTCA
1 TTCAAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCA
* * * * * * * *
295828 TAAAACAAATGTTTTTGTTCATATAAGCTTGTTTGGAATAAAATAATATTAATTTATTAATATTT
66 TAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAAT-AAATAATACTAATTTATTAATATTT
* * * *
295893 CAAAAATTAATATGTTAGAGATTTAAAAAATAAATCTGTTTGCCATACCAG
130 CAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCT-TTTGCCATACAAG
* * * * * ** * *
295944 TTCAATTAGTTATAACTATTTGACCAAATATTTATTTCAAATAATTATGACCATTTGTTTTATCA
1 TTCAAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCA
* * *
296009 TAAAACAATTGTTTCTATTCATATAATCTTATTCGAAATAAAGTAATGCTAATTTATTAATATTT
66 TAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAA-TAATACTAATTTATTAATATTT
** * * * * **
296074 TGAAAATTAATAAGTAATG-GATTTAGAAAATGTATCTTTTGGCTTGAGTAG
130 CAAAAATTAATAAGTAA-GAGATTTAAAAAATGAATCTTTTGCCAT-ACAAG
* * * * * *
296125 TGCAAACAATTATGACTATTTGAACAATTATTTATTTCAAATCGTTATGACTTTTTGTTTTCTTA
1 TTCAAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCA
* * * *
296190 CAAAACAATTGTTTTTGTTCATACAAGCTTATTC-AGAATAACATAATTCTAATTTATTAATATT
66 TAAAACAATTGTTTCTATTCATACAAGCTTATTCGA-AATAA-ATAATACTAATTTATTAATATT
* * * *
296254 CCAAAAATTAATAAGTGAGATATTTAAAAAATGAATCTATTTACCCA-ACAAG
129 TCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCT-TTT-GCCATACAAG
* * * * *
296306 TTCAAATAATTATGGCTATTTGAACAATTATCTAGTTT-AAATTGCTATAACCTTTTGTATTGTC
1 TTCAAATAATTATGACTATTTGAACAATTATTTA-TTTCAAATTGTTATGACCTTTTGTTTTGTC
* *
296370 ATAAAATAATTTTTTCTATTCATACAAGCTTATT
65 ATAAAACAATTGTTTCTATTCATACAAGCTTATT
296404 TCAAATCTGT
Statistics
Matches: 370, Mismatches: 81, Indels: 18
0.79 0.17 0.04
Matches are distributed among these distances:
180 11 0.03
181 350 0.95
182 8 0.02
183 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (179 bp):
TTCAAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCA
TAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAATAATACTAATTTATTAATATTTC
AAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTTTTGCCATACAAG
Found at i:296689 original size:300 final size:301
Alignment explanation
Indices: 296134--296709 Score: 791
Period size: 300 Copynumber: 1.9 Consensus size: 301
296124 GTGCAAACAA
* * * * **
296134 TTATGACTATTTGAACAATTATTTATTTCAAATCGTTATGACTTTTTGTTTTCTTACAAAACAAT
1 TTATAACTATTGGAACAATTATTTATTTCAAATCGTTATGACCTTTTGATTTCCCACAAAACAAT
* * *** * * *
296199 TGTTTTTGTTCATACAAGCTTATTCAGAATAACATAATTCTAATTTATTAATATTCCAAAAATTA
66 TATATCAATTCATACAAGCTTATTCAGAATAAAATAATACTAACTTATTAATATTCCAAAAATTA
** * * * * *
296264 ATAAGTGAGATATTTAAAAAATGAATCTATTTACCCAACAAGTTCAAATAATTATGGCTATTTGA
131 ATAAGCAAGAGATCTAAAAAATGAATCTATTTAACAAACAAGTTCAAATAATTATGACTATTTGA
* * *
296329 ACAATTATCTAGTTTAAATTGCTATAACCTTTTGTATTGTCATAAAATAATTTTTTCTATTCATA
196 ACAATTATCTAGTTTAAATTGCTATAACCTTTTGTATTGCCATAAAACAATTGTTTCTATTCATA
296394 CAAGCTTATTTCAAATCTGTTTACCGAATAATTTTGAATAG
261 CAAGCTTATTTCAAATCTGTTTACCGAATAATTTTGAATAG
*
296435 TTATAACTATTGGAACAATTATTTATTTCAAATCGTTATGACCTTTT-ATTTCACCATAAAACAA
1 TTATAACTATTGGAACAATTATTTATTTCAAATCGTTATGACCTTTTGATTTC-CCACAAAACAA
* * *
296499 TTATATCAATTCATATAGGCTTATTC-GAAATAAAATAATACTAACTTATTACTATTCCAAAAAT
65 TTATATCAATTCATACAAGCTTATTCAG-AATAAAATAATACTAACTTATTAATATTCCAAAAAT
* * *
296563 TAATGAGCAAGAGATCT-AAAAATGAATTTATTTAACAAACAAGTTCAAATAGTTATGACTATTT
129 TAATAAGCAAGAGATCTAAAAAATGAATCTATTTAACAAACAAGTTCAAATAATTATGACTATTT
* * *
296627 GAACAATTATCTA-TTTCAAATTGTTATGACCTTTTGTTTTGCCATAAAACAATTGTTTCTATTC
194 GAACAATTATCTAGTTT-AAATTGCTATAACCTTTTGTATTGCCATAAAACAATTGTTTCTATTC
296691 ATACAAGCTTATTTCAAAT
258 ATACAAGCTTATTTCAAAT
296710 AAAATAATAT
Statistics
Matches: 238, Mismatches: 34, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
299 3 0.01
300 120 0.50
301 115 0.48
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (301 bp):
TTATAACTATTGGAACAATTATTTATTTCAAATCGTTATGACCTTTTGATTTCCCACAAAACAAT
TATATCAATTCATACAAGCTTATTCAGAATAAAATAATACTAACTTATTAATATTCCAAAAATTA
ATAAGCAAGAGATCTAAAAAATGAATCTATTTAACAAACAAGTTCAAATAATTATGACTATTTGA
ACAATTATCTAGTTTAAATTGCTATAACCTTTTGTATTGCCATAAAACAATTGTTTCTATTCATA
CAAGCTTATTTCAAATCTGTTTACCGAATAATTTTGAATAG
Found at i:296737 original size:180 final size:181
Alignment explanation
Indices: 296430--297712 Score: 1216
Period size: 180 Copynumber: 7.1 Consensus size: 181
296420 AATAATTTTG
* * * * ***
296430 AATAGTTATAACTATTGGAACAATTATTTATTTCAAATCGTTATGACCTTTTATTTCACCATAAA
1 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAA
* * * * * * *
296495 ACAATTATATCAATTCATATAGGCTTATTCGAAATAAAATAATACTAACTTATTACTATTCCAAA
66 ACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCCAAA
* * * * *
296560 AATTAATGAGCAAGAGATCT-AAAAATGAATTTATTTAACAAACAAGTTCA
131 AATTAATAAGCAAGAGATTTAAAAAATAAATTTATTTATCGAACAAGTTCA
* *
296610 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGCCATAAA
1 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAA
*
296675 ACAATTGTTTCTATTCATACAAGCTTATTTC-AAATAAAATAATA-TAAATTTACTAATATTCC-
66 ACAATTGTTTCTATTCATACAAGCTTA-TTCGAAATAAAATAATACT-AATTTATTAATATTCCA
* * * * * * * * *
296737 AAGATTAATAAGTAA-AAATATATAAAAAAAAAATTTGTTTTTTGAACACGTTTAA
129 AAAATTAATAAGCAAGAGAT-T-TAAAAAATAAATTTATTTATCGAACAAG-TTCA
* * * *
296792 AATAATTATGACCATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTTTCATAAA
1 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAA
* * * *
296857 CCAATTGTTTTTATTCATAAAAGCTTATTCGAAATAAAATAATACTAATTTATTAA-ATTTTCAA
66 ACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATA-TTCCAA
* * * * * ** *
296921 AAATTAATAAGTAAAATATTTAAAAAATAAATTTGTTTACCGAATGAGTTTA
130 AAATTAATAAGCAAGAGATTTAAAAAATAAATTTATTTATCGAACAAGTTCA
* * * *
296973 AATAGTTATGACTATTTAAATAATTATTTATTTCAAATCGTTATGATCC-TTTGTTTTGTAATAA
1 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGA-CCTTTTGTTTTGTCATAA
** * ***
297037 AACAATTGTTTCTATTCATACAAAATTATTCAAAATAAAATAATACTAATTTATTAATATTTTGA
65 AACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCCAA
* * * * * *
297102 AAATTAAT----AAGAGATTTAAAAATTATATCTGTTTATCGGACAAATTCA
130 AAATTAATAAGCAAGAGATTTAAAAAATAAATTTATTTATCGAACAAGTTCA
* * * * * *
297150 AATAGTTACGATTATTTGAATAATTATCTATCTCAAATCGGTATG-CTTTTTGTTTTGTCATAAA
1 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAA
* * * * ** * *
297214 ACAATTGTTTCTATCCATACAAACTTATTC-AGAGTAAAATATTACTAAAGTAATAATATTCTAA
66 ACAATTGTTTCTATTCATACAAGCTTATTCGA-AATAAAATAATACTAATTTATTAATATTCCAA
* * * *
297278 AAATTAATAAGTAAGAGATTTAAAAAATAAATGTATTTATTGAACCAGTTCA
130 AAATTAATAAGCAAGAGATTTAAAAAATAAATTTATTTATCGAACAAGTTCA
* * * *
297330 AATAGTTAAGACTATTAT-AATAATTATCTATTTCAAATCATTATGACCTTTTGTTTAGTCATAA
1 AATAGTTATGACTATT-TGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAA
* * * * * *
297394 AATAATTG-TTCAATTCATACATGTTTATTCGAAATAAAATAATACT-ATTTAATTAACATTCAA
65 AACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAATAATACTAATTT-ATTAATATTCCA
* * * * * *
297457 AAAATTAATAAGCAAG-GAATTAAAAAATAAATCTATTTACCAAATAAGTTTA
129 AAAATTAATAAGCAAGAGATTTAAAAAATAAATTTATTTATCGAACAAGTTCA
* *
297509 AATAGTTAT-ATCTA----AACAATTATC-ATTTTAAAATCGTTATGACCTTTTGTTTTATCATA
1 AATAGTTATGA-CTATTTGAACAATTATCTA-TTTCAAATCGTTATGACCTTTTGTTTTGTCATA
* * * * * *
297568 AAACAATTGTTTC-ATTTCATAAAAGCTTATCCAAAATAAAATAATATTACTTTATTAATATTTC
64 AAACAATTGTTTCTA-TTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCC
* ** * * *
297632 AAAAATTAAGAAG-TTGCAGATTTAAAATATAAA-TCATTTTATCGAATC-AGTTTA
128 AAAAATTAATAAGCAAG-AGATTTAAAAAATAAATTTA-TTTATCGAA-CAAGTTCA
* *
297686 AATAGTTATGGCCATTTGAACAATTAT
1 AATAGTTATGACTATTTGAACAATTAT
297713 ATATAAAACA
Statistics
Matches: 906, Mismatches: 160, Indels: 73
0.80 0.14 0.06
Matches are distributed among these distances:
174 1 0.00
175 50 0.06
176 127 0.14
177 108 0.12
178 4 0.00
179 54 0.06
180 230 0.25
181 178 0.20
182 135 0.15
183 16 0.02
184 3 0.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (181 bp):
AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAA
ACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCCAAA
AATTAATAAGCAAGAGATTTAAAAAATAAATTTATTTATCGAACAAGTTCA
Found at i:296843 original size:482 final size:482
Alignment explanation
Indices: 295950--296885 Score: 1098
Period size: 482 Copynumber: 1.9 Consensus size: 482
295940 CCAGTTCAAT
* * * * *
295950 TAGTTATAACTATTTGACCAAATATTTATTTCAAATAATTATGACCATTTGTTTTATCATAAAAC
1 TAGTTATAACTATTGGAACAAATATTTATTTCAAATAATTATGACCATTTATTTCACCATAAAAC
* * * * * * * ***
296015 AATTGTTTCTATTCATATAATCTTATTCGAAATAAAGTAATGCTAATTTATTAATATTTTGAAAA
66 AATTATATCAATTCATATAAGCTTATTCGAAATAAAATAATACTAACTTATTAATATTCCAAAAA
* * * ** ** **
296080 TTAATAAGTAATGGATTTAGAAAATGTATCTTTTGGCTTGAGTAGTGCAAACAATTATGACTATT
131 TTAATAAGCAATGGATCTAGAAAATGAATCTTTTAACTAAACAAGTGCAAACAATTATGACTATT
* * * * *
296145 TGAACAATTATTTATTTCAAATCGTTATGACTTTTTGTTTTCTTACAAAACAATTGTTTTTGTTC
196 TGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTCTCACAAAACAATTGTTTCTATTC
* * * * *
296210 ATACAAGCTTATTCAGAATAACATAATTCTAATTTATTAATATTCCAAAAATTAATAAGTGAGAT
261 ATACAAGCTTATTCAGAATAAAATAATTCAAATTTACTAATATTCCAAAAATTAATAAGTAAAAT
* ** * * *
296275 ATTTAAAAAATGAATCTATTTACCCAACAAGTTCAAATAATTATGGCTATTTGAACAATTATCTA
326 ATATAAAAAAAAAATCTATTTACCCAACAAGTTAAAATAATTATGACCATTTGAACAATTATCTA
** * *
296340 GTTTAAATTGCTATAACCTTTTGTATTGTCATAAAATAATT-TTTTCTATTCATACAAGCTTATT
391 GTTTAAATCACTATAACCTTTTGTATTGTCATAAAACAATTGTTTT-TATTCATAAAAGCTTATT
296404 TCAAATCTGTTTACCGAATAATTTTGAA
455 TCAAATCTGTTTACCGAATAATTTTGAA
* ** *
296432 TAGTTATAACTATTGGAACAATTATTTATTTCAAATCGTTATGACCTTTTATTTCACCATAAAAC
1 TAGTTATAACTATTGGAACAAATATTTATTTCAAATAATTATGACCATTTATTTCACCATAAAAC
* *
296497 AATTATATCAATTCATATAGGCTTATTCGAAATAAAATAATACTAACTTATTACTATTCCAAAAA
66 AATTATATCAATTCATATAAGCTTATTCGAAATAAAATAATACTAACTTATTAATATTCCAAAAA
* * * * *
296562 TTAATGAGCAA-GAGATCTA-AAAATGAATTTATTTAAC-AAACAAGTTCAAATAGTTATGACTA
131 TTAATAAGCAATG-GATCTAGAAAATGAATCT-TTTAACTAAACAAGTGCAAACAATTATGACTA
* *
296624 TTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGC-CATAAAACAATTGTTTCTA
194 TTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTT-CTCACAAAACAATTGTTTCTA
*
296688 TTCATACAAGCTTATTTCA-AATAAAATAATAT-AAATTTACTAATATTCC-AAGATTAATAAGT
258 TTCATACAAGCTTA-TTCAGAATAAAATAAT-TCAAATTTACTAATATTCCAAAAATTAATAAGT
* * **** *
296750 AAAAATATATAAAAAAAAAATTTGTTTTTTGAACACGTTTAAAATAATTATGACCATTTGAACAA
321 -AAAATATATAAAAAAAAAATCTATTTACCCAACAAG-TTAAAATAATTATGACCATTTGAACAA
* * * * *
296815 TTATCTA-TTTCAAATCATTATGACCTTTTGTTTTTTCATAAACCAATTGTTTTTATTCATAAAA
384 TTATCTAGTTT-AAATCACTATAACCTTTTGTATTGTCATAAAACAATTGTTTTTATTCATAAAA
296879 GCTTATT
448 GCTTATT
296886 CGAAATAAAA
Statistics
Matches: 375, Mismatches: 70, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
480 12 0.03
481 149 0.40
482 210 0.56
483 4 0.01
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (482 bp):
TAGTTATAACTATTGGAACAAATATTTATTTCAAATAATTATGACCATTTATTTCACCATAAAAC
AATTATATCAATTCATATAAGCTTATTCGAAATAAAATAATACTAACTTATTAATATTCCAAAAA
TTAATAAGCAATGGATCTAGAAAATGAATCTTTTAACTAAACAAGTGCAAACAATTATGACTATT
TGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTCTCACAAAACAATTGTTTCTATTC
ATACAAGCTTATTCAGAATAAAATAATTCAAATTTACTAATATTCCAAAAATTAATAAGTAAAAT
ATATAAAAAAAAAATCTATTTACCCAACAAGTTAAAATAATTATGACCATTTGAACAATTATCTA
GTTTAAATCACTATAACCTTTTGTATTGTCATAAAACAATTGTTTTTATTCATAAAAGCTTATTT
CAAATCTGTTTACCGAATAATTTTGAA
Found at i:297051 original size:663 final size:663
Alignment explanation
Indices: 295845--297059 Score: 1495
Period size: 663 Copynumber: 1.8 Consensus size: 663
295835 AATGTTTTTG
* * * * * * **
295845 TTCATATAAGCTTGTTTGGAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATATGTTA
1 TTCATATAAGCTTATTCGAAATAAAATAATACTAACTTATTAATATTCCAAAAATTAATATGCAA
* * ** * * * *
295910 GAGATTTAAAAAATAAATCTGTTTGCCATACCAGTTCAATTAGTTATAACTATTTGACCAAATAT
66 GAGATCTAAAAAATAAATCTATTTAACAAACAAGTTCAAATAGTTATAACTATTTGAACAAATAT
* * * *
295975 TTATTTCAAATAATTATGACCATTTGTTTTATCATAAAACAATTGTTTCTATTCATATAATCTTA
131 CTATTTCAAATAATTATGACCATTTGTTTTACCATAAAACAATTGTTTCTATTCATACAAGCTTA
* * * ** ** * *
296040 TTCGAAATAAAGTAATGCTAATTTATTAATATTTTGAAAATTAATAAGTAATGGATTTAGAAAAT
196 TTCGAAATAAAATAATGATAATTTACTAATATTTCCAAAATTAATAAGTAATAAATTTAAAAAAA
** ** * * * *
296105 GTATCTTTTGGCTTGAGTAGTGCAAACAATTATGACTATTTGAACAATTATTTATTTCAAATCGT
261 AAATCTTTTGGCTTGAACAGTGAAAACAATTATGACCATTTGAACAATTATCTATTTCAAATCAT
* * * *
296170 TATGACTTTTTGTTTTCTTACAAAACAATTGTTTTTGTTCATACAAGCTTATTCAGAATAACATA
326 TATGACCTTTTGTTTTCTTACAAAACAATTGTTTTTATTCATAAAAGCTTATTCAGAATAAAATA
* * * *
296235 ATTCTAATTTATTAATATTCCAAAAATTAATAAGTGAGATATTTAAAAAATGAATCTATTTACCC
391 ATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAATATTTAAAAAATAAATCTATTTACCC
* * *
296300 AACAAGTTCAAATAATTATGGCTATTTGAACAATTATCTAGTTTAAATTGCTATAACCTTTTGTA
456 AACAAGTTCAAATAATTATGACTATTTAAACAATTATCTAGTTTAAATCGCTATAACCTTTTGTA
* * *
296365 TTGTCATAAAATAATTTTTTCTATTCATACAAGCTTATTTCAAATCTGTTTACCGAATAATTTTG
521 TTGTAATAAAACAATTGTTTCTATTCATACAAGCTTATTTCAAATCTGTTTACCGAATAATTTTG
296430 AATAGTTATAACTATTGGAACAATTATTTATTTCAAATCGTTATGACCTTTTATTTCACCATAAA
586 AATAGTTATAACTATTGGAACAATTATTTATTTCAAATCGTTATGACCTTTTATTTCACCATAAA
296495 ACAATTATATCAA
651 ACAATTATATCAA
* *
296508 TTCATATAGGCTTATTCGAAATAAAATAATACTAACTTATTACTATTCCAAAAATTAATGA-GCA
1 TTCATATAAGCTTATTCGAAATAAAATAATACTAACTTATTAATATTCCAAAAATTAAT-ATGCA
* * * *
296572 AGAGATCT-AAAAATGAATTTATTTAACAAACAAGTTCAAATAGTTATGACTATTTGAACAATTA
65 AGAGATCTAAAAAATAAATCTATTTAACAAACAAGTTCAAATAGTTATAACTATTTGAACAAATA
** * *
296636 TCTATTTCAAATTGTTATGACCTTTTGTTTTGCCATAAAACAATTGTTTCTATTCATACAAGCTT
130 TCTATTTCAAATAATTATGACCATTTGTTTTACCATAAAACAATTGTTTCTATTCATACAAGCTT
*
296701 ATTTC-AAATAAAATAAT-ATAAATTTACTAATA-TTCCAAGATTAATAAGTAA-AAATATATAA
195 A-TTCGAAATAAAATAATGAT-AATTTACTAATATTTCCAAAATTAATAAGTAATAAAT-T-TAA
** * *
296762 AAAAAAAAT-TTGTT-TTTTGAACACGTTTAAAATAATTATGACCATTTGAACAATTATCTATTT
256 AAAAAAAATCTT-TTGGCTTGAACA-G-TGAAAACAATTATGACCATTTGAACAATTATCTATTT
296825 CAAATCATTATGACCTTTTGTTTT-TT-CATAAACCAATTGTTTTTATTCATAAAAGCTTATTC-
318 CAAATCATTATGACCTTTTGTTTTCTTACA-AAA-CAATTGTTTTTATTCATAAAAGCTTATTCA
*
296887 GAAATAAAATAATACTAATTTATTAA-ATTTTCAAAAATTAATAAGTAAAATATTTAAAAAATAA
381 G-AATAAAATAATACTAATTTATTAATA-TTCCAAAAATTAATAAGTAAAATATTTAAAAAATAA
* * * ** * * * * *
296951 ATTTGTTTACCGAATGAGTTTAAATAGTTATGACTATTTAAATAATTATTTA-TTTCAAATCGTT
444 ATCTATTTACCCAACAAGTTCAAATAATTATGACTATTTAAACAATTATCTAGTTT-AAATCGCT
* *
297015 ATGATCC-TTTGTTTTGTAATAAAACAATTGTTTCTATTCATACAA
508 AT-AACCTTTTGTATTGTAATAAAACAATTGTTTCTATTCATACAA
297060 AATTATTCAA
Statistics
Matches: 459, Mismatches: 79, Indels: 28
0.81 0.14 0.05
Matches are distributed among these distances:
660 2 0.00
661 27 0.06
662 146 0.32
663 280 0.61
664 4 0.01
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (663 bp):
TTCATATAAGCTTATTCGAAATAAAATAATACTAACTTATTAATATTCCAAAAATTAATATGCAA
GAGATCTAAAAAATAAATCTATTTAACAAACAAGTTCAAATAGTTATAACTATTTGAACAAATAT
CTATTTCAAATAATTATGACCATTTGTTTTACCATAAAACAATTGTTTCTATTCATACAAGCTTA
TTCGAAATAAAATAATGATAATTTACTAATATTTCCAAAATTAATAAGTAATAAATTTAAAAAAA
AAATCTTTTGGCTTGAACAGTGAAAACAATTATGACCATTTGAACAATTATCTATTTCAAATCAT
TATGACCTTTTGTTTTCTTACAAAACAATTGTTTTTATTCATAAAAGCTTATTCAGAATAAAATA
ATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAATATTTAAAAAATAAATCTATTTACCC
AACAAGTTCAAATAATTATGACTATTTAAACAATTATCTAGTTTAAATCGCTATAACCTTTTGTA
TTGTAATAAAACAATTGTTTCTATTCATACAAGCTTATTTCAAATCTGTTTACCGAATAATTTTG
AATAGTTATAACTATTGGAACAATTATTTATTTCAAATCGTTATGACCTTTTATTTCACCATAAA
ACAATTATATCAA
Found at i:297277 original size:16 final size:16
Alignment explanation
Indices: 297246--297278 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
297236 ACTTATTCAG
297246 AGTAAAATATTACTAA
1 AGTAAAATATTACTAA
297262 AGTAATAATATT-CTAA
1 AGTAA-AATATTACTAA
297278 A
1 A
297279 AATTAATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (16 bp):
AGTAAAATATTACTAA
Found at i:297354 original size:357 final size:361
Alignment explanation
Indices: 296447--297695 Score: 1057
Period size: 356 Copynumber: 3.5 Consensus size: 361
296437 ATAACTATTG
* * * *** * * * *
296447 GAACAATTATTTATTTCAAATC-GTTATGACCTTTTATTTCACCATAAAACAATTATATCAATTC
1 GAACAATTATCTATCTCAAATCAG-TATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATCC
* * ** * * * * *
296511 ATATAGGCTTATTCGAAATAAAATAATACTAACTTATTACTATTCCAAAAATTAATGAGCAAGAG
65 ATAAAAGCTTATTCGAAATAAAATAATACTAAAGTAATAATATTCTAAAAATTAATAAGTAAGAG
* * * * *
296576 ATCT-AAAAATGAATTTATTTAACAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTA
130 ATTTAAAAAATAAATTTATTTAACGAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTA
* * *
296640 TTTCAAATTGTTATGACCTTTTGTTTTGCCATAAAACAATTGTTTCTATTCATACAAGCTTATTT
195 TTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGATTA-TT
* ** *
296705 CAAATAAAATAATA-TAAATTTACTAATA-TTCCAAGATTAATAAGTAAAAATATATAAAAAAAA
259 CAAATAAAATAATACT-AATTTATTAATATTTAAAAAATTAATAAG--AAAATATATAAAAAAAA
* * * ** *
296768 AATTTGTTTTTTGAACACGTTTAAAATAATTATGACCATTT
321 AATCTGTTTATCGAACACAATTAAAATAATTACGACCATTT
* * * * * *
296809 GAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTTTCATAAACCAATTGTTTTTATTCA
1 GAACAATTATCTATCTCAAATCAGTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATCCA
** * * * *
296874 TAAAAGCTTATTCGAAATAAAATAATACTAATTTATTAA-ATTTTCAAAAATTAATAAGTAAAAT
66 TAAAAGCTTATTCGAAATAAAATAATACTAAAGTAATAATATTCT-AAAAATTAATAAGTAAGAG
* * ** * *
296938 ATTTAAAAAATAAATTTGTTTACCGAATGAGTTTAAATAGTTATGACTATTTAAATAATTATTTA
130 ATTTAAAAAATAAATTTATTTAACGAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTA
* *
297003 TTTCAAATCGTTATGATCC-TTTGTTTTGTAATAAAACAATTGTTTCTATTCATACAAAATTATT
195 TTTCAAATCGTTATGA-CCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGATTATT
** * ** *
297067 CAAAATAAAATAATACTAATTTATTAATATTTTGAAAATTAATAAG-AGAT-T-TAAAAATTATA
259 C-AAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGAAAATATATAAAAAAAAAA
* * * **
297129 TCTGTTTATCGGACA-AATTCAAATAGTTACGATTATTT
323 TCTGTTTATCGAACACAATTAAAATAATTACGACCATTT
* * *
297167 GAATAATTATCTATCTCAAATCGGTATG-CTTTTTGTTTTGTCATAAAACAATTGTTTCTATCCA
1 GAACAATTATCTATCTCAAATCAGTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATCCA
* *
297231 TACAAA-CTTATTC-AGAGTAAAATATTACTAAAGTAATAATATTCTAAAAATTAATAAGTAAGA
66 TA-AAAGCTTATTCGA-AATAAAATAATACTAAAGTAATAATATTCTAAAAATTAATAAGTAAGA
* ** * *
297294 GATTTAAAAAATAAATGTATTTATTGAACCAGTTCAAATAGTTAAGACTA-TTATAATAATTATC
129 GATTTAAAAAATAAATTTATTTAACGAACAAGTTCAAATAGTTATGACTATTTA-AATAATTATC
* * * * * *
297358 TATTTCAAATCATTATGACCTTTTGTTTAGTCATAAAATAATTG-TTCAATTCATACATGTTTAT
193 TATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGATTAT
* * *
297422 TCGAAATAAAATAATACT-ATTTAATTAACATTCAAAAAATTAATAAGCAAGGA-AT-TAAAAAA
258 TC-AAATAAAATAATACTAATTT-ATTAATATTTAAAAAATTAATAAG-AA-AATATATAAAAAA
* * * * * * * *
297484 TAAATCTATTTA-CCAA-ATAAGTTTAAATAGTT---A-TATCT
319 AAAATCTGTTTATCGAACACAA-TTAAAATAATTACGACCATTT
* * * *
297522 AAACAATTATC-ATTTTAAAATC-GTTATGACCTTTTGTTTTATCATAAAACAATTGTTTC-ATT
1 GAACAATTATCTA-TCTCAAATCAG-TATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA-T
* * * * *** * * *
297584 TCATAAAAGCTTATCCAAAATAAAATAATATTACTTTATTAATATT-TCAAAAATTAAGAAGT-T
63 CCATAAAAGCTTATTCGAAATAAAATAATACTAAAGTAATAATATTCT-AAAAATTAATAAGTAA
* * * *
297647 GCAGATTTAAAATATAAA-TCATTTTATCGAATC-AGTTTAAATAGTTATG
127 G-AGATTTAAAAAATAAATTTA-TTTAACGAA-CAAGTTCAAATAGTTATG
297696 GCCATTTGAA
Statistics
Matches: 733, Mismatches: 125, Indels: 64
0.80 0.14 0.07
Matches are distributed among these distances:
354 2 0.00
355 35 0.05
356 170 0.23
357 166 0.23
358 52 0.07
359 48 0.07
360 1 0.00
361 6 0.01
362 109 0.15
363 128 0.17
364 16 0.02
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.39
Consensus pattern (361 bp):
GAACAATTATCTATCTCAAATCAGTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATCCA
TAAAAGCTTATTCGAAATAAAATAATACTAAAGTAATAATATTCTAAAAATTAATAAGTAAGAGA
TTTAAAAAATAAATTTATTTAACGAACAAGTTCAAATAGTTATGACTATTTAAATAATTATCTAT
TTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGATTATTCA
AATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGAAAATATATAAAAAAAAAATCT
GTTTATCGAACACAATTAAAATAATTACGACCATTT
Found at i:298085 original size:12 final size:12
Alignment explanation
Indices: 298068--298104 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
298058 GTAAACAAAC
298068 TAATATATTAAT
1 TAATATATTAAT
*
298080 TAATATA-AAAT
1 TAATATATTAAT
298091 TAATATATTAAT
1 TAATATATTAAT
298103 TA
1 TA
298105 TTATTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TAATATATTAAT
Found at i:298228 original size:19 final size:18
Alignment explanation
Indices: 298204--298259 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
298194 AGTAACTGTT
298204 TTAATTTAATAATTATTAA
1 TTAATTT-ATAATTATTAA
*
298223 TTAA-TTAT-ATTATTCA
1 TTAATTTATAATTATTAA
*
298239 TATAAATTATAATTATTAA
1 T-TAATTTATAATTATTAA
298258 TT
1 TT
298260 TTATTTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
16 8 0.25
17 5 0.16
18 7 0.22
19 12 0.38
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATTTATAATTATTAA
Found at i:298263 original size:28 final size:28
Alignment explanation
Indices: 298212--298286 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 28
298202 TTTTAATTTA
298212 ATAATTATTAATTAATT-ATATTATTC-AT
1 ATAATTA-TAATT-ATTAATATTATTCAAT
* *
298240 ATAAATTATAATTATTAATTTTATTTAAT
1 AT-AATTATAATTATTAATATTATTCAAT
*
298269 ATAGTTATAATATATTAA
1 ATAATTATAAT-TATTAA
298287 AATAAATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 3 0.08
28 22 0.55
29 15 0.38
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (28 bp):
ATAATTATAATTATTAATATTATTCAAT
Found at i:298369 original size:13 final size:14
Alignment explanation
Indices: 298350--298388 Score: 62
Period size: 13 Copynumber: 2.8 Consensus size: 14
298340 ATATATTAGT
298350 TTTAATATTTAAAA
1 TTTAATATTTAAAA
298364 -TTAATATTTAAAA
1 TTTAATATTTAAAA
298377 TTTAAGTATTTA
1 TTTAA-TATTTA
298389 TATTATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 13 0.57
14 4 0.17
15 6 0.26
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (14 bp):
TTTAATATTTAAAA
Found at i:298400 original size:20 final size:22
Alignment explanation
Indices: 298377--298417 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
298367 ATATTTAAAA
298377 TTTAAGT-ATT-TATATTATAT
1 TTTAAGTAATTATATATTATAT
*
298397 TTTAATTAATTATATATTATA
1 TTTAAGTAATTATATATTATA
298418 ATTATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTAAGTAATTATATATTATAT
Found at i:299386 original size:20 final size:21
Alignment explanation
Indices: 299363--299412 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
299353 TATACTTAAC
*
299363 TATATATAAATA-TAGTAATT
1 TATATATAAATACTAATAATT
*
299383 TATATTATAATTACTAATAATT
1 TATA-TATAAATACTAATAATT
299405 TATA-ATAA
1 TATATATAA
299413 TTGTTTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 8 0.31
21 7 0.27
22 11 0.42
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TATATATAAATACTAATAATT
Found at i:299785 original size:13 final size:13
Alignment explanation
Indices: 299739--299787 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
299729 AATGAACAAT
299739 TAAATATTTTAAA
1 TAAATATTTTAAA
* * *
299752 TAGAGATTATTAAC
1 TAAATATT-TTAAA
299766 T-AATATTTTAAA
1 TAAATATTTTAAA
299778 TAAATATTTT
1 TAAATATTTT
299788 TATTTAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
12 5 0.18
13 18 0.64
14 5 0.18
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (13 bp):
TAAATATTTTAAA
Found at i:300182 original size:13 final size:14
Alignment explanation
Indices: 300145--300192 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
300135 AATCATTTTA
300145 ATAATTTAA-TATT
1 ATAATTTAATTATT
* *
300158 AAAATTAAAATTATT
1 ATAATT-TAATTATT
300173 -TAATTTAATTATT
1 ATAATTTAATTATT
300186 ATAATTT
1 ATAATTT
300193 CATATAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 12 0.43
14 12 0.43
15 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAATTTAATTATT
Found at i:300191 original size:22 final size:22
Alignment explanation
Indices: 300143--300191 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
300133 TAAATCATTT
*
300143 TAATAATTTAATATTAAAATTA
1 TAATTATTTAATATTAAAATTA
* *
300165 AAATTATTTAAT-TTAATTATTA
1 TAATTATTTAATATTAA-AATTA
300187 TAATT
1 TAATT
300192 TCATATAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TAATTATTTAATATTAAAATTA
Found at i:300499 original size:21 final size:21
Alignment explanation
Indices: 300464--300504 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
300454 AATAAATTTA
* * *
300464 ATAATTAACTGAATTTAATAG
1 ATAATTAAATAAATTAAATAG
300485 ATAATTAAATAAATTAAATA
1 ATAATTAAATAAATTAAATA
300505 TGCTCCACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (21 bp):
ATAATTAAATAAATTAAATAG
Found at i:300914 original size:21 final size:21
Alignment explanation
Indices: 300890--300950 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
300880 TATAAGATAT
*
300890 TTAATAATTAACATTTAAACA
1 TTAATAATTAACATTAAAACA
* *
300911 TTAATAAGCT-ACATTAAAATA
1 TTAATAA-TTAACATTAAAACA
*
300932 TTAAATAATTAATATTAAA
1 TT-AATAATTAACATTAAA
300951 TTTATAATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.38
Consensus pattern (21 bp):
TTAATAATTAACATTAAAACA
Found at i:300951 original size:21 final size:20
Alignment explanation
Indices: 300927--300979 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
300917 AGCTACATTA
300927 AAATATTAAATAATTAATATT
1 AAAT-TTAAATAATTAATATT
* *
300948 AAATTTATAATGATTATTA-T
1 AAATTTA-AATAATTAATATT
300968 AAATTT-AATAAT
1 AAATTTAAATAAT
300980 ATAACTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 5 0.18
20 10 0.36
21 13 0.46
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AAATTTAAATAATTAATATT
Found at i:301201 original size:21 final size:21
Alignment explanation
Indices: 301163--301202 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
301153 TTTAATTTAT
301163 CTAAAATTAATAATTATAACC
1 CTAAAATTAATAATTATAACC
*
301184 CTAATAATTATTAA-TATAA
1 CTAA-AATTAATAATTATAA
301203 TAATAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (21 bp):
CTAAAATTAATAATTATAACC
Found at i:302682 original size:11 final size:11
Alignment explanation
Indices: 302666--302698 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
302656 TGTTTATATA
302666 AATAATTTATT
1 AATAATTTATT
302677 AATAATTTATT
1 AATAATTTATT
302688 AATAA-TTATT
1 AATAATTTATT
302698 A
1 A
302699 TAAATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.27
11 16 0.73
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATAATTTATT
Found at i:302698 original size:10 final size:10
Alignment explanation
Indices: 302666--302712 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
302656 TGTTTATATA
302666 AATAATTTATT
1 AATAA-TTATT
302677 AATAATTTATT
1 AATAA-TTATT
302688 AATAATTATT
1 AATAATTATT
*
302698 -ATAAATATT
1 AATAATTATT
*
302707 TATAAT
1 AATAAT
302713 CAAATATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
9 8 0.24
10 9 0.27
11 16 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
AATAATTATT
Found at i:302720 original size:23 final size:24
Alignment explanation
Indices: 302663--302721 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 24
302653 TTTTGTTTAT
*
302663 ATAAATAATTTATTAATAATTTATTA
1 ATAAAT-A-TTATAAATAATTTATTA
*
302689 ATAATTATTATAAAT-ATTTA-TA
1 ATAAATATTATAAATAATTTATTA
302711 ATCAAATATTA
1 AT-AAATATTA
302722 AATTATCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 4 0.14
23 12 0.41
24 7 0.24
25 1 0.03
26 5 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
ATAAATATTATAAATAATTTATTA
Found at i:302846 original size:18 final size:18
Alignment explanation
Indices: 302790--302846 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
302780 AATTATTTTA
*
302790 TATAAATTATACTATAATT
1 TATAAATTATA-TTTAATT
*
302809 TA-AAATTAT-TTATAA-A
1 TATAAATTATATT-TAATT
302825 TATAAATTATATTTAATT
1 TATAAATTATATTTAATT
302843 TATA
1 TATA
302847 TTATTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
16 3 0.10
17 13 0.42
18 13 0.42
19 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TATAAATTATATTTAATT
Found at i:302974 original size:7 final size:7
Alignment explanation
Indices: 302930--303000 Score: 53
Period size: 7 Copynumber: 10.7 Consensus size: 7
302920 TTAAAGTTAT
302930 TAATT-A
1 TAATTAA
*
302936 TAATTAT
1 TAATTAA
*
302943 TTATTAA
1 TAATTAA
302950 T-A-TAA
1 TAATTAA
302955 T-ATTAA
1 TAATTAA
302961 TTAATTAA
1 -TAATTAA
302969 TAATTAA
1 TAATTAA
*
302976 TAAGTAA
1 TAATTAA
* *
302983 TAAGTCA
1 TAATTAA
302990 TAATTAA
1 TAATTAA
302997 -AATT
1 TAATT
303001 TTATTATTGC
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
5 5 0.09
6 13 0.24
7 31 0.57
8 5 0.09
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (7 bp):
TAATTAA
Found at i:303191 original size:25 final size:24
Alignment explanation
Indices: 303163--303210 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
303153 ATCAATTGTA
303163 ATAATAATT-ATAATTTATAGTTATT
1 ATAAT-ATTAATAATTTATA-TTATT
*
303188 ATAATATTAATTATTTATATTAT
1 ATAATATTAATAATTTATATTAT
303211 AAATTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATAATATTAATAATTTATATTATT
Found at i:303216 original size:28 final size:28
Alignment explanation
Indices: 303184--303250 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
303174 AATTTATAGT
*
303184 TATTATAATATTAATTA-TTTATATTATAA
1 TATTATAATA-TAATCATTTTATATT-TAA
303213 -ATTATAATATAATCATTTTATATTTAA
1 TATTATAATATAATCATTTTATATTTAA
303240 TATTATTAATA
1 TATTA-TAATA
303251 ATAACAACGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 8 0.24
28 21 0.62
29 5 0.15
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (28 bp):
TATTATAATATAATCATTTTATATTTAA
Found at i:303647 original size:36 final size:35
Alignment explanation
Indices: 303595--303773 Score: 133
Period size: 36 Copynumber: 5.5 Consensus size: 35
303585 AGTTTAGTTA
*
303595 TAATAATGACTATAAATTAAAAAATAGAATTAGATT
1 TAATTATGA-TATAAATTAAAAAATAGAATTAGATT
*
303631 TAATTATG--AT-AA-T---AAATAG-TTTAG-TT
1 TAATTATGATATAAATTAAAAAATAGAATTAGATT
*
303657 ATAATAATGACTATAAATTAAAAAATAGAATTAGATT
1 -TAATTATGA-TATAAATTAAAAAATAGAATTAGATT
*
303694 TAATTATG--AT-AA-T---AAATAG-TTTAG-TT
1 TAATTATGATATAAATTAAAAAATAGAATTAGATT
*
303720 ATAATAATGACTATAAATTAAAAAATAGAATTAGATT
1 -TAATTATGA-TATAAATTAAAAAATAGAATTAGATT
303757 TAATTATGATAATAAAT
1 TAATTATGAT-ATAAAT
303774 AGTTTAGTTA
Statistics
Matches: 111, Mismatches: 9, Indels: 46
0.67 0.05 0.28
Matches are distributed among these distances:
26 4 0.04
27 22 0.20
28 12 0.11
30 4 0.04
31 6 0.05
32 6 0.05
33 4 0.04
35 13 0.12
36 36 0.32
37 4 0.04
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (35 bp):
TAATTATGATATAAATTAAAAAATAGAATTAGATT
Found at i:303815 original size:63 final size:63
Alignment explanation
Indices: 303456--303785 Score: 630
Period size: 63 Copynumber: 5.3 Consensus size: 63
303446 ATAAATACAT
*
303456 ATAAATAGTTTAGTTATAATAATTACTATAAATT-AAAAATAGAATTAGATTTAATTATGATA
1 ATAAATAGTTTAGTTATAATAATGACTATAAATTAAAAAATAGAATTAGATTTAATTATGATA
303518 AT-AATAGTTTAGTTATAATAATGACTATAAATT-AAAAATAGAATTAGATTTAATTATGATA
1 ATAAATAGTTTAGTTATAATAATGACTATAAATTAAAAAATAGAATTAGATTTAATTATGATA
303579 ATAAATAGTTTAGTTATAATAATGACTATAAATTAAAAAATAGAATTAGATTTAATTATGATA
1 ATAAATAGTTTAGTTATAATAATGACTATAAATTAAAAAATAGAATTAGATTTAATTATGATA
303642 ATAAATAGTTTAGTTATAATAATGACTATAAATTAAAAAATAGAATTAGATTTAATTATGATA
1 ATAAATAGTTTAGTTATAATAATGACTATAAATTAAAAAATAGAATTAGATTTAATTATGATA
303705 ATAAATAGTTTAGTTATAATAATGACTATAAATTAAAAAATAGAATTAGATTTAATTATGATA
1 ATAAATAGTTTAGTTATAATAATGACTATAAATTAAAAAATAGAATTAGATTTAATTATGATA
303768 ATAAATAGTTTAGTTATA
1 ATAAATAGTTTAGTTATA
303786 TATCAAATTA
Statistics
Matches: 265, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
61 60 0.23
62 33 0.12
63 172 0.65
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (63 bp):
ATAAATAGTTTAGTTATAATAATGACTATAAATTAAAAAATAGAATTAGATTTAATTATGATA
Found at i:304524 original size:13 final size:13
Alignment explanation
Indices: 304448--304567 Score: 56
Period size: 12 Copynumber: 9.2 Consensus size: 13
304438 TATAAATGTG
304448 TATATAATTAT-T
1 TATATAATTATAT
304460 TATATTAA--ATAT
1 TATA-TAATTATAT
*
304472 TAAAT-ATTATAT
1 TATATAATTATAT
*
304484 TATAACAATTATAAT
1 TAT-ATAATTAT-AT
* * *
304499 AATTGTAAATTATGT
1 TA-TAT-AATTATAT
304514 TATATAATTATAT
1 TATATAATTATAT
304527 TATAT-ATTA-AT
1 TATATAATTATAT
*
304538 T-TATAAACTATCAAT
1 TATAT-AATTAT--AT
*
304553 TATATAATAATAT
1 TATATAATTATAT
304566 TA
1 TA
304568 AGTTATATAA
Statistics
Matches: 80, Mismatches: 13, Indels: 29
0.66 0.11 0.24
Matches are distributed among these distances:
10 4 0.05
11 6 0.08
12 21 0.26
13 20 0.25
14 7 0.09
15 12 0.15
16 10 0.12
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (13 bp):
TATATAATTATAT
Found at i:304555 original size:31 final size:34
Alignment explanation
Indices: 304519--304592 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 34
304509 TATGTTATAT
*
304519 AATTATATTAT-ATATTAA-TT-TATAAACTATC
1 AATTATATTATAATATTAAGTTATATAAACTAAC
* *
304550 AATTATATAATAATATTAAGTTATATAAATTAAC
1 AATTATATTATAATATTAAGTTATATAAACTAAC
304584 -ATTATATTA
1 AATTATATTA
304593 ATTATTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 10 0.28
32 7 0.19
33 10 0.28
34 9 0.25
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (34 bp):
AATTATATTATAATATTAAGTTATATAAACTAAC
Found at i:304718 original size:17 final size:16
Alignment explanation
Indices: 304693--304743 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
304683 ATTCTATATT
304693 AATTATAAATATATAATA
1 AATT-TAAATAT-TAATA
*
304711 AATTTAAATATTATTA
1 AATTTAAATATTAATA
*
304727 ATATTTAAATTTTAATA
1 A-ATTTAAATATTAATA
304744 TTTTTGAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 5 0.17
17 20 0.69
18 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTTAAATATTAATA
Found at i:304735 original size:23 final size:25
Alignment explanation
Indices: 304703--304759 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 25
304693 AATTATAAAT
*
304703 ATATAATAAATTTAAATATTATT-A
1 ATATATTAAATTTAAATATTATTGA
* *
304727 ATAT-TTAAATTTTAATATTTTTGA
1 ATATATTAAATTTAAATATTATTGA
304751 ATATATTAA
1 ATATATTAA
304760 TATATAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.54
24 9 0.32
25 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
ATATATTAAATTTAAATATTATTGA
Found at i:304743 original size:33 final size:33
Alignment explanation
Indices: 304687--304766 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
304677 AAATAAATTC
304687 TATATTAAT-TATAAATATATAATAAATTTAAA
1 TATATTAATATATAAATATATAATAAATTTAAA
* * ** *
304719 TATTATTAATATTTAAAT-TTTAATATTTTTGAA
1 TA-TATTAATATATAAATATATAATAAATTTAAA
304752 TATATTAATATATAA
1 TATATTAATATATAA
304767 TTATTAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 14 0.35
33 20 0.50
34 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (33 bp):
TATATTAATATATAAATATATAATAAATTTAAA
Found at i:305189 original size:24 final size:26
Alignment explanation
Indices: 305168--305219 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 26
305158 TGTATTAATA
305168 AATTAT-AATA-ATTATAATTTAAAT
1 AATTATAAATATATTATAATTTAAAT
305192 AATTATAAATATATTATATATTATAAAT
1 AATTATAAATATATTATA-ATT-TAAAT
305220 CTAAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 6 0.25
25 4 0.17
26 6 0.25
27 3 0.12
28 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
AATTATAAATATATTATAATTTAAAT
Found at i:306296 original size:18 final size:19
Alignment explanation
Indices: 306273--306333 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 19
306263 TAATAGTTAA
306273 TAAATTAAATATAAT-AGT
1 TAAATTAAATATAATAAGT
306291 TAAATT--ATATAATAAGT
1 TAAATTAAATATAATAAGT
306308 TAAATTATAATAATTAATAAG-
1 TAAATTA-AAT-A-TAATAAGT
306329 TAAAT
1 TAAAT
306334 GTTTATCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.19
17 9 0.24
18 6 0.16
20 2 0.05
21 6 0.16
22 7 0.19
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAATTAAATATAATAAGT
Found at i:306363 original size:17 final size:17
Alignment explanation
Indices: 306343--306452 Score: 70
Period size: 17 Copynumber: 6.4 Consensus size: 17
306333 TGTTTATCAT
306343 TATAATATATTTAATTA
1 TATAATATATTTAATTA
*
306360 TATAATATTATATAA-TA
1 TATAATA-TATTTAATTA
306377 T-TAA-ATATTTAAATTA
1 TATAATATATTT-AATTA
* *
306393 AAT-ATTTATTATAA-TA
1 TATAATATATT-TAATTA
*
306409 TAATAAGTATTATATAATTA
1 T-ATAA-TA-TATTTAATTA
306429 TATAAT-TAATTTAATTA
1 TATAATAT-ATTTAATTA
*
306446 GATAATA
1 TATAATA
306453 ACATTAATTT
Statistics
Matches: 71, Mismatches: 9, Indels: 25
0.68 0.09 0.24
Matches are distributed among these distances:
14 4 0.06
15 3 0.04
16 9 0.13
17 32 0.45
18 9 0.13
19 8 0.11
20 6 0.08
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
TATAATATATTTAATTA
Found at i:306394 original size:13 final size:13
Alignment explanation
Indices: 306376--306400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
306366 ATTATATAAT
306376 ATTAAATATTTAA
1 ATTAAATATTTAA
306389 ATTAAATATTTA
1 ATTAAATATTTA
306401 TTATAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAAATATTTAA
Found at i:306533 original size:13 final size:14
Alignment explanation
Indices: 306515--306563 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
306505 AATATTTAGA
306515 TAATTAA-TAATAT
1 TAATTAATTAATAT
306528 TAATTAATTAATAT
1 TAATTAATTAATAT
*
306542 TCTATTATATTAA-A-
1 T-AATTA-ATTAATAT
306556 TAATTAAT
1 TAATTAAT
306564 AAGAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 11 0.35
14 8 0.26
15 5 0.16
16 5 0.16
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATTAATTAATAT
Found at i:307012 original size:21 final size:22
Alignment explanation
Indices: 306982--307028 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
306972 ATTAAATAAT
306982 TAATTATAAATATTAA-ATTTAC
1 TAATTATAAATA-TAATATTTAC
*
307004 TAATT-TAAATATAATTTTTAC
1 TAATTATAAATATAATATTTAC
307025 TAAT
1 TAAT
307029 AATTGTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 3 0.13
21 15 0.65
22 5 0.22
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATTATAAATATAATATTTAC
Found at i:307201 original size:19 final size:19
Alignment explanation
Indices: 307159--307221 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
307149 TAGACAAAAT
*
307159 ATAATAATTA-TATA-ATA
1 ATAATAATTATTATATTTA
*
307176 AT-TTAATTATTATATTTA
1 ATAATAATTATTATATTTA
*
307194 ATAATAATTGTTAATATTTA
1 ATAATAATTATT-ATATTTA
307214 A-AATAATT
1 ATAATAATT
307222 GTTGTTAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 6 0.16
17 6 0.16
18 4 0.11
19 14 0.37
20 8 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
ATAATAATTATTATATTTA
Found at i:307222 original size:19 final size:20
Alignment explanation
Indices: 307187--307224 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
307177 TTTAATTATT
307187 ATATTTAATAATAATTGTTA
1 ATATTTAATAATAATTGTTA
307207 ATATTTAA-AATAATTGTT
1 ATATTTAATAATAATTGTT
307225 GTTAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
ATATTTAATAATAATTGTTA
Found at i:307497 original size:27 final size:24
Alignment explanation
Indices: 307481--307533 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
307471 TCACCTTATT
307481 ATATTATAAATTATAATTCAATTA
1 ATATTATAAATTATAATTCAATTA
307505 ATATTATAAATTACT-ATT-AATTA
1 ATATTATAAATTA-TAATTCAATTA
*
307528 TTATTA
1 ATATTA
307534 ATATTTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 10 0.37
24 16 0.59
25 1 0.04
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
ATATTATAAATTATAATTCAATTA
Found at i:308742 original size:22 final size:20
Alignment explanation
Indices: 308717--308777 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 20
308707 TAGTAAAAAT
*
308717 TATTTTATAATCATATTATAAG
1 TATTTTAT-AT-AAATTATAAG
*
308739 TATTAGTTATATAAATTATAAT
1 TATT--TTATATAAATTATAAG
308761 TATTTTAT-T-AATTATAA
1 TATTTTATATAAATTATAA
308778 CTTAAATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
18 8 0.23
19 1 0.03
20 4 0.11
22 16 0.46
23 2 0.06
24 4 0.11
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (20 bp):
TATTTTATATAAATTATAAG
Found at i:309103 original size:45 final size:45
Alignment explanation
Indices: 309017--309103 Score: 108
Period size: 45 Copynumber: 1.9 Consensus size: 45
309007 ATATAAATGT
* *
309017 TATTAATATAACTTAAATTAATAAATTGTATAATTATTATTATTA
1 TATTAAAATAACTTAAATTAATAAATTGTATAAATATTATTATTA
309062 TATTAAAATAA-TTAATATTTAAT-AATTGTATATAATA-TATTA
1 TATTAAAATAACTTAA-A-TTAATAAATTGTATA-AATATTATTA
309104 GTAAAAAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
44 4 0.11
45 25 0.68
46 8 0.22
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (45 bp):
TATTAAAATAACTTAAATTAATAAATTGTATAAATATTATTATTA
Found at i:309781 original size:22 final size:23
Alignment explanation
Indices: 309733--309781 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
309723 TCATTTTATA
*
309733 AATTTAATTAATAATAAATAATC
1 AATTTAATTAATAATAAACAATC
309756 AATTT-ATTAATAATATAACAAT-
1 AATTTAATTAATAATA-AACAATC
309778 AATT
1 AATT
309782 CTTTTATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
AATTTAATTAATAATAAACAATC
Found at i:309871 original size:25 final size:26
Alignment explanation
Indices: 309839--309918 Score: 65
Period size: 22 Copynumber: 3.5 Consensus size: 26
309829 ATATTATTAT
309839 ATTA-TTATTATTATAATATATAATA
1 ATTATTTATTATTATAATATATAATA
* *
309864 A-TCTTTATT-TAATAA-ATA-AATA
1 ATTATTTATTATTATAATATATAATA
309886 ATTATTTA-TATT-TAATA-AT-AT-
1 ATTATTTATTATTATAATATATAATA
309907 A-TATTTATTATT
1 ATTATTTATTATT
309919 GAAATTTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
20 6 0.13
21 5 0.11
22 12 0.27
23 10 0.22
24 6 0.13
25 6 0.13
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTATTTATTATTATAATATATAATA
Found at i:309925 original size:27 final size:27
Alignment explanation
Indices: 309870--309940 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
309860 AATAATCTTT
* * * *
309870 ATTTAATAA-ATA-AATAATTATTTAT
1 ATTTAATAATATATATTTATTATTGAA
309895 ATTTAATAATATATATTTATTATTGAA
1 ATTTAATAATATATATTTATTATTGAA
*
309922 ATTTAATAATA-CTATTTAT
1 ATTTAATAATATATATTTAT
309941 AAGAATAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
25 9 0.23
26 10 0.26
27 20 0.51
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (27 bp):
ATTTAATAATATATATTTATTATTGAA
Found at i:310003 original size:23 final size:24
Alignment explanation
Indices: 309978--310026 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
309968 ATAATTAACA
* *
309978 TTAATTTTTAATTTA-AATTTAAA
1 TTAATTATTAAGTTATAATTTAAA
310001 TTAATTATTAAGTTATAATTATAAA
1 TTAATTATTAAGTTATAATT-TAAA
310026 T
1 T
310027 AACTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 13 0.59
24 4 0.18
25 5 0.23
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TTAATTATTAAGTTATAATTTAAA
Found at i:310156 original size:10 final size:11
Alignment explanation
Indices: 310118--310168 Score: 51
Period size: 10 Copynumber: 5.2 Consensus size: 11
310108 TTTATAGTAA
310118 ATATAATTATT
1 ATATAATTATT
*
310129 A-ATATTTA-T
1 ATATAATTATT
310138 A-ATAA-TATT
1 ATATAATTATT
310147 ATA-AATTATT
1 ATATAATTATT
310157 -TATAATTATT
1 ATATAATTATT
310167 AT
1 AT
310169 CCAATTATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
8 2 0.06
9 11 0.33
10 18 0.55
11 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATATAATTATT
Found at i:310211 original size:24 final size:22
Alignment explanation
Indices: 310172--310236 Score: 58
Period size: 24 Copynumber: 2.8 Consensus size: 22
310162 TTATTATCCA
** *
310172 ATTATAAAAAAATAATTTAGTTT
1 ATTATAAATTAATAATTTA-ATT
*
310195 ATTATACTATTAATAATATTTAATT
1 ATTATA-AATTAAT-A-ATTTAATT
310220 ATTATAAATTAATAATT
1 ATTATAAATTAATAATT
310237 ATAAAATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 3 0.09
23 7 0.21
24 10 0.29
25 9 0.26
26 5 0.15
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTATAAATTAATAATTTAATT
Found at i:310280 original size:18 final size:19
Alignment explanation
Indices: 310257--310358 Score: 73
Period size: 18 Copynumber: 5.8 Consensus size: 19
310247 TTTATTTTAT
310257 TAATTTATTAATAAT-TAA
1 TAATTTATTAATAATATAA
* **
310275 TAATTTATTTATGTTATATA
1 TAATTTATTAATAATATA-A
310295 TAATTTA--AA-AAT-T-A
1 TAATTTATTAATAATATAA
*
310309 TAAATTATT-ATAATATAA
1 TAATTTATTAATAATATAA
310327 T-ATTTAATT-ATAATATAA
1 TAATTT-ATTAATAATATAA
310345 TAA-TTATTAA-AATA
1 TAATTTATTAATAATA
310359 ATTTATAATA
Statistics
Matches: 66, Mismatches: 8, Indels: 21
0.69 0.08 0.22
Matches are distributed among these distances:
14 7 0.11
15 1 0.02
16 4 0.06
17 12 0.18
18 31 0.47
19 3 0.05
20 8 0.12
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (19 bp):
TAATTTATTAATAATATAA
Found at i:310308 original size:35 final size:34
Alignment explanation
Indices: 310203--310317 Score: 89
Period size: 34 Copynumber: 3.4 Consensus size: 34
310193 TTATTATACT
* * *
310203 ATTAATAA--TATTTAATTAT-TATAAATTAATA
1 ATTAATAATTTATTTATTTATATATAATTTAAAA
* *
310234 ATTATAAAATATATTTATTT-TAT-TAATTTATTAATA
1 ATTA-ATAATTTATTTATTTATATATAATTTA--AA-A
310270 ATTAATAATTTATTTATGTTATATATAATTTAAAA
1 ATTAATAATTTATTTAT-TTATATATAATTTAAAA
*
310305 ATT-ATAAATTATT
1 ATTAATAATTTATT
310318 ATAATATAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 17
0.74 0.08 0.19
Matches are distributed among these distances:
31 4 0.06
32 3 0.04
33 7 0.10
34 18 0.27
35 16 0.24
36 9 0.13
37 3 0.04
38 7 0.10
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (34 bp):
ATTAATAATTTATTTATTTATATATAATTTAAAA
Found at i:310338 original size:13 final size:14
Alignment explanation
Indices: 310304--310351 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
310294 ATAATTTAAA
310304 AATTATAAATTATTAT
1 AATTAT-AA-TATTAT
310320 AA-TATAATATT-T
1 AATTATAATATTAT
*
310332 AATTATAATATAAT
1 AATTATAATATTAT
310346 AATTAT
1 AATTAT
310352 TAAAATAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
12 3 0.10
13 12 0.41
14 9 0.31
15 3 0.10
16 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTATAATATTAT
Found at i:311443 original size:17 final size:17
Alignment explanation
Indices: 311409--311446 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
311399 ATATAGTATT
*
311409 ATTATATTATTATTTAA
1 ATTATATTATTATATAA
311426 ATTATATTATT-TGATAA
1 ATTATATTATTAT-ATAA
311443 ATTA
1 ATTA
311447 AATAATTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTATATTATTATATAA
Found at i:312092 original size:18 final size:18
Alignment explanation
Indices: 312071--312115 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
312061 TGTATAAATA
*
312071 TTAATTTATTTATACAAC
1 TTAATTTATTAATACAAC
* * *
312089 TTAATTAATTAATACTAT
1 TTAATTTATTAATACAAC
312107 TTAATTTAT
1 TTAATTTAT
312116 AAAATCAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATTTATTAATACAAC
Found at i:312483 original size:24 final size:24
Alignment explanation
Indices: 312434--312500 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 24
312424 TCTTAATTAT
*
312434 TTATC-AATAAAT-TTAATTTTTGAA
1 TTATCAAATAAATATT-A-TTTTAAA
312458 TTATCAAATAAATATTATTTTAAA
1 TTATCAAATAAATATTATTTTAAA
* *
312482 TT-TGAAATAAATATAATTT
1 TTATCAAATAAATATTATTT
312501 AATATTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 15 0.39
24 13 0.34
25 8 0.21
26 2 0.05
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (24 bp):
TTATCAAATAAATATTATTTTAAA
Found at i:312493 original size:23 final size:23
Alignment explanation
Indices: 312463--312521 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
312453 TTGAATTATC
312463 AAATAAATATTATTTTAA-ATTT
1 AAATAAATATTATTTTAATATTT
*
312485 GAAATAAATA-TAATTTAATATTT
1 -AAATAAATATTATTTTAATATTT
*
312508 AAAGAAATTATTAT
1 AAATAAA-TATTAT
312522 ATAAGTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 13 0.43
23 15 0.50
24 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (23 bp):
AAATAAATATTATTTTAATATTT
Found at i:312515 original size:22 final size:23
Alignment explanation
Indices: 312467--312520 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
312457 ATTATCAAAT
* *
312467 AAATATTATTTTAAATTTGAAAT
1 AAATATTAATTTAAATTTGAAAG
312490 AAATA-TAATTTAATATTT-AAAG
1 AAATATTAATTTAA-ATTTGAAAG
312512 AAATTATTA
1 AAA-TATTA
312521 TATAAGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 13 0.50
23 11 0.42
24 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (23 bp):
AAATATTAATTTAAATTTGAAAG
Found at i:312768 original size:22 final size:23
Alignment explanation
Indices: 312733--312776 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
312723 ATTAAATTCT
312733 ATTTATATAAATTTAAT-TTAAA
1 ATTTATATAAATTTAATATTAAA
312755 ATTTA-ATAATATTTAATATTAA
1 ATTTATATAA-ATTTAATATTAA
312777 TAATAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTATATAAATTTAATATTAAA
Found at i:313662 original size:21 final size:21
Alignment explanation
Indices: 313630--313675 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 21
313620 TGATCTGTCG
*
313630 AATAATATATATTATTTATAATTA
1 AATAA-ATATAATA-TT-TAATTA
313654 AATAAATATAATATTTAATTA
1 AATAAATATAATATTTAATTA
313675 A
1 A
313676 CAATTAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 2 0.10
23 7 0.33
24 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AATAAATATAATATTTAATTA
Found at i:314254 original size:28 final size:28
Alignment explanation
Indices: 314212--314266 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 28
314202 TAACCTAAAA
314212 AATTATAAATAATAATT-TATTTATATT
1 AATTATAAATAATAATTATATTTATATT
314239 AATTATAAAATAATAATTAATATTTATA
1 AATTAT-AAATAATAATT-ATATTTATA
314267 ATATAATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 6 0.24
28 11 0.44
30 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
AATTATAAATAATAATTATATTTATATT
Found at i:314287 original size:19 final size:18
Alignment explanation
Indices: 314251--314293 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
314241 TTATAAAATA
314251 ATAATTAATATTTATAAT
1 ATAATTAATATTTATAAT
314269 ATAATGTAATA-TTATTAAT
1 ATAAT-TAATATTTA-TAAT
314288 A-AATTA
1 ATAATTA
314294 TTAGTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.09
18 11 0.48
19 10 0.43
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATAATTAATATTTATAAT
Found at i:314436 original size:22 final size:22
Alignment explanation
Indices: 314408--314450 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
314398 TTATATTTAT
*
314408 AAATATTAAAATTATTATAATA
1 AAATATTAAAATTATAATAATA
**
314430 AAATATTGTAATTATAATAAT
1 AAATATTAAAATTATAATAAT
314451 TGTCTATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATATTAAAATTATAATAATA
Found at i:314673 original size:27 final size:24
Alignment explanation
Indices: 314642--314730 Score: 69
Period size: 24 Copynumber: 3.6 Consensus size: 24
314632 ATATATGTTA
314642 ATTATATATAATATTAATAAATATAAT
1 ATTATATATAATA-TAATAAAT-T-AT
314669 ATTAT-T-T-ATATAATAAATTAT
1 ATTATATATAATATAATAAATTAT
* *
314690 ATTA-ATATAATGATATTAAACTAT
1 ATTATATATAAT-ATAATAAATTAT
*
314714 TTTAATATATAAATATA
1 ATT-ATATAT-AATATA
314731 TATATTTAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
21 7 0.13
22 2 0.04
23 10 0.19
24 15 0.29
25 2 0.04
26 8 0.15
27 8 0.15
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (24 bp):
ATTATATATAATATAATAAATTAT
Found at i:314674 original size:18 final size:18
Alignment explanation
Indices: 314652--314700 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
314642 ATTATATATA
314652 ATATTAATA-AATATAA-T
1 ATATTAATATAATA-AATT
*
314669 ATTATTTATATAATAAATT
1 A-TATTAATATAATAAATT
314688 ATATTAATATAAT
1 ATATTAATATAAT
314701 GATATTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.04
18 20 0.74
19 6 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTAATATAATAAATT
Found at i:314883 original size:21 final size:20
Alignment explanation
Indices: 314837--314875 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
314827 ATCTCAATTT
*
314837 ATAATTATAATATAGTTACA
1 ATAATTATAATATAATTACA
314857 ACTAATTATAATATAATTA
1 A-TAATTATAATATAATTA
314876 TTAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (20 bp):
ATAATTATAATATAATTACA
Found at i:315278 original size:30 final size:31
Alignment explanation
Indices: 315216--315284 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
315206 ATATTATTAA
**
315216 TATTATATAATAGAATTTAATATAAATAATT
1 TATTATATAATAGAACATAATATAAATAATT
*
315247 TATTA-ATAATAGAAACATAATTTAAAT-ATT
1 TATTATATAATAG-AACATAATATAAATAATT
315277 TATTATAT
1 TATTATAT
315285 TTATCATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 15 0.45
31 18 0.55
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (31 bp):
TATTATATAATAGAACATAATATAAATAATT
Found at i:315470 original size:16 final size:15
Alignment explanation
Indices: 315432--315501 Score: 65
Period size: 15 Copynumber: 4.6 Consensus size: 15
315422 AACTTAACTA
*
315432 ATATAATCTAATATT
1 ATATAATTTAATATT
315447 ATATAATTGT-ATATT
1 ATATAATT-TAATATT
315462 ATAATAATTTAATATT
1 AT-ATAATTTAATATT
*
315478 AT-TAAATTTATTAATT
1 ATAT-AATTTAAT-ATT
315494 A-ATAATTT
1 ATATAATTT
315502 TGGATTATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
14 1 0.02
15 27 0.57
16 19 0.40
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (15 bp):
ATATAATTTAATATT
Found at i:316313 original size:21 final size:21
Alignment explanation
Indices: 316290--316358 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
316280 TTTAATTGGA
316290 TTATTAAATA-TATTAATAAT
1 TTATTAAATACTATTAATAAT
* *
316310 ATTAATATAATATTATTAATAAT
1 -TTATTA-AATACTATTAATAAT
*
316333 TTATT-CATACCTATTAATAAT
1 TTATTAAATA-CTATTAATAAT
316354 TTATT
1 TTATT
316359 CAGAATATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 3 0.07
21 20 0.49
22 8 0.20
23 10 0.24
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (21 bp):
TTATTAAATACTATTAATAAT
Found at i:316382 original size:12 final size:11
Alignment explanation
Indices: 316365--316403 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
316355 TATTCAGAAT
316365 ATTAATTATTA
1 ATTAATTATTA
*
316376 GATTAATTATAAA
1 -ATTAATTAT-TA
316389 ATTAATTATTA
1 ATTAATTATTA
316400 ATTA
1 ATTA
316404 TATAACATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 5 0.21
12 18 0.75
13 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (11 bp):
ATTAATTATTA
Found at i:317340 original size:24 final size:24
Alignment explanation
Indices: 317285--317402 Score: 86
Period size: 24 Copynumber: 5.1 Consensus size: 24
317275 GCCTAATATA
* * *
317285 TAATGATAATATATATTAATAATAT
1 TAATAATAATAAATATTAATTA-AT
* * **
317310 TAGTAATTATAAATATTTTTTAAT
1 TAATAATAATAAATATTAATTAAT
*
317334 TAATAATAATATATATTAATTAAT
1 TAATAATAATAAATATTAATTAAT
* *
317358 TAA-AATATTAAA-A--AATTTA-
1 TAATAATAATAAATATTAATTAAT
*
317377 TAATAAT-ATAAATAATAATTAAT
1 TAATAATAATAAATATTAATTAAT
317400 TAA
1 TAA
317403 ATACAAATAT
Statistics
Matches: 71, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
19 7 0.10
20 9 0.13
22 6 0.08
23 10 0.14
24 24 0.34
25 15 0.21
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
TAATAATAATAAATATTAATTAAT
Found at i:317352 original size:20 final size:19
Alignment explanation
Indices: 317301--317367 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
317291 TAATATATAT
*
317301 TAATAATATTAGTAATT-A
1 TAATAATATTATTAATTAA
*
317319 T-A-AATATTTTTTAATTAA
1 TAATAATA-TTATTAATTAA
317337 TAATAATATATATTAATTAA
1 TAATAATAT-TATTAATTAA
317357 TTAA-AATATTA
1 -TAATAATATTA
317368 AAAAATTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
16 4 0.10
17 8 0.20
18 3 0.08
19 4 0.10
20 18 0.45
21 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (19 bp):
TAATAATATTATTAATTAA
Found at i:318166 original size:178 final size:178
Alignment explanation
Indices: 317823--318437 Score: 642
Period size: 178 Copynumber: 3.4 Consensus size: 178
317813 TGTTCATATG
** *
317823 AGCTTACTTC-AAATAAAATAATACAAATTTATTAATATT--AAGATAATTAATAAGTAAAAGAT
1 AGCTTA-TTCGAAATAAAATAATATTAATTTATTAATATTCCAA-A-AATTAATAAGTAAAGGAT
* * * *
317885 TT-AAAAAATAAATCTATTTATCGAACAAATTCAAATTGTTATGACTATCTGAATAATTATTTAT
63 TTAAAAAAATAAA--TGTTTATCGAACAAGTTCAAATTGTTATGACTATTTGAATAATTATCTAT
* * *
317949 TTCAAATTC-TTATTACTTTTTGTTTTGTCATAAAACAATTGTTTCTGTCAATACG
126 TTCAAA-TCATTATAACATTTTGTTTTGTCATAAAACAATTGTTTCT-TC-ATACA
* * * * *
318004 AGCTTATTCGGATTAAAATAATATTGATTTATTAATATTTCAACAATTAATAAGTAAAGGATTTA
1 AGCTTATTCGAAATAAAATAATATTAATTTATTAATATTCCAAAAATTAATAAGTAAAGGATTTA
* * * * *
318069 AAAAAAT-AA-GTTTACCAAACAAGTTCAAATAGTCATGACTATTTGAATAATTATCTACTTCAA
66 AAAAAATAAATGTTTATCGAACAAGTTCAAATTGTTATGACTATTTGAATAATTATCTATTTCAA
* ***
318132 ATCATTATAACATTTTGTTTTGTAATAAAACAATTGTTTCAATTCATGTT
131 ATCATTATAACATTTTGTTTTGTCATAAAACAATTGTTTC--TTCATACA
* * * *
318182 AGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAAAAAGT-AAGAGAATT
1 AGCTTATTCGAAATAAAATAATATTAATTTATTAATATTCCAAAAATTAATAAGTAAAG-GATTT
*
318246 AAAAAAATAAATCTGTTTATCGAACAAGTTCAAATTGTTTTGACTATCTT-AATAATTATCTATT
65 AAAAAAATAAA--TGTTTATCGAACAAGTTCAAATTGTTATGACTAT-TTGAATAATTATCTATT
* * * * * *
318310 TCAAAACATTACAACCTTTTGTTTTGTCATAAAACAATCGGTTCTATTCATTCA
127 TCAAATCATTATAACATTTTGTTTTGTCATAAAACAAT-TGTT-TCTTCATACA
* * *
318364 AGCTTATTTC-AAATAAAATAATATAAATTTATTAATGTTCCAAAAATTAATAAGTAAA-AATTT
1 AGCTTA-TTCGAAATAAAATAATATTAATTTATTAATATTCCAAAAATTAATAAGTAAAGGATTT
*
318427 -TAAAAATAAAT
65 AAAAAAATAAAT
318438 TTATTTAAAA
Statistics
Matches: 363, Mismatches: 54, Indels: 37
0.80 0.12 0.08
Matches are distributed among these distances:
177 5 0.01
178 141 0.39
179 4 0.01
180 13 0.04
181 54 0.15
182 134 0.37
183 11 0.03
184 1 0.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.39
Consensus pattern (178 bp):
AGCTTATTCGAAATAAAATAATATTAATTTATTAATATTCCAAAAATTAATAAGTAAAGGATTTA
AAAAAATAAATGTTTATCGAACAAGTTCAAATTGTTATGACTATTTGAATAATTATCTATTTCAA
ATCATTATAACATTTTGTTTTGTCATAAAACAATTGTTTCTTCATACA
Found at i:318370 original size:182 final size:181
Alignment explanation
Indices: 317823--318437 Score: 691
Period size: 182 Copynumber: 3.4 Consensus size: 181
317813 TGTTCATATG
* *
317823 AGCTTACTTCAAATAAAATAATACAAATTTATTAATATT--AAGATAATTAATAAGTAAA-AGAT
1 AGCTTATTTCAAATAAAATAATACTAATTTATTAATATTCCAA-A-AATTAATAAGTAAAGA-AT
* * * * *
317885 TTAAAAAATAAATCTATTTATCGAACAAATTCAAATTGTTATGACTATCTGAATAATTATTTATT
63 TAAAAAAATAAATCTGTTTATCGAACAAGTTCAAATTGTTATGACTATCTTAATAATTATCTATT
* * * * *
317950 TCAAATTC-TTATTACTTTTTGTTTTGTCATAAAACAATTGTTTCT-GTCAATACG
128 TCAAA-TCATTATAACATTTTGTTTTGTCATAAAACAATTGTTTCTATTC-ATTCA
* * * * * * *
318004 AGCTTA-TTCGGATTAAAATAATATTGATTTATTAATATTTCAACAATTAATAAGTAAAGGATTT
1 AGCTTATTTC-AAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAA-GAATT
* * * * *
318068 AAAAAAAT-AA---GTTTACCAAACAAGTTCAAATAGTCATGACTAT-TTGAATAATTATCTACT
64 AAAAAAATAAATCTGTTTATCGAACAAGTTCAAATTGTTATGACTATCTT-AATAATTATCTATT
* * *
318128 TCAAATCATTATAACATTTTGTTTTGTAATAAAACAATTGTTTCAATTCATGT-T
128 TCAAATCATTATAACATTTTGTTTTGTCATAAAACAATTGTTTCTATTCAT-TCA
* *
318182 AGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAAAAAGTAAGAGAATTA
1 AGCTTATTTCAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAA-AGAATTA
*
318247 AAAAAATAAATCTGTTTATCGAACAAGTTCAAATTGTTTTGACTATCTTAATAATTATCTATTTC
65 AAAAAATAAATCTGTTTATCGAACAAGTTCAAATTGTTATGACTATCTTAATAATTATCTATTTC
* * * * *
318312 AAAACATTACAACCTTTTGTTTTGTCATAAAACAATCGGTTCTATTCATTCA
130 AAATCATTATAACATTTTGTTTTGTCATAAAACAATTGTTTCTATTCATTCA
* *
318364 AGCTTATTTCAAATAAAATAATA-TAAATTTATTAATGTTCCAAAAATTAATAAGTAAA-AATTT
1 AGCTTATTTCAAATAAAATAATACT-AATTTATTAATATTCCAAAAATTAATAAGTAAAGAATTA
*
318427 TAAAAATAAAT
65 AAAAAATAAAT
318438 TTATTTAAAA
Statistics
Matches: 364, Mismatches: 52, Indels: 37
0.80 0.11 0.08
Matches are distributed among these distances:
177 3 0.01
178 137 0.38
179 7 0.02
180 17 0.05
181 49 0.13
182 146 0.40
183 5 0.01
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.39
Consensus pattern (181 bp):
AGCTTATTTCAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAAGAATTAA
AAAAATAAATCTGTTTATCGAACAAGTTCAAATTGTTATGACTATCTTAATAATTATCTATTTCA
AATCATTATAACATTTTGTTTTGTCATAAAACAATTGTTTCTATTCATTCA
Found at i:318921 original size:180 final size:177
Alignment explanation
Indices: 318483--319624 Score: 820
Period size: 180 Copynumber: 6.4 Consensus size: 177
318473 CTATTTATAC
* * * ** * *
318483 AAAATAATATTATTTTATTACTATTTTGAAAATTAATAAG-AG-ATTTAAAAACTAAATCTCTTT
1 AAAATAATACTAATTTATTAATA-TTAAAAAATTAATAAGAAGAATTTAAAAA-AAAATCTATTT
* * * * ** * *
318546 ATCGAACCAGTTCAAATAGTTATGACTAATT-GAACAATTATCTATCTCCAATCGCTATGA-TTT
64 ACCGAATCAGTTCAAATAGTTATGACT-ATTAGAACAATTATCTATTTCAAATCATTATAACCTT
* * * ** *
318609 TTGTTTTGTCCTAAAACATTTAATTT-ATGTTCA-ACAAGCTTATTC-AGAGT
128 TTGTTTTGTCATAAAACAATT-GTTTCA-ACTCATACAAGCTTATTCTA-AAT
* * * * * * * * * *
318659 AAAATATTGCTAAATTAATAATATTCTAAACATTAATATGAAAGGATTTAAAAAATAAATGTGTT
1 AAAATAATACTAATTTATTAATATT-AAAAAATTAATAAG-AAGAATTTAAAAAA-AAATCTATT
*** * * * *
318724 TTTTGAATCAATTCAAATAGTTAAGACTATTAGAAGAATTATCTATTTCAAATCATTTTAACCTT
63 TACCGAATCAGTTCAAATAGTTATGACTATTAGAACAATTATCTATTTCAAATCATTATAACCTT
* * * *
318789 TTGTTTAGTCATAAAATAATTGCTTCAACTCATACATGCTTATTCTAAAT
128 TTGTTTTGTCATAAAACAATTGTTTCAACTCATACAAGCTTATTCTAAAT
* *
318839 AAAATAATACTAATTTATTAATATTCAAAAAATTATTAAGCAAGAAATTAGAAAAAAAATCTATT
1 AAAATAATACTAATTTATTAATATT-AAAAAATTAATAAG-AAGAATTTA-AAAAAAAATCTATT
* * * * *
318904 TACCGAA-CAAGTTCAAATATTTTTGACTATTTGAACAATTATCTATTTAAAATCATTATGACCT
63 TACCGAATC-AGTTCAAATAGTTATGACTATTAGAACAATTATCTATTTCAAATCATTATAACCT
* * * ** *
318968 TATATTTTATCATAAAA-AATTGTTTCAGTTCATAAAAGCTTA-TCTGAAAT
127 TTTGTTTTGTCATAAAACAATTGTTTCAACTCATACAAGCTTATTCT-AAAT
* * * *
319018 AAAAT-ATATTACTTTATTAATATTATAAAAATTGATAAGATAGAGATTTAAAACATAAATC-AG
1 AAAATAATACTAATTTATTAATATTA-AAAAATTAATAAGA-AGA-ATTTAAAA-AAAAATCTA-
** * * *
319081 TTTATTGAATCAGTTCAAATAATTATGGCCATTTA-AACAATTATCTATTTCAAATCATTATGAA
61 TTTACCGAATCAGTTCAAATAGTTATGACTA-TTAGAACAATTATCTATTTCAAATCATTAT-AA
* *
319145 -CTTTTGTTTTGTCATAAAATAATTGTTTTTC-A-TCATACAAGCCTATTC-AGAAT
124 CCTTTTGTTTTGTCATAAAACAATTG--TTTCAACTCATACAAGCTTATTCTA-AAT
* *
319198 AAAATAATACTAATTTATTAATATTTGAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGT
1 AAAATAATACTAATTTATTAATA-TTAAAAAATTAATAAG-AAGA-ATTTAAAAAA-AAATCTAT
* * * * * * *
319263 TTATCGAATCGGTTCAAATAGTTATGACTATTTGAATAATTATATTTTTTC-AATCGTTATAACC
62 TTACCGAATCAGTTCAAATAGTTATGACTATTAGAACAATTAT-CTATTTCAAATCATTATAACC
* * * *
319327 TTTTGTTTTGTCATAAAACAATTATTT-ATCTTCATACAAACTTATTCAAAAT
126 TTTTGTTTTGTCATAAAACAATTGTTTCAAC-TCATACAAGCTTATTCTAAAT
* * ** * * *
319379 AAAATAATACTAATCTAGTAATATTATGAATTTAATAACTGATAG-ATTTAAAAAATAAATTTTT
1 AAAATAATACTAATTTATTAATATTAAAAAATTAATAA--GA-AGAATTTAAAAAA-AAATCTAT
* * * * * * *
319443 TTACTGAACCAATTCAAATAGTTAACG-CTA-TATGAATAATTATCTATTTTAAATCATTATGAC
62 TTACCGAATCAGTTCAAATAGTT-ATGACTATTA-GAACAATTATCTATTTCAAATCATTATAAC
* **** * * * *
319506 CTTTTGTTTTGTCATAAAACAAATGTTTTTGTTCATATAAGTTTGTTCGAAAT
125 CTTTTGTTTTGTCATAAAACAATTGTTTCAACTCATACAAGCTTATTCTAAAT
* * * *
319559 AAAATAATATTAATTTATTAATATTTCAAAAATTAGTAAG-AG-ATTTAATAAATAAATCTATTT
1 AAAATAATACTAATTTATTAATA-TTAAAAAATTAATAAGAAGAATTTAA-AAAAAAATCTATTT
319622 ACC
64 ACC
319625 ATACTAGTTC
Statistics
Matches: 765, Mismatches: 154, Indels: 93
0.76 0.15 0.09
Matches are distributed among these distances:
175 2 0.00
176 27 0.04
177 20 0.03
178 46 0.06
179 180 0.24
180 306 0.40
181 168 0.22
182 16 0.02
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (177 bp):
AAAATAATACTAATTTATTAATATTAAAAAATTAATAAGAAGAATTTAAAAAAAAATCTATTTAC
CGAATCAGTTCAAATAGTTATGACTATTAGAACAATTATCTATTTCAAATCATTATAACCTTTTG
TTTTGTCATAAAACAATTGTTTCAACTCATACAAGCTTATTCTAAAT
Found at i:319461 original size:540 final size:540
Alignment explanation
Indices: 318483--319592 Score: 1223
Period size: 540 Copynumber: 2.1 Consensus size: 540
318473 CTATTTATAC
* * ** * *
318483 AAAATAATATTATTTTATTACTATTTTGAAAA-T--TAATA-AGAGATTTAAAAACTAAATCTCT
1 AAAATAATATTAATTTATTAATATTTCAAAAATTGATAAGATAGAGATTTAAAAACTAAATCACT
* * * * * *
318544 TTATCGAACCAGTTCAAATAGTTATGACTAATTGAACAATTATCTATCTCCAATCGCTATGATTT
66 TTATCGAACCAGTTCAAATAATTATGACCAATTAAACAATTATCTATCTCAAATCACTATGACTT
* * ** * * * *
318609 TTGTTTTGTCCTAAAACATTTAATTTATGTTCAACAAGCTTATTCAGAGTAAAATATTGCTAAAT
131 TTGTTTTGTCATAAAACAATTAATTTATCATCAACAAGCCTATTCAGAATAAAATAATACTAAAT
* * * * *
318674 TAATAATATTCTAAACATTAATATGAAAGGATTTAAAAAATAAATGTGTTTTTTGAATCAATTCA
196 TAATAATATTCTAAAAATTAATAAGAAAGGATTTAAAAAATAAATCTGTTTATCGAATCAATTCA
*
318739 AATAGTTAAGACTATTAGAAGAATTATCTATTTCAAATCATTTTAACCTTTTGTTTAGTCATAAA
261 AATAGTTAAGACTATTAGAAGAATTATCTATTTCAAATCATTATAACCTTTTGTTTAGTCATAAA
* * ** * * *
318804 ATAATTGCTTCAACTCATACATGCTTATTCTAAATAAAATAATACTAATTTATTAATATTCAAAA
326 ACAATTGATTCAACTCATACAAACTTATTCAAAATAAAATAATACTAATCTAGTAATATTCAAAA
* ***
318869 AATTATTAAGCAAGAAATTAGAAAAAAAATCTATTTACCGAACAAGTTCAAATA-TTTTTGACTA
391 AATTAATAAGCAAGAAATTAGAAAAAAAATCTATTTACCGAACAAGTTCAAATAGTTAACG-CTA
* *
318933 TTTGAACAATTATCTATTTAAAATCATTATGACCTTATATTTTATCATAAAA-AATTGTTTCAGT
455 TATGAACAATTATCTATTTAAAATCATTATGACCTTATATTTTATCATAAAACAAATGTTTCAGT
318997 TCATAAAAGCTTA-TCTGAAAT
520 TCATAAAAGCTTATTC-GAAAT
*
319018 AAAAT-ATATTACTTTATTAATATTAT-AAAAATTGATAAGATAGAGATTT-AAAACATAAATCA
1 AAAATAATATTAATTTATTAATATT-TCAAAAATTGATAAGATAGAGATTTAAAAAC-TAAATCA
* * * * * * *
319080 GTTTATTGAATCAGTTCAAATAATTATGGCCATTTAAACAATTATCTATTTCAAATCATTATGAA
64 CTTTATCGAACCAGTTCAAATAATTATGACCAATTAAACAATTATCTATCTCAAATCACTATG-A
* * *
319145 CTTTTGTTTTGTCATAAAATAATT-GTTTTTCATCATACAAGCCTATTCAGAATAAAATAATACT
128 CTTTTGTTTTGTCATAAAACAATTAATTTATCATCA-ACAAGCCTATTCAGAATAAAATAATACT
* * *
319209 AATTTATTAATATT-TGAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTATCGAATC
192 AAATTAATAATATTCT-AAAAATTAATAAGAAAG-GATTTAAAAAATAAATCTGTTTATCGAATC
** * * * * * * *
319273 GGTTCAAATAGTTATGACTATTTGAATAATTATATTTTTTC-AATCGTTATAACCTTTTGTTTTG
255 AATTCAAATAGTTAAGACTATTAGAAGAATTAT-CTATTTCAAATCATTATAACCTTTTGTTTAG
* *
319337 TCATAAAACAATT-ATTTATCTTCATACAAACTTATTCAAAATAAAATAATACTAATCTAGTAAT
319 TCATAAAACAATTGATTCAAC-TCATACAAACTTATTCAAAATAAAATAATACTAATCTAGTAAT
** * * * * *
319401 ATT-ATGAATTTAATAA-CTGATAG-ATTTA-AAAAATAAATTTTTTTACTGAACCAA-TTCAAA
383 ATTCAAAAAATTAATAAGC--A-AGAAATTAGAAAAA-AAATCTATTTACCGAA-CAAGTTCAAA
* * * * *
319461 TAGTTAACGCTATATGAATAATTATCTATTTTAAATCATTATGACCTTTTGTTTTGTCATAAAAC
443 TAGTTAACGCTATATGAACAATTATCTATTTAAAATCATTATGACCTTATATTTTATCATAAAAC
** * * *
319526 AAATGTTTTTGTTCATATAAGTTTGTTCGAAAT
508 AAATGTTTCAGTTCATAAAAGCTTATTCGAAAT
319559 AAAATAATATTAATTTATTAATATTTCAAAAATT
1 AAAATAATATTAATTTATTAATATTTCAAAAATT
319593 AGTAAGAGAT
Statistics
Matches: 473, Mismatches: 80, Indels: 37
0.80 0.14 0.06
Matches are distributed among these distances:
534 21 0.04
535 7 0.01
537 9 0.02
538 74 0.16
539 89 0.19
540 203 0.43
541 43 0.09
542 27 0.06
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (540 bp):
AAAATAATATTAATTTATTAATATTTCAAAAATTGATAAGATAGAGATTTAAAAACTAAATCACT
TTATCGAACCAGTTCAAATAATTATGACCAATTAAACAATTATCTATCTCAAATCACTATGACTT
TTGTTTTGTCATAAAACAATTAATTTATCATCAACAAGCCTATTCAGAATAAAATAATACTAAAT
TAATAATATTCTAAAAATTAATAAGAAAGGATTTAAAAAATAAATCTGTTTATCGAATCAATTCA
AATAGTTAAGACTATTAGAAGAATTATCTATTTCAAATCATTATAACCTTTTGTTTAGTCATAAA
ACAATTGATTCAACTCATACAAACTTATTCAAAATAAAATAATACTAATCTAGTAATATTCAAAA
AATTAATAAGCAAGAAATTAGAAAAAAAATCTATTTACCGAACAAGTTCAAATAGTTAACGCTAT
ATGAACAATTATCTATTTAAAATCATTATGACCTTATATTTTATCATAAAACAAATGTTTCAGTT
CATAAAAGCTTATTCGAAAT
Found at i:319919 original size:6 final size:6
Alignment explanation
Indices: 319908--319993 Score: 51
Period size: 6 Copynumber: 14.8 Consensus size: 6
319898 TAATACCTAA
* *
319908 TAATAT TAATAT TATTA- TAACTA- -AATAT TAATAT T-AT-T TATTAT
1 TAATAT TAATAT TAATAT TAA-TAT TAATAT TAATAT TAATAT TAATAT
* *
319952 TAATAT CAATAT TAATTAT TATTAAT TAAT-T CT-ATAT TAATA
1 TAATAT TAATAT TAA-TAT TAAT-AT TAATAT -TAATAT TAATA
319994 ATTTAATTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
4 4 0.06
5 11 0.18
6 37 0.60
7 10 0.16
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.51
Consensus pattern (6 bp):
TAATAT
Found at i:319956 original size:22 final size:21
Alignment explanation
Indices: 319908--319977 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 21
319898 TAATACCTAA
*
319908 TAATATTAATATTATTATAACT
1 TAATATTAATATTATTATTA-T
*
319930 AAATATTAATATTATTTATTAT
1 TAATATTAATATTA-TTATTAT
*
319952 TAATATCAATATTAATTATTAT
1 TAATATTAATATT-ATTATTAT
319974 TAAT
1 TAAT
319978 TAATTCTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
22 36 0.86
23 6 0.14
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATATTAATATTATTATTAT
Found at i:319976 original size:10 final size:10
Alignment explanation
Indices: 319934--320012 Score: 54
Period size: 10 Copynumber: 7.5 Consensus size: 10
319924 ATAACTAAAT
319934 ATTAATATTA
1 ATTAATATTA
* *
319944 TTTATTATTA
1 ATTAATATTA
319954 ATATCAATATTA
1 AT-T-AATATTA
*
319966 ATTATTATTA
1 ATTAATATTA
319976 ATTAAT-TCTA
1 ATTAATAT-TA
319986 TATTAATAATTTA
1 -ATTAAT-A-TTA
*
319999 ATTAAAATT-
1 ATTAATATTA
320008 ATTAA
1 ATTAA
320013 CTGTTTAGTT
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
9 6 0.11
10 24 0.44
11 9 0.16
12 13 0.24
13 2 0.04
14 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTAATATTA
Found at i:319988 original size:25 final size:26
Alignment explanation
Indices: 319909--319998 Score: 77
Period size: 26 Copynumber: 3.6 Consensus size: 26
319899 AATACCTAAT
319909 AATATTAA-TA-TTATTA-TAACTA--
1 AATATTAATTATTTATTATTAA-TATC
319931 AATATTAATATTATTTATTATTAATATC
1 AATATT-A-ATTATTTATTATTAATATC
319959 AATATTAATTA-TTATTAATTAAT-TC
1 AATATTAATTATTTATT-ATTAATATC
* *
319984 TATATTAATAATTTA
1 AATATTAATTATTTA
319999 ATTAAAATTA
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
22 6 0.11
23 1 0.02
24 1 0.02
25 18 0.32
26 21 0.37
27 4 0.07
28 6 0.11
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (26 bp):
AATATTAATTATTTATTATTAATATC
Found at i:321983 original size:23 final size:26
Alignment explanation
Indices: 321931--321993 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 26
321921 TTTTGTAAAC
*
321931 AAATTATATTTTTTAAATTTCTACTT
1 AAATTATATTTTTTAAATATCTACTT
321957 --ATTA-ATTTTTTAAATAT-TA-TT
1 AAATTATATTTTTTAAATATCTACTT
321978 AAATTAGTATTATTTT
1 AAATTA-TATT-TTTT
321994 TAATCGGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
21 2 0.06
22 2 0.06
23 16 0.52
24 4 0.13
25 3 0.10
26 4 0.13
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.59
Consensus pattern (26 bp):
AAATTATATTTTTTAAATATCTACTT
Found at i:324293 original size:538 final size:539
Alignment explanation
Indices: 323518--324678 Score: 1311
Period size: 538 Copynumber: 2.1 Consensus size: 539
323508 TTGTGATCTA
* * * * *
323518 AAACAATTGTTTTATGATAAAATAAAAGGTCATAATGATTTTAGATAGATAATTATTCAAATAGT
1 AAACAATTGTTTTATGACAAAATAAAATGTCATAATGATTTGAAATAGATAA-TATTCAAATAGA
* * * * **
323583 CATAACTATTTGAACTTGTTCAGTAAATAAATTTATTTTTTTAAATTTCTTGCTTATTAATTTTT
65 CATAACTATTTAAACTAGTTCAATAAATAAATTTAATTTTTTAAATTTCTAACTTATTAATTTTT
* *** *
323648 TGAATGTTAATAAATTAGTATTATTTTATTTTGAATAAGCATGTATGAACTGAAACAATTATTTT
130 AGAATGTTAATAAATTAGTATTATTTTATTCCAAATAAACATGTATGAACTGAAACAATTATTTT
* * * * * * * * *
323713 ATGACTAAACAAAAGGTTAGAATGATTTGAAATAGATAATTGTTCTAATAGTCTTAACTATTTGA
195 ATAACAAAACAAAAGGATAGAATAATTTGAAATAAATAATTGTTCAAACAATCATAACTATTTGA
* *
323778 ACTGGA-TCAGCAAACACATTTTATGTTTTAAATGC-TTACTTATTAAACTTTAGAATATT-ATT
260 ACT-CACTCAGCAAACA-ATTTTATGTTTTAAAT-CTTTACTTACT-AACTTTAGAATATTAATT
* * *
323840 AACTTAGCAATT-TTTTACTCTAAATAAGCTTGTATGAATAGAAACAAAAGGTTTAAGACAAAAC
321 AA-TTAG-AATTATTTTACTCCAAATAAGCTTGTATGAACAAAAACAAAAGGTTTAAGACAAAAC
* * * *
323904 AAA-GATCATAACAATTTGAGATAGATAATTGTTTAAATAGTTATAATTATTCAAACTG-GTTA-
384 AAATGATCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTCAAA-TGTG-TAC
* *
323966 GGTAAAGAGATTTAGTTTT-T-AAA-TCT-CTTATTAA-TTTTTGAAATAGTAATAAA-TTAGTA
447 AGAAAAGAGATTTA-TTTTCTAAAATTCTACTTATTAATTTTTTG-AATAGTAATAAATTTA-TA
* *
324025 TTATTTTATT-ATAAATA-ATTGTATATGAATAG
509 TTATTTTATTCA-AAATACATTG--CATGAACAG
** *
324057 AAACAATTGTTTTATGACAAAATAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATGGA
1 AAACAATTGTTTTATGACAAAATAAAATGTCATAATGATTTGAAATAGATAATA-TTCAAATAGA
*
324122 CATGACTATTTAAACTAGTTCAATAAACT-AA-TTAATTTTTTAAATCTTC-AACTTATTAATTT
65 CATAACTATTTAAACTAGTTCAATAAA-TAAATTTAATTTTTTAAAT-TTCTAACTTATTAATTT
* * *
324184 TTAGAATGTTAATATATTAGTATTATTTTATTCCAAATAAACTTGTATGAA-TAGAAACAATTGT
128 TTAGAATGTTAATAAATTAGTATTATTTTATTCCAAATAAACATGTATGAACT-GAAACAATTAT
*
324248 TTTATAACAAAACAAAA-GATCGTAATAATTTGAAATAAATAATTGTTCAAACAATCATAACTAT
192 TTTATAACAAAACAAAAGGATAG-AATAATTTGAAATAAATAATTGTTCAAACAATCATAACTAT
* * * * *
324312 TTGAACTCACTCGGTAAACAATTTTATTTTTTAAATCTTTTACTTACTAATTTTGGAATATTAAT
256 TTGAACTCACTCAGCAAACAATTTTATGTTTTAAATC-TTTACTTACTAACTTTAGAATATTAAT
* * ** *
324377 TAATTAGAATTATTTTATTCCAAATAAGCTTGTTTGAACAAAAACAATTGGTTTATGACAAAACA
320 TAATTAGAATTATTTTACTCCAAATAAGCTTGTATGAACAAAAACAAAAGGTTTAAGACAAAACA
* ** **
324442 AATGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAATGTGTACAGA
385 AATGATCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTCAAATGTGTACAGA
* * * *
324507 AAATAGCTTTATTTTCTAAAATTTTACTTATTAATTTTTTGAATATTAATAAATTTATATTATTT
450 AAAGAGATTTATTTTCTAAAATTCTACTTATTAATTTTTTGAATAGTAATAAATTTATATTATTT
*
324572 TATTCAAAATACGCTTGCATGAACAG
515 TATTCAAAATAC-ATTGCATGAACAG
* * * *
324598 AACCAATTGTTTTATGACAAAACAAAATGTCATAATGTTTTGAAATAGATAAT-TGCTTAAATAG
1 AAACAATTGTTTTATGACAAAATAAAATGTCATAATGATTTGAAATAGATAATAT--TCAAATAG
* *
324662 TCATAACTATTTCAACT
64 ACATAACTATTTAAACT
324679 TGATCGATAA
Statistics
Matches: 522, Mismatches: 76, Indels: 46
0.81 0.12 0.07
Matches are distributed among these distances:
536 5 0.01
537 91 0.17
538 213 0.41
539 86 0.16
540 3 0.01
541 111 0.21
542 10 0.02
543 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (539 bp):
AAACAATTGTTTTATGACAAAATAAAATGTCATAATGATTTGAAATAGATAATATTCAAATAGAC
ATAACTATTTAAACTAGTTCAATAAATAAATTTAATTTTTTAAATTTCTAACTTATTAATTTTTA
GAATGTTAATAAATTAGTATTATTTTATTCCAAATAAACATGTATGAACTGAAACAATTATTTTA
TAACAAAACAAAAGGATAGAATAATTTGAAATAAATAATTGTTCAAACAATCATAACTATTTGAA
CTCACTCAGCAAACAATTTTATGTTTTAAATCTTTACTTACTAACTTTAGAATATTAATTAATTA
GAATTATTTTACTCCAAATAAGCTTGTATGAACAAAAACAAAAGGTTTAAGACAAAACAAATGAT
CATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTCAAATGTGTACAGAAAAGAG
ATTTATTTTCTAAAATTCTACTTATTAATTTTTTGAATAGTAATAAATTTATATTATTTTATTCA
AAATACATTGCATGAACAG
Found at i:324462 original size:180 final size:180
Alignment explanation
Indices: 323215--324678 Score: 1274
Period size: 181 Copynumber: 8.1 Consensus size: 180
323205 TTGAAATATG
* * **
323215 AATAGTCATAACTATTTGAA-TTAGTTCAATAAACAGATTTATTTTTTAAATCTCCTACTTATTA
1 AATAGTCATAACTATTTGAACTGA-TTCAGTAAACA-ATTTATTTTTTAAATCTTTTACTTATTA
* * * ** *
323279 ATTTTT-GAAATATTAATAAATTA-ATATTATTTTATTACGAATAAGCTAGTATGATGAAAAACA
64 ATTTTTAG-AATATTAATAAATTAGA-ATTATTTTATTCCAAATAAGCTTGTATGAACAGAAACA
* * * *
323342 ATTGTTTTATGTCAAAACAAAAGTTCATAATGATTTGAAATAGATAAATATTCA
127 ATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCA
* * * * * * * *
323396 AATGGCCATAATTATTTTAATTGATTC-GATAAACTGATTTATGTTTTAAATCTTTAACTTATTA
1 AATAGTCATAACTATTTGAACTGATTCAG-TAAAC-AATTTATTTTTTAAATCTTTTACTTATTA
* * **** * * * *
323460 ATTTTTAAAATATTAATAAAGTA-ATATTATTTTATTTGGGACAAGCTTTTGTGATCTA-AAACA
64 ATTTTTAGAATATTAATAAATTAGA-ATTATTTTATTCCAAATAAGCTTGTATGAAC-AGAAACA
* * * * *
323523 ATTGTTTTATGATAAAATAAAAGGTCATAATGATTTTAGATAGATAATTATTCA
127 ATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCA
* *
323577 AATAGTCATAACTATTTGAACTTG-TTCAGTAAATAAATTTATTTTTTTAAAT-TTCTTGCTTAT
1 AATAGTCATAACTATTTGAAC-TGATTCAGTAAA-CAATTTA-TTTTTTAAATCTT-TTACTTAT
* * * *** * *
323640 TAATTTTTTGAATGTTAATAAATTAGTATTATTTTATTTTGAATAAGCATGTATGAACTGAAACA
62 TAATTTTTAGAATATTAATAAATTAGAATTATTTTATTCCAAATAAGCTTGTATGAACAGAAACA
* * * * *
323705 ATTATTTTATGACTAAACAAAAGGTTAGAATGATTTGAAATAGATAATTGTTCT
127 ATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCA
* * *
323759 AATAGTCTTAACTATTTGAACTGGA-TCAGCAAACACATTTTATGTTTTAAATGC--TTACTTAT
1 AATAGTCATAACTATTTGAACT-GATTCAGTAAACA-A-TTTATTTTTTAAAT-CTTTTACTTAT
** * * * * *
323821 TAAACTTTAGAATATTATTAACTTAGCAATT-TTTTACTCTAAATAAGCTTGTATGAATAGAAAC
62 TAATTTTTAGAATATTAATAAATTAG-AATTATTTTATTCCAAATAAGCTTGTATGAACAGAAAC
** * * * ** * *
323885 AAAAGGTTTAAGACAAAAC-AAAGATCATAACAATTTGAGATAGATAATTGTTTA
126 AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCA
* * ** * * *
323939 AATAGTTATAATTATTCAAACTGGTT-AGGTAAAGAGATTTAGTTTTTAAATC---T-CTTATTA
1 AATAGTCATAACTATTTGAACTGATTCA-GTAAACA-ATTTATTTTTTAAATCTTTTACTTATTA
* * ** *
323999 ATTTTT-GAAATAGTAATAAATTAGTATTATTTTATTATAAATAA--TTGTATATGAATAGAAAC
64 ATTTTTAG-AATATTAATAAATTAGAATTATTTTATTCCAAATAAGCTTG--TATGAACAGAAAC
* * ** *
324061 AATTGTTTTATGACAAAATAAAATGTCATAACAATTTGAAATAGATAATAGTTCA
126 AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCA
* * * * * * **
324116 AATGGACATGACTATTTAAACT-AGTTCAATAAACTAATTAATTTTTTAAATCTTCAACTTATTA
1 AATAGTCATAACTATTTGAACTGA-TTCAGTAAAC-AATTTATTTTTTAAATCTTTTACTTATTA
* * * * *
324180 ATTTTTAGAATGTTAATATATTAGTATTATTTTATTCCAAATAAACTTGTATGAATAGAAACAAT
64 ATTTTTAGAATATTAATAAATTAGAATTATTTTATTCCAAATAAGCTTGTATGAACAGAAACAAT
* * * * *
324245 TGTTTTATAACAAAACAAAAGATCGTAATAATTTGAAATAAATAATTGTTCA
129 TGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCA
* * * * * *
324297 AACAATCATAACTATTTGAACTCACTCGGTAAACAATTTTATTTTTTAAATCTTTTACTTACTAA
1 AATAGTCATAACTATTTGAACTGATTCAGTAAACAA-TTTATTTTTTAAATCTTTTACTTATTAA
* * * *
324362 -TTTTGGAATATTAATTAATTAGAATTATTTTATTCCAAATAAGCTTGTTTGAACAAAAACAATT
65 TTTTTAGAATATTAATAAATTAGAATTATTTTATTCCAAATAAGCTTGTATGAACAGAAACAATT
* *
324426 GGTTTATGACAAAACAAATGGTCATAATGATTTGAAATAGATAATTGTTCA
130 GTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCA
* * * * *
324477 AATAGTCATAACTATTTGAA-TG-TGTACAGAAAATAGCTTTATTTTCTAAA-ATTTTACTTATT
1 AATAGTCATAACTATTTGAACTGAT-T-CAGTAAACA-ATTTATTTTTTAAATCTTTTACTTATT
* * * * * *
324539 AATTTTTTGAATATTAATAAATTTA-TATTATTTTATTCAAAATACGCTTGCATGAACAGAACCA
63 AATTTTTAGAATATTAATAAA-TTAGAATTATTTTATTCCAAATAAGCTTGTATGAACAGAAACA
* *
324603 ATTGTTTTATGACAAAACAAAATGTCATAATGTTTTGAAATAGATAATTGCTT-A
127 ATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTG-TTCA
*
324657 AATAGTCATAACTATTTCAACT
1 AATAGTCATAACTATTTGAACT
324679 TGATCGATAA
Statistics
Matches: 1037, Mismatches: 201, Indels: 90
0.78 0.15 0.07
Matches are distributed among these distances:
174 3 0.00
175 4 0.00
176 64 0.06
177 67 0.06
178 3 0.00
179 28 0.03
180 302 0.29
181 401 0.39
182 158 0.15
183 7 0.01
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.41
Consensus pattern (180 bp):
AATAGTCATAACTATTTGAACTGATTCAGTAAACAATTTATTTTTTAAATCTTTTACTTATTAAT
TTTTAGAATATTAATAAATTAGAATTATTTTATTCCAAATAAGCTTGTATGAACAGAAACAATTG
TTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCA
Found at i:324763 original size:92 final size:91
Alignment explanation
Indices: 324602--324770 Score: 214
Period size: 92 Copynumber: 1.8 Consensus size: 91
324592 GAACAGAACC
** *** *
324602 AATTGTTTTATGACAAAACAAAATGTCATAATGTTTTGAAATAGATAATTGCTTAAATAGTCATA
1 AATTGTTTTACAACAAAACAAAATGTCATAACAATTTGAAATAGATAATT-CTTAAATAGACATA
324667 ACTATTTCAACTTGATCGATAAGAAAT
65 ACTATTTCAACTTGATCGATAAGAAAT
* *
324694 AATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAGATAATAT-TTCAAATGGACAT
1 AATTGTTTTACAACAAAACAAAATGTCATAACAATTTGAAATAGATAAT-TCTT-AAATAGACAT
* *
324758 GACTATTTGAACT
64 AACTATTTCAACT
324771 GGTTCGGTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
91 2 0.03
92 62 0.95
93 1 0.02
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (91 bp):
AATTGTTTTACAACAAAACAAAATGTCATAACAATTTGAAATAGATAATTCTTAAATAGACATAA
CTATTTCAACTTGATCGATAAGAAAT
Found at i:325125 original size:458 final size:452
Alignment explanation
Indices: 324236--325131 Score: 998
Period size: 458 Copynumber: 2.0 Consensus size: 452
324226 TTGTATGAAT
* * *
324236 AGAAACAATTGTTTTATAACAAAACAAAAGATCGTAATAATTTGAAATAAATAATTGTTCAAACA
1 AGAAACAATTGTTTTACAACAAAACAAAAGATCATAACAATTTGAAATAAATAATTGTTCAAACA
* **
324301 ATCATAACTATTTGAACTCACTCGGTAAACAATTTTATTTTTTAAATCTTTTACTTACTAATTTT
66 ATCATAACTATTTGAACTCACTCGGTAAACAATTTAATTTTTTAAATCTTCAACTTACTAATTTT
* * *
324366 GGAATATTAATTAATTAGAATTATTTTATTCCAAATAAGCTTGTTTGAACAAAAACAATTGGTTT
131 AGAATATTAATTAATTAGAATTATTTTATTCCAAATAAACTTGTATGAACAAAAACAATTGGTTT
* *** * * *
324431 ATGACAAAACAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
196 ATAACAAAACAAAAAATCATAATGATTTGAAATAAATAATTGTTCAAACAATCATAACTATTTGA
*** * * *
324496 ATGTGTACAGAAAATAGCTTTATTTTCTAAAATTTTACTTATTAATTTTTTGAATATTAATAAAT
261 ATCACTACAGAAAACAGATTTATTTTCTAAAATTTTACTTATTAATTTTTGGAATATTAATAAAT
* * * *
324561 TTATATTATTTTATTCAAAATACGCTTGCATGAACAGAACCAATTGTTTTATGACAAAACAAAAT
326 TTAAATTATTTTATTCAAAATAAGCTTGCATGAACAGAAACAATTGGTTTATGACAAAACAAAAT
* *
324626 GTCATAATGTTTTGAAATAGATAATTGCTTAAATAGTCATAACTATTTCAACTTGATCGATA
391 GTCATAATGATTTGAAATAAATAATTGCTTAAATAGTCATAACTATTTCAACTTGATCGATA
* * *
324688 AGAAATAATTGTTTTACAACAAAATAAAATG-TCATAACAATTTGAAATAGATAATAT-TTCAAA
1 AGAAACAATTGTTTTACAACAAAACAAAA-GATCATAACAATTTGAAATAAATAAT-TGTTCAAA
** * *** *
324751 TGGA-CATGACTATTTGAACTGGTTCGGTAAACTAA-TTAATTTTTTAAATCTTCAACTTATTAA
64 -CAATCATAACTATTTGAACTCACTCGGTAAAC-AATTTAATTTTTTAAATCTTCAACTTACT-A
* *
324814 ATTTTAGAATGTTAA-TATATTAGTATTATTTTATTCCAAATAAACTTGTATGAA-ATAGAAACC
126 ATTTTAGAATATTAATTA-ATTAGAATTATTTTATTCCAAATAAACTTGTATGAACA-A-AAA-C
* *
324877 AATTGTTTTTATAACAAAA-AAAAAATCATAATGATTTTG-AATAAAATAATTGTTTTAAACAAT
187 AATTG-GTTTATAACAAAACAAAAAATCATAATGA-TTTGAAAT-AAATAATTG-TTCAAACAAT
* * *
324940 CCATAACTTATTTGACTCACT-CA-ATAAACA-ATTTGATTTTTTAAATCTTTTACTTATTAA-T
248 -CATAAC-TATTTGAATCACTACAGA-AAACAGATTT-ATTTTCTAAA-ATTTTACTTATTAATT
* * * ** *
325001 TTTGGCATATT-ATTAA-TTAGAATTATTTTTATTCCAAATAAGCTTGTTTTGAATAGAAAC-AT
308 TTTGGAATATTAATAAATTTA-AATTA-TTTTATTCAAAATAAGCTTG-CATGAACAGAAACAAT
*
325063 TGGTTTATGACAAAGC-AAATGGTCATAATGATTTGAAATAAATAATTG-TTCAAATAGTCATAA
370 TGGTTTATGACAAAACAAAAT-GTCATAATGATTTGAAATAAATAATTGCTT-AAATAGTCATAA
325126 CTATTT
433 CTATTT
325132 AAATGTGTTC
Statistics
Matches: 369, Mismatches: 52, Indels: 40
0.80 0.11 0.09
Matches are distributed among these distances:
452 102 0.28
453 53 0.14
454 3 0.01
455 21 0.06
456 26 0.07
457 25 0.07
458 108 0.29
459 31 0.08
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (452 bp):
AGAAACAATTGTTTTACAACAAAACAAAAGATCATAACAATTTGAAATAAATAATTGTTCAAACA
ATCATAACTATTTGAACTCACTCGGTAAACAATTTAATTTTTTAAATCTTCAACTTACTAATTTT
AGAATATTAATTAATTAGAATTATTTTATTCCAAATAAACTTGTATGAACAAAAACAATTGGTTT
ATAACAAAACAAAAAATCATAATGATTTGAAATAAATAATTGTTCAAACAATCATAACTATTTGA
ATCACTACAGAAAACAGATTTATTTTCTAAAATTTTACTTATTAATTTTTGGAATATTAATAAAT
TTAAATTATTTTATTCAAAATAAGCTTGCATGAACAGAAACAATTGGTTTATGACAAAACAAAAT
GTCATAATGATTTGAAATAAATAATTGCTTAAATAGTCATAACTATTTCAACTTGATCGATA
Found at i:325273 original size:638 final size:633
Alignment explanation
Indices: 324055--325330 Score: 2103
Period size: 638 Copynumber: 2.0 Consensus size: 633
324045 GTATATGAAT
**
324055 AGAAACAATTGTTTTATGACAAAATAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATG
1 AGAAACAATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATG
*
324120 GACATGACTATTTAAACTAGTTCAATAAACTAATTAATTTTTTAAATCTTCAACTTATTAATTTT
66 GACATGACTATTTAAACTAGTTCAATAAACTAATTAATTTTTTAAATCTTCAACTTATTAAATTT
324185 TAGAATGTTAATATATTAGTATTATTTTATTCCAAATAAACTTGTATGAATAGAAACAATTGTTT
131 TAGAATGTTAATATATTAGTATTATTTTATTCCAAATAAACTTGTATGAATAGAAACAATTGTTT
* *
324250 TATAACAAAACAAAAGATCGTAATAATTTGAAATAAATAATTGTTCAAACAATCATAACTATTTG
196 TATAACAAAACAAAAAATCATAATAATTTGAAATAAATAATTGTTCAAACAATCATAACTATTTG
** *
324315 AACTCACTCGGTAAACAATTTTATTTTTTAAATCTTTTACTTACTAATTTTGGAATATTAATTAA
261 AACTCACTCAATAAACAATTTGATTTTTTAAATCTTTTACTTACTAATTTTGGAATATTAATTAA
324380 TTAGAATTATTTTATTCCAAATAAGCTTGTTTGAACAAAAACAATTGGTTTATGACAAAACAAAT
326 TTAGAATTATTTTATTCCAAATAAGCTTGTTTGAACAAAAACAATTGGTTTATGACAAAACAAAT
* * *
324445 GGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAATGTGTACAGAAAA
391 GGTCATAATGATTTGAAATAAATAATTGTTCAAATAGTCATAACTATTTAAATGTGTACAAAAAA
* *
324510 TAGCTTTATTTTCTAAAATTTTACTTATTAATTTTTTGAATATTAATAAATTTATATTATTTTAT
456 TAGCTTTATTTTCTAAAATTATACTTATTAATTTTTGGAATATTAATAAATTTATATTATTTTAT
*
324575 TCAAAATACGCTTGCATGAACAGAACCAATTGTTTTATGACAAAACAAAATGTCATAATGTTTTG
521 TCAAAATACGCTTGCATGAACAGAACCAATTGTTTTATGACAAAACAAAACGTCATAATGTTTTG
* * *
324640 AAATAGATAATTGCTTAAATAGTCATAACTATTTCAACTTGATCGATA
586 AAATAAATAATTGCTTAAATAGTCATAACTATTTCAACTTGAACAATA
* *
324688 AGAAATAATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAGATAATATTTCAAATG
1 AGAAACAATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATG
* * **
324753 GACATGACTATTTGAACTGGTTCGGTAAACTAATTAATTTTTTAAATCTTCAACTTATTAAATTT
66 GACATGACTATTTAAACTAGTTCAATAAACTAATTAATTTTTTAAATCTTCAACTTATTAAATTT
324818 TAGAATGTTAATATATTAGTATTATTTTATTCCAAATAAACTTGTATGAAATAGAAACCAATTGT
131 TAGAATGTTAATATATTAGTATTATTTTATTCCAAATAAACTTGTATG-AATAGAAA-CAATTG-
* *
324883 TTTTATAACAAAA-AAAAAATCATAATGATTTTG-AATAAAATAATTGTTTTAAACAATCCATAA
193 TTTTATAACAAAACAAAAAATCATAAT-AATTTGAAAT-AAATAATTG-TTCAAACAAT-CATAA
* *
324946 CTTATTTG-ACTCACTCAATAAACAATTTGATTTTTTAAATCTTTTACTTATTAATTTTGGCATA
254 C-TATTTGAACTCACTCAATAAACAATTTGATTTTTTAAATCTTTTACTTACTAATTTTGGAATA
* *
325010 TT-ATTAATTAGAATTATTTTTATTCCAAATAAGCTTGTTTTGAATAGAAAC-ATTGGTTTATGA
318 TTAATTAATTAGAATTA-TTTTATTCCAAATAAGCTTG-TTTGAACAAAAACAATTGGTTTATGA
*
325073 CAAAGCAAATGGTCATAATGATTTGAAATAAATAATTGTTCAAATAGTCATAACTATTTAAATGT
381 CAAAACAAATGGTCATAATGATTTGAAATAAATAATTGTTCAAATAGTCATAACTATTTAAATGT
*
325138 GTTCAAAAAATAGCTTTATTTTCTAAAATTATACTTATTAATTTTTGGAATATTAATAAATTTAT
446 GTACAAAAAATAGCTTTATTTTCTAAAATTATACTTATTAATTTTTGGAATATTAATAAATTTAT
*
325203 ATTATTTTATTCAAAATACGCTTGCATGAACAGAACTAATTGTTTTATGACAAAACAAAACGTCA
511 ATTATTTTATTCAAAATACGCTTGCATGAACAGAACCAATTGTTTTATGACAAAACAAAACGTCA
* * * *
325268 TAATGTTTTGAAATAAATTATTGTTTAGATAGTCATAACTATTTCAATTTGAACAATA
576 TAATGTTTTGAAATAAATAATTGCTTAAATAGTCATAACTATTTCAACTTGAACAATA
325326 AGAAA
1 AGAAA
325331 ATTCACTTTT
Statistics
Matches: 597, Mismatches: 36, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
633 169 0.28
634 8 0.01
635 20 0.03
636 27 0.05
637 23 0.04
638 333 0.56
639 17 0.03
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (633 bp):
AGAAACAATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATG
GACATGACTATTTAAACTAGTTCAATAAACTAATTAATTTTTTAAATCTTCAACTTATTAAATTT
TAGAATGTTAATATATTAGTATTATTTTATTCCAAATAAACTTGTATGAATAGAAACAATTGTTT
TATAACAAAACAAAAAATCATAATAATTTGAAATAAATAATTGTTCAAACAATCATAACTATTTG
AACTCACTCAATAAACAATTTGATTTTTTAAATCTTTTACTTACTAATTTTGGAATATTAATTAA
TTAGAATTATTTTATTCCAAATAAGCTTGTTTGAACAAAAACAATTGGTTTATGACAAAACAAAT
GGTCATAATGATTTGAAATAAATAATTGTTCAAATAGTCATAACTATTTAAATGTGTACAAAAAA
TAGCTTTATTTTCTAAAATTATACTTATTAATTTTTGGAATATTAATAAATTTATATTATTTTAT
TCAAAATACGCTTGCATGAACAGAACCAATTGTTTTATGACAAAACAAAACGTCATAATGTTTTG
AAATAAATAATTGCTTAAATAGTCATAACTATTTCAACTTGAACAATA
Found at i:325695 original size:181 final size:179
Alignment explanation
Indices: 324694--325311 Score: 256
Period size: 180 Copynumber: 3.4 Consensus size: 179
324684 GATAAGAAAT
** * * * * **
324694 AATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAGATAATAT-TTCAAATGGACAT
1 AATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAAT-TGTTCAAATAGTTAT
* * * * ** * *
324758 GACTATTTGAACTGGTTCGGTAAACTA-ATTAATTTTTTAAATCTTCAACTTATTAAATTTTAGA
65 -AATATTTGAACTTGTTCAGTAAAC-AGATTTATTTTTTAAATCTTTTACTTATTAATTTTTAAA
* * * ** *
324822 ATGTTAATATATTAGTATTATTTTATTCCAAATAAACTTGTATGAA-ATAGAAACC
128 ATATTAATAAATTAATATTATTTTATT-TGAATAAGCTTGTATGAACA-A-AAA-C
* ** * * * * *
324877 AATTGTTTTTATAACAAAA-AAAAAATCATAATGATTTTG-AATAAAATAATTGTTTTAAACAAT
1 AATTG-TTTTATGACAAAACAAAAGGTCATAACGA-TTTGAAAT-AGATAATTG-TTCAAATAGT
* *** *
324940 CCATAACTTATTTG-ACTCACTCAATAAACA-ATTTGATTTTTTAAATCTTTTACTTATTAA-TT
62 -TATAA--TATTTGAACTTGTTCAGTAAACAGATTT-ATTTTTTAAATCTTTTACTTATTAATTT
*** * ** * * *
325002 TTGGCATATT-ATTAATTAGA-ATTATTTTTATTCCAAATAAGCTTGTTTTGAATAGAAAC
123 TTAAAATATTAATAAATTA-ATATTA-TTTTATT-TGAATAAGCTTG-TATGAACAAAAAC
* * * * * *
325061 -ATTGGTTTATGACAAAGCAAATGGTCATAATGATTTGAAATAAATAATTGTTCAAATAGTCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTTATA
* ** * * * * * **
325125 ACTATTT-AAATGTGTTCAAAAAATAGCTTTATTTTCTAAA-ATTATACTTATTAATTTTTGGAA
66 A-TATTTGAACT-TGTTCAGTAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTTTTAAAA
* ** * * *
325188 TATTAATAAATTTATATTATTTTATTCAAAATACGCTTGCATGAAC-AGAAC
129 TATTAATAAATTAATATTATTTTATT-TGAATAAGCTTGTATGAACAAAAAC
* * * * * * * *
325239 TAATTGTTTTATGACAAAACAAAACGTCATAATGTTTTGAAATAAATTATTGTTTAGATAGTCAT
1 -AATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTTAT
325304 AACTATTT
65 AA-TATTT
325312 CAATTTGAAC
Statistics
Matches: 345, Mismatches: 67, Indels: 49
0.75 0.15 0.11
Matches are distributed among these distances:
178 3 0.01
179 23 0.07
180 115 0.33
181 20 0.06
182 23 0.07
183 39 0.11
184 33 0.10
185 41 0.12
186 41 0.12
187 7 0.02
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (179 bp):
AATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTTATA
ATATTTGAACTTGTTCAGTAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTTTTAAAATA
TTAATAAATTAATATTATTTTATTTGAATAAGCTTGTATGAACAAAAAC
Found at i:326012 original size:181 final size:181
Alignment explanation
Indices: 324688--327082 Score: 1407
Period size: 181 Copynumber: 13.4 Consensus size: 181
324678 TTGATCGATA
* ** * * *
324688 AGAAATAATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAGATAA-TATTTCAAAT
1 AGAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTA-TTCAAAT
* ** * * * * * *
324752 GGACATGACTATTTGAACTGGTTCGGTAAACTA-ATTAATTTTTTAAATCT-TCAACTTATTAAA
65 AGTTATAACTATTTGAACTTGTTCAGTAAAC-AGATTTATTTTTTAAATCTCT-TACTTATTAAT
* * * * * * * *
324815 TTTTAGAATGTTAATATATTAGTATTATTTTATTCCAAATAAACTTGTATGAAAT
128 TTTTAAAATATTAATAAATTAATATTATTTTATTTCAAATAAGCTTATATG-AAC
* * * ** * * * *
324870 AGAAACCAATTGTTTTTATAACAAAA-AAAAAATCATAATGATTTTG-AATAAAATAATTGTTTT
1 AGAAA-TAATT-ATTTTATGACAAAACAAAAGGTCATAACGA-TTTGAAAT-AGATAATT-ATTC
* * * *** * *
324933 AAACAATCCATAACTTATTTG-ACTCACTCAATAAACA-ATTTGATTTTTTAAATCTTTTACTTA
61 AAATAGT-TATAAC-TATTTGAACTTGTTCAGTAAACAGATTT-ATTTTTTAAATCTCTTACTTA
*** * * * * *
324996 TTAA-TTTTGGCATATT-ATTAATTAGA-ATTATTTTTATTCCAAATAAGCTTGTTTTGAAT
123 TTAATTTTTAAAATATTAATAAATTA-ATATTA-TTTTATTTCAAATAAGCTT-ATATGAAC
* ** * * * * *
325055 AGAAA-CATTGGTTTATGACAAAGCAAATGGTCATAATGATTTGAAATAAATAATTGTTCAAATA
1 AGAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATA
* * ** * * * *
325119 GTCATAACTATTT-AAATGTGTTCAAAAAATAGCTTTATTTTCTAAAAT-T-ATACTTATTAATT
66 GTTATAACTATTTGAACT-TGTTCAGTAAACAGATTTATTTT-TTAAATCTCTTACTTATTAATT
** * * **
325181 TTTGGAATATTAATAAATTTATATTATTTTA-TTCAAAATACGCTTGCATGAAC
129 TTTAAAATATTAATAAATTAATATTATTTTATTTC-AAATAAGCTTATATGAAC
* * * * * * * * * *
325234 AGAACTAATTGTTTTATGACAAAACAAAACGTCATAATGTTTTGAAATAAATTATTGTTTAGATA
1 AGAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATA
* * * ** * * * *
325299 GTCATAACTATTTCAATTTGAACAATAAGA-AAATTCA-CTTTT---T-T-TT--TT-TTAATTC
66 GTTATAACTATTTGAACTTGTTCAGTAA-ACAGATTTATTTTTTAAATCTCTTACTTATTAATT-
*** ** * *
325354 TGTTACTCT-TTAAT-TTTTGAAATATTATTTTATCTCAAATAGGCTTATATGAACTG-A-
129 T-TTAAAATATTAATAAATT--AATATTATTTTATTTCAAATAAGC-T-TAT--A-TGAAC
* * * * * * *
325411 AG-CA--ATTATTTTATTACAAAACAAAAGCTCA-AGATGATTTGAAATAGATTATTAGTCAAAG
1 AGAAATAATTATTTTATGACAAAACAAAAGGTCATA-ACGATTTGAAATAGATAATTATTCAAAT
* * * * * * *
325472 AGTTATGACTATTTGAACTTGTTCGGCAAACATATTTATTTTTTAAATCTTTTACTTATAAATTA
65 AGTTATAACTATTTGAACTTGTTCAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTT
* * *
325537 TCAAAATATTAATAAATTAATATTATTTTATTAT-GAATAAGC-TAGTATAAAC
130 TTAAAATATTAATAAATTAATATTATTTTATT-TCAAATAAGCTTA-TATGAAC
* * * * * * *
325589 AAAAACAATTGTTTTATGACAAAACAAAAAGTCATAACAATTTGAAATAAATAATTGTTCAAATA
1 AGAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATA
* *
325654 GTTATAA-TGATTTGAACTTGTTCAGTAAATAGATTTA-TTTTTAAATCTTTTACTTATTAATTG
66 GTTATAACT-ATTTGAACTTGTTCAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATT-
* * *
325717 TCTT--AAT-TTAATAAATTTATATTATTTTA-TTCAAAATAAGCTTGTTTGAAC
129 T-TTAAAATATTAATAAATTAATATTATTTTATTTC-AAATAAGCTTATATGAAC
* * * * * * * *
325768 AGAAAAAATCATTTTATGACAAAGCAAAAGGTTATAGCGATTTCCAATTA-ATAATTGTTCAAAT
1 AGAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTT-GAAATAGATAATTATTCAAAT
* * * * *
325832 AATTATAATTATTTAAACTTGTTCAATAAACAGATTTATTTTTTAAATCTCTTAATTATTAATTT
65 AGTTATAACTATTTGAACTTGTTCAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTT
* * * *
325897 TCAAAATATTAATAACTTAATATTATTTTATTTCGAATAAGCTTATATGAAT
130 TTAAAATATTAATAAATTAATATTATTTTATTTCAAATAAGCTTATATGAAC
* * * * * *
325949 TGAAATAATTTTTTTATGATAGAAGAAAAGGTCATAACGATTTGAAATAGATAACTATTCAAATA
1 AGAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATA
* * * * * *
326014 GTCATGACTATTT-AATCTAGTTCAGTAAAC--A--TA---TTT-AATTTTTTACTTATTAATTG
66 GTTATAACTATTTGAA-CTTGTTCAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTT
** * * * * * *
326070 TCGAAATATTAATAAATTTATATTATTTTAATCCGAATAAGCTTGA-ATAAAT
130 TTAAAATATTAATAAATTAATATTATTTTATTTCAAATAAGCTT-ATATGAAC
* * * * *
326122 AGAAACT-ATTATCTTATAACAAAACCAAAA-GTCATAATGATTTGAAATAAATAATTGCTT-AA
1 AGAAA-TAATTATTTTATGACAAAA-CAAAAGGTCATAACGATTTGAAATAGATAATT-ATTCAA
* * * *
326184 ATAATCT-T-A--ATTTGAACTAGTT-TGATAAACAGATTTATTTTTTAAA-AT-TT--TTATTA
63 ATAGT-TATAACTATTTGAACTTGTTCAG-TAAACAGATTTATTTTTTAAATCTCTTACTTATTA
* * * * * *
326240 ATTTTTGAAATATTAATAGATTAGTATTATTTTATTTCGAACAAACTTATATGAAC
126 ATTTTTAAAATATTAATAAATTAATATTATTTTATTTCAAATAAGCTTATATGAAC
* * * *
326296 A-AAA-ACATTAGTTTTATGATAAAACAAAATGTCATAACAATTTGAAATAGATAATTGTTCAAA
1 AGAAATA-ATTA-TTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAA
* * * * *
326359 TAGTCATAATTATTTGAA-TTGGTT-AGGTAAACAAAATTATTTTTTAATTCTCTTACTTATTAA
64 TAGTTATAACTATTTGAACTT-GTTCA-GTAAACAGATTTATTTTTTAAATCTCTTACTTATTAA
* * * * *
326422 TTTTTGAAATTTTAATAAATTTATTTTATTTTA-TTCTAAATAAGC-TAGTATGAAT
127 TTTTTAAAATATTAATAAATTAATATTATTTTATTTC-AAATAAGCTTA-TATGAAC
* * * * **
326477 TGAAA-ATATTGTTTTATGACAAAACAAAAGGTTATAATGATTTGAAATAGATAATTATTCATGT
1 AGAAATA-ATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAAT
* * * * * * * *
326541 TGTTTTAACTATTTGAACTAGTTCGGCAAATA-ATTTTATATTTTAAATCTCTTAGTTATTAATT
65 AGTTATAACTATTTGAACTTGTTCAGTAAACAGA-TTTATTTTTTAAATCTCTTACTTATTAATT
* * * * * * *
326605 TTTAGAATATTATTATATTAGTTTTATTTTAATTCAAATAAGCTTGA-CTGAAC
129 TTTAAAATATTAATAAATTAATATTATTTTATTTCAAATAAGCTT-ATATGAAC
* * * * *
326658 AGAAATAATTGTTTTATGACAAAACAAAAGGTTATAATGATTTGAAATCGATAATTATTCATATA
1 AGAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATA
* * * * * * * *
326723 GTTTTAACTATTTGAACTAGTCCAGCAAA-A-ATTTTATATTTTAAATATGTTAGTTATTAATTT
66 GTTATAACTATTTGAACTTGTTCAGTAAACAGA-TTTATTTTTTAAATCTCTTACTTATTAATTT
* * * * * * *
326786 TTAGAATATTATTATATTAGTTTTATTTTATTTCAAATAAGCTTGTATGAAT
130 TTAAAATATTAATAAATTAATATTATTTTATTTCAAATAAGCTTATATGAAC
* * * * * * ** *
326838 AGAAATAATTATTTTATGACAAAACAAAAGGTTATAACAATTTGAAGTATACAACTGCTCTAATA
1 AGAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATA
* ** * *
326903 GTCATAACTATTTGAA-TTGATTTTGTAAATAGATTTATTTTTTAAATCTATTACTTATTAATTT
66 GTTATAACTATTTGAACTTG-TTCAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTT
* * * * * *
326967 TTGAAAGATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTAT-AATA
130 TTAAAATATTAATAAATTAATATTATTTTATTTCAAATAAGCTTATATGAA-C
* * ** * * * * *
327019 AAAAATAATTGTCATATGACCAAACAAAAGGTAAGAACAATTTGAAATAGATAATTATTGAAAT
1 AGAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAAT
327083 GGCCATAATT
Statistics
Matches: 1746, Mismatches: 349, Indels: 237
0.75 0.15 0.10
Matches are distributed among these distances:
169 1 0.00
170 15 0.01
171 2 0.00
172 10 0.01
173 131 0.08
174 193 0.11
175 11 0.01
176 5 0.00
177 39 0.02
178 13 0.01
179 153 0.09
180 347 0.20
181 605 0.35
182 54 0.03
183 44 0.03
184 31 0.02
185 45 0.03
186 40 0.02
187 7 0.00
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (181 bp):
AGAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATA
GTTATAACTATTTGAACTTGTTCAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTT
TAAAATATTAATAAATTAATATTATTTTATTTCAAATAAGCTTATATGAAC
Found at i:326476 original size:528 final size:527
Alignment explanation
Indices: 325055--327102 Score: 1494
Period size: 542 Copynumber: 3.8 Consensus size: 527
325045 TGTTTTGAAT
* * *
325055 AGAAAC-ATTGGTTTATGAC-AAAGCAAATGGTCATAATGATTTGAAATAAATAATTGTTCAAAT
1 AGAAACTATTGTTTTATGACAAAACCAAA-AGTCATAATGATTTGAAATAAATAATTGTTCAAAT
* * * * * *
325118 AGTCATAACTATTT-AAAT-GTGTTCAAAAAATAGCTTTATTTTCTAAA-ATTATACTTATTAAT
65 AGT-TTAA-TATTTGAACTAGT-TT-GATAAA-AGATTTATTTTTTAAATATT-TA-TTATTAAT
* * * *
325180 TTTTGGAATATTAATAAATTTA-TATTATTTTA-TTCAAAATACGCTTGCATGAACAGAACTAAT
123 TTTT-AAATATTAATAAA-TTAGTATTATTTTATTTCAAAA-A-ACTTGTATGAACAGAA-AAAT
* * * *** * * * *
325243 TGTTTTATGACAAAACAAAACGTCATAATGTTTTGAAATAAATTATTGTTTAGATAGTCATAACT
183 TATTTTATGACAAAACAAAAGGTTATAACAATTTGAAAT-AATAATTGTTCAAATAGTCATAATT
* *** * * * * * * * * *
325308 ATTTCAATTTGAACAATAAGA-AAATTCACTTTTTT---TTTTTTAATTCTGTTACTCTTT--AA
247 ATTTGAA-TTGGTTAGTAA-ACAGATTTA-TTTTTTAAATCTCTT-ACT-TATTAATTTTTGAAA
* * * * * * * *
325367 T-TT-TTGAA---ATATTATTTTATCTCAAATAGGCTTATATGAACTGAAGCA-ATTATTTTATT
307 TATTAATAAATTTATATTATTTTATTTCAAATAAGCTTATATGAATTGAA-AATATTGTTTTATG
* * * * * * * *
325426 ACAAAACAAAAGCTCA-AGATGATTTGAAATAGATTATTAGTCAAAGAGTTATGACTATTTGAAC
371 ACAAAACAAAAGGTCATA-ACGATTTGAAATAGATAACTATTCAAATAGTCATAACTATTTGAAC
* * * *
325490 TTGTTCGGCAAAC-ATATTTATTTTTTAAATCTTTTACTTATAAATTATCAAAATATTAATAAAT
435 TAGTTCAGCAAACAAT-TTTA-TATTT--A--TTTTACTTATTAATT-TCAAAATATTAATAAAT
* * * * *
325554 TAATATTATTTTATTATGAATAAGCTAGTATAAAC
493 TTATATTATTTTAATACGAATAAGCTTGAATAAAC
* * * **
325589 AAAAACAATTGTTTTATGACAAAACAAAAAGTCATAACAATTTGAAATAAATAATTGTTCAAATA
1 AGAAACTATTGTTTTATGACAAAACCAAAAGTCATAATGATTTGAAATAAATAATTGTTCAAATA
* * *
325654 GTTATAATGATTTGAACTTG-TTCAGTAAATAGATTTA-TTTTTAAATCTTTTACTTATTAATTG
66 GTT-TAAT-ATTTGAACTAGTTTGA-TAAA-AGATTTATTTTTTAAAT-ATTTA-TTATTAATT-
* *
325717 TCTT-AAT-TTAATAAATTTA-TATTATTTTA-TTCAAAATAAGCTTGTTTGAACAGAAAAAATC
124 T-TTAAATATTAATAAA-TTAGTATTATTTTATTTCAAAA-AA-CTTGTATGAACAG-AAAAATT
* * * * * * *
325778 ATTTTATGACAAAGCAAAAGGTTATAGCGATTTCCAATTAATAATTGTTCAAATAATTATAATTA
184 ATTTTATGACAAAACAAAAGGTTATAACAATTT-GAAATAATAATTGTTCAAATAGTCATAATTA
* * * **
325843 TTTAAACTT-GTTCAATAAACAGATTTATTTTTTAAATCTCTTAATTATTAATTTTCAAAATATT
248 TTTGAA-TTGGTT-AGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATT
* * * * * *
325907 AATAACTTAATATTATTTTATTTCGAATAAGCTTATATGAATTG-AAATAATTTTTTTATGATAG
311 AATAAATTTATATTATTTTATTTCAAATAAGCTTATATGAATTGAAAAT-ATTGTTTTATGACAA
* *
325971 AAGAAAAGGTCATAACGATTTGAAATAGATAACTATTCAAATAGTCATGACTATTT-AATCTAGT
375 AACAAAAGGTCATAACGATTTGAAATAGATAACTATTCAAATAGTCATAACTATTTGAA-CTAGT
* *
326035 TCAGTAAAC-ATATTTA-A-TT-TTTTACTTATTAATTGTCGAAATATTAATAAATTTATATTAT
439 TCAGCAAACAAT-TTTATATTTATTTTACTTATTAATT-TCAAAATATTAATAAATTTATATTAT
* *
326096 TTTAATCCGAATAAGCTTGAATAAAT
502 TTTAATACGAATAAGCTTGAATAAAC
* * *
326122 AGAAACTATTATCTTATAACAAAACCAAAAGTCATAATGATTTGAAATAAATAATTGCTT-AAAT
1 AGAAACTATTGTTTTATGACAAAACCAAAAGTCATAATGATTTGAAATAAATAATTG-TTCAAAT
*
326186 AATCTT-A-ATTTGAACTAGTTTGATAAACAGATTTATTTTTTAAA-ATTT-TTATTAATTTTTG
65 AGT-TTAATATTTGAACTAGTTTGATAAA-AGATTTATTTTTTAAATATTTATTATTAATTTTT-
* * *
326247 AAATATTAATAGATTAGTATTATTTTATTTCGAACAAACTTATATGAACA-AAAACATTAGTTTT
127 AAATATTAATAAATTAGTATTATTTTATTTC-AAAAAACTTGTATGAACAGAAAA-ATTA-TTTT
* * *
326311 ATGATAAAACAAAATGTCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGA
189 ATGACAAAACAAAAGGTTATAACAATTTGAAATA-ATAATTGTTCAAATAGTCATAATTATTTGA
* * * *
326376 ATTGGTTAGGTAAACAAAATTATTTTTTAATTCTCTTACTTATTAATTTTTGAAATTTTAATAAA
253 ATTGGTTA-GTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAA
*
326441 TTTATTTTATTTTA-TTCTAAATAAGC-TAGTATGAATTGAAAATATTGTTTTATGACAAAACAA
317 TTTATATTATTTTATTTC-AAATAAGCTTA-TATGAATTGAAAATATTGTTTTATGACAAAACAA
* * * ** * ** *
326504 AAGGTTATAATGATTTGAAATAGATAATTATTCATGTTGTTTTAACTATTTGAACTAGTTCGGCA
380 AAGGTCATAACGATTTGAAATAGATAACTATTCAAATAGTCATAACTATTTGAACTAGTTCAGCA
* * * * * * *
326569 AATAATTTTATATTTTAAATCTCTTAGTTATTAATTTTTAGAATATTATTATA-TTAGTTTTATT
445 AACAATTTTATA-TTT--AT-T-TTACTTATTAA-TTTCAAAATATTAATAAATTTA-TATTATT
* * * *
326633 TTAATTCAAATAAGCTTGACTGAAC
503 TTAATACGAATAAGCTTGAATAAAC
* ** * *
326658 AGAAA-TAATTGTTTTATGACAAAA-CAAAAGGTTATAATGATTTGAAATCGATAATTATTCATA
1 AGAAACT-ATTGTTTTATGACAAAACCAAAA-GTCATAATGATTTGAAATAAATAATTGTTCAAA
** * *
326721 TAGTTTTAACTATTTGAACTAGTCCAGCA-AAAA-TTTTATATTTTAAATATGTTAGTTATTAAT
64 TAG-TTTAA-TATTTGAACTAGT-TTG-ATAAAAGATTTATTTTTTAAATAT-TTA-TTATTAAT
* * * * *
326784 TTTTAGAATATTATTATATTAGTTTTATTTTATTTCAAATAAGCTTGTATGAATAGAAATAATTA
123 TTTTA-AATATTAATAAATTAGTATTATTTTATTTCAAA-AAACTTGTATGAACAGAAA-AATTA
* * * * * *
326849 TTTTATGACAAAACAAAAGGTTATAACAATTTGAAGTATACAACTGCTCTAATAGTCATAACTAT
185 TTTTATGACAAAACAAAAGGTTATAACAATTTGAAATA-ATAATTGTTCAAATAGTCATAATTAT
* * * * *
326914 TTGAATTGATTTTGTAAATAGATTTATTTTTTAAATCTATTACTTATTAATTTTTGAAAGATTAA
249 TTGAATTG-GTTAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAA
* * ** ** *
326979 TAAA-TTAGTATTATTTTATTTCGAATAAGCTTGTAT-AATAAAAAATAATTGTCATATGACCAA
313 TAAATTTA-TATTATTTTATTTCAAATAAGCTTATATGAATTGAAAAT-ATTGTTTTATGACAAA
* * * * * * * * *
327042 ACAAAAGGTAAGAACAATTTGAAATAGATAATTATTGAAATGGCCATAATTATTTGCACTA
376 ACAAAAGGTCATAACGATTTGAAATAGATAACTATTCAAATAGTCATAACTATTTGAACTA
327103 ATTTGGTAAA
Statistics
Matches: 1221, Mismatches: 211, Indels: 156
0.77 0.13 0.10
Matches are distributed among these distances:
525 2 0.00
526 5 0.00
527 30 0.02
528 232 0.19
529 17 0.01
530 24 0.02
531 13 0.01
532 1 0.00
533 121 0.10
534 133 0.11
535 100 0.08
536 114 0.09
537 9 0.01
538 16 0.01
539 16 0.01
540 9 0.01
541 121 0.10
542 244 0.20
543 13 0.01
544 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.42
Consensus pattern (527 bp):
AGAAACTATTGTTTTATGACAAAACCAAAAGTCATAATGATTTGAAATAAATAATTGTTCAAATA
GTTTAATATTTGAACTAGTTTGATAAAAGATTTATTTTTTAAATATTTATTATTAATTTTTAAAT
ATTAATAAATTAGTATTATTTTATTTCAAAAAACTTGTATGAACAGAAAAATTATTTTATGACAA
AACAAAAGGTTATAACAATTTGAAATAATAATTGTTCAAATAGTCATAATTATTTGAATTGGTTA
GTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTTATATTA
TTTTATTTCAAATAAGCTTATATGAATTGAAAATATTGTTTTATGACAAAACAAAAGGTCATAAC
GATTTGAAATAGATAACTATTCAAATAGTCATAACTATTTGAACTAGTTCAGCAAACAATTTTAT
ATTTATTTTACTTATTAATTTCAAAATATTAATAAATTTATATTATTTTAATACGAATAAGCTTG
AATAAAC
Found at i:327343 original size:229 final size:227
Alignment explanation
Indices: 326935--327371 Score: 472
Period size: 229 Copynumber: 1.9 Consensus size: 227
326925 TTGTAAATAG
* * *
326935 ATTTATTTTTTAAATCTATTACTTATTAATTTTTGAAAGATTAATAAATTAGTATTATTTTATTT
1 ATTTATTTTTTAAATCTATTACATATTAATTTTTCAAAGATTAATAAATTAGTATTAATTTATTT
* *
327000 CGAATAAGCTTGTATAATAAAAAATAATTGTCATATGACCAAACAAAAGGTAAGAACAATTTGAA
66 CGAATAAGCTTGTATAATAAAAAAT-ATTGTCATATGACCAAAAAAAAGGTAAGAACAATATGAA
* * ** ** * **
327065 ATAGATAATTATTGAAATGGCCATAATTATTTGCACTAATTTGGTAAACATATTCACT-TTTTAA
130 ATAAATAATTATTCAAATAACCATAACCATTTGAACTAATTCAGTAAACA-ATTCACTATTTTAA
*
327129 ATCACTTATTTATTTGAATTTGTTCGGTAAACAT
194 ATCACTTACTTATTTGAATTTGTTCGGTAAACAT
* *
327163 ATTTATTTTTTTAAATCTCTTTCATATTAATTTTTCAAATG-TTAATAAATTAGTATTAATTTA-
1 ATTTA-TTTTTTAAATCTATTACATATTAATTTTTCAAA-GATTAATAAATTAGTATTAATTTAT
** * * **
327226 TTCTGAATAAGCTTGTATGAACTAAAACAAT-TT-TTTTATGACTAAAAAAAAGATTAA-AATGA
64 TTC-GAATAAGCTTGTAT-AA-TAAAA-AATATTGTCATATGACCAAAAAAAAG-GTAAGAACAA
* *** * **
327288 TATGAAATAAATAATTATTCTAATAATTTTAACCATTTGAACTGATTCAGTAAACAATTTTCTAT
124 TATGAAATAAATAATTATTCAAATAACCATAACCATTTGAACTAATTCAGTAAACAATTCACTAT
*
327353 TTTAAATCTCTTACTTATT
189 TTTAAATCACTTACTTATT
327372 AATTTTCAAA
Statistics
Matches: 170, Mismatches: 31, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
228 13 0.08
229 141 0.83
230 8 0.05
231 5 0.03
232 3 0.02
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (227 bp):
ATTTATTTTTTAAATCTATTACATATTAATTTTTCAAAGATTAATAAATTAGTATTAATTTATTT
CGAATAAGCTTGTATAATAAAAAATATTGTCATATGACCAAAAAAAAGGTAAGAACAATATGAAA
TAAATAATTATTCAAATAACCATAACCATTTGAACTAATTCAGTAAACAATTCACTATTTTAAAT
CACTTACTTATTTGAATTTGTTCGGTAAACAT
Found at i:327718 original size:771 final size:770
Alignment explanation
Indices: 326368--327771 Score: 1706
Period size: 771 Copynumber: 1.8 Consensus size: 770
326358 ATAGTCATAA
* * * *
326368 TTATTTGAATTGGTTAGGTAAACAAAATTATTTTTTAATTCTCTTACTTATTAATTTTTGAAATT
1 TTATTTGAATTGGTTAGGTAAACAAAATTATTTTTTAAATCTCTTACATATTAATTTTTCAAATG
* * * *
326433 TTAATAAATTTATTTTATTTTATTCTAAATAAGCTAGTATGAATTGAAAATATTGTTTTATGACA
66 TTAATAAATTTATATTAATTTATTCTAAATAAGCTAGTATGAACTGAAAAAATTGTTTTATGACA
* * * * * ** *
326498 AAACAAAAGGTTATAATGATTTGAAATAGATAATTATTCATGTTGTTTTAACTATTTGAACTAGT
131 AAACAAAAGATTAAAATGATATGAAATAAATAATTATTCATATAATTTTAACCATTTGAACTAGT
* * * * * * *
326563 TCGGCAAATAATTTTATATTTTAAATCTCTTAGTTATTAATTTTTAGAATATTATTATATTAGTT
196 TCAGCAAACAATTTTATATTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTA
* * * * *
326628 TTATTTTAATTCAAATAAGCTTGACTGAACAGAAATAATTGTTTTATGACAAAACAAAAGGTTAT
261 TTATTTTAATCCAAATAAGCTTGACTCAACAGAAACAATTGTTTTATCACAAAACAAAAGGTCAT
* * * *
326693 AATGATTTGAAATCGATAATTATTCATATAGTTTTAACTATTTGAACTAGTCCAGCAAAAATTTT
326 AATGATTTGAAATAGATAATCATTCATAGAGTCTTAACTATTTGAACTAGTCCAGCAAAAATTTT
* * * * * *
326758 ATATTTTAAATATGTTAGTTATTAATTTTTAGAATATTATTATATTAGTTTTATTTTATTTCAAA
391 ATATTTTAAATATCTTAGTTATTAAGTTTCAAAATATTATTAAATTAGTATTATTTTATTTCAAA
** * * * * * * *
326823 TAAGCTTGTATGAATAGAAATAATTATTTTATGACAAAACAAAAGGTTATAACAATTTGAAGTAT
456 TAAAATAGTATGAACAGAAACAATTATTTGATGACAAAACAAAAGGTTATAACAATTTAAAATAA
* * ** * * * *
326888 ACAACTGCTCTAATAGTCATAACTATTTGAATTGATTTTGTAAATAGATTTATTTTTTAAATCTA
521 ACAACTGATCTAATAGTCAAAACTATTCAAAATGATTTGGTAAACAGATTTATTTTTTAAATATA
* * *
326953 TTACT-TATTAATTTT-TGAAAGATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATA
586 TTA-TAGATTAATTTTCT-AAAGATTAATAAAATAATATTATTTTATTTCGAATAAGCTTGTATA
327016 ATAAAAAATAATTGTCATATGACCAAACAAAAGGTAAGAACAATTTGAAATAGATAATTATTGAA
649 ATAAAAAATAATTGTCATATGACCAAACAAAAGGTAAGAACAATTTGAAATAGATAATTATTGAA
327081 ATGGCCATAATTATTTGCACTAATTTGGTAAACATATTCACTTTTTAAATCACTTAT
714 ATGGCCATAATTATTTGCACTAATTTGGTAAACATATTCACTTTTTAAATCACTTAT
* * * * *
327138 TTATTTGAATTTGTTCGGTAAACATATTTATTTTTTTAAATCTCTTTCATATTAATTTTTCAAAT
1 TTATTTGAATTGGTTAGGTAAACAAAATTA-TTTTTTAAATCTCTTACATATTAATTTTTCAAAT
* * *
327203 GTTAATAAA-TTAGTATTAATTTATTCTGAATAAGCTTGTATGAACT-AAAACAATTTTTTTATG
65 GTTAATAAATTTA-TATTAATTTATTCTAAATAAGCTAGTATGAACTGAAAA-AATTGTTTTATG
327266 ACTAAAA-AAAAGATTAAAATGATATGAAATAAATAATTATTC-TAATAATTTTAACCATTTGAA
128 AC-AAAACAAAAGATTAAAATGATATGAAATAAATAATTATTCAT-ATAATTTTAACCATTTGAA
* *
327329 CT-GATTCAGTAAACAATTTTCTATTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAA
191 CTAG-TTCAGCAAACAATTTTATATTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAA
* * * *
327393 TTAGTATTATTTTAATCCAACTAAGCTTATAC-CAACA-AAACAATTGTTTTA-CATTAAAAGAA
255 TTAGTATTATTTTAATCCAAATAAGCTT-GACTCAACAGAAACAATTGTTTTATCA-CAAAACAA
* *
327455 AAGGTCATAATGATTTGAAATAGATAATCATTCATAGAGTCTTAACTATTTGAATTAGTTC-GAC
318 AAGGTCATAATGATTTGAAATAGATAATCATTCATAGAGTCTTAACTATTTGAACTAGTCCAG-C
* * * * *
327519 AATTAGA-TTTATTTTTTAATTTTCTTGGTTATTAAGTTTCAAAATATTATTAAATTAGTATTAT
382 AA--AAATTTTATATTTTAAATATCTTAGTTATTAAGTTTCAAAATATTATTAAATTAGTATTAT
* * * * * *
327583 TTTA-TTCTAAATAAAATAGTATGAACATAACCAATTGTTTGATGATAAAATAAAAGGTTATAAT
445 TTTATTTC-AAATAAAATAGTATGAACAGAAACAATTATTTGATGACAAAACAAAAGGTTATAAC
* * * * *
327647 GATTTAAAATAAATAA-TTAT-TAAATTAGTCAAAACTATTCAAAATGGTTTGGTAAGCAGATTT
509 AATTTAAAATAAACAACTGATCT-AA-TAGTCAAAACTATTCAAAATGATTTGGTAAACAGATTT
* * *
327710 -TCTTTTTAAATATCTTATAGATTTATTTTCTAAATATTAATAAAATAATATTATTTTATTTC
572 AT-TTTTTAAATATATTATAGATTAATTTTCTAAAGATTAATAAAATAATATTATTTTATTTC
327772 AAACAAACTT
Statistics
Matches: 524, Mismatches: 93, Indels: 33
0.81 0.14 0.05
Matches are distributed among these distances:
769 3 0.01
770 120 0.23
771 392 0.75
772 9 0.02
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (770 bp):
TTATTTGAATTGGTTAGGTAAACAAAATTATTTTTTAAATCTCTTACATATTAATTTTTCAAATG
TTAATAAATTTATATTAATTTATTCTAAATAAGCTAGTATGAACTGAAAAAATTGTTTTATGACA
AAACAAAAGATTAAAATGATATGAAATAAATAATTATTCATATAATTTTAACCATTTGAACTAGT
TCAGCAAACAATTTTATATTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTA
TTATTTTAATCCAAATAAGCTTGACTCAACAGAAACAATTGTTTTATCACAAAACAAAAGGTCAT
AATGATTTGAAATAGATAATCATTCATAGAGTCTTAACTATTTGAACTAGTCCAGCAAAAATTTT
ATATTTTAAATATCTTAGTTATTAAGTTTCAAAATATTATTAAATTAGTATTATTTTATTTCAAA
TAAAATAGTATGAACAGAAACAATTATTTGATGACAAAACAAAAGGTTATAACAATTTAAAATAA
ACAACTGATCTAATAGTCAAAACTATTCAAAATGATTTGGTAAACAGATTTATTTTTTAAATATA
TTATAGATTAATTTTCTAAAGATTAATAAAATAATATTATTTTATTTCGAATAAGCTTGTATAAT
AAAAAATAATTGTCATATGACCAAACAAAAGGTAAGAACAATTTGAAATAGATAATTATTGAAAT
GGCCATAATTATTTGCACTAATTTGGTAAACATATTCACTTTTTAAATCACTTAT
Found at i:328358 original size:181 final size:181
Alignment explanation
Indices: 328060--328702 Score: 676
Period size: 181 Copynumber: 3.6 Consensus size: 181
328050 CAAAAGGAAC
* * * * * * * *
328060 GATTTGAAATATATAAATGTTCAAATTGTTATAACTAATTGAGCT-AGTAT-GGTAAATAGATTT
1 GATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGA-T-TCGGTAAACAAATTT
* * * * *
328123 GTTTATTAAATC---T-CTTATTAATTTTTGAAATATGAATAAATTAGTATTATTTTATTTCGAA
64 ATTTTTTAAATCTATTACTTATTAATATTTCAAATATTAATAAATTAGTATTATTTTATTTCGAA
* * * * **
328184 CAAACTTATATGAACAAAAACATTTGTTTTACAACAAAACAAAAGGTCATAAT
129 TAAACTTGTATGAAGAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* * * * * *
328237 GATTTGAAATAGATAATTATTCATATAGCCTTAACTATTTGAATTGGTTCGGTAAACAAATTTAT
1 GATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGATTCGGTAAACAAATTTAT
* * *
328302 TTTTTAAATCTATTAGTTATTAA-ATTTCATAATATTACTAGATTAGTATTATTTTATTTCGAAT
66 TTTTTAAATCTATTACTTATTAATATTTCA-AATATTAATAAATTAGTATTATTTTATTTCGAAT
* * * * *
328366 AAGCTTGTATGAAGATAAATAATTGTTTTATGACAAAACAAAAGGTTATAAC
130 AAACTTGTATGAAGAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* * * *
328418 GA-TTGAAAATATATAATTGTTCAAATAGTCATAACTATTTGAACAGATTCGATAAACATATTTA
1 GATTTG-AAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGATTCGGTAAACAAATTTA
* * *
328482 TTTTTTTAATCTCTTACTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTA-TTCTGAA
65 TTTTTTAAATCTATTACTTATTAATATTTCAAATATTAATAAATTAGTATTATTTTATTTC-GAA
* * * *
328546 TACACTTGTATGATGAAAAGCAATTGTTTTATGACAAAACAAAAGTTCATAAT
129 TAAACTTGTATGAAGAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
* * * **
328599 GATTTGAAATAGATAATTGTTTAAATGGTCATAATTATTTGAACTGATTCGGTAAACTGATTTAT
1 GATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGATTCGGTAAACAAATTTAT
* * * * *
328664 ATTTTAAATCTCTAACTTATCAAT-TTTTATAATATTAAT
66 TTTTTAAATCTATTACTTATTAATATTTCA-AATATTAAT
328703 GAAGTAGGAG
Statistics
Matches: 383, Mismatches: 71, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
176 1 0.00
177 56 0.15
180 15 0.04
181 303 0.79
182 8 0.02
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (181 bp):
GATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGATTCGGTAAACAAATTTAT
TTTTTAAATCTATTACTTATTAATATTTCAAATATTAATAAATTAGTATTATTTTATTTCGAATA
AACTTGTATGAAGAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAAT
Found at i:329015 original size:21 final size:23
Alignment explanation
Indices: 328974--329016 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
328964 AATAATAATA
*
328974 ATATAATTAGTAATGTAATATTG
1 ATATAATTAGCAATGTAATATTG
328997 ATATAATTA-CAAT-TAATATT
1 ATATAATTAGCAATGTAATATT
329017 ATTATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (23 bp):
ATATAATTAGCAATGTAATATTG
Found at i:329554 original size:12 final size:12
Alignment explanation
Indices: 329537--329566 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
329527 AATCATATAT
329537 TATTATAATCAA
1 TATTATAATCAA
*
329549 TATTATAATTAA
1 TATTATAATCAA
329561 TATTAT
1 TATTAT
329567 TTAAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
TATTATAATCAA
Found at i:329689 original size:7 final size:7
Alignment explanation
Indices: 329677--329715 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
329667 TAAGTTATAG
329677 TATTAAT
1 TATTAAT
329684 TATTAAT
1 TATTAAT
329691 TATTAA-
1 TATTAAT
329697 TATTAAAT
1 TATT-AAT
329705 TATTTAAT
1 TA-TTAAT
329713 TAT
1 TAT
329716 AATATAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 4 0.14
7 16 0.55
8 7 0.24
9 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TATTAAT
Found at i:329707 original size:21 final size:21
Alignment explanation
Indices: 329671--329724 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
329661 ATTTAATAAG
*
329671 TTATAGTATT-AATTA-TTAA
1 TTATAATATTAAATTATTTAA
329690 TTATTAATATTAAATTATTTAA
1 TTA-TAATATTAAATTATTTAA
329712 TTATAATA-TAAAT
1 TTATAATATTAAAT
329725 ATAATCTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 3 0.10
20 11 0.35
21 10 0.32
22 7 0.23
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TTATAATATTAAATTATTTAA
Done.