Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168193.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_43, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 234249
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Warning! 1000 characters in sequence are not A, C, G, or T
File 4 of 6
Found at i:139565 original size:25 final size:25
Alignment explanation
Indices: 139537--139612 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
139527 ACTTAAAATA
* *
139537 AATAGTATAATTAATTAATTATAAT
1 AATAATATAATTAAATAATTATAAT
* *
139562 AATAATTTAATTAAATATTTAT-AT
1 AATAATATAATTAAATAATTATAAT
**
139586 TTTAAT-TAATTCAAATAATTATTAAT
1 AATAATATAATT-AAATAATTA-TAAT
139612 A
1 A
139613 GATTCATATT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
23 5 0.12
24 14 0.35
25 19 0.47
26 2 0.05
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (25 bp):
AATAATATAATTAAATAATTATAAT
Found at i:140181 original size:13 final size:14
Alignment explanation
Indices: 140135--140183 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
140125 ATAAATTCTT
140135 ATTAATT-AT-TTA
1 ATTAATTAATATTA
*
140147 ATATAATAGAATATTA
1 AT-TAAT-TAATATTA
140163 ATTAATTAATATT-
1 ATTAATTAATATTA
140176 ATTAATTA
1 ATTAATTA
140184 TCTAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 12 0.39
14 6 0.19
15 6 0.19
16 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
ATTAATTAATATTA
Found at i:140261 original size:17 final size:17
Alignment explanation
Indices: 140231--140274 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
140221 TTCAATTGTT
* *
140231 TAATAAAATT-AATTTA
1 TAATATAATTAAATTAA
*
140247 TTATATAATTAAATTAA
1 TAATATAATTAAATTAA
140264 TAATATAATTA
1 TAATATAATTA
140275 TATAATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATATAATTAAATTAA
Found at i:140316 original size:34 final size:37
Alignment explanation
Indices: 140242--140332 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 37
140232 AATAAAATTA
*
140242 ATTTATTATATAATTAAATTAATAATATAATTATATAAT
1 ATTTATTATATAA-T-AATAAATAATATAATTATATAAT
* *
140281 ATTTATTATATTATAATAAAT-ATTTAATT-TA-AAT
1 ATTTATTATATAATAATAAATAATATAATTATATAAT
*
140315 ATTTAATATATAATAATA
1 ATTTATTATATAATAATA
140333 TTATATTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
34 19 0.40
35 2 0.04
36 7 0.15
37 6 0.13
38 1 0.02
39 12 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTATTATATAATAATAAATAATATAATTATATAAT
Found at i:140345 original size:17 final size:17
Alignment explanation
Indices: 140259--140346 Score: 57
Period size: 17 Copynumber: 5.4 Consensus size: 17
140249 ATATAATTAA
140259 ATTAATAATA-TA-ATT
1 ATTAATAATATTATATT
*
140274 ATATAATATTTATTATATT
1 AT-TAATA-ATATTATATT
140293 A-TAATAA-A-TAT-TT
1 ATTAATAATATTATATT
* *
140306 AATTTA-AATATT-TAAT
1 -ATTAATAATATTATATT
140322 ATATAATAATATTATATT
1 AT-TAATAATATTATATT
140340 ATTAATA
1 ATTAATA
140347 TTATATAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 22
0.66 0.07 0.27
Matches are distributed among these distances:
13 2 0.04
14 6 0.11
15 9 0.16
16 9 0.16
17 18 0.33
18 7 0.13
19 4 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTAATAATATTATATT
Found at i:140461 original size:25 final size:25
Alignment explanation
Indices: 140424--140490 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
140414 TTATATAACT
* **
140424 AATTATATA-TAATTTATGTATATA
1 AATTAAATATTAATTTATAAATATA
* *
140448 ATTTGAATATTAATTTATAAATATA
1 AATTAAATATTAATTTATAAATATA
140473 AATTAAATTATTAATTTA
1 AATTAAA-TATTAATTTA
140491 ATAATCATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 6 0.18
25 18 0.53
26 10 0.29
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
AATTAAATATTAATTTATAAATATA
Found at i:140476 original size:26 final size:24
Alignment explanation
Indices: 140423--140525 Score: 68
Period size: 25 Copynumber: 4.2 Consensus size: 24
140413 ATTATATAAC
* **
140423 TAATTATATA-TAATTTATGTATA
1 TAATTAAATATTAATTTATAAATA
*
140446 TAATTTGAATATTAATTTATAAATA
1 TAA-TTAAATATTAATTTATAAATA
*
140471 TAAATTAAATTATTAATTTA-ATA-A
1 T-AATTAAA-TATTAATTTATAAATA
* ** *
140495 TCATTATTTATTAACATTATAAATA
1 TAATTAAATATTAA-TTTATAAATA
140520 TAATTA
1 TAATTA
140526 TTAAATTTAA
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
22 6 0.10
23 10 0.16
24 9 0.15
25 24 0.39
26 12 0.20
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
TAATTAAATATTAATTTATAAATA
Found at i:140813 original size:8 final size:8
Alignment explanation
Indices: 140705--140834 Score: 52
Period size: 8 Copynumber: 15.9 Consensus size: 8
140695 TGTCTAATAA
140705 AATTACTAT
1 AATTA-TAT
*
140714 TATTATAT
1 AATTATAT
*
140722 AATTAAATT
1 AATTATA-T
*
140731 AATAATAT
1 AATTATAT
140739 AATTATAT
1 AATTATAT
*
140747 AATATTTAT
1 AAT-TATAT
* *
140756 TATAATAT
1 AATTATAT
*
140764 AA-TAAAT
1 AATTATAT
* *
140771 ATTTAATTT
1 AATT-ATAT
* *
140780 AAATATTT
1 AATTATAT
*
140788 AAATATAT
1 AATTATAT
140796 AA-TA-AT
1 AATTATAT
140802 -ATTATAT
1 AATTATAT
*
140809 AATTAAAT
1 AATTATAT
140817 AAATTAATAT
1 -AATT-ATAT
140827 ATATTATA
1 A-ATTATA
140835 ATGATAAACA
Statistics
Matches: 90, Mismatches: 21, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
5 1 0.01
6 4 0.04
7 8 0.09
8 43 0.48
9 28 0.31
10 6 0.07
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (8 bp):
AATTATAT
Found at i:140814 original size:25 final size:25
Alignment explanation
Indices: 140717--140834 Score: 77
Period size: 25 Copynumber: 4.7 Consensus size: 25
140707 TTACTATTAT
*
140717 TATATAATTAA-ATTA-ATAATATAAT
1 TATATAA-TAATATTATATAAT-TAAA
140742 TATATAAT-AT-TTATTATAA-TATAA
1 TATATAATAATATTA-TATAATTA-AA
* * * *
140766 TAAATATTTAAT-TTAAATATTTAAA
1 TATATA-ATAATATTATATAATTAAA
140791 TATATAATAATATTATATAATTAAA
1 TATATAATAATATTATATAATTAAA
*
140816 TAAATTAATATATATTATA
1 TATA-TAATA-ATATTATA
140835 ATGATAAACA
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
23 6 0.08
24 11 0.15
25 36 0.49
26 12 0.16
27 8 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TATATAATAATATTATATAATTAAA
Found at i:141362 original size:21 final size:23
Alignment explanation
Indices: 141321--141363 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
141311 TAATATAATA
*
141321 ATATAATTAGTAATGTAATATTG
1 ATATAATTAGCAATGTAATATTG
141344 ATATAATTA-CAAT-TAATATT
1 ATATAATTAGCAATGTAATATT
141364 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:142495 original size:13 final size:12
Alignment explanation
Indices: 142471--142528 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 12
142461 CCTTCAAATT
*
142471 TTAAATATAATA
1 TTAATTATAATA
142483 TTAATTAATAATA
1 TTAATT-ATAATA
142496 TTAATT-TAA-A
1 TTAATTATAATA
*
142506 ATAATT-TAA-A
1 TTAATTATAATA
142516 TTAATTAATAATA
1 TTAATT-ATAATA
142529 ATATTAACAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 15 0.38
11 3 0.08
12 8 0.21
13 13 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TTAATTATAATA
Found at i:142550 original size:37 final size:37
Alignment explanation
Indices: 142482--142567 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 37
142472 TAAATATAAT
**
142482 ATTAATTAATAATATTAATTTAAAATAATTTAAATTA
1 ATTAATTAATAATATTAAAATAAAATAATTTAAATTA
* * *
142519 ATTAA-TAATAATATTAACAATAATATGATTTACATTA
1 ATTAATTAATAATATTAA-AATAAAATAATTTAAATTA
*
142556 ATAAAATTAATA
1 AT-TAATTAATA
142568 TCATAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
36 12 0.30
37 21 0.52
38 2 0.05
39 5 0.12
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (37 bp):
ATTAATTAATAATATTAAAATAAAATAATTTAAATTA
Found at i:142587 original size:14 final size:14
Alignment explanation
Indices: 142546--142587 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
142536 CAATAATATG
142546 ATTTACATTAATAAA
1 ATTTA-ATTAATAAA
*
142561 A-TTAATATCATAAA
1 ATTTAAT-TAATAAA
142575 ATTTAATTAATAA
1 ATTTAATTAATAA
142588 TTTTTCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 2 0.09
14 15 0.65
15 6 0.26
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTTAATTAATAAA
Found at i:142626 original size:29 final size:27
Alignment explanation
Indices: 142580--142633 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 27
142570 ATAAAATTTA
142580 ATTAATAATTTTTCAATAATTTATTAATT
1 ATTAATAATTTTTCAAT-A-TTATTAATT
*
142609 ATTAAT-ATTATTTTAATATTATTAA
1 ATTAATAATT-TTTCAATATTATTAA
142634 AATAAATCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 7 0.30
28 4 0.17
29 12 0.52
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
ATTAATAATTTTTCAATATTATTAATT
Found at i:142830 original size:29 final size:30
Alignment explanation
Indices: 142798--142870 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
142788 ATTTATAGCA
*
142798 ATAATTTATTAAA-ATTAAATAATT-AATAT
1 ATAATTTATTAAAGATTAAA-AATTAAATAG
* *
142827 ATAATTAATTAAAGATTATAAATTAAATAG
1 ATAATTTATTAAAGATTAAAAATTAAATAG
*
142857 ATTAATTTTTTAAA
1 A-TAATTTATTAAA
142871 TCTTATGATA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 16 0.44
30 10 0.28
31 10 0.28
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (30 bp):
ATAATTTATTAAAGATTAAAAATTAAATAG
Found at i:142837 original size:15 final size:15
Alignment explanation
Indices: 142798--142839 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
142788 ATTTATAGCA
*
142798 ATAATTTATTAAAAT
1 ATAATTAATTAAAAT
* *
142813 -TAAATAATTAATAT
1 ATAATTAATTAAAAT
142827 ATAATTAATTAAA
1 ATAATTAATTAAA
142840 GATTATAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATTAATTAAAAT
Found at i:143425 original size:12 final size:12
Alignment explanation
Indices: 143408--143461 Score: 54
Period size: 12 Copynumber: 4.1 Consensus size: 12
143398 ATATAAAGTA
143408 ATAATAATTAAT
1 ATAATAATTAAT
143420 ATAATAATTATTAT
1 ATAATAATTA--AT
143434 ATATTATAATTAAAT
1 ATA--ATAATT-AAT
*
143449 ATAATAAGTAAT
1 ATAATAATTAAT
143461 A
1 A
143462 ATTGATTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
12 14 0.39
13 5 0.14
14 5 0.14
15 5 0.14
16 6 0.17
17 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (12 bp):
ATAATAATTAAT
Found at i:143442 original size:16 final size:15
Alignment explanation
Indices: 143406--143455 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
143396 TAATATAAAG
*
143406 TAATAATAATTAATA
1 TAATAATTATTAATA
143421 TAATAATTATTATATA
1 TAATAATTATTA-ATA
*
143437 TTATAATTA--AATA
1 TAATAATTATTAATA
143450 TAATAA
1 TAATAA
143456 GTAATAATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 8 0.26
14 1 0.03
15 11 0.35
16 11 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATTATTAATA
Found at i:143675 original size:22 final size:22
Alignment explanation
Indices: 143576--143700 Score: 66
Period size: 22 Copynumber: 5.7 Consensus size: 22
143566 TACAACAAAG
*
143576 AATTTTAT-TTATATTAAATTAT
1 AATTATATATTATA-TAAATTAT
143598 AATTATA-A-TAGT-T-AATTAT
1 AATTATATATTA-TATAAATTAT
* *
143617 -TTTA-ATAATTAATACAAATTAT
1 AATTATAT-ATT-ATATAAATTAT
** *
143639 TCTTATAAATTATATAAATTAT
1 AATTATATATTATATAAATTAT
*
143661 AATTATATATTATATATTATATAT
1 AATTATATATTATATA-AAT-TAT
* *
143685 AATTATTTATAATATA
1 AATTATATATTATATA
143701 GTTAGATATT
Statistics
Matches: 79, Mismatches: 12, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
17 1 0.01
18 3 0.04
19 7 0.09
20 3 0.04
21 3 0.04
22 36 0.46
23 8 0.10
24 18 0.23
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (22 bp):
AATTATATATTATATAAATTAT
Found at i:143682 original size:7 final size:7
Alignment explanation
Indices: 143641--143684 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
143631 CAAATTATTC
*
143641 TTATAAA
1 TTATATA
143648 TTATATAAA
1 TTATAT--A
143657 TTATA-A
1 TTATATA
143663 TTATATA
1 TTATATA
143670 TTATATA
1 TTATATA
143677 TTATATA
1 TTATATA
143684 T
1 T
143685 AATTATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
6 6 0.18
7 21 0.64
9 6 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TTATATA
Found at i:143891 original size:18 final size:19
Alignment explanation
Indices: 143861--143912 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
143851 TTTGAACACA
*
143861 TTCAAATAGTTATGACTAT
1 TTCAAATAATTATGACTAT
143880 TT-AAATAATTAT--CTAT
1 TTCAAATAATTATGACTAT
* *
143896 TTCAAATCATTGTGACT
1 TTCAAATAATTATGACT
143913 TTTTGTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 6 0.22
17 8 0.30
18 9 0.33
19 4 0.15
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.44
Consensus pattern (19 bp):
TTCAAATAATTATGACTAT
Found at i:144625 original size:10 final size:11
Alignment explanation
Indices: 144597--144639 Score: 58
Period size: 10 Copynumber: 4.3 Consensus size: 11
144587 GAAATATCAA
144597 TATAATT-AA-
1 TATAATTAAAT
144606 TATAATTAAAT
1 TATAATTAAAT
144617 TAT-ATTAAA-
1 TATAATTAAAT
144626 TATAATTAAAT
1 TATAATTAAAT
144637 TAT
1 TAT
144640 TAATATTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 10 0.33
10 14 0.47
11 6 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TATAATTAAAT
Found at i:144647 original size:9 final size:9
Alignment explanation
Indices: 144595--144645 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
144585 ATGAAATATC
144595 AATATAATT
1 AATATAATT
144604 AATATAATT
1 AATATAATT
144613 AA-ATTATATT
1 AATA-TA-ATT
144623 AAATATAATT
1 -AATATAATT
*
144633 AA-ATTATT
1 AATATAATT
144641 AATAT
1 AATAT
144646 TAACAATTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
8 8 0.22
9 17 0.47
10 6 0.17
11 4 0.11
12 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
AATATAATT
Found at i:145371 original size:43 final size:42
Alignment explanation
Indices: 145293--145374 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 42
145283 TATTATCTAT
*
145293 TTATATTATTATAATTATAATTATTTACAAATATTATATTAA
1 TTATATTATAATAATTATAATTATTTACAAATATTATATTAA
*
145335 TTATATTAATAAT-ATTATTAATT-TTTATATAATATTATAT
1 TTATATT-ATAATAATTA-TAATTATTTACA-AATATTATAT
145375 ATTATTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
42 16 0.46
43 19 0.54
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (42 bp):
TTATATTATAATAATTATAATTATTTACAAATATTATATTAA
Found at i:145387 original size:30 final size:29
Alignment explanation
Indices: 145337--145406 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
145327 TATATTAATT
* *
145337 ATATTAATAATATTATTAATTTTTATATA
1 ATATTAATAATATTAATAATTGTTATATA
*
145366 ATATTATATATTATTAATAATTGTTATAT-
1 ATATTA-ATAATATTAATAATTGTTATATA
145395 ATA-TAATAATAT
1 ATATTAATAATAT
145407 ATGACATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 6 0.17
28 2 0.06
29 9 0.25
30 19 0.53
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (29 bp):
ATATTAATAATATTAATAATTGTTATATA
Found at i:145461 original size:18 final size:17
Alignment explanation
Indices: 145431--145464 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
145421 TATATCAGAT
*
145431 TATTAATTTGATTATAC
1 TATTAATTAGATTATAC
145448 TATTAAATTAGATTATA
1 TATT-AATTAGATTATA
145465 TTAATAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (17 bp):
TATTAATTAGATTATAC
Found at i:145472 original size:18 final size:18
Alignment explanation
Indices: 145435--145473 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
145425 TCAGATTATT
* *
145435 AATTTGATTATACTATTA
1 AATTAGATTATACTAATA
*
145453 AATTAGATTATATTAATA
1 AATTAGATTATACTAATA
145471 AAT
1 AAT
145474 GGTTATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (18 bp):
AATTAGATTATACTAATA
Found at i:145520 original size:11 final size:11
Alignment explanation
Indices: 145492--145545 Score: 60
Period size: 11 Copynumber: 5.0 Consensus size: 11
145482 ATTATTTGAA
145492 AATTATATATTAT
1 AATTA-ATATT-T
145505 AATTAATATTT
1 AATTAATATTT
*
145516 AATTATTATTT
1 AATTAATATTT
145527 AATT-A-ATTT
1 AATTAATATTT
145536 AA-TAATATTT
1 AATTAATATTT
145546 CATTTTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 1 0.03
9 7 0.19
10 4 0.11
11 15 0.41
12 5 0.14
13 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTAATATTT
Found at i:145966 original size:21 final size:22
Alignment explanation
Indices: 145926--145973 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
145916 TGTAACTTAC
*
145926 TAATTAAAATAAATAGTATAAT
1 TAATTAAAATAAATAATATAAT
*
145948 TAATTAATAT-AATAATATAAT
1 TAATTAAAATAAATAATATAAT
145969 TAATT
1 TAATT
145974 TTATATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TAATTAAAATAAATAATATAAT
Found at i:146282 original size:15 final size:15
Alignment explanation
Indices: 146262--146299 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
146252 TCACACACAG
*
146262 ATATAATTGTTAAGT
1 ATATAATTGTTAAAT
146277 ATATAATATGTTAAAT
1 ATATAAT-TGTTAAAT
146293 AT-TAATT
1 ATATAATT
146300 ATATTAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 11 0.52
16 9 0.43
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (15 bp):
ATATAATTGTTAAAT
Found at i:146492 original size:19 final size:19
Alignment explanation
Indices: 146468--146563 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 19
146458 TAATAATCAT
146468 TAATTAATAAT-TGTATTAA
1 TAATTAATAATAT-TATTAA
146487 TAATTAATAATATTATTAA
1 TAATTAATAATATTATTAA
*
146506 TGGCTATTGAATAA-ATTATTAA
1 T---AATT-AATAATATTATTAA
*
146528 TATTATAATAATATTATACTAA
1 TAAT-TAATAATATTAT--TAA
146550 T-ATTAATATATATT
1 TAATTAATA-ATATT
146564 TAATAATCCA
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
19 24 0.38
20 12 0.19
21 6 0.10
22 16 0.25
23 5 0.08
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (19 bp):
TAATTAATAATATTATTAA
Found at i:147741 original size:26 final size:26
Alignment explanation
Indices: 147672--147741 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
147662 ATATAAATAC
** *
147672 TAATATTCTTAATTTATCTAATAAAA
1 TAATATTAATAATTTATCAAATAAAA
* *
147698 TAATATTAATTATATTAT-AAATAAAT
1 TAATATTAATAAT-TTATCAAATAAAA
147724 TAATAGTTAATAATTTAT
1 TAATA-TTAATAATTTAT
147742 TATATAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 25 0.69
27 11 0.31
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (26 bp):
TAATATTAATAATTTATCAAATAAAA
Found at i:148033 original size:17 final size:17
Alignment explanation
Indices: 147993--148050 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
147983 ATATTTGTAG
*
147993 TAATTATAATCATTAAT-
1 TAATTATAATTA-TAATA
*
148010 TACTTATAATTATAATA
1 TAATTATAATTATAATA
148027 TAATTAT-ATTAATAATA
1 TAATTATAATT-ATAATA
*
148044 TTATTAT
1 TAATTAT
148051 TAGATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
16 7 0.20
17 28 0.80
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTATAATTATAATA
Found at i:148041 original size:23 final size:23
Alignment explanation
Indices: 147993--148042 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
147983 ATATTTGTAG
*
147993 TAATTATAATCATTAATTACTTA
1 TAATTATAATCATTAATTAATTA
148016 TAATTATAAT-A-TAATTATATTAA
1 TAATTATAATCATTAATTA-ATT-A
148039 TAAT
1 TAAT
148043 ATTATTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 3 0.12
23 15 0.62
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATTATAATCATTAATTAATTA
Found at i:148079 original size:20 final size:18
Alignment explanation
Indices: 148030--148093 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
148020 TATAATATAA
148030 TTATATTAATAA-T-ATT
1 TTATATTAATAATTAATT
*
148046 AT-TATTAGATAATTAAATT
1 TTATATTA-ATAATT-AATT
148065 GTTATATTAATAATTAATT
1 -TTATATTAATAATTAATT
*
148084 TTAAATTAAT
1 TTATATTAAT
148094 TATAAACCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
15 5 0.13
16 5 0.13
17 1 0.03
18 9 0.23
19 7 0.18
20 7 0.18
21 5 0.13
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (18 bp):
TTATATTAATAATTAATT
Found at i:148786 original size:18 final size:21
Alignment explanation
Indices: 148763--148809 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
148753 TGATAACAAT
148763 TAAATATATT-TT-T-ATTAA
1 TAAATATATTGTTATCATTAA
*
148781 TAAATATATTGTTATCATTAT
1 TAAATATATTGTTATCATTAA
148802 TAAATATA
1 TAAATATA
148810 ATTATTCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 10 0.40
19 2 0.08
20 1 0.04
21 12 0.48
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TAAATATATTGTTATCATTAA
Found at i:148932 original size:23 final size:22
Alignment explanation
Indices: 148906--148949 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
148896 TAGTATTAAA
*
148906 TTTAATAAATTATTTAATTATTG
1 TTTAATAAATTATAT-ATTATTG
*
148929 TTTAATAGATTATATATTATT
1 TTTAATAAATTATATATTATT
148950 ATTATACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
TTTAATAAATTATATATTATTG
Found at i:149432 original size:176 final size:177
Alignment explanation
Indices: 149042--149447 Score: 455
Period size: 176 Copynumber: 2.3 Consensus size: 177
149032 TTAATAACAC
* *
149042 TAATTTTATTTCAAATAAGCTTGTATGAACTA-AAATAATTGTTTTATGACTAAATAAAAGGATA
1 TAATTTTATTTCAAATAAGCTTGTATGAA-TAGAAACAATTGTTTTATGACAAAATAAAAGGATA
** * * * * *
149106 GAATGATTTGAAATAGACAATTATTCTGATAGTCTTAATTATTTGAACTAGTTTGGCTAATATAT
65 GAATGATTTGAAATAGACAATTATTCAAATAGTCATAACTATTTAAACTAGTTTAGCTAATAGAT
* * * **
149171 TTATTTTTTAAATCTCTTATTAATTTTTGAAATATTATTAAATTAGTA
130 TTATTTTTTAAATCTCTTATTAATTTTTAAAATATTAATAAAATAAAA
* * * * *
149219 TCATTTTAATCCAAATAAGCTTGTAT-AAAAGGAAACAATTGTTGTATGACAAAAT-AAA-GATC
1 TAATTTTATTTCAAATAAGCTTGTATGAATA-GAAACAATTGTTTTATGACAAAATAAAAGGAT-
** * * * *
149281 ATTATGATTTTAAATAGATAATTGTTCAAATAGTCATAACTATTTAAACTTGTTTAG-TAAATAG
64 AGAATGATTTGAAATAGACAATTATTCAAATAGTCATAACTATTTAAACTAGTTTAGCT-AATAG
*
149345 ATTT-TGTTTTTAAATCTCTTATTAATTTTTAAAATTTTAATAAAATAAAA
128 ATTTAT-TTTTTAAATCTCTTATTAATTTTTAAAATATTAATAAAATAAAA
** **
149395 TAATTTTATTTTGAATAATTTTGTATGAATAGAAACAATTGTTTTATGACAAA
1 TAATTTTATTTCAAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAA
149448 TTATTAAATA
Statistics
Matches: 188, Mismatches: 35, Indels: 13
0.80 0.15 0.06
Matches are distributed among these distances:
175 6 0.03
176 136 0.72
177 46 0.24
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.43
Consensus pattern (177 bp):
TAATTTTATTTCAAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAATAAAAGGATAG
AATGATTTGAAATAGACAATTATTCAAATAGTCATAACTATTTAAACTAGTTTAGCTAATAGATT
TATTTTTTAAATCTCTTATTAATTTTTAAAATATTAATAAAATAAAA
Found at i:149484 original size:17 final size:19
Alignment explanation
Indices: 149450--149494 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
149440 ATGACAAATT
*
149450 ATTAAATATAATTAATTCA
1 ATTAAATATAAATAATTCA
*
149469 ATTAAAT-TAAAT-ATTCT
1 ATTAAATATAAATAATTCA
149486 ATTAAATAT
1 ATTAAATAT
149495 TTAATAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 11 0.48
18 5 0.22
19 7 0.30
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTAAATATAAATAATTCA
Found at i:149575 original size:14 final size:13
Alignment explanation
Indices: 149549--149584 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
149539 ATCTTAATTC
149549 TTTAATTATGATA
1 TTTAATTATGATA
149562 TTTAATTGATGATA
1 TTTAATT-ATGATA
149576 TATTAATTA
1 T-TTAATTA
149585 AATTTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.33
14 8 0.38
15 6 0.29
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (13 bp):
TTTAATTATGATA
Found at i:149594 original size:14 final size:14
Alignment explanation
Indices: 149577--149625 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
149567 TTGATGATAT
149577 ATTAATTAAATTTA
1 ATTAATTAAATTTA
149591 ATTAATTAAA-TTA
1 ATTAATTAAATTTA
* *
149604 ATATTATTAAATTAA
1 AT-TAATTAAATTTA
149619 ATTAATT
1 ATTAATT
149626 TATAATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 5 0.17
14 21 0.70
15 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTAATTAAATTTA
Found at i:149602 original size:19 final size:19
Alignment explanation
Indices: 149580--149637 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 19
149570 ATGATATATT
149580 AATTAAATTTAATT-AATTA
1 AATT-AATTTAATTAAATTA
149599 AATTAATATT-ATTAAATTA
1 AATTAAT-TTAATTAAATTA
*
149618 AATTAATTTATAATAAATTA
1 AATTAATTTA-ATTAAATTA
149638 TATATTTACT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
18 8 0.24
19 18 0.53
20 8 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTAATTTAATTAAATTA
Found at i:149609 original size:6 final size:5
Alignment explanation
Indices: 149580--149637 Score: 52
Period size: 5 Copynumber: 12.0 Consensus size: 5
149570 ATGATATATT
* *
149580 AATTA AATTT AATT- AATTA AATTA ATATT- -ATTA AATTA AATTA ATTTA
1 AATTA AATTA AATTA AATTA AATTA A-ATTA AATTA AATTA AATTA AATTA
149628 TAA-TA AATTA
1 -AATTA AATTA
149638 TATATTTACT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
3 3 0.07
4 6 0.14
5 31 0.70
6 4 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (5 bp):
AATTA
Found at i:149656 original size:19 final size:18
Alignment explanation
Indices: 149623--149658 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
149613 AATTAAATTA
149623 ATTTATAATAAATTATAT
1 ATTTATAATAAATTATAT
*
149641 ATTTACTAATATATTATA
1 ATTTA-TAATAAATTATA
149659 CAAATTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTATAATAAATTATAT
Found at i:149980 original size:13 final size:13
Alignment explanation
Indices: 149964--150001 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
149954 CATGATTATA
149964 ATAATTTATAAAT
1 ATAATTTATAAAT
149977 ATAA-TTATTAAAT
1 ATAATTTA-TAAAT
149990 ATAGATTTATAA
1 ATA-ATTTATAA
150002 CAATTTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 12 0.55
14 4 0.18
15 3 0.14
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
ATAATTTATAAAT
Found at i:149983 original size:22 final size:22
Alignment explanation
Indices: 149940--149984 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
149930 TATTTGTAGT
* *
149940 TAATATTTATTAATCATGATTA
1 TAATATTTATAAATCATAATTA
149962 TAATAATTTATAAAT-ATAATTA
1 TAAT-ATTTATAAATCATAATTA
149984 T
1 T
149985 TAAATATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TAATATTTATAAATCATAATTA
Found at i:150324 original size:18 final size:18
Alignment explanation
Indices: 150296--150331 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
150286 TCCAATTAAT
150296 AAATATAAATATGATATAA
1 AAATATAAATATGA-ATAA
150315 AAAT-TAAATATGAATAA
1 AAATATAAATATGAATAA
150332 TATTGCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 9 0.53
19 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
AAATATAAATATGAATAA
Found at i:150644 original size:6 final size:6
Alignment explanation
Indices: 150609--150714 Score: 53
Period size: 6 Copynumber: 18.0 Consensus size: 6
150599 TAATTTATTT
*
150609 ATTATA ACTTATT ATTAT- ATTAT- ATT-TA ATTATA ATTATA ATTA-A
1 ATTATA A-TTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA
* * * * * *
150654 AGTATT ACTATA A-TACTA ATTATTA ATAATA TATTATT ACTATA ATT-TA
1 ATTATA ATTATA ATTA-TA ATTA-TA ATTATA -ATTATA ATTATA ATTATA
* *
150703 ATAATA AATATA
1 ATTATA ATTATA
150715 GCAATAATAA
Statistics
Matches: 77, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
4 1 0.01
5 21 0.27
6 39 0.51
7 16 0.21
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (6 bp):
ATTATA
Found at i:150673 original size:29 final size:31
Alignment explanation
Indices: 150641--150699 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
150631 TATTTAATTA
150641 TAATTA-TAAT-TAAAGTATTACTATAATAC
1 TAATTATTAATATAAAGTATTACTATAATAC
* *
150670 TAATTATTAATAATATATTATTACTATAAT
1 TAATTATTAAT-ATAAAGTATTACTATAAT
150700 TTAATAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 4 0.16
32 15 0.60
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (31 bp):
TAATTATTAATATAAAGTATTACTATAATAC
Found at i:150759 original size:25 final size:24
Alignment explanation
Indices: 150718--150773 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
150708 AAATATAGCA
150718 ATAATAA-GTAATATATTATCAAATT
1 ATAATAATGTAATATATTAT-AAA-T
* *
150743 ATAATAATTTAAT-TATTATATAT
1 ATAATAATGTAATATATTATAAAT
150766 ATAATAAT
1 ATAATAAT
150774 AAGAATGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 9 0.32
24 2 0.07
25 13 0.46
26 4 0.14
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
ATAATAATGTAATATATTATAAAT
Found at i:151448 original size:20 final size:20
Alignment explanation
Indices: 151423--151480 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
151413 AATTATTAAT
* *
151423 ATTATAATTTATATTATTAC
1 ATTATAATTAATATAATTAC
* *
151443 ATTATAATAAATATAATTAT
1 ATTATAATTAATATAATTAC
151463 ATTATAATTAATTATAAT
1 ATTATAATTAA-TATAAT
151481 ATATTTAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 26 0.81
21 6 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTATAATTAATATAATTAC
Found at i:151463 original size:15 final size:15
Alignment explanation
Indices: 151413--151504 Score: 68
Period size: 15 Copynumber: 6.2 Consensus size: 15
151403 TTATATATCA
*
151413 AATTATTAATATTA-T
1 AATTA-TAATATAATT
*
151428 AATT-T-ATATTATT
1 AATTATAATATAATT
151441 ACATTATAATA-AATAT
1 A-ATTATAATATAAT-T
*
151457 AATTATATTATAATT
1 AATTATAATATAATT
*
151472 AATTATAATATATTT
1 AATTATAATATAATT
*
151487 AA-TATAAATACAATT
1 AATTAT-AATATAATT
151502 AAT
1 AAT
151505 ATTAATATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
12 6 0.10
13 3 0.05
14 6 0.10
15 40 0.63
16 8 0.13
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTATAATATAATT
Found at i:151483 original size:20 final size:20
Alignment explanation
Indices: 151421--151489 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
151411 CAAATTATTA
151421 ATATTATAATTTATATTAT--T
1 ATATTATAA-TTA-ATTATAAT
* *
151441 ACATTATAA-TAAATATAATT
1 ATATTATAATTAATTATAA-T
151461 ATATTATAATTAATTATAAT
1 ATATTATAATTAATTATAAT
151481 ATATT-TAAT
1 ATATTATAAT
151490 ATAAATACAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
17 4 0.10
18 2 0.05
19 4 0.10
20 23 0.56
21 8 0.20
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTATAATTAATTATAAT
Found at i:151585 original size:57 final size:57
Alignment explanation
Indices: 151417--151578 Score: 135
Period size: 57 Copynumber: 2.9 Consensus size: 57
151407 ATATCAAATT
* * * * *
151417 ATTAATATTATA-ATTT-ATATTATTAC-ATT-ATAATAA-ATATAATTATATTA-TA
1 ATTAATATAATATATTTAATATAAATACAATTAATAATAATATTTAAATAT-TTATTA
*
151469 ATTAATTATAATATATTTAATATAAATACAATTAATATTAATATTTAAATATTTATTA
1 ATTAA-TATAATATATTTAATATAAATACAATTAATAATAATATTTAAATATTTATTA
** *
151527 ATTAA-ATAATATAATATT-ATATAAATATTATTAGATAAT-ATATTTTAATATT
1 ATTAATATAATAT-AT-TTAATATAAATACAATTA-ATAATAATATTTAAATATT
151579 ACTTAATCAT
Statistics
Matches: 90, Mismatches: 10, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
52 5 0.06
53 6 0.07
54 4 0.04
55 8 0.09
56 10 0.11
57 36 0.40
58 21 0.23
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (57 bp):
ATTAATATAATATATTTAATATAAATACAATTAATAATAATATTTAAATATTTATTA
Found at i:152256 original size:10 final size:9
Alignment explanation
Indices: 152235--152343 Score: 56
Period size: 10 Copynumber: 12.3 Consensus size: 9
152225 AATAATTAGT
152235 ATTAT-ATA
1 ATTATAATA
152243 ATTATAACTA
1 ATTATAA-TA
152253 ATTAT-ATA
1 ATTATAATA
152261 ATTAT-ATA
1 ATTATAATA
152269 ATT-T-AT-
1 ATTATAATA
152275 ATTATAA-A
1 ATTATAATA
*
152283 TATAAGT-ATA
1 -ATTA-TAATA
152293 ATATATAATA
1 AT-TATAATA
* *
152303 TTTATAATT
1 ATTATAATA
*
152312 ATTAATAATT
1 ATT-ATAATA
152322 ATTATTAATA
1 ATTA-TAATA
152332 A-TATAACTA
1 ATTATAA-TA
152341 ATT
1 ATT
152344 GAAATTATAT
Statistics
Matches: 81, Mismatches: 6, Indels: 26
0.72 0.05 0.23
Matches are distributed among these distances:
6 3 0.04
7 4 0.05
8 22 0.27
9 23 0.28
10 29 0.36
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (9 bp):
ATTATAATA
Found at i:152260 original size:20 final size:19
Alignment explanation
Indices: 152237--152323 Score: 51
Period size: 19 Copynumber: 4.6 Consensus size: 19
152227 TAATTAGTAT
152237 TATATAATTATAACTAA-T-
1 TATATAATTATAA-TAATTA
152255 TATATAATTAT-ATAATTTA
1 TATATAATTATAATAA-TTA
* *
152274 TATTATAAATATAAGT-ATAA
1 TA-TATAATTATAA-TAATTA
*
152294 TATATAA-TATTTATAATTA
1 TATATAATTA-TAATAATTA
152313 T-TAATAATTAT
1 TAT-ATAATTAT
152324 TATTAATAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
16 3 0.05
17 1 0.02
18 16 0.29
19 18 0.33
20 14 0.25
21 2 0.04
22 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (19 bp):
TATATAATTATAATAATTA
Found at i:152270 original size:16 final size:16
Alignment explanation
Indices: 152235--152337 Score: 70
Period size: 18 Copynumber: 6.1 Consensus size: 16
152225 AATAATTAGT
152235 ATTATATAATTATAACTA
1 ATTATATAATTAT-A-TA
152253 ATTATATAATTATATA
1 ATTATATAATTATATA
152269 ATT-TAT-ATTATA-A
1 ATTATATAATTATATA
152282 ATATAAGTATAA-TATATA
1 AT-T-A-TATAATTATATA
*
152300 ATATTTATAATTATTAATA
1 AT-TATATAATTA-T-ATA
*
152319 ATTATTATTAATAATATA
1 ATTA-TA-TAATTATATA
152337 A
1 A
152338 CTAATTGAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
13 3 0.04
14 7 0.10
15 3 0.04
16 10 0.14
17 10 0.14
18 25 0.35
19 8 0.11
20 5 0.07
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (16 bp):
ATTATATAATTATATA
Found at i:152270 original size:40 final size:38
Alignment explanation
Indices: 152221--152313 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 38
152211 ATGAACAATA
*
152221 AATTA-ATAATTAGTATTATATAATTATAACTA-ATTATAT
1 AATTATATAATTA-TATTATA-AA-TATAACTATAATATAT
*
152260 AATTATATAATTTATATTATAAATATAAGTATAATATAT
1 AATTATATAA-TTATATTATAAATATAACTATAATATAT
*
152299 AATATTTATAATTAT
1 AAT-TATATAATTAT
152314 TAATAATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
38 7 0.15
39 20 0.43
40 17 0.36
41 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (38 bp):
AATTATATAATTATATTATAAATATAACTATAATATAT
Found at i:152279 original size:32 final size:32
Alignment explanation
Indices: 152226--152337 Score: 79
Period size: 32 Copynumber: 3.4 Consensus size: 32
152216 CAATAAATTA
* *
152226 ATAATTAGTATTATATA-ATTATAACTAATTA-T
1 ATAATTA-TATAATTTATATTATAA-TAATTAGT
*
152258 ATAATTATATAATTTATATTATAA-ATATAAGT
1 ATAATTATATAATTTATATTATAATA-ATTAGT
*
152290 ATAA-TATATAATATTTATAATTATTAATAATTATT
1 ATAATTATAT-A-ATTTAT-ATTA-TAATAATTAGT
*
152325 ATTAATAATATAA
1 A-TAATTATATAA
152338 CTAATTGAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 17
0.74 0.07 0.20
Matches are distributed among these distances:
30 1 0.02
31 15 0.23
32 20 0.31
33 6 0.09
34 4 0.06
35 9 0.14
36 5 0.08
37 4 0.06
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (32 bp):
ATAATTATATAATTTATATTATAATAATTAGT
Found at i:152320 original size:50 final size:50
Alignment explanation
Indices: 152239--152337 Score: 118
Period size: 50 Copynumber: 2.0 Consensus size: 50
152229 ATTAGTATTA
152239 TATAATTATAACTAATTATATAATTATATAATT-TATATT-ATAAATATAAG
1 TATAATTATAACTAATTATATAATTATATAATTAT-TATTAAT-AATATAAG
152289 TATAATATATAA-T-ATT-TATAATTATTAATAATTATTATTAATAATATAA
1 TATAAT-TATAACTAATTATATAATTA-T-ATAATTATTATTAATAATATAA
152338 CTAATTGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
48 8 0.18
49 4 0.09
50 24 0.55
51 8 0.18
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (50 bp):
TATAATTATAACTAATTATATAATTATATAATTATTATTAATAATATAAG
Found at i:152327 original size:13 final size:13
Alignment explanation
Indices: 152309--152333 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
152299 AATATTTATA
152309 ATTATTAATAATT
1 ATTATTAATAATT
152322 ATTATTAATAAT
1 ATTATTAATAAT
152334 ATAACTAATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATTAATAATT
Found at i:152410 original size:15 final size:16
Alignment explanation
Indices: 152350--152410 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 16
152340 AATTGAAATT
*
152350 ATATTATTTAATTATAAC
1 ATATTAATTAA-TAT-AC
*
152368 ATATTAAATTAATATATT
1 ATATT-AATTAATATA-C
*
152386 ATATTTATTAATATAC
1 ATATTAATTAATATAC
152402 A-ATTAATTA
1 ATATTAATTA
152411 TTACTAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
15 7 0.19
16 1 0.03
17 10 0.28
18 13 0.36
19 5 0.14
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTAATTAATATAC
Found at i:152728 original size:18 final size:18
Alignment explanation
Indices: 152707--152742 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
152697 AATAATTTTA
* *
152707 TAATATTTTATAATTAAT
1 TAATATTATAAAATTAAT
152725 TAATATTATAAAATTAAT
1 TAATATTATAAAATTAAT
152743 GATAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATATTATAAAATTAAT
Found at i:152854 original size:27 final size:26
Alignment explanation
Indices: 152814--152895 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
152804 TTTCAACAAT
*
152814 TATTA-ATTAATCAAATTGTAAAATAA
1 TATTATATTATTC-AATTGTAAAATAA
*
152840 TATTATATTATTCAA-TATATAAATATA
1 TATTATATTATTCAATTGTA-AAATA-A
*
152867 TATTATA-TATT-ATTTGTAAAATAA
1 TATTATATTATTCAATTGTAAAATAA
152891 TATTA
1 TATTA
152896 AATATTTATT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
24 6 0.12
25 9 0.19
26 19 0.40
27 14 0.29
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
TATTATATTATTCAATTGTAAAATAA
Found at i:152893 original size:24 final size:24
Alignment explanation
Indices: 152828--152907 Score: 81
Period size: 24 Copynumber: 3.2 Consensus size: 24
152818 AATTAATCAA
152828 ATTGTAAAATAATATTATATTATTC
1 ATTGTAAAATAATATTATA-TATTC
* *
152853 AATATATAAATATATATTATATATT-
1 ATTGTA-AAATA-ATATTATATATTC
* *
152878 ATTTGTAAAATAATATTAAATATTT
1 A-TTGTAAAATAATATTATATATTC
152903 ATTGT
1 ATTGT
152908 TTTATATTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
24 15 0.33
25 11 0.24
26 12 0.26
27 8 0.17
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (24 bp):
ATTGTAAAATAATATTATATATTC
Found at i:153182 original size:23 final size:23
Alignment explanation
Indices: 153131--153182 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
153121 TTTTTAAAAA
*
153131 TATTAATAAAATAATATTATAAT
1 TATTATTAAAATAATATTATAAT
*
153154 TATTATTATAATAA-ATTAGTAAT
1 TATTATTAAAATAATATTA-TAAT
153177 TATTAT
1 TATTAT
153183 AATTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TATTATTAAAATAATATTATAAT
Found at i:153440 original size:35 final size:34
Alignment explanation
Indices: 153399--153507 Score: 109
Period size: 35 Copynumber: 3.1 Consensus size: 34
153389 AATTATATCA
153399 TATTTATAAATTATACTAATATATTATATATTTAT
1 TATTTATAAATTATA-TAATATATTATATATTTAT
153434 TATTTATATAA-TAT-TAATAACTATTATATATTTAAGT
1 TATTTATA-AATTATATAAT-A-TATTATATATTT-A-T
153471 TATTTAT-AATTATTATAAT-TATTATAATTATTTAT
1 TATTTATAAATTA-TATAATATATTAT-A-TATTTAT
153506 TA
1 TA
153508 CTATTTTAAT
Statistics
Matches: 64, Mismatches: 0, Indels: 20
0.76 0.00 0.24
Matches are distributed among these distances:
33 4 0.06
34 1 0.02
35 34 0.53
36 7 0.11
37 14 0.22
38 4 0.06
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (34 bp):
TATTTATAAATTATATAATATATTATATATTTAT
Found at i:153778 original size:24 final size:24
Alignment explanation
Indices: 153751--153799 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
153741 TTTGAACGTG
153751 TTATAAATAATATATTA-TA-AATTA
1 TTAT-AATAATA-ATTATTACAATTA
153775 TTATAATAATAATTATTACAATTA
1 TTATAATAATAATTATTACAATTA
153799 T
1 T
153800 CTTAGTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 4 0.17
23 9 0.39
24 10 0.43
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATAATAATAATTATTACAATTA
Found at i:154069 original size:13 final size:13
Alignment explanation
Indices: 154028--154097 Score: 51
Period size: 13 Copynumber: 5.4 Consensus size: 13
154018 TATAACCTTT
154028 TATTA-ATTAAT-
1 TATTATATTAATA
*
154039 TATTCAAATTAATA
1 TATT-ATATTAATA
154053 -ATTATATTAATA
1 TATTATATTAATA
154065 TATTATAATT-ATA
1 TATTAT-ATTAATA
154078 -ATATAGTATTAAATA
1 TAT-TA-TATT-AATA
154093 TATTA
1 TATTA
154098 ATAAAATATT
Statistics
Matches: 48, Mismatches: 1, Indels: 16
0.74 0.02 0.25
Matches are distributed among these distances:
11 4 0.08
12 11 0.23
13 22 0.46
14 4 0.08
15 5 0.10
16 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (13 bp):
TATTATATTAATA
Found at i:154074 original size:19 final size:19
Alignment explanation
Indices: 154050--154114 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
154040 ATTCAAATTA
154050 ATAATTATATTAATATATT
1 ATAATTATATTAATATATT
*
154069 ATAATTATAAT-ATAGTATT
1 ATAATTATATTAATA-TATT
* *
154088 A-AA-TATATTAATAAAAT
1 ATAATTATATTAATATATT
154105 ATTAATTATA
1 A-TAATTATA
154115 ATTTATCATA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
17 8 0.22
18 8 0.22
19 17 0.46
20 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
ATAATTATATTAATATATT
Found at i:154092 original size:28 final size:26
Alignment explanation
Indices: 154029--154097 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 26
154019 ATAACCTTTT
154029 ATTA-ATTAAT-TATTCA-AATTAATA
1 ATTATATTAATATATT-ATAATTAATA
154053 ATTATATTAATATATTATAATT-ATA
1 ATTATATTAATATATTATAATTAATA
154078 ATATAGTATTAAATATATTA
1 AT-TA-TATT-AATATATTA
154098 ATAAAATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
24 4 0.10
25 12 0.31
26 10 0.26
27 4 0.10
28 9 0.23
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (26 bp):
ATTATATTAATATATTATAATTAATA
Found at i:154135 original size:39 final size:37
Alignment explanation
Indices: 154050--154136 Score: 97
Period size: 36 Copynumber: 2.3 Consensus size: 37
154040 ATTCAAATTA
* *
154050 ATAATTATATTAATATATTATAATTATAATATAGTAT
1 ATAATTATATTAATAAAATATAATTATAATATAGTAT
* *
154087 -TAAATATATTAATAAAATATTAATTATAATTTA-TCAT
1 ATAATTATATTAATAAAATA-TAATTATAATATAGT-AT
154124 ATAATTAATATTA
1 ATAATT-ATATTA
154137 TCTGAATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
36 17 0.41
37 14 0.34
38 4 0.10
39 6 0.15
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (37 bp):
ATAATTATATTAATAAAATATAATTATAATATAGTAT
Found at i:154167 original size:21 final size:21
Alignment explanation
Indices: 154105--154167 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
154095 TTAATAAAAT
*
154105 ATTAATTATAATTT-ATCATATA
1 ATTAATTAT-ATTTAATTA-ATA
*
154127 ATTAA-TATTATCTGAA-TAATA
1 ATTAATTA-TAT-TTAATTAATA
154148 ATTAATTATATTTAATTAAT
1 ATTAATTATATTTAATTAAT
154168 TGAAGTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
20 3 0.09
21 19 0.58
22 10 0.30
23 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTAATTATATTTAATTAATA
Found at i:154229 original size:24 final size:22
Alignment explanation
Indices: 154197--154268 Score: 83
Period size: 24 Copynumber: 3.1 Consensus size: 22
154187 TATATTGTTA
154197 TAAAATATAATAAATATTATATTT
1 TAAAATATAATAAATA-TA-ATTT
*
154221 TAAAATATAATAATTATAATCTT
1 TAAAATATAATAAATATAAT-TT
154244 TAAAA-ATAATATAATAATAATTT
1 TAAAATATAATA-AAT-ATAATTT
154267 TA
1 TA
154269 TCCAATTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.19
23 15 0.35
24 20 0.47
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAAATATAATAAATATAATTT
Found at i:154372 original size:11 final size:13
Alignment explanation
Indices: 154343--154554 Score: 88
Period size: 14 Copynumber: 16.2 Consensus size: 13
154333 TATGGTACTA
*
154343 ATTATAACT-ATT
1 ATTATAATTAATT
154355 ATTATAATTAA-T
1 ATTATAATTAATT
*
154367 -TTATAAATAATT
1 ATTATAATTAATT
154379 ATTATAATT-ATT
1 ATTATAATTAATT
154391 ATTAATATATTTAATAT
1 ATT-ATA-A-TTAAT-T
* *
154408 ATTAT--TTGATA
1 ATTATAATTAATT
*
154419 AATATAATTATATT
1 ATTATAATTA-ATT
*
154433 ATTAT-ATTTATT
1 ATTATAATTAATT
* **
154445 AATATTAATTAAAA
1 ATTA-TAATTAATT
*
154459 AATATTAATGCTAATTT
1 ATTA-TAAT--TAA-TT
154476 ATTATAATTAATT
1 ATTATAATTAATT
154489 AATTATAA-TAATT
1 -ATTATAATTAATT
154502 A-TA-AATTAATT
1 ATTATAATTAATT
* *
154513 -TT-TATTTAATA
1 ATTATAATTAATT
154524 ATTATATATTAAATAT
1 ATTATA-ATT-AAT-T
* *
154540 AATATATTTAATT
1 ATTATAATTAATT
154553 AT
1 AT
154555 AATATTATAT
Statistics
Matches: 151, Mismatches: 24, Indels: 49
0.67 0.11 0.22
Matches are distributed among these distances:
10 2 0.01
11 27 0.18
12 29 0.19
13 28 0.19
14 35 0.23
15 7 0.05
16 16 0.11
17 7 0.05
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (13 bp):
ATTATAATTAATT
Found at i:154379 original size:24 final size:23
Alignment explanation
Indices: 154344--154451 Score: 80
Period size: 24 Copynumber: 4.5 Consensus size: 23
154334 ATGGTACTAA
*
154344 TTATAACTATTATTATAATTAAT
1 TTATAAATATTATTATAATTAAT
154367 TTATAAATAATTATTATAATT-A-
1 TTATAAAT-ATTATTATAATTAAT
*
154389 TTATTAATA-TATT-TAATATATTAT
1 TTATAAATATTATTATAAT-TA--AT
*
154413 TTGATAAATATAATTATATTATTATAT
1 TT-ATAAATATTATTATA--ATTA-AT
*
154440 TTATTAATATTA
1 TTATAAATATTA
154452 ATTAAAAAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 19
0.73 0.06 0.20
Matches are distributed among these distances:
19 4 0.06
20 5 0.07
21 1 0.01
22 7 0.10
23 9 0.13
24 14 0.21
25 6 0.09
26 11 0.16
27 7 0.10
28 2 0.03
29 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (23 bp):
TTATAAATATTATTATAATTAAT
Found at i:154453 original size:27 final size:25
Alignment explanation
Indices: 154352--154456 Score: 76
Period size: 25 Copynumber: 4.2 Consensus size: 25
154342 AATTATAACT
* *
154352 ATTATTATAATTAATTTA-TAA-ATA
1 ATTAATAT-ATTATTTTATTAATATA
*
154376 ATT-AT-TATAATTATTATTAATATA
1 ATTAATATATTATT-TTATTAATATA
* * *
154400 TTTAATATATTATTTGATAAATATA
1 ATTAATATATTATTTTATTAATATA
154425 ATT-ATATTATTATATTTATTAATATTA
1 ATTAATA-TATTAT-TTTATTAATA-TA
154452 ATTAA
1 ATTAA
154457 AAAATATTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
21 4 0.06
22 4 0.06
23 4 0.06
24 11 0.18
25 19 0.31
26 14 0.23
27 5 0.08
28 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (25 bp):
ATTAATATATTATTTTATTAATATA
Found at i:154462 original size:40 final size:40
Alignment explanation
Indices: 154381--154463 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
154371 AAATAATTAT
* * *
154381 TATAATTATTATTAATATATTTAATATATTATTTGATAAA
1 TATAATTATTATTAATATATTTAATATATTAATTAAAAAA
* *
154421 TATAATTA-TATTATTATATTTATTAATATTAATTAAAAAA
1 TATAATTATTATTAATATATTTAAT-ATATTAATTAAAAAA
154461 TAT
1 TAT
154464 TAATGCTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 14 0.38
40 23 0.62
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (40 bp):
TATAATTATTATTAATATATTTAATATATTAATTAAAAAA
Found at i:154550 original size:15 final size:16
Alignment explanation
Indices: 154521--154564 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
154511 TTTTTATTTA
154521 ATAATTATATATTAAAT
1 ATAA-TATATATTAAAT
*
154538 ATAATATAT-TTAATT
1 ATAATATATATTAAAT
154553 ATAATATTATAT
1 ATAATA-TATAT
154565 AGTTATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.46
16 8 0.33
17 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAATATATATTAAAT
Found at i:154562 original size:34 final size:32
Alignment explanation
Indices: 154478--154565 Score: 91
Period size: 34 Copynumber: 2.9 Consensus size: 32
154468 GCTAATTTAT
*
154478 TATAATTAATTAATTATAATA--AT-TATAAA
1 TATAATTATTTAATTATAATATTATATATAAA
154507 T-TAATT-TTT-ATT-TAATAATTATATATTAAA
1 TATAATTATTTAATTATAAT-ATTATATA-TAAA
154537 TATAATATATTTAATTATAATATTATATA
1 TATAAT-TATTTAATTATAATATTATATA
154566 GTTATTAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 15
0.75 0.02 0.23
Matches are distributed among these distances:
25 4 0.08
26 4 0.08
27 2 0.04
28 7 0.15
29 3 0.06
30 5 0.10
31 4 0.08
32 1 0.02
33 3 0.06
34 11 0.23
35 4 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
TATAATTATTTAATTATAATATTATATATAAA
Found at i:154877 original size:18 final size:19
Alignment explanation
Indices: 154851--154901 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
154841 TTTGTTACTG
*
154851 TAAATTTATATAAATA-AT
1 TAAAATTATATAAATATAT
*
154869 TAAAATTAT-TAATTATAT
1 TAAAATTATATAAATATAT
*
154887 TAATATTA-ATAAATA
1 TAAAATTATATAAATA
154902 GTATAATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAATTATATAAATATAT
Found at i:156351 original size:17 final size:17
Alignment explanation
Indices: 156302--156376 Score: 70
Period size: 17 Copynumber: 4.7 Consensus size: 17
156292 ATAATGAATA
156302 TATTATAAATTA-TTAT
1 TATTATAAATTATTTAT
* * *
156318 AATTATAAAATAATTAT
1 TATTATAAATTATTTAT
*
156335 TATTATATATTATTTA-
1 TATTATAAATTATTTAT
*
156351 T-TTATATA-TATTTAT
1 TATTATAAATTATTTAT
156366 TA-TATAAATTA
1 TATTATAAATTA
156377 CATTCATATT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
14 6 0.12
15 13 0.27
16 13 0.27
17 16 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATAAATTATTTAT
Found at i:156357 original size:15 final size:13
Alignment explanation
Indices: 156334--156371 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
156324 AAAATAATTA
156334 TTATTATATATTAT
1 TTATTATATA-TAT
156348 TTATTTATATATAT
1 TTA-TTATATATAT
156362 TTATTATATA
1 TTATTATATA
156372 AATTACATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.30
14 9 0.39
15 7 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTATATATAT
Found at i:156484 original size:22 final size:23
Alignment explanation
Indices: 156441--156485 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
156431 ATTTAATAAT
*
156441 TATTTTAATAAATTATATTATTA
1 TATTTTAAGAAATTATATTATTA
156464 TATTTT-AGAAATTAGTA-TATTA
1 TATTTTAAGAAATTA-TATTATTA
156486 ATAAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TATTTTAAGAAATTATATTATTA
Found at i:156516 original size:25 final size:26
Alignment explanation
Indices: 156480--156534 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
156470 AGAAATTAGT
*
156480 ATATTAATAAATAATAATTATTTACA
1 ATATTAATAAATAATAATTATATACA
* *
156506 ATATT-ATAAATATTAATTATATATA
1 ATATTAATAAATAATAATTATATACA
156531 ATAT
1 ATAT
156535 ATTTACATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
ATATTAATAAATAATAATTATATACA
Found at i:156519 original size:18 final size:18
Alignment explanation
Indices: 156493--156552 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
156483 TTAATAAATA
*
156493 ATAATTATTTACAATATT
1 ATAAATATTTACAATATT
*
156511 ATAAATA-TTA-ATTATAT
1 ATAAATATTTACAATAT-T
156528 ATAATATATTTACATTATATT
1 ATAA-ATATTTACA--ATATT
156549 ATAA
1 ATAA
156553 GATAATAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
16 4 0.12
17 8 0.24
18 9 0.27
19 3 0.09
20 1 0.03
21 5 0.15
22 3 0.09
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (18 bp):
ATAAATATTTACAATATT
Found at i:156780 original size:18 final size:20
Alignment explanation
Indices: 156745--156782 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
156735 AGATTATATT
*
156745 ATTAATTTTATAATATATAA
1 ATTAATTATATAATATATAA
156765 ATTAATTATATAATATAT
1 ATTAATTATATAATATAT
156783 TTTTATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTAATTATATAATATATAA
Found at i:156997 original size:30 final size:30
Alignment explanation
Indices: 156941--157032 Score: 84
Period size: 29 Copynumber: 3.1 Consensus size: 30
156931 TAATCATTTT
*
156941 TATAATTAAATATAAATTTAATTATAATATAA
1 TATAA-TAAA-ATTAATTTAATTATAATATAA
*
156973 TACTAATAAAATTAATTT-ATTATAATTTAA
1 TA-TAATAAAATTAATTTAATTATAATATAA
* *
157003 TATATTAAATTTAA--TAATTATGAAT-TAA
1 TATAATAAAATTAATTTAATTAT-AATATAA
157031 TA
1 TA
157033 ATTATAACCT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
27 1 0.02
28 10 0.19
29 13 0.25
30 13 0.25
31 7 0.13
32 6 0.11
33 3 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (30 bp):
TATAATAAAATTAATTTAATTATAATATAA
Found at i:156999 original size:14 final size:15
Alignment explanation
Indices: 156958--157057 Score: 61
Period size: 14 Copynumber: 6.8 Consensus size: 15
156948 AAATATAAAT
*
156958 TTAATTATAATATAA
1 TTAATTATAATTTAA
*
156973 TACTAA-TA-AAATTAA
1 T--TAATTATAATTTAA
*
156988 TTTATTATAATTTAA
1 TTAATTATAATTTAA
157003 -TATATTA-AATTTAA
1 TTA-ATTATAATTTAA
157017 -TAATTATGAA-TTAA
1 TTAATTAT-AATTTAA
**
157031 -TAATTATAACCTAA
1 TTAATTATAATTTAA
157045 TTAAGTTATAATT
1 TTAA-TTATAATT
157058 ATTATTAACA
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
13 8 0.12
14 26 0.39
15 22 0.33
16 8 0.12
17 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (15 bp):
TTAATTATAATTTAA
Found at i:157000 original size:10 final size:10
Alignment explanation
Indices: 156941--157006 Score: 53
Period size: 11 Copynumber: 6.4 Consensus size: 10
156931 TAATCATTTT
*
156941 TATAATTAAA
1 TATAATTTAA
156951 TATAAATTTAA
1 TAT-AATTTAA
*
156962 TTATAATATAA
1 -TATAATTTAA
**
156973 TACTAATAAAA
1 TA-TAATTTAA
*
156984 T-TAATTTAT
1 TATAATTTAA
156993 TATAATTTAA
1 TATAATTTAA
157003 TATA
1 TATA
157007 TTAAATTTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
9 6 0.13
10 16 0.36
11 20 0.44
12 3 0.07
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (10 bp):
TATAATTTAA
Found at i:157002 original size:15 final size:14
Alignment explanation
Indices: 156953--157022 Score: 58
Period size: 15 Copynumber: 5.1 Consensus size: 14
156943 TAATTAAATA
156953 TAAATTTAAT-TA-
1 TAAATTTAATATAT
* *
156965 T-AATATAATACTAA
1 TAAATTTAATA-TAT
* *
156979 TAAAATTAATTTAT
1 TAAATTTAATATAT
156993 TATAATTTAATATAT
1 TA-AATTTAATATAT
157008 TAAATTTAATA-AT
1 TAAATTTAATATAT
157021 TA
1 TA
157023 TGAATTAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
11 7 0.15
12 1 0.02
13 6 0.13
14 14 0.30
15 18 0.39
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAATTTAATATAT
Found at i:157407 original size:31 final size:31
Alignment explanation
Indices: 157369--157429 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
157359 ATTGTTCATA
*
157369 TATTATTAT-ATAATAGATTATTCAATTATTT
1 TATTATTATAATAATA-AATATTCAATTATTT
*
157400 TATTATTATAATAATAAATATTTAATTATT
1 TATTATTATAATAATAAATATTCAATTATT
157430 AAATATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 21 0.78
32 6 0.22
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (31 bp):
TATTATTATAATAATAAATATTCAATTATTT
Found at i:157443 original size:23 final size:24
Alignment explanation
Indices: 157392--157456 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 24
157382 TAGATTATTC
157392 AATTAT-TTT-ATTATTATAATAAT
1 AATTATATTTAATTATTA-AATAAT
157415 AA--ATATTTAATTATTAAAT-AT
1 AATTATATTTAATTATTAAATAAT
*
157436 AATTATATATTAAGTA-TAAAT
1 AATTATAT-TTAATTATTAAAT
157457 TATTAAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
21 6 0.17
22 6 0.17
23 18 0.50
24 6 0.17
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
AATTATATTTAATTATTAAATAAT
Found at i:157610 original size:16 final size:17
Alignment explanation
Indices: 157579--157611 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
157569 GGTTCGGTAA
*
157579 TTAAATTAATCTATAAT
1 TTAAATTAATCAATAAT
157596 TTAAATTAAT-AATAAT
1 TTAAATTAATCAATAAT
157612 AATTTTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAAATTAATCAATAAT
Found at i:157765 original size:12 final size:12
Alignment explanation
Indices: 157741--157772 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
157731 ATTTTATATT
157741 TTATTAA-AATA
1 TTATTAATAATA
157752 TTATTAATAATA
1 TTATTAATAATA
157764 TTATTAATA
1 TTATTAATA
157773 TGAATAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTATTAATAATA
Found at i:157944 original size:10 final size:11
Alignment explanation
Indices: 157929--157960 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
157919 CTAATATATC
157929 ATAATTTAATT
1 ATAATTTAATT
157940 A-AATTT-ATT
1 ATAATTTAATT
157949 ATAATTTAATT
1 ATAATTTAATT
157960 A
1 A
157961 CTTAGAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.21
10 10 0.53
11 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATAATTTAATT
Found at i:158451 original size:18 final size:19
Alignment explanation
Indices: 158418--158458 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
158408 ATCCTTATAA
*
158418 ATATATAATTAATATATTG
1 ATATATAATTAATATAATG
*
158437 ATATA-AATTATTATAATG
1 ATATATAATTAATATAATG
158455 ATAT
1 ATAT
158459 TATTGTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
ATATATAATTAATATAATG
Found at i:158623 original size:15 final size:17
Alignment explanation
Indices: 158605--158645 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
158595 GGGTTATAAC
158605 ATAATT-ATATT-ATAT
1 ATAATTAATATTAATAT
158620 ATAATTAATATTAATAT
1 ATAATTAATATTAATAT
158637 ATAA-TAATA
1 ATAATTAATA
158646 AGTTATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.25
16 10 0.42
17 8 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATTAATATTAATAT
Found at i:158658 original size:19 final size:19
Alignment explanation
Indices: 158631--158675 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
158621 TAATTAATAT
158631 TAATATATAATAATAAGTTA
1 TAAT-TATAATAATAAGTTA
*
158651 TAATTATAATAATAATTTA
1 TAATTATAATAATAAGTTA
158670 -AATTAT
1 TAATTAT
158676 TTTATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 6 0.25
19 14 0.58
20 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TAATTATAATAATAAGTTA
Found at i:159223 original size:40 final size:40
Alignment explanation
Indices: 159179--159257 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 40
159169 TTATTAAAAT
159179 TTATATTAATATAATAAATAATT-ATAAA-TATAT-ATTATAC
1 TTATATT--TATAATAAA-AATTAATAAATTATATAATTATAC
*
159219 TTATATTTATAATATAAATTAATAAATTATATAATTATA
1 TTATATTTATAATAAAAATTAATAAATTATATAATTATA
159258 AATAATTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
37 4 0.11
38 13 0.37
39 5 0.14
40 13 0.37
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (40 bp):
TTATATTTATAATAAAAATTAATAAATTATATAATTATAC
Found at i:159439 original size:29 final size:29
Alignment explanation
Indices: 159388--159456 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
159378 AGTTAAATAA
*
159388 TAATTATGATTATTTGATTAATAATCAATT
1 TAATTATTA-TATTTGATTAATAATCAATT
* *
159418 TAAATTATTATATTTG-TTAATATTTAATT
1 T-AATTATTATATTTGATTAATAATCAATT
159447 T-ATTATTATA
1 TAATTATTATA
159457 ATAATATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 9 0.26
29 12 0.34
30 7 0.20
31 7 0.20
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (29 bp):
TAATTATTATATTTGATTAATAATCAATT
Found at i:159745 original size:12 final size:12
Alignment explanation
Indices: 159692--159752 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
159682 ATTATAATTA
159692 TTATAATATT-AT
1 TTATAA-ATTAAT
*
159704 CTATAATATTAAT
1 TTATAA-ATTAAT
*
159717 TTATATTAATTATT
1 TTATA--AATTAAT
159731 TTATAAATTAAT
1 TTATAAATTAAT
159743 TTAATAAATT
1 TT-ATAAATT
159753 TGTTTATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
12 17 0.41
13 13 0.32
14 10 0.24
15 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (12 bp):
TTATAAATTAAT
Found at i:159749 original size:13 final size:13
Alignment explanation
Indices: 159706--159752 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
159696 AATATTATCT
159706 ATAATATTAATTTA
1 ATAA-ATTAATTTA
* *
159720 TATTAATT-ATTTT
1 -ATAAATTAATTTA
159733 ATAAATTAATTTA
1 ATAAATTAATTTA
159746 ATAAATT
1 ATAAATT
159753 TGTTTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 6 0.22
13 15 0.56
14 3 0.11
15 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATAAATTAATTTA
Found at i:160331 original size:21 final size:21
Alignment explanation
Indices: 160284--160325 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
160274 CAAATTAATT
* *
160284 CAATTATTATTATTATTTGTA
1 CAATAATTATTATTATTTATA
160305 CAATAATTATTAATTATTTAT
1 CAATAATTATT-ATTATTTAT
160326 TAATAAGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (21 bp):
CAATAATTATTATTATTTATA
Found at i:160544 original size:17 final size:18
Alignment explanation
Indices: 160525--160590 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
160515 ATAATAATAA
160525 TTAATAATTATTATTAA-
1 TTAATAATTATTATTAAT
*
160542 TT-ATAAATATATTGTTCAAT
1 TTAAT-AAT-TATTATT-AAT
160562 TTAATATATTGATATATTAAT
1 TTAATA-ATT-AT-TATTAAT
160583 TTAATAAT
1 TTAATAAT
160591 AATATATCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
16 2 0.05
17 5 0.13
18 6 0.15
19 2 0.05
20 6 0.15
21 15 0.38
22 3 0.08
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (18 bp):
TTAATAATTATTATTAAT
Found at i:160617 original size:13 final size:13
Alignment explanation
Indices: 160599--160646 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
160589 ATAATATATC
160599 AATATTTAGTATA
1 AATATTTAGTATA
160612 AATATTTA-TACTA
1 AATATTTAGTA-TA
* *
160625 ATTA-ATAGTATA
1 AATATTTAGTATA
160637 AATATTTAGT
1 AATATTTAGT
160647 TTATTAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
12 9 0.32
13 19 0.68
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (13 bp):
AATATTTAGTATA
Found at i:160657 original size:24 final size:24
Alignment explanation
Indices: 160605--160658 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
160595 TATCAATATT
160605 TAGTATAAATATTTATACTAATTAA
1 TAGTATAAATATTTATA-TAATTAA
*
160630 TAGTATAAATATTTAGT-TTATTAA
1 TAGTATAAATATTTA-TATAATTAA
160654 TAGTA
1 TAGTA
160659 ATTAATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 11 0.41
25 15 0.56
26 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (24 bp):
TAGTATAAATATTTATATAATTAA
Found at i:160817 original size:21 final size:21
Alignment explanation
Indices: 160797--160844 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
160787 AACATTATTA
*
160797 AATAAATA-ATAATATTAATT
1 AATAAATATATAAGATTAATT
* *
160817 AGTTAATATATAAGATTAATTT
1 AATAAATATATAAGATTAA-TT
160839 AATAAA
1 AATAAA
160845 AAATTACAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 6 0.29
21 9 0.43
22 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (21 bp):
AATAAATATATAAGATTAATT
Found at i:161830 original size:21 final size:21
Alignment explanation
Indices: 161806--161846 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
161796 TATATAATTT
161806 TATAATTTATCAA-ATTATTAC
1 TATAATTTAT-AATATTATTAC
*
161827 TATATTTTATAATATTATTA
1 TATAATTTATAATATTATTA
161847 ATTATCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
TATAATTTATAATATTATTAC
Found at i:162512 original size:15 final size:16
Alignment explanation
Indices: 162474--162512 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
162464 ATAGAATTTA
162474 ATTATAATTAAATTAT
1 ATTATAATTAAATTAT
162490 A-TATTAATT-AATTAT
1 ATTA-TAATTAAATTAT
162505 ATTATAAT
1 ATTATAAT
162513 AGAATATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTATAATTAAATTAT
Found at i:162639 original size:18 final size:17
Alignment explanation
Indices: 162613--162660 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
162603 GATATTATTA
*
162613 TACT-TTATTAATTTAT
1 TACTATTATTAATATAT
* *
162629 TATTATATATTAAAATAT
1 TACTAT-TATTAATATAT
162647 TACTATTATTAATA
1 TACTATTATTAATA
162661 AAGTATAGGT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 3 0.12
17 8 0.32
18 14 0.56
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
TACTATTATTAATATAT
Found at i:163457 original size:179 final size:179
Alignment explanation
Indices: 163005--165890 Score: 2142
Period size: 180 Copynumber: 16.2 Consensus size: 179
162995 ATTTATATTA
* * * * * * *
163005 AAATAGTTATGATTATTTGAACAATTCTATACTTCAAATCATTATAACCTTTTGTTATGTCATAA
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTGTCATAA
* * * * * * *
163070 AACAATTATTTTTGTTCATACAAGCTTATTCAAAATAAAACAATACTAATCTAATAATATTCCAA
66 AACAATTGTTTTTGTTCATATAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTCAA
* * ** * *
163135 AATTTAATAACTAAGGGATTTAAAAATAAATTTATTTACTGAACCAA-TTC
131 AAATTAATAAGTAAAAGATTTAAAAATAAATATGTTTACT-AA-CAAGTTC
* * * *
163185 AAATAGTTAAGACTATATGAACAATTATCTATTTCAAATCATTATGACCTTTTGTCTTGTCATAA
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTGTCATAA
*** *
163250 AACAATT-TTCTCAATTCATACT-AGTTTATTCGAAATAAAATAATA-TGAATTTATTAATATTT
66 AACAATTGTT-TTTGTTCATA-TAAGCTTATTCGAAATAAAATAATACT-AATTTATTAATATTT
* * *
163312 CAAAAAATAATAAGTAAAAGATTTAAAAATAATTATGTTTACCTAACCAGTTC
128 CAAAAATTAATAAGTAAAAGATTTAAAAATAAATATGTTTA-CTAACAAGTTC
* * * * *
163365 AAAAAATTAT-ACTATTTGAACAATTATATATTTCAAATCATTATTACTTTTTGTTTTGTCATAC
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTGTCATAA
* * * * *
163429 AACAAATGTTTTTGTTCATATAAGTTTATTCGGAATAAAGTAATACTAATCTATTAATATTTCAA
66 AACAATTGTTTTTGTTCATATAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTCAA
* * * *
163494 AAATTAATAAGT----GATTTAGACAATAAATCTATGTAT-CAAACTAGTTC
131 AAATTAATAAGTAAAAGATTTA-AAAATAAA--TATGTTTACTAACAAGTTC
** * * **
163541 AAATAGTTATGACTATTTGAGTAATTATTTATTTCAAATCATTATGACATTTTGTTTTGTTGTAA
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTGTCATAA
* ** * * * * * **
163606 AACAATTGTTTCTACTCATACAAGCTTATTTGCATTAAAATAATATTAATTTATTAATATTTTGA
66 AACAATTGTTTTTGTTCATATAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTCAA
* * * * * *
163671 CAATTAGTAAGTAAAA-ATTT--TAA-AAATATGTTTACCACACTAGATC
131 AAATTAATAAGTAAAAGATTTAAAAATAAATATGTTTACTA-ACAAGTTC
* * * * * ** *
163717 AAATAATCATGACAATTTGAATAATTATCTATTTTAAATTGTTATGACTTTTTGATTTGTCATAA
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTGTCATAA
* * ** * * * * *
163782 AAGAGTTGTTTCAGTTCATATAAGCTTATTC-ATAATAAACTAATATTCATTTATTAATAATCCA
66 AACAATTGTTTTTGTTCATATAAGCTTATTCGA-AATAAAATAATACTAATTTATTAATATTTCA
* * * * * *
163846 AAAATTAATAA-TAAAGAGATTAAAAAATGACTTTGTTTACTAAACAAATTT
130 AAAATTAATAAGTAAA-AGATTTAAAAATAAATATGTTTACT-AACAAGTTC
* * * *
163897 AAATAATTAGGACTATTTG-A-AA-TAGCTA--T--AA-C-------C-TTTTGTTTTGTAATAA
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTGTCATAA
* * *
163946 AAGAATT-TTTTCTGTTCATCTAAGCTTATTTCG-AATAAAATAATACAAATTTATTAATA-TT-
66 AACAATTGTTTT-TGTTCATATAAGCTTA-TTCGAAATAAAATAATACTAATTTATTAATATTTC
* * *
164007 AAGACAATTAATAAGTAAAAGATTTAAAAATAAATCTATTTACCAAACAAGTTC
129 AA-A-AATTAATAAGTAAAAGATTTAAAAATAAATATGTTTA-CTAACAAGTTC
* * * * * *
164061 TAATCA-TTATGGCTATTTGAGCAATTATTTATTTCAACAT-GTTATGATTTTTTGTTTTGTCAT
1 AAAT-AGTTATGACTATTTGAACAATTATCTATTTCAA-ATCATTATGACTTTTTGTTTTGTCAT
* * * * * *
164124 AAAACAATTATTTCTGTTCATACAAGTTTATTC-AAATTAAAATAATATTAATTAATTAATATTT
64 AAAACAATTGTTTTTGTTCATATAAGCTTATTCGAAA-TAAAATAATACTAATTTATTAATATTT
** * * *
164188 TGACAATTAATAAGT--AAGATTTAAAAAATAAATATATTTACCAAACAAGTTC
128 CAAAAATTAATAAGTAAAAGATTT-AAAAATAAATATGTTTA-CTAACAAGTTC
* * * * * * * *
164240 AATTAGTCATTAATATTTCAATAATTATCTATTTCAAATCATTATGACCTTTCT-TTTT-TAATA
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGA-CTTTTTGTTTTGTCATA
* *** * * * *
164303 AAACACTTGTTTCAATTCATATAAGCTTATTTGAAGTAAGATAATACTAATTTATTAATATTCCA
65 AAACAATTGTTTTTGTTCATATAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTCA
* * * * * * * *
164368 AAAATTAATGATTGAGAGAATTAAAAAAAGAATATGTTTACCAAATAAGTTC
130 AAAATTAATAAGTAAAAGATTTAAAAATA-AATATGTTTA-CTAACAAGTTC
* * * *
164420 AAATAGTTATGACTATCTAAACAATTATCTATTTCAAAACATTATGACCTTTTGTTTTGTCATAA
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTGTCATAA
** ** * *
164485 AACAATTGGCTTTGTTCATGCAAGCTTATTTTG-AATAAAATAAT-TTAAATTTATTAATATTTC
66 AACAATTGTTTTTGTTCATATAAGCTTA-TTCGAAATAAAATAATACT-AATTTATTAATATTTC
* * *
164548 AAAAATTAATAAGTAAAA-TTTTAAAAAATAAATATGTTTTCTGAACACGTTC
129 AAAAATTAATAAGTAAAAGATTT-AAAAATAAATATGTTTACT-AACAAGTTC
* * * * * * *
164600 AAATAGTTATGATTATTTAAAAAATTATCTATTTCAAATCGTTAGGACTTTTTATTTTGTCGTAA
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTGTCATAA
* * * * * *
164665 ACCAATTGTTTCTGGTCATAAAAGCTT-TATC-AAATAAAATAGTACTAATTTATTAAAATTTCA
66 AACAATTGTTTTTGTTCATATAAGCTTAT-TCGAAATAAAATAATACTAATTTATTAATATTTCA
* * * *
164728 AAAATTAATAAGTAAAAGATTAAAAAATAAATCTATTTACTGAACAAATTC
130 AAAATTAATAAGTAAAAGATTTAAAAATAAATATGTTTACT-AACAAGTTC
* * * * * *
164779 AAATAGTTATGACTATTTGAATAATTATTTATTTTAAATCGTTAT-AATCTTTTGTTTTATCATA
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACT-TTTTGTTTTGTCATA
* * * ** * ** * *
164843 AAATAATT-TTTCTGTTCATACAAAATTATTCAAAATAAAATAATTTTGATTTATTAATATTTTA
65 AAACAATTGTTTTTGTTCATATAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTCA
* * *
164907 AAAATTAATAAG----AGATTTAAAAACTAAATCTATTTACTATTCCAA-TTC
130 AAAATTAATAAGTAAAAGATTTAAAAA-TAAATATGTTTACTA--ACAAGTTC
* * *
164955 AAATAGTTATGACTATTTGAACAATTATCTATCTCAAATCATAATGA-TCTTTAG-TTTGTCATA
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACT-TTTTGTTTTGTCATA
* * * * * * *
165018 CAACAATTGTTTCCT-TTCGTAGAAGCTTATTC-AGATTAAAATGATACTAATTTAATAATATTT
65 AAACAATTGTTT-TTGTTCATATAAGCTTATTCGA-AATAAAATAATACTAATTTATTAATATTT
* *
165081 CAAAAATTAATAAG----AGA-TTAAAAATAAATATG-TTAGTCGAACTAGTTC
128 CAAAAATTAATAAGTAAAAGATTTAAAAATAAATATGTTTA--CTAACAAGTTC
*** * * * *
165129 AAATAGTTA-GACTATCAAAATAATTATCTATTTCAAATCATTCT-ATCATTTTGTTTAGTCATA
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGA-CTTTTTGTTTTGTCATA
* * * * * *
165192 AAAC-ATTATTTTAGTTCATATAAGCTTATTTGGAATAAAATAATACTAATTTATTAACATTTGA
65 AAACAATTGTTTTTGTTCATATAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTCA
* * * * *
165256 AAAATT-A-AAGCAAGAGATTTTTAAAAAATAAATCTGTTTACTAAATAATTTC
130 AAAATTAATAAGTAAAAGA--TTT-AAAAATAAATATGTTTACT-AACAAGTTC
* * * * * * *
165308 AAATAGATATGACTATTTAAACAATTATCTGTTTAAAATTATTTTGACATTTTGTTTTGTCATAA
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTGTCATAA
* ** * * *
165373 AATAATTG--TTTAATCAGTAAAAACTTA-TCTGAAATAAAATAATACTACTTTATTAATATTTC
66 AACAATTGTTTTTGTTCA-TATAAGCTTATTC-GAAATAAAATAATACTAATTTATTAATATTTC
* * *
165435 AAAAA-TAATTAAGCAAAAGATTTAAAAACTAAAGT-TGTTTTTCAAAGC-AGTTC
129 AAAAATTAA-TAAGTAAAAGATTTAAAAA-TAAA-TATG-TTTACTAA-CAAGTTC
* * * *
165488 TAATAGTTATGACTATTTGAACAAATAT-TAATCTCAAATCATTATGA-TCTTTGTTTTGTCATA
1 AAATAGTTATGACTATTTGAACAATTATCT-ATTTCAAATCATTATGACTTTTTGTTTTGTCATA
* *
165551 AAACAATTGTTTTT-TATCATATAAGCTAATTC-AAATAAAAATAATACTAATTTAATAATATTT
65 AAACAATTGTTTTTGT-TCATATAAGCTTATTCGAAAT-AAAATAATACTAATTTATTAATATTT
* * * * * *
165614 TAAAAATTAATACGTAAAAGATTTAAAAAATAAATGTGTTTGCCGATCAA-TTC
128 CAAAAATTAATAAGTAAAAGATTT-AAAAATAAATATGTTT-ACTAACAAGTTC
* * * * * * * **
165667 AAATAGTTAAGATTATTAGAATAATTATCTATTTCAAATCGTTTTGACCTTTTGTTTAATCATAA
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTGTCATAA
* * ** * * *
165732 AATAATTATTTCAGTTCATACT-AGCTTATTTGAAAGAAAATAATACTAATTTATTAACT-TTTG
66 AACAATTGTTTTTGTTCATA-TAAGCTTATTCGAAATAAAATAATACTAATTTATTAA-TATTTC
* * ** * * * *
165795 AAAGATTAATAAGCAGGATATTTGAAAAACT-AATTTGTTTACCGAAAAAGTTC
129 AAAAATTAATAAGTAAAAGATTT-AAAAA-TAAATATGTTTA-CTAACAAGTTC
* * *
165848 AAATAGTTATGACTATTTGAATAATTATCCATTTAAAATCATT
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATT
165891 GTGAATTTAA
Statistics
Matches: 2147, Mismatches: 426, Indels: 265
0.76 0.15 0.09
Matches are distributed among these distances:
162 2 0.00
163 5 0.00
164 104 0.05
165 10 0.00
166 2 0.00
167 4 0.00
169 1 0.00
171 4 0.00
172 3 0.00
173 91 0.04
174 35 0.02
175 51 0.02
176 261 0.12
177 123 0.06
178 104 0.05
179 472 0.22
180 712 0.33
181 149 0.07
182 14 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (179 bp):
AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACTTTTTGTTTTGTCATAA
AACAATTGTTTTTGTTCATATAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTCAA
AAATTAATAAGTAAAAGATTTAAAAATAAATATGTTTACTAACAAGTTC
Found at i:164753 original size:539 final size:532
Alignment explanation
Indices: 163054--165890 Score: 1953
Period size: 539 Copynumber: 5.3 Consensus size: 532
163044 CATTATAACC
* * * *
163054 TTTTGTTATGTCATAAAACAATTATTTTTGTTCATACAAGC-TTATTCAAAATAAAACAATACTA
1 TTTTGTTTTGTCATAAAACAATTATTTCTGTTCATAAAAGCTTTA-TC-AAATAAAATAATACTA
* * * * * * ** * * *
163118 ATCTAATAATATTCCAAAATTTAATAACTAAGGGATTT-AAAAATAAATTTATTTACTGAACCAA
64 ATTTATTAAAATTTCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACTAAACAAA
* * * * * * *
163182 TTCAAATAGTTAAGACTATATGAACAATTATCTATTTCAAATCATTATGACCTTTTGTCTTGTCA
129 TTCAAATAG-TATGACTATTTAAATAATTATCTATTTAAAATCATTATGACCTTTTGTTTTATCA
* ** ** *
163247 TAAAACAATT-TTCTCAATTCATACTAGTTTATTCGAAATAAAATAATA-TGAATTTATTAATAT
193 TAAAATAATTGTT-TCAATTCATAAAAACTTATTTGAAATAAAATAATACT-AATTTATTAATAT
* * * * * ** * *
163310 TTCAAAAAATAATAAGTAAAAGATTTAAAAA-TAATTATGTTTACCTAACCAGTTCAAAAAATTA
256 TTCAAAAATTAAT-AG--AGAGATTTAAAAACAAAAT-TGTTTA-CAAATAAGTTCAAATAGTTA
* * * * * *
163374 T-ACTATTTGAACAATTATATATTTCAAATCATTATTACTTTTTGTTTTGTCATACAACAAATGT
316 TGACTATTTGAACAATTATCTATCTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTG-
** * * * *
163438 TTTTGTTCATATAAGTTTA-TTCGGAATAAAGTAATACTAATCTATTAATATTTCAAAAATTAAT
380 TTTTGTTCATGCAAGCTTATTTC-GAATAAAATAATACTAATTTAATAATATTTCAAAAATTAAT
* * * *
163502 AAGT----GATTTAGACAATAAATCTATG-TAT-CAAACTAGTTCAAATAGTTATGACTATTTGA
444 AAGTAAAAGATTTA-AAAATAAA--TATGTTTTCCGAAC-AGTTCAAATAGTTATGACTA-TTAA
** * * * *
163561 GTAATTATTTATTTCAAATCATTATGACA
504 AAAATTATCTATTTCAAATCGTTACGACT
** * ** * * * *
163590 TTTTGTTTTGTTGTAAAACAATTGTTTCTACTCATACAAGCTTATTTGC-ATTAAAATAATATTA
1 TTTTGTTTTGTCATAAAACAATTATTTCTGTTCATAAAAGCTT-TAT-CAAATAAAATAATACTA
* ** * * * * * * *
163654 ATTTATTAATATTTTGACAATTAGTAAGTAAAA-ATTTTAAAAAT--A--TGTTTACCACACTAG
64 ATTTATTAAAATTTCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACTAAAC-AA
* * * * ** * * *
163714 A-TCAAATAATCATGACAATTTGAATAATTATCTATTTTAAATTGTTATGACTTTTTGATTTGTC
128 ATTCAAATAGT-ATGACTATTTAAATAATTATCTATTTAAAATCATTATGACCTTTTGTTTTATC
* * * * * * * * * *
163778 ATAAAAGAGTTGTTTCAGTTCATATAAGCTTA-TTCATAATAAACTAATATTCATTTATTAATAA
192 ATAAAATAATTGTTTCAATTCATAAAAACTTATTTGA-AATAAAATAATACTAATTTATTAATAT
* * * ** ** * * * * *
163842 TCCAAAAATTAATAATAAAGAGATTAAAAAATGACTTTGTTTACTAAACAAATTTAAATAATTAG
256 TTCAAAAA-T--TAATAGAGAGATTTAAAAACAAAATTGTTTAC-AAATAAGTTCAAATAGTTAT
* * * *
163907 GACTATTTG---AA--A--TA--GC---T-A-TA--ACCTTTTGTTTTGTAATAAAAGAATTTTT
317 GACTATTTGAACAATTATCTATCTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTT
* *
163956 TCTGTTCAT-CTAAGCTTATTTCGAATAAAATAATACAAATTTATTAATA-TT-AAGACAATTAA
382 T-TGTTCATGC-AAGCTTATTTCGAATAAAATAATACTAATTTAATAATATTTCAA-A-AATTAA
* * * * * * * *
164018 TAAGTAAAAGATTTAAAAATAAATCTATTTACCAAACAAGTTCTAATCA-TTATGGCTATTTGAG
443 TAAGTAAAAGATTTAAAAATAAATATGTTTTCCGAAC-AGTTCAAAT-AGTTATGACTA-TTAAA
* * * *
164082 CAATTATTTATTTCAACAT-GTTATGATT
505 AAATTATCTATTTCAA-ATCGTTACGACT
* *
164110 TTTTGTTTTGTCATAAAACAATTATTTCTGTTCATACAAG-TTTATTCAAATTAAAATAATATTA
1 TTTTGTTTTGTCATAAAACAATTATTTCTGTTCATAAAAGCTTTA-TCAAA-TAAAATAATACTA
* * ** * * * *
164174 ATTAATTAATATTTTGACAATTAATAAGT--AAGATTTAAAAAATAAATATATTTACCAAACAAG
64 ATTTATTAAAATTTCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACTAAACAAA
* * * * * *
164237 TTCAATTAGTCATTAATATTTCAATAATTATCTATTTCAAATCATTATGACCTTTCT-TTTT-TA
129 TTCAAATAGT-ATGACTATTTAAATAATTATCTATTTAAAATCATTATGACCTTT-TGTTTTATC
* * * * * *
164300 ATAAAACACTTGTTTCAATTCATATAAGCTTATTTGAAGTAAGATAATACTAATTTATTAATATT
192 ATAAAATAATTGTTTCAATTCATAAAAACTTATTTGAAATAAAATAATACTAATTTATTAATATT
* *
164365 CCAAAAATTAATGATTGAGAGAATTAAAAA-AAGAATATGTTTACCAAATAAGTTCAAATAGTTA
257 TCAAAAATTAAT-A--GAGAGATTTAAAAACAA-AAT-TGTTTA-CAAATAAGTTCAAATAGTTA
* * * *
164429 TGACTATCTAAACAATTATCTATTTCAAAACATTATGACCTTTTGTTTTGTCATAAAACAATTGG
316 TGACTATTTGAACAATTATCTATCTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATT-G
* * * *
164494 CTTTGTTCATGCAAGCTTATTTTGAATAAAATAAT-TTAAATTTATTAATATTTCAAAAATTAAT
380 TTTTGTTCATGCAAGCTTATTTCGAATAAAATAATACT-AATTTAATAATATTTCAAAAATTAAT
* * *
164558 AAGTAAAA-TTTTAAAAAATAAATATGTTTTCTGAACACGTTCAAATAGTTATGATTATTTAAAA
444 AAGTAAAAGATTT-AAAAATAAATATGTTTTCCGAACA-GTTCAAATAGTTATGACTA-TTAAAA
*
164622 AATTATCTATTTCAAATCGTTAGGACT
506 AATTATCTATTTCAAATCGTTACGACT
* * * * * *
164649 TTTTATTTTGTCGTAAACCAATTGTTTCTGGTCATAAAAGCTTTATCAAATAAAATAGTACTAAT
1 TTTTGTTTTGTCATAAAACAATTATTTCTGTTCATAAAAGCTTTATCAAATAAAATAATACTAAT
*
164714 TTATTAAAATTTCAAAAATTAATAAGTAAAAGA-TTAAAAAATAAATCTATTTACTGAACAAATT
66 TTATTAAAATTTCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACTAAACAAATT
* * * * * *
164778 CAAATAGTTATGACTATTTGAATAATTATTTATTTTAAATCGTTATAATCTTTTGTTTTATCATA
131 CAAATAG-TATGACTATTTAAATAATTATCTATTTAAAATCATTATGACCTTTTGTTTTATCATA
** ** ** * *
164843 AAATAATT-TTTCTGTTCATACAAAA-TTATTCAAAATAAAATAATTTTGATTTATTAATATTTT
195 AAATAATTGTTTCAATTCATA-AAAACTTATTTGAAATAAAATAATACTAATTTATTAATATTTC
* * * *
164906 AAAAATTAATA-AGAGATTTAAAAACTAAATCTATTTACTATTCCAA-TTCAAATAGTTATGACT
259 AAAAATTAATAGAGAGATTTAAAAACAAAAT-TGTTTACAAAT--AAGTTCAAATAGTTATGACT
* * * *
164969 ATTTGAACAATTATCTATCTCAAATCATAATGATCTTTAG-TTTGTCATACAACAATTGTTTCCT
321 ATTTGAACAATTATCTATCTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTT--T
* * *
165033 -TTCGTAG-AAGCTTA-TTCAGATTAAAATGATACTAATTTAATAATATTTCAAAAATTAATAAG
384 GTTCAT-GCAAGCTTATTTC-GAATAAAATAATACTAATTTAATAATATTTCAAAAATTAATAAG
* *
165095 ----AGA-TTAAAAATAAATATGTTAGT-CGAACTAGTTCAAATAGTTA-GACTATCAAAATAAT
447 TAAAAGATTTAAAAATAAATATGTT-TTCCGAAC-AGTTCAAATAGTTATGACTATTAAAA-AAT
* * *
165153 TATCTATTTCAAATCATT-CTATCA
509 TATCTATTTCAAATCGTTACGA-CT
* * * **
165177 TTTTGTTTAGTCATAAAAC-ATTATTT-TAGTTCATATAAGCTTATTTGGAATAAAATAATACTA
1 TTTTGTTTTGTCATAAAACAATTATTTCT-GTTCATAAAAGCTT-TATCAAATAAAATAATACTA
* * * * * *
165240 ATTTATTAACATTTGAAAAATT-A-AAGCAAGAGATTTTTAAAAAATAAATCTGTTTACTAAATA
64 ATTTATTAAAATTTCAAAAATTAATAAGTAAAAGA--TTTAAAAAATAAATCTATTTACTAAACA
* * * * * * *
165303 ATTTCAAATAGATATGACTATTTAAACAATTATCTGTTTAAAATTATTTTGACATTTTGTTTTGT
127 AATTCAAATAG-TATGACTATTTAAATAATTATCTATTTAAAATCATTATGACCTTTTGTTTTAT
* *
165368 CATAAAATAATTGTTT-AA-TCAGTAAAAACTTATCTGAAATAAAATAATACTACTTTATTAATA
191 CATAAAATAATTGTTTCAATTCA-TAAAAACTTATTTGAAATAAAATAATACTAATTTATTAATA
* * * ** *
165431 TTTCAAAAA-TAATTAAGCAAAAGATTTAAAAACTAAAGTTGTTTTTCAAAGCAGTTCTAATAGT
255 TTTCAAAAATTAA-T-AG--AGAGATTTAAAAAC-AAAATTG-TTTACAAATAAGTTCAAATAGT
* *
165495 TATGACTATTTGAACAAATAT-TAATCTCAAATCATTATGATC-TTTGTTTTGTCATAAAACAAT
314 TATGACTATTTGAACAATTATCT-ATCTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAAT
* ** * * *
165558 TGTTTTTTATCATATAAGC-TAATTCAAATAAAAATAATACTAATTTAATAATATTTTAAAAATT
378 TGTTTTGT-TCATGCAAGCTTATTTCGAAT-AAAATAATACTAATTTAATAATATTTCAAAAATT
* * * * * * *
165622 AATACGTAAAAGATTTAAAAAATAAATGTGTTTGCCGATCAATTCAAATAGTTAAGATTATTAGA
441 AATAAGTAAAAGATTT-AAAAATAAATATGTTTTCCGAACAGTTCAAATAGTTATGACTATTA-A
* ** *
165687 ATAATTATCTATTTCAAATCGTTTTGACC
504 AAAATTATCTATTTCAAATCGTTACGACT
** * * ** * * *
165716 TTTTGTTTAATCATAAAATAATTATTTCAGTTCATACTAGCTTATTTGAAAGAAAATAATACTAA
1 TTTTGTTTTGTCATAAAACAATTATTTCTGTTCATAAAAGCTT-TATCAAATAAAATAATACTAA
** * * * ** * * * * *
165781 TTTATTAACTTTTGAAAGATTAATAAGCAGGATATTTGAAAAACT-AATTTGTTTACCGAAA-AA
65 TTTATTAAAATTTCAAAAATTAATAAGTAAAAGATTT-AAAAAATAAATCTATTTA-CTAAACAA
* * *
165844 GTTCAAATAGTTATGACTATTTGAATAATTATCCATTTAAAATCATT
128 ATTCAAATAG-TATGACTATTTAAATAATTATCTATTTAAAATCATT
165891 GTGAATTTAA
Statistics
Matches: 1844, Mismatches: 328, Indels: 254
0.76 0.14 0.10
Matches are distributed among these distances:
515 2 0.00
516 6 0.00
517 69 0.04
518 9 0.00
519 21 0.01
520 132 0.07
521 13 0.01
522 72 0.04
523 88 0.05
524 3 0.00
526 13 0.01
527 25 0.01
528 88 0.05
529 157 0.09
530 13 0.01
531 5 0.00
532 152 0.08
533 148 0.08
534 78 0.04
535 81 0.04
536 78 0.04
537 7 0.00
538 61 0.03
539 360 0.20
540 142 0.08
541 13 0.01
542 8 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (532 bp):
TTTTGTTTTGTCATAAAACAATTATTTCTGTTCATAAAAGCTTTATCAAATAAAATAATACTAAT
TTATTAAAATTTCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACTAAACAAATT
CAAATAGTATGACTATTTAAATAATTATCTATTTAAAATCATTATGACCTTTTGTTTTATCATAA
AATAATTGTTTCAATTCATAAAAACTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAA
AAATTAATAGAGAGATTTAAAAACAAAATTGTTTACAAATAAGTTCAAATAGTTATGACTATTTG
AACAATTATCTATCTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTTGTTCATG
CAAGCTTATTTCGAATAAAATAATACTAATTTAATAATATTTCAAAAATTAATAAGTAAAAGATT
TAAAAATAAATATGTTTTCCGAACAGTTCAAATAGTTATGACTATTAAAAAATTATCTATTTCAA
ATCGTTACGACT
Found at i:166076 original size:15 final size:15
Alignment explanation
Indices: 166045--166106 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
166035 ATTAATTAAC
*
166045 ATTTATTAAT-TAGTA
1 ATTTAATAATATA-TA
166060 ATTTAATAATATATA
1 ATTTAATAATATATA
* *
166075 A-TTAATTAACATTTA
1 ATTTAA-TAATATATA
166090 ATTTAAT-ATA-ATA
1 ATTTAATAATATATA
166103 ATTT
1 ATTT
166107 TAATTAAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
13 6 0.15
14 6 0.15
15 21 0.54
16 6 0.15
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTTAATAATATATA
Found at i:166126 original size:18 final size:18
Alignment explanation
Indices: 166085--166128 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
166075 ATTAATTAAC
* * *
166085 ATTTAATTTAATATAATA
1 ATTTAATTAAACAAAATA
166103 ATTTTAATTAAACAAAATA
1 A-TTTAATTAAACAAAATA
166122 ATTTAAT
1 ATTTAAT
166129 AAATTAGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTAATTAAACAAAATA
Found at i:166239 original size:31 final size:31
Alignment explanation
Indices: 166190--166248 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
166180 TATAAAACTA
*
166190 ATTTAATATATATTAAATATTAA-TATTAATT
1 ATTTAATATATATAAAATA-TAACTATTAATT
166221 ATTTAATAT-TAATAAAATATAACTATTA
1 ATTTAATATAT-ATAAAATATAACTATTA
166249 TATTTTATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (31 bp):
ATTTAATATATATAAAATATAACTATTAATT
Found at i:168664 original size:35 final size:35
Alignment explanation
Indices: 168591--168688 Score: 89
Period size: 35 Copynumber: 2.8 Consensus size: 35
168581 TAGATTTTTT
* *
168591 TAATAGTAATATTAA-AAATTATTAGTTAATTTATAA
1 TAATA-TAATATTAATTAATTATTA-ATAATTTATAA
*
168627 TAATATAATATTAATTAATTATTAATGATTTGA-AA
1 TAATATAATATTAATTAATTATTAATAATTT-ATAA
*
168662 TAA-ATAA-A-TAATTAGTTATTAAATAAT
1 TAATATAATATTAATTAATTATT-AATAAT
168689 ATTTATTATA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
32 11 0.20
33 6 0.11
34 4 0.07
35 19 0.35
36 14 0.26
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (35 bp):
TAATATAATATTAATTAATTATTAATAATTTATAA
Found at i:169373 original size:31 final size:31
Alignment explanation
Indices: 169312--169373 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
169302 TTTTAAACTT
**
169312 TATTAATCTATTAAATCAATTTTATTTATTA
1 TATTAATCTATTAAATCAATTTTACATATTA
169343 TATTAATCTA-TAAAT-AATATTATACATATTA
1 TATTAATCTATTAAATCAAT-TT-TACATATTA
169374 CAATAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 3 0.11
30 7 0.26
31 17 0.63
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (31 bp):
TATTAATCTATTAAATCAATTTTACATATTA
Found at i:169947 original size:28 final size:29
Alignment explanation
Indices: 169867--169965 Score: 98
Period size: 34 Copynumber: 3.3 Consensus size: 29
169857 TATTAATAAC
*
169867 TTATTATAAATTATAATCGATTAATTTAAAT
1 TTATTATAAATTATAAT--ATAAATTTAAAT
169898 TTAGTTGTTATAAATTATTAATATAAATTTAAAT
1 TTA----TTATAAATTA-TAATATAAATTTAAAT
169932 TTATT-TAAATTATAAT-TAAATTT-AA-
1 TTATTATAAATTATAATATAAATTTAAAT
169957 TTATTATAA
1 TTATTATAA
169966 CTTAGAAATA
Statistics
Matches: 61, Mismatches: 1, Indels: 17
0.77 0.01 0.22
Matches are distributed among these distances:
25 5 0.08
26 5 0.08
27 7 0.11
28 4 0.07
29 7 0.11
30 2 0.03
31 3 0.05
34 14 0.23
35 10 0.16
36 4 0.07
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (29 bp):
TTATTATAAATTATAATATAAATTTAAAT
Found at i:169957 original size:10 final size:10
Alignment explanation
Indices: 169926--169959 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
169916 TAATATAAAT
*
169926 TTAAATTTAT
1 TTAAATTTAA
169936 TTAAATTATAA
1 TTAAATT-TAA
169947 TTAAATTTAA
1 TTAAATTTAA
169957 TTA
1 TTA
169960 TTATAACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTAAATTTAA
Done.