Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168215.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_45, 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: 205015
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Warning! 1000 characters in sequence are not A, C, G, or T
File 1 of 5
Found at i:1260 original size:34 final size:34
Alignment explanation
Indices: 1214--1279 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
1204 GTTTTATAAC
* *
1214 TAATATATAATTATATTATTAT-ATATCAAATTAT
1 TAATATAGAATTA-ATTAATATAATATCAAATTAT
*
1248 TAATATAGAATTAATTAATATAATATTAAATT
1 TAATATAGAATTAATTAATATAATATCAAATT
1280 CAAATATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 7 0.25
34 21 0.75
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (34 bp):
TAATATAGAATTAATTAATATAATATCAAATTAT
Found at i:1276 original size:15 final size:13
Alignment explanation
Indices: 1228--1275 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 13
1218 ATATAATTAT
1228 ATTATTATATATCAA
1 ATTATTA-ATAT-AA
1243 ATTATTAATATAGA
1 ATTATTAATATA-A
1257 ATTAATTAATATAA
1 ATT-ATTAATATAA
1271 TATTA
1 -ATTA
1276 AATTCAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.03
14 10 0.33
15 19 0.63
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (13 bp):
ATTATTAATATAA
Found at i:1398 original size:17 final size:17
Alignment explanation
Indices: 1368--1406 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1358 TAATGAATAT
*
1368 ATTAT-AAATTATTATA
1 ATTATAAAATAATTATA
*
1384 ATTATAAAATAATTATT
1 ATTATAAAATAATTATA
1401 ATTATA
1 ATTATA
1407 TATTATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTATAAAATAATTATA
Found at i:1465 original size:28 final size:26
Alignment explanation
Indices: 1410--1470 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
1400 TATTATATAT
*
1410 TATT-TAATTATATATAAATAATTTA
1 TATTATAATTATATATAAATAATTCA
1435 TA-TATAATTATTATATAAATTACATTCA
1 TATTATAATTA-TATATAAA-TA-ATTCA
1463 TATTATAA
1 TATTATAA
1471 GCTATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 1 0.03
25 8 0.27
26 8 0.27
27 2 0.07
28 6 0.20
29 5 0.17
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (26 bp):
TATTATAATTATATATAAATAATTCA
Found at i:1576 original size:25 final size:26
Alignment explanation
Indices: 1534--1588 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
1524 AGAAATTAAT
*
1534 ATATTATTAAATAATAATTATTTATA
1 ATATTATTAAATAATAATTATATATA
*
1560 ATATTA-TAAATATTAATTATATATA
1 ATATTATTAAATAATAATTATATATA
1585 ATAT
1 ATAT
1589 AGTTTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
ATATTATTAAATAATAATTATATATA
Found at i:1602 original size:13 final size:13
Alignment explanation
Indices: 1556--1604 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 13
1546 AATAATTATT
1556 TATAATATTATAAA
1 TATAAT-TTATAAA
1570 TATTAATTATATATAA
1 TA-TAATT-TATA-AA
*
1586 TATAGTTTATAAA
1 TATAATTTATAAA
1599 TATAAT
1 TATAAT
1605 ATATTACATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 7 0.23
14 7 0.23
15 12 0.40
16 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (13 bp):
TATAATTTATAAA
Found at i:1622 original size:20 final size:19
Alignment explanation
Indices: 1530--1633 Score: 76
Period size: 18 Copynumber: 5.7 Consensus size: 19
1520 TTTAAGAAAT
* *
1530 TAATATATT-ATTAAATAA
1 TAATATATTAATTATATTA
* *
1548 TAAT-TATTTATAATATTA
1 TAATATATTAATTATATTA
1566 TAA-ATATTAATTATA-TA
1 TAATATATTAATTATATTA
* *
1583 TAATATAGT--TTATAAATA
1 TAATATATTAATTAT-ATTA
1601 TAATATATTACATTATATTA
1 TAATATATTA-ATTATATTA
* *
1621 TAAGATAATAATT
1 TAATATATTAATT
1634 CCATATTATT
Statistics
Matches: 68, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
16 4 0.06
17 10 0.15
18 36 0.53
19 3 0.04
20 11 0.16
21 4 0.06
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (19 bp):
TAATATATTAATTATATTA
Found at i:2232 original size:23 final size:24
Alignment explanation
Indices: 2200--2246 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
2190 TAACAATATC
2200 TTATATATTAATAATAAATAGATA
1 TTATATATTAATAATAAATAGATA
* *
2224 TTAT-TATTAGTATTAAATAGATA
1 TTATATATTAATAATAAATAGATA
2247 ATACTAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (24 bp):
TTATATATTAATAATAAATAGATA
Found at i:2550 original size:23 final size:24
Alignment explanation
Indices: 2523--2571 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
2513 ATTCAATTAT
*
2523 TTTATTTATTATA-ATAATAAATA
1 TTTATTTATTAAATATAATAAATA
*
2546 TTTATTTATTAAATATAATTAATA
1 TTTATTTATTAAATATAATAAATA
2570 TT
1 TT
2572 AAGTAGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTATTTATTAAATATAATAAATA
Found at i:3470 original size:24 final size:23
Alignment explanation
Indices: 3418--3475 Score: 55
Period size: 24 Copynumber: 2.4 Consensus size: 23
3408 TTTTCCCTTT
*
3418 GATAATTATTAATTAAATTATTTA
1 GATAATTA-TAATTAAATGATTTA
*
3442 AATAATTA-AATTAAAATGATATTA
1 GATAATTATAATT-AAATGAT-TTA
3466 GATAACTTAT
1 GATAA-TTAT
3476 CTAATATCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
22 4 0.15
23 6 0.22
24 14 0.52
25 3 0.11
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (23 bp):
GATAATTATAATTAAATGATTTA
Found at i:5389 original size:20 final size:20
Alignment explanation
Indices: 5364--5408 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
5354 TCTCAAAGAT
*
5364 AGAAAGCAAAAGGAAAA-AAA
1 AGAAAG-AAAAGCAAAATAAA
5384 AGAAAGAAAAGCAAAATAAA
1 AGAAAGAAAAGCAAAATAAA
5404 AGAAA
1 AGAAA
5409 AGAGAGGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.02
Consensus pattern (20 bp):
AGAAAGAAAAGCAAAATAAA
Found at i:5404 original size:24 final size:25
Alignment explanation
Indices: 5358--5411 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
5348 AAAAAATCTC
*
5358 AAAGATAGAAAGCAAAAGGAAAA-A
1 AAAGAAAGAAAGCAAAAGGAAAAGA
*
5382 AAAGAAAGAAAAGCAAAA-TAAAAGA
1 AAAGAAAG-AAAGCAAAAGGAAAAGA
5407 AAAGA
1 AAAGA
5412 GAGGAAAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.74, C:0.04, G:0.19, T:0.04
Consensus pattern (25 bp):
AAAGAAAGAAAGCAAAAGGAAAAGA
Found at i:5419 original size:25 final size:25
Alignment explanation
Indices: 5365--5419 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
5355 CTCAAAGATA
5365 GAAAGCAAAAGGAAAAAAAAGAAAG
1 GAAAGCAAAAGGAAAAAAAAGAAAG
* * *
5390 AAAAGCAAAA-TAAAAGAAAAGAGAG
1 GAAAGCAAAAGGAAAA-AAAAGAAAG
5415 GAAAG
1 GAAAG
5420 AGAAATGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.71, C:0.04, G:0.24, T:0.02
Consensus pattern (25 bp):
GAAAGCAAAAGGAAAAAAAAGAAAG
Found at i:6660 original size:63 final size:63
Alignment explanation
Indices: 6504--6643 Score: 199
Period size: 63 Copynumber: 2.2 Consensus size: 63
6494 TGTGATCAAG
* * *
6504 TGAGAAGCCTGTGAGTGGTAACCAAATGATGAAGGATGAAATTTGTTATGAAATGGCTAGTGC
1 TGAGAAGCCTGTGAGTGGTAACCAAATGATGAAGGATGAAACTCGTTATGAAATGGCTAATGC
* * * * * *
6567 TAAGAAGCCTATGAGTGGTAACCAAATGATGGAGGATGAAACTCGTTTTGAACTTGCTAATGC
1 TGAGAAGCCTGTGAGTGGTAACCAAATGATGAAGGATGAAACTCGTTATGAAATGGCTAATGC
6630 TGAGAAGCCTGTGA
1 TGAGAAGCCTGTGA
6644 ATGATGATCA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (63 bp):
TGAGAAGCCTGTGAGTGGTAACCAAATGATGAAGGATGAAACTCGTTATGAAATGGCTAATGC
Found at i:7179 original size:22 final size:22
Alignment explanation
Indices: 7060--7293 Score: 208
Period size: 22 Copynumber: 10.5 Consensus size: 22
7050 TTGTGAACCC
* *
7060 TCAAATGAAAATTTTTGAGTCT
1 TCAAATGAGAATCTTTGAGTCT
* *
7082 T-AAATGAGAATATTTAAGAAATCT
1 TCAAATGAGAATCTTT--G-AGTCT
7106 TCAAATGAGAATCTCTT-A-TCT
1 TCAAATGAGAATCT-TTGAGTCT
* *
7127 T-AAATGAGAATCTTTAAGAAATCC
1 TCAAATGAGAATCTTT--G-AGTCT
*
7151 TCAAATGAGAATGTTTGAGTCT
1 TCAAATGAGAATCTTTGAGTCT
* *
7173 TCAAATGAGAATCTTTAAATCT
1 TCAAATGAGAATCTTTGAGTCT
* * *
7195 TAAAATGAAAATCTTTGAGTTT
1 TCAAATGAGAATCTTTGAGTCT
* * *
7217 TCAAATAAGAATATTTGAGTTT
1 TCAAATGAGAATCTTTGAGTCT
* *
7239 TCAAATGAGAATTTTTAAGTCT
1 TCAAATGAGAATCTTTGAGTCT
*
7261 TCAAATAAGAATCTTTGAGT-T
1 TCAAATGAGAATCTTTGAGTCT
7282 TCAAATGAGAAT
1 TCAAATGAGAAT
7294 TTTTAAGATA
Statistics
Matches: 173, Mismatches: 28, Indels: 23
0.77 0.12 0.10
Matches are distributed among these distances:
19 2 0.01
20 12 0.07
21 28 0.16
22 94 0.54
23 3 0.02
24 8 0.05
25 24 0.14
26 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (22 bp):
TCAAATGAGAATCTTTGAGTCT
Found at i:7235 original size:66 final size:65
Alignment explanation
Indices: 7062--7293 Score: 240
Period size: 66 Copynumber: 3.5 Consensus size: 65
7052 GTGAACCCTC
* *
7062 AAATGAAAATTTTTGAGTCTT-AAATGAGAATATTTAAGAAATCTTCAAATGAGAATCTCTT--A
1 AAATGAAAATCTTTGAGTCTTCAAATGAGAATATTT--G-AGTCTTCAAATGAGAATCT-TTAAA
7124 TCTT
62 TCTT
* * * *
7128 AAATGAGAATCTTTAAGAAATCCTCAAATGAGAATGTTTGAGTCTTCAAATGAGAATCTTTAAAT
1 AAATGAAAATCTTT--G-AGTCTTCAAATGAGAATATTTGAGTCTTCAAATGAGAATCTTTAAAT
7193 CTT
63 CTT
* * * * *
7196 AAAATGAAAATCTTTGAGTTTTCAAATAAGAATATTTGAGTTTTCAAATGAGAATTTTTAAGTCT
1 -AAATGAAAATCTTTGAGTCTTCAAATGAGAATATTTGAGTCTTCAAATGAGAATCTTTAAATCT
7261 T
65 T
7262 CAAAT-AAGAATCTTTGAGT-TTCAAATGAGAAT
1 -AAATGAA-AATCTTTGAGTCTTCAAATGAGAAT
7294 TTTTAAGATA
Statistics
Matches: 141, Mismatches: 17, Indels: 17
0.81 0.10 0.10
Matches are distributed among these distances:
65 14 0.10
66 71 0.50
67 19 0.13
68 7 0.05
69 17 0.12
70 13 0.09
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (65 bp):
AAATGAAAATCTTTGAGTCTTCAAATGAGAATATTTGAGTCTTCAAATGAGAATCTTTAAATCTT
Found at i:7371 original size:42 final size:42
Alignment explanation
Indices: 7325--7471 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 42
7315 AATTTATCAT
* *
7325 ATGTGAATCTTCGAACTCGAATGAAAAGCTTTGAACTTTTTG
1 ATGTGAATCTTCAAACTCGAATGAAAAGCTTTAAACTTTTTG
* *
7367 ATGTGAATCTCCAAAATTCGAATGAAAAAGC-TTAAACTTTTTGG
1 ATGTGAATCTTC-AAACTCGAATG-AAAAGCTTTAAACTTTTT-G
* ** *
7411 ATGTGAACCCTAAATTTAACTCGAAT-AAGAAGCTTTAAACTTTTGG
1 ATGTGAA-TCT---TCAAACTCGAATGAA-AAGCTTTAAACTTTTTG
*
7457 ATGTGAATCTCCAAA
1 ATGTGAATCTTCAAA
7472 ATTCAAATGG
Statistics
Matches: 82, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
42 13 0.16
43 19 0.23
44 14 0.17
45 6 0.07
46 12 0.15
47 18 0.22
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (42 bp):
ATGTGAATCTTCAAACTCGAATGAAAAGCTTTAAACTTTTTG
Found at i:7393 original size:43 final size:43
Alignment explanation
Indices: 7341--7480 Score: 144
Period size: 43 Copynumber: 3.2 Consensus size: 43
7331 ATCTTCGAAC
*
7341 TCGAATGAAAAGCTTTGAACTTTTTGATGTGAATCTCCAAAAT
1 TCGAATGAAAAGCTTTAAACTTTTTGATGTGAATCTCCAAAAT
*
7384 TCGAATGAAAAAGC-TTAAACTTTTTGGATGTGAA-C-CCTAAATTTAAC
1 TCGAATG-AAAAGCTTTAAACTTTTT-GATGTGAATCTCC--AA---AAT
*
7431 TCGAAT-AAGAAGCTTTAAACTTTTGGATGTGAATCTCCAAAAT
1 TCGAATGAA-AAGCTTTAAACTTTTTGATGTGAATCTCCAAAAT
*
7474 TCAAATG
1 TCGAATG
7481 GGAATCTTTA
Statistics
Matches: 80, Mismatches: 5, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
42 2 0.03
43 25 0.31
44 16 0.20
45 2 0.03
46 14 0.17
47 19 0.24
48 2 0.03
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (43 bp):
TCGAATGAAAAGCTTTAAACTTTTTGATGTGAATCTCCAAAAT
Found at i:8014 original size:35 final size:35
Alignment explanation
Indices: 7952--8020 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
7942 AATTGGTTCG
* *
7952 AGCCCAAGCCCATTAGGCATGGTTCAATAGGGTCA
1 AGCCCAAGCCCATCAGGCATGGCTCAATAGGGTCA
* * *
7987 AGCCTAAGCCCATCAGGCCTGGCTCAATGGGGTC
1 AGCCCAAGCCCATCAGGCATGGCTCAATAGGGTC
8021 TAGTAGTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.19
Consensus pattern (35 bp):
AGCCCAAGCCCATCAGGCATGGCTCAATAGGGTCA
Found at i:9011 original size:22 final size:20
Alignment explanation
Indices: 8986--9037 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
8976 ATTATATTTG
8986 ATTAATATATTAAATATAATAA
1 ATTAATA-ATTAAATA-AATAA
*
9008 ATTAATAATT-TATAAATAA
1 ATTAATAATTAAATAAATAA
*
9027 TTTAATAATTA
1 ATTAATAATTA
9038 TTAGTAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 14 0.52
20 3 0.11
21 3 0.11
22 7 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTAATAATTAAATAAATAA
Found at i:9338 original size:19 final size:20
Alignment explanation
Indices: 9314--9354 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
9304 TTAATAATGT
* *
9314 TATTATTATTAGTATTA-AA
1 TATTATTACTAATATTATAA
9333 TATTATTACTAATATTATAA
1 TATTATTACTAATATTATAA
9353 TA
1 TA
9355 ATTTTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TATTATTACTAATATTATAA
Found at i:9539 original size:14 final size:15
Alignment explanation
Indices: 9520--9559 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
9510 ATAAGGATTT
9520 TAATTTTAATATTA-
1 TAATTTTAATATTAG
*
9534 TAATTTTTATATTAG
1 TAATTTTAATATTAG
9549 TAATATTTAAT
1 TAAT-TTTAAT
9560 TACTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 13 0.59
15 4 0.18
16 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TAATTTTAATATTAG
Found at i:10056 original size:19 final size:20
Alignment explanation
Indices: 10034--10071 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
10024 TCCATAATAA
10034 TTCAAATAATAT-TAATTAT
1 TTCAAATAATATATAATTAT
* *
10053 TTCAATTATTATATAATTA
1 TTCAAATAATATATAATTA
10072 ATAATAACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
TTCAAATAATATATAATTAT
Found at i:10149 original size:19 final size:18
Alignment explanation
Indices: 10117--10167 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
10107 TTATTTATAT
*
10117 ATTTAATATA--AATATA
1 ATTTAATATATTAATAAA
*
10133 ATTCTATTATATTAATAAA
1 ATT-TAATATATTAATAAA
10152 ATTTAATATAATTAAT
1 ATTTAATAT-ATTAAT
10168 TGTAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 3 0.11
17 6 0.21
18 5 0.18
19 14 0.50
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTAATATATTAATAAA
Found at i:10204 original size:18 final size:19
Alignment explanation
Indices: 10175--10225 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
10165 AATTGTAAAA
10175 TAATTATAAATAT-TTAATT
1 TAATT-TAAATATGTTAATT
* *
10194 TATTTTAAATATGTTATTT
1 TAATTTAAATATGTTAATT
10213 TAATTTAATATAT
1 TAATTTAA-ATAT
10226 ATACAAGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 7 0.26
19 16 0.59
20 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TAATTTAAATATGTTAATT
Found at i:10971 original size:22 final size:22
Alignment explanation
Indices: 10927--10980 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
10917 TTATAATCAT
*
10927 TTATAATATTATTAAAAATTAG
1 TTATAATATTAGTAAAAATTAG
*
10949 TTATAATAATTAGTCAAAA-TAG
1 TTATAAT-ATTAGTAAAAATTAG
*
10971 TT-CAATATTA
1 TTATAATATTA
10981 ATGATAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 4 0.14
21 3 0.11
22 12 0.43
23 9 0.32
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (22 bp):
TTATAATATTAGTAAAAATTAG
Found at i:11789 original size:35 final size:35
Alignment explanation
Indices: 11707--11803 Score: 81
Period size: 38 Copynumber: 2.6 Consensus size: 35
11697 TATATAAGTT
*
11707 TATTAATATAATTAATTAATTATATTAAATGATACAA
1 TATTAA-ATAATT-ATTAATTATATTAAATAATACAA
11744 TCGATATAAATAATTATTAATTATGA-TAAATAATTA-AA
1 T--AT-TAAATAATTATTAATTAT-ATTAAATAA-TACAA
* *
11782 TATTAAATTATTAATATATTAT
1 TATTAAATAATTATTA-ATTAT
11804 TTGAATACAT
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
35 11 0.22
36 7 0.14
37 1 0.02
38 18 0.35
39 11 0.22
40 3 0.06
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (35 bp):
TATTAAATAATTATTAATTATATTAAATAATACAA
Found at i:12095 original size:24 final size:25
Alignment explanation
Indices: 12055--12105 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
12045 TAACAATTAA
*
12055 TAATTTAACTTATTATAAATTATAT
1 TAATATAACTTATTATAAATTATAT
* *
12080 TAATATAA-TTATTATATATTTTAT
1 TAATATAACTTATTATAAATTATAT
12104 TA
1 TA
12106 TTGTTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TAATATAACTTATTATAAATTATAT
Found at i:12319 original size:22 final size:25
Alignment explanation
Indices: 12294--12345 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 25
12284 TTCAATTGTT
12294 TAATAAAATTAAT-AT-T-ATTATA
1 TAATAAAATTAATAATATAATTATA
*
12316 TAATTAAATTAATAATATAATTATA
1 TAATAAAATTAATAATATAATTATA
12341 TAATA
1 TAATA
12346 TTTATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.48
23 2 0.08
24 1 0.04
25 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TAATAAAATTAATAATATAATTATA
Found at i:12322 original size:17 final size:17
Alignment explanation
Indices: 12294--12338 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
12284 TTCAATTGTT
*
12294 TAATAAAATTAATATT-A
1 TAATATAATTAA-ATTAA
*
12311 TTATATAATTAAATTAA
1 TAATATAATTAAATTAA
12328 TAATATAATTA
1 TAATATAATTA
12339 TATAATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATATAATTAAATTAA
Found at i:12367 original size:34 final size:34
Alignment explanation
Indices: 12325--12429 Score: 103
Period size: 34 Copynumber: 3.1 Consensus size: 34
12315 ATAATTAAAT
*
12325 TAAT-AATATAATTATATAATATTTATTATATTA
1 TAATAAATATAATTATATAATATTTAATATATTA
12358 TAATAAATATTTAATT-TA-AATATTTAATAT-TATA
1 TAATAAATA--TAATTATATAATATTTAATATAT-TA
* * *
12392 TAATATTATATAATTAAATAA-ATTAAATATATTA
1 TAATA-AATATAATTATATAATATTTAATATATTA
12426 TAAT
1 TAAT
12430 GATAAACATT
Statistics
Matches: 60, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
33 10 0.17
34 37 0.62
35 8 0.13
36 5 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
TAATAAATATAATTATATAATATTTAATATATTA
Found at i:12379 original size:13 final size:13
Alignment explanation
Indices: 12361--12385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12351 TATATTATAA
12361 TAAATATTTAATT
1 TAAATATTTAATT
12374 TAAATATTTAAT
1 TAAATATTTAAT
12386 ATTATATAAT
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):
TAAATATTTAATT
Found at i:12416 original size:17 final size:17
Alignment explanation
Indices: 12310--12416 Score: 71
Period size: 17 Copynumber: 6.2 Consensus size: 17
12300 AATTAATATT
*
12310 ATTATATAATTAAATTA
1 ATTATATAATTAAATAA
* *
12327 ATAATATAATTATATAA
1 ATTATATAATTAAATAA
12344 TATT-TATTATATTATAATAA
1 -ATTATA-TA-ATTA-AATAA
*
12364 A-TATTTAATTTAAAT-A
1 ATTATATAA-TTAAATAA
* *
12380 TTTA-AT-ATTATATAA
1 ATTATATAATTAAATAA
12395 TATTATATAATTAAATAA
1 -ATTATATAATTAAATAA
12413 ATTA
1 ATTA
12417 AATATATTAT
Statistics
Matches: 68, Mismatches: 11, Indels: 22
0.67 0.11 0.22
Matches are distributed among these distances:
14 5 0.07
15 2 0.03
16 5 0.07
17 28 0.41
18 18 0.26
19 6 0.09
20 4 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTATATAATTAAATAA
Found at i:12496 original size:18 final size:19
Alignment explanation
Indices: 12437--12497 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 19
12427 AATGATAAAC
12437 ATTT-ACTTATTAATTATTATA
1 ATTTAACTTATT-A-TATT-TA
12458 ATTTAACTTATTATA--TA
1 ATTTAACTTATTATATTTA
12475 ATTTAAC-TATTATATTTA
1 ATTTAACTTATTATATTTA
12493 ATTTA
1 ATTTA
12498 TTAACTATTA
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 7 0.19
20 2 0.05
21 5 0.14
22 7 0.19
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTAACTTATTATATTTA
Found at i:12986 original size:181 final size:180
Alignment explanation
Indices: 12681--13873 Score: 895
Period size: 181 Copynumber: 6.7 Consensus size: 180
12671 TAAGTAGGAG
* * * * *
12681 ATTTGAACACTTATCTATATCTAATTGTTATGACCTTTAT-TTTTGCCATAAAACAATTGTTTCT
1 ATTTGAACAATTATCTATTTCAAATCGTTATGACCTTT-TGTTTTGTCATAAAACAATTGTTTCT
* * * * *
12745 ATTCATACAAGCTTATTTC-AAATAAAATAATA-TAAATTTACTAATATTCCAAAGATTAATAAA
65 ATTCATAAAAGCTTA-TTCGAAATAAAATAATACT-AATTTATTAATATTCTAAAAATTAATAAG
* * * * *
12808 TAAAAATATATAAAATAAATTTGTTTTTTGAACACGTTCAAAATAATTATGACC
128 TAAAAATTTAAAAAATAAATTTGTTTATTGAACACGTTC-AAATAGTTATGACT
* *
12862 ATTTGAACAATGATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAACCAATTGTTTCTA
1 ATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA
* * *
12927 TTCATAAAAGCTTATTCGAAATAAAATAATACTAATTTATTAAAATTTTAGAAATTAATAAGTAA
66 TTCATAAAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCTAAAAATTAATAAGTAA
** ** *
12992 AATATTTTAAAAAATAAATTTGTTTACCGAGTGA-GTTCAAATAATT-TGACT
131 AA-A-TTTAAAAAATAAATTTGTTTATTGA-ACACGTTCAAATAGTTATGACT
* * * * *
13043 ATTTAAATAATTATTTATTTCAAATTGTTATGATCC-TTTGTTTTGTAATAAAACAATTGTTTCT
1 ATTTGAACAATTATCTATTTCAAATCGTTATGA-CCTTTTGTTTTGTCATAAAACAATTGTTTCT
* * *
13107 ATTCATACAAA-ATTATTC--AATAAAATAATATTAATTTATTAATATTTTAAAAATTAATAAG-
65 ATTCATA-AAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCTAAAAATTAATAAGT
* * * * *
13168 --AGATTTAAAAACTATATTTGTTTGTTGAAC-CAATTCAAATAGTTATGACT
129 AAAAATTTAAAAAATAAATTTGTTTATTGAACAC-GTTCAAATAGTTATGACT
* * * * *
13218 ATTTGAATAATTATCTATCTCAAATCGGTATGATC-TTTATTTTGTCATAAAACAATTGTTTCTA
1 ATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA
* * * * * ** * *
13282 TCCATACTAA-CTTATTCGGAGA-AAAATATTGCTAAGCTAATAATATTCTAAAAATTAACAAGT
66 TTCATA-AAAGCTTATTC-GAAATAAAATAATACTAATTTATTAATATTCTAAAAATTAATAAGT
* * * * *
13345 AAGAGATTTAAAAAATAAATGTATTTGTTGAAC-CAGTTCAAATAGTTAAGACT
129 AA-AAATTTAAAAAATAAATTTGTTTATTGAACAC-GTTCAAATAGTTATGACT
* * * * * ** *
13398 ATTAT-AATAATTATCTATTTTAAATCATTCTGACTTTTTGTTTAATCATAAAATAATTG-TTC-
1 ATT-TGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT
** * * * * * *
13460 AGTTTGTAGATGCTTATTTGAAATAAAATAATACTATTTTATTAATATTCAAAAAATTAATAAGC
65 A-TTCATAAAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCTAAAAATTAATAAGT
* * * * *** * *
13525 AAGGAA-TTATAAAATAAATCTATTTACCAAACACATTTAAATAGTTATGACT
129 AA-AAATTTAAAAAATAAATTTGTTTATTGAACACGTTCAAATAGTTATGACT
* * * *
13577 ATTTAAACAATTATC-ATTTTAAAATTGTTATGACCTTTTTGTTTTATCATAAAACAATTGTTTC
1 ATTTGAACAATTATCTA-TTTCAAATCGTTATGACC-TTTTGTTTTGTCATAAAACAATTGTTTC
* * * ** *
13641 -ATTTCATAAAAGCTTATCCAAAATAAAATAATATTACCTTATTAATATT-TCAAAAATTAAGAA
64 TA-TTCATAAAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCT-AAAAATTAATAA
** * * * *
13704 GTTGGAGATTTAAAACATAAATCAT-TTTATTG-A-A---TC----AG---T--CC
127 G-TAAAAATTTAAAAAATAAAT-TTGTTTATTGAACACGTTCAAATAGTTATGACT
* * * * *
13745 ATTTGAACAATTATCCATTTCAAATCATTTTGAACTTTTGTTTTGTCATAAAACAATTGTTTTTC
1 ATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT-
* * * *
13810 A-TCATACAAACCTAATTAG-AATAAAATAATACTAGTTTATTAATATT-TAAAAAATTAATAAG
65 ATTCATA-AAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCT-AAAAATTAATAAG
13872 TA
128 TA
13874 GAAGATTATT
Statistics
Matches: 815, Mismatches: 161, Indels: 87
0.77 0.15 0.08
Matches are distributed among these distances:
166 1 0.00
167 69 0.08
168 35 0.04
169 2 0.00
170 1 0.00
173 2 0.00
174 72 0.09
175 34 0.04
176 33 0.04
177 2 0.00
178 2 0.00
179 105 0.13
180 146 0.18
181 255 0.31
182 30 0.04
183 25 0.03
184 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (180 bp):
ATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA
TTCATAAAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCTAAAAATTAATAAGTAA
AAATTTAAAAAATAAATTTGTTTATTGAACACGTTCAAATAGTTATGACT
Found at i:13400 original size:355 final size:361
Alignment explanation
Indices: 12691--13673 Score: 840
Period size: 355 Copynumber: 2.7 Consensus size: 361
12681 ATTTGAACAC
* * * * *
12691 TTATCTATATCTAATTGTTATGACCTTTATTTTTGCCATAAAACAATTGTTTCTATTCATACAAG
1 TTATCTATTTCAAATTGTTATGACCTTTAGTTTTGCAATAAAACAATTGTTTCTATTCATACAAA
* *
12756 CTTATTTCAAATAAAATAATATAAATTTACTAATATTCCAAAGATTAATAAATAAAAATATATAA
66 ATTATTTCAAATAAAATAATATAAATTTACTAATATTCCAAAAATTAAT-AATAAAAATATATAA
* * *
12821 AATAAATTTGTTTTTTGAACACGTTCAAAATAATTATGACCATTTGAACAATGATCTATTTCAAA
130 AATAAATTTGTTTGTTGAACACATTCAAAATAATTATGACCATTTGAACAATGATCTATCTCAAA
* * * *
12886 TCGTTATGACCTTTTGTTTTGTCATAAACCAATTGTTTCTATTCATAAAAGCTTATTCGAAATAA
195 TCGGTATGACCTTTTATTTTGTCATAAAACAATTGTTTCTATCCATAAAAGCTTATTCGAAATAA
** * * * * * * *
12951 AATAATACTAATTTATTAAAATTTTAGAAATTAATAAGTAAAATATTTTAAAAAATAAATTTGTT
260 AATAATACTAAGCTAATAAAATTCTAAAAATTAACAAGTAAAAGATTTTAAAAAATAAATGTATT
*** *
13016 TACCGAGTGAGTTCAAATAATTTGACTATT-TAAATAA
325 TACCGAACCAGTTCAAATAATTAGACTATTAT-AATAA
* *
13053 TTATTTATTTCAAATTGTTATGATCCTTT-GTTTTGTAATAAAACAATTGTTTCTATTCATACAA
1 TTATCTATTTCAAATTGTTATGA-CCTTTAGTTTTGCAATAAAACAATTGTTTCTATTCATACAA
* * ** * * *
13117 AATTA-TTC-AATAAAATAATATTAATTTATTAATATTTTAAAAATTAAT-A-AGAGATTTA-AA
65 AATTATTTCAAATAAAATAATATAAATTTACTAATATTCCAAAAATTAATAATAAAAATATATAA
* * * * *
13177 AACTATATTTGTTTGTTGAAC-CAATTC-AAATAGTTATGACTATTTGAATAATTATCTATCTCA
130 AA-TAAATTTGTTTGTTGAACAC-ATTCAAAATAATTATGACCATTTGAACAATGATCTATCTCA
* * *
13240 AATCGGTATGATC-TTTATTTTGTCATAAAACAATTGTTTCTATCCATACTAA-CTTATTCGGAG
193 AATCGGTATGACCTTTTATTTTGTCATAAAACAATTGTTTCTATCCATA-AAAGCTTATTC-GAA
* * * *
13303 A-AAAATATTGCTAAGCTAATAATATTCTAAAAATTAACAAGTAAGAGA-TTTAAAAAATAAATG
256 ATAAAATAATACTAAGCTAATAAAATTCTAAAAATTAACAAGTAAAAGATTTTAAAAAATAAATG
*** *
13366 TATTTGTTGAACCAGTTCAAATAGTTAAGACTATTATAATAA
321 TATTTACCGAACCAGTTCAAATAATT-AGACTATTATAATAA
* ** * * * * ** *
13408 TTATCTATTTTAAATCATTCTGACTTTTTGTTTAAT-C-ATAAAATAATTG-TTC-AGTTTGTAG
1 TTATCTATTTCAAATTGTTATGACCTTTAGTTT--TGCAATAAAACAATTGTTTCTA-TTCATAC
*** * * * * * *
13469 ATGCTTATTTGAAATAAAATAATACT-ATTTTATTAATATTCAAAAAATTAATAAGCAAGGAAT-
63 AAAATTATTTCAAATAAAATAATA-TAAATTTACTAATATTCCAAAAATTAATAA-TAA-AAATA
* * **** * * * * *
13532 TATAAAATAAATCTATTTACCAAACACATT-TAAATAGTTATGACTATTTAAACAATTATC-ATT
125 TATAAAATAAATTTGTTTGTTGAACACATTCAAAATAATTATGACCATTTGAACAATGATCTA-T
* * * * * * * *
13595 TTAAAATTGTTATGACCTTTTTGTTTTATCATAAAACAATTGTTTC-ATTTCATAAAAGCTTATC
189 CTCAAATCGGTATGACC-TTTTATTTTGTCATAAAACAATTGTTTCTA-TCCATAAAAGCTTATT
*
13659 CAAAATAAAATAATA
252 CGAAATAAAATAATA
13674 TTACCTTATT
Statistics
Matches: 498, Mismatches: 96, Indels: 55
0.77 0.15 0.08
Matches are distributed among these distances:
353 1 0.00
354 47 0.09
355 122 0.24
356 88 0.18
357 28 0.06
358 2 0.00
359 57 0.11
360 47 0.09
361 46 0.09
362 55 0.11
363 5 0.01
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (361 bp):
TTATCTATTTCAAATTGTTATGACCTTTAGTTTTGCAATAAAACAATTGTTTCTATTCATACAAA
ATTATTTCAAATAAAATAATATAAATTTACTAATATTCCAAAAATTAATAATAAAAATATATAAA
ATAAATTTGTTTGTTGAACACATTCAAAATAATTATGACCATTTGAACAATGATCTATCTCAAAT
CGGTATGACCTTTTATTTTGTCATAAAACAATTGTTTCTATCCATAAAAGCTTATTCGAAATAAA
ATAATACTAAGCTAATAAAATTCTAAAAATTAACAAGTAAAAGATTTTAAAAAATAAATGTATTT
ACCGAACCAGTTCAAATAATTAGACTATTATAATAA
Found at i:13591 original size:179 final size:181
Alignment explanation
Indices: 13322--13700 Score: 412
Period size: 179 Copynumber: 2.1 Consensus size: 181
13312 GCTAAGCTAA
* * * ****
13322 TAATATTCTAAAAATTAACAAGTAAGAGATTTAAAAAATAAATGTATTTGTTGAACCAGTTCAAA
1 TAATATTC-AAAAATTAACAAGCAAGAGAATTAAAAAATAAATCTATTTACCAAACCAGTTCAAA
* *
13387 TAGTTAAGACTATTATAATAATTATCTATTTT-AAATCATTCTGA-CTTTTTGTTTAATCATAAA
65 TAGTTAAGACTATTATAACAATTATC-ATTTTAAAATCATTATGACCTTTTTGTTTAATCATAAA
* * * * *** **
13450 ATAATTG-TTCAGTTT-GTAGATGCTTATTTGAAATAAAATAATACTATTTTAT
129 ACAATTGTTTCA-TTTCATAAAAGCTTATCCAAAATAAAATAATACTACCTTAT
* * *
13502 TAATATTCAAAAAATTAATAAGCAAG-GAATTATAAAATAAATCTATTTACCAAACACA-TTTAA
1 TAATATTC-AAAAATTAACAAGCAAGAGAATTAAAAAATAAATCTATTTACCAAAC-CAGTTCAA
* ** *
13565 ATAGTTATGACTATT-TAAACAATTATCATTTTAAAATTGTTATGACCTTTTTGTTTTATCATAA
64 ATAGTTAAGACTATTAT-AACAATTATCATTTTAAAATCATTATGACCTTTTTGTTTAATCATAA
*
13629 AACAATTGTTTCATTTCATAAAAGCTTATCCAAAATAAAATAATATTACCTTAT
128 AACAATTGTTTCATTTCATAAAAGCTTATCCAAAATAAAATAATACTACCTTAT
13683 TAATATTTCAAAAATTAA
1 TAATA-TTCAAAAATTAA
13701 GAAGTTGGAG
Statistics
Matches: 165, Mismatches: 27, Indels: 13
0.80 0.13 0.06
Matches are distributed among these distances:
178 6 0.04
179 58 0.35
180 52 0.32
181 46 0.28
182 3 0.02
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.40
Consensus pattern (181 bp):
TAATATTCAAAAATTAACAAGCAAGAGAATTAAAAAATAAATCTATTTACCAAACCAGTTCAAAT
AGTTAAGACTATTATAACAATTATCATTTTAAAATCATTATGACCTTTTTGTTTAATCATAAAAC
AATTGTTTCATTTCATAAAAGCTTATCCAAAATAAAATAATACTACCTTAT
Found at i:14076 original size:14 final size:14
Alignment explanation
Indices: 14053--14094 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
14043 ATTATAAATT
14053 ATATAA-TAATTAA
1 ATATAATTAATTAA
14066 ATATAATTAATATAA
1 ATATAATTAAT-TAA
14081 A-ATAATTAA-TAA
1 ATATAATTAATTAA
14093 AT
1 AT
14095 TTGTAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.15
13 6 0.23
14 12 0.46
15 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATATAATTAATTAA
Found at i:14583 original size:38 final size:41
Alignment explanation
Indices: 14501--14583 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 41
14491 TAAATGTTTA
* *
14501 ATTAATAACTTATTTAATTATAATTATAATTATTAATTACAT
1 ATTAATAACTTATTTAATTATAA-TATAATTAGTAATTAAAT
14543 ATTAACTAAC-TATTTAATTAT-A-A-AATTAGTAATTAAAT
1 ATTAA-TAACTTATTTAATTATAATATAATTAGTAATTAAAT
14581 ATT
1 ATT
14584 TCTAATATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
38 16 0.42
39 1 0.03
41 1 0.03
42 16 0.42
43 4 0.11
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (41 bp):
ATTAATAACTTATTTAATTATAATATAATTAGTAATTAAAT
Found at i:14646 original size:18 final size:18
Alignment explanation
Indices: 14600--14646 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
14590 ATAAAAATTA
*
14600 TAAT-ATTAAAAATAAAT
1 TAATAATTAAAATTAAAT
14617 TAATAATT-AAATTAATAT
1 TAATAATTAAAATTAA-AT
14635 TAA-AATTAAAAT
1 TAATAATTAAAAT
14647 CCTTATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATAATTAAAATTAAAT
Found at i:15315 original size:19 final size:18
Alignment explanation
Indices: 15270--15330 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
15260 TAGTTAAGAC
*
15270 TATT-ATAATAATTATA-
1 TATTAATAATAATTAAAT
*
15286 TATTACTATAATTATTACAAT
1 TATTA--ATAATAATTA-AAT
*
15307 TTTTAATAATAATTAAAT
1 TATTAATAATAATTAAAT
15325 TATTAA
1 TATTAA
15331 ATTTAATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 4 0.11
18 8 0.23
19 18 0.51
20 1 0.03
21 4 0.11
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTAATAATAATTAAAT
Found at i:15427 original size:14 final size:15
Alignment explanation
Indices: 15408--15483 Score: 63
Period size: 14 Copynumber: 5.3 Consensus size: 15
15398 TTTAATTTGA
15408 AATTATAA-ATAAAT
1 AATTATAATATAAAT
*
15422 AATTATAATATATAT
1 AATTATAATATAAAT
* * *
15437 CTATTATAAGATATAT
1 -AATTATAATATAAAT
*
15453 -ATTATAATATTAAT
1 AATTATAATATAAAT
15467 AATT-T-AT-TAAAT
1 AATTATAATATAAAT
15479 AATTA
1 AATTA
15484 GTAGTACAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
12 8 0.16
13 2 0.04
14 20 0.39
15 8 0.16
16 13 0.25
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (15 bp):
AATTATAATATAAAT
Found at i:16481 original size:34 final size:34
Alignment explanation
Indices: 16427--16537 Score: 95
Period size: 34 Copynumber: 3.2 Consensus size: 34
16417 TGAGAATGCC
*
16427 ATTAAAAATT-TAATACTTATAATTAATATTAATT
1 ATTATAAATTATAATA-TTATAATTAATATTAATT
* *
16461 ATTATAAATTATAATATTAT-ATTATTATAACATT
1 ATTATAAATTATAATATTATAATTAATATTA-ATT
* *
16495 AATT-TAAATAATAATATAATACATTAATAATTAA-T
1 -ATTATAAATTATAATATTATA-ATTAAT-ATTAATT
16530 ATTTATAA
1 A-TTATAA
16538 TTTAAATCAA
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
33 8 0.13
34 31 0.50
35 11 0.18
36 9 0.15
37 3 0.05
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (34 bp):
ATTATAAATTATAATATTATAATTAATATTAATT
Found at i:16487 original size:16 final size:16
Alignment explanation
Indices: 16450--16495 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
16440 TACTTATAAT
*
16450 TAATATTA-ATTATTA
1 TAATATTATAATATTA
16465 TAA-ATTATAATATTA
1 TAATATTATAATATTA
* *
16480 TATTATTATAACATTA
1 TAATATTATAATATTA
16496 ATTTAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 11 0.42
16 11 0.42
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATATTATAATATTA
Found at i:16627 original size:15 final size:15
Alignment explanation
Indices: 16609--16642 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16599 ATATATTTTT
16609 ATTATTATATTAT-AA
1 ATTATT-TATTATCAA
16624 ATTATTTATTATCAA
1 ATTATTTATTATCAA
16639 ATTA
1 ATTA
16643 AACAAGGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATTTATTATCAA
Found at i:16715 original size:27 final size:28
Alignment explanation
Indices: 16663--16715 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
16653 TTAATTTTAA
*
16663 TTATTAATACTAATTTAATAATATAAAC
1 TTATTAATACTAATTTAATAAAATAAAC
*
16691 TTATTTATA-TAA-TTAATTAAAATAA
1 TTATTAATACTAATTTAA-TAAAATAA
16716 TTTAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 4 0.18
27 10 0.45
28 8 0.36
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (28 bp):
TTATTAATACTAATTTAATAAAATAAAC
Found at i:16962 original size:8 final size:8
Alignment explanation
Indices: 16913--16971 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
16903 TTATATTCAT
16913 TAATTATA
1 TAATTATA
16921 TATATTA-A
1 TA-ATTATA
16929 TAATTAT-
1 TAATTATA
*
16936 TAA-GATTA
1 TAATTA-TA
16944 TAATATATA
1 TAAT-TATA
16953 TAATTATA
1 TAATTATA
*
16961 TAATAATA
1 TAATTATA
16969 TAA
1 TAA
16972 GATTATTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
6 1 0.02
7 8 0.19
8 22 0.52
9 10 0.24
10 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (8 bp):
TAATTATA
Found at i:16976 original size:18 final size:17
Alignment explanation
Indices: 16942--16992 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
16932 TTATTAAGAT
16942 TATAAT-ATATATAATTA
1 TATAATAATATA-AATTA
16959 TATAATAATATAAGATTA
1 TATAATAATATAA-ATTA
16977 T-TAA-AATATAAATTA
1 TATAATAATATAAATTA
16992 T
1 T
16993 GATTATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.16
16 7 0.22
17 10 0.31
18 10 0.31
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
TATAATAATATAAATTA
Found at i:17099 original size:27 final size:24
Alignment explanation
Indices: 17040--17099 Score: 57
Period size: 27 Copynumber: 2.3 Consensus size: 24
17030 ATATATCTTA
17040 ATAATATTAATTTAATAAATTAATT
1 ATAATA-TAATTTAATAAATTAATT
* * *
17065 AGATTATAATTTCAAATAACTATAATT
1 ATAATATAATTT--AATAAAT-TAATT
17092 ATAATATA
1 ATAATATA
17100 CTTATTTCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
24 6 0.22
25 4 0.15
26 6 0.22
27 11 0.41
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (24 bp):
ATAATATAATTTAATAAATTAATT
Found at i:17390 original size:13 final size:13
Alignment explanation
Indices: 17357--17412 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
17347 ATCAATGAAA
17357 TTATATTAATATAT
1 TTATATTAATA-AT
*
17371 TTAATATTTATAAT
1 TT-ATATTAATAAT
*
17385 TTATATTAATAAA
1 TTATATTAATAAT
*
17398 TTATA-AAATAAT
1 TTATATTAATAAT
17410 TTA
1 TTA
17413 ACAATTGTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 8 0.22
13 14 0.39
14 6 0.17
15 8 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATATTAATAAT
Found at i:17536 original size:22 final size:22
Alignment explanation
Indices: 17511--17561 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
17501 TAATTATTTA
17511 ATTTTAAATAATTAG-TATAATT
1 ATTTTAAATAATTAGAT-TAATT
*
17533 A-TTTATACTAATTAGATTAATT
1 ATTTTA-AATAATTAGATTAATT
*
17555 ATATTAA
1 ATTTTAA
17562 GTTAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 4 0.17
22 16 0.67
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
ATTTTAAATAATTAGATTAATT
Found at i:17556 original size:18 final size:18
Alignment explanation
Indices: 17528--17578 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
17518 ATAATTAGTA
*
17528 TAATTATTTATACTAA-T
1 TAATTAATTATACTAAGT
*
17545 TAGATTAATTATATTAAGT
1 TA-ATTAATTATACTAAGT
17564 TAATT-ATTCATACTA
1 TAATTAATT-ATACTA
17579 CAATCTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 5 0.18
18 20 0.71
19 3 0.11
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (18 bp):
TAATTAATTATACTAAGT
Found at i:17902 original size:7 final size:7
Alignment explanation
Indices: 17890--17915 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17880 ATGTTTATGA
17890 ATTAATT
1 ATTAATT
17897 ATTAATT
1 ATTAATT
17904 ATTAATT
1 ATTAATT
17911 ATTAA
1 ATTAA
17916 ATAAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
ATTAATT
Found at i:18071 original size:19 final size:20
Alignment explanation
Indices: 18030--18068 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18020 AAACACATTT
*
18030 ATTTTTTAAATCACTTATTA
1 ATTTTTGAAATCACTTATTA
18050 ATTTTTGAAAT-AC-TATTA
1 ATTTTTGAAATCACTTATTA
18068 A
1 A
18069 ATTAGTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 10 0.56
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (20 bp):
ATTTTTGAAATCACTTATTA
Found at i:18405 original size:47 final size:49
Alignment explanation
Indices: 18300--18405 Score: 114
Period size: 47 Copynumber: 2.2 Consensus size: 49
18290 TATTATACTG
* * * *
18300 ATAATGTATATTAGTTATAATTAATATTATTAATTTATTATATAATTTAT
1 ATAAT-TATAATAATTATAATTAATATTATTAATTCATTAAATAATTTAT
*
18350 CTAA--ATAATAATTATAATTAATATTATTAA-TCA-TACAATAATTTA-
1 ATAATTATAATAATTATAATTAATATTATTAATTCATTA-AATAATTTAT
18395 ATAATTATAAT
1 ATAATTATAAT
18406 CTATTTACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
45 5 0.11
46 10 0.21
47 29 0.62
50 3 0.06
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (49 bp):
ATAATTATAATAATTATAATTAATATTATTAATTCATTAAATAATTTAT
Found at i:20187 original size:19 final size:19
Alignment explanation
Indices: 20138--20193 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
20128 CATAAATATA
* *
20138 ATAAATATTTAAATTTTAAT
1 ATAAATAATT-AATTTAAAT
*
20158 -TAATTAATTAATTTAAAT
1 ATAAATAATTAATTTAAAT
*
20176 ATAAATAGTTAA-TTAAAT
1 ATAAATAATTAATTTAAAT
20194 TCTTTTAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
ATAAATAATTAATTTAAAT
Found at i:20309 original size:16 final size:16
Alignment explanation
Indices: 20288--20323 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
20278 TTATTTATAT
20288 AATTAAAATTAATT-AA
1 AATTAAAATT-ATTCAA
20304 AATTAAAATTATTCAA
1 AATTAAAATTATTCAA
20320 AATT
1 AATT
20324 TTTGTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAAAATTATTCAA
Found at i:20370 original size:24 final size:24
Alignment explanation
Indices: 20343--20394 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
20333 ATTTTAACTG
20343 TATAGATT-ATAATTGAATAATATT-
1 TATAG-TTAATAATTGAATAA-ATTA
*
20367 TATAGTTAATAATTTAATAAATTA
1 TATAGTTAATAATTGAATAAATTA
20391 TATA
1 TATA
20395 ATTTAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (24 bp):
TATAGTTAATAATTGAATAAATTA
Found at i:20413 original size:13 final size:14
Alignment explanation
Indices: 20384--20415 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
20374 AATAATTTAA
20384 TAAATTATATAATT
1 TAAATTATATAATT
20398 TAAATTATAT-ATT
1 TAAATTATATAATT
20411 TAAAT
1 TAAAT
20416 CATAAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATTATATAATT
Found at i:21082 original size:16 final size:16
Alignment explanation
Indices: 21052--21094 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
21042 TCTATACAAT
*
21052 TATTAATTA-ATATTA
1 TATTTATTATATATTA
21067 TATTTATTATATATTA
1 TATTTATTATATATTA
*
21083 TAATTA-TATATA
1 TATTTATTATATA
21095 ATAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTATTATATATTA
Found at i:21090 original size:13 final size:13
Alignment explanation
Indices: 21050--21105 Score: 51
Period size: 13 Copynumber: 4.1 Consensus size: 13
21040 AATCTATACA
21050 ATTATTAATTA-AT
1 ATTA-TAATTATAT
21063 ATTATATTTATTATAT
1 ATTATA---ATTATAT
21079 ATTATAATTATAT
1 ATTATAATTATAT
* *
21092 ATAATAAATATAT
1 ATTATAATTATAT
21105 A
1 A
21106 AATTTAATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 2 0.05
13 23 0.62
15 4 0.11
16 8 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATAATTATAT
Found at i:21102 original size:22 final size:21
Alignment explanation
Indices: 21063--21106 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
21053 ATTAATTAAT
* * *
21063 ATTATATTTATTATATATTATA
1 ATTATATATAATAAATA-TATA
21085 ATTATATATAATAAATATATA
1 ATTATATATAATAAATATATA
21106 A
1 A
21107 ATTTAATTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTATATATAATAAATATATA
Found at i:21582 original size:28 final size:28
Alignment explanation
Indices: 21550--21612 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
21540 ATTTAATAAG
21550 TAATTTATAATTACTATA-AA-TAAATTAA
1 TAATTTATAATTA-TATATAATTAAATT-A
*
21578 TAA-TTATATTTATATATAATTAAATTA
1 TAATTTATAATTATATATAATTAAATTA
*
21605 TATTTTAT
1 TAATTTAT
21613 TCATAGGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 4 0.13
27 13 0.43
28 13 0.43
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
TAATTTATAATTATATATAATTAAATTA
Found at i:21751 original size:30 final size:32
Alignment explanation
Indices: 21717--21794 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 32
21707 AATAATTATT
*
21717 TTAATTTTAAATTAATAAGTAAA-A-ATTTAA
1 TTAATTTTAAATTAATAAATAAATAGATTTAA
21747 TTAATTTT-AATTATATAAATAAATTAGATTTAA
1 TTAATTTTAAATTA-ATAAATAAA-TAGATTTAA
*
21780 -T-ATTTAAAATTAATA
1 TTAATTTTAAATTAATA
21795 TATATTATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
29 5 0.12
30 16 0.39
31 7 0.17
32 7 0.17
33 6 0.15
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (32 bp):
TTAATTTTAAATTAATAAATAAATAGATTTAA
Found at i:22964 original size:25 final size:26
Alignment explanation
Indices: 22914--22964 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
22904 GACAACTTAA
*
22914 TTATAATAAATAGTTATAATAGATAT
1 TTATAATAAATAGTTATAACAGATAT
*
22940 TTATAAGT-AATA-TTATAACATATAT
1 TTATAA-TAAATAGTTATAACAGATAT
22965 ATTAGTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 11 0.50
26 10 0.45
27 1 0.05
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (26 bp):
TTATAATAAATAGTTATAACAGATAT
Found at i:23125 original size:21 final size:19
Alignment explanation
Indices: 23101--23149 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
23091 ATTATATAAT
23101 TATAATATAAATATAATTTAA
1 TATAATAT-AATAT-ATTTAA
*
23122 TATAACTATAATATATTTTA
1 TATAA-TATAATATATTTAA
23142 TATTAATA
1 TA-TAATA
23150 AATTAGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 9 0.36
21 13 0.52
22 3 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
TATAATATAATATATTTAA
Found at i:23134 original size:11 final size:10
Alignment explanation
Indices: 23094--23136 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
23084 ATATTTAATT
23094 ATATAATTATA
1 ATATAA-TATA
23105 ATATAAATATA
1 ATAT-AATATA
*
23116 ATTTAATATA
1 ATATAATATA
23126 ACTATAATATA
1 A-TATAATATA
23137 TTTTATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 7 0.25
11 19 0.68
12 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (10 bp):
ATATAATATA
Found at i:24102 original size:21 final size:21
Alignment explanation
Indices: 24064--24110 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
24054 TTTTATTTAA
**
24064 ATTAATAAATAATTATTAATT-
1 ATTAATAAATAAAAATT-ATTG
24085 ATTAATAAATAAAAATTATTG
1 ATTAATAAATAAAAATTATTG
24106 ATTAA
1 ATTAA
24111 ATTATAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTAATAAATAAAAATTATTG
Found at i:24192 original size:14 final size:14
Alignment explanation
Indices: 24142--24189 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
24132 TAATTATCTG
24142 AAATTATAATAATT
1 AAATTATAATAATT
*
24156 AAATTA-AATAAGT
1 AAATTATAATAATT
*
24169 ATAATTTTAAT-ATT
1 A-AATTATAATAATT
24183 AAATTAT
1 AAATTAT
24190 TAAAATGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 12 0.43
14 13 0.46
15 3 0.11
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
AAATTATAATAATT
Found at i:24236 original size:7 final size:7
Alignment explanation
Indices: 24226--24278 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
24216 ATTAATTTAT
24226 TTAATAA
1 TTAATAA
24233 TTAATAA
1 TTAATAA
*
24240 CT-AT-A
1 TTAATAA
24245 TATAATAA
1 T-TAATAA
*
24253 -TAAAAA
1 TTAATAA
24259 TTAATAA
1 TTAATAA
24266 TTAATAA
1 TTAATAA
24273 TTAATA
1 TTAATA
24279 TATATGGGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 1 0.03
6 8 0.21
7 28 0.74
8 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (7 bp):
TTAATAA
Found at i:24642 original size:20 final size:19
Alignment explanation
Indices: 24609--24647 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
24599 ATAATTTATA
*
24609 ATTATAATTATAATTAAGTT
1 ATTATAAATATAA-TAAGTT
*
24629 ATTATAAATCTAATAAGTT
1 ATTATAAATATAATAAGTT
24648 TAGATAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (19 bp):
ATTATAAATATAATAAGTT
Found at i:25096 original size:13 final size:13
Alignment explanation
Indices: 25074--25116 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
25064 AAATATTTAA
25074 ATAATATAATATT
1 ATAATATAATATT
*
25087 ATAATTTAATATT
1 ATAATATAATATT
*
25100 AATATATATTATATT
1 -ATA-ATATAATATT
25115 AT
1 AT
25117 TTGTAATTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 12 0.48
14 5 0.20
15 8 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATAATATAATATT
Found at i:25996 original size:181 final size:179
Alignment explanation
Indices: 25382--26765 Score: 1170
Period size: 181 Copynumber: 7.7 Consensus size: 179
25372 AATAATTTTG
* * *
25382 AATAGTTATGACTATTGGAATAATTATTTATTTCAAATCGTTATGACCTTTTATTTTGTCATAAA
1 AATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAA
* * * * * * * *
25447 ACAATTATTTTTGTTCATATTAA-CTTATTCAGATTAAAATAATATTAATTTATTAATATTTCAA
66 ACAATTGTTTCTATTCATA-CAAGCTTATTCA-AATAAAATAATACTAATTTATTAACATTCCAA
*
25511 CAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCA
129 -AATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTACCGAACAAGTTCA
* * * * * * *
25563 AATAGTAATAACTATCTGAATAATTATCTATTTTAAATCGTTATGATCTTTTGTTTCGCCATAAA
1 AATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAA
* * * * * * *
25628 ACAATTATATCAATTCATATAGGCTTATTTGAAATAAAATAATACTAACTTATT-ACTATTCCAA
66 ACAATTGTTTCTATTCATACAAGCTTA-TTCAAATAAAATAATACTAATTTATTAAC-ATTCCAA
* * * * * * *
25692 AAATAATGAA-TAAGAGGTTTAAAAAATGAATCTATTTACCAAACAAGTTCA
129 AATTAAT-AAGTAAAAGATTTAAAAAATAAATTTGTTTACCGAACAAGTTCA
* * ** * * *
25743 AATAGTTATGACTATTTAAACAATTATCTATTTCAAATTATTATGATCTTTTCTATTGTCATAAA
1 AATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAA
* * *
25808 ACAATTGTTTTTGTTCATACAAGCTTATTTCAAATAAAATAATA-TAAATTTACTAACATTCCAA
66 ACAATTGTTTCTATTCATACAAGCTTA-TTCAAATAAAATAATACT-AATTTATTAACATTCCAA
* * * *** *
25872 AGATTGATAAGTAAAA-ATATATAAAATAAATTTGTTTTTTGAACACGTTCCA
129 A-ATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTACCGAACAAGTT-CA
* * * *
25924 AATAATTATGACCATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAAA
1 AATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAA
* * * * *
25989 GCAATTGTTTCTATTCATAAAAGCATATTCAAAATAAAATAATACTAATTTATTAAAATCTCAAA
66 ACAATTGTTTCTATTCATACAAGCTTATTC-AAATAAAATAATACTAATTTATTAACAT-TCCAA
* * ***
26054 AATTAATAAGTAAAATATTTACAAAATAAATTTGTTTACCGAGTGAGTTCA
129 AATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTACCGAACAAGTTCA
* * * * *
26105 AATAATTATGACTATTTAAATAATTATTTATTTCAAATAGTTATGATCC-TTTGTTTTGTAATAA
1 AATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTTATGA-CCTTTTGTTTTGTCATAA
** * **
26169 AACAATTGTTTCTATTCATACAAAATTATTCAAAATAAAATAATACTAATTTATTAATATTTTGA
65 AACAATTGTTTCTATTCATACAAGCTTATTC-AAATAAAATAATACTAATTTATTAACA-TTCCA
** * * * *
26234 AAATTAATAAG----AGATTTAAAATTTATATCTGTTTATCGGACCAA-TTCA
128 AAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTA-CCGAACAAGTTCA
* * * *
26282 AATAGTTATGACTATTTGAATAATTATCTATCTT-AAATTGCTATAATC-TTTGTTTTGTCATAA
1 AATAGTTATGACTATTTGAATAATTATCTAT-TTCAAATCGTTATGACCTTTTGTTTTGTCATAA
* * * * * * * * ** * * *
26345 AACAATTATTTTTGTCCATACAAACTTATTCAGAGTAAAATATTGCTAAACTAATAATATTCTAA
65 AACAATTGTTTCTATTCATACAAGCTTATTCA-AATAAAATAATACTAATTTATTAACATTC-CA
* * *** *
26410 AAATTAATAAGTAAGAGATCTAAAAAATAAATATAAATGTATATGTTGAACTAGTTCA
128 AAATTAATAAGTAAAAGATTTAAAAAATAAAT-T---TGT-T-TACCGAACAAGTTCA
* * ** * * * * * *
26468 AATAATTAAGACTAAAAT-AATAATTAACTATTTTAAATCATTCTGACC-TTTGTTTAGCCATAA
1 AATAGTTATGACT-ATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAA
* * * * * *
26531 AATAATTG-TTCAATTCATACATGCTTATTCGAAATAACATAATACTATTTTATTAACATTCAAA
65 AACAATTGTTTCTATTCATACAAGCTTATTC-AAATAAAATAATACTAATTTATTAACATTCCAA
* * * *
26595 AATTAATAAGCAAGAA-A-TTAAAAAATAAATATGTTTACCAAACAAGTTTA
129 AATTAATAAGTAA-AAGATTTAAAAAATAAATTTGTTTACCGAACAAGTTCA
* * *
26645 AATAGTTATGACTATTTAAATAATTATC-ATTTTAAAATCGTTATGACCTTTTGTTTTATCATAA
1 AATAGTTATGACTATTTGAATAATTATCTA-TTTCAAATCGTTATGACCTTTTGTTTTGTCATAA
* * * * *
26709 AACAATTATTTC-ATTTCATAAAAGCTTATCCAAAATAAAATAATATTACTTTATTAA
65 AACAATTGTTTCTA-TTCATACAAGCTTATTC-AAATAAAATAATACTAATTTATTAA
26766 TATTTATATA
Statistics
Matches: 960, Mismatches: 204, Indels: 80
0.77 0.16 0.06
Matches are distributed among these distances:
175 3 0.00
176 76 0.08
177 103 0.11
178 26 0.03
179 43 0.04
180 187 0.19
181 353 0.37
182 36 0.04
183 12 0.01
184 19 0.02
185 44 0.05
186 56 0.06
187 2 0.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.40
Consensus pattern (179 bp):
AATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAA
ACAATTGTTTCTATTCATACAAGCTTATTCAAATAAAATAATACTAATTTATTAACATTCCAAAA
TTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTACCGAACAAGTTCA
Found at i:26056 original size:361 final size:359
Alignment explanation
Indices: 25382--26753 Score: 981
Period size: 361 Copynumber: 3.8 Consensus size: 359
25372 AATAATTTTG
** ** *
25382 AATAGTTATGACTATTGGAATAATTATTTATTTCAAATCGTTATGACCTTTTATTTTGTCATAAA
1 AATAGTTATGACTATTTAAATAATTATTTATTTCAAATTATTATGATCTTTTATTTTGTCATAAA
* * * * * *
25447 ACAATTATTTTTGTTCATATTAACTTATTCAGATTAAAATAATATTAATTTATTAATATTTCAAC
66 ACAATTGTTTTTGTTCATA-CAACTTATTCA-AATAAAATAATA-TAATTTACTAACATTCCAAC
* * *
25512 AATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAATAGTAATAACTA
128 AATTAATAAGTAAAAGATATAAAAAATAAATATGTTTACCGAACAAGTTCAAATAATAATAACCA
* * *
25577 TCTGAATAATTATCTATTTTAAATCGTTATGATCTTTTGTTTCGCCATAAAACAATTATATCAAT
193 TCTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTCGCCATAAAACAATTATATCAAT
* * * ** **
25642 TCATATAGGCTTATTTGAAATAAAATAATACTAACTTATTACTATTCCAAAAA-TAATGAA-TAA
258 TCATAAAAGCATATTCAAAATAAAATAATACTAACTTATTAAAATTCCAAAAATTAAT-AAGTAA
* * *
25705 GAGGTTTAAAAAATGAATCTATTTACCAAACAAGTTCA
322 AAGATTTAAAAAATAAATCTATTTACCAAACAAGTTCA
* * * *
25743 AATAGTTATGACTATTTAAACAATTATCTATTTCAAATTATTATGATCTTTTCTATTGTCATAAA
1 AATAGTTATGACTATTTAAATAATTATTTATTTCAAATTATTATGATCTTTTATTTTGTCATAAA
25808 ACAATTGTTTTTGTTCATACAAGCTTATTTCAAATAAAATAATATAAATTTACTAACATTCCAA-
66 ACAATTGTTTTTGTTCATACAA-CTTA-TTCAAATAAAATAATAT-AATTTACTAACATTCCAAC
* * * *** * * *
25872 AGATTGATAAGTAAAA-ATATATAAAATAAATTTGTTTTTTGAACACGTTCCAAATAATTATGAC
128 A-ATTAATAAGTAAAAGATATAAAAAATAAATATGTTTACCGAACAAGTT-CAAATAATAATAAC
* * * * * * * *
25936 CATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAAAGCAATTGTTTCT
191 CATCTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTCGCCATAAAACAATTATATCA
*
26001 ATTCATAAAAGCATATTCAAAATAAAATAATACTAATTTATTAAAA-TCTCAAAAATTAATAAGT
256 ATTCATAAAAGCATATTCAAAATAAAATAATACTAACTTATTAAAATTC-CAAAAATTAATAAGT
* * * * * ***
26065 AAAATATTTACAAAATAAATTTGTTTACCGAGTGAGTTCA
320 AAAAGATTTAAAAAATAAATCTATTTACCAAACAAGTTCA
* * * *
26105 AATAATTATGACTATTTAAATAATTATTTATTTCAAA-TAGTTATGATCCTTTGTTTTGTAATAA
1 AATAGTTATGACTATTTAAATAATTATTTATTTCAAATTA-TTATGATCTTTTATTTTGTCATAA
* * * * * **
26169 AACAATTGTTTCTATTCATACAAAATTATTCAAAATAAAATAATACTAATTTATTAATATTTTGA
65 AACAATTGTTTTTGTTCATAC-AACTTATTC-AAATAAAATAATA-TAATTTACTAACA-TTCCA
* ** * * * * * * *
26234 A-AATTAATAAG----AGATTTAAAATTTATATCTGTTTATCGGACCAA-TTCAAATAGTTATGA
126 ACAATTAATAAGTAAAAGATATAAAAAATAAATATGTTTA-CCGAACAAGTTCAAATAATAATAA
* * * * * * * * * *
26293 CTATTTGAATAATTATCTATCTT-AAATTGCTATAATC-TTTGTTTTGTCATAAAACAATTATTT
190 CCATCTGAACAATTATCTAT-TTCAAATCGTTATGACCTTTTGTTTCGCCATAAAACAATTATAT
*** * * * * * * * * *
26356 TTGTCCATACAAA-CTTATTCAGAGTAAAATATTGCTAAAC-TAATAATATTCTAAAAATTAATA
254 CAATTCATA-AAAGCATATTCAAAATAAAATAATACT-AACTTATTAAAATTCCAAAAATTAATA
* * * *** *
26419 AGTAAGAGATCTAAAAAATAAATATAAATGTATATGTTGAACTAGTTCA
317 AGTAAAAGATTTAAAAAATAAATCT--AT-T-TA--CCAAACAAGTTCA
* * ** ** * * * * * * *
26468 AATAATTAAGACTA-AAATAATAATTAACTATTTTAAATCATTCTGA-CCTTTGTTTAGCCATAA
1 AATAGTTATGACTATTTA-AATAATTATTTATTTCAAATTATTATGATCTTTTATTTTGTCATAA
* *** * * * *
26531 AATAATTG-TTCAATTCATACATGCTTATTCGAAATAACATAATACTATTTTATTAACATT-CAA
65 AACAATTGTTTTTGTTCATACA-ACTTATTC-AAATAAAATAATA-TAATTTACTAACATTCCAA
* * * * * * *
26594 AAATTAATAAGCAAGAA-AT-TAAAAAATAAATATGTTTACCAAACAAGTTTAAATAGTTATGAC
127 CAATTAATAAGTAA-AAGATATAAAAAATAAATATGTTTACCGAACAAGTTCAAATAATAATAAC
* * * * * *** *
26657 TATTTAAATAATTATC-ATTTTAAAATCGTTATGACCTTTTGTTTTATCATAAAACAATTATTTC
191 CATCTGAACAATTATCTA-TTTCAAATCGTTATGACCTTTTGTTTCGCCATAAAACAATTATATC
* * *
26721 ATTTCATAAAAGCTTATCCAAAATAAAATAATA
255 AATTCATAAAAGCATATTCAAAATAAAATAATA
26754 TTACTTTATT
Statistics
Matches: 815, Mismatches: 157, Indels: 75
0.78 0.15 0.07
Matches are distributed among these distances:
357 85 0.10
358 49 0.06
359 22 0.03
360 50 0.06
361 275 0.34
362 175 0.21
363 109 0.13
364 49 0.06
365 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (359 bp):
AATAGTTATGACTATTTAAATAATTATTTATTTCAAATTATTATGATCTTTTATTTTGTCATAAA
ACAATTGTTTTTGTTCATACAACTTATTCAAATAAAATAATATAATTTACTAACATTCCAACAAT
TAATAAGTAAAAGATATAAAAAATAAATATGTTTACCGAACAAGTTCAAATAATAATAACCATCT
GAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTCGCCATAAAACAATTATATCAATTCA
TAAAAGCATATTCAAAATAAAATAATACTAACTTATTAAAATTCCAAAAATTAATAAGTAAAAGA
TTTAAAAAATAAATCTATTTACCAAACAAGTTCA
Found at i:26549 original size:542 final size:537
Alignment explanation
Indices: 25410--26770 Score: 1399
Period size: 542 Copynumber: 2.5 Consensus size: 537
25400 AATAATTATT
* * * * * *** * *
25410 TATTTCAAATCGTTATGACCTTTTATTTTGTCATAAAACAATTATTTTTGTTCATATTAA-CTTA
1 TATTTCAAATCATTATGACCTTTTGTTTAGCCATAAAACAATTGTTTCAATTCATA-AAAGCATA
* * * * *
25474 TTCAGATTAAAATAATATTAATTTATTAATATTTCAACAATTAATAAGTAAAAGATTTAAAAAAT
65 TTCAAAATAAAATAATACTAATTTATTAA-AATTCAAAAATTAATAAGTAAAA-ATTTAAAAAAT
* * * * * *
25539 AAATATGTTTACCGAACAAGTTCAAATAGTAATAACTATCTGAATAATTATCTATTTTAAATCGT
128 AAATATGTTTACCGAACAAGTTCAAATAGTTATGACTATTTAAATAATTATTTATTTAAAATCGT
* * * * ** **
25604 TATGATCTTTTGTTTCGCCATAAAACAATTATATCAATTCATATAGGCTTATTTGAAATAAAATA
193 TATGATCCTTTGTTTTGTCATAAAACAATTATTTC-ATTCATA-AAACTTATTCAAAATAAAATA
* * * *
25669 ATACTAACTTATTACTATTCCAAAAATAATGAATAAGAGGTTTAAAAAATGAATCTATTTACCAA
256 ATACTAATTTATTAATATTTCAAAAAT-ATGAATAAGAGATTTAAAAAATGAATCTATTTACCAA
* *
25734 ACAAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATTATTATGATCTTTTCTAT
320 ACAAGTTCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATTACTATAATCTTTTCTAT
* * * * *
25799 TGTCATAAAACAATTGTTTTTGTTCATACAAGCTTATTTCAAATAAAATAATATAAATTTACTAA
385 TGTCATAAAACAATTATTTTTGTCCATACAAACTTATTTCAAATAAAATAATATAAATCTAATAA
* * * *
25864 CATTCCAAAGATTGATAAGTAAAAATATATAAAATAAATTTGTTTTTTGAACACGTTCCAAATAA
450 CATTCCAAAAATTAATAAGTAAAAATATAAAAAATAAATTTGTTTGTTGAACACGTTCCAAATAA
* * ** *
25929 TTATGACCATTTGAACAATTATC
515 TTAAGACAAAATGAACAATTAAC
** * * * *
25952 TATTTCAAATTGTTATGACCTTTTGTTTTGTCATAAAGCAATTGTTTCTATTCATAAAAGCATAT
1 TATTTCAAATCATTATGACCTTTTGTTTAGCCATAAAACAATTGTTTCAATTCATAAAAGCATAT
*
26017 TCAAAATAAAATAATACTAATTTATTAAAATCTCAAAAATTAATAAGTAAAATATTTACAAAATA
66 TCAAAATAAAATAATACTAATTTATTAAAAT-TCAAAAATTAATAAGTAAAA-ATTTAAAAAATA
* *** * * *
26082 AATTTGTTTACCGAGTGAGTTCAAATAATTATGACTATTTAAATAATTATTTATTTCAAATAGTT
129 AATATGTTTACCGAACAAGTTCAAATAGTTATGACTATTTAAATAATTATTTATTTAAAATCGTT
* * *
26147 ATGATCCTTTGTTTTGTAATAAAACAATTGTTTCTATTCATACAAAATTATTCAAAATAAAATAA
194 ATGATCCTTTGTTTTGTCATAAAACAATTATTTC-ATTCATA-AAACTTATTCAAAATAAAATAA
** * * * **
26212 TACTAATTTATTAATATTTTGAAAAT-T-AATAAGAGATTT-AAAATTTATATCTGTTTATCGGA
257 TACTAATTTATTAATATTTCAAAAATATGAATAAGAGATTTAAAAAATGA-ATCTATTTA-CCAA
* * * *
26274 CCAA-TTCAAATAGTTATGACTATTTGAATAATTATCTATCTT-AAATTGCTATAATCTTTGT-T
320 ACAAGTTCAAATAGTTATGACTATTTAAACAATTATCTAT-TTCAAATTACTATAATCTTT-TCT
* * *
26336 -TTGTCATAAAACAATTATTTTTGTCCATACAAACTTA-TTCAGAGTAAAATATTGCTAAA-CTA
383 ATTGTCATAAAACAATTATTTTTGTCCATACAAACTTATTTCA-AATAAAATAAT-ATAAATCTA
* * * *
26398 ATAATATTCTAAAAATTAATAAGTAAGAGATCTAAAAAATAAATATAAATGTATATGTTGAACTA
446 ATAACATTCCAAAAATTAATAAGTAA-AAATATAAAAAATAAAT-T---TGT-T-TGTTGAAC-A
*
26463 -GTT-CAAATAATTAAGACTAAAAT-AATAATTAAC
503 CGTTCCAAATAATTAAGAC-AAAATGAACAATTAAC
* * * * * *
26496 TATTTTAAATCATTCTGACC-TTTGTTTAGCCATAAAATAATTG-TTCAATTCATACATGCTTAT
1 TATTTCAAATCATTATGACCTTTTGTTTAGCCATAAAACAATTGTTTCAATTCATAAAAGCATAT
* * * * *
26559 TCGAAATAACATAATACTATTTTATTAACATTCAAAAATTAATAAGCAAGAAA-TTAAAAAATAA
66 TCAAAATAAAATAATACTAATTTATTAAAATTCAAAAATTAATAAGTAA-AAATTTAAAAAATAA
* * *
26623 ATATGTTTACCAAACAAGTTTAAATAGTTATGACTATTTAAATAATTA-TCATTTTAAAATCGTT
130 ATATGTTTACCGAACAAGTTCAAATAGTTATGACTATTTAAATAATTATTTA-TTTAAAATCGTT
* *
26687 ATGA-CCTTTTGTTTTATCATAAAACAATTATTTCATTTCATAAAAGCTTATCCAAAATAAAATA
194 ATGATCC-TTTGTTTTGTCATAAAACAATTATTTCA-TTCATAAAA-CTTATTCAAAATAAAATA
* *
26751 ATATTACTTTATTAATATTT
256 ATACTAATTTATTAATATTT
26771 ATATAATTAA
Statistics
Matches: 683, Mismatches: 114, Indels: 46
0.81 0.14 0.05
Matches are distributed among these distances:
537 4 0.01
538 72 0.11
539 93 0.14
540 139 0.20
541 22 0.03
542 280 0.41
543 22 0.03
544 38 0.06
545 12 0.02
546 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (537 bp):
TATTTCAAATCATTATGACCTTTTGTTTAGCCATAAAACAATTGTTTCAATTCATAAAAGCATAT
TCAAAATAAAATAATACTAATTTATTAAAATTCAAAAATTAATAAGTAAAAATTTAAAAAATAAA
TATGTTTACCGAACAAGTTCAAATAGTTATGACTATTTAAATAATTATTTATTTAAAATCGTTAT
GATCCTTTGTTTTGTCATAAAACAATTATTTCATTCATAAAACTTATTCAAAATAAAATAATACT
AATTTATTAATATTTCAAAAATATGAATAAGAGATTTAAAAAATGAATCTATTTACCAAACAAGT
TCAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATTACTATAATCTTTTCTATTGTCAT
AAAACAATTATTTTTGTCCATACAAACTTATTTCAAATAAAATAATATAAATCTAATAACATTCC
AAAAATTAATAAGTAAAAATATAAAAAATAAATTTGTTTGTTGAACACGTTCCAAATAATTAAGA
CAAAATGAACAATTAAC
Found at i:28013 original size:12 final size:12
Alignment explanation
Indices: 27998--28038 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
27988 TAATAAGTTA
27998 ATAAATATTAAT
1 ATAAATATTAAT
28010 ATAAATAATTAAT
1 ATAAAT-ATTAAT
* *
28023 ATTATTATTAAT
1 ATAAATATTAAT
28035 ATAA
1 ATAA
28039 TTGTTATAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
ATAAATATTAAT
Found at i:28334 original size:21 final size:21
Alignment explanation
Indices: 28289--28335 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
28279 ACAAAAGGTT
* *
28289 TATAATTATAATTTAAAATAT
1 TATAATAATAATTTAAAATAG
* *
28310 TATAATAATAATTTTATATAG
1 TATAATAATAATTTAAAATAG
28331 TATAA
1 TATAA
28336 ATTTAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TATAATAATAATTTAAAATAG
Found at i:29900 original size:30 final size:32
Alignment explanation
Indices: 29866--29960 Score: 95
Period size: 33 Copynumber: 3.0 Consensus size: 32
29856 CATATTAATT
29866 TAATTTTATAATAATTA-ATTAATTATTA-AG
1 TAATTTTATAATAATTACATTAATTATTATAG
* * *
29896 TAATTATATTATAATTACATGAATTATTATTAG
1 TAATTTTATAATAATTACATTAATTATTA-TAG
* * * *
29929 TTATATTATATTAATTAGATTAATTTATTATA
1 TAATTTTATAATAATTACATTAA-TTATTATA
29961 AATTTAAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
30 15 0.29
31 10 0.20
33 20 0.39
34 6 0.12
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (32 bp):
TAATTTTATAATAATTACATTAATTATTATAG
Found at i:30232 original size:18 final size:21
Alignment explanation
Indices: 30209--30254 Score: 71
Period size: 18 Copynumber: 2.3 Consensus size: 21
30199 TTATCACTTT
30209 TTAATAATTATT-A-AAA-TA
1 TTAATAATTATTAATAAATTA
30227 TTAATAATTATTAATAAATTA
1 TTAATAATTATTAATAAATTA
30248 TTAATAA
1 TTAATAA
30255 ATAATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.48
19 1 0.04
20 3 0.12
21 9 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAATAATTATTAATAAATTA
Found at i:30239 original size:21 final size:21
Alignment explanation
Indices: 30210--30260 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
30200 TATCACTTTT
*
30210 TAATAATTATTAAAATATTAA
1 TAATAATTAATAAAATATTAA
* *
30231 TAATTATTAATAAATTATTAA
1 TAATAATTAATAAAATATTAA
30252 TAAATAATT
1 T-AATAATT
30261 TATATAAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATAATTAATAAAATATTAA
Found at i:30246 original size:11 final size:11
Alignment explanation
Indices: 30209--30256 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
30199 TTATCACTTT
30209 TTAAT-AATTA
1 TTAATAAATTA
30219 TT-A-AAA-TA
1 TTAATAAATTA
30227 TTAAT-AATTA
1 TTAATAAATTA
30237 TTAATAAATTA
1 TTAATAAATTA
30248 TTAATAAAT
1 TTAATAAAT
30257 AATTTATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
8 4 0.12
9 6 0.18
10 9 0.27
11 14 0.42
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TTAATAAATTA
Found at i:30700 original size:21 final size:21
Alignment explanation
Indices: 30648--30707 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
30638 TTAATTTATA
30648 ATTGTTATAACTATATT-A-T
1 ATTGTTATAACTATATTAATT
*
30667 AAT-TTA-AA--ATATTAATT
1 ATTGTTATAACTATATTAATT
30684 ATTGTTATAACTATATTAATT
1 ATTGTTATAACTATATTAATT
30705 ATT
1 ATT
30708 AATATAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
15 5 0.15
16 1 0.03
17 5 0.15
18 6 0.18
19 4 0.12
21 12 0.36
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (21 bp):
ATTGTTATAACTATATTAATT
Found at i:30713 original size:21 final size:22
Alignment explanation
Indices: 30675--30723 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
30665 ATAATTTAAA
**
30675 ATATTAATTATTGTTATAA-CT
1 ATATTAATTATTAATATAATCT
*
30696 ATATTAATTATTAATATAATTT
1 ATATTAATTATTAATATAATCT
30718 ATATTA
1 ATATTA
30724 TAATTATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
ATATTAATTATTAATATAATCT
Found at i:30890 original size:18 final size:19
Alignment explanation
Indices: 30860--30920 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 19
30850 TAAAATAGTT
*
30860 TAATATCATTATATTAATA
1 TAATATTATTATATTAATA
30879 TAAT-TTATTATA-TAA-A
1 TAATATTATTATATTAATA
*
30895 TAATATTATATTTATTAATA
1 TAATATTAT-TATATTAATA
*
30915 TTATAT
1 TAATAT
30921 ATAATTAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
16 5 0.14
17 7 0.20
18 10 0.29
19 7 0.20
20 6 0.17
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATTATTATATTAATA
Found at i:31303 original size:5 final size:5
Alignment explanation
Indices: 31288--31387 Score: 52
Period size: 5 Copynumber: 20.4 Consensus size: 5
31278 TTTATTAATA
* *
31288 ATATT ACATT ATATT ATA-- ATATT A-ATT AGTATT A-ATT ATATT AGATT
1 ATATT ATATT ATATT ATATT ATATT ATATT A-TATT ATATT ATATT ATATT
** * *
31335 ATTAGA ATAAT AT-TT ATAGT ATTAATT ATATT ATA-T AT-TT ATTATT
1 A-TATT ATATT ATATT ATATT A-T-ATT ATATT ATATT ATATT A-TATT
31381 ATATT AT
1 ATATT AT
31388 TTGAATTATT
Statistics
Matches: 72, Mismatches: 11, Indels: 24
0.67 0.10 0.22
Matches are distributed among these distances:
3 3 0.04
4 16 0.22
5 39 0.54
6 11 0.15
7 3 0.04
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (5 bp):
ATATT
Found at i:31303 original size:10 final size:9
Alignment explanation
Indices: 31275--31422 Score: 78
Period size: 9 Copynumber: 16.1 Consensus size: 9
31265 TAATAACTAA
31275 TAATT-TAT
1 TAATTATAT
*
31283 TAATAATAT
1 TAATTATAT
31292 TACATTATAT
1 TA-ATTATAT
*
31302 T-ATAATAT
1 TAATTATAT
31310 TAATTAGTAT
1 TAATTA-TAT
31320 TAATTATAT
1 TAATTATAT
31329 TAGATTAT-T
1 TA-ATTATAT
* *
31338 AGAATAATAT
1 -TAATTATAT
*
31348 TTA-TAGTAT
1 TAATTA-TAT
31357 TAATTATAT
1 TAATTATAT
*
31366 TATATATTTAT
1 TA-AT-TATAT
31377 T-ATTATAT
1 TAATTATAT
*
31385 TATTTGA-AT
1 TAATT-ATAT
31394 T-ATTA-AT
1 TAATTATAT
31401 ATAATTATAAT
1 -TAATTAT-AT
31412 TAATTTATAT
1 TAA-TTATAT
31422 T
1 T
31423 GTAAGCAATA
Statistics
Matches: 108, Mismatches: 14, Indels: 34
0.69 0.09 0.22
Matches are distributed among these distances:
7 3 0.03
8 20 0.19
9 40 0.37
10 34 0.31
11 11 0.10
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (9 bp):
TAATTATAT
Found at i:31322 original size:37 final size:36
Alignment explanation
Indices: 31280--31386 Score: 115
Period size: 37 Copynumber: 2.9 Consensus size: 36
31270 ACTAATAATT
*
31280 TATTAATAATATTACATTATATTATAATATTAATTAG
1 TATTAATTATATTACATTATATTATAATATTAA-TAG
* ** *
31317 TATTAATTATATTAGATTATTAGAATAATATTTATAG
1 TATTAATTATATTACATTA-TATTATAATATTAATAG
* * *
31354 TATTAATTATATTATATATTTATTATTATATTA
1 TATTAATTATATTACAT-TATATTATAATATTA
31387 TTTGAATTAT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
37 45 0.79
38 12 0.21
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (36 bp):
TATTAATTATATTACATTATATTATAATATTAATAG
Found at i:31378 original size:16 final size:17
Alignment explanation
Indices: 31275--31379 Score: 64
Period size: 16 Copynumber: 6.4 Consensus size: 17
31265 TAATAACTAA
*
31275 TAATT-TATTAATAATAT
1 TAATTATATT-ATAGTAT
*
31292 TACATTATATTATAATAT
1 TA-ATTATATTATAGTAT
*
31310 TAATTAGTATTA-ATTA-
1 TAATTA-TATTATAGTAT
* *
31326 T-ATTAGATTATTAG-AA
1 TAATTATATTA-TAGTAT
31342 TAA-TAT-TTATAGTAT
1 TAATTATATTATAGTAT
31357 TAATTATATTATA-TAT
1 TAATTATATTATAGTAT
*
31373 TTATTAT
1 TAATTAT
31380 TATATTATTT
Statistics
Matches: 72, Mismatches: 6, Indels: 21
0.73 0.06 0.21
Matches are distributed among these distances:
14 7 0.10
15 12 0.17
16 17 0.24
17 15 0.21
18 17 0.24
19 4 0.06
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (17 bp):
TAATTATATTATAGTAT
Found at i:32154 original size:22 final size:22
Alignment explanation
Indices: 32114--32156 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
32104 ATTAGAAACA
*
32114 ATTAATTAATATTAGTTAATTT
1 ATTAATTAACATTAGTTAATTT
32136 ATTAATTAACATTTA-TTAATT
1 ATTAATTAACA-TTAGTTAATT
32157 AGTAATGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
ATTAATTAACATTAGTTAATTT
Found at i:32256 original size:27 final size:30
Alignment explanation
Indices: 32199--32264 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
32189 ATAATAATTT
*
32199 TAATTAATATTTTATTATTATAATATTTAAA
1 TAATTAATATTTTATTACTATAATA-TTAAA
*
32230 TAATTAATA-TTTA-TACTATAATATAAAA
1 TAATTAATATTTTATTACTATAATATTAAA
32258 T-ATTAAT
1 TAATTAAT
32265 TATGGTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 6 0.18
28 5 0.15
29 9 0.27
30 4 0.12
31 9 0.27
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (30 bp):
TAATTAATATTTTATTACTATAATATTAAA
Found at i:32265 original size:31 final size:31
Alignment explanation
Indices: 32167--32266 Score: 82
Period size: 31 Copynumber: 3.2 Consensus size: 31
32157 AGTAATGTAC
* * *
32167 TTAATTAAT-TATATACTAT-TTGATAATAATT
1 TTAATTAATATTTATACTATAAT-ATAA-AATA
* **
32198 TTAATTAATATTTTATTATTATAATATTTAA-A
1 TTAATTAATA-TTTA-TACTATAATATAAAATA
32230 -TAATTAATATTTATACTATAATATAAAATA
1 TTAATTAATATTTATACTATAATATAAAATA
32260 TTAATTA
1 TTAATTA
32267 TGGTAAATAT
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
29 12 0.22
30 5 0.09
31 24 0.44
33 5 0.09
34 7 0.13
35 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (31 bp):
TTAATTAATATTTATACTATAATATAAAATA
Found at i:32769 original size:22 final size:23
Alignment explanation
Indices: 32736--32785 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
32726 TTTGTTATTA
32736 TTAATATTAAATATTAT-TAAATT
1 TTAATATTAAAT-TTATATAAATT
32759 TTAA-ATTAAATTTATATAAA-T
1 TTAATATTAAATTTATATAAATT
32780 TTAATA
1 TTAATA
32786 ATATTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 9 0.36
22 12 0.48
23 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAATATTAAATTTATATAAATT
Found at i:35137 original size:14 final size:14
Alignment explanation
Indices: 35112--35186 Score: 52
Period size: 14 Copynumber: 5.5 Consensus size: 14
35102 ATAAAGAACT
35112 TATTATAA--ATTA
1 TATTATAATTATTA
35124 T-TTAATAATTATTA
1 TATT-ATAATTATTA
*
35138 TATTATAATTA-AA
1 TATTATAATTATTA
*
35151 TATTAT-ATTATAA
1 TATTATAATTATTA
*
35164 TAATTTATAATTTTTA
1 T-A-TTATAATTATTA
*
35180 AATTATA
1 TATTATA
35187 TATAACATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
11 2 0.04
12 9 0.18
13 10 0.20
14 18 0.35
15 7 0.14
16 5 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTATAATTATTA
Found at i:35155 original size:13 final size:14
Alignment explanation
Indices: 35128--35175 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
35118 AAATTATTTA
*
35128 ATAATTATTATATT
1 ATAATTATAATATT
35142 ATAATTA-AATATT
1 ATAATTATAATATT
35155 AT-ATTATAATAATTT
1 ATAATTATAAT-A-TT
35170 ATAATT
1 ATAATT
35176 TTTAAATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
12 4 0.14
13 10 0.34
14 8 0.28
15 4 0.14
16 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAATTATAATATT
Found at i:35384 original size:25 final size:28
Alignment explanation
Indices: 35333--35412 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 28
35323 TAATTGGATA
*
35333 ATAATTATAAATAATTTATAATATTATT
1 ATAAATATAAATAATTTATAATATTATT
*
35361 ATAAATATTAATAA-TTAT-AT-TTATT
1 ATAAATATAAATAATTTATAATATTATT
35386 ATAAATTAATAAACTTAATTTATAATA
1 ATAAA-T-ATAAA--TAATTTATAATA
35413 AGTTAATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
25 10 0.24
26 3 0.07
27 8 0.19
28 12 0.29
29 3 0.07
30 4 0.10
31 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (28 bp):
ATAAATATAAATAATTTATAATATTATT
Found at i:35413 original size:24 final size:24
Alignment explanation
Indices: 35359--35420 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
35349 TATAATATTA
*
35359 TTATAA-ATATTAAT-AATTATAT
1 TTATAATAAATTAATAAATTATAT
*
35381 TTATTATAAATTAATAAACTTA-AT
1 TTATAATAAATTAATAAA-TTATAT
*
35405 TTATAATAAGTTAATA
1 TTATAATAAATTAATA
35421 TTTATTTATG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 5 0.15
23 7 0.21
24 18 0.55
25 3 0.09
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
TTATAATAAATTAATAAATTATAT
Found at i:35461 original size:22 final size:23
Alignment explanation
Indices: 35436--35479 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
35426 TTATGTTAAA
35436 TATTATA-TAAACTATTTATATG
1 TATTATATTAAACTATTTATATG
**
35458 TATTATATTAAGTTATTTATAT
1 TATTATATTAAACTATTTATAT
35480 TATAAGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (23 bp):
TATTATATTAAACTATTTATATG
Found at i:35517 original size:23 final size:24
Alignment explanation
Indices: 35472--35529 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
35462 ATATTAAGTT
* * *
35472 ATTTATATTATAAGTTAATAATTA
1 ATTTAAATTATAAATTAACAATTA
35496 ATTTAAATT-TAAATTAACAATTA
1 ATTTAAATTATAAATTAACAATTA
35519 ATATT-AATTAT
1 AT-TTAAATTAT
35530 TAATAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTTAAATTATAAATTAACAATTA
Found at i:35531 original size:13 final size:13
Alignment explanation
Indices: 35486--35534 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
35476 ATATTATAAG
35486 TTAATAATTAAT-
1 TTAATAATTAATA
*
35498 TTAA-ATTTAA-A
1 TTAATAATTAATA
*
35509 TTAACAATTAATA
1 TTAATAATTAATA
*
35522 TTAATTATTAATA
1 TTAATAATTAATA
35535 ATTGTTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
11 9 0.30
12 9 0.30
13 12 0.40
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAATAATTAATA
Found at i:35595 original size:27 final size:26
Alignment explanation
Indices: 35557--35611 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
35547 ATTTATTCTT
* * *
35557 ATAAATAGTATTATTAAATTTCAATA
1 ATAAATACTATTATTAAATATAAATA
35583 ATAAATATCTATTATTAAATATAAATA
1 ATAAATA-CTATTATTAAATATAAATA
35610 AT
1 AT
35612 TGTTTATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (26 bp):
ATAAATACTATTATTAAATATAAATA
Found at i:35644 original size:25 final size:23
Alignment explanation
Indices: 35582--35659 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 23
35572 AAATTTCAAT
* *
35582 AATAAATATCTATTATTAAATATA
1 AATAATTATATATTATTAAATA-A
* *
35606 AATAATTGTTTATTTATTAAATAA
1 AATAATTATATA-TTATTAAATAA
*
35630 AGATTATTATATATTATTATAATAA
1 A-ATAATTATATATTATTA-AATAA
35655 TAATA
1 -AATA
35660 TAATAATATA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
24 17 0.40
25 25 0.58
26 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (23 bp):
AATAATTATATATTATTAAATAA
Found at i:36506 original size:23 final size:23
Alignment explanation
Indices: 36479--36530 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
36469 CTAACACTTA
* *
36479 TAATATGATTATAAAATAATTTT
1 TAATATAATTAGAAAATAATTTT
**
36502 TAATATAATTAGATTATAATTTT
1 TAATATAATTAGAAAATAATTTT
*
36525 GAATAT
1 TAATAT
36531 TAGATTAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (23 bp):
TAATATAATTAGAAAATAATTTT
Found at i:37881 original size:17 final size:16
Alignment explanation
Indices: 37853--37884 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
37843 AATTTATTTC
37853 AATTAGTTATTATAAT
1 AATTAGTTATTATAAT
37869 AATTAGATTATTATAA
1 AATTAG-TTATTATAA
37885 CTTATTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
AATTAGTTATTATAAT
Found at i:37921 original size:14 final size:15
Alignment explanation
Indices: 37853--37922 Score: 51
Period size: 14 Copynumber: 4.8 Consensus size: 15
37843 AATTTATTTC
*
37853 AATTAGTTATTATAAT
1 AATTAGTTAATA-AAT
*
37869 AATTAGATT-AT-TAT
1 AATTAG-TTAATAAAT
*
37883 AACTTA-TTAACAAAT
1 AA-TTAGTTAATAAAT
37898 AATTAG-TAATAAAT
1 AATTAGTTAATAAAT
37912 AATT-GTTAATA
1 AATTAGTTAATA
37923 GATTAAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
13 3 0.07
14 24 0.56
15 7 0.16
16 7 0.16
17 2 0.05
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.43
Consensus pattern (15 bp):
AATTAGTTAATAAAT
Found at i:37971 original size:22 final size:21
Alignment explanation
Indices: 37945--38044 Score: 61
Period size: 19 Copynumber: 4.8 Consensus size: 21
37935 TAATTAATCC
37945 TTAAATATTAATCTAATTCATT
1 TTAAATATTAATC-AATTCATT
* *
37967 TTAAAT-TTAATAGAAATAGCATT
1 TTAAATATTAAT--CAAT-TCATT
*
37990 TTAAATTACTAA-CAATT-ATT
1 TTAAA-TATTAATCAATTCATT
*
38010 TTAAATATTAA-AAATT-ATT
1 TTAAATATTAATCAATTCATT
38029 ATTAAATA-TAAT-AATT
1 -TTAAATATTAATCAATT
38045 AAATTATTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
19 19 0.30
20 15 0.23
21 5 0.08
22 12 0.19
23 9 0.14
24 1 0.02
25 3 0.05
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAAATATTAATCAATTCATT
Found at i:38027 original size:19 final size:19
Alignment explanation
Indices: 37987--38037 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
37977 TAGAAATAGC
* *
37987 ATTTTAAATTACTAACAATT
1 ATTTTAAA-TATTAAAAATT
38007 ATTTTAAATATTAAAAATT
1 ATTTTAAATATTAAAAATT
38026 ATTATTAAATAT
1 ATT-TTAAATAT
38038 AATAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTTAAATATTAAAAATT
Found at i:38044 original size:19 final size:19
Alignment explanation
Indices: 38003--38065 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
37993 AATTACTAAC
*
38003 AATTATT-TTAAATATTAAA
1 AATTATTATTAAATA-TAAT
38022 AATTATTATTAAATATAAT
1 AATTATTATTAAATATAAT
* *
38041 AATTA-AATT-ATTAT-AT
1 AATTATTATTAAATATAAT
38057 AATTATTAT
1 AATTATTAT
38066 ATTTTGTCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 7 0.18
17 6 0.16
18 3 0.08
19 15 0.39
20 7 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTATTATTAAATATAAT
Found at i:38183 original size:21 final size:22
Alignment explanation
Indices: 38159--38205 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
38149 ATTAACAATT
38159 ATTAGTAAAAATT-ATATTTA-A
1 ATTAGT-AAAATTAATATTTATA
*
38180 ATTAGTAAATTTAATATTTATA
1 ATTAGTAAAATTAATATTTATA
38202 ATTA
1 ATTA
38206 ATTATTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 5 0.22
21 13 0.57
22 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
ATTAGTAAAATTAATATTTATA
Found at i:38794 original size:13 final size:14
Alignment explanation
Indices: 38748--38796 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
38738 ATAAATTCTT
38748 ATTAATT-AT-TTA
1 ATTAATTAATATTA
*
38760 ATATAATAGAATATTA
1 AT-TAAT-TAATATTA
38776 ATTAATTAATATT-
1 ATTAATTAATATTA
38789 ATTAATTA
1 ATTAATTA
38797 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:38869 original size:22 final size:24
Alignment explanation
Indices: 38844--38892 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
38834 TTCAATTGTT
*
38844 TAATAAAATTAA-TAT-TATTATA
1 TAATAAAATTAATTATATAATATA
*
38866 TAATTAAATTAATTATATAATATA
1 TAATAAAATTAATTATATAATATA
38890 TAA
1 TAA
38893 CATTTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 11 0.48
23 3 0.13
24 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TAATAAAATTAATTATATAATATA
Found at i:38872 original size:17 final size:17
Alignment explanation
Indices: 38850--38886 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
38840 TGTTTAATAA
38850 AATTAATATT-ATTATAT
1 AATTAA-ATTAATTATAT
38867 AATTAAATTAATTATAT
1 AATTAAATTAATTATAT
38884 AAT
1 AAT
38887 ATATAACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAAATTAATTATAT
Found at i:38918 original size:21 final size:20
Alignment explanation
Indices: 38844--38919 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 20
38834 TTCAATTGTT
38844 TAATAAAATTAATATTAT-TATA
1 TAATAAAATT--TATTATAT-TA
* * *
38866 TAATTAAATTAATTATATAA
1 TAATAAAATTTATTATATTA
*
38886 TATATAACATTTATTATATTA
1 TA-ATAAAATTTATTATATTA
38907 TAATAAATATTTA
1 TAATAAA-ATTTA
38920 ATTTAAATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
20 12 0.28
21 22 0.51
22 9 0.21
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATAAAATTTATTATATTA
Found at i:38929 original size:41 final size:41
Alignment explanation
Indices: 38853--38972 Score: 116
Period size: 41 Copynumber: 2.9 Consensus size: 41
38843 TTAATAAAAT
* *
38853 TAATATTATTATATAATTAAATTAATTATATAATATATAACAT-
1 TAATAATATTATATAAAT-AATTAATT-TA-AATATATAACATA
* * * * *
38896 TTATTATATTATAATAAATATTTAATTTAAATATTTAATATA
1 TAATAATATTAT-ATAAATAATTAATTTAAATATATAACATA
* *
38938 TAATAATATTATATAATTAAATAATTTAAATATAT
1 TAATAATATTATATAAATAATTAATTTAAATATAT
38973 TATAATGATA
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
41 29 0.47
42 12 0.19
43 16 0.26
44 5 0.08
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (41 bp):
TAATAATATTATATAAATAATTAATTTAAATATATAACATA
Found at i:38938 original size:34 final size:33
Alignment explanation
Indices: 38894--38978 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 33
38884 AATATATAAC
* *
38894 ATTTATTATATTATAATAAATATTTAATTTAAAT-
1 ATTTAATATATTATAAT-AATATATAA-TTAAATA
* *
38928 ATTTAATATATAATAATATTATATAATTAAATA
1 ATTTAATATATTATAATAATATATAATTAAATA
38961 ATTTAAATATATTATAAT
1 ATTT-AATATATTATAAT
38979 GATAAACATT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
32 6 0.14
33 11 0.25
34 27 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
ATTTAATATATTATAATAATATATAATTAAATA
Found at i:38945 original size:17 final size:16
Alignment explanation
Indices: 38903--38947 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 16
38893 CATTTATTAT
38903 ATTATAATAAATATTTA
1 ATTATAAT-AATATTTA
38920 ATT-T-A-AATATTTA
1 ATTATAATAATATTTA
38933 ATATATAATAATATT
1 AT-TATAATAATATT
38948 ATATAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 2 0.08
16 2 0.08
17 9 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTATAATAATATTTA
Found at i:40078 original size:24 final size:26
Alignment explanation
Indices: 40035--40122 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 26
40025 AAAACAAATT
40035 ATATATATTATTAGATTTA-TAATATATA
1 ATATAT-TTA-TA-ATTTATTAATATATA
40063 ATATATTTATAA-TTATTTAA-ATTATA
1 ATATATTTATAATTTA-TTAATA-TATA
40089 AT-TA-TTATAATTTATTAATATA-A
1 ATATATTTATAATTTATTAATATATA
*
40112 AAATATTTATA
1 ATATATTTATA
40123 TTACAATTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 17
0.74 0.01 0.24
Matches are distributed among these distances:
23 2 0.04
24 17 0.33
25 13 0.25
26 11 0.21
27 3 0.06
28 6 0.12
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (26 bp):
ATATATTTATAATTTATTAATATATA
Found at i:40080 original size:28 final size:28
Alignment explanation
Indices: 40049--40122 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 28
40039 ATATTATTAG
40049 ATTTATAATATATAATATATTTATAATT
1 ATTTATAATATATAATATATTTATAATT
40077 ATTTA-AAT-TATAAT-TA-TTATAATT
1 ATTTATAATATATAATATATTTATAATT
* *
40101 -TAT-TAATATA-AAAATATTTATA
1 ATTTATAATATATAATATATTTATA
40123 TTACAATTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
23 7 0.17
24 12 0.30
25 7 0.17
26 6 0.15
27 3 0.08
28 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTTATAATATATAATATATTTATAATT
Found at i:40713 original size:25 final size:24
Alignment explanation
Indices: 40669--40750 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 24
40659 ATTTAATAAA
*
40669 ATAATTAATA-TAATATTAATTTAT
1 ATAATTAATATTATTA-TAATTTAT
40693 ATAACTTAATATTATTATAATTGT-T
1 ATAA-TTAATATTATTATAATT-TAT
40718 ATAATATAATATT-TTAT-ATTTAAT
1 ATAAT-TAATATTATTATAATTT-AT
*
40742 ATAAATAAT
1 ATAATTAAT
40751 TATATACACA
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
22 1 0.02
23 7 0.14
24 14 0.28
25 23 0.46
26 5 0.10
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (24 bp):
ATAATTAATATTATTATAATTTAT
Found at i:40893 original size:29 final size:27
Alignment explanation
Indices: 40861--40925 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 27
40851 ATTAACTATT
40861 ATTATATATA-AATAATAAATTTATATCAA
1 ATTATATATAGAATAA-AAATTT-TAT-AA
* *
40890 ATTATTTATAGAATTAAAATTTTATAA
1 ATTATATATAGAATAAAAATTTTATAA
*
40917 TTTATATAT
1 ATTATATAT
40926 TTTAAATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 9 0.29
28 3 0.10
29 15 0.48
30 4 0.13
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
ATTATATATAGAATAAAAATTTTATAA
Found at i:41789 original size:14 final size:13
Alignment explanation
Indices: 41766--41803 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
41756 AAGTTCAAAT
41766 AAATAT-ATTATA
1 AAATATAATTATA
*
41778 ATATATTAATTATA
1 AAATA-TAATTATA
41792 AAATATAATTAT
1 AAATATAATTAT
41804 TTTATATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 4 0.18
13 8 0.36
14 10 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AAATATAATTATA
Done.