Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168137.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_38, 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: 382840
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Warning! 2000 characters in sequence are not A, C, G, or T
File 1 of 8
Found at i:98 original size:20 final size:20
Alignment explanation
Indices: 62--99 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
52 AATATTAAAA
*
62 TTTGTTATATAATTTTATAT
1 TTTGTTATATAAATTTATAT
82 TTTG-TATATAAAATTTAT
1 TTTGTTATAT-AAATTTAT
100 TTAAATAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTGTTATATAAATTTATAT
Found at i:1616 original size:181 final size:179
Alignment explanation
Indices: 1199--2206 Score: 783
Period size: 181 Copynumber: 5.6 Consensus size: 179
1189 TCGTTTTGAC
* * * * *
1199 CTTTTATTTAGTCATAAAATAATTG--CTTCAACTCATACATGCTTATTCGAAATAAAATAATAC
1 CTTTTATTTTGTCATAAAACAATTGTTTTTC-A-TCATACAAGCTTATTCAAAATAAAATAATAC
* * * * * *
1262 TAATTTATTAACATTCA-AAAAATTATTAAGTA-AGAAATTAGAAAAA-AAATCTATTTATTGAA
64 TAATTTATTAATATT-ATAAAAATTAATAAGTAGAG-ATTTA-AAAAATAAATTTGTTTATCGAA
* * * * * * *
1324 CAAGTTCAAATATTTTTTACTATTTGAACATTTATCTATTTAAAATCGTTATGAC
126 CCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTAT-AA
* * *
1379 CTTATATTTTATCATAAAACAATTG--TTTCAATTCATAAAAGCTTA-TCTAAAATAAAATAATA
1 CTTTTATTTTGTCATAAAACAATTGTTTTTC-A-TCATACAAGCTTATTC-AAAATAAAATAATA
* * * ** * *
1441 TTACTTTATTAATATTATAAAAATTGATAAGTTAGAGATTTAAAGCATAAATTAGTTTATCGAAT
63 CTAATTTATTAATATTATAAAAATTAATAAG-TAGAGATTTAAAAAATAAATTTGTTTATCGAAC
* * * * * * *
1506 TAGTTCAAATAATTATGGCCATTTAAACAATTATTTATTTCAAATCATTATGAA
127 CAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTAT-AA
* * * * *
1560 CTTTTGTTTTGCCATAAAACAATTGTTTTTCATCATACAAGCCTATTCAGAATAAAATAGTACTA
1 CTTTTATTTTGTCATAAAACAATTGTTTTTCATCATACAAGCTTATTCAAAATAAAATAATACTA
* *
1625 ATTTATTAATATT-TAAAAAATTAATAAGTAGGAGATTTAAAAAATAAATCTGTTTATCGAATCA
66 ATTTATTAATATTAT-AAAAATTAATAAGTA-GAGATTTAAAAAATAAATTTGTTTATCGAACCA
* **
1689 GTTCAAATAGTTATGACTATTTGAACAATTATATATTTGTAATCGTTATAA
129 GTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATAA
* * * * * *
1740 CCTTTTGTTTTGTCATAAAATAATTATTTATCTTCATACAAGCTTATTTAAAATAAAATAATACT
1 -CTTTTATTTTGTCATAAAACAATTGTTTTTCATCATACAAGCTTATTCAAAATAAAATAATACT
* * * * * * *
1805 AATCTAGTAATATTATGAAATTTAATAAATGATAGGTTTAAAAAATAAATTTGTTTA-CTGAACC
65 AATTTATTAATATTATAAAAATTAATAAGT-AGAGATTTAAAAAATAAATTTGTTTATC-GAACC
* * * * * *
1869 AATTCAAATAGTTAAGGCTATATGAATAATTATCTATTTCAAAT-GTTATATT
128 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATA-A
* ** * * ** * * * *
1921 CTTTTATTTTGTCATAAAACAAATGTTTTTGTTAATATAATTTTGTTTAGAATAAAATAATATTA
1 CTTTTATTTTGTCATAAAACAATTGTTTTTCATCATACAAGCTTATTCAAAATAAAATAATACTA
* * * * *
1986 ATTTATTAATATTTTGAAAATTAATAA--A-AGATTTAAAAAATAAATTTGTTTACCAAACTAGT
66 ATTTATTAATATTATAAAAATTAATAAGTAGAGATTTAAAAAATAAATTTGTTTATCGAACCAGT
* * * * * * *
2048 TCAATTAGTTATAACAATTT-AACAATTATTTATTTTATATTGTTATAA
131 TCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATAA
* * * * * * * ** * *
2096 CCCTTTGTTTTGTCATAAAATAATTATTTCT-ATTGATA-TAGTCTTATTCGGAATAAAGTAATG
1 -CTTTTATTTTGTCATAAAACAATTGTTTTTCA-TCATACAAG-CTTATTCAAAATAAAATAATA
* * *
2159 CTAATTTATTAATATTCTAACAATTAAGAAGTA-ATGAATTTAAAAAAT
63 CTAATTTATTAATATTATAAAAATTAATAAGTAGA-G-ATTTAAAAAAT
2207 TCAAATAGTA
Statistics
Matches: 666, Mismatches: 138, Indels: 48
0.78 0.16 0.06
Matches are distributed among these distances:
175 17 0.03
176 116 0.17
177 2 0.00
178 2 0.00
179 4 0.01
180 175 0.26
181 339 0.51
182 7 0.01
183 4 0.01
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (179 bp):
CTTTTATTTTGTCATAAAACAATTGTTTTTCATCATACAAGCTTATTCAAAATAAAATAATACTA
ATTTATTAATATTATAAAAATTAATAAGTAGAGATTTAAAAAATAAATTTGTTTATCGAACCAGT
TCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATAA
Found at i:1877 original size:362 final size:359
Alignment explanation
Indices: 1231--2125 Score: 939
Period size: 362 Copynumber: 2.5 Consensus size: 359
1221 TTGCTTCAAC
* * * *
1231 TCATACATGCTTATTC-GAAATAAAATAATACTAATTTATTAACATTCAAAAAATTATTAAGTA-
1 TCATACAAGCTTATTCAG-AATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTAG
* * * * * * *
1294 AGAAATTAGAAAAA-AAATCTATTTATTGAACAAGTTCAAATATTTTTTACTATTTGAACATTTA
65 AG-ATTTA-AAAAATAAATCTGTTTATCGAACAAGTTCAAATAGTTATAACTATTTGAACAATTA
* * * * * * * *
1358 TCTATTTAAAATCGTTATGACCTTATATTTTATCATAAAACAATTGTTTCAATTCATAAAAGCTT
128 TATATTT-TAATCGTTATAACCTTTTGTTTTGTCATAAAATAATTATTTCAATTCATAAAAGCTT
* * * * * * * **
1423 ATCTAAAATAAAATAATATTACTTTATTAATATTATAAAAATTGATAAGTTAGAGATTTAAAGCA
192 ATCTAAAATAAAATAATACTAATCTAGTAATATTATAAAAATTAATAAATGAGAGATTTAAAAAA
** * * * *
1488 TAAATTAGTTTATCGAATTAGTTCAAATAATTATGGCCATTTAAACAATTATTTATTTCAAATCA
257 TAAATTAGTTTATCGAACCAATTCAAATAATTAAGGCCATATAAACAATTATCTATTTCAAAT-A
* *
1553 TTATGA-ACTTTTGTTTTGCCATAAAACAATTGTTTTTCA
321 TTAT-ATACTTTTATTTTGCCATAAAACAAATGTTTTTCA
* *
1592 TCATACAAGCCTATTCAGAATAAAATAGTACTAATTTATTAATATTTAAAAAATTAATAAGTAGG
1 TCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTA-G
*
1657 AGATTTAAAAAATAAATCTGTTTATCGAATC-AGTTCAAATAGTTATGACTATTTGAACAATTAT
65 AGATTTAAAAAATAAATCTGTTTATCGAA-CAAGTTCAAATAGTTATAACTATTTGAACAATTAT
* *
1721 ATATTTGTAATCGTTATAACCTTTTGTTTTGTCATAAAATAATTATTT-ATCTTCATACAAGCTT
129 ATATTT-TAATCGTTATAACCTTTTGTTTTGTCATAAAATAATTATTTCA-ATTCATAAAAGCTT
* * * * *
1785 ATTTAAAATAAAATAATACTAATCTAGTAATATTATGAAATTTAATAAATGATAGGTTTAAAAAA
192 ATCTAAAATAAAATAATACTAATCTAGTAATATTATAAAAATTAATAAATGAGAGATTTAAAAAA
* * * * * *
1850 TAAATTTGTTTA-CTGAACCAATTCAAATAGTTAAGGCTATATGAATAATTATCTATTTCAAATG
257 TAAATTAGTTTATC-GAACCAATTCAAATAATTAAGGCCATATAAACAATTATCTATTTCAAATA
* * **
1914 TTATATTCTTTTATTTTGTCATAAAACAAATGTTTTTGT
321 TTATATACTTTTATTTTGCCATAAAACAAATGTTTTTCA
* * ** * * * **
1953 TAATATAATTTTGTTTAGAATAAAATAATATTAATTTATTAATATTTTGAAAATTAATAA--A-A
1 TCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTAGA
* * * * * * *
2015 GATTTAAAAAATAAATTTGTTTACCAAACTAGTTCAATTAGTTATAACAATTT-AACAATTATTT
66 GATTTAAAAAATAAATCTGTTTATCGAACAAGTTCAAATAGTTATAACTATTTGAACAATTATAT
* *
2079 ATTTTATATTGTTATAACCCTTTGTTTTGTCATAAAATAATTATTTC
131 ATTTTA-ATCGTTATAACCTTTTGTTTTGTCATAAAATAATTATTTC
2126 TATTGATATA
Statistics
Matches: 447, Mismatches: 76, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
355 2 0.00
356 52 0.12
357 46 0.10
359 1 0.00
360 1 0.00
361 142 0.32
362 200 0.45
363 3 0.01
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.42
Consensus pattern (359 bp):
TCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTAGA
GATTTAAAAAATAAATCTGTTTATCGAACAAGTTCAAATAGTTATAACTATTTGAACAATTATAT
ATTTTAATCGTTATAACCTTTTGTTTTGTCATAAAATAATTATTTCAATTCATAAAAGCTTATCT
AAAATAAAATAATACTAATCTAGTAATATTATAAAAATTAATAAATGAGAGATTTAAAAAATAAA
TTAGTTTATCGAACCAATTCAAATAATTAAGGCCATATAAACAATTATCTATTTCAAATATTATA
TACTTTTATTTTGCCATAAAACAAATGTTTTTCA
Found at i:2597 original size:21 final size:22
Alignment explanation
Indices: 2569--2653 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 22
2559 TTGTTATATG
*
2569 ATAT-TTTAATATAATTAAATA
1 ATATATTTAATATAATTAATTA
2590 ATA-ATTTAATATAATTTAATTA
1 ATATATTTAATATAA-TTAATTA
*
2612 ACTATATTTATAAATAATTAATTA
1 A-TATATTTA-ATATAATTAATTA
2636 AT-T-TTTAA-ATAA-TAATTA
1 ATATATTTAATATAATTAATTA
2654 TATTATTAAC
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
18 6 0.11
19 4 0.07
20 1 0.02
21 17 0.30
22 8 0.14
23 3 0.05
24 13 0.23
25 5 0.09
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATATTTAATATAATTAATTA
Found at i:2603 original size:10 final size:10
Alignment explanation
Indices: 2573--2609 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
2563 TATATGATAT
2573 TTTAATATAA
1 TTTAATATAA
*
2583 TTAAATAATAA
1 TTTAAT-ATAA
2594 TTTAATATAA
1 TTTAATATAA
2604 TTTAAT
1 TTTAAT
2610 TAACTATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TTTAATATAA
Found at i:2662 original size:19 final size:19
Alignment explanation
Indices: 2577--2679 Score: 79
Period size: 19 Copynumber: 5.4 Consensus size: 19
2567 TGATATTTTA
*
2577 ATATAATTAAATAATAATT
1 ATATTATTAAATAATAATT
* * *
2596 -TAATA-TAATTTAATTAACT
1 ATATTATTAA-ATAA-TAATT
2615 ATATT-TATAAATAATTAATT
1 ATATTAT-TAAATAA-TAATT
*
2635 A-ATTTTTAAATAATAATT
1 ATATTATTAAATAATAATT
* *
2653 ATATTATTAACTTATAATT
1 ATATTATTAAATAATAATT
2672 ATATTATT
1 ATATTATT
2680 TAACTTAGTT
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
17 3 0.04
18 12 0.18
19 36 0.54
20 13 0.19
21 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATTATTAAATAATAATT
Found at i:2818 original size:14 final size:14
Alignment explanation
Indices: 2763--2839 Score: 63
Period size: 14 Copynumber: 5.6 Consensus size: 14
2753 ATATAAATAA
2763 ATATATATTATATT
1 ATATATATTATATT
* *
2777 ATAAATTGTTATATT
1 ATATA-TATTATATT
* *
2792 AGTAT-TGTGATATT
1 A-TATATATTATATT
2806 ATATATATTATATT
1 ATATATATTATATT
2820 A-AT-TATTA-ATT
1 ATATATATTATATT
*
2831 ATATCTATT
1 ATATATATT
2840 TAAATTTAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
11 4 0.08
12 7 0.13
13 9 0.17
14 21 0.40
15 9 0.17
16 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (14 bp):
ATATATATTATATT
Found at i:2857 original size:45 final size:45
Alignment explanation
Indices: 2804--2892 Score: 119
Period size: 45 Copynumber: 1.9 Consensus size: 45
2794 TATTGTGATA
*
2804 TTATATA-TATTATATTAATTATTAATTAT-ATCTATTTAAATTTAGTT
1 TTATATATTATTAT-TTAA-T-TTAATTATAAT-TAGTTAAATTTAGTT
2851 TTATATATTATTATTTAATTTAATTATAATTAGTTAAATTTA
1 TTATATATTATTATTTAATTTAATTATAATTAGTTAAATTTA
2893 TAATATAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
45 19 0.49
46 3 0.08
47 11 0.28
48 6 0.15
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.57
Consensus pattern (45 bp):
TTATATATTATTATTTAATTTAATTATAATTAGTTAAATTTAGTT
Found at i:4172 original size:20 final size:20
Alignment explanation
Indices: 4149--4206 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
4139 TATTAATAGT
4149 AATTATTAATATTTATTATA
1 AATTATTAATATTTATTATA
*
4169 AATTA--AA-ATTTATAATA
1 AATTATTAATATTTATTATA
*
4186 AATAATTAATATTTATTATA
1 AATTATTAATATTTATTATA
4206 A
1 A
4207 TAAGTAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 13 0.41
18 2 0.06
19 2 0.06
20 15 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATTATTAATATTTATTATA
Found at i:4173 original size:37 final size:37
Alignment explanation
Indices: 4132--4206 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
4122 ATATTAATTG
* *
4132 AATTAAATATTAATAGT-AATTATTAATATTTATTATA
1 AATTAAA-ATTAATAATAAATAATTAATATTTATTATA
*
4169 AATTAAAATTTATAATAAATAATTAATATTTATTATA
1 AATTAAAATTAATAATAAATAATTAATATTTATTATA
4206 A
1 A
4207 TAAGTAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 7 0.21
37 27 0.79
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (37 bp):
AATTAAAATTAATAATAAATAATTAATATTTATTATA
Found at i:4179 original size:17 final size:17
Alignment explanation
Indices: 4153--4188 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4143 AATAGTAATT
* *
4153 ATTAATATTTATTATAA
1 ATTAAAATTTATAATAA
4170 ATTAAAATTTATAATAA
1 ATTAAAATTTATAATAA
4187 AT
1 AT
4189 AATTAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAAAATTTATAATAA
Found at i:4226 original size:23 final size:23
Alignment explanation
Indices: 4178--4227 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
4168 AAATTAAAAT
**
4178 TTATAATAAATAATTAATATTTA
1 TTATAATAAATAATTAATATAAA
*
4201 TTATAATAAGTAATATAA-ATAAA
1 TTATAATAAATAAT-TAATATAAA
4224 TTAT
1 TTAT
4228 TAGCTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TTATAATAAATAATTAATATAAA
Found at i:4337 original size:20 final size:19
Alignment explanation
Indices: 4314--4368 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
4304 TAATATTATT
*
4314 ATAATTATTATAATATTTGG
1 ATAATTATTATAATAATT-G
4334 ATAATTTATTCAT-ATAATTG
1 ATAA-TTATT-ATAATAATTG
4354 ATAATTATTA-AATAA
1 ATAATTATTATAATAA
4369 CTAATATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 9 0.29
21 10 0.32
22 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAATTATTATAATAATTG
Found at i:4838 original size:15 final size:17
Alignment explanation
Indices: 4818--4852 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
4808 AATATATAAT
4818 TATAAT-TTAA-AATTA
1 TATAATATTAACAATTA
4833 TATAATATTAACAATTA
1 TATAATATTAACAATTA
4850 TAT
1 TAT
4853 TGATATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 4 0.22
17 8 0.44
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TATAATATTAACAATTA
Found at i:5010 original size:23 final size:24
Alignment explanation
Indices: 4984--5037 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
4974 AATTGTTGTT
*
4984 TAAATAATTATAATATAATATTA-
1 TAAATAATTAGAATATAATATTAC
*
5007 TAAATAATTAGATTATAATATTAC
1 TAAATAATTAGAATATAATATTAC
5031 T-AATAAT
1 TAAATAAT
5038 ATTTTATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
TAAATAATTAGAATATAATATTAC
Found at i:7014 original size:176 final size:177
Alignment explanation
Indices: 6610--7327 Score: 764
Period size: 176 Copynumber: 4.0 Consensus size: 177
6600 TATTATAATT
* * * * * *
6610 ATAATAATTTTAAATAGATAATTATTTAAATAGTCATATCTATTTGAAATTGTTCAGTAAACAGA
1 ATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTAGTTCAGTAAACAGA
* ** * *
6675 TTTATTTTTTTAAATCTCTTGCTTTAATTTTTTGAATGTTAATAAATTAGTATTATTTTATTCTA
66 TTTA-TTTTTTAAATCTCTT--ATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTCTG
* * * *
6740 AACAAGCTTGTATGAACTGAAATAATTGTTTTATGACTAAACAAAAGGAT-
128 AATAAGCTTGTATGAACAGAAACAATTGTTTTATGACAAAACAAAA-GATC
*** * * *
6790 ATAATGATTTGAAATAGATAATTATTTTGATAGTCTTAACTATTTGAACTAGTTCGGCT-AACAT
1 ATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTAGTTCAG-TAAACAG
* * * * * *
6854 ATTTATTTTTTAAATCTCTTATTAATTTTTGAAATATTATTAAATTAGTATCATTTAAATCCGAA
65 ATTTATTTTTTAAATCTCTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTCTGAA
* *
6919 TAAGCTTGTATGAA-AGGAAACAATTGTTGTATGACAAAA-TAAAGATC
130 TAAGCTTGTATGAACA-GAAACAATTGTTTTATGACAAAACAAAAGATC
* * * * *
6966 ATTATGATTTGAGATAGATAATTGTTCAAATAGTCATAACTATTTGAACTAGTTTAGTAAATAGA
1 ATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTAGTTCAGTAAACAGA
* * ** *
7031 TTTAGTTTTTAAATCTCTTATTAATTTTTAAAATATTAATAAATCAAAATTATTTTATTTTGAAT
66 TTTATTTTTTAAATCTCTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTCTGAAT
* *
7096 AA-TTCTGTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTC
131 AAGCT-TGTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGATC
** * * * * * *
7143 ATAACAATTTGAAATAGATAATTGTTCTAATGGACATGACTATTTGAACTTA-TTCATTAAACAG
1 ATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAAC-TAGTTCAGTAAACAG
* * ** * *
7207 ATTTATTTGTTAAATGTCCTACCTATTAATTTGCAAAATATTAATAAAGTAGTATTATTTTATTT
65 ATTTATTTTTTAAA--T-CT-CTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTC
* * *
7272 TGAATAAACTTATATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATC
126 TGAATAAGCTTGTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGATC
7324 ATAA
1 ATAA
7328 CTATTAGAAA
Statistics
Matches: 449, Mismatches: 76, Indels: 25
0.82 0.14 0.05
Matches are distributed among these distances:
175 5 0.01
176 141 0.31
177 137 0.31
178 2 0.00
179 16 0.04
180 59 0.13
181 88 0.20
182 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (177 bp):
ATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTAGTTCAGTAAACAGA
TTTATTTTTTAAATCTCTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTCTGAAT
AAGCTTGTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGATC
Found at i:7502 original size:30 final size:30
Alignment explanation
Indices: 7468--7552 Score: 84
Period size: 30 Copynumber: 2.9 Consensus size: 30
7458 ATTTATAAGG
* *
7468 ATTATAATAATTTAAAATTAATCTATATAT
1 ATTATAATAATATAAAATTAATCTATAAAT
* *
7498 ATTATTATAA-ATAATAATTAATATATAAAT
1 ATTATAATAATATAA-AATTAATCTATAAAT
* * *
7528 ATTTTAATTATAT-ATATTAATCTAT
1 ATTATAATAATATAAAATTAATCTAT
7553 TTTTATTAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
29 12 0.27
30 30 0.68
31 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
ATTATAATAATATAAAATTAATCTATAAAT
Found at i:7560 original size:59 final size:49
Alignment explanation
Indices: 7479--7636 Score: 144
Period size: 47 Copynumber: 3.1 Consensus size: 49
7469 TTATAATAAT
*
7479 TTAAA-ATTAATCTATATATATTATTATAAATAATAATTAATATATAAATATTTTAA
1 TTAAATATTAATCTAT-T-T-TTATTAAAAATAAT--TTAATATATAAA-A--TTAA
** *
7535 TTATATATATTAATCTATTTTTATTAAATTTAATTTAATTTATAAAATTAA
1 TTA-A-ATATTAATCTATTTTTATTAAAAATAATTTAATATATAAAATTAA
*
7586 TTAAATATTAATCTATTTTTATT--AAATAATTTAAT-TATTAATATTAA
1 TTAAATATTAATCTATTTTTATTAAAAATAATTTAATATA-TAAAATTAA
7633 TTAA
1 TTAA
7637 TTAATGTTAT
Statistics
Matches: 91, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
46 2 0.02
47 22 0.24
49 19 0.21
50 1 0.01
51 7 0.08
53 1 0.01
54 11 0.12
56 14 0.15
57 2 0.02
58 2 0.02
59 10 0.11
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (49 bp):
TTAAATATTAATCTATTTTTATTAAAAATAATTTAATATATAAAATTAA
Found at i:7598 original size:49 final size:48
Alignment explanation
Indices: 7531--7637 Score: 155
Period size: 47 Copynumber: 2.2 Consensus size: 48
7521 TATAAATATT
7531 TTAATTATATATATTAATCTATTTTTATTAAATTTAATTTAATT-TATAAAA
1 TTAATTA-ATATATTAATCTATTTTTATTAAA--TAATTTAATTAT-TAAAA
*
7582 TTAATTAA-ATATTAATCTATTTTTATTAAATAATTTAATTATTAATA
1 TTAATTAATATATTAATCTATTTTTATTAAATAATTTAATTATTAAAA
7629 TTAATTAAT
1 TTAATTAAT
7638 TAATGTTATA
Statistics
Matches: 53, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
47 22 0.42
48 1 0.02
49 22 0.42
50 1 0.02
51 7 0.13
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (48 bp):
TTAATTAATATATTAATCTATTTTTATTAAATAATTTAATTATTAAAA
Found at i:7630 original size:22 final size:22
Alignment explanation
Indices: 7556--7638 Score: 60
Period size: 22 Copynumber: 3.5 Consensus size: 22
7546 AATCTATTTT
7556 TATTAAATTTAATTTAATT-TATAA
1 TATTAAA--TAATTTAATTAT-TAA
* * **
7580 AATTAATTAAATATTAATCTATTTT
1 TATTAAAT-AAT-TTAAT-TATTAA
7605 TATTAAATAATTTAATTATTAA
1 TATTAAATAATTTAATTATTAA
*
7627 TATTAATTAATT
1 TATTAAATAATT
7639 AATGTTATAA
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
22 16 0.35
23 8 0.17
24 13 0.28
25 8 0.17
26 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTAAATAATTTAATTATTAA
Found at i:7633 original size:18 final size:17
Alignment explanation
Indices: 7555--7639 Score: 67
Period size: 16 Copynumber: 5.2 Consensus size: 17
7545 TAATCTATTT
7555 TTATTAAATTTAATTTAA
1 TTATTAAA-TTAATTTAA
*
7573 TTTATAAAATTAA-TTAA
1 -TTATTAAATTAATTTAA
*
7590 ATATT-AATCT-ATTT--
1 TTATTAAAT-TAATTTAA
7604 TTATTAAA-TAATTTAA
1 TTATTAAATTAATTTAA
7620 TTATTAATATTAA-TTAA
1 TTATTAA-ATTAATTTAA
7637 TTA
1 TTA
7640 ATGTTATAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
13 1 0.02
14 8 0.15
15 6 0.11
16 13 0.24
17 12 0.22
18 7 0.13
19 7 0.13
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATTAAATTAATTTAA
Found at i:7634 original size:47 final size:49
Alignment explanation
Indices: 7531--7637 Score: 157
Period size: 49 Copynumber: 2.2 Consensus size: 49
7521 TATAAATATT
7531 TTAATTATATATATTAATCTATTTTTATTAAATTTAATTTAATTTATAAAA
1 TTAATTA-ATATATTAATCTATTTTTATTAAA-TTAATTTAATTTATAAAA
*
7582 TTAATTAA-ATATTAATCTATTTTTATTAAA-TAATTTAA-TTATTAATA
1 TTAATTAATATATTAATCTATTTTTATTAAATTAATTTAATTTA-TAAAA
7629 TTAATTAAT
1 TTAATTAAT
7638 TAATGTTATA
Statistics
Matches: 53, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
46 3 0.06
47 20 0.38
49 22 0.42
50 1 0.02
51 7 0.13
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (49 bp):
TTAATTAATATATTAATCTATTTTTATTAAATTAATTTAATTTATAAAA
Found at i:7877 original size:21 final size:21
Alignment explanation
Indices: 7853--7912 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
7843 TAATTATACC
*
7853 TAATATTGATATTATTATTTG
1 TAATATTGATATTATTATTTA
* *
7874 TAAT-CTGTATATTAATTAGTTA
1 TAATATTG-ATATT-ATTATTTA
*
7896 TAATATT-ATTTTATTAT
1 TAATATTGATATTATTAT
7913 AATATAGATA
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
20 6 0.20
21 13 0.43
22 10 0.33
23 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
TAATATTGATATTATTATTTA
Found at i:8838 original size:15 final size:17
Alignment explanation
Indices: 8818--8849 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
8808 AATATAATAT
8818 AATTT-ATTAA-TATAA
1 AATTTAATTAACTATAA
8833 AATTTAATTAACTATAA
1 AATTTAATTAACTATAA
8850 TTACAATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 5 0.33
17 5 0.33
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTTAATTAACTATAA
Found at i:9139 original size:21 final size:20
Alignment explanation
Indices: 9115--9197 Score: 69
Period size: 21 Copynumber: 3.9 Consensus size: 20
9105 GTTTTGTTAT
9115 ATAATATTTTAATATAATTAA
1 ATAATATTTTAA-ATAATTAA
*
9136 ATAATAATTTAATATAATTTAA
1 ATAATATTTTAA-ATAA-TTAA
* *
9158 TTAACTATATGTATAAATAAATAA
1 ATAA-TAT-T-T-TAAATAATTAA
9182 ATAA-ATTTTAAATAAT
1 ATAATATTTTAAATAAT
9198 AATTATATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
19 7 0.14
20 1 0.02
21 17 0.33
22 9 0.18
23 2 0.04
24 7 0.14
25 5 0.10
26 3 0.06
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (20 bp):
ATAATATTTTAAATAATTAA
Found at i:9152 original size:10 final size:10
Alignment explanation
Indices: 9122--9158 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
9112 TATATAATAT
9122 TTTAATATAA
1 TTTAATATAA
*
9132 TTAAATAATAA
1 TTTAAT-ATAA
9143 TTTAATATAA
1 TTTAATATAA
9153 TTTAAT
1 TTTAAT
9159 TAACTATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TTTAATATAA
Found at i:9363 original size:23 final size:21
Alignment explanation
Indices: 9337--9406 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 21
9327 TGTGATATTA
9337 TATATATTATATTAATTATTAAT
1 TATATATTATATTAA-T-TTAAT
*
9360 TATATA-TAT-TTAAATTTAGT
1 TATATATTATATT-AATTTAAT
*
9380 TTTATATTATTATTTAATTTAAT
1 TATATATTA-TA-TTAATTTAAT
9403 TATA
1 TATA
9407 ATCAGTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
20 9 0.24
21 5 0.13
22 6 0.16
23 16 0.42
24 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (21 bp):
TATATATTATATTAATTTAAT
Found at i:9386 original size:43 final size:43
Alignment explanation
Indices: 9334--9420 Score: 113
Period size: 43 Copynumber: 1.9 Consensus size: 43
9324 TATTGTGATA
*
9334 TTATATATATTATATTAATTATTAATTATATAT-ATTTAAATTTAGTT
1 TTATAT-TATTAT-TTAA-T-TTAATTATA-ATCAGTTAAATTTAGTT
9381 TTATATTATTATTTAATTTAATTATAATCAGTTAAATTTA
1 TTATATTATTATTTAATTTAATTATAATCAGTTAAATTTA
9421 TAATGTAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
42 2 0.05
43 19 0.50
44 1 0.03
45 4 0.11
46 6 0.16
47 6 0.16
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (43 bp):
TTATATTATTATTTAATTTAATTATAATCAGTTAAATTTAGTT
Found at i:9388 original size:27 final size:26
Alignment explanation
Indices: 9331--9405 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
9321 TAGTATTGTG
*
9331 ATATTATATATATTATATTAATTATT
1 ATATTATATATATTAAATTAATTATT
*
9357 A-ATTATATATATTTAAATTTAGTT-TT
1 ATATTATATATA-TTAAA-TTAATTATT
*
9383 ATATTAT-TAT-TTAATTTAATTAT
1 ATATTATATATATTAAATTAATTAT
9406 AATCAGTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
23 5 0.12
24 5 0.12
25 10 0.24
26 11 0.27
27 10 0.24
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (26 bp):
ATATTATATATATTAAATTAATTATT
Found at i:10668 original size:20 final size:18
Alignment explanation
Indices: 10650--10697 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
10640 ATGGTAATTG
*
10650 TTAATATTTATGATAAA-
1 TTAATATTTATAATAAAT
*
10667 TTAAAATTTATAATAAAT
1 TTAATATTTATAATAAAT
10685 AATTAATATTTAT
1 --TTAATATTTAT
10698 TATTAATAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 15 0.60
20 10 0.40
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
TTAATATTTATAATAAAT
Found at i:10705 original size:20 final size:20
Alignment explanation
Indices: 10665--10713 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
10655 ATTTATGATA
*
10665 AATTAAAATTTATAATAAAT
1 AATTAATATTTATAATAAAT
* *
10685 AATTAATATTTATTATTAAT
1 AATTAATATTTATAATAAAT
*
10705 AAGTAATAT
1 AATTAATAT
10714 AAATAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AATTAATATTTATAATAAAT
Found at i:10803 original size:20 final size:19
Alignment explanation
Indices: 10780--10834 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
10770 TAATATTATT
*
10780 ATAATTATTATAATATTTGG
1 ATAATTATTATAATAATT-G
10800 ATAATTTATTCAT-ATAATTG
1 ATAA-TTATT-ATAATAATTG
10820 ATAATTATTA-AATAA
1 ATAATTATTATAATAA
10835 CTAATATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 9 0.29
21 10 0.32
22 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAATTATTATAATAATTG
Found at i:11075 original size:26 final size:26
Alignment explanation
Indices: 11046--11096 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
11036 TAAGATAATT
11046 AATAATATTA-ATT-ATAATAATTATTA
1 AATAA-ATTATATTAAT-ATAATTATTA
11072 AATAAATTATATTAATATAATTATT
1 AATAAATTATATTAATATAATTATT
11097 TATTGAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 4 0.17
26 17 0.74
27 2 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
AATAAATTATATTAATATAATTATTA
Found at i:11084 original size:14 final size:14
Alignment explanation
Indices: 11041--11095 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
11031 AAATCTAAGA
*
11041 TAAT-TAATAATAT
1 TAATATAATTATAT
*
11054 TAATTATAATAATTAT
1 TAA-TATAATTA-TAT
11070 TAA-ATAAATTATAT
1 TAATAT-AATTATAT
11084 TAATATAATTAT
1 TAATATAATTAT
11096 TTATTGAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 3 0.08
14 15 0.42
15 12 0.33
16 6 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATATAATTATAT
Found at i:11086 original size:30 final size:30
Alignment explanation
Indices: 11050--11112 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
11040 ATAATTAATA
11050 ATATTAATTATAA-TAATTATTAAATAAATT
1 ATATTAA-TATAATTAATTATTAAATAAATT
* * *
11080 ATATTAATATAATTATTTATTGAATAGATT
1 ATATTAATATAATTAATTATTAAATAAATT
11110 ATA
1 ATA
11113 ATTTGTATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 5 0.17
30 24 0.83
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
ATATTAATATAATTAATTATTAAATAAATT
Found at i:11167 original size:8 final size:8
Alignment explanation
Indices: 11145--11214 Score: 58
Period size: 8 Copynumber: 8.6 Consensus size: 8
11135 AATTTAAATG
11145 ATTATAAT
1 ATTATAAT
11153 AATTATAAT
1 -ATTATAAT
11162 ATTATAAT
1 ATTATAAT
11170 ATTATTAAT
1 ATTA-TAAT
*
11179 -TGTTTAATT
1 AT-TATAA-T
11188 ATT-TAA-
1 ATTATAAT
11194 ATTATTAAT
1 ATTA-TAAT
11203 ATTATAAT
1 ATTATAAT
11211 -TTAT
1 ATTAT
11215 TGATATATCT
Statistics
Matches: 53, Mismatches: 1, Indels: 16
0.76 0.01 0.23
Matches are distributed among these distances:
6 3 0.06
7 4 0.08
8 26 0.49
9 19 0.36
10 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (8 bp):
ATTATAAT
Found at i:11236 original size:33 final size:32
Alignment explanation
Indices: 11165--11253 Score: 90
Period size: 33 Copynumber: 2.7 Consensus size: 32
11155 TTATAATATT
*
11165 ATAATATTATTAATTGT-TTAATTATTTAAATTA
1 ATAATATTA-TAATT-TATTAATTATCTAAATTA
* * *
11198 TTAATATTATAATTTATTGATATATCTAATTTA
1 ATAATATTATAATTTATTAAT-TATCTAAATTA
* *
11231 ATAATATAACAATTTATTAATTA
1 ATAATATTATAATTTATTAATTA
11254 ATATTTCTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
31 1 0.02
32 11 0.24
33 34 0.74
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (32 bp):
ATAATATTATAATTTATTAATTATCTAAATTA
Found at i:11353 original size:15 final size:17
Alignment explanation
Indices: 11333--11367 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
11323 AATATATAAT
11333 TATAAT-TTAA-AATTA
1 TATAATATTAATAATTA
11348 TATAATATTAATAATTA
1 TATAATATTAATAATTA
11365 TAT
1 TAT
11368 TTATATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 4 0.22
17 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATAATATTAATAATTA
Found at i:11357 original size:23 final size:22
Alignment explanation
Indices: 11324--11388 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 22
11314 ATATAGTATA
11324 ATATATAATTATAATTTAAAATT
1 ATATATAATTATAA-TTAAAATT
* *
11347 ATATA-ATATTAATAATTATATTT
1 ATATATA-ATT-ATAATTAAAATT
11370 ATATATAATTATAAGTTAA
1 ATATATAATTATAA-TTAA
11389 TTAATTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
22 5 0.14
23 25 0.71
24 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATATAATTATAATTAAAATT
Found at i:11364 original size:30 final size:30
Alignment explanation
Indices: 11305--11372 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
11295 ATAGTAACTT
11305 TATTTATAAATATAGTATAATATATAATTA
1 TATTTATAAATATAGTATAATATATAATTA
11335 TAATTTA-AAAT-TA-TATAATATTAATAATTA
1 T-ATTTATAAATATAGTATAATA-T-ATAATTA
11365 TATTTATA
1 TATTTATA
11373 TATAATTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
28 7 0.21
29 8 0.24
30 14 0.41
31 5 0.15
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (30 bp):
TATTTATAAATATAGTATAATATATAATTA
Found at i:18722 original size:28 final size:28
Alignment explanation
Indices: 18691--18744 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
18681 ACTTACTATT
* *
18691 TAATTATATAATTAAATATATTATATAC
1 TAATAATATAATCAAATATATTATATAC
* *
18719 TAATAATATAGTCAATTATATTATAT
1 TAATAATATAATCAAATATATTATAT
18745 TTATATATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (28 bp):
TAATAATATAATCAAATATATTATATAC
Found at i:18914 original size:19 final size:20
Alignment explanation
Indices: 18892--18973 Score: 50
Period size: 19 Copynumber: 4.2 Consensus size: 20
18882 ATTAGTAAAC
18892 AATT-AATTAATTATATTAT
1 AATTAAATTAATTATATTAT
** * *
18911 AATTCCA-TAACTATTTTAT
1 AATTAAATTAATTATATTAT
18930 AATTTAATATTAAATTATATTA-
1 AA-TTAA-ATT-AATTATATTAT
18952 AA-TATAATTAA-TA-ATTAT
1 AATTA-AATTAATTATATTAT
18970 AATT
1 AATT
18974 TACTAATTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 16
0.68 0.10 0.23
Matches are distributed among these distances:
17 4 0.08
18 4 0.08
19 19 0.40
20 8 0.17
21 2 0.04
22 3 0.06
23 8 0.17
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTAAATTAATTATATTAT
Found at i:18990 original size:22 final size:21
Alignment explanation
Indices: 18956--18997 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
18946 ATATTAAATA
*
18956 TAATTAATAATTATAATTTAC
1 TAATTAAAAATTATAATTTAC
*
18977 TAATTAAAATATTATATTTTA
1 TAATTAAAA-ATTATAATTTA
18998 TGCATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATTAAAAATTATAATTTAC
Found at i:19013 original size:19 final size:19
Alignment explanation
Indices: 18987--19036 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
18977 TAATTAAAAT
* *
18987 ATTATATTTTATGCATTATA
1 ATTATATTTTAAGAATT-TA
*
19007 A-TATATTATAAGAATTTA
1 ATTATATTTTAAGAATTTA
19025 ATTATATTTTAA
1 ATTATATTTTAA
19037 TATAATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 3 0.12
19 21 0.84
20 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (19 bp):
ATTATATTTTAAGAATTTA
Found at i:19201 original size:15 final size:16
Alignment explanation
Indices: 19168--19205 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
19158 TTTATAAACT
19168 TAAATTAATATACTTA
1 TAAATTAATATACTTA
*
19184 TAAATTAGTATA-TTA
1 TAAATTAATATACTTA
19199 TAAATTA
1 TAAATTA
19206 TTATTTATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (16 bp):
TAAATTAATATACTTA
Found at i:19350 original size:13 final size:13
Alignment explanation
Indices: 19329--19478 Score: 66
Period size: 13 Copynumber: 11.5 Consensus size: 13
19319 TAACTGTTAC
*
19329 TATATTATAATTA
1 TATAATATAATTA
19342 TATAATATAATTAA
1 TATAATATAATT-A
19356 TATCAATTATTAATT-
1 TAT-AA-TA-TAATTA
*
19371 TACAATTATAA-TA
1 TATAA-TATAATTA
*
19384 TATTAATAT-TTTA
1 TA-TAATATAATTA
*
19397 T-TAAAAACTAATTA
1 TAT-AATA-TAATTA
*
19411 TTTAATA-AATT-
1 TATAATATAATTA
19422 TATAA-ATAATTA
1 TATAATATAATTA
* *
19434 TA-ATTAATAATAA
1 TATAAT-ATAATTA
* *
19447 TAGATTATAATTA
1 TATAATATAATTA
19460 T-TAATATAATTA
1 TATAATATAATTA
19472 TGATAAT
1 T-ATAAT
19479 TCGATTATTA
Statistics
Matches: 106, Mismatches: 13, Indels: 35
0.69 0.08 0.23
Matches are distributed among these distances:
10 1 0.01
11 10 0.09
12 20 0.19
13 38 0.36
14 25 0.24
15 5 0.05
16 2 0.02
17 5 0.05
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (13 bp):
TATAATATAATTA
Found at i:19453 original size:20 final size:19
Alignment explanation
Indices: 19426--19472 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
19416 TAAATTTATA
19426 AATAATTATAATTAATAAT
1 AATAATTATAATTAATAAT
*
19445 AATAGATTATAATTATTAAT
1 AATA-ATTATAATTAATAAT
19465 -ATAATTAT
1 AATAATTAT
19473 GATAATTCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 5 0.19
19 7 0.27
20 14 0.54
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AATAATTATAATTAATAAT
Found at i:19696 original size:23 final size:23
Alignment explanation
Indices: 19669--19718 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
19659 TTATAGTATA
*
19669 TTATAAAACAGATTATATTTATG
1 TTATAAAACAAATTATATTTATG
* * *
19692 TTATAATATAAATTATATTTATT
1 TTATAAAACAAATTATATTTATG
19715 TTAT
1 TTAT
19719 TTTAATGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
TTATAAAACAAATTATATTTATG
Found at i:20303 original size:19 final size:19
Alignment explanation
Indices: 20259--20318 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
20249 GTTAATATAA
* *
20259 ATTATAACATATTTTTTA-T
1 ATTATAA-ATATATATTAGT
*
20278 ATAATAAATATATATTAGT
1 ATTATAAATATATATTAGT
*
20297 ATTAT-AATTTAATATTAGT
1 ATTATAAATAT-ATATTAGT
20316 ATT
1 ATT
20319 TATATTAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 12 0.35
19 22 0.65
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (19 bp):
ATTATAAATATATATTAGT
Found at i:20421 original size:28 final size:28
Alignment explanation
Indices: 20343--20431 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 28
20333 ACTATTTTCA
* *
20343 TATTTACTTAAATTA-ATAATTAAGTTAA-
1 TATTTA-TTTAATTATATAATTAA-ATAAT
* * *
20371 TATTTAATT--TTATATCATAAAATAAT
1 TATTTATTTAATTATATAATTAAATAAT
20397 TATTTATTTAATTATATAATTAAATAAT
1 TATTTATTTAATTATATAATTAAATAAT
*
20425 TAATTAT
1 TATTTAT
20432 ACTATTCATA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
25 6 0.12
26 14 0.29
27 1 0.02
28 27 0.56
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (28 bp):
TATTTATTTAATTATATAATTAAATAAT
Found at i:21023 original size:49 final size:49
Alignment explanation
Indices: 20970--21073 Score: 108
Period size: 48 Copynumber: 2.1 Consensus size: 49
20960 AAATTATCCA
* * * *
20970 AATAATTAATTTAATTAGACTATAT-AT-TATTAATTATTATTAA-AACATT
1 AATAATAAATTT-ATTAAACAATATCATGTA-TAAATATTATTAATAA-ATT
21019 AATAA-AAATTTATTAAACAATATCATGTATAAATATTATTAATTAAATT
1 AATAATAAATTTATTAAACAATATCATGTATAAATATTATTAA-TAAATT
21068 AATAAT
1 AATAAT
21074 GAATAATCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
47 10 0.22
48 19 0.41
49 15 0.33
50 2 0.04
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (49 bp):
AATAATAAATTTATTAAACAATATCATGTATAAATATTATTAATAAATT
Found at i:21989 original size:9 final size:8
Alignment explanation
Indices: 21977--22033 Score: 53
Period size: 9 Copynumber: 6.9 Consensus size: 8
21967 TTTATTATAT
21977 TAATATTTA
1 TAATA-TTA
21986 TAATATTA
1 TAATATTA
*
21994 CTAATAAT-
1 -TAATATTA
22002 TAATATTA
1 TAATATTA
* *
22010 TTATAATA
1 TAATATTA
22018 TAATAATTA
1 TAAT-ATTA
22027 TAATATT
1 TAATATT
22034 TTAAAAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
7 6 0.15
8 15 0.38
9 18 0.46
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (8 bp):
TAATATTA
Found at i:22007 original size:16 final size:16
Alignment explanation
Indices: 21984--22031 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
21974 TATTAATATT
21984 TATAATATTACTAATAA
1 TATAATATTA-TAATAA
*
22001 T-TAATATTATTATAA
1 TATAATATTATAATAA
22016 TATAATAATTATAATA
1 TATAAT-ATTATAATA
22032 TTTTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 6 0.22
16 12 0.44
17 9 0.33
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TATAATATTATAATAA
Found at i:22892 original size:14 final size:14
Alignment explanation
Indices: 22875--22901 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22865 TCTATTTATA
22875 TATTATATTTATTG
1 TATTATATTTATTG
22889 TATTATATTTATT
1 TATTATATTTATT
22902 AAACAATGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (14 bp):
TATTATATTTATTG
Found at i:22938 original size:13 final size:14
Alignment explanation
Indices: 22911--22939 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22901 TAAACAATGA
22911 AAATTAATATTAAT
1 AAATTAATATTAAT
22925 AAATTAAT-TTAAT
1 AAATTAATATTAAT
22938 AA
1 AA
22940 GAATAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATTAATATTAAT
Found at i:23079 original size:19 final size:17
Alignment explanation
Indices: 23057--23091 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
23047 ATATAAATAT
23057 TTAATTATATTTATTAATC
1 TTAATT-TATTT-TTAATC
23076 TTAATTTATTTTTAAT
1 TTAATTTATTTTTAAT
23092 TAATAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTAATTTATTTTTAATC
Found at i:23152 original size:17 final size:18
Alignment explanation
Indices: 23108--23163 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
23098 TTAGATTACT
*
23108 TTATTAATATATAATATAA
1 TTATTAATAAATAAT-TAA
23127 -TATTAAT-AATAGATTAA
1 TTATTAATAAATA-ATTAA
23144 TTATT-ATAAATAATTAA
1 TTATTAATAAATAATTAA
23161 TTA
1 TTA
23164 CAATTATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 16 0.48
18 17 0.52
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TTATTAATAAATAATTAA
Found at i:23352 original size:18 final size:18
Alignment explanation
Indices: 23331--23372 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
23321 ATTATTATAT
*
23331 TATATTAAACTTAATTAA
1 TATAATAAACTTAATTAA
* *
23349 TATAATCAATTTAATTAA
1 TATAATAAACTTAATTAA
23367 T-TAATA
1 TATAATA
23373 TTGAATATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
TATAATAAACTTAATTAA
Found at i:23399 original size:21 final size:21
Alignment explanation
Indices: 23375--23416 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23365 AATTAATATT
23375 GAATATTAAAATAAATAAATA
1 GAATATTAAAATAAATAAATA
* *
23396 GAATATTTAAATAATTAAATA
1 GAATATTAAAATAAATAAATA
23417 ATATTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
GAATATTAAAATAAATAAATA
Found at i:24764 original size:20 final size:20
Alignment explanation
Indices: 24707--24765 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
24697 AAAATATAAA
24707 TTAATATTAAATAAGTAATTAT
1 TTAATATTAAA-AA-TAATTAT
* * *
24729 ATAATA-TATTATATAATTAT
1 TTAATATTA-AAAATAATTAT
24749 TTAATATTAAAAATAAT
1 TTAATATTAAAAATAAT
24766 ACAATATTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
20 18 0.62
21 5 0.17
22 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
TTAATATTAAAAATAATTAT
Found at i:24962 original size:10 final size:10
Alignment explanation
Indices: 24947--24976 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
24937 TTATTTATGA
24947 TAAATATTAT
1 TAAATATTAT
24957 TAAATATTAT
1 TAAATATTAT
24967 T-AATATTAT
1 TAAATATTAT
24976 T
1 T
24977 TAACGATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TAAATATTAT
Found at i:25169 original size:13 final size:14
Alignment explanation
Indices: 25150--25182 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
25140 ATATTTATTA
*
25150 AATTTAAGTATAAT
1 AATTTAACTATAAT
25164 -ATTTAACTATAAT
1 AATTTAACTATAAT
25177 AATTTA
1 AATTTA
25183 TTAAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (14 bp):
AATTTAACTATAAT
Found at i:25234 original size:10 final size:11
Alignment explanation
Indices: 25199--25244 Score: 51
Period size: 10 Copynumber: 4.2 Consensus size: 11
25189 ATATATTCTT
25199 ATTATATAATTA
1 ATTAT-TAATTA
*
25211 ATTTAGTAATTA
1 A-TTATTAATTA
25223 ATTATT-ATTA
1 ATTATTAATTA
25233 A-TATTAATTA
1 ATTATTAATTA
25243 AT
1 AT
25245 AATATCCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
9 4 0.14
10 10 0.34
11 4 0.14
12 8 0.28
13 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
ATTATTAATTA
Found at i:26398 original size:30 final size:28
Alignment explanation
Indices: 26363--26477 Score: 83
Period size: 30 Copynumber: 3.9 Consensus size: 28
26353 CTAAGTAATA
26363 ATTATTTAATTATATATAATTAAATAA-ACT
1 ATTATTTAATT-TATAT-ATT-AATAATACT
* *
26393 ATTATTAAATTTATATATTAATAATAGT
1 ATTATTTAATTTATATATTAATAATACT
* *
26421 -TTATTTAATATTTAAATATT-ATAATTAAAT
1 ATTATTT-A-ATTTATATATTAATAA-T-ACT
26451 ATTATATTAATTTATAAATATTAATAA
1 ATTAT-TTAATTTAT--ATATTAATAA
26478 CTGAATTAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
27 10 0.14
28 10 0.14
29 16 0.23
30 17 0.25
31 5 0.07
32 7 0.10
33 4 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (28 bp):
ATTATTTAATTTATATATTAATAATACT
Found at i:26490 original size:63 final size:63
Alignment explanation
Indices: 26365--26500 Score: 147
Period size: 63 Copynumber: 2.1 Consensus size: 63
26355 AAGTAATAAT
* * *
26365 TATTTAATTATATATAATTAAATAAACTATTATTAAATTTATATATTAATAATAGTTTATTTAA
1 TATTTAAATATATATAATTAAAT-AACTATTATTAAATTTATATATTAATAATAATTAATTTAA
*
26429 TATTTAAATAT-TATAATTAAAT-ATTA-TATT-AATTTATAAATATTAATAACTGAATTAATTT
1 TATTTAAATATATATAATTAAATAACTATTATTAAATTTAT--ATATTAATAA-T-AATTAATTT
26490 AA
62 AA
26492 T-TGTTAAAT
1 TAT-TTAAAT
26501 TAAATATTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
59 7 0.11
60 4 0.06
61 13 0.21
62 2 0.03
63 27 0.43
64 10 0.16
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (63 bp):
TATTTAAATATATATAATTAAATAACTATTATTAAATTTATATATTAATAATAATTAATTTAA
Found at i:26500 original size:31 final size:28
Alignment explanation
Indices: 26358--26500 Score: 87
Period size: 29 Copynumber: 4.8 Consensus size: 28
26348 TATGACTAAG
* *
26358 TAATAA-TTATTTAATTATATATAATTAAA
1 TAATAATTTATTTAATTTTAAAT-ATT-AA
* * *
26387 TAA-ACTATTA-TTAAATTTATATATTAA
1 TAATAAT-TTATTTAATTTTAAATATTAA
*
26414 TAATAGTTTATTTAATATTTAAATATT-A
1 TAATAATTTATTTAAT-TTTAAATATTAA
26442 TAATTAAATATTATATTAATTTATAAATATTAA
1 TAA-T-AAT-TTAT-TTAATTT-TAAATATTAA
*
26475 TAACTGAATTAATTTAATTGTTAAAT
1 TAA-T-AATTTATTTAATT-TTAAAT
26501 TAAATATTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
27 8 0.09
28 14 0.15
29 23 0.25
30 5 0.05
31 17 0.18
32 17 0.18
33 8 0.09
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (28 bp):
TAATAATTTATTTAATTTTAAATATTAA
Found at i:26807 original size:30 final size:32
Alignment explanation
Indices: 26732--26793 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
26722 TTATAATATT
26732 GTTAATTATTAATT-AT-ATAGATTAATTAATAA
1 GTTAA-TA-TAATTCATAATAGATTAATTAATAA
26764 GTTAATATAATTCATAATAGATTATATTAA
1 GTTAATATAATTCATAATAGATTA-ATTAA
26794 ATTAATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 5 0.19
31 4 0.15
32 13 0.48
33 5 0.19
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (32 bp):
GTTAATATAATTCATAATAGATTAATTAATAA
Found at i:27156 original size:23 final size:23
Alignment explanation
Indices: 27144--27202 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 23
27134 AATTTAAATA
27144 TAAATTATT-AATTATTAAATTAT
1 TAAATTATTAAATTATT-AATTAT
*
27167 TAAATTATT-AATGATT-A-TAT
1 TAAATTATTAAATTATTAATTAT
*
27187 TAATTTATTAATATTA
1 TAAATTATTAA-ATTA
27203 ATAAATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 11 0.35
21 2 0.06
22 3 0.10
23 15 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TAAATTATTAAATTATTAATTAT
Found at i:27164 original size:15 final size:14
Alignment explanation
Indices: 27123--27203 Score: 62
Period size: 15 Copynumber: 5.6 Consensus size: 14
27113 TTAATTTAAC
27123 TAATA-TAAATTAATT
1 TAATATTAAATT-A-T
27138 TAA-ATATAAATTAT
1 TAATAT-TAAATTAT
27152 TAATTATTAAATTAT
1 TAA-TATTAAATTAT
*
27167 TAA-ATTATTAATGAT
1 TAATATTA--AATTAT
*
27182 T-ATATTAATTTAT
1 TAATATTAAATTAT
27195 TAATATTAA
1 TAATATTAA
27204 TAAATATATA
Statistics
Matches: 55, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
13 9 0.16
14 13 0.24
15 25 0.45
16 8 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (14 bp):
TAATATTAAATTAT
Found at i:27166 original size:8 final size:8
Alignment explanation
Indices: 27144--27177 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
27134 AATTTAAATA
27144 TAAATTAT
1 TAAATTAT
27152 T-AATTAT
1 TAAATTAT
27159 TAAATTAT
1 TAAATTAT
27167 TAAATTAT
1 TAAATTAT
27175 TAA
1 TAA
27178 TGATTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TAAATTAT
Found at i:27187 original size:20 final size:20
Alignment explanation
Indices: 27144--27202 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 20
27134 AATTTAAATA
27144 TAAATTATTAATTATTAAATTAT
1 TAAATTATTAA-TATT--ATTAT
27167 TAAATTATTAATGATTA-TAT
1 TAAATTATTAAT-ATTATTAT
*
27187 TAATTTATTAATATTA
1 TAAATTATTAATATTA
27203 ATAAATATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 4 0.12
20 14 0.41
21 1 0.03
22 1 0.03
23 14 0.41
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TAAATTATTAATATTATTAT
Found at i:27194 original size:28 final size:27
Alignment explanation
Indices: 27156--27239 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 27
27146 AATTATTAAT
* * *
27156 TATTAAATTATTAAATTATTAATGATTA
1 TATTAATTTATT-AATTATTAATAAATA
27184 TATTAATTTATTAA-TATTAATAAATA
1 TATTAATTTATTAATTATTAATAAATA
27210 TA-T-ATTTATTGAATTAATTGATATAAATA
1 TATTAATTTATT-AATT-ATT-A-ATAAATA
27239 T
1 T
27240 TAAATAAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
24 7 0.15
25 3 0.06
26 13 0.27
27 5 0.10
28 12 0.25
29 8 0.17
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (27 bp):
TATTAATTTATTAATTATTAATAAATA
Found at i:27694 original size:180 final size:179
Alignment explanation
Indices: 27313--27793 Score: 470
Period size: 180 Copynumber: 2.7 Consensus size: 179
27303 TAATATCATT
* * * * **
27313 AATAATACTAATTTATTAATATTTAAAAAATTAATCAGT-AAGAGATTTAAAAAGTAAATTTGTT
1 AATAATACTAATTTAATAATATTTAAAAAATTAAT-AATCAAGAGATTTAAAAAATAAATCTAAT
* * * *
27377 TGCCAAACCATTTCAAATAGTTGACTATTTTAAAAATTATCTATTTCGAATTGTTATAACCTTTT
65 TGCCAAACCAGTTCAAATAGTTGACTATTATAAAAATTATCTATTTCAAATCGTTATAACCTTTT
* * **
27442 ATTTTAACATCAAACAATTGGTTCTGTTTATACTATTTTATTCAGAATAA
130 ATTTTAACATAAAACAATTGGTTCTGTTTATACAAGCTTATTCAGAATAA
* * * *
27492 AATAAAACTAATTTAATAATATTTTAAAAATTAATAATCAAGAAAATTAAAAAATAAATCTAATT
1 AATAATACTAATTTAATAATATTTAAAAAATTAATAATCAAGAGATTTAAAAAATAAATCTAATT
** * * * *
27557 GCTGAACTAGTTGAAATAGTTAAGACTA-TATAAATGATTATCTATTTCAAATCGTTATGACCTT
66 GCCAAACCAGTTCAAATAGTT--GACTATTATAAA-AATTATCTATTTCAAATCGTTATAACCTT
* ** * * * ** *
27621 TTCTTTTGTCGTAAAACAATT-GTTTTGTTTGTACAAGCTTATTTGGATTAA
128 TTATTTTAACATAAAACAATTGGTTCTGTTTATACAAGCTTATTCAGAATAA
* * **
27672 AATAATACTAATTTAATAATATTTCAAAAATTAATAA-CTAAGAGATTTAAAAAATAAATTTGTT
1 AATAATACTAATTTAATAATATTTAAAAAATTAATAATC-AAGAGATTTAAAAAATAAATCTAAT
* * * * *
27736 TACCAAATCAGTTCAAATGGTTAAGACTATTAGAATAAA-TATCTA-TTCAAATCATTAT
65 TGCCAAACCAGTTCAAATAGTT--GACTATTATAA-AAATTATCTATTTCAAATCGTTAT
27794 GATATTATTA
Statistics
Matches: 245, Mismatches: 50, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
178 2 0.01
179 81 0.33
180 110 0.45
181 51 0.21
182 1 0.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (179 bp):
AATAATACTAATTTAATAATATTTAAAAAATTAATAATCAAGAGATTTAAAAAATAAATCTAATT
GCCAAACCAGTTCAAATAGTTGACTATTATAAAAATTATCTATTTCAAATCGTTATAACCTTTTA
TTTTAACATAAAACAATTGGTTCTGTTTATACAAGCTTATTCAGAATAA
Found at i:27830 original size:18 final size:18
Alignment explanation
Indices: 27809--27847 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27799 TATTAATAAA
27809 ATAATTAATATAAATA-TT
1 ATAATTAAT-TAAATAGTT
*
27827 ATAATTGATTAAATAGTT
1 ATAATTAATTAAATAGTT
27845 ATA
1 ATA
27848 CTAATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (18 bp):
ATAATTAATTAAATAGTT
Found at i:28394 original size:13 final size:11
Alignment explanation
Indices: 28355--28451 Score: 61
Period size: 11 Copynumber: 8.3 Consensus size: 11
28345 TAGGTAAGTC
*
28355 TATTTTCTTTT
1 TATTTTATTTT
* *
28366 TTTTTTTTTTT
1 TATTTTATTTT
28377 GTATTTTACATTTT
1 -TATTTT--ATTTT
28391 TATTTTATTTT
1 TATTTTATTTT
28402 TATTATTATTATT
1 TATT-TTATT-TT
* *
28415 GT-TTTTATATA
1 -TATTTTATTTT
*
28426 TATATATATTTT
1 TAT-TTTATTTT
*
28438 TCTTTTATTTT
1 TATTTTATTTT
28449 TAT
1 TAT
28452 CTTAGGTATT
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
10 1 0.02
11 29 0.44
12 21 0.32
13 10 0.15
14 5 0.08
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:28395 original size:6 final size:6
Alignment explanation
Indices: 28357--28451 Score: 52
Period size: 6 Copynumber: 16.0 Consensus size: 6
28347 GGTAAGTCTA
* * *
28357 TTTTCT TTTT-T TTTTTT TTTGTAT TTTACAT TTTTA- TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTT-TAT TTT-TAT TTTTAT TTTTAT TTTTAT
* * * * * * * *
28405 TATTAT TATTGT TTTTAT ATATAT ATATAT TTTT-C TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
28452 CTTAGGTATT
Statistics
Matches: 71, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
5 14 0.20
6 47 0.66
7 10 0.14
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:29407 original size:4 final size:4
Alignment explanation
Indices: 29400--29425 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
29390 GGTTTTTTTT
29400 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
29426 TTTTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:29479 original size:17 final size:15
Alignment explanation
Indices: 29466--29545 Score: 70
Period size: 17 Copynumber: 4.9 Consensus size: 15
29456 TTCTTTTATC
29466 TTTATTTTATTTTTATT
1 TTTATTTTA-TTTT-TT
*
29483 TTTGTTTTACTTTTCTT
1 TTTATTTTA-TTTT-TT
*
29500 TATTTTTTTATTTTTT
1 T-TTATTTTATTTTTT
*
29516 TATATTTTCACTTTTTT
1 TTTATTTT-A-TTTTTT
29533 TTTATTTTATTTT
1 TTTATTTTATTTT
29546 CTTTAAATAA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
15 9 0.17
16 5 0.09
17 32 0.60
18 7 0.13
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.80
Consensus pattern (15 bp):
TTTATTTTATTTTTT
Found at i:29500 original size:32 final size:35
Alignment explanation
Indices: 29458--29545 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 35
29448 ATTTAATATT
*
29458 CTTTTATCTTTATTTTATTTTTATTTT-TGTTTT-A
1 CTTTT-TCTTTATTTTATTTTTATTTTATATTTTCA
*
29492 C-TTTTCTTTATTTT-TTTATTTTTTTATATTTTCA
1 CTTTTTCTTTATTTTATTT-TTATTTTATATTTTCA
*
29526 CTTTTTTTTTATTTTATTTT
1 CTTTTTCTTTATTTTATTTT
29546 CTTTAAATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
31 3 0.07
32 16 0.35
33 8 0.17
34 3 0.07
35 13 0.28
36 3 0.07
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.78
Consensus pattern (35 bp):
CTTTTTCTTTATTTTATTTTTATTTTATATTTTCA
Found at i:29502 original size:27 final size:24
Alignment explanation
Indices: 29471--29550 Score: 81
Period size: 24 Copynumber: 3.2 Consensus size: 24
29461 TTATCTTTAT
29471 TTTATTTTTATTTTTGTTTTACTTTTC
1 TTTATTTTT-TTTTT-TTTTA-TTTTC
*
29498 TTTATTTTTTTATTTTTTTATATT-
1 TTTATTTTTTT-TTTTTTTATTTTC
* *
29522 TTCACTTTTTTTTTATTTTATTTTC
1 TTTA-TTTTTTTTTTTTTTATTTTC
29547 TTTA
1 TTTA
29551 AATAAAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
24 13 0.29
25 13 0.29
26 7 0.16
27 12 0.27
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.79
Consensus pattern (24 bp):
TTTATTTTTTTTTTTTTTATTTTC
Found at i:29711 original size:58 final size:58
Alignment explanation
Indices: 29562--29832 Score: 357
Period size: 58 Copynumber: 4.5 Consensus size: 58
29552 ATAAAATCCA
** *
29562 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
29620 AAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 -AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * *
29679 AAAAAAAGGTTTTCGAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*
29737 -AAAAAAGATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTATCAATTTTCCTTAAAAATAAATT
1 AAAAAAAG-GTTTTTGAGGAAAAGTTGAAAG---------TATCAATTTTCCTTAAAAATAAATT
29801 TTC
56 TTC
29804 -AAAAAAGGTTTTTTGAGGAAAAGTTGAAA
1 AAAAAAAGG-TTTTTGAGGAAAAGTTGAAA
29833 TCAAAAAAAG
Statistics
Matches: 190, Mismatches: 11, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
57 7 0.04
58 74 0.39
59 55 0.29
67 54 0.28
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (58 bp):
AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:29843 original size:32 final size:31
Alignment explanation
Indices: 29804--29863 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
29794 ATAAATTTTC
29804 AAAAAAGGTTTTTTGAGGAAAAGTTGAAATCA
1 AAAAAAGG-TTTTTGAGGAAAAGTTGAAATCA
29836 AAAAAAGGTTTTTGAGGAAAAGTTGAAA
1 AAAAAAGGTTTTTGAGGAAAAGTTGAAA
29864 GTATCAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAAAAGGTTTTTGAGGAAAAGTTGAAATCA
Found at i:29853 original size:156 final size:147
Alignment explanation
Indices: 29677--29979 Score: 430
Period size: 156 Copynumber: 2.0 Consensus size: 147
29667 AAATAAATTT
*
29677 TCAAAAAAAGGTTTTCGAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAA
1 TCAAAAAAAGGTTTTCGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAA
*
29742 AGATTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTATCAATTTTCCTTAAAAATAAATTTTCAA
66 AGA-TTTTTG-GGAAAAAGTTGAAAG---------TATCAATTTTCCTTAAAAATAAATTTTAAA
*
29806 AAAAGG-TTTTTTGAGGAAAAGTTGAAA
120 AAAAGGTTTTTTTGACGAAAAGTTGAAA
* * *
29833 TCAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCTAAAA
1 TCAAAAAAAGGTTTTCGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAA
*
29898 ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTAAAAAAAGGTTTTT
66 AGATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTAAAAAAAGGTTTTT
29963 TTGACGAAAAGTTGAAA
131 TTGACGAAAAGTTGAAA
29980 GTATCAATTT
Statistics
Matches: 138, Mismatches: 7, Indels: 13
0.87 0.04 0.08
Matches are distributed among these distances:
146 35 0.25
147 20 0.14
154 2 0.01
155 18 0.13
156 63 0.46
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (147 bp):
TCAAAAAAAGGTTTTCGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAA
AGATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTAAAAAAAGGTTTTT
TTGACGAAAAGTTGAAA
Found at i:29925 original size:57 final size:57
Alignment explanation
Indices: 29844--30168 Score: 431
Period size: 57 Copynumber: 5.6 Consensus size: 57
29834 CAAAAAAAGG
*
29844 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCTAAAAATA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATA
* *
29901 TTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTAAAAAAAGGTT
1 TTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA--TA
* * * * *
29960 TTTTTGACGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTCTAAAAAAATA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTT-TCAAAAAATA
*
30019 TTTTT-AGAGAAAAGTTGAAAGTATCAATTTTCC-TAAAAATAAATTTTCAAAAAAAGA
1 TTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAAATA
** * *
30076 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAGAATA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAA-AATA
*
30134 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
30169 GCACAAAGAC
Statistics
Matches: 236, Mismatches: 21, Indels: 21
0.85 0.08 0.08
Matches are distributed among these distances:
56 3 0.01
57 94 0.40
58 58 0.25
59 69 0.29
60 4 0.02
61 8 0.03
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (57 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATA
Found at i:29974 original size:116 final size:115
Alignment explanation
Indices: 29833--30168 Score: 507
Period size: 116 Copynumber: 2.9 Consensus size: 115
29823 AAAGTTGAAA
* * *
29833 TCAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCTAAAA
1 TCAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTCTAAAA
29898 ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
66 ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* *
29948 T-AAAAAAAGGTTTTTTTGACGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTCTAA
1 TCAAAAAAAGG--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTCT--
*
30012 AAAAATATTTTT-AGAGAAAAGTTGAAAGTATCAATTTTCC-TAAAAATAAATTT
62 AAAAATATTTTTGGGA-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* * *
30065 TCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAG
1 TCAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTCTAAA-
*
30130 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
65 AATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTT
30169 GCACAAAGAC
Statistics
Matches: 199, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
114 12 0.06
115 34 0.17
116 93 0.47
117 16 0.08
118 44 0.22
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (115 bp):
TCAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTCTAAAA
ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
Found at i:33084 original size:20 final size:20
Alignment explanation
Indices: 33059--33111 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
33049 AATGCTATAA
33059 GTGAAGAACAGGAGCGCCAT
1 GTGAAGAACAGGAGCGCCAT
33079 GTGAAGAACAGGAGCGCCAT
1 GTGAAGAACAGGAGCGCCAT
33099 GTGAAGAA-AGGAG
1 GTGAAGAACAGGAG
33112 TGGCAGATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.38, C:0.15, G:0.38, T:0.09
Consensus pattern (20 bp):
GTGAAGAACAGGAGCGCCAT
Found at i:38565 original size:9 final size:9
Alignment explanation
Indices: 38551--38584 Score: 54
Period size: 8 Copynumber: 4.0 Consensus size: 9
38541 ATACTATGCT
38551 TGAAAAAAA
1 TGAAAAAAA
38560 TG-AAAAAA
1 TGAAAAAAA
38568 T-AAAAAAA
1 TGAAAAAAA
38576 TGAAAAAAA
1 TGAAAAAAA
38585 AAAGTGAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 14 0.61
9 9 0.39
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (9 bp):
TGAAAAAAA
Found at i:38574 original size:16 final size:15
Alignment explanation
Indices: 38553--38587 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
38543 ACTATGCTTG
38553 AAAAAAATGAAAAAA
1 AAAAAAATGAAAAAA
38568 TAAAAAAATGAAAAAA
1 -AAAAAAATGAAAAAA
38584 AAAA
1 AAAA
38588 GTGAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.86, C:0.00, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAAAAATGAAAAAA
Found at i:39640 original size:41 final size:41
Alignment explanation
Indices: 39595--39899 Score: 425
Period size: 41 Copynumber: 7.4 Consensus size: 41
39585 ATGATTGTCA
39595 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
39636 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTTTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
39677 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCC-CTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
39717 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
39758 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *** *
39799 AGGAGCAATTTATTTTTCCAAAGTTGTTAAGCCTCTGATTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
* * * * * * *
39841 AAGAGCCATTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAG
1 AGGAGCAATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
39883 AAGAGCCATTTA-TTTTC
1 AGGAGCAATTTACTTTTC
39900 CAACATTTTT
Statistics
Matches: 248, Mismatches: 13, Indels: 7
0.93 0.05 0.03
Matches are distributed among these distances:
40 43 0.17
41 136 0.55
42 64 0.26
43 5 0.02
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:39741 original size:81 final size:82
Alignment explanation
Indices: 39595--39902 Score: 429
Period size: 81 Copynumber: 3.7 Consensus size: 82
39585 ATGATTGTCA
*
39595 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
*
39660 GTGGTGCCTTTGTTTAG
66 GTGGTGCCTCTGTTTAG
39677 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCC-CTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
39741 GTGGTGCCTCTGTTTAG
66 GTGGTGCCTCTGTTTAG
*
39758 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTCCAAAGT
* *** *
39823 TGTTAAGCCTCTGATTAG
65 CGTGGTGCCTCTGTTTAG
* * * * * * * * * *
39841 AAGAGCCATTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGAAGAGCCATTTATTTTCCAA
1 AGGAGCAATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAA
39903 CATTTTTATT
Statistics
Matches: 206, Mismatches: 17, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
81 79 0.38
82 52 0.25
83 41 0.20
84 34 0.17
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (82 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
GTGGTGCCTCTGTTTAG
Found at i:39816 original size:122 final size:123
Alignment explanation
Indices: 39595--39822 Score: 422
Period size: 122 Copynumber: 1.9 Consensus size: 123
39585 ATGATTGTCA
*
39595 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
*
39660 GTGGTGCCTTTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCCTGTTTAG
66 GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCCTGTTTAG
39717 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
*
39782 GTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGT
66 GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGT
39823 TGTTAAGCCT
Statistics
Matches: 102, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
122 96 0.94
123 6 0.06
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (123 bp):
AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCCTGTTTAG
Found at i:39963 original size:43 final size:41
Alignment explanation
Indices: 39907--39987 Score: 117
Period size: 43 Copynumber: 1.9 Consensus size: 41
39897 TTCCAACATT
* *
39907 TTTATTTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGTCA
1 TTTATTTTCCAAAGTCGTTGAACCTCTGATTAAAGGAGTCA
*
39948 TTTATGTTTCTCAAAGTCGTTGAACCTCTGCTTAAAGGAG
1 TTTAT-TTTC-CAAAGTCGTTGAACCTCTGATTAAAGGAG
39988 CTTTGATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 5 0.14
42 4 0.11
43 26 0.74
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (41 bp):
TTTATTTTCCAAAGTCGTTGAACCTCTGATTAAAGGAGTCA
Found at i:40181 original size:5 final size:5
Alignment explanation
Indices: 40173--40268 Score: 76
Period size: 5 Copynumber: 18.8 Consensus size: 5
40163 TCTATTTTCT
40173 TTTTA -TTT- TTTTA TTTTTA TTTT- TTTGTA TTTTACA TTTTA TTTTTA
1 TTTTA TTTTA TTTTA -TTTTA TTTTA TTT-TA TTTT--A TTTTA -TTTTA
* *
40220 TTTTA TTTTA TTATTA TTATTG TTTT- TTTTA TTTT- TTTTC TTTTA TTTT
1 TTTTA TTTTA TT-TTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
40269 TATGTTAGGT
Statistics
Matches: 78, Mismatches: 2, Indels: 22
0.76 0.02 0.22
Matches are distributed among these distances:
4 17 0.22
5 33 0.42
6 23 0.29
7 5 0.06
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:40181 original size:6 final size:6
Alignment explanation
Indices: 40180--40271 Score: 59
Period size: 6 Copynumber: 15.2 Consensus size: 6
40170 TCTTTTTATT
* *
40180 TTTTTA TTTTTA -TTTT- TTTGTA -TTTTA CATTTTA TTTTTA -TTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA
* *
40225 TTTTATTA TTATTA TTGTTT- TTTTTA TTTTTTT TCTTTTA TTTTTA T
1 -TTT-TTA TTTTTA TT-TTTA TTTTTA -TTTTTA T-TTTTA TTTTTA T
40272 GTTAGGTATT
Statistics
Matches: 68, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
5 19 0.28
6 25 0.37
7 21 0.31
8 3 0.04
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:40205 original size:10 final size:9
Alignment explanation
Indices: 40167--40268 Score: 53
Period size: 9 Copynumber: 10.4 Consensus size: 9
40157 GGTAAGTCTA
*
40167 TTTTCTTTT
1 TTTTATTTT
*
40176 TATTTTTTTAT
1 T-TTTATTT-T
40187 TTTTATTTT
1 TTTTATTTT
40196 TTTGTATTTT
1 TTT-TATTTT
40206 ACATTTTATTTT
1 ---TTTTATTTT
40218 TATTT-TATTT
1 T-TTTAT-TTT
* *
40228 TATTATTAT
1 TTTTATTTT
* *
40237 TATTGTTTT
1 TTTTATTTT
40246 TTTTATTTT
1 TTTTATTTT
*
40255 TTTTCTTTT
1 TTTTATTTT
40264 ATTTT
1 -TTTT
40269 TATGTTAGGT
Statistics
Matches: 74, Mismatches: 9, Indels: 19
0.73 0.09 0.19
Matches are distributed among these distances:
9 33 0.45
10 30 0.41
11 2 0.03
12 6 0.08
13 3 0.04
ACGTcount: A:0.15, C:0.03, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTTATTTT
Found at i:40212 original size:28 final size:29
Alignment explanation
Indices: 40181--40258 Score: 97
Period size: 28 Copynumber: 2.7 Consensus size: 29
40171 CTTTTTATTT
40181 TTTTATTTTTATTTTTTTGTATT-TTA-CA
1 TTTTATTTTTATTTTTTT-TATTATTATCA
*
40209 TTTTATTTTTATTTTATTTTATTATTATTA
1 TTTTATTTTTATTTT-TTTTATTATTATCA
*
40239 TTGTTTTTTTTATTTTTTTT
1 TT-TTATTTTTATTTTTTTT
40259 CTTTTATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
28 19 0.43
29 6 0.14
30 7 0.16
31 12 0.27
ACGTcount: A:0.17, C:0.01, G:0.03, T:0.79
Consensus pattern (29 bp):
TTTTATTTTTATTTTTTTTATTATTATCA
Found at i:40405 original size:22 final size:20
Alignment explanation
Indices: 40375--40440 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
40365 AGATTATATG
40375 TTATATGTTATTTAATTTTAAT
1 TTATATGTTATTT-ATTTT-AT
*
40397 TTATCTGTTAATTT-TTTTAT
1 TTATATGTT-ATTTATTTTAT
*
40417 TTATAT-TTATTTGATTTTTT
1 TTATATGTTATTT-ATTTTAT
40437 TTAT
1 TTAT
40441 TTCTTTGATT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 4 0.11
19 2 0.05
20 16 0.42
21 4 0.11
22 8 0.21
23 4 0.11
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.70
Consensus pattern (20 bp):
TTATATGTTATTTATTTTAT
Found at i:41337 original size:5 final size:5
Alignment explanation
Indices: 41309--41408 Score: 80
Period size: 5 Copynumber: 19.4 Consensus size: 5
41299 TAGATTAGGA
* * *
41309 TTATT TAATA TTATT TTATCT TTATT TTATTT TTATTT TTGTT TTACTT
1 TTATT TTATT TTATT TTAT-T TTATT TTA-TT TTA-TT TTATT TTA-TT
* *
41358 TTTTT TTATT TTA-T TTATT TTCACTT TTATT TTGTT TTA-- TTATT TTATT
1 TTATT TTATT TTATT TTATT TT-A-TT TTATT TTATT TTATT TTATT TTATT
41407 TT
1 TT
41409 CTTTAAATAA
Statistics
Matches: 77, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
3 3 0.04
4 4 0.05
5 45 0.58
6 21 0.27
7 4 0.05
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:41338 original size:16 final size:16
Alignment explanation
Indices: 41319--41408 Score: 85
Period size: 17 Copynumber: 5.4 Consensus size: 16
41309 TTATTTAATA
*
41319 TTATTTTATCTTTATT
1 TTATTTTATTTTTATT
*
41335 TTATTTTTATTTTTGTT
1 TTA-TTTTATTTTTATT
41352 TTACTTTT-TTTTTATT
1 TTA-TTTTATTTTTATT
*
41368 TTA-TTTATTTTCACTT
1 TTATTTTATTTTTA-TT
*
41384 TTATTTTGTTTTATTATT
1 TTATTTT-ATTT-TTATT
41402 TTATTTT
1 TTATTTT
41409 CTTTAAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
14 3 0.05
15 5 0.08
16 18 0.30
17 21 0.34
18 12 0.20
19 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (16 bp):
TTATTTTATTTTTATT
Found at i:41344 original size:22 final size:22
Alignment explanation
Indices: 41319--41408 Score: 80
Period size: 22 Copynumber: 4.0 Consensus size: 22
41309 TTATTTAATA
*
41319 TTATTTTATCTTTATTTTATTT
1 TTATTTTATTTTTATTTTATTT
41341 TTATTTT-TGTTTTACTTTT-TTT
1 TTATTTTAT-TTTTA-TTTTATTT
*
41363 TTATTTTA--TTTATTTTCACTT
1 TTATTTTATTTTTATTTT-ATTT
*
41384 TTATTTTGTTTTATTATTTTATTT
1 TTATTTT-ATTT-TTATTTTATTT
41408 T
1 T
41409 CTTTAAATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
19 4 0.07
20 4 0.07
21 10 0.18
22 21 0.38
23 4 0.07
24 5 0.09
25 7 0.13
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (22 bp):
TTATTTTATTTTTATTTTATTT
Found at i:41402 original size:13 final size:13
Alignment explanation
Indices: 41317--41408 Score: 52
Period size: 12 Copynumber: 7.1 Consensus size: 13
41307 GATTATTTAA
41317 TATTATTTTATCTT
1 TATTATTTTAT-TT
41331 TATTTTATTTT-TATT
1 TA--TTATTTTAT-TT
* *
41346 T-TTGTTTTACTT
1 TATTATTTTATTT
41358 T-TT-TTTTATTT
1 TATTATTTTATTT
*
41369 TATTTATTTTCA-CT
1 TA-TTATTTT-ATTT
*
41383 T-TTATTTTGTTT
1 TATTATTTTATTT
41395 TATTATTTTATTT
1 TATTATTTTATTT
41408 T
1 T
41409 CTTTAAATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
11 8 0.13
12 20 0.33
13 13 0.21
14 8 0.13
15 5 0.08
16 7 0.11
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.77
Consensus pattern (13 bp):
TATTATTTTATTT
Found at i:41486 original size:59 final size:59
Alignment explanation
Indices: 41423--41711 Score: 373
Period size: 67 Copynumber: 4.7 Consensus size: 59
41413 AAATAAAATC
** * *
41423 CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTT
**
41482 CAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGT
1 CAAAAAAAATATTTTT--GG----G--GAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGT
41547 TT
58 TT
* * * *
41549 CTAAAAAAATATTTTTAGGGAAAAGTTGAAAGTTTCAACTTTTCCTCGAAATTAAGGTTT
1 CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCCTCGAAATTAAAGTTT
*
41609 CCAAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTT
1 -CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTT
*
41669 C-AAAAGAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
41712 CTACACAAAG
Statistics
Matches: 201, Mismatches: 19, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
58 40 0.20
59 33 0.16
60 40 0.20
61 37 0.18
65 2 0.01
67 49 0.24
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (59 bp):
CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTT
Found at i:41601 original size:60 final size:57
Alignment explanation
Indices: 41509--41711 Score: 316
Period size: 60 Copynumber: 3.4 Consensus size: 57
41499 AGGAAAAGTT
41509 GAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCTAAAAAAATATTTTTAGG
1 GAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC-AAAAAAATATTTTT-GG
* *
41568 GAAAAGTTGAAAGTTTCAACTTTTCCTCGAAATTAAGGTTTCCAAAAAAAATATTTTTGG
1 GAAAAGTTGAAAGTATCAA-TTTTCCTCGAAATTAAAGTTT-C-AAAAAAATATTTTTGG
*
41628 GAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAGAATATTTTTGGG
1 G-AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAAAATATTTTT-GG
41687 GAAAAGTTGAAAGTATCAATTTTCC
1 GAAAAGTTGAAAGTATCAATTTTCC
41712 CTACACAAAG
Statistics
Matches: 134, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
58 37 0.28
59 22 0.16
60 43 0.32
61 32 0.24
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.34
Consensus pattern (57 bp):
GAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAAAATATTTTTGG
Found at i:43377 original size:22 final size:22
Alignment explanation
Indices: 43347--43396 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
43337 GTTTATTCAA
*
43347 AATAATATAATACTAATTTATT
1 AATATTATAATACTAATTTATT
43369 AATATTATAATACTAATTTATT
1 AATATTATAATACTAATTTATT
43391 AATATT
1 AATATT
43397 CTAAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (22 bp):
AATATTATAATACTAATTTATT
Found at i:43532 original size:203 final size:203
Alignment explanation
Indices: 43172--43577 Score: 507
Period size: 203 Copynumber: 2.0 Consensus size: 203
43162 TCAGAATAAA
* * *
43172 ATAATATTAATTTATTAAAATTCAAAAATTAATAACTTAAAGATTTAAAAAATAAATTTGTTTAT
1 ATAATACTAATTTATTAAAATTCAAAAATTAATAACTTAAAGATTTAAAAAATAAATATGTTTAC
** * * * * * *
43237 CAAGTGAATTCAAATAGTTATGACTACTTAAATAATTATTTTATTTCAAATTGTTATGATATTTT
66 CAAGACAATTCAAATAGTCATGACCACTTAAATAATTATTCTATTTCAAATCGTTAGGACATTTT
** *
43302 GATTTTTCATAAAACAATAGTTTCTATTCATACAAGTTTATTCAAAATAATATAATACTAAT-TT
131 GATTTTTCATAAAACAATAGTTTCTATTCATACAAAATTATTCAAAATAAAATAATACT-ATGTT
43366 ATTAATATT
195 ATTAATATT
* * ** *
43375 ATAATACTAATTTATTAATATTCTAAAAATTAATAAGTTGGAGATTTAAATAATAAATATGTTTA
1 ATAATACTAATTTATTAAAATTC-AAAAATTAATAACTTAAAGATTTAAAAAATAAATATGTTTA
* *
43440 CCAA-ACAAGTTCAAATAGTCATGTCCATTTAAACT-ATTA-TCTATTTCAAATCGTTAGGACAT
65 CCAAGACAA-TTCAAATAGTCATGACCACTTAAA-TAATTATTCTATTTCAAATCGTTAGGACAT
* * * *
43502 TTTG-TTTTGTCATAAAATAATTGTTTCTATTCATACAAAATTATTTAGAATAAAATAATACTAT
128 TTTGATTTT-TCATAAAACAATAGTTTCTATTCATACAAAATTATTCAAAATAAAATAATACTAT
43566 GTTATTAATATT
192 GTTATTAATATT
43578 TTGAAAATTA
Statistics
Matches: 173, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
202 6 0.03
203 103 0.60
204 63 0.36
205 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.43
Consensus pattern (203 bp):
ATAATACTAATTTATTAAAATTCAAAAATTAATAACTTAAAGATTTAAAAAATAAATATGTTTAC
CAAGACAATTCAAATAGTCATGACCACTTAAATAATTATTCTATTTCAAATCGTTAGGACATTTT
GATTTTTCATAAAACAATAGTTTCTATTCATACAAAATTATTCAAAATAAAATAATACTATGTTA
TTAATATT
Found at i:43662 original size:16 final size:17
Alignment explanation
Indices: 43630--43662 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
43620 GACCAGTTCA
43630 AATAGTTATGACTATTTG
1 AATAGTTAT-ACTATTTG
43648 AATAGTTAT-CTATTT
1 AATAGTTATACTATTT
43663 CAAATTGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (17 bp):
AATAGTTATACTATTTG
Found at i:43842 original size:14 final size:14
Alignment explanation
Indices: 43801--43834 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
43791 TTGAGTTTAA
*
43801 TAATTATTA-CTAT
1 TAATTATAATCTAT
43814 TAATTATAATCTAT
1 TAATTATAATCTAT
43828 TAATTAT
1 TAATTAT
43835 CAATTATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATTATAATCTAT
Found at i:43925 original size:19 final size:18
Alignment explanation
Indices: 43903--43987 Score: 68
Period size: 19 Copynumber: 4.6 Consensus size: 18
43893 TATTAATTAA
43903 ATTATAATCATATTATAAT
1 ATTATAAT-ATATTATAAT
*
43922 ATTATGATTATATTATAATT
1 ATTAT-AATATATTATAA-T
* *
43942 CATTTTAATAATATTATTAT
1 -ATTATAAT-ATATTATAAT
43962 -TTATAAT-TATTATTAAT
1 ATTATAATATATTA-TAAT
43979 A-TATAATAT
1 ATTATAATAT
43988 TAATATAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
16 5 0.09
17 9 0.17
18 7 0.13
19 14 0.26
20 6 0.11
21 12 0.23
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (18 bp):
ATTATAATATATTATAAT
Found at i:43972 original size:16 final size:16
Alignment explanation
Indices: 43893--43989 Score: 53
Period size: 16 Copynumber: 6.1 Consensus size: 16
43883 TATTAGTTAA
*
43893 TATTAATTA-AATTAT
1 TATTATTTATAATTAT
* *
43908 AATCATATTATAA-TAT
1 TATTAT-TTATAATTAT
*
43924 TATGA-TTAT-ATTAT
1 TATTATTTATAATTAT
*
43938 AATTCATTT-TAATAATAT
1 TATT-ATTTATAAT--TAT
43956 TATTATTTATAATTAT
1 TATTATTTATAATTAT
*
43972 TATTAATATATAA-TAT
1 TATT-ATTTATAATTAT
43988 TA
1 TA
43990 ATATAAATGT
Statistics
Matches: 63, Mismatches: 9, Indels: 19
0.69 0.10 0.21
Matches are distributed among these distances:
13 1 0.02
14 9 0.14
15 5 0.08
16 25 0.40
17 13 0.21
18 10 0.16
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (16 bp):
TATTATTTATAATTAT
Found at i:44045 original size:28 final size:29
Alignment explanation
Indices: 43963--44052 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 29
43953 TATTATTATT
*
43963 TATAATTATTATTAATATA-TAATATTAA
1 TATAATTATTATTAATATATTAAAATTAA
* *
43991 TATAAATGTTATTAATATAACTT-AAATTAA
1 TATAATTATTATTAATAT-A-TTAAAATTAA
*
44021 TA-AATTATTATTATTATATTAAAA-TAA
1 TATAATTATTATTAATATATTAAAATTAA
44048 T-TAAT
1 TATAAT
44053 ATTTAATAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
27 9 0.18
28 20 0.39
29 13 0.25
30 8 0.16
31 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (29 bp):
TATAATTATTATTAATATATTAAAATTAA
Found at i:44745 original size:18 final size:17
Alignment explanation
Indices: 44714--44747 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44704 ACTATCAATA
44714 AATTAAATTAAATTTTT
1 AATTAAATTAAATTTTT
*
44731 AATTATAATTTAATTTT
1 AATTA-AATTAAATTTT
44748 ATCTATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTAAATTAAATTTTT
Found at i:44971 original size:15 final size:15
Alignment explanation
Indices: 44953--44992 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
44943 TAACATGAAT
*
44953 AATAATATTATTATC
1 AATAATATAATTATC
*
44968 AATAATATAATTATT
1 AATAATATAATTATC
44983 AA-AATATAAT
1 AATAATATAAT
44993 ATATAGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAATATAATTATC
Found at i:45059 original size:29 final size:28
Alignment explanation
Indices: 45027--45082 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
45017 AACAAATTAT
* *
45027 TAATTTATTATTATAAACAATATTAATAA
1 TAATTTAATAATATAAACAA-ATTAATAA
*
45056 TAATTTAATAATATAAATAAATTAATA
1 TAATTTAATAATATAAACAAATTAATA
45083 TTATAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
TAATTTAATAATATAAACAAATTAATAA
Found at i:45074 original size:17 final size:17
Alignment explanation
Indices: 45054--45088 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45044 CAATATTAAT
*
45054 AATAATTTAATAATATA
1 AATAAATTAATAATATA
*
45071 AATAAATTAATATTATA
1 AATAAATTAATAATATA
45088 A
1 A
45089 TATACAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATAAATTAATAATATA
Found at i:45774 original size:15 final size:14
Alignment explanation
Indices: 45748--45778 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
45738 TAATAAGCTA
45748 ATATTTTATATATT
1 ATATTTTATATATT
45762 ATATTTATATATATT
1 ATATTT-TATATATT
45777 AT
1 AT
45779 TATATATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATATTTTATATATT
Found at i:45811 original size:18 final size:18
Alignment explanation
Indices: 45774--45822 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
45764 ATTTATATAT
* *
45774 ATTATTATAT-ATAGTTA
1 ATTATAATATAATAATTA
45791 ATTGA-AATATAATAATTA
1 ATT-ATAATATAATAATTA
45809 ATTATAATATAATA
1 ATTATAATATAATA
45823 CTAATCTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (18 bp):
ATTATAATATAATAATTA
Found at i:46239 original size:13 final size:13
Alignment explanation
Indices: 46218--46253 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
46208 GAATAAGTAC
*
46218 TTTAATTTAATTA
1 TTTATTTTAATTA
46231 TTTATTTTAATTA
1 TTTATTTTAATTA
*
46244 TATATTTTAA
1 TTTATTTTAA
46254 ATTTATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTATTTTAATTA
Found at i:46334 original size:20 final size:19
Alignment explanation
Indices: 46288--46343 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 19
46278 TAATTATATA
* *
46288 GAATAATTATATATTTACTT
1 GAAT-ATTATATATATAATT
46308 GAA-ATTATATATATAATT
1 GAATATTATATATATAATT
46326 GAATTATTATATTATATA
1 GAA-TATTATA-TATATA
46344 TTTAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 16 0.52
20 9 0.29
21 6 0.19
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (19 bp):
GAATATTATATATATAATT
Found at i:47282 original size:25 final size:25
Alignment explanation
Indices: 47254--47304 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
47244 ATAATTAATG
* *
47254 TTAATATA-TATAATTATTTATATAA
1 TTAATATATTAAAATTATATA-ATAA
47279 TTAATATATTAAAATTATATAATAA
1 TTAATATATTAAAATTATATAATAA
47304 T
1 T
47305 AAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAATATATTAAAATTATATAATAA
Found at i:47441 original size:23 final size:23
Alignment explanation
Indices: 47412--47460 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
47402 TTAATAATAA
47412 TTATAAATCAATTAATACTTAAT
1 TTATAAATCAATTAATACTTAAT
47435 TTATAAATCAATTAATACTTAAT
1 TTATAAATCAATTAATACTTAAT
47458 TTA
1 TTA
47461 ATTAAGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (23 bp):
TTATAAATCAATTAATACTTAAT
Done.