Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168479.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_78, 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: 117733
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.41
Warning! 1000 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:231 original size:21 final size:22
Alignment explanation
Indices: 187--240 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
177 ATAAGTTATT
* * *
187 ATTATTTTATAATAATATTATA
1 ATTATTATATTATAATACTATA
209 ATTATTATATTAT-ATACTATA
1 ATTATTATATTATAATACTATA
*
230 ATTGTTATATT
1 ATTATTATATT
241 TGAATTATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTATTATATTATAATACTATA
Found at i:408 original size:26 final size:25
Alignment explanation
Indices: 379--427 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
369 ATTTAATTTA
379 TATAAAATTTATAAATAT-TTTAATAC
1 TATAAAATTT-T-AATATGTTTAATAC
405 TATAAAATTTTAATATGTTTAAT
1 TATAAAATTTTAATATGTTTAAT
428 TAATTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.23
25 7 0.32
26 10 0.45
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
TATAAAATTTTAATATGTTTAATAC
Found at i:416 original size:16 final size:17
Alignment explanation
Indices: 388--419 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
378 ATATAAAATT
388 TATAAATATTTTAATAC
1 TATAAATATTTTAATAC
405 TATAAA-ATTTTAATA
1 TATAAATATTTTAATA
420 TGTTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TATAAATATTTTAATAC
Found at i:543 original size:19 final size:20
Alignment explanation
Indices: 484--545 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
474 ATATAATCTC
* *
484 TTATATTTAATATTATTATAG
1 TTATATATAATATAATTA-AG
*
505 -TATTATATAATATCATTAAG
1 TTA-TATATAATATAATTAAG
525 TTATATATAA-ATAATTAAG
1 TTATATATAATATAATTAAG
544 TT
1 TT
546 TCAAATCATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 10 0.28
20 11 0.31
21 15 0.42
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (20 bp):
TTATATATAATATAATTAAG
Found at i:908 original size:28 final size:28
Alignment explanation
Indices: 876--933 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
866 TTAAATTAAC
*
876 TAATAAGTTT-ATTAAATAATCATTAA-AA
1 TAAT-AGTTTAATT-AATAATAATTAATAA
*
904 TAATATTTTAATTAATAATAATTAATAA
1 TAATAGTTTAATTAATAATAATTAATAA
932 TA
1 TA
934 TACATTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (28 bp):
TAATAGTTTAATTAATAATAATTAATAA
Found at i:1098 original size:26 final size:26
Alignment explanation
Indices: 1069--1129 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
1059 ATTTTATATT
1069 AATAATTATTATGAATTAA-ATTAATA
1 AATAATTATTATGAA-TAAGATTAATA
* * *
1095 AATAAATAATATTAATAAGATTAATA
1 AATAATTATTATGAATAAGATTAATA
1121 AATAATTAT
1 AATAATTAT
1130 ATTTATTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (26 bp):
AATAATTATTATGAATAAGATTAATA
Found at i:1117 original size:9 final size:8
Alignment explanation
Indices: 1085--1123 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
1075 TATTATGAAT
1085 TAAATTAA
1 TAAATTAA
*
1093 TAAATAAA
1 TAAATTAA
1101 TAATATTAA
1 TAA-ATTAA
1110 TAAGATTAA
1 TAA-ATTAA
1119 TAAAT
1 TAAAT
1124 AATTATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 12 0.44
9 15 0.56
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (8 bp):
TAAATTAA
Found at i:1543 original size:13 final size:14
Alignment explanation
Indices: 1522--1561 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
1512 AAATAGTTGT
1522 ATATTTATATTATA
1 ATATTTATATTATA
*
1536 AT-TTTATAATATA
1 ATATTTATATTATA
1549 ATATATTATATTA
1 ATAT-TTATATTA
1562 AGGTAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 12 0.55
14 3 0.14
15 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATTTATATTATA
Found at i:1702 original size:21 final size:22
Alignment explanation
Indices: 1650--1705 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
1640 CAATAATTTC
1650 TAATATATTATTTTAATATATAA
1 TAATA-ATTATTTTAATATATAA
*
1673 TAACTTAATTATTTTAGTATATAA
1 TAA--TAATTATTTTAATATATAA
1697 -AATAATTAT
1 TAATAATTAT
1706 AATTATTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 7 0.23
23 5 0.17
24 16 0.53
25 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TAATAATTATTTTAATATATAA
Found at i:1708 original size:27 final size:24
Alignment explanation
Indices: 1656--1713 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 24
1646 TTTCTAATAT
*
1656 ATTATTTTAATATATAATAACTTA
1 ATTATTTTAATATAAAATAACTTA
*
1680 ATTATTTTAGTATATAAAATAATTATA
1 ATTATTTTA--ATATAAAATAACT-TA
1707 ATTATTT
1 ATTATTT
1714 GTTTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 9 0.31
26 11 0.38
27 9 0.31
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
ATTATTTTAATATAAAATAACTTA
Found at i:3097 original size:13 final size:13
Alignment explanation
Indices: 3071--3120 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
3061 TTAATTAAAT
*
3071 AAATTGATAATTA
1 AAATTAATAATTA
*
3084 AAATTAATATTTA
1 AAATTAATAATTA
3097 AAATT--TAATTA
1 AAATTAATAATTA
3108 ATAATTAAATAAT
1 A-AATT-AATAAT
3121 AATACTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.20
12 4 0.13
13 16 0.53
15 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (13 bp):
AAATTAATAATTA
Found at i:3219 original size:13 final size:14
Alignment explanation
Indices: 3187--3220 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
3177 GTTTGTTTTA
3187 AATAA-TAATTACT
1 AATAATTAATTACT
3200 AATAATTAATTA-T
1 AATAATTAATTACT
3213 AATAATTA
1 AATAATTA
3221 GGATTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
AATAATTAATTACT
Found at i:3477 original size:17 final size:18
Alignment explanation
Indices: 3446--3502 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 18
3436 TTTAAATATT
* *
3446 TTATTTTATTTTAATTAA
1 TTATATTATTATAATTAA
3464 TTATA-TATTATAATTAAA
1 TTATATTATTATAATT-AA
*
3482 TTAGATTATTAT--TTAA
1 TTATATTATTATAATTAA
3498 TTATA
1 TTATA
3503 ACAATTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 6 0.18
17 11 0.33
18 10 0.30
19 6 0.18
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TTATATTATTATAATTAA
Found at i:3782 original size:39 final size:40
Alignment explanation
Indices: 3739--3815 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
3729 GCTTAATCAT
* * *
3739 AATATAA-T-TTATCTAATAATTGTGGTTTAATTAATAAAA
1 AATATAATTATTATCCAATAATTG-CGTTTAATAAATAAAA
3778 AATATAATTATTATCCAATAATTGCGTTTAATAAATAA
1 AATATAATTATTATCCAATAATTGCGTTTAATAAATAA
3816 GCATATTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 7 0.21
40 13 0.39
41 13 0.39
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (40 bp):
AATATAATTATTATCCAATAATTGCGTTTAATAAATAAAA
Found at i:4531 original size:181 final size:179
Alignment explanation
Indices: 4224--4630 Score: 462
Period size: 181 Copynumber: 2.3 Consensus size: 179
4214 TTGATTAATA
* * * * *
4224 AGAAACAATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATG
1 AGAAACAATTGTTTTATAACAAAACAAAA-GTCATAACAATTTGAAAGAAATAATAGTTCAAATC
* * ** ** * *
4289 GACATGACTATTTGAACTGGTTTGCTAAACTAATTAATTTTTCAAATCTTGAACTTATTAATTTT
65 AACATAACTATTTGAACTACTCAGCTAAACAAATTAATTTTTCAAATCTTGAACCTATTAA-TTT
* * * *
4354 TAGAATGTTAA-TATATTAGTATTATTTTATTCCAAATAAACTTGTCTGCAT
129 TAGAATATTAATTA-ATTAGAATTATTTTATTCCAAATAAACTTGTCTGAAC
4405 AGAAACAATTGTTTTATAACAAAACAAAAGATCATAACAATTTGAAAGAAATAATTA-TTCAAA-
1 AGAAACAATTGTTTTATAACAAAACAAAAG-TCATAACAATTTGAAAGAAATAA-TAGTTCAAAT
* * **
4468 CAATCATAACTATTTGAACTTACTCAG-TAAACAAATTTATTTTTTAAATCTTTTACCTATTAAT
64 CAA-CATAACTATTTGAAC-TACTCAGCTAAACAAATTAATTTTTCAAATCTTGAACCTATTAAT
* ** *
4532 TTTGGAATATTAATTAATTAGAATTATTTTATTCCAAATAAGTTTGTTTGAAC
127 TTTAGAATATTAATTAATTAGAATTATTTTATTCCAAATAAACTTGTCTGAAC
* * *
4585 AGAAACAATTGGTTTATGACAAAACAAATAGTCATAACTATTTGAA
1 AGAAACAATTGTTTTATAACAAAACAAA-AGTCATAACAATTTGAA
4631 TGTGTTCAGA
Statistics
Matches: 192, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
180 85 0.44
181 102 0.53
182 5 0.03
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (179 bp):
AGAAACAATTGTTTTATAACAAAACAAAAGTCATAACAATTTGAAAGAAATAATAGTTCAAATCA
ACATAACTATTTGAACTACTCAGCTAAACAAATTAATTTTTCAAATCTTGAACCTATTAATTTTA
GAATATTAATTAATTAGAATTATTTTATTCCAAATAAACTTGTCTGAAC
Found at i:4664 original size:49 final size:49
Alignment explanation
Indices: 4610--4711 Score: 204
Period size: 49 Copynumber: 2.1 Consensus size: 49
4600 ATGACAAAAC
4610 AAATAGTCATAACTATTTGAATGTGTTCAGAAAATAGCTTTATTGTCTA
1 AAATAGTCATAACTATTTGAATGTGTTCAGAAAATAGCTTTATTGTCTA
4659 AAATAGTCATAACTATTTGAATGTGTTCAGAAAATAGCTTTATTGTCTA
1 AAATAGTCATAACTATTTGAATGTGTTCAGAAAATAGCTTTATTGTCTA
4708 AAAT
1 AAAT
4712 TATACTTATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (49 bp):
AAATAGTCATAACTATTTGAATGTGTTCAGAAAATAGCTTTATTGTCTA
Found at i:6401 original size:22 final size:22
Alignment explanation
Indices: 6375--6424 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
6365 CTAATACATT
6375 TTAATAATTTAAATTACGATAA
1 TTAATAATTTAAATTACGATAA
* * * **
6397 TTAATTATTTTATTTTGGATAA
1 TTAATAATTTAAATTACGATAA
6419 TTAATA
1 TTAATA
6425 CAAATAAATC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (22 bp):
TTAATAATTTAAATTACGATAA
Found at i:6727 original size:21 final size:22
Alignment explanation
Indices: 6683--6728 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
6673 AAATTGATTA
*
6683 TTAAAATTAAATAAAATAATAT
1 TTAAAATTAAATAAAATAAGAT
* *
6705 TTAAAA-TAAATACAATTAGAT
1 TTAAAATTAAATAAAATAAGAT
6726 TTA
1 TTA
6729 TAACTAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAAAATTAAATAAAATAAGAT
Found at i:6966 original size:15 final size:14
Alignment explanation
Indices: 6929--6970 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
6919 TAAAATAATT
6929 CTGATTAATTTTTA
1 CTGATTAATTTTTA
6943 --GATTTAATTATTTA
1 CTGA-TTAATT-TTTA
6957 CTGATTAATTTTTA
1 CTGATTAATTTTTA
6971 TAATTATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
12 2 0.08
13 6 0.25
14 8 0.33
15 6 0.25
16 2 0.08
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.57
Consensus pattern (14 bp):
CTGATTAATTTTTA
Found at i:6974 original size:24 final size:26
Alignment explanation
Indices: 6929--6978 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
6919 TAAAATAATT
6929 CTGATTAATTTTTAGATTTAATTATTTA
1 CTGATTAATTTTTA-A-TTAATTATTTA
6957 CTGATTAATTTTT-A-TAATTATT
1 CTGATTAATTTTTAATTAATTATT
6979 AAAATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 8 0.36
26 1 0.05
28 13 0.59
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (26 bp):
CTGATTAATTTTTAATTAATTATTTA
Found at i:7561 original size:9 final size:9
Alignment explanation
Indices: 7496--7614 Score: 50
Period size: 10 Copynumber: 12.2 Consensus size: 9
7486 AAATAGATTA
*
7496 ATAATTAAA
1 ATAATTAAT
7505 ATAATTATTATT
1 ATAATTA--A-T
7517 ATAATATAAT
1 ATAAT-TAAT
7527 ATATATTAAT
1 ATA-ATTAAT
7537 -TAAATTAA-
1 AT-AATTAAT
7545 ATTAAATTAAT
1 A-T-AATTAAT
7556 ATAATTTATAT
1 ATAA-TTA-AT
7567 ATAATATAAT
1 ATAAT-TAAT
7577 AT-ATATAAT
1 ATAAT-TAAT
*
7586 ATTAACTAAT
1 A-TAATTAAT
*
7596 -T-ATTAGAA
1 ATAATTA-AT
7604 ATAATTAAT
1 ATAATTAAT
7613 AT
1 AT
7615 TAACAATTTA
Statistics
Matches: 88, Mismatches: 5, Indels: 34
0.69 0.04 0.27
Matches are distributed among these distances:
7 3 0.03
8 2 0.02
9 27 0.31
10 35 0.40
11 14 0.16
12 5 0.06
13 2 0.02
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.45
Consensus pattern (9 bp):
ATAATTAAT
Found at i:7579 original size:14 final size:15
Alignment explanation
Indices: 7496--7587 Score: 61
Period size: 14 Copynumber: 6.1 Consensus size: 15
7486 AAATAGATTA
*
7496 ATAATTA-AAATAATT
1 ATAATTATATATAA-T
*
7511 ATTATTATAATATAAT
1 ATAATTAT-ATATAAT
7527 ATATATTA-AT-TAA-
1 ATA-ATTATATATAAT
*
7540 ATTAAATTAAAT-TAAT
1 A-T-AATTATATATAAT
7556 ATAATTTATATATAAT
1 ATAA-TTATATATAAT
7572 ATAA-TATATATAAT
1 ATAATTATATATAAT
7586 AT
1 AT
7588 TAACTAATTA
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
13 1 0.02
14 22 0.34
15 20 0.31
16 12 0.19
17 9 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATAATTATATATAAT
Found at i:7707 original size:19 final size:19
Alignment explanation
Indices: 7679--7737 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
7669 AATGTAAATA
*
7679 TAATACTATTATATTATAT
1 TAATAATATTATATTATAT
7698 TAATAATATTATAATTAT-T
1 TAATAATATTAT-ATTATAT
*
7717 T-ATAATATATCTATTA-AT
1 TAATAATAT-TATATTATAT
7735 TAA
1 TAA
7738 ATTATAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
18 13 0.38
19 16 0.47
20 5 0.15
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATAATATTATATTATAT
Found at i:7851 original size:17 final size:17
Alignment explanation
Indices: 7806--7856 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
7796 ATTAATATTG
7806 AATTAT-TAA-TATTTAT
1 AATTATATAATTA-TTAT
7822 AATTAGTTATAATTATTAT
1 AATTA--TATAATTATTAT
7841 AATTATATAATTATTA
1 AATTATATAATTATTA
7857 AACATTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.16
17 11 0.35
18 1 0.03
19 12 0.39
20 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
AATTATATAATTATTAT
Found at i:8305 original size:16 final size:18
Alignment explanation
Indices: 8284--8318 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
8274 GTTAATTTAC
8284 AATAATA-TTAT-ATTGT
1 AATAATATTTATAATTGT
8300 AATAATATTTATAATTGT
1 AATAATATTTATAATTGT
8318 A
1 A
8319 TACAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
AATAATATTTATAATTGT
Found at i:9105 original size:3 final size:3
Alignment explanation
Indices: 9088--9132 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
9078 TGATATTATA
* *
9088 AAT AAA AAT -AT AAT AAT AAT AAT AAT AAT AAT AAA AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
9133 TATATTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:9340 original size:18 final size:19
Alignment explanation
Indices: 9311--9361 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
9301 AATTGTAAAA
9311 TAATTATAAATAT-TTAATT
1 TAATT-TAAATATGTTAATT
* *
9330 TATTTTAAATATGTTATTT
1 TAATTTAAATATGTTAATT
9349 TAATTTAATATAT
1 TAATTTAA-ATAT
9362 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:9498 original size:20 final size:20
Alignment explanation
Indices: 9435--9502 Score: 57
Period size: 23 Copynumber: 3.1 Consensus size: 20
9425 ATAATATTAC
*
9435 AATATAATTATATTATATAAGT
1 AATAAAATTAT-TTATATAA-T
*
9457 TAT-AAATATATTTAAATAATAAT
1 AATAAAAT-TATTT--AT-ATAAT
9480 AATAAAATTATTTATATAAT
1 AATAAAATTATTTATATAAT
9500 AAT
1 AAT
9503 TATTTATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
20 8 0.21
21 7 0.18
22 5 0.13
23 10 0.26
24 8 0.21
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (20 bp):
AATAAAATTATTTATATAAT
Found at i:9519 original size:18 final size:15
Alignment explanation
Indices: 9481--9513 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9471 AATAATAATA
9481 ATAA-AATTATTTAT
1 ATAATAATTATTTAT
9495 ATAATAATTATTTAT
1 ATAATAATTATTTAT
9510 -TAAT
1 ATAAT
9514 TAATAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATAATAATTATTTAT
Found at i:9868 original size:30 final size:31
Alignment explanation
Indices: 9824--9883 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
9814 TTATAACAAT
9824 TAAATTTAATAAATTACTTA-TTAAACTTTAA
1 TAAATTTAATAAATTACTTATTTAAA-TTTAA
* *
9855 TAAA-TTAGTAAATTATTTATTTAAATTTA
1 TAAATTTAATAAATTACTTATTTAAATTTA
9884 TCCAAGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (31 bp):
TAAATTTAATAAATTACTTATTTAAATTTAA
Found at i:10386 original size:25 final size:25
Alignment explanation
Indices: 10358--10417 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
10348 AATAAATATT
*
10358 TATTATAATTATTAT-ATATTTTACA
1 TATTATAATTATTATAATAGTTTA-A
*
10383 TATTAATAA-TGTTATAATAGTTTAA
1 TATT-ATAATTATTATAATAGTTTAA
10408 TAGTTATAAT
1 TA-TTATAAT
10418 AATGACAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (25 bp):
TATTATAATTATTATAATAGTTTAA
Found at i:10726 original size:13 final size:13
Alignment explanation
Indices: 10708--10732 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10698 TATATCTATA
10708 TATATTATATATG
1 TATATTATATATG
10721 TATATTATATAT
1 TATATTATATAT
10733 CTTATTTATA
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:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TATATTATATATG
Found at i:10732 original size:15 final size:17
Alignment explanation
Indices: 10697--10730 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10687 ATAATTATAA
10697 ATATATCTATATATATT
1 ATATATCTATATATATT
*
10714 ATATATGTATATTATAT
1 ATATATCTATA-TATAT
10731 ATCTTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
ATATATCTATATATATT
Found at i:10946 original size:20 final size:20
Alignment explanation
Indices: 10908--10946 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10898 GTTAATTAAT
*
10908 TTATATAATAATATTACTAA
1 TTATATAATAATATAACTAA
10928 TTATA-AATAATCATAACTA
1 TTATATAATAAT-ATAACTA
10947 TAATTATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
TTATATAATAATATAACTAA
Found at i:11027 original size:16 final size:17
Alignment explanation
Indices: 10977--11028 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
10967 TATTAAGGAA
10977 AATTTTATA-AATATAT
1 AATTTTATATAATATAT
* * *
10993 ATTATTTATATTATGTAT
1 AAT-TTTATATAATATAT
11011 AATTTTATATAAT-TAT
1 AATTTTATATAATATAT
11027 AA
1 AA
11029 ACATAAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 7 0.24
17 15 0.52
18 7 0.24
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
AATTTTATATAATATAT
Found at i:11207 original size:23 final size:23
Alignment explanation
Indices: 11181--11244 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 23
11171 TACTTAATTA
11181 TTATTATAAGATATTATTAATA-T
1 TTATTATAA-ATATTATTAATAGT
11204 TTATT-TAAATTATATATTAATAGT
1 TTATTATAAA-TAT-TATTAATAGT
11228 TT-TTATAACTATATTAT
1 TTATTATAA--ATATTAT
11245 AAATTAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
21 1 0.03
22 6 0.17
23 15 0.43
24 9 0.26
25 3 0.09
26 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (23 bp):
TTATTATAAATATTATTAATAGT
Found at i:11720 original size:181 final size:180
Alignment explanation
Indices: 11350--11929 Score: 549
Period size: 181 Copynumber: 3.2 Consensus size: 180
11340 ATTAGCTATC
* * * *
11350 AATTATTTTATAACAAAACAAAAAGTAATAATAATTTGAAATATATAATTGTTCAAATAGT-ATA
1 AATTGTTTTATGACATAACAAAAGGTAATAATAATTTGAAATATATAATTGTTCAAATAGTCATA
* * * * * * * *
11414 A-TTTTTGAACTGGCTAGGTAAACAAAATTATTTTTTAAATCTCATACTTATTATTTTTTGAAAA
66 ACTATTTGAATTGGTTCGGCAAACAAATTTATTTTTTAAATCTCTTACTTATTATTTTTAGAAAA
* **
11478 TTAATAAATTCATTTTATTTTATTTTGAATAAGCTAGTATGAATTGAGAA
131 TTAATAAATTCATATTATTTTATTTTGAATAAGCTAGTATGAACAGAGAA
* * * ** * *
11528 AATTGTTTTATGATA-AGACAAAAGGTCATAACAATTTGAAATAGGTAATTGTTCATATAGTCTT
1 AATTGTTTTATGACATA-ACAAAAGGTAATAATAATTTGAAATATATAATTGTTCAAATAGTCAT
* * *
11592 AACTATTTGAATTAGTTCGGCAAACAAATTTATTTTTTAAATCCCTTAGTTATTAATTTTTAGAA
65 AACTATTTGAATTGGTTCGGCAAACAAATTTATTTTTTAAATCTCTTACTTATT-ATTTTTAGAA
* * * *
11657 TATTATTAGATT-AGTATTGTTTTATTTTGAATAAGCTTA-TATGAACAGA-AA
129 AATTAATAAATTCA-TATTATTTTATTTTGAATAAGC-TAGTATGAACAGAGAA
* * * * * *
11708 TAATTTTTTTATGACATAACAAAAGGTTATAATGATTTGAAGTATAAAATTGTTCAAACAGTCAT
1 -AATTGTTTTATGACATAACAAAAGGTAATAATAATTTGAAATATATAATTGTTCAAATAGTCAT
* *
11773 AACTATTTGAATTGGTTCGGCAAACAGATTCATTTTTTAAATCTCTTA-TTA--ATTTTT-GAAA
65 AACTATTTGAATTGGTTCGGCAAACAAATTTATTTTTTAAATCTCTTACTTATTATTTTTAGAAA
** * * *
11834 GATTAATAAATT-ATTATTATTTTATTTCAAATAATC-ATGTATGATA-AAAAAA
130 -ATTAATAAATTCA-TATTATTTTATTTTGAATAAGCTA-GTATGA-ACAGAGAA
* * **
11886 CAATTGTTATATGAGCA-AACAAAAGGTGATAACGATTTGAAATA
1 -AATTGTTTTATGA-CATAACAAAAGGTAATAATAATTTGAAATA
11930 ATATCTTATT
Statistics
Matches: 329, Mismatches: 59, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
175 1 0.00
176 3 0.01
177 42 0.13
178 88 0.27
179 5 0.02
180 47 0.14
181 140 0.43
182 3 0.01
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (180 bp):
AATTGTTTTATGACATAACAAAAGGTAATAATAATTTGAAATATATAATTGTTCAAATAGTCATA
ACTATTTGAATTGGTTCGGCAAACAAATTTATTTTTTAAATCTCTTACTTATTATTTTTAGAAAA
TTAATAAATTCATATTATTTTATTTTGAATAAGCTAGTATGAACAGAGAA
Found at i:12141 original size:20 final size:18
Alignment explanation
Indices: 12118--12187 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 18
12108 CTTTATTTAG
12118 TAATAATTTAAATTACTTAT
1 TAATAATTT-AATTA-TTAT
12138 TAATAA-TT-ATTATATAT
1 TAATAATTTAATTAT-TAT
*
12155 TAATAATTTTAATTAATTTT
1 TAATAA-TTTAATT-ATTAT
12175 TAAT-A-TTAATTAT
1 TAATAATTTAATTAT
12188 ATATAATTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
16 3 0.07
17 19 0.43
19 5 0.11
20 15 0.34
21 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATAATTTAATTATTAT
Found at i:12159 original size:37 final size:37
Alignment explanation
Indices: 12118--12191 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
12108 CTTTATTTAG
*
12118 TAATAATTTAAATTACTTATTAATAATT-ATTATATAT
1 TAATAATTTAAATTAATTATTAAT-ATTAATTATATAT
* *
12155 TAATAATTTTAATTAATTTTTAATATTAATTATATAT
1 TAATAATTTAAATTAATTATTAATATTAATTATATAT
12192 AATTTGATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 3 0.09
37 30 0.91
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (37 bp):
TAATAATTTAAATTAATTATTAATATTAATTATATAT
Found at i:13364 original size:19 final size:20
Alignment explanation
Indices: 13314--13369 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 20
13304 TCCAAAATAA
13314 AAAATCAAATTCAATTAATTTT
1 AAAAT-AAATT-AATTAATTTT
13336 AATTATATAAATTAATT-ATTTT
1 AA--A-ATAAATTAATTAATTTT
*
13358 AAAATAATTTAA
1 AAAATAAATTAA
13370 AGAATTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
19 8 0.27
20 1 0.03
22 9 0.30
23 4 0.13
24 6 0.20
25 2 0.07
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAATAAATTAATTAATTTT
Found at i:13389 original size:21 final size:22
Alignment explanation
Indices: 13360--13407 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
13350 ATTATTTTAA
13360 AATAATTTAAAGAATTAAAT-T
1 AATAATTTAAAGAATTAAATAT
* *
13381 AATACTTTAAAGAATTATATAT
1 AATAATTTAAAGAATTAAATAT
13403 AATAA
1 AATAA
13408 AATTAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
AATAATTTAAAGAATTAAATAT
Found at i:14080 original size:22 final size:21
Alignment explanation
Indices: 14054--14101 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
14044 ATTTGTTTTG
14054 TTTAATTATATTATAATT-ATAT
1 TTTAATTATA-TA-AATTAATAT
14076 TTTAAATTATATAAATTAATAT
1 TTT-AATTATATAAATTAATAT
14098 TTTA
1 TTTA
14102 TAATTACTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.21
22 12 0.50
23 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTAATTATATAAATTAATAT
Found at i:14119 original size:22 final size:22
Alignment explanation
Indices: 14065--14133 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
14055 TTAATTATAT
*
14065 TATAATTATATTTTA-AATTA-
1 TATATTTATATTTTATAATTAC
*
14085 TATAAATTAATATTTTATAATTAC
1 TAT--ATTTATATTTTATAATTAC
*
14109 TATATTTATATTATATTAATTAC
1 TATATTTATATTTTA-TAATTAC
14132 TA
1 TA
14134 ATAAGCTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 3 0.08
22 20 0.50
23 14 0.35
24 3 0.08
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
TATATTTATATTTTATAATTAC
Found at i:14179 original size:18 final size:19
Alignment explanation
Indices: 14156--14200 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
14146 AACCATTAAG
*
14156 TTATTAAT-TATACTATAA
1 TTATTAATATATAATATAA
14174 TTATT-ATATATAATATAA
1 TTATTAATATATAATATAA
*
14192 ATATTAATA
1 TTATTAATA
14201 CACTTTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 18 0.78
19 3 0.13
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATTAATATATAATATAA
Found at i:14280 original size:12 final size:12
Alignment explanation
Indices: 14265--14318 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
14255 ATATAATAAC
14265 AATATTAATTAT
1 AATATTAATTAT
14277 AATATTAATTAT
1 AATATTAATTAT
*
14289 AA-ATTATTTAT
1 AATATTAATTAT
*
14300 AATTACT-ATTAT
1 AA-TATTAATTAT
14312 AATATTA
1 AATATTA
14319 TCTAATATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 13 0.37
12 20 0.57
13 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (12 bp):
AATATTAATTAT
Found at i:14356 original size:42 final size:42
Alignment explanation
Indices: 14290--14404 Score: 117
Period size: 42 Copynumber: 2.6 Consensus size: 42
14280 ATTAATTATA
* *
14290 AATTATTTATAATTACTATTATAATATTATCTAATATAATCGAT
1 AATTATATATAATTACTATAATAATATTA-CT-ATATAATCGAT
*
14334 AATTATATA-AATTA-TATAATAATATTACTATATAATAACAAT
1 AATTATATATAATTACTATAATAATATTACTATATAAT--CGAT
*
14376 AATTATTAATATAATTAATTATAATAATA
1 AATTA-T-ATATAATT-ACTATAATAATA
14405 ATATAAATAT
Statistics
Matches: 61, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
40 7 0.11
41 2 0.03
42 20 0.33
43 6 0.10
44 11 0.18
45 4 0.07
46 1 0.02
47 10 0.16
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (42 bp):
AATTATATATAATTACTATAATAATATTACTATATAATCGAT
Found at i:14365 original size:25 final size:24
Alignment explanation
Indices: 14337--14415 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 24
14327 AATCGATAAT
*
14337 TATATAAATTATATAATAATATTAC
1 TATAT-AATTATATAATAATATTAA
*
14362 TATATAA-TA-ACAATAATTATTAA
1 TATATAATTATATAATAA-TATTAA
*
14385 TATAATTAATTATAATAATAATATAAA
1 TAT-A-TAATTAT-ATAATAATATTAA
14412 TATA
1 TATA
14416 ACTATTATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
22 6 0.14
23 10 0.23
24 3 0.07
25 8 0.18
26 3 0.07
27 8 0.18
28 6 0.14
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (24 bp):
TATATAATTATATAATAATATTAA
Found at i:14491 original size:18 final size:19
Alignment explanation
Indices: 14470--14508 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
14460 TATTATTTAT
14470 TATTTAATAATTAA-ATAA
1 TATTTAATAATTAAGATAA
14488 TATTTAATAATTAAGATAA
1 TATTTAATAATTAAGATAA
14507 TA
1 TA
14509 AAACTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
TATTTAATAATTAAGATAA
Found at i:14875 original size:33 final size:32
Alignment explanation
Indices: 14837--14909 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 32
14827 AATATACTTA
14837 TTTAATTAAGAAT-ATA-ATAATAATTTATTATT
1 TTTAATTAAGAATCATATATAAT-A-TTATTATT
* *
14869 TATTAATTAATAATCATATATTATATTATTATT
1 T-TTAATTAAGAATCATATATAATATTATTATT
14902 TTTAATTA
1 TTTAATTA
14910 TAATATATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
32 8 0.22
33 20 0.56
34 4 0.11
35 4 0.11
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (32 bp):
TTTAATTAAGAATCATATATAATATTATTATT
Found at i:14879 original size:25 final size:26
Alignment explanation
Indices: 14851--14924 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 26
14841 ATTAAGAATA
*
14851 TAATAATAATTTATTAT-TTATTAAT
1 TAATAATAATATATTATATTATTAAT
* *
14876 TAATAATCATATATTATATTATTATTTT
1 TAATAATAATATATTATATTATTA--AT
*
14904 TAATTATAATATATT-TATTAT
1 TAATAATAATATATTATATTAT
14925 ATTATTTGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 15 0.37
26 6 0.15
27 6 0.15
28 14 0.34
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (26 bp):
TAATAATAATATATTATATTATTAAT
Found at i:14923 original size:32 final size:33
Alignment explanation
Indices: 14861--14930 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
14851 TAATAATAAT
14861 TTATTATTTATTAATTAATAATCATATATTATA
1 TTATTATTTATTAATTAATAATCATATATTATA
14894 TTATTATTT-TTAATT-ATAAT-ATATTTATTATA
1 TTATTATTTATTAATTAATAATCATA--TATTATA
14926 TTATT
1 TTATT
14931 TGTATATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
30 3 0.09
31 5 0.14
32 18 0.51
33 9 0.26
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (33 bp):
TTATTATTTATTAATTAATAATCATATATTATA
Found at i:15262 original size:35 final size:35
Alignment explanation
Indices: 15222--15290 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
15212 ATTAATTTTT
*
15222 TTATATGATATTATATAAA-AATATAAT-TTATAATA
1 TTATATAATATTAT-TAAACAAT-TAATATTATAATA
*
15257 TTATATAATTTTATTAAACAATTAATATTATAAT
1 TTATATAATATTATTAAACAATTAATATTATAAT
15291 TGTTTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 8 0.27
35 22 0.73
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (35 bp):
TTATATAATATTATTAAACAATTAATATTATAATA
Found at i:15322 original size:16 final size:16
Alignment explanation
Indices: 15301--15339 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15291 TGTTTTAATT
15301 ATATATAATAATATTA
1 ATATATAATAATATTA
* *
15317 ATATATTATTATATTA
1 ATATATAATAATATTA
*
15333 TTATATA
1 ATATATA
15340 TCATGTTAGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATAATAATATTA
Found at i:16861 original size:15 final size:15
Alignment explanation
Indices: 16831--16871 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
16821 CAAGGCCAAC
*
16831 ATATCAAATT-ATTA
1 ATATAAAATTAATTA
16845 ATATAAAATTAATTA
1 ATATAAAATTAATTA
*
16860 ATATAATATTAA
1 ATATAAAATTAA
16872 ATTCAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATAAAATTAATTA
Found at i:17127 original size:14 final size:15
Alignment explanation
Indices: 17079--17156 Score: 62
Period size: 14 Copynumber: 5.5 Consensus size: 15
17069 AATTACTTTA
17079 ATAAATTAGTATATT
1 ATAAATTAGTATATT
*
17094 AT-AATTAATAATAATT
1 ATAAATTAGT-AT-ATT
17110 ATAAATTAGTAT-TT
1 ATAAATTAGTATATT
* *
17124 ATAATTTACT-TATT
1 ATAAATTAGTATATT
17138 -T-AATTA-TATATT
1 ATAAATTAGTATATT
17150 -TAAATTA
1 ATAAATTA
17157 TAATATATTC
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
11 1 0.02
12 9 0.17
13 7 0.13
14 18 0.35
15 4 0.08
16 7 0.13
17 6 0.12
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (15 bp):
ATAAATTAGTATATT
Found at i:17174 original size:17 final size:16
Alignment explanation
Indices: 17143--17178 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
17133 TTATTTAATT
*
17143 ATATATTTAAATTATA
1 ATATATTCAAATTATA
17159 ATATATTCATAATTATA
1 ATATATTCA-AATTATA
17176 ATA
1 ATA
17179 ATTATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATATTCAAATTATA
Found at i:17751 original size:178 final size:174
Alignment explanation
Indices: 17288--17853 Score: 532
Period size: 178 Copynumber: 3.2 Consensus size: 174
17278 TATTATATAA
* * * * * * * *
17288 TATTGAACAATTGTATACTTCAAATTGTTATAACCTTTTGTTCTATCGTAAAACAACTATTTCTA
1 TATTTAACAATTGTGTATTTCAAATCGTTATGACCTTTTGTTTTATCATAAAACAAAT-TTTCTA
* * *
17353 TTCATAAAAGCTTATTCGAAATAAAATAATACTAATCTAATAATATTTTAAAAATTAATAACTAA
65 TTCATATAAGCTTATTCGAAATAAAATAATGCTAATCTATTAATATTTTAAAAA-T--TAA-TAA
* * * * * *
17418 GAGAATTAAAAATA-AATT-TATTTATCAAACCAGTTTAAAATATTTAAGAC
126 GAGATTTAAAAAAATAATTCTATTTA-CTAACCA-ATT-AAATAGTTATGAC
* * * * *
17468 TATAATAACAATTATGTATTTCAAAACGTTATGACTTTTTGTTTTATCATAAAACAAAATTTTCA
1 TAT-TTAACAATTGTGTATTTCAAATCGTTATGACCTTTTGTTTTATCATAAAAC-AAATTTTCT
* *
17533 ATTCATACT-AGCTTATTCAAAATAAAATAAAATG--AATCTATTAATATTTCAAAAATTAATAA
64 ATTCATA-TAAGCTTATTCGAAATAAAAT--AATGCTAATCTATTAATATTTTAAAAATTAATAA
*
17595 GAGATTTAAAAAAATAATTCTGTTTACCTAACCAATTCAAATAGTTATGAC
126 GAGATTTAAAAAAATAATTCTATTTA-CTAACCAATT-AAATAGTTATGAC
* * * *
17646 TATTTGAACAATTGTGTATTTTAAATCATTATGACCTTTTGTTTTGTCATAAAACAAATGTTTTT
1 TATTT-AACAATTGTGTATTTCAAATCGTTATGACCTTTTGTTTTATCATAAAACAAAT-TTTCT
* * * * * * *
17711 GTTCATATAAGTTTGTTCGGAATAAAGTAATGCTAATCTATTAATATTTTGAAAACTAATAAGAG
64 ATTCATATAAGCTTATTCGAAATAAAATAATGCTAATCTATTAATATTTTAAAAATTAATAAGAG
* * * *
17776 ATTT-AAAAAATAAATCTATTTATTAAATCAGTTAAATAGTTATGAC
129 ATTTAAAAAAATAATTCTATTTACT-AACCAATTAAATAGTTATGAC
* * *
17822 CATTTAACAAATTATTTATTTCAAATCGTTAT
1 TATTTAAC-AATTGTGTATTTCAAATCGTTAT
17854 TAATATAATT
Statistics
Matches: 317, Mismatches: 55, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
175 3 0.01
176 41 0.13
177 43 0.14
178 121 0.38
179 11 0.03
180 4 0.01
181 88 0.28
182 3 0.01
183 3 0.01
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.40
Consensus pattern (174 bp):
TATTTAACAATTGTGTATTTCAAATCGTTATGACCTTTTGTTTTATCATAAAACAAATTTTCTAT
TCATATAAGCTTATTCGAAATAAAATAATGCTAATCTATTAATATTTTAAAAATTAATAAGAGAT
TTAAAAAAATAATTCTATTTACTAACCAATTAAATAGTTATGAC
Found at i:17893 original size:19 final size:19
Alignment explanation
Indices: 17874--17911 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
17864 AATTTATTAT
17874 ATAATAACATAATAAATATA
1 ATAATAA-ATAATAAATATA
*
17894 ATAATAAATAATCAATAT
1 ATAATAAATAATAAATAT
17912 TGATAAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAATAAATAATAAATATA
Found at i:18811 original size:182 final size:180
Alignment explanation
Indices: 18384--18875 Score: 510
Period size: 182 Copynumber: 2.7 Consensus size: 180
18374 TTGAACTGTT
* * * * *
18384 TCAGTAAATAAATTTAGTTTTTAAA--T-CT-CTTATTAATTTTTAAAATATTAATAGATTAATA
1 TCAGTAAACAGATTTATTTTTTAAATCTCCTACTTATTAATTTTTAAAATATTAATAAATTAGTA
* ** * * *
18445 TTATTTTATTTTGAATAATTTTGCATGAACAGAAACAATTGTTTTATGACAAAAAAAAAGGTCAT
66 TTATTTTA-TTTAAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCAT
* * * ** * * * *
18510 AACCATTTGAAATAGATAATTGTTCAAATGGACATGACTATTTGGACTTAT
130 AACAATTTGAAATAAAAAATTGTTCAAACAGACATAACGATTTGGAATTAC
* * * * * * * *
18561 TTAGTAAATAGATTTATTTTTTAAATCTCCTACCTACTAACTTTCAAAGTATTAATCAATTAGTA
1 TCAGTAAACAGATTTATTTTTTAAATCTCCTACTTATTAATTTTTAAAATATTAATAAATTAGTA
* *
18626 TTATTTTATTCTAAATAAACTTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCAT
66 TTATTTTATT-TAAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCAT
*
18691 AACAATTTTGAAATAAAAAATTGTTCAAACAGTCATAACGATTT-GAATTAGC
130 AACAA-TTTGAAATAAAAAATTGTTCAAACAGACATAACGATTTGGAATTA-C
* ** *
18743 TCAGTAAACAGATTTA-TTTTTAAATTTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGT
1 TCAGTAAACAGATTTATTTTTTAAA-TCTCCTACTTATTAATTTTTAAAATATTAATAAATTAGT
* * ** * * *
18807 ATTATTTTGTTTCAAACATGCTTGTATGAATAGAAACAACTGGTTTATGACAAAACAAAGGGTCA
65 ATTATTTTATTT-AAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCA
18872 TAAC
129 TAAC
18876 TATGTGAACA
Statistics
Matches: 256, Mismatches: 50, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
177 22 0.09
179 1 0.00
180 4 0.02
181 97 0.38
182 132 0.52
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (180 bp):
TCAGTAAACAGATTTATTTTTTAAATCTCCTACTTATTAATTTTTAAAATATTAATAAATTAGTA
TTATTTTATTTAAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATA
ACAATTTGAAATAAAAAATTGTTCAAACAGACATAACGATTTGGAATTAC
Found at i:18986 original size:145 final size:146
Alignment explanation
Indices: 18748--19021 Score: 387
Period size: 145 Copynumber: 1.9 Consensus size: 146
18738 TTAGCTCAGT
18748 AAACAGATTTATTTTTAAATTTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATT
1 AAACAGATTTATTTTTAAA-TTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATT
** * *
18813 TTGTTTCAAACATGCTTGTATGAATAGAAACAACTGGTTTATGA-CAAAACAAAGGGTCATAACT
65 TTGACTCAAACATGCTTGTATGAATAGAAACAACTGGTTTAGGACCAAAACAAAAGGTCATAACT
18877 ATGTGAACATGTTTAGA
130 ATGTGAACATGTTTAGA
*
18894 AAACATATTTATTTTTTAAA-TTTTTACTTATTAATTTTTGAAATATTAATAAATTTA-TATTAT
1 AAACAGATTTA-TTTTTAAATTTTTTACTTATTAATTTTTGAAATATTAATAAA-TTAGTATTAT
* * * *
18957 TTT-ACTCAAA-ATAAGCTTGTTTGAATAGAAACAATTGTTTTAGGACCAAAACAAAATGTCATA
64 TTTGACTCAAACAT--GCTTGTATGAATAGAAACAACTGGTTTAGGACCAAAACAAAAGGTCATA
19020 AC
127 AC
19022 AATTGGAAAT
Statistics
Matches: 114, Mismatches: 9, Indels: 10
0.86 0.07 0.08
Matches are distributed among these distances:
143 2 0.02
144 5 0.04
145 69 0.61
146 30 0.26
147 8 0.07
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (146 bp):
AAACAGATTTATTTTTAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTT
TGACTCAAACATGCTTGTATGAATAGAAACAACTGGTTTAGGACCAAAACAAAAGGTCATAACTA
TGTGAACATGTTTAGA
Found at i:19086 original size:504 final size:502
Alignment explanation
Indices: 18115--19169 Score: 1197
Period size: 504 Copynumber: 2.1 Consensus size: 502
18105 AATGTTAAAA
* * * * *
18115 AATTAGTATTAATTTATTCTAAATAAACTTGTATAAATTGAAATAATTGTTTTGTGACTAAACAA
1 AATTAGTATTATTTTATTCTAAATAAACTTGTATGAATAGAAACAATTGTTTTGTGACAAAACAA
* ** * * * * * * * * * *
18180 AAGGTCAAAATGATCTGAAATAGATAATTATCCTAATAGTCTTAACTATTTGCATTGGTTCGGCA
66 AAGATCAAAACAATCTGAAATAAAAAATTATCCAAACAGTCATAACGATTTGAATTAGCTCAGCA
* *
18245 AACACATTTATTTTTTAAATTTCTTACTTACTAATTTTTGGAATATTATTAAATTAGTATTATTT
131 AACACATTTATTTTTTAAATTTCTTACTTACTAATTTTTGAAATATTAATAAATTAGTATTATTT
* * * *
18310 TAATATGAATAAGCTTATATAAAAAGAAACAATTGCTTTATGACAAAATAAAGATCATAACAATT
196 TAATATCAATAAGCTTATATAAAAAGAAACAACTGCTTTATGACAAAACAAAGATCATAACAATG
* * *
18375 TGAACTGTTTCAGTAAATAAATTTAGTTTTTAAATCTCTTATTAATTTTTAAAATATTAATAGAT
261 TGAACTGTTTCAGAAAACAAATTTAGTTTTTAAATCTCTTATTAATTTTTAAAATATTAATAAAT
* *** ** *
18440 TAATATTATTTTATTTTGAATAATTTTGCATGAACAGAAACAATTGTTTTATGACAAAAAAAAAG
326 TAATATTATTTTACTCAAAATAAGCTTGCATGAACAGAAACAATTGTTTTAGGACAAAAAAAAAG
* * * **
18505 GTCATAACCATTTGAAATAGATAATTGTTCAAATGGACATGACTATTTGGACTTATTTAGTAAAT
391 GTCATAACAATTGGAAATAGATAATAGTTCAAATGGACATGACTATTTAAACTTATTTAGTAAAT
* * *
18570 AGATTTATTTTTTAAATCTCCTACCTACTAACTTTCA-AAGTATTAATC
456 ACATAT-TTTTTTAAATCTCCAACCTACTAACTTTCAGAA-TATTAATC
18618 AATTAGTATTATTTTATTCTAAATAAACTTGTATGAATAGAAACAATTGTTTTAG-GACAAAACA
1 AATTAGTATTATTTTATTCTAAATAAACTTGTATGAATAGAAACAATTGTTTT-GTGACAAAACA
* * * *
18682 AAAGATCATAACAATTTTGAAATAAAAAATTGTTCAAACAGTCATAACGATTTGAATTAGCTCAG
65 AAAGATCAAAACAA-TCTGAAATAAAAAATTATCCAAACAGTCATAACGATTTGAATTAGCTCAG
* * * *
18747 TAAACAGATTTA-TTTTTAAATTTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTA
129 CAAACACATTTATTTTTTAAA-TTTCTTACTTACTAATTTTTGAAATATTAATAAATTAGTATTA
* * * * * * *
18811 TTTT-GTTTCAA-ACATGCTTGTATGAATAGAAACAACTGGTTTATGACAAAACAAAGGGTCATA
193 TTTTAATATCAATA-A-GCTTATATAAAAAGAAACAACTGCTTTATGACAAAACAAA-GATCATA
* * * * *
18874 ACTATGTGAACATGTTT-AGAAAACATATTTATTTTTTAAATTTTTACTTATTAATTTTTGAAAT
255 ACAATGTGAAC-TGTTTCAGAAAACAAATTTAGTTTTTAAA--TCT-CTTATTAATTTTTAAAAT
* ** *
18938 ATTAATAAATTTATATTATTTTACTCAAAATAAGCTTGTTTGAATAGAAACAATTGTTTTAGGAC
316 ATTAATAAATTAATATTATTTTACTCAAAATAAGCTTGCATGAACAGAAACAATTGTTTTAGGA-
* * *
19003 CAAAACAAAATGTCATAACAATTGGAAATAGATAATAGTTCAAATGGACATGACTATTTAAATTT
380 CAAAAAAAAAGGTCATAACAATTGGAAATAGATAATAGTTCAAATGGACATGACTATTTAAACTT
* * * * * * ** * * *
19068 GTTTGGTAAACA-ATTTTTTTTTAAATCTTCAACTTGTTAATTTTTAGAATATTAATT
445 ATTTAGTAAATACATATTTTTTTAAATCTCCAACCTACTAACTTTCAGAATATTAATC
* * *
19125 GATTAGTATTATTTTATTTTGAATAAACTTGTATGAATAGAAACA
1 AATTAGTATTATTTTATTCTAAATAAACTTGTATGAATAGAAACA
19170 TAAGTTTTTA
Statistics
Matches: 460, Mismatches: 80, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
502 1 0.00
503 80 0.17
504 125 0.27
505 34 0.07
506 5 0.01
507 74 0.16
508 75 0.16
509 66 0.14
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (502 bp):
AATTAGTATTATTTTATTCTAAATAAACTTGTATGAATAGAAACAATTGTTTTGTGACAAAACAA
AAGATCAAAACAATCTGAAATAAAAAATTATCCAAACAGTCATAACGATTTGAATTAGCTCAGCA
AACACATTTATTTTTTAAATTTCTTACTTACTAATTTTTGAAATATTAATAAATTAGTATTATTT
TAATATCAATAAGCTTATATAAAAAGAAACAACTGCTTTATGACAAAACAAAGATCATAACAATG
TGAACTGTTTCAGAAAACAAATTTAGTTTTTAAATCTCTTATTAATTTTTAAAATATTAATAAAT
TAATATTATTTTACTCAAAATAAGCTTGCATGAACAGAAACAATTGTTTTAGGACAAAAAAAAAG
GTCATAACAATTGGAAATAGATAATAGTTCAAATGGACATGACTATTTAAACTTATTTAGTAAAT
ACATATTTTTTTAAATCTCCAACCTACTAACTTTCAGAATATTAATC
Found at i:19846 original size:14 final size:14
Alignment explanation
Indices: 19827--19857 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19817 ATTTAATTTT
19827 AATATAATTAAGAA
1 AATATAATTAAGAA
*
19841 AATATAATTAATAA
1 AATATAATTAAGAA
19855 AAT
1 AAT
19858 TAAATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
AATATAATTAAGAA
Found at i:20137 original size:6 final size:6
Alignment explanation
Indices: 20126--20188 Score: 65
Period size: 6 Copynumber: 10.2 Consensus size: 6
20116 ATTAGAACAT
* * *
20126 TTATAA TTATAA TTATAA TTAAATA TTATAA -TATTA TAATAA TTAATAA
1 TTATAA TTATAA TTATAA TTATA-A TTATAA TTATAA TTATAA TT-ATAA
20175 TTAATAA TTATAA T
1 TT-ATAA TTATAA T
20189 ATTATAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
5 4 0.08
6 26 0.54
7 18 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TTATAA
Found at i:20160 original size:8 final size:8
Alignment explanation
Indices: 20143--20199 Score: 66
Period size: 8 Copynumber: 7.4 Consensus size: 8
20133 TATAATTATA
20143 ATTA-AAT
1 ATTATAAT
20150 ATTATAAT
1 ATTATAAT
20158 ATTATAAT
1 ATTATAAT
*
20166 AAT-TAAT
1 ATTATAAT
*
20173 AAT-TAAT
1 ATTATAAT
20180 AATTATAAT
1 -ATTATAAT
20189 ATTATAAT
1 ATTATAAT
20197 ATT
1 ATT
20200 TATTTGATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
7 15 0.33
8 26 0.58
9 4 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTATAAT
Found at i:20178 original size:31 final size:30
Alignment explanation
Indices: 20134--20202 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 30
20124 ATTTATAATT
20134 ATAATTATAATTAA-ATATTATAATATTATA
1 ATAATTATAATTAATA-ATTATAATATTATA
20164 ATAATTAATAATTAATAATTATAATATTATA
1 ATAATT-ATAATTAATAATTATAATATTATA
*
20195 ATATTTAT
1 ATAATTAT
20203 TTGATTAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
30 8 0.22
31 27 0.75
32 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
ATAATTATAATTAATAATTATAATATTATA
Found at i:20212 original size:39 final size:37
Alignment explanation
Indices: 20128--20199 Score: 119
Period size: 39 Copynumber: 1.9 Consensus size: 37
20118 TAGAACATTT
20128 ATAATT-ATAATTATAATTAAATATTATAATATTATA
1 ATAATTAATAATTATAATTAAATATTATAATATTATA
20164 ATAATTAATAATTAATAATTATAATATTATAATATT
1 ATAATTAATAATT-ATAATTA-AATATTATAATATT
20200 TATTTGATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
36 6 0.18
37 6 0.18
38 7 0.21
39 14 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (37 bp):
ATAATTAATAATTATAATTAAATATTATAATATTATA
Found at i:20453 original size:118 final size:118
Alignment explanation
Indices: 20221--20457 Score: 447
Period size: 118 Copynumber: 2.0 Consensus size: 118
20211 TATTGTTTAG
* *
20221 TACGAGGAAACTAATCGATAATTATAAAACATAATTGCTAATAAAATTTAAACATATGTTCTTTA
1 TACGAGGAAACTAATCGATAATTATAAAACATAATTGCTAATAAAATTTAAACAGATGTTATTTA
20286 TTATATTATAATATAACATTTATAATAAAATCATACAATTATTATTTTAAATA
66 TTATATTATAATATAACATTTATAATAAAATCATACAATTATTATTTTAAATA
20339 TACGAGGAAACTAATCGATAATTATAAAACATAATTGCTAATAAAATTTAAACAGATGTTATTTA
1 TACGAGGAAACTAATCGATAATTATAAAACATAATTGCTAATAAAATTTAAACAGATGTTATTTA
*
20404 TTATATTATAATATAACATTTATAATAAAATCATATAATTATTATTTTAAATA
66 TTATATTATAATATAACATTTATAATAAAATCATACAATTATTATTTTAAATA
20457 T
1 T
20458 TTAATATAAA
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (118 bp):
TACGAGGAAACTAATCGATAATTATAAAACATAATTGCTAATAAAATTTAAACAGATGTTATTTA
TTATATTATAATATAACATTTATAATAAAATCATACAATTATTATTTTAAATA
Found at i:20573 original size:12 final size:13
Alignment explanation
Indices: 20551--20678 Score: 62
Period size: 12 Copynumber: 10.1 Consensus size: 13
20541 TTAATAATTT
20551 TAATTAATATATA
1 TAATTAATATATA
*
20564 -AATTATTATATA
1 TAATTAATATATA
20576 TAATTAA-AT-TGA
1 TAATTAATATAT-A
*
20588 TATATGAATATAT-
1 TA-ATTAATATATA
*
20601 TAAATT--TAT-TT
1 T-AATTAATATATA
20612 TAA-TAATATTATAA
1 TAATTAATA-TAT-A
20626 TAATATAATATATA
1 TAAT-TAATATATA
*
20640 TAA-TAATTTATA
1 TAATTAATATATA
20652 GCTAATTAA-AT-TA
1 --TAATTAATATATA
*
20665 TAATTAAAATATA
1 TAATTAATATATA
20678 T
1 T
20679 TATATTTAAA
Statistics
Matches: 89, Mismatches: 7, Indels: 38
0.66 0.05 0.28
Matches are distributed among these distances:
9 1 0.01
10 3 0.03
11 14 0.16
12 27 0.30
13 18 0.20
14 14 0.16
15 7 0.08
16 5 0.06
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (13 bp):
TAATTAATATATA
Found at i:20580 original size:31 final size:31
Alignment explanation
Indices: 20544--20639 Score: 81
Period size: 31 Copynumber: 3.1 Consensus size: 31
20534 TAAACAGTTA
20544 ATAATTTTAATTAATATATAAATTATTATAT
1 ATAATTTTAATTAATATATAAATTATTATAT
* * * *
20575 ATAA-TTAAATTGATATATGAATATATTAAAT
1 ATAATTTTAATTAATATATAAAT-TATTATAT
* * *
20606 -TTATTTTAA-TAATATTATAATAATATAATAT
1 ATAATTTTAATTAATA-TATAA-ATTATTATAT
20637 ATA
1 ATA
20640 TAATAATTTA
Statistics
Matches: 48, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
30 21 0.44
31 25 0.52
32 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (31 bp):
ATAATTTTAATTAATATATAAATTATTATAT
Found at i:20680 original size:16 final size:16
Alignment explanation
Indices: 20661--20698 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
20651 AGCTAATTAA
20661 ATTATAATTAAAATAT
1 ATTATAATTAAAATAT
*
20677 ATTAT-ATTTAAATAT
1 ATTATAATTAAAATAT
*
20692 AATATAA
1 ATTATAA
20699 CATACATGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTATAATTAAAATAT
Found at i:21367 original size:171 final size:171
Alignment explanation
Indices: 21066--21381 Score: 395
Period size: 171 Copynumber: 1.8 Consensus size: 171
21056 TTATCGAATC
* * * * *
21066 AGTTCAAATAGTTATGGCCATTTGAACAATTATCTATTTCAAATCATTTTGAACTTTTGTTTTGT
1 AGTTCAAATAATTATGACCATTTAAACAATTATATATTTCAAATCATTATGAACTTTTGTTTTGT
* * * * * *
21131 CATAAAACAATTGTTTTTCATCATACAAGCCTAATTAGAATAAAATAATAATAGTTTATTAATAT
66 CATAAAACAATTATTTATCATCATACAAGCCTAATTAGAAGAAAATAATAATAATCTAATAATAT
21196 T-TCAAAAATTAATAAGTAGGAGATTATCTATTTACTAAACT
131 TAT-AAAAATTAATAAGTAGGAGATTATCTATTTACTAAACT
* ** *
21237 AGTTCAAATAATTATGACTATTTAAATGATTATATATTTCAAGTCATTAT-AACCTTTTGTTTTG
1 AGTTCAAATAATTATGACCATTTAAACAATTATATATTTCAAATCATTATGAA-CTTTTGTTTTG
** * * *
21301 TCATAAAACAATTATTTATGTTCATACAAG-CTTATTCGAAAGAAAATAATACTAATCTAATAAT
65 TCATAAAACAATTATTTATCATCATACAAGCCTAATTAG-AAGAAAATAATAATAATCTAATAAT
*
21365 ATTATGAAAATTAATAA
129 ATTATAAAAATTAATAA
21382 TTACAAATTT
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
170 8 0.07
171 112 0.93
172 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (171 bp):
AGTTCAAATAATTATGACCATTTAAACAATTATATATTTCAAATCATTATGAACTTTTGTTTTGT
CATAAAACAATTATTTATCATCATACAAGCCTAATTAGAAGAAAATAATAATAATCTAATAATAT
TATAAAAATTAATAAGTAGGAGATTATCTATTTACTAAACT
Found at i:23561 original size:46 final size:47
Alignment explanation
Indices: 23516--23606 Score: 112
Period size: 46 Copynumber: 1.9 Consensus size: 47
23506 TTATCAATAA
*
23516 TATAATCAAAATAGATTTAATATTAAATTAATTAATT-TAATAATAAAT
1 TATAAT-AAAATAG-TTTAATATTAAATTAATAAATTATAATAATAAAT
* * * *
23564 TATAATTATATTGTTTAATATTAAATTGATAAATTATAATAAT
1 TATAATAAAATAGTTTAATATTAAATTAATAAATTATAATAAT
23607 TTAAATACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
46 20 0.54
47 11 0.30
48 6 0.16
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (47 bp):
TATAATAAAATAGTTTAATATTAAATTAATAAATTATAATAATAAAT
Found at i:23618 original size:23 final size:22
Alignment explanation
Indices: 23592--23659 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
23582 TATTAAATTG
23592 ATAAATTATAATAATTTAAATA
1 ATAAATTATAATAATTTAAATA
* * *
23614 CATAAACTAAAATAATTT-ATTA
1 -ATAAATTATAATAATTTAAATA
*
23636 ATATAGTTATAATAA-TTAAATA
1 ATA-AATTATAATAATTTAAATA
23658 AT
1 AT
23660 TTATATTAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
21 5 0.14
22 16 0.44
23 15 0.42
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (22 bp):
ATAAATTATAATAATTTAAATA
Found at i:23783 original size:24 final size:22
Alignment explanation
Indices: 23734--23784 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
23724 TTTATCAATT
*
23734 TAATATTATAATTAGAATTTAA
1 TAATATTATAATTAGAAATTAA
* *
23756 TAATATTTAATAATTATAAATTAG
1 TAATA-TT-ATAATTAGAAATTAA
23780 TAATA
1 TAATA
23785 AATGTATCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.21
23 2 0.08
24 17 0.71
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (22 bp):
TAATATTATAATTAGAAATTAA
Found at i:23995 original size:24 final size:24
Alignment explanation
Indices: 23968--24015 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
23958 TTTTATTTTG
*
23968 ATATAA-TTAATTAAGTTATAATTA
1 ATATAACTTAATTAA-TAATAATTA
*
23992 ATATAACTTATTTAATAATAATTA
1 ATATAACTTAATTAATAATAATTA
24016 TAATATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
ATATAACTTAATTAATAATAATTA
Found at i:24583 original size:34 final size:31
Alignment explanation
Indices: 24506--24584 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 31
24496 TATACTTAAC
24506 TATATATAAATATAATATCAAATATTATTATAA
1 TATATATAAAT-T-ATATCAAATATTATTATAA
24539 TATA-AT-AATTATACTCCAAA-ATTATTTATAA
1 TATATATAAATTATA-T-CAAATATTA-TTATAA
24570 TTATATATAAATTAT
1 -TATATATAAATTAT
24585 TAAATTATTC
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
29 3 0.08
30 6 0.15
31 13 0.32
32 6 0.15
33 6 0.15
34 6 0.15
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (31 bp):
TATATATAAATTATATCAAATATTATTATAA
Found at i:24677 original size:9 final size:9
Alignment explanation
Indices: 24665--24723 Score: 54
Period size: 9 Copynumber: 7.0 Consensus size: 9
24655 AATTAATATA
24665 ATAATAATT
1 ATAATAATT
24674 ATAATAA--
1 ATAATAATT
24681 ATAAT-ATT
1 ATAATAATT
*
24689 A-AATAATA
1 ATAATAATT
* *
24697 ACAATAAAT
1 ATAATAATT
24706 ATAATAATT
1 ATAATAATT
*
24715 ATTATAATT
1 ATAATAATT
24724 GTTTTCACAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
6 1 0.03
7 8 0.20
8 4 0.10
9 27 0.68
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (9 bp):
ATAATAATT
Found at i:24679 original size:26 final size:25
Alignment explanation
Indices: 24646--24697 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
24636 TTAATGTTAT
24646 ATTAAATAAAATTAATA-T-AATAATA
1 ATTAAAT-AAA-TAATATTAAATAATA
24671 ATTATAATAAATAATATTAAATAATA
1 ATTA-AATAAATAATATTAAATAATA
24697 A
1 A
24698 CAATAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 5 0.21
25 8 0.33
26 11 0.46
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
ATTAAATAAATAATATTAAATAATA
Found at i:24693 original size:10 final size:10
Alignment explanation
Indices: 24644--24696 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
24634 ATTTAATGTT
24644 ATATTAAATA
1 ATATTAAATA
*
24654 AAATTAATATA
1 ATATTAA-ATA
* *
24665 ATAAT-AATT
1 ATATTAAATA
*
24674 ATAATAAATA
1 ATATTAAATA
24684 ATATTAAATA
1 ATATTAAATA
24694 ATA
1 ATA
24697 ACAATAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 7 0.20
10 22 0.63
11 6 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATATTAAATA
Found at i:24758 original size:21 final size:20
Alignment explanation
Indices: 24734--24789 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
24724 GTTTTCACAA
24734 ATTAATTAATATATTATAAAT
1 ATTAATT-ATATATTATAAAT
* *
24755 ATTATATTATAAATTATAATT
1 ATTA-ATTATATATTATAAAT
*
24776 AATAA-TATATATTA
1 ATTAATTATATATTA
24790 AATTAGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 8 0.27
20 1 0.03
21 18 0.60
22 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTAATTATATATTATAAAT
Found at i:25410 original size:11 final size:11
Alignment explanation
Indices: 25360--25411 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
25350 TTTATTAATT
*
25360 ATTATAATATA
1 ATTATATTATA
25371 ATTA-ATTTATA
1 ATTATA-TTATA
*
25382 GTTATTATTAATA
1 ATTA-TATT-ATA
25395 ATTATATTATA
1 ATTATATTATA
25406 ATTATA
1 ATTATA
25412 AATTGAGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 1 0.03
11 20 0.59
12 6 0.18
13 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
ATTATATTATA
Found at i:25530 original size:18 final size:18
Alignment explanation
Indices: 25508--25552 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
25498 AATTTAGATA
25508 ATATTTATAATA-AATTAT
1 ATATTTATAATATAATT-T
* *
25526 CTATTTAAAATATAATTT
1 ATATTTATAATATAATTT
25544 ATATTTATA
1 ATATTTATA
25553 TATTTATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTTATAATATAATTT
Found at i:25559 original size:14 final size:15
Alignment explanation
Indices: 25535--25563 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25525 TCTATTTAAA
25535 ATATAATTTATATTT
1 ATATAATTTATATTT
25550 ATAT-ATTTATATTT
1 ATATAATTTATATTT
25564 TAAATCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATAATTTATATTT
Found at i:25636 original size:8 final size:8
Alignment explanation
Indices: 25623--25647 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25613 CAATTAACAT
25623 AATAATTA
1 AATAATTA
25631 AATAATTA
1 AATAATTA
25639 AATAATTA
1 AATAATTA
25647 A
1 A
25648 TAAACAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AATAATTA
Found at i:27020 original size:19 final size:19
Alignment explanation
Indices: 26998--27034 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
26988 AATAATTTTC
26998 AATTTTAAATTA-ATTATAA
1 AATTTT-AATTATATTATAA
27017 AATTTTAATTATATTATA
1 AATTTTAATTATATTATA
27035 TTTATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTTTAATTATATTATAA
Found at i:27041 original size:14 final size:14
Alignment explanation
Indices: 27024--27051 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27014 TAAAATTTTA
27024 ATTATATTATATTT
1 ATTATATTATATTT
27038 ATTATATTATATTT
1 ATTATATTATATTT
27052 TATTTAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTATATTATATTT
Found at i:27125 original size:41 final size:42
Alignment explanation
Indices: 27079--27157 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
27069 ACTAATATAA
27079 TTAAATA-TTTATAATCATTATAA-ATATTAA-GTAATTAAATT
1 TTAAATAGTTTATAAT-ATTATAACA-ATTAATGTAATTAAATT
*
27120 TTAAATAGTTTATTATATTATAACAATTAATGTAATTA
1 TTAAATAGTTTATAATATTATAACAATTAATGTAATTA
27158 TATTAAGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
41 19 0.56
42 15 0.44
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (42 bp):
TTAAATAGTTTATAATATTATAACAATTAATGTAATTAAATT
Found at i:27690 original size:12 final size:13
Alignment explanation
Indices: 27675--27707 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
27665 TAAATAATGT
27675 TATAATAAT-AGA
1 TATAATAATAAGA
*
27687 TATAATAATAAGC
1 TATAATAATAAGA
27700 TATAATAA
1 TATAATAA
27708 AATAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (13 bp):
TATAATAATAAGA
Found at i:27832 original size:14 final size:14
Alignment explanation
Indices: 27813--27839 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27803 ATATATTAAA
27813 TTATTATAATATAT
1 TTATTATAATATAT
27827 TTATTATAATATA
1 TTATTATAATATA
27840 GATAACATAT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATTATAATATAT
Found at i:28280 original size:15 final size:16
Alignment explanation
Indices: 28256--28288 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
28246 TGAATTATGA
28256 TAAATAATTAA-ATAT
1 TAAATAATTAATATAT
*
28271 TAAATTATTAATATAT
1 TAAATAATTAATATAT
28287 TA
1 TA
28289 TTTGAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAATAATTAATATAT
Found at i:28652 original size:180 final size:179
Alignment explanation
Indices: 28341--28753 Score: 465
Period size: 180 Copynumber: 2.3 Consensus size: 179
28331 GTATGAACTG
* * * * * * *
28341 AAACAATTGTTTTATGACTAAACAAAAGATCAAAATGATATGAAATAGATAATTATTCTAATAAT
1 AAACAATTGTTTTATGA-TAAAAAAAAGGTCATAACGATTTGAAATAGATAATCATTCTAAGAAT
* * *
28406 TTTAACCATTTGAACTGATTCAGTAAATAAATTTATTTTTTAAATCTCTTACTTATTAATTTTCA
65 CTTAACCATTTGAACTGATTCAGTAAATAAATTTATTTTTTAAATCTCTTACTGATTAAGTTTCA
* ** *
28471 AAATATTATTAAATTAGTATTCTTTTAATCCAAATAAGCTTGTACGAACA
130 AAATATTATTAAATTAGTATTATTTTAATCCAAATAAAATAGTACGAACA
* *
28521 AAACAATTGTTTTATGTTAAAAGAAAAGGTCATAAGGATTTGAAATAGATAATCATTC-ATAGAA
1 AAACAATTGTTTTATGATAAAA-AAAAGGTCATAACGATTTGAAATAGATAATCATTCTA-AGAA
* * * * * * *
28585 TCTTAACTATTTGAACTGGTT-TG-ACAATTAGATTTATTTTTTAATTTTCTTAGTGATTAAGTT
64 TCTTAACCATTTGAACTGATTCAGTA-AA-TAAATTTATTTTTTAAATCTCTTACTGATTAAGTT
* * * *
28648 TCAAAATATTATTAAATTAGTATTATTTTATTCTAAATAAAATAGTATGAATA
127 TCAAAATATTATTAAATTAGTATTATTTTAATCCAAATAAAATAGTACGAACA
* * *
28701 AAACCAATTGTTTGATGATAAATAAAAA-GTTATAACGATTTGAAATAAATAAT
1 AAA-CAATTGTTTTATGATAAA-AAAAAGGTCATAACGATTTGAAATAGATAAT
28754 TATTGAAATA
Statistics
Matches: 196, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
178 1 0.01
179 8 0.04
180 166 0.85
181 20 0.10
182 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (179 bp):
AAACAATTGTTTTATGATAAAAAAAAGGTCATAACGATTTGAAATAGATAATCATTCTAAGAATC
TTAACCATTTGAACTGATTCAGTAAATAAATTTATTTTTTAAATCTCTTACTGATTAAGTTTCAA
AATATTATTAAATTAGTATTATTTTAATCCAAATAAAATAGTACGAACA
Found at i:29596 original size:135 final size:134
Alignment explanation
Indices: 29325--29578 Score: 366
Period size: 135 Copynumber: 1.9 Consensus size: 134
29315 CATAATGATT
* * * * * *
29325 TGAAATAGATAATTATTCATATAGCCTTAACTATTTGAATTGGTTTGATAAATAAATTTATTTTT
1 TGAAATAAATAATTATTCAAATAGCCATAACTATTTGAACTGATTTGATAAACAAATTTATTTTT
* * *
29390 TAAATCTATTAGTTATTAAATTTCATAATATTACTAGATTAGTATTATTTTATTTCAAATAAGCT
66 TAAATCTATTACTTATTAAATTTCATAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCT
29455 TGTA
131 TGTA
* *
29459 TGAAGATAAATAATTGTTCAAATAGTCATAACTATTTGAACTGATTTGATAAACAAATTTATTTT
1 TGAA-ATAAATAATTATTCAAATAGCCATAACTATTTGAACTGATTTGATAAACAAATTTATTTT
* *
29524 TTAAATCTCTTACTTATTAATTTTTCA-AATATTAATAAATTAGTATTATTTTATT
65 TTAAATCTATTACTTATTAA-ATTTCATAATATTAATAAATTAGTATTATTTTATT
29579 CTGAATAGGT
Statistics
Matches: 105, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
134 4 0.04
135 96 0.91
136 5 0.05
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (134 bp):
TGAAATAAATAATTATTCAAATAGCCATAACTATTTGAACTGATTTGATAAACAAATTTATTTTT
TAAATCTATTACTTATTAAATTTCATAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCT
TGTA
Found at i:29861 original size:182 final size:180
Alignment explanation
Indices: 29470--29940 Score: 440
Period size: 182 Copynumber: 2.6 Consensus size: 180
29460 GAAGATAAAT
* * * *
29470 AATTGTTCAAATAGTCATAACTATTTGAACTGATTTGATAAACAAATTTATTTTTTAAATCTCTT
1 AATTGTTCAAATAGTCATAAATATTTGAACTGATTCGATAAACAAATTTATGTTTTAAATCTCTA
* * *
29535 ACTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTCTGAATAGGTTCGTATGACGG
66 ACTTATCAATTTTT-AAATATTAATAAATAAGTATTATTTTATTCTGAATAGCTTCGTATGACGG
* ** ** *
29600 AAAACAATTGTTTTATGACAAAACAAAAGTTCATAATGATTTGGAATAGAT
130 AAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTAAAATAGAC
* * * * **
29651 AATTTGTTTAAATGGCCATAATTATTTGAACTGATTCGATTAAACTGATTTATGTTTTAAATCTC
1 AA-TTGTTCAAATAGTCATAAATATTTGAACTGATTCGA-TAAACAAATTTATGTTTTAAATCTC
* *
29716 TAACTTATCAA-TTTTATAATATTAATAAAGTAAG-ATTATTTTATT-TTAGATAAGCTT-TTAT
64 TAACTTATCAATTTTTA-AATATTAATAAA-TAAGTATTATTTTATTCTGA-AT-AGCTTCGTAT
* * * *
29777 GAAC-TAAAACAATTGTTTTATTGATAAAATATAAGGTCATAACAATTTAAAATAGAC
125 G-ACGGAAAACAATTGTTTTA-TGACAAAACAAAAGGTCATAACAATTTAAAATAGAC
* * * * * *
29834 AATTGTTCAAATAGTCAAAAATATTTGAACTTG-TTCCGGTAAATAGATTT-T-TTCT-AATTTC
1 AATTGTTCAAATAGTCATAAATATTTGAAC-TGATT-CGATAAACAAATTTATGTTTTAAATCTC
* * * *
29895 TTACTTAAT-AATTTTCTTAATGTTAATAAATTAGTATTATTTTATT
64 TAACTT-ATCAATTTT-TAAATATTAATAAATAAGTATTATTTTATT
29941 TCAAATAAGT
Statistics
Matches: 238, Mismatches: 38, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
179 15 0.06
180 30 0.13
181 7 0.03
182 113 0.47
183 73 0.31
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.43
Consensus pattern (180 bp):
AATTGTTCAAATAGTCATAAATATTTGAACTGATTCGATAAACAAATTTATGTTTTAAATCTCTA
ACTTATCAATTTTTAAATATTAATAAATAAGTATTATTTTATTCTGAATAGCTTCGTATGACGGA
AAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTAAAATAGAC
Found at i:30993 original size:23 final size:23
Alignment explanation
Indices: 30967--31017 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
30957 AATAAATTAT
30967 TTATAATAGT-AATATTAATAATA
1 TTATAATAGTAAATATTAATAA-A
* *
30990 TTATAATATTAAATATTAATTAA
1 TTATAATAGTAAATATTAATAAA
31013 TTATA
1 TTATA
31018 TTTACTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TTATAATAGTAAATATTAATAAA
Found at i:31073 original size:16 final size:15
Alignment explanation
Indices: 31052--31085 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
31042 ATTATTAATA
*
31052 ATATTATATTTATTAT
1 ATATTATAATTA-TAT
31068 ATATTATAATTATAT
1 ATATTATAATTATAT
31083 ATA
1 ATA
31086 ATAAATATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATTATAATTATAT
Found at i:31313 original size:17 final size:17
Alignment explanation
Indices: 31287--31319 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31277 TTACTATTCT
31287 AAATAGTAATAATTATC
1 AAATAGTAATAATTATC
*
31304 AAATATTAATAATTAT
1 AAATAGTAATAATTAT
31320 AATAATAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (17 bp):
AAATAGTAATAATTATC
Found at i:31981 original size:57 final size:56
Alignment explanation
Indices: 31912--32095 Score: 183
Period size: 56 Copynumber: 3.2 Consensus size: 56
31902 TTTTGTGCAG
*
31912 GAAAAATTGATACTTTCAACTTTTTTCCAAAATATTTTTT-AGAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTTTCCAAAATATTTTTTGA-AAAC-TTAATTTCAA
* * ** * *
31969 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATACGTTTTGAAAACTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTT-TTCCAAAATATTTTTTGAAAACTTAATTTCAA
* * * * * * *
32026 GGAAAATTGAT-CTTTTAACTTTTTCCCAAAAATATTTTTGGAAAGCTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTTCC-AAAATATTTTTTGAAAACTTAATTTCAA
*
32082 GGAAAATTGATACT
1 GAAAAATTGATACT
32096 CAAAAATATT
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
55 1 0.01
56 46 0.43
57 43 0.40
58 16 0.15
59 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (56 bp):
GAAAAATTGATACTTTCAACTTTTTTCCAAAATATTTTTTGAAAACTTAATTTCAA
Found at i:32075 original size:56 final size:56
Alignment explanation
Indices: 31914--32095 Score: 210
Period size: 57 Copynumber: 3.2 Consensus size: 56
31904 TTGTGCAGGA
* * * ** *
31914 AAAATTGATACTTTCAACTTTTTTCC-AAAATATTTTTTAGAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATACTTTTT-GAAAC-TTATTTTTAAGG
*
31971 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATACGTTTTGAAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCC-CAAAAATACTTTTTG-AAACTTATTTTTAAGG
*
32028 AAAATTGAT-CTTTTAACTTTTTCCCAAAAATA-TTTTTGGAAAGCTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATACTTTTT-GAAA-CTTATTTTTAAGG
32084 AAAATTGATACT
1 AAAATTGATACT
32096 CAAAAATATT
Statistics
Matches: 109, Mismatches: 9, Indels: 14
0.83 0.07 0.11
Matches are distributed among these distances:
55 7 0.06
56 43 0.39
57 45 0.41
58 14 0.13
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAATACTTTTTGAAACTTATTTTTAAGG
Found at i:32119 original size:46 final size:44
Alignment explanation
Indices: 32052--32141 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 44
32042 AACTTTTTCC
* **
32052 CAAAAATATTTTTGGAAAGCTTATTTTTAAGGAAAATTGATACT
1 CAAAAATATTTTTAGAAAGCTTATTTCCAAGGAAAATTGATACT
32096 CAAAAATATTTTTTTAGAAAGCTTATTTCCAAGGAAAATTGATACT
1 CAAAAATA--TTTTTAGAAAGCTTATTTCCAAGGAAAATTGATACT
32142 TTCAACTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 8 0.20
46 33 0.80
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (44 bp):
CAAAAATATTTTTAGAAAGCTTATTTCCAAGGAAAATTGATACT
Found at i:32292 original size:20 final size:19
Alignment explanation
Indices: 32259--32297 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
32249 TAAACAATTC
*
32259 TAATCTAATTAATAAATAA
1 TAATCTAATAAATAAATAA
32278 TAATCATAATAAATAAATAA
1 TAATC-TAATAAATAAATAA
32298 ATATATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATCTAATAAATAAATAA
Found at i:32315 original size:16 final size:19
Alignment explanation
Indices: 32260--32315 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 19
32250 AAACAATTCT
*
32260 AATC-TAATTAATAAATAA
1 AATCATAATAAATAAATAA
32278 TAATCATAATAAATAAAT-A
1 -AATCATAATAAATAAATAA
32297 AAT-AT-ATAAA-AAATAA
1 AATCATAATAAATAAATAA
32313 AAT
1 AAT
32316 GAAAAAATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
15 4 0.12
16 9 0.26
17 2 0.06
18 3 0.09
19 5 0.15
20 11 0.32
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (19 bp):
AATCATAATAAATAAATAA
Found at i:34161 original size:30 final size:28
Alignment explanation
Indices: 34126--34192 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
34116 CTAAGTAATA
34126 ATTATTTAATTATATATAATTAAATAA-ACT
1 ATTATTTAATT-TATAT-ATT-AATAATACT
* *
34156 ATTATTAAATTTATATATTAATAATAGT
1 ATTATTTAATTTATATATTAATAATACT
34184 -TTATTTAAT
1 ATTATTTAAT
34193 ATTTAAATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 13 0.39
28 5 0.15
29 5 0.15
30 10 0.30
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
ATTATTTAATTTATATATTAATAATACT
Found at i:34707 original size:31 final size:31
Alignment explanation
Indices: 34670--34732 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
34660 ATTATAGTAT
*
34670 TAAAAATAACTAGTAAT-TTTAATAATTATTTA
1 TAAAATTAACTA--AATATTTAATAATTATTTA
* *
34702 TAAAATTAATTAAATATTTAATTATTATTTA
1 TAAAATTAACTAAATATTTAATAATTATTTA
34733 ATTAATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 3 0.11
31 14 0.52
32 10 0.37
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (31 bp):
TAAAATTAACTAAATATTTAATAATTATTTA
Found at i:34899 original size:18 final size:19
Alignment explanation
Indices: 34863--34903 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
34853 TTAATTTTAT
*
34863 ATTAATTTAACTAATATAA
1 ATTAATTTAAATAATATAA
34882 ATTAATTTAAAT-ATATAA
1 ATTAATTTAAATAATATAA
34900 ATTA
1 ATTA
34904 TTAATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTAATTTAAATAATATAA
Found at i:34917 original size:23 final size:23
Alignment explanation
Indices: 34888--34936 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
34878 ATAAATTAAT
*
34888 TTAAATATATAAATTATTAATTA
1 TTAAATATATAAATTATTAATGA
* *
34911 TTAAATATTTAATTTATTAATGA
1 TTAAATATATAAATTATTAATGA
34934 TTA
1 TTA
34937 TTTTAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAAATATATAAATTATTAATGA
Found at i:34929 original size:16 final size:16
Alignment explanation
Indices: 34904--34954 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 16
34894 ATATAAATTA
34904 TTAA-TTATTAAATAT
1 TTAATTTATTAAATAT
34919 TTAATTTATTAATGATTATT
1 TTAATTTATTAA--A-TA-T
34939 TTAATTTATT-AATAT
1 TTAATTTATTAAATAT
34954 T
1 T
34955 AATAAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
15 6 0.19
16 9 0.29
17 1 0.03
18 1 0.03
19 3 0.10
20 11 0.35
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTAATTTATTAAATAT
Found at i:34943 original size:20 final size:19
Alignment explanation
Indices: 34918--34955 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
34908 TTATTAAATA
34918 TTTAATTTATTAATGATTAT
1 TTTAATTTATTAAT-ATTAT
34938 TTTAATTTATTAATATTA
1 TTTAATTTATTAATATTA
34956 ATAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTAATTTATTAATATTAT
Found at i:35667 original size:12 final size:12
Alignment explanation
Indices: 35644--35674 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
35634 TTTTAAAGTA
35644 ATTATAATTAATT
1 ATTAT-ATTAATT
35657 ATTATATTAATT
1 ATTATATTAATT
35669 ATTATA
1 ATTATA
35675 ACAATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATATTAATT
Found at i:36413 original size:19 final size:20
Alignment explanation
Indices: 36379--36439 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
36369 ATTTAAAACA
36379 ATTATATTAGTTATATTATAAT
1 ATTA-ATTA-TTATATTATAAT
36401 ATTAA-TATTATATTATAAAT
1 ATTAATTATTATATTAT-AAT
36421 ATTAATTATTAT-TTATAAT
1 ATTAATTATTATATTATAAT
36440 TCTATTAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
19 12 0.32
20 14 0.38
21 7 0.19
22 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTAATTATTATATTATAAT
Found at i:36499 original size:12 final size:13
Alignment explanation
Indices: 36379--36503 Score: 71
Period size: 14 Copynumber: 9.4 Consensus size: 13
36369 ATTTAAAACA
36379 ATTATATTAGTTAT
1 ATTATATTA-TTAT
*
36393 ATTATAATATTAAT
1 ATTATATTATT-AT
*
36407 ATTATATTATAAAT
1 ATTATATTAT-TAT
36421 ATTA-ATTATTAT
1 ATTATATTATTAT
*
36433 -TTATAATTCTATTAG
1 ATTAT-A-T-TATTAT
** *
36448 ATTATTAGAATAAT
1 ATTA-TATTATTAT
* *
36462 GTTTATAGTATTA-
1 -ATTATATTATTAT
36475 ATTATATTA-TAT
1 ATTATATTATTAT
36487 ATT-TATTATTAT
1 ATTATATTATTAT
36499 ATTAT
1 ATTAT
36504 TTGAATTATT
Statistics
Matches: 85, Mismatches: 14, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
11 10 0.12
12 18 0.21
13 9 0.11
14 35 0.41
15 8 0.09
16 4 0.05
17 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (13 bp):
ATTATATTATTAT
Found at i:37250 original size:16 final size:15
Alignment explanation
Indices: 37221--37255 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
37211 ACTATTCACA
37221 TATACATTTAATTAT
1 TATACATTTAATTAT
*
37236 TATACTATTTGATTAT
1 TATAC-ATTTAATTAT
37252 TATA
1 TATA
37256 ATAATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (15 bp):
TATACATTTAATTAT
Found at i:37307 original size:21 final size:21
Alignment explanation
Indices: 37274--37343 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
37264 ATATGTTCAA
37274 ATAATTA-ATT-TATTATAACTT
1 ATAATTATATTATA-TATAAC-T
* *
37295 ATTATTATATTATATTTAACT
1 ATAATTATATTATATATAACT
* *
37316 ATAATTATAATTAAAGTATTACT
1 ATAATTAT-ATTATA-TATAACT
37339 ATAAT
1 ATAAT
37344 ACTAATTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 14 0.36
22 13 0.33
23 12 0.31
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.50
Consensus pattern (21 bp):
ATAATTATATTATATATAACT
Found at i:37377 original size:21 final size:22
Alignment explanation
Indices: 37346--37441 Score: 79
Period size: 23 Copynumber: 4.3 Consensus size: 22
37336 ACTATAATAC
*
37346 TAATTATTAATAATGATAT-TA
1 TAATAATTAATAATGATATATA
* *
37367 TTATAATTAATAAAGATATAGTA
1 TAATAATTAATAATGATATA-TA
* *
37390 TAATAAGTAATAAT-ATCAAATTA
1 TAATAATTAATAATGAT-ATA-TA
* *
37413 TAATAATTTAATTATTATATATA
1 TAATAA-TTAATAATGATATATA
37436 TAATAA
1 TAATAA
37442 AAGAACAATT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
21 16 0.27
22 2 0.03
23 31 0.53
24 8 0.14
25 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (22 bp):
TAATAATTAATAATGATATATA
Found at i:37813 original size:21 final size:21
Alignment explanation
Indices: 37789--37832 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
37779 AACTTATTTT
37789 TTATTATTAATAATTTAATAA
1 TTATTATTAATAATTTAATAA
* * * *
37810 TTATTTTTAGTTATTTGATAA
1 TTATTATTAATAATTTAATAA
37831 TT
1 TT
37833 GTTCAAATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
TTATTATTAATAATTTAATAA
Found at i:38096 original size:9 final size:9
Alignment explanation
Indices: 38082--38111 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
38072 TTATTTAATT
38082 TAAATATAG
1 TAAATATAG
*
38091 TAAATATAT
1 TAAATATAG
38100 TAAATATAG
1 TAAATATAG
38109 TAA
1 TAA
38112 TAAATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (9 bp):
TAAATATAG
Found at i:38102 original size:18 final size:20
Alignment explanation
Indices: 38081--38125 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
38071 ATTATTTAAT
*
38081 TTAAATATAGTAA-ATA-TA
1 TTAAATATAGTAATAAATTA
38099 TTAAATATAGTAATAAATTA
1 TTAAATATAGTAATAAATTA
38119 TTAAATA
1 TTAAATA
38126 ATTTATTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 13 0.54
19 2 0.08
20 9 0.38
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (20 bp):
TTAAATATAGTAATAAATTA
Found at i:38152 original size:21 final size:21
Alignment explanation
Indices: 38114--38153 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
38104 TATAGTAATA
*
38114 AATTATTAAATAATTTATTGG
1 AATTATTAAATAACTTATTGG
38135 AATTATT-AATATACTTATT
1 AATTATTAAATA-ACTTATT
38154 TTTAAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (21 bp):
AATTATTAAATAACTTATTGG
Found at i:38735 original size:143 final size:143
Alignment explanation
Indices: 38524--38793 Score: 314
Period size: 143 Copynumber: 1.9 Consensus size: 143
38514 TTAATAATTA
* * * *
38524 ATAATAGATTTGAAATAGATACTTGTTCAAATGGCCATAACTATTTGAACTAATTCGATAAAATG
1 ATAATAGATTTGAAAAAGATAATTGTTCAAATAGCCATAACTATTTAAACTAATTCGATAAAATG
* *
38589 ATTTATGTTTTAAATCTCC-AACTTCTTAA-TTTTTGAAATATTAATAAAGTAATATTATTTTAT
66 ATTTAT-TTTTAAAT-TCCTAACTTATTAAGTTTTTG-AATATTAATAAAATAATATTATTTTAT
38652 GATAAAACAAATGGTT
128 GATAAAACAAATGGTT
* * * ** * *
38668 ATAATA-ATTTTAAAAAGATAATTGTTTAAATAGTCATAACTATTTAAACTTGTTTGGTAAACA-
1 ATAATAGATTTGAAAAAGATAATTGTTCAAATAGCCATAACTATTTAAACTAATTCGATAAA-AT
* ** * *
38731 GATTTATTTTTTAATTCCTTGCTTATTAAGTTTTTGAATGTTAATAAAATAGTATTATTTTAT
65 GATTTATTTTTAAATTCCTAACTTATTAAGTTTTTGAATATTAATAAAATAATATTATTTTAT
38794 TTTGAATAAG
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
141 3 0.03
142 38 0.36
143 57 0.54
144 7 0.07
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (143 bp):
ATAATAGATTTGAAAAAGATAATTGTTCAAATAGCCATAACTATTTAAACTAATTCGATAAAATG
ATTTATTTTTAAATTCCTAACTTATTAAGTTTTTGAATATTAATAAAATAATATTATTTTATGAT
AAAACAAATGGTT
Found at i:38999 original size:23 final size:25
Alignment explanation
Indices: 38950--39001 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 25
38940 TTTTTAAAAT
* *
38950 ATTATTATTTTATTATTAATTAATA
1 ATTATTATTTTAGTATTAAATAATA
38975 ATTA-TATTTTAGTA-TAAATAATA
1 ATTATTATTTTAGTATTAAATAATA
38998 ATTA
1 ATTA
39002 AATATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 12 0.48
24 9 0.36
25 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTATTATTTTAGTATTAAATAATA
Found at i:39038 original size:19 final size:18
Alignment explanation
Indices: 38987--39049 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
38977 TATATTTTAG
*
38987 TATAAATAATAATTAAATA
1 TATAAATAA-AATTAATTA
* *
39006 TATATATCATAATTAATTA
1 TATAAAT-AAAATTAATTA
*
39025 TAGTAAATAAAATTAGTTA
1 TA-TAAATAAAATTAATTA
*
39044 TTTAAA
1 TATAAA
39050 ATATTAATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
18 4 0.11
19 26 0.74
20 5 0.14
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (18 bp):
TATAAATAAAATTAATTA
Done.