Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007582.1 Hibiscus syriacus cultivar Beakdansim tig00021657_pilon, 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: 162130
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
File 1 of 2
Found at i:447 original size:25 final size:25
Alignment explanation
Indices: 399--447 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
389 AATTTTATAA
*
399 AATTTTAGAGAAAATAAACTTAAAG
1 AATTTTAGAGAAAATAAACATAAAG
*
424 AATTTTATAGAAAAATAAA-ATAAA
1 AATTTTAGAG-AAAATAAACATAAA
448 TTACCTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (25 bp):
AATTTTAGAGAAAATAAACATAAAG
Found at i:585 original size:53 final size:54
Alignment explanation
Indices: 518--679 Score: 182
Period size: 63 Copynumber: 2.9 Consensus size: 54
508 GTCTTTGGTT
518 TTTAAAGATTTATATAGTATTTTAGTCTTATAAAATTTACATCATTTT-AAAAA
1 TTTAAAGATTTATATAGTATTTTAGTCTTATAAAATTTACATCATTTTAAAAAA
* * * * *
571 TTTAAAGATTTATATAGTATTTCATTTACAATGTATCAAATTATTCTTCATTTTTAAAAAAAA
1 TTTAAAGATTTATATAGTATTTTA-GT-C--T-TATAAAATT-TACATCA-TTTT--AAAAAA
*
634 TTAAAAGATTTATATAGTATTTTAGTCTTATAAAATTTACATCATT
1 TTTAAAGATTTATATAGTATTTTAGTCTTATAAAATTTACATCATT
680 ATCACTTTGG
Statistics
Matches: 88, Mismatches: 11, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
53 23 0.26
54 1 0.01
55 1 0.01
56 2 0.02
57 6 0.07
58 16 0.18
59 6 0.07
60 4 0.05
61 1 0.01
62 1 0.01
63 27 0.31
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.47
Consensus pattern (54 bp):
TTTAAAGATTTATATAGTATTTTAGTCTTATAAAATTTACATCATTTTAAAAAA
Found at i:1814 original size:23 final size:23
Alignment explanation
Indices: 1779--1826 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1769 ATCAAGTACA
* *
1779 ATAATATATTAGATAACGCTTAT
1 ATAATATAATAGATAACACTTAT
* *
1802 ATAATGTAATAGATAGCACTTAT
1 ATAATATAATAGATAACACTTAT
1825 AT
1 AT
1827 TGACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGATAACACTTAT
Found at i:2750 original size:182 final size:182
Alignment explanation
Indices: 2443--2895 Score: 746
Period size: 182 Copynumber: 2.5 Consensus size: 182
2433 ACTTTTTTAC
* * *
2443 TACCGGTTTTGTCATTTCGAGATCGATTTTGTCATATTTTTACATGTTATATTGTTATGAATCGA
1 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* * *
2508 TACATTTTTATAAAGTATCGATACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
* *
2573 TGTCTATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCTCTT
131 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
* *
2625 TACCGGTTTTGTCATTTCGAGACCGATTTTATCATATTTTTACCTGTTATATTGTTGTGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
2690 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
*
2755 TTTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
131 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
* ** * * *
2807 TACCTGTTTTGTCATTTATAGACTGGTTTTGTCAT-TTTTTACCTGTTTTATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
2871 TACATTTTTATAAAGTATCGACACT
66 TACATTTTTATAAAGTATCGACACT
2896 ATCAACATAT
Statistics
Matches: 252, Mismatches: 19, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
181 52 0.21
182 200 0.79
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.43
Consensus pattern (182 bp):
TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
Found at i:3018 original size:112 final size:112
Alignment explanation
Indices: 2769--3341 Score: 981
Period size: 112 Copynumber: 5.1 Consensus size: 112
2759 GATACTTATA
*
2769 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
2834 TTTGTCA-TTTTTTACCTGTTTTATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATAGATCGATACATTTTT
* * *
2880 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCTGTTTTTTCATTTATAGACCGAT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
2945 TTTGTCATTTTTTTACCTGTTATATTGTTATAGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATAGATCGATACATTTTT
* *
2992 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
3057 TTTGTCATTTTTTTACCTTTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATAGATCGATACATTTTT
3104 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
3169 TTTGTCATTTTTTTACCTGTTATATTGTTATAGATAGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATAGATCGATACATTTTT
* *
3216 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGA-CGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
3280 TTTGTCATTTTTTTACTTGTTATATTGTTATAGATC-ATTATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATAGATCGA-TACATTTTT
3327 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
3342 AAACCGACAT
Statistics
Matches: 437, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
110 1 0.00
111 129 0.30
112 307 0.70
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATAGATCGATACATTTTT
Found at i:5574 original size:15 final size:15
Alignment explanation
Indices: 5552--5608 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
5542 GAACCCAAGT
5552 TGGATCTGAAAATTA
1 TGGATCTGAAAATTA
* *
5567 TAGATCTGAACCCAAGT-
1 TGGATCTGAA---AATTA
5584 TGGATCTGAAAATTA
1 TGGATCTGAAAATTA
5599 TGGATCTGAA
1 TGGATCTGAA
5609 CCCGACCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 3 0.09
15 19 0.56
17 9 0.26
18 3 0.09
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (15 bp):
TGGATCTGAAAATTA
Found at i:5578 original size:32 final size:32
Alignment explanation
Indices: 5541--5611 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
5531 GGTATTGATA
5541 TGAACCCAAGTTGGATCTGAAAATTATAGATC
1 TGAACCCAAGTTGGATCTGAAAATTATAGATC
*
5573 TGAACCCAAGTTGGATCTGAAAATTATGGATC
1 TGAACCCAAGTTGGATCTGAAAATTATAGATC
5605 TGAACCC
1 TGAACCC
5612 GACCTAAACC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (32 bp):
TGAACCCAAGTTGGATCTGAAAATTATAGATC
Found at i:5591 original size:17 final size:17
Alignment explanation
Indices: 5541--5593 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
5531 GGTATTGATA
5541 TGAACCCAAGTTGGATC
1 TGAACCCAAGTTGGATC
* *
5558 TGAA---AATTATAGATC
1 TGAACCCAAGT-TGGATC
5573 TGAACCCAAGTTGGATC
1 TGAACCCAAGTTGGATC
5590 TGAA
1 TGAA
5594 AATTATGGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
14 3 0.11
15 9 0.32
17 13 0.46
18 3 0.11
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (17 bp):
TGAACCCAAGTTGGATC
Found at i:5951 original size:15 final size:16
Alignment explanation
Indices: 5925--5960 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
5915 ATAATTCTTA
5925 TATTAT-AATTTG-TT
1 TATTATAAATTTGATT
5939 TATTATAAATTTGATT
1 TATTATAAATTTGATT
5955 T-TTATA
1 TATTATA
5961 TTAGTTCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 6 0.30
15 11 0.55
16 3 0.15
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TATTATAAATTTGATT
Found at i:5979 original size:19 final size:19
Alignment explanation
Indices: 5955--6000 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
5945 AAATTTGATT
*
5955 TTTATATTAGTTCCAATTC
1 TTTATATTAGTTACAATTC
* *
5974 TTTATATTATTTATAATTC
1 TTTATATTAGTTACAATTC
5993 -TTATATTA
1 TTTATATTA
6001 TAAATTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTATATTAGTTACAATTC
Found at i:6014 original size:13 final size:14
Alignment explanation
Indices: 5980--6016 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
5970 ATTCTTTATA
5980 TTATTTAT-AATTC
1 TTATTTATAAATTC
5993 TTATATTATAAATT-
1 TTAT-TTATAAATTC
6007 TTATTTATAA
1 TTATTTATAA
6017 TCACTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTTATAAATTC
Found at i:9886 original size:22 final size:23
Alignment explanation
Indices: 9861--10000 Score: 63
Period size: 22 Copynumber: 6.3 Consensus size: 23
9851 AATTTCATTC
9861 TTATAAATTTTATATTAATA-AA
1 TTATAAATTTTATATTAATATAA
* *
9883 TTATTTATAA-TTAATATTAAAATAA
1 TTA--TA-AATTTTATATTAATATAA
*
9908 TTATAAATTATA-ATTAATATTAA
1 TTATAAATTTTATATTAATA-TAA
*
9931 -TAT-AA-TTAATATTAATATTAAA
1 TTATAAATTTTATATTAATA-T-AA
* *
9953 TTAT--A-TTAATA-TAATATAG
1 TTATAAATTTTATATTAATATAA
9972 TT-TATAATTTTA-ATTAATACTAA
1 TTATA-AATTTTATATTAATA-TAA
9995 -TATAAA
1 TTATAAA
10001 ATATAGTCTA
Statistics
Matches: 92, Mismatches: 10, Indels: 32
0.69 0.07 0.24
Matches are distributed among these distances:
18 1 0.01
19 3 0.03
20 3 0.03
21 18 0.20
22 34 0.37
23 14 0.15
24 12 0.13
25 7 0.08
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.48
Consensus pattern (23 bp):
TTATAAATTTTATATTAATATAA
Found at i:9929 original size:6 final size:6
Alignment explanation
Indices: 9920--9969 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
9910 ATAAATTATA
9920 ATTAAT ATTAAT A-T-A- ATTAAT ATTAAT ATTAA- ATT-AT ATTAAT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT
9963 A-TAAT AT
1 ATTAAT AT
9970 AGTTTATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
3 1 0.03
4 3 0.08
5 13 0.34
6 21 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTAAT
Found at i:9967 original size:21 final size:21
Alignment explanation
Indices: 9870--9969 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 21
9860 CTTATAAATT
9870 TTATATTAATA-AATTATTTATAA
1 TTATATTAATATAA-TA-TTA-AA
*
9893 TTAATATTAAAATAAT-TATAAA
1 TT-ATATTAATATAATAT-TAAA
9915 -T-TA-TAAT-TAATATT-AA
1 TTATATTAATATAATATTAAA
9931 TATA-ATTAATATTAATATTAAA
1 T-TATATTAATA-TAATATTAAA
9953 TTATATTAATATAATAT
1 TTATATTAATATAATAT
9970 AGTTTATAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 26
0.69 0.02 0.29
Matches are distributed among these distances:
16 2 0.03
17 5 0.08
18 6 0.10
19 6 0.10
21 16 0.25
22 13 0.21
23 4 0.06
24 9 0.14
25 2 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTATATTAATATAATATTAAA
Found at i:9978 original size:43 final size:40
Alignment explanation
Indices: 9870--9980 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 40
9860 CTTATAAATT
9870 TTATATTAATA-AAT-TATTTATAATTAATATTAAAATAA
1 TTATATTAATATAATATATTTATAATTAATATTAAAATAA
*
9908 TTATA--AATTATAATTAATATTAATATAATTAATATTAATATTAAA
1 TTATATTAA-TATAA-T-ATATT--TATAATTAATATTAA-AAT-AA
9953 TTATATTAATATAATATAGTTTATAATT
1 TTATATTAATATAATATA-TTTATAATT
9981 TTAATTAATA
Statistics
Matches: 60, Mismatches: 1, Indels: 19
0.75 0.01 0.24
Matches are distributed among these distances:
36 2 0.03
37 2 0.03
38 7 0.12
39 1 0.02
41 4 0.07
43 22 0.37
44 5 0.08
45 10 0.17
46 5 0.08
47 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (40 bp):
TTATATTAATATAATATATTTATAATTAATATTAAAATAA
Found at i:9999 original size:21 final size:21
Alignment explanation
Indices: 9913--9999 Score: 63
Period size: 21 Copynumber: 4.1 Consensus size: 21
9903 AATAATTATA
*
9913 AATTATAATTAATATTAATAT
1 AATTTTAATTAATATTAATAT
*
9934 AA-TTAATATTAATATTAA-AT
1 AATTTTA-ATTAATATTAATAT
* * *
9954 TATATTAATATAATA-TAGTTTAT
1 AATTTTAAT-TAATATTA--ATAT
*
9977 AATTTTAATTAATACTAATAT
1 AATTTTAATTAATATTAATAT
9998 AA
1 AA
10000 AATATAGTCT
Statistics
Matches: 50, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
20 9 0.18
21 25 0.50
22 5 0.10
23 11 0.22
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (21 bp):
AATTTTAATTAATATTAATAT
Found at i:10021 original size:31 final size:29
Alignment explanation
Indices: 9983--10057 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 29
9973 TTATAATTTT
9983 AATTAATACTAATATAAAATATA-GTCTATAA
1 AATTAATA-TAATATAAAATATATGT-TAT-A
*
10014 AATTAATATTAATATAAACTATATGTTATA
1 AATTAATA-TAATATAAAATATATGTTATA
10044 AATT-ATATAATATA
1 AATTAATATAATATA
10058 GTTTATAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
28 7 0.17
29 3 0.07
30 5 0.12
31 24 0.59
32 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (29 bp):
AATTAATATAATATAAAATATATGTTATA
Found at i:10175 original size:22 final size:22
Alignment explanation
Indices: 10150--10206 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
10140 AAGATAATTA
10150 ACATTAATATAAACTATATAGT
1 ACATTAATATAAACTATATAGT
10172 ACATTAATATAAACTATATAGT
1 ACATTAATATAAACTATATAGT
*
10194 ACACTAATATAAA
1 ACATTAATATAAA
10207 TTATTGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.33
Consensus pattern (22 bp):
ACATTAATATAAACTATATAGT
Found at i:10293 original size:57 final size:55
Alignment explanation
Indices: 10220--10357 Score: 152
Period size: 59 Copynumber: 2.4 Consensus size: 55
10210 TTGTTTATAA
*
10220 ACTATAGGTTACATATATAGTTTATATA-ACATATAAATTGATTGTATATATACATAT
1 ACTATAGGTTACATATATAGTTTATATATAC-TATAAATAG-TT-TATATATACATAT
* * * * *
10277 ATTATAGGTTATATATATATAGTTTATATATACTATACATAGTTTATTTATACATGT
1 ACTATAGG-T-TACATATATAGTTTATATATACTATAAATAGTTTATATATACATAT
* *
10334 ACTATAAGTTGCATATATAGTTTA
1 ACTATAGGTTACATATATAGTTTA
10358 CATGTAACTA
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
55 13 0.19
56 1 0.01
57 24 0.35
58 3 0.04
59 25 0.37
60 2 0.03
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (55 bp):
ACTATAGGTTACATATATAGTTTATATATACTATAAATAGTTTATATATACATAT
Found at i:10297 original size:15 final size:15
Alignment explanation
Indices: 10273--10313 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
10263 GTATATATAC
10273 ATATAT-TATAGGTT
1 ATATATATATAGGTT
*
10287 ATATATATATAGTTT
1 ATATATATATAGGTT
10302 ATATATACTATA
1 ATATATA-TATA
10314 CATAGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.25
15 14 0.58
16 4 0.17
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (15 bp):
ATATATATATAGGTT
Found at i:10313 original size:20 final size:21
Alignment explanation
Indices: 10232--10293 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
10222 TATAGGTTAC
10232 ATATATAGTTTATATA-ACAT
1 ATATATAGTTTATATATACAT
* *
10252 ATAAATTGATTGTATATATACAT
1 ATATATAG-TT-TATATATACAT
*
10275 ATATTATAGGTTATATATA
1 ATA-TATAGTTTATATATA
10294 TATAGTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
20 6 0.18
21 2 0.06
22 14 0.42
23 8 0.24
24 3 0.09
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (21 bp):
ATATATAGTTTATATATACAT
Found at i:10318 original size:20 final size:20
Alignment explanation
Indices: 10286--10329 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10276 TATTATAGGT
*
10286 TATA-TATATATAGTTTATA
1 TATACTATACATAGTTTATA
*
10305 TATACTATACATAGTTTATT
1 TATACTATACATAGTTTATA
10325 TATAC
1 TATAC
10330 ATGTACTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.50
Consensus pattern (20 bp):
TATACTATACATAGTTTATA
Found at i:10350 original size:59 final size:59
Alignment explanation
Indices: 10232--10352 Score: 140
Period size: 57 Copynumber: 2.1 Consensus size: 59
10222 TATAGGTTAC
* * *
10232 ATATATAGTTTATATAACATATAAATTGATTGTATATATACATATATTATAGGTTATAT
1 ATATATAGTTTATATAACATATAAATAGATTGTATATATACATATACTATAAGTTATAT
* * * **
10291 ATATATAGTTTATATATAC-TATACATAG-TT-TATTTATACATGTACTATAAGTTGCAT
1 ATATATAGTTTATATA-ACATATAAATAGATTGTATATATACATATACTATAAGTTATAT
10348 ATATA
1 ATATA
10353 GTTTACATGT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
57 26 0.49
58 2 0.04
59 23 0.43
60 2 0.04
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.45
Consensus pattern (59 bp):
ATATATAGTTTATATAACATATAAATAGATTGTATATATACATATACTATAAGTTATAT
Found at i:10370 original size:30 final size:30
Alignment explanation
Indices: 10327--10393 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
10317 AGTTTATTTA
* *
10327 TACATGT-ACTATAAGTTGCATATATAGTT
1 TACATGTAACTATAAGTTACATATATAGGT
10356 TACATGTAACTATAAGTTACATATATAGGT
1 TACATGTAACTATAAGTTACATATATAGGT
*
10386 TACCTGTA
1 TACATGTA
10394 TACATATACT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (30 bp):
TACATGTAACTATAAGTTACATATATAGGT
Found at i:10521 original size:2 final size:2
Alignment explanation
Indices: 10514--10858 Score: 54
Period size: 2 Copynumber: 176.0 Consensus size: 2
10504 TTCTATAAAC
* *
10514 TA TA TA TA TA TA TA TA TA TA T- TC TA TA GA T- TA CT- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * *
10553 TA GT- TA TA CA TA CA TA TA TA CTA TA T- TA -A TA TA AA T- TA TA
1 TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
10593 -A TT TA TA AA CTA TA TA T- TT TA TA TA GTT TA TA CA TA TA TA GTT
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA
* * *
10636 TA TA TA CA T- TCA TA CA TA CA TA TA TA TA TA TA CTA TA T- TA -A
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * * * *
10677 TA TA AA T- TA TA T- TT TA TA AA CTA TA TA CTT TT TA TA GTT TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA -TA TA
* * * * * *
10718 TA CA TA TA TA GTT TA CA TA CA TA GTT TA TA TA TA TA TT TCA TA
1 TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA T-A TA
* * * **
10761 TA AA CA TA -A TT TA TA TA TA TA GC T- TA TA -A TA -A T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
10798 TA GTT TA TA -A TA TA AA TA TA GTT TA TA TA TA AA CT- TA TA T-
1 TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA
10838 TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
10859 ATTTTTCAAT
Statistics
Matches: 239, Mismatches: 63, Indels: 82
0.62 0.16 0.21
Matches are distributed among these distances:
1 24 0.10
2 197 0.82
3 18 0.08
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10693 original size:95 final size:95
Alignment explanation
Indices: 10566--10739 Score: 314
Period size: 95 Copynumber: 1.8 Consensus size: 95
10556 TTATACATAC
10566 ATATATACTATATTAATATAAATTATAATTTATAAACTATATA-TTTTATATAGTTTATACATAT
1 ATATATACTATATTAATATAAATTATAATTTATAAACTATATACTTTT-TATAGTTTATACATAT
*
10630 ATAGTTTATATACATTCATACATACATATAT
65 ATAGTTTACATACATTCATACATACATATAT
*
10661 ATATATACTATATTAATATAAATTATATTTTATAAACTATATACTTTTTATAGTTTATACATATA
1 ATATATACTATATTAATATAAATTATAATTTATAAACTATATACTTTTTATAGTTTATACATATA
10726 TAGTTTACATACAT
66 TAGTTTACATACAT
10740 AGTTTATATA
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
95 72 0.95
96 4 0.05
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.47
Consensus pattern (95 bp):
ATATATACTATATTAATATAAATTATAATTTATAAACTATATACTTTTTATAGTTTATACATATA
TAGTTTACATACATTCATACATACATATAT
Found at i:10729 original size:15 final size:15
Alignment explanation
Indices: 10709--10754 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
10699 ATATACTTTT
10709 TATAGTTTATACATA
1 TATAGTTTATACATA
10724 TATAG-TT-TACATA
1 TATAGTTTATACATA
* *
10737 CATAGTTTATATATA
1 TATAGTTTATACATA
10752 TAT
1 TAT
10755 TTCATATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 10 0.38
14 4 0.15
15 12 0.46
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (15 bp):
TATAGTTTATACATA
Found at i:10734 original size:13 final size:13
Alignment explanation
Indices: 10718--10762 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
10708 TTATAGTTTA
10718 TACATATATAGTT
1 TACATATATAGTT
*
10731 TACATACATAGTT
1 TACATATATAGTT
*
10744 TATATATATA-TT
1 TACATATATAGTT
10756 T-CATATA
1 TACATATA
10763 AACATAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 5 0.18
12 3 0.11
13 20 0.71
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (13 bp):
TACATATATAGTT
Found at i:10788 original size:26 final size:26
Alignment explanation
Indices: 10721--10789 Score: 66
Period size: 28 Copynumber: 2.6 Consensus size: 26
10711 TAGTTTATAC
* * * *
10721 ATATATAGTTTACATACATAGTTTAT
1 ATATATAGCTTATAAACATAATTTAT
* *
10747 ATATATATTTCATATAAACATAATTTAT
1 ATATATA--GCTTATAAACATAATTTAT
10775 ATATATAGCTTATAA
1 ATATATAGCTTATAA
10790 TAATTATATA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
26 13 0.39
28 20 0.61
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.45
Consensus pattern (26 bp):
ATATATAGCTTATAAACATAATTTAT
Found at i:10816 original size:18 final size:18
Alignment explanation
Indices: 10772--10830 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
10762 AAACATAATT
* *
10772 TATATATATAGCTTATAA
1 TATAAATATAGTTTATAA
*
10790 TA-ATTATATAGTTTATAA
1 TATA-AATATAGTTTATAA
10808 TATAAATATAGTTTAT-A
1 TATAAATATAGTTTATAA
10825 TATAAA
1 TATAAA
10831 CTTATATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
17 8 0.22
18 28 0.76
19 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (18 bp):
TATAAATATAGTTTATAA
Found at i:10825 original size:15 final size:14
Alignment explanation
Indices: 10709--10826 Score: 55
Period size: 13 Copynumber: 7.9 Consensus size: 14
10699 ATATACTTTT
*
10709 TATAGTTTATACATA
1 TATAGTTTATATA-A
*
10724 TATAGTTTACAT-A
1 TATAGTTTATATAA
*
10737 CATAGTTTATAT-A
1 TATAGTTTATATAA
10750 TATA-TTTCATATAAA
1 TATAGTTT-ATAT-AA
* *
10765 CATAATTTATAT-A
1 TATAGTTTATATAA
*
10778 TATAGCTTATAATAATTA
1 TATAG-TT-T-AT-ATAA
10796 TATAGTTTATAATATAAA
1 TATAG-TT-T-ATAT-AA
10814 TATAGTTTATATA
1 TATAGTTTATATA
10827 TAAACTTATA
Statistics
Matches: 83, Mismatches: 10, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
12 3 0.04
13 23 0.28
14 3 0.04
15 23 0.28
16 6 0.07
17 6 0.07
18 19 0.23
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (14 bp):
TATAGTTTATATAA
Found at i:10859 original size:30 final size:30
Alignment explanation
Indices: 10802--10859 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
10792 ATTATATAGT
*
10802 TTATAATATAAATATAGTTTATATATAAAC
1 TTATAATATAAATATAGTATATATATAAAC
* *
10832 TTATATTATATATATA-TATATATTATAA
1 TTATAATATAAATATAGTATATA-TATAA
10860 TTTTTCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (30 bp):
TTATAATATAAATATAGTATATATATAAAC
Found at i:10912 original size:9 final size:9
Alignment explanation
Indices: 10891--10921 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
10881 TGCAATTTAC
10891 TATATAC-T
1 TATATACTT
10899 TATATACTT
1 TATATACTT
10908 TATATACTT
1 TATATACTT
10917 TATAT
1 TATAT
10922 TTAAACTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (9 bp):
TATATACTT
Found at i:10913 original size:17 final size:15
Alignment explanation
Indices: 10891--10924 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
10881 TGCAATTTAC
10891 TATATACTTATATACTT
1 TATATACTT-TATA-TT
10908 TATATACTTTATATT
1 TATATACTTTATATT
10923 TA
1 TA
10925 AACTATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (15 bp):
TATATACTTTATATT
Found at i:10960 original size:20 final size:20
Alignment explanation
Indices: 10937--11029 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
10927 CTATATAAAT
10937 TATATAATTTATACATAGTA
1 TATATAATTTATACATAGTA
* *
10957 TATATAATTTATA-GT-TTA
1 TATATAATTTATACATAGTA
* * *
10975 TATATAGTTTATATTAATA-AA
1 TATATAATTTATA--CATAGTA
*
10996 CAATATAATTTATACATAGTA
1 -TATATAATTTATACATAGTA
11017 TATATAATTTATA
1 TATATAATTTATA
11030 ATTATACATA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
18 14 0.25
19 1 0.02
20 28 0.49
21 3 0.05
22 11 0.19
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (20 bp):
TATATAATTTATACATAGTA
Found at i:11040 original size:17 final size:17
Alignment explanation
Indices: 11000--11052 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
10990 AATAAACAAT
*
11000 ATAATTTATACATAGTATAT
1 ATAATTTATA-AT--TATAC
11020 ATAATTTATAATTATAC
1 ATAATTTATAATTATAC
* *
11037 ATAATATATAAATATA
1 ATAATTTATAATTATA
11053 AGTTGTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 18 0.60
19 2 0.07
20 10 0.33
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (17 bp):
ATAATTTATAATTATAC
Found at i:11083 original size:2 final size:2
Alignment explanation
Indices: 11078--11184 Score: 54
Period size: 2 Copynumber: 56.5 Consensus size: 2
11068 AATATGATTC
* *
11078 AT AT AT A- AT TT AT AT AT -T A- ACT AT AT A- AT TT AT AT -T A-
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* * *
11115 AT AA AT -T AT AT AGT TT AT AT AT AGT AT AT A- AT A- AT AT AA AT
1 AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
*
11156 -T AT AT AGT TT AT AT AT AT AT AT AT AT AT A
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A
11185 ATTGTTTCAA
Statistics
Matches: 79, Mismatches: 12, Indels: 28
0.66 0.10 0.24
Matches are distributed among these distances:
1 10 0.13
2 64 0.81
3 5 0.06
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11102 original size:20 final size:20
Alignment explanation
Indices: 11079--11172 Score: 81
Period size: 20 Copynumber: 4.8 Consensus size: 20
11069 ATATGATTCA
*
11079 TATATAATTTATATATTAAC
1 TATATAATTTATATATAAAC
*
11099 TATATAATTTATATTAATAAAT
1 TATATAATTTATA-T-ATAAAC
* *
11121 TATATAGTTTATATAT--AG
1 TATATAATTTATATATAAAC
*
11139 TATATAA--TA-ATATAAAT
1 TATATAATTTATATATAAAC
*
11156 TATATAGTTTATATATA
1 TATATAATTTATATATA
11173 TATATATATA
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
15 4 0.07
16 2 0.03
17 7 0.12
18 7 0.12
19 2 0.03
20 20 0.33
21 2 0.03
22 16 0.27
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATAATTTATATATAAAC
Found at i:11111 original size:18 final size:20
Alignment explanation
Indices: 11079--11136 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 20
11069 ATATGATTCA
11079 TATATAATTTATATATTAAC
1 TATATAATTTATATATTAAC
* *
11099 TATATAATTTATATTAATAAAT
1 TATATAATTTATA-T-ATTAAC
*
11121 TATATAGTTTATATAT
1 TATATAATTTATATAT
11137 AGTATATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 15 0.45
21 2 0.06
22 16 0.48
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TATATAATTTATATATTAAC
Found at i:11126 original size:33 final size:35
Alignment explanation
Indices: 11080--11186 Score: 112
Period size: 35 Copynumber: 3.1 Consensus size: 35
11070 TATGATTCAT
* * *
11080 ATATAATTTATATA-TTAACTATATAATTTAT-ATT
1 ATATAAATTATATAGTTAA-TATATAATATATAATA
* *
11114 A-ATAAATTATATAGTTTATATATAGTATATAATA
1 ATATAAATTATATAGTTAATATATAATATATAATA
*
11148 ATATAAATTATATAGTTTATATATATATATATATATA
1 ATATAAATTATATAGTTAATATATA-ATATATA-ATA
11185 AT
1 AT
11187 TGTTTCAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
33 21 0.34
34 7 0.11
35 23 0.37
36 6 0.10
37 5 0.08
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.49
Consensus pattern (35 bp):
ATATAAATTATATAGTTAATATATAATATATAATA
Found at i:11160 original size:35 final size:32
Alignment explanation
Indices: 10928--11185 Score: 131
Period size: 33 Copynumber: 8.2 Consensus size: 32
10918 ATATTTAAAC
* * *
10928 TATATAAATTATATA-ATT-TATACATA-GTA
1 TATATAAATTATATAGTTTATATATATATATA
*
10957 TATAT-AATT-TATAGTTTATATATAGTTTATA
1 TATATAAATTATATAGTTTATATATA-TATATA
** * *
10988 T-TAATAAACAATATAATTTATACATAGTATATA
1 TAT-ATAAATTATATAGTTTATATATA-TATATA
*
11021 TA-AT---TTATA-A--TTATACATAATATATA
1 TATATAAATTATATAGTTTATATAT-ATATATA
* *
11047 AATATAAGTTGTATATA-TTTA-A-ATATGAT-TCA
1 TATATAA-AT-TATATAGTTTATATATAT-ATAT-A
* * *
11079 TATATAATTTATATA-TTAACTATATA-ATTTA
1 TATATAAATTATATAGTTTA-TATATATATATA
11110 TATTAATAAATTATATAGTTTATATATAGTATATAA
1 TA-T-ATAAATTATATAGTTTATATATA-TATAT-A
11146 TAATATAAATTATATAGTTTATATATATATATA
1 T-ATATAAATTATATAGTTTATATATATATATA
11179 TATATAA
1 TATATAA
11186 TTGTTTCAAT
Statistics
Matches: 182, Mismatches: 17, Indels: 57
0.71 0.07 0.22
Matches are distributed among these distances:
26 15 0.08
27 7 0.04
28 7 0.04
29 13 0.07
30 11 0.06
31 16 0.09
32 28 0.15
33 44 0.24
34 11 0.06
35 26 0.14
36 3 0.02
37 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (32 bp):
TATATAAATTATATAGTTTATATATATATATA
Found at i:11168 original size:26 final size:25
Alignment explanation
Indices: 11079--11180 Score: 73
Period size: 26 Copynumber: 3.9 Consensus size: 25
11069 ATATGATTCA
*
11079 TATATAATTTATATATTAACTATATAAT
1 TATAT-ATTTATATAATAA-TATA-AAT
* * **
11107 T-TATATTAATA-AATTATATAGTT
1 TATATATTTATATAATAATATAAAT
*
11130 TATATATAGTATATAATAATATAAAT
1 TATATAT-TTATATAATAATATAAAT
11156 TATATAGTTTATATATATATATATA
1 TATATA-TTTATATA-ATA-ATATA
11181 TATAATTGTT
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
23 2 0.04
24 9 0.16
25 6 0.11
26 27 0.47
27 7 0.12
28 6 0.11
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (25 bp):
TATATATTTATATAATAATATAAAT
Found at i:13315 original size:16 final size:16
Alignment explanation
Indices: 13276--13333 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 16
13266 ACAATTTAAA
13276 AAAATAAAATATCAA-AT
1 AAAATAAAA-A-CAACAT
13293 AAAAATAAAAA-AACAGT
1 -AAAATAAAAACAACA-T
*
13310 AAAATAAAAACATCAT
1 AAAATAAAAACAACAT
13326 AAAATAAA
1 AAAATAAA
13334 TTAAAATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
15 2 0.06
16 20 0.56
17 5 0.14
18 9 0.25
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (16 bp):
AAAATAAAAACAACAT
Found at i:13348 original size:6 final size:5
Alignment explanation
Indices: 13276--13352 Score: 50
Period size: 5 Copynumber: 14.2 Consensus size: 5
13266 ACAATTTAAA
*
13276 AAAAT AAAAT ATCAAAT AAAAAT AAAA- AAACAGT AAAAT AAAA- ACATCAT
1 AAAAT AAAAT A--AAAT -AAAAT AAAAT AAA-A-T AAAAT AAAAT A-A-AAT
*
13326 AAAAT AAATT AAAAT AAACAT AAAAT A
1 AAAAT AAAAT AAAAT AAA-AT AAAAT A
13353 TAAGGACCTA
Statistics
Matches: 58, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
4 4 0.07
5 33 0.57
6 12 0.21
7 8 0.14
8 1 0.02
ACGTcount: A:0.73, C:0.06, G:0.01, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:20689 original size:42 final size:41
Alignment explanation
Indices: 20576--20689 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 41
20566 GCCCGAAGGT
* * *
20576 CTTATGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
* * * *
20617 CTTATAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGA
*
20659 CTTACT-GATGGCCCGAAGGGCTTACTCATCA
1 CTTA-TAGATGGCCCGAAGGACTTA-TCATCA
20690 AGAAACCCTT
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
41 19 0.33
42 38 0.66
43 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
Found at i:20767 original size:42 final size:42
Alignment explanation
Indices: 20721--20934 Score: 320
Period size: 42 Copynumber: 5.0 Consensus size: 42
20711 TTAGTTTCTT
* *
20721 AGTTGTCATTAAGGAACCCCTACATATCACGTTGGTCCCTCT
1 AGTTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCA
* *
20763 AGTTGTCATCAAGGAACCCCTATATATCACGTTGGTCCCTCG
1 AGTTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCA
* *
20805 AGTTGTCATCAAGGAACCCCTACACATCATGTTGGTCCCTCA
1 AGTTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCA
* *
20847 AGCTTATCATCAAGGAACCTCTACATATCACGTTGGTCCCTCA
1 AG-TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCA
* *
20890 ATCTTCTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCA
1 A-GTTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCA
20933 AG
1 AG
20935 CTTAGTTTCT
Statistics
Matches: 155, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
42 79 0.51
43 76 0.49
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (42 bp):
AGTTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCA
Found at i:20871 original size:43 final size:43
Alignment explanation
Indices: 20726--20938 Score: 313
Period size: 43 Copynumber: 5.0 Consensus size: 43
20716 TTCTTAGTTG
* * *
20726 TCATTAAGGAACCCCTACATATCACGTTGGTCCCTCTAG-TTG
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTA
* * *
20768 TCATCAAGGAACCCCTATATATCACGTTGGTCCCTCGAG-TTG
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTA
* *
20810 TCATCAAGGAACCCCTACACATCATGTTGGTCCCTCAAGCTTA
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTA
* * *
20853 TCATCAAGGAACCTCTACATATCACGTTGGTCCCTCAATCTTC
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTA
20896 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTA
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTA
20939 GTTTCTTATA
Statistics
Matches: 154, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 74 0.48
43 80 0.52
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (43 bp):
TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTA
Found at i:21235 original size:18 final size:18
Alignment explanation
Indices: 21212--21250 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
21202 TTTTAGTCTT
21212 TAATTAGTGTCTTTGCAG
1 TAATTAGTGTCTTTGCAG
21230 TAATTAGTGTCTTTGCAG
1 TAATTAGTGTCTTTGCAG
21248 TAA
1 TAA
21251 ATGATAAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.44
Consensus pattern (18 bp):
TAATTAGTGTCTTTGCAG
Found at i:21293 original size:10 final size:10
Alignment explanation
Indices: 21264--21297 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
21254 ATAAGCTTGT
*
21264 ATTTAAACTA
1 ATTTAAAATA
21274 ATTTACAAATA
1 ATTTA-AAATA
21285 ATTTAAAATA
1 ATTTAAAATA
21295 ATT
1 ATT
21298 ACTAAGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTTAAAATA
Found at i:21531 original size:13 final size:13
Alignment explanation
Indices: 21500--21541 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
21490 CAAAATATTA
21500 TAAACTATATATAT
1 TAAA-TATATATAT
21514 T-AATA-ATATAAT
1 TAAATATATAT-AT
21526 TAAATATATATAT
1 TAAATATATATAT
21539 TAA
1 TAA
21542 TGCGAGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
11 4 0.16
12 5 0.20
13 11 0.44
14 5 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
TAAATATATATAT
Found at i:22732 original size:3 final size:3
Alignment explanation
Indices: 22724--22849 Score: 77
Period size: 3 Copynumber: 42.3 Consensus size: 3
22714 TATTTATAGT
* * * *
22724 ATA ATA ATA TTA ATA TATA A-A TATA ATG ATA TTA ATA TATA ATA GTA
1 ATA ATA ATA ATA ATA -ATA ATA -ATA ATA ATA ATA ATA -ATA ATA ATA
* * *
22771 AT- ATA GTA ATA AT- ATA ATA ATA GT- ATA A-A ATT ATA TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
*
22813 ATA ATA AT- ATG ATA AT- ATA ATA ATGA GATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A -ATA ATA ATA A
22850 CATATATAAT
Statistics
Matches: 95, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
2 12 0.13
3 69 0.73
4 12 0.13
5 2 0.02
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:22733 original size:17 final size:16
Alignment explanation
Indices: 22711--22865 Score: 81
Period size: 16 Copynumber: 9.4 Consensus size: 16
22701 CCCGATTTTG
*
22711 TAATATTTATAGTATAA
1 TAATATTAATA-TATAA
22728 TAATATTAATATATAA
1 TAATATTAATATATAA
* *
22744 -ATATAATGATATTAATATA
1 TA-ATATTAATA-T-ATA-A
*
22763 TAATAGTAATATAGTAA
1 TAATATTAATATA-TAA
22780 TAATA-TAATA-ATAGTA
1 TAATATTAATATATA--A
*
22796 TAAAATT-ATATATAA
1 TAATATTAATATATAA
*
22811 TAATAATAATATGATAA
1 TAATATTAATAT-ATAA
* *
22828 T-ATAATAATGAGATAA
1 TAATATTAAT-ATATAA
22844 TAATA--ACATATATAA
1 TAATATTA-ATATATAA
22859 TTAATAT
1 -TAATAT
22866 ATATAATTAA
Statistics
Matches: 111, Mismatches: 10, Indels: 34
0.72 0.06 0.22
Matches are distributed among these distances:
14 2 0.02
15 14 0.13
16 49 0.44
17 31 0.28
18 6 0.05
19 8 0.07
20 1 0.01
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (16 bp):
TAATATTAATATATAA
Found at i:22776 original size:8 final size:7
Alignment explanation
Indices: 22727--22868 Score: 88
Period size: 6 Copynumber: 20.4 Consensus size: 7
22717 TTATAGTATA
22727 ATAATAT
1 ATAATAT
22734 -TAATAT
1 ATAATAT
22740 ATAA-AT
1 ATAATAT
22746 ATAATGAT
1 ATAAT-AT
22754 ATTAATAT
1 A-TAATAT
22762 ATAATA-
1 ATAATAT
*
22768 GTAATAT
1 ATAATAT
22775 AGTAATAAT
1 A-TAAT-AT
22784 ATAATA-
1 ATAATAT
*
22790 ATAGTAT
1 ATAATAT
*
22797 AAAAT-T
1 ATAATAT
22803 AT-ATAT
1 ATAATAT
22809 AATAATA-
1 -ATAATAT
22816 ATAATAT
1 ATAATAT
22823 GATAATAT
1 -ATAATAT
*
22831 AATAATGAG
1 -ATAAT-AT
22840 ATAATA-
1 ATAATAT
*
22846 ATAACAT
1 ATAATAT
22853 AT-ATA-
1 ATAATAT
22858 ATTAATAT
1 A-TAATAT
22866 ATA
1 ATA
22869 TAATTAATAA
Statistics
Matches: 107, Mismatches: 10, Indels: 36
0.70 0.07 0.24
Matches are distributed among these distances:
5 3 0.03
6 39 0.36
7 22 0.21
8 35 0.33
9 8 0.07
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:22783 original size:11 final size:10
Alignment explanation
Indices: 22723--22872 Score: 88
Period size: 11 Copynumber: 14.9 Consensus size: 10
22713 ATATTTATAG
22723 TATAATAATA
1 TATAATAATA
22733 T-TAAT-ATA
1 TATAATAATA
22741 TA-AAT-ATAA
1 TATAATAAT-A
*
22750 TGATATTAATA
1 T-ATAATAATA
*
22761 TATAATAGTAA
1 TATAATAAT-A
*
22772 TATAGTAATAA
1 TATAATAAT-A
22783 TATAATAATA
1 TATAATAATA
22793 GTATAA-AAT-
1 -TATAATAATA
22802 TATATATAATA
1 TATA-ATAATA
22813 -ATAATAATA
1 TATAATAATA
22822 TGATAAT-ATA
1 T-ATAATAATA
22832 -ATAATGAGATA
1 TATAAT-A-ATA
22843 -ATAATAACATA
1 TATAAT-A-ATA
22854 TATAATTAATA
1 TATAA-TAATA
22865 TAT-ATAAT
1 TATAATAAT
22873 TAATAACAAA
Statistics
Matches: 115, Mismatches: 8, Indels: 35
0.73 0.05 0.22
Matches are distributed among these distances:
8 18 0.16
9 17 0.15
10 22 0.19
11 50 0.43
12 7 0.06
13 1 0.01
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.39
Consensus pattern (10 bp):
TATAATAATA
Found at i:22818 original size:45 final size:44
Alignment explanation
Indices: 22756--22878 Score: 137
Period size: 45 Copynumber: 2.8 Consensus size: 44
22746 ATAATGATAT
*
22756 TAATATATAATAGTAATATAGTAATAATATAATAAT-AGTATAA-AA
1 TAATATATAATAATAATATA-T-ATAATATAATAATGAG-ATAATAA
*
22801 TTATATATAATAATAATAATATGATAATATAATAATGAGATAATAA
1 TAATATATAATAATAAT-ATAT-ATAATATAATAATGAGATAATAA
*
22847 TAACATAT-ATAATTAATATATATAAT-TAATAA
1 TAATATATAATAA-TAATATATATAATATAATAA
22879 CAAAAACGGA
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
43 6 0.09
44 5 0.07
45 41 0.59
46 17 0.25
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (44 bp):
TAATATATAATAATAATATATATAATATAATAATGAGATAATAA
Found at i:22846 original size:19 final size:19
Alignment explanation
Indices: 22724--22878 Score: 57
Period size: 19 Copynumber: 8.4 Consensus size: 19
22714 TATTTATAGT
*
22724 ATAATAATATTAAT-ATATA
1 ATAATAAGA-TAATAATATA
*
22743 A-ATATAATGATATTAATAT-
1 ATA-ATAA-GATAATAATATA
22762 ATAAT-AG-TAAT-ATAGTA
1 ATAATAAGATAATAATA-TA
*
22779 ATAATATA-ATAATAGTATA
1 ATAATA-AGATAATAATATA
* *
22798 A-AATTATAT-AT-A-ATA
1 ATAATAAGATAATAATATA
* *
22813 ATAATAATATGATAATATA
1 ATAATAAGATAATAATATA
*
22832 ATAATGAGATAATAATA-A
1 ATAATAAGATAATAATATA
*
22850 CATATATAA-TTAATATATATA
1 -ATA-ATAAGATAATA-ATATA
22871 ATTAATAA
1 A-TAATAA
22879 CAAAAACGGA
Statistics
Matches: 104, Mismatches: 12, Indels: 39
0.67 0.08 0.25
Matches are distributed among these distances:
15 7 0.07
16 11 0.11
17 11 0.11
18 9 0.09
19 44 0.42
20 19 0.18
21 3 0.03
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.38
Consensus pattern (19 bp):
ATAATAAGATAATAATATA
Found at i:22869 original size:13 final size:12
Alignment explanation
Indices: 22718--22877 Score: 100
Period size: 13 Copynumber: 13.2 Consensus size: 12
22708 TTGTAATATT
22718 TATAGTATAATAA
1 TATA-TATAATAA
22731 TAT-TAATATATAA
1 TATAT-ATA-ATAA
* *
22744 -ATATAATGATAT
1 TATAT-ATAATAA
*
22756 TAATATATAATAG
1 T-ATATATAATAA
*
22769 TA-ATATAGTAA
1 TATATATAATAA
22780 TA-ATATAATAA
1 TATATATAATAA
* *
22791 TAGTATAAAATTA
1 TA-TATATAATAA
22804 TATATAATAATAA
1 TATAT-ATAATAA
*
22817 TA-ATATGATAA
1 TATATATAATAA
*
22828 TATA-ATAATGA
1 TATATATAATAA
*
22839 GATA-ATAATAA
1 TATATATAATAA
*
22850 CATATATAATTAA
1 TATATATAA-TAA
22863 TATATATAATTAA
1 TATATATAA-TAA
22876 TA
1 TA
22878 ACAAAAACGG
Statistics
Matches: 118, Mismatches: 18, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
11 45 0.38
12 19 0.16
13 50 0.42
14 4 0.03
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.39
Consensus pattern (12 bp):
TATATATAATAA
Found at i:23134 original size:42 final size:42
Alignment explanation
Indices: 23083--23164 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
23073 AAGGACTTAT
*
23083 CATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAA
1 CATCATGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAA
* *
23125 CATCATGCTCGAAGGACTTACAGATGACCCGAAGGATTTA
1 CATCATGCTCGAAAGACTGACAGATGACCCGAAGGATTTA
23165 CAAATTCGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAA
Found at i:23159 original size:20 final size:20
Alignment explanation
Indices: 23092--23166 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 20
23082 TCATCTTGCT
* *
23092 CGAAAGACTGACAGATGACC
1 CGAAGGACTTACAGATGACC
* * *
23112 CGAAGGATTTAAACATCATG-CT
1 CGAAGGACTT--ACA-GATGACC
23134 CGAAGGACTTACAGATGACC
1 CGAAGGACTTACAGATGACC
*
23154 CGAAGGATTTACA
1 CGAAGGACTTACA
23167 AATTCGTGAT
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
19 3 0.07
20 23 0.55
22 13 0.31
23 3 0.07
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (20 bp):
CGAAGGACTTACAGATGACC
Found at i:30582 original size:10 final size:10
Alignment explanation
Indices: 30553--30586 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
30543 ATAAGCTTGT
*
30553 ATTTAAACTA
1 ATTTAAAATA
30563 ATTTACAAATA
1 ATTTA-AAATA
30574 ATTTAAAATA
1 ATTTAAAATA
30584 ATT
1 ATT
30587 ACTAAGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTTAAAATA
Found at i:31993 original size:3 final size:3
Alignment explanation
Indices: 31985--32099 Score: 71
Period size: 3 Copynumber: 38.3 Consensus size: 3
31975 TATTTATAGT
* * *
31985 ATA ATA AT- ATAA ATA TATA A-A TATA ATG ATA TTA ATA TATA ATA GTA
1 ATA ATA ATA AT-A ATA -ATA ATA -ATA ATA ATA ATA ATA -ATA ATA ATA
* * *
32032 AT- ATA GTA ATA AT- ATA ATA ATA GTA TATA ATT ATA TATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA
*
32077 ATA AT- ATG ATA AT- ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
32100 ATATGATAAT
Statistics
Matches: 87, Mismatches: 13, Indels: 24
0.70 0.10 0.19
Matches are distributed among these distances:
2 11 0.13
3 62 0.71
4 14 0.16
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:32016 original size:8 final size:7
Alignment explanation
Indices: 31988--32098 Score: 92
Period size: 6 Copynumber: 15.9 Consensus size: 7
31978 TTATAGTATA
31988 ATAATAT
1 ATAATAT
31995 A-AATAT
1 ATAATAT
32001 ATAA-AT
1 ATAATAT
32007 ATAATGAT
1 ATAAT-AT
32015 ATTAATAT
1 A-TAATAT
32023 ATAATA-
1 ATAATAT
*
32029 GTAATAT
1 ATAATAT
32036 AGTAATAAT
1 A-TAAT-AT
32045 ATAATA-
1 ATAATAT
*
32051 ATAGTAT
1 ATAATAT
32058 ATAAT-T
1 ATAATAT
32064 AT-ATAT
1 ATAATAT
32070 AATAATA-
1 -ATAATAT
32077 ATAATAT
1 ATAATAT
32084 GATAATAT
1 -ATAATAT
32092 AATAATA
1 -ATAATA
32099 AATATGATAA
Statistics
Matches: 86, Mismatches: 5, Indels: 25
0.74 0.04 0.22
Matches are distributed among these distances:
5 2 0.02
6 32 0.37
7 15 0.17
8 30 0.35
9 7 0.08
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (7 bp):
ATAATAT
Found at i:32016 original size:16 final size:16
Alignment explanation
Indices: 31989--32027 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
31979 TATAGTATAA
31989 TAATATA-AAT-ATA-
1 TAATATATAATGATAT
32002 TAA-ATATAATGATAT
1 TAATATATAATGATAT
32017 TAATATATAAT
1 TAATATATAAT
32028 AGTAATATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 6 0.27
14 3 0.14
15 3 0.14
16 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TAATATATAATGATAT
Found at i:32094 original size:22 final size:22
Alignment explanation
Indices: 31985--32109 Score: 88
Period size: 22 Copynumber: 5.7 Consensus size: 22
31975 TATTTATAGT
31985 ATAATAATAT-A-AATAT-ATA
1 ATAATAATATGATAATATAATA
32004 A-ATATAATGAT-ATTAATAT-ATA
1 ATA-ATAAT-ATGA-TAATATAATA
*
32026 ATAGTAATATAGTAATAATATAATA
1 ATAATAATAT-G--ATAATATAATA
* *
32051 ATAGT-ATATAATTATATATAATA
1 ATAATAATATGA-TA-ATATAATA
32074 ATAATAATATGATAATATAATA
1 ATAATAATATGATAATATAATA
32096 AT-A-AATATGATAAT
1 ATAATAATATGATAAT
32110 TGTTGAGTTA
Statistics
Matches: 89, Mismatches: 4, Indels: 25
0.75 0.03 0.21
Matches are distributed among these distances:
18 1 0.01
19 6 0.07
20 14 0.16
21 4 0.04
22 25 0.28
23 15 0.17
24 15 0.17
25 9 0.10
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (22 bp):
ATAATAATATGATAATATAATA
Found at i:32108 original size:12 final size:12
Alignment explanation
Indices: 31985--32109 Score: 68
Period size: 11 Copynumber: 10.4 Consensus size: 12
31975 TATTTATAGT
31985 ATAAT-AATATAA
1 ATAATAAATAT-A
31997 ATATATAAATATA
1 ATA-ATAAATATA
*
32010 ATGATATTAATAT-
1 AT-A-ATAAATATA
32023 ATAATAGTAATATA
1 ATAATA--AATATA
*
32037 GTAAT-AATATA
1 ATAATAAATATA
*
32048 ATAAT-AGTAT-
1 ATAATAAATATA
*
32058 ATAATTATATATA
1 ATAA-TAAATATA
32071 ATAAT-AATA-A
1 ATAATAAATATA
*
32081 TATGAT-AATATA
1 -ATAATAAATATA
*
32093 ATAATAAATATG
1 ATAATAAATATA
32105 ATAAT
1 ATAAT
32110 TGTTGAGTTA
Statistics
Matches: 90, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
10 5 0.06
11 32 0.36
12 19 0.21
13 16 0.18
14 18 0.20
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (12 bp):
ATAATAAATATA
Found at i:32109 original size:34 final size:37
Alignment explanation
Indices: 32038--32109 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
32028 AGTAATATAG
*
32038 TAATAATATAATAATAGTATATAATTATATATAATAA
1 TAATAATATAATAATAGTATATAATTAAATATAATAA
* *
32075 TAATAATATGATAATA-TA-ATAA-TAAATATGATAA
1 TAATAATATAATAATAGTATATAATTAAATATAATAA
32109 T
1 T
32110 TGTTGAGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 11 0.34
35 4 0.12
36 2 0.06
37 15 0.47
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (37 bp):
TAATAATATAATAATAGTATATAATTAAATATAATAA
Found at i:33535 original size:21 final size:21
Alignment explanation
Indices: 33510--33550 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33500 AATGATGCAA
33510 AAATT-AATAAATATTAAACTT
1 AAATTAAATAAA-ATTAAACTT
*
33531 AAATTAAATTAAATTAAACT
1 AAATTAAATAAAATTAAACT
33551 AAACCAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTAAATAAAATTAAACTT
Found at i:35609 original size:23 final size:22
Alignment explanation
Indices: 35564--35621 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
35554 GGACGGCTGT
35564 ATCGATGCAC-TC-AGCAGTGC
1 ATCGATGCACTTCAAGCAGTGC
*
35584 ATCGATGCACATTCAAGGAGTGC
1 ATCGATGCAC-TTCAAGCAGTGC
*
35607 ATCGGTGCACCTTCA
1 ATCGATGCA-CTTCA
35622 TGGTGTATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 10 0.31
22 2 0.06
23 19 0.59
24 1 0.03
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (22 bp):
ATCGATGCACTTCAAGCAGTGC
Found at i:36031 original size:21 final size:22
Alignment explanation
Indices: 35991--36031 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
35981 CTAAAGGTTT
* *
35991 TGTAAAGATATCAGCTAATTGG
1 TGTAAAGATATCAACAAATTGG
36013 TGTAAAG-TATCAACAAATT
1 TGTAAAGATATCAACAAATT
36032 CTAGAACTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (22 bp):
TGTAAAGATATCAACAAATTGG
Found at i:43655 original size:24 final size:25
Alignment explanation
Indices: 43609--43663 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
43599 ACAGTTATGC
*
43609 CACTTGAAGTTCAAAAAGATGTG-T
1 CACTTGAAGTGCAAAAAGATGTGAT
* * *
43633 CACTTGAAGTGCCACAAGTTGTGAT
1 CACTTGAAGTGCAAAAAGATGTGAT
43658 CA-TTGA
1 CACTTGA
43664 GGCTCCAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (25 bp):
CACTTGAAGTGCAAAAAGATGTGAT
Found at i:47280 original size:46 final size:46
Alignment explanation
Indices: 47213--47314 Score: 154
Period size: 46 Copynumber: 2.2 Consensus size: 46
47203 CTAAGGGTGC
47213 ATCGATGCATAAAATGCATTCGATG-TTTCA-AACAAGCTTGGAGTGA
1 ATCGATGCATAAAATGCATTCGATGTTTTCATAA-AAGCTT-GAGTGA
* *
47259 ATCGATGCATAAAATGCATTCGATGTTTTCATAAAATCTTGAGTGC
1 ATCGATGCATAAAATGCATTCGATGTTTTCATAAAAGCTTGAGTGA
47305 ATCGATGCAT
1 ATCGATGCAT
47315 GGCATTGCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
46 40 0.77
47 10 0.19
48 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (46 bp):
ATCGATGCATAAAATGCATTCGATGTTTTCATAAAAGCTTGAGTGA
Found at i:47379 original size:20 final size:20
Alignment explanation
Indices: 47354--47408 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
47344 GAAATGGGGT
*
47354 GTGCATCGATGCATCAATGA
1 GTGCATCGGTGCATCAATGA
47374 GTGCATCGGTGCATCAATGA
1 GTGCATCGGTGCATCAATGA
47394 GTGCATCGGTGCATC
1 GTGCATCGGTGCATC
47409 CCTTCACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (20 bp):
GTGCATCGGTGCATCAATGA
Found at i:47684 original size:13 final size:13
Alignment explanation
Indices: 47666--47692 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47656 TAATAATAAC
47666 ATATATAATTAAT
1 ATATATAATTAAT
47679 ATATATAATTAAT
1 ATATATAATTAAT
47692 A
1 A
47693 ACAAAAACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATAATTAAT
Found at i:53520 original size:18 final size:18
Alignment explanation
Indices: 53497--53537 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
53487 TCTATTTGTT
*
53497 CTTCATCAGACATACGAG
1 CTTCATCAGAAATACGAG
*
53515 CTTCATCAGAAATACGAT
1 CTTCATCAGAAATACGAG
53533 CTTCA
1 CTTCA
53538 GACGTATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (18 bp):
CTTCATCAGAAATACGAG
Found at i:60616 original size:2 final size:2
Alignment explanation
Indices: 60609--60662 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
60599 GCACGTACAC
60609 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60651 AT AT AT AT AT AT
1 AT AT AT AT AT AT
60663 TGAATCTTGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61111 original size:34 final size:34
Alignment explanation
Indices: 61070--61206 Score: 256
Period size: 34 Copynumber: 4.0 Consensus size: 34
61060 ACACACAAAA
*
61070 AAATACTTAAAACAGAATACCAAATAAGCTAAAC
1 AAATACTTAAAACAGAAAACCAAATAAGCTAAAC
*
61104 AAATACTTAAAACAAAAAACCAAATAAGCTAAAC
1 AAATACTTAAAACAGAAAACCAAATAAGCTAAAC
61138 AAATACTTAAAACAGAAAACCAAATAAGCTAAAC
1 AAATACTTAAAACAGAAAACCAAATAAGCTAAAC
61172 AAATACTTAAAACAGAAAACCAAATAAGCTAAAC
1 AAATACTTAAAACAGAAAACCAAATAAGCTAAAC
61206 A
1 A
61207 TTATAGAATC
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 100 1.00
ACGTcount: A:0.62, C:0.18, G:0.05, T:0.15
Consensus pattern (34 bp):
AAATACTTAAAACAGAAAACCAAATAAGCTAAAC
Found at i:62793 original size:34 final size:34
Alignment explanation
Indices: 62750--62818 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
62740 TTACACATAA
* *
62750 AAATACTTAAAATAGAATACCAAATAAGCTAAAC
1 AAATACTTAAAACAGAATACAAAATAAGCTAAAC
*
62784 AAATACTTAAAACATAATACAAAATAAGCTAAAC
1 AAATACTTAAAACAGAATACAAAATAAGCTAAAC
62818 A
1 A
62819 TTATAGAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.61, C:0.14, G:0.04, T:0.20
Consensus pattern (34 bp):
AAATACTTAAAACAGAATACAAAATAAGCTAAAC
Found at i:65314 original size:22 final size:21
Alignment explanation
Indices: 65288--65335 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
65278 AATAATAGGT
65288 AAATAAAGGATAAGCTGTAAAG
1 AAATAAAGG-TAAGCTGTAAAG
** *
65310 AAATATTGGTAGGCTGTAAAG
1 AAATAAAGGTAAGCTGTAAAG
65331 AAATA
1 AAATA
65336 TTGGTTTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.50, C:0.04, G:0.23, T:0.23
Consensus pattern (21 bp):
AAATAAAGGTAAGCTGTAAAG
Found at i:65326 original size:21 final size:21
Alignment explanation
Indices: 65301--65340 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
65291 TAAAGGATAA
65301 GCTGTAAAGAAATATTGGTAG
1 GCTGTAAAGAAATATTGGTAG
65322 GCTGTAAAGAAATATTGGT
1 GCTGTAAAGAAATATTGGT
65341 TTGAACAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.30
Consensus pattern (21 bp):
GCTGTAAAGAAATATTGGTAG
Found at i:66677 original size:31 final size:31
Alignment explanation
Indices: 66639--66719 Score: 162
Period size: 31 Copynumber: 2.6 Consensus size: 31
66629 ACGCTTTTTT
66639 TTGTTCATGTTCGTTCATTAAGGAATATAGC
1 TTGTTCATGTTCGTTCATTAAGGAATATAGC
66670 TTGTTCATGTTCGTTCATTAAGGAATATAGC
1 TTGTTCATGTTCGTTCATTAAGGAATATAGC
66701 TTGTTCATGTTCGTTCATT
1 TTGTTCATGTTCGTTCATT
66720 TAAATGATAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.46
Consensus pattern (31 bp):
TTGTTCATGTTCGTTCATTAAGGAATATAGC
Found at i:66764 original size:24 final size:24
Alignment explanation
Indices: 66729--66787 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
66719 TTAAATGATA
*
66729 AACGAACGTAAACAAACACAAACG
1 AACGAACATAAACAAACACAAACG
*
66753 AACGAACATAAACGAACACAAACG
1 AACGAACATAAACAAACACAAACG
66777 AACGAACATAA
1 AACGAACATAA
66788 TAAATGAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.59, C:0.24, G:0.12, T:0.05
Consensus pattern (24 bp):
AACGAACATAAACAAACACAAACG
Found at i:70905 original size:14 final size:14
Alignment explanation
Indices: 70886--70981 Score: 56
Period size: 14 Copynumber: 6.6 Consensus size: 14
70876 TTATATTTAT
70886 TTAATTAATTTAAA
1 TTAATTAATTTAAA
*
70900 TTAATTATGATATTATTA
1 TTAATTA--AT-TTA-AA
70918 TT-ATTAA-TT-AA
1 TTAATTAATTTAAA
*
70929 TTAAATTAAATTAAA
1 TT-AATTAATTTAAA
* *
70944 -TAATAAATTTTAA
1 TTAATTAATTTAAA
*
70957 TTATTATTAATTTAAT
1 TTA--ATTAATTTAAA
70973 TTAATTAAT
1 TTAATTAAT
70982 GTGAGGAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 22
0.68 0.09 0.24
Matches are distributed among these distances:
11 3 0.05
13 16 0.25
14 18 0.29
15 3 0.05
16 13 0.21
17 7 0.11
18 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (14 bp):
TTAATTAATTTAAA
Found at i:70938 original size:39 final size:43
Alignment explanation
Indices: 70879--70980 Score: 122
Period size: 39 Copynumber: 2.5 Consensus size: 43
70869 TTCTAGGTTA
* * * *
70879 TATTTATTTAATTAATTTAAATT-AATTAT-GATATT-ATTAT
1 TATTAATTTAATTAAATTAAATTAAATAATAAATATTAATTAT
*
70919 TATTAA-TTAATTAAATTAAATTAAATAATAAATTTTAATTAT
1 TATTAATTTAATTAAATTAAATTAAATAATAAATATTAATTAT
*
70961 TATTAATTTAATTTAATTAA
1 TATTAATTTAATTAAATTAA
70981 TGTGAGGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
39 15 0.29
40 10 0.19
41 4 0.08
42 11 0.21
43 12 0.23
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (43 bp):
TATTAATTTAATTAAATTAAATTAAATAATAAATATTAATTAT
Found at i:72222 original size:42 final size:43
Alignment explanation
Indices: 72152--72442 Score: 442
Period size: 43 Copynumber: 6.8 Consensus size: 43
72142 AGGTCTTATA
* * * * *
72152 CTTGCACATAGCAAAAGAGCCTGTGGAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
* * *
72195 CTTGCACACAACAAAGAAACCT-GGGAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
* *
72237 CTTACACACAGCAAAGGAACCT-GGGAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
*
72279 CTTGCACACAGCAAAGGAACCTAGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
*
72322 CTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
* *
72365 CTTGCACACAGCAAAGGGACTTGGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
72408 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAA
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAA
72443 CGGTAATTAA
Statistics
Matches: 231, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
42 79 0.34
43 152 0.66
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (43 bp):
CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
Found at i:75197 original size:13 final size:13
Alignment explanation
Indices: 75179--75209 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
75169 GGTCAACGCC
*
75179 GGTCAACGGGTCG
1 GGTCAACAGGTCG
75192 GGTCAACAGGTCG
1 GGTCAACAGGTCG
75205 GGTCA
1 GGTCA
75210 GGTCAACGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.23, G:0.42, T:0.16
Consensus pattern (13 bp):
GGTCAACAGGTCG
Found at i:75206 original size:18 final size:18
Alignment explanation
Indices: 75185--75231 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
75175 CGCCGGTCAA
75185 CGGGTCGGGTCAACAGGT
1 CGGGTCGGGTCAACAGGT
* *
75203 CGGGTCAGGTCAACGGGT
1 CGGGTCGGGTCAACAGGT
75221 CGGGTCGGGTC
1 CGGGTCGGGTC
75232 GGGTTATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACAGGT
Found at i:77187 original size:42 final size:43
Alignment explanation
Indices: 77108--77398 Score: 451
Period size: 43 Copynumber: 6.8 Consensus size: 43
77098 AGGTCTTATA
* * * * *
77108 CTTGCACATAGCAAAAGAGCCTGTGGAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
*
77151 CTTGCACACAGCAAAGGAACCT-GGGAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
* * *
77193 CTTGCACACAACAAAGGAACCT-GGGAAACTGTAAGTCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
*
77235 CTTGCACACAGCAAAGGAACCTAGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
* *
77278 CTTGCGCACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
*
77321 CTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
77364 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAA
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAA
77399 CAATAATTAA
Statistics
Matches: 233, Mismatches: 14, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
42 80 0.34
43 153 0.66
ACGTcount: A:0.32, C:0.25, G:0.26, T:0.17
Consensus pattern (43 bp):
CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
Found at i:79502 original size:43 final size:43
Alignment explanation
Indices: 79331--79621 Score: 442
Period size: 43 Copynumber: 6.8 Consensus size: 43
79321 AGGTCTTATA
* * * ** *
79331 CTTGCACATAGCAAAAGAGCCTGTAGAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
* *
79374 CTTGCACACAACAAAGGAACCT-GGGAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
* *
79416 CTTCCACACAGCAAAGGAACCT-GGGAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
*
79458 CTTGCACACAGCAAAGGAACCTAGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
*
79501 CTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
*
79544 CTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
*
79587 CTTGCACACAACAAAGGAACCTGGGGGAACTGTAA
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAA
79622 CGGTAATTAA
Statistics
Matches: 233, Mismatches: 14, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
42 79 0.34
43 154 0.66
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (43 bp):
CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
Found at i:82163 original size:24 final size:24
Alignment explanation
Indices: 82136--82242 Score: 90
Period size: 24 Copynumber: 4.5 Consensus size: 24
82126 AAACGGAGAT
*
82136 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* *
82160 ATCA-AATATCAGAACAGAATCCAG
1 ATCAGAA-ATCAAAACAGAATTCAG
* * * * *
82184 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** * *
82208 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
82232 ATCAGAAATCA
1 ATCAGAAATCA
82243 GATAAAATAT
Statistics
Matches: 62, Mismatches: 19, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
23 2 0.03
24 59 0.95
25 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:82242 original size:48 final size:48
Alignment explanation
Indices: 82136--82244 Score: 110
Period size: 48 Copynumber: 2.3 Consensus size: 48
82126 AAACGGAGAT
* * * *
82136 ATCAGAAATCAAAACATAATTCAGATCAAATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAAATATCAAAACAGAATCCAA
* * * * * * * *
82184 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAAATATCAAAACAGAATCCAA
82232 ATCAGAAATCAGA
1 ATCAGAAATCAGA
82245 TAAAATATTC
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAAATATCAAAACAGAATCCAA
Found at i:83466 original size:18 final size:18
Alignment explanation
Indices: 83445--83480 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
83435 CTTCCATCCG
*
83445 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
83463 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
83481 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:87726 original size:23 final size:23
Alignment explanation
Indices: 87696--87746 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
87686 GAGTAAAAGG
87696 TTAGTAGTAAGAGTAACCTAAGA
1 TTAGTAGTAAGAGTAACCTAAGA
87719 TTAGTAGTAAGAGTAACCTAAGA
1 TTAGTAGTAAGAGTAACCTAAGA
87742 TTAGT
1 TTAGT
87747 TAAGTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (23 bp):
TTAGTAGTAAGAGTAACCTAAGA
Found at i:89032 original size:14 final size:14
Alignment explanation
Indices: 89013--89050 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
89003 AGGCCACATT
89013 GTATTGTCAAATTG
1 GTATTGTCAAATTG
89027 GTATTGTCAAATTG
1 GTATTGTCAAATTG
89041 GTATTGTCAA
1 GTATTGTCAA
89051 GCAATTCTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (14 bp):
GTATTGTCAAATTG
Found at i:93532 original size:10 final size:10
Alignment explanation
Indices: 93503--93536 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
93493 ATAAGCTTGG
*
93503 ATTTAAACTA
1 ATTTAAAATA
93513 ATTTACAAATA
1 ATTTA-AAATA
93524 ATTTAAAATA
1 ATTTAAAATA
93534 ATT
1 ATT
93537 AATAAGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTTAAAATA
Found at i:94941 original size:3 final size:3
Alignment explanation
Indices: 94933--95047 Score: 80
Period size: 3 Copynumber: 38.3 Consensus size: 3
94923 TATTTGTAGT
* * *
94933 ATA ATA AT- ATAA ATA TATA A-A TATA ATG ATA TTA ATA TATA ATA GTA
1 ATA ATA ATA AT-A ATA -ATA ATA -ATA ATA ATA ATA ATA -ATA ATA ATA
* *
94980 AT- ATA GTA ATA AT- ATA ATA ATA ATA TATA ATT ATA TATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA
*
95025 AT- ATG ATA AT- ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
95048 GATAATTGTT
Statistics
Matches: 89, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
2 11 0.12
3 63 0.71
4 15 0.17
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:94964 original size:8 final size:7
Alignment explanation
Indices: 94936--95046 Score: 92
Period size: 6 Copynumber: 15.9 Consensus size: 7
94926 TTGTAGTATA
94936 ATAATAT
1 ATAATAT
94943 A-AATAT
1 ATAATAT
94949 ATAA-AT
1 ATAATAT
94955 ATAATGAT
1 ATAAT-AT
94963 ATTAATAT
1 A-TAATAT
94971 ATAATA-
1 ATAATAT
*
94977 GTAATAT
1 ATAATAT
94984 AGTAATAAT
1 A-TAAT-AT
94993 ATAATA-
1 ATAATAT
94999 ATAATAT
1 ATAATAT
95006 ATAAT-T
1 ATAATAT
95012 AT-ATAT
1 ATAATAT
95018 AATAATAAT
1 -ATAAT-AT
*
95027 ATGATAAT
1 ATAAT-AT
95035 ATAATA-
1 ATAATAT
95041 ATAATA
1 ATAATA
95047 AGATAATTGT
Statistics
Matches: 88, Mismatches: 4, Indels: 25
0.75 0.03 0.21
Matches are distributed among these distances:
5 2 0.02
6 33 0.38
7 17 0.19
8 27 0.31
9 9 0.10
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (7 bp):
ATAATAT
Found at i:94964 original size:16 final size:16
Alignment explanation
Indices: 94937--95051 Score: 53
Period size: 13 Copynumber: 7.9 Consensus size: 16
94927 TGTAGTATAA
94937 TAATATA-AAT-ATA-
1 TAATATATAATGATAT
94950 TAA-ATATAATGATAT
1 TAATATATAATGATAT
*
94965 TAATATAT-A--ATAG
1 TAATATATAATGATAT
*
94978 TAATATAGTAATAATA-
1 TAATATA-TAATGATAT
94994 TAATA-ATAAT-ATA-
1 TAATATATAATGATAT
* *
95007 TAAT-TATATATAATAA
1 TAATATATA-ATGATAT
*
95023 TAATATGATAAT-ATAA
1 TAATAT-ATAATGATAT
95039 TAATA-ATAA-GATA
1 TAATATATAATGATA
95052 ATTGTTGAGT
Statistics
Matches: 86, Mismatches: 1, Indels: 29
0.74 0.01 0.25
Matches are distributed among these distances:
12 3 0.03
13 26 0.30
14 17 0.20
15 9 0.10
16 22 0.26
17 6 0.07
18 3 0.03
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (16 bp):
TAATATATAATGATAT
Found at i:94983 original size:35 final size:35
Alignment explanation
Indices: 94936--95043 Score: 104
Period size: 35 Copynumber: 3.2 Consensus size: 35
94926 TTGTAGTATA
94936 ATAATATAAATATA-T-A-AATATAATGATATTAATAT
1 ATAATATAAATATAGTAATAATATAAT-A-A-TAATAT
94971 ATAATAGT-AATATAGTAATAATATAATAATAATAT
1 ATAATA-TAAATATAGTAATAATATAATAATAATAT
* * *
95006 ATAAT-TATATATAATAATAATATGATAAT-ATA-
1 ATAATATAAATATAGTAATAATATAATAATAATAT
95038 ATAATA
1 ATAATA
95044 ATAAGATAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
32 5 0.08
33 4 0.06
34 19 0.30
35 23 0.36
36 3 0.05
37 2 0.03
38 8 0.12
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (35 bp):
ATAATATAAATATAGTAATAATATAATAATAATAT
Found at i:95044 original size:22 final size:21
Alignment explanation
Indices: 94933--95047 Score: 114
Period size: 22 Copynumber: 5.3 Consensus size: 21
94923 TATTTGTAGT
94933 ATAATAATATA-AATAT-ATA
1 ATAATAATATATAATATAATA
94952 A-ATATAATGATATTAATAT-ATA
1 ATA-ATAAT-ATA-TAATATAATA
*
94974 ATAGTAATATAGTAATA-ATATA
1 ATAATAATATA-TAATATA-ATA
94996 ATAATAATATATAATTATATATA
1 ATAATAATATATAA-TATA-ATA
95019 ATAATAATATGATAATATAATA
1 ATAATAATAT-ATAATATAATA
95041 ATAATAA
1 ATAATAA
95048 GATAATTGTT
Statistics
Matches: 83, Mismatches: 3, Indels: 17
0.81 0.03 0.17
Matches are distributed among these distances:
18 1 0.01
19 6 0.07
20 3 0.04
21 11 0.13
22 38 0.46
23 20 0.24
24 4 0.05
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
ATAATAATATATAATATAATA
Found at i:95052 original size:11 final size:11
Alignment explanation
Indices: 94933--95053 Score: 103
Period size: 11 Copynumber: 11.2 Consensus size: 11
94923 TATTTGTAGT
94933 ATAATAATAT-
1 ATAATAATATA
94943 A-AAT-ATATA
1 ATAATAATATA
94952 A-ATATAATGATA
1 ATA-ATAAT-ATA
*
94964 TTAAT-ATATA
1 ATAATAATATA
*
94974 ATAGTAATATA
1 ATAATAATATA
*
94985 GTAATAATATA
1 ATAATAATATA
94996 ATAATAATAT-
1 ATAATAATATA
95006 ATAATTATATATA
1 ATAA-TA-ATATA
*
95019 ATAATAATATG
1 ATAATAATATA
95030 ATAAT-ATAATA
1 ATAATAAT-ATA
*
95041 ATAATAAGATA
1 ATAATAATATA
95052 AT
1 AT
95054 TGTTGAGTTA
Statistics
Matches: 91, Mismatches: 9, Indels: 21
0.75 0.07 0.17
Matches are distributed among these distances:
8 4 0.04
9 5 0.05
10 15 0.16
11 50 0.55
12 12 0.13
13 5 0.05
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (11 bp):
ATAATAATATA
Found at i:95053 original size:8 final size:8
Alignment explanation
Indices: 94932--95043 Score: 80
Period size: 8 Copynumber: 14.2 Consensus size: 8
94922 ATATTTGTAG
94932 TATAATAA
1 TATAATAA
94940 TAT-A-AA
1 TATAATAA
94946 TAT-ATAA
1 TATAATAA
94953 -AT-ATAA
1 TATAATAA
*
94959 TGATATTAA
1 T-ATAATAA
94968 TAT-ATAA
1 TATAATAA
94975 TAGTAAT-A
1 TA-TAATAA
94983 TAGTAATAA
1 TA-TAATAA
94992 TATAATAA
1 TATAATAA
95000 TAATATATAA
1 T-ATA-ATAA
95010 T-T-ATATA
1 TATAATA-A
95017 TAATAATAA
1 T-ATAATAA
*
95026 TATGATAA
1 TATAATAA
95034 TATAATAA
1 TATAATAA
95042 TA
1 TA
95044 ATAAGATAAT
Statistics
Matches: 87, Mismatches: 4, Indels: 26
0.74 0.03 0.22
Matches are distributed among these distances:
6 15 0.17
7 10 0.11
8 39 0.45
9 15 0.17
10 8 0.09
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (8 bp):
TATAATAA
Found at i:104442 original size:46 final size:46
Alignment explanation
Indices: 104352--104450 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 46
104342 CTAAGGGTGC
* *
104352 ATCGATGCATACAATGCATTCGATGTTTCAAACAAGCTTAGAGTGA
1 ATCGATGCATAAAATGCATTCGATGTTTCAAACAAGCCTAGAGTGA
* *
104398 ATCGATGCATAAAATGCATTCGATGTTTTCATAA-AATCCT-GAGTGC
1 ATCGATGCATAAAATGCATTCGATG-TTTCA-AACAAGCCTAGAGTGA
104444 ATCGATG
1 ATCGATG
104451 TACGGTAGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
46 36 0.77
47 9 0.19
48 2 0.04
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (46 bp):
ATCGATGCATAAAATGCATTCGATGTTTCAAACAAGCCTAGAGTGA
Found at i:104813 original size:13 final size:13
Alignment explanation
Indices: 104795--104821 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
104785 TAATAATAAC
104795 ATATATAATTAAT
1 ATATATAATTAAT
104808 ATATATAATTAAT
1 ATATATAATTAAT
104821 A
1 A
104822 ACAAAAACGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATAATTAAT
Found at i:106765 original size:13 final size:13
Alignment explanation
Indices: 106747--106782 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
106737 CATCTTATTA
106747 CTTTCTTTTTTTT
1 CTTTCTTTTTTTT
106760 CTTTCTTCTTTTTT
1 CTTTCTT-TTTTTT
106774 -TTTCTTTTT
1 CTTTCTTTTT
106783 CCCTTTTGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 13 0.59
14 6 0.27
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
CTTTCTTTTTTTT
Found at i:106789 original size:17 final size:17
Alignment explanation
Indices: 106751--106789 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
106741 TTATTACTTT
106751 CTTTTTTTTCTTTCTTC
1 CTTTTTTTTCTTTCTTC
*
106768 TTTTTTTTTCTTT-TTC
1 CTTTTTTTTCTTTCTTC
*
106784 CCTTTT
1 CTTTTT
106790 GCGATATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
CTTTTTTTTCTTTCTTC
Found at i:111003 original size:18 final size:20
Alignment explanation
Indices: 110964--111003 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
110954 AGACAAAAAG
110964 AAAACAAGTTAAGATGTATAA
1 AAAACAAGTTAAGA-GTATAA
110985 AAAACAAG-TAAGA-TATAA
1 AAAACAAGTTAAGAGTATAA
111003 A
1 A
111004 GGTAAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
20 5 0.26
21 8 0.42
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.20
Consensus pattern (20 bp):
AAAACAAGTTAAGAGTATAA
Found at i:117047 original size:34 final size:34
Alignment explanation
Indices: 117004--117106 Score: 188
Period size: 34 Copynumber: 3.0 Consensus size: 34
116994 ACACAAAAAA
*
117004 AAATACTTAAAACAGAATACCAAATAAGCTAAAC
1 AAATACTTAAAACAGAAAACCAAATAAGCTAAAC
117038 AAATACTTAAAACAGAAAACCAAATAAGCTAAAC
1 AAATACTTAAAACAGAAAACCAAATAAGCTAAAC
*
117072 AAATACTTAAAACAAAAAACCAAATAAGCTAAAC
1 AAATACTTAAAACAGAAAACCAAATAAGCTAAAC
117106 A
1 A
117107 TTATAGAATC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.62, C:0.17, G:0.05, T:0.16
Consensus pattern (34 bp):
AAATACTTAAAACAGAAAACCAAATAAGCTAAAC
Found at i:118206 original size:19 final size:19
Alignment explanation
Indices: 118179--118223 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
118169 CTAAGGCTGA
*
118179 TATAGGCTGAATTTTATGT
1 TATAAGCTGAATTTTATGT
118198 TATAAGCTGAATTTTATGT
1 TATAAGCTGAATTTTATGT
118217 TATAAGC
1 TATAAGC
118224 GTGGTTCGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (19 bp):
TATAAGCTGAATTTTATGT
Found at i:119065 original size:21 final size:21
Alignment explanation
Indices: 119041--119100 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
119031 AAAATACTTA
119041 AAACAGAATACCAAATAAGCT
1 AAACAGAATACCAAATAAGCT
*
119062 AAACA-AATA-C---TTA---
1 AAACAGAATACCAAATAAGCT
119075 AAACAGAATACCAAATAAGCT
1 AAACAGAATACCAAATAAGCT
119096 AAACA
1 AAACA
119101 TTATAGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 16
0.62 0.04 0.34
Matches are distributed among these distances:
13 5 0.17
14 4 0.14
15 1 0.03
16 2 0.07
18 2 0.07
19 1 0.03
20 4 0.14
21 10 0.34
ACGTcount: A:0.60, C:0.18, G:0.07, T:0.15
Consensus pattern (21 bp):
AAACAGAATACCAAATAAGCT
Found at i:119075 original size:34 final size:34
Alignment explanation
Indices: 119032--119100 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
119022 ACACACAGAA
119032 AAATACTTAAAACAGAATACCAAATAAGCTAAAC
1 AAATACTTAAAACAGAATACCAAATAAGCTAAAC
119066 AAATACTTAAAACAGAATACCAAATAAGCTAAAC
1 AAATACTTAAAACAGAATACCAAATAAGCTAAAC
119100 A
1 A
119101 TTATAGAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.59, C:0.17, G:0.06, T:0.17
Consensus pattern (34 bp):
AAATACTTAAAACAGAATACCAAATAAGCTAAAC
Found at i:123855 original size:14 final size:14
Alignment explanation
Indices: 123836--123880 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
123826 AATGAACGTA
123836 AACGAACACAAACG
1 AACGAACACAAACG
123850 AACGAACACAAACG
1 AACGAACACAAACG
*
123864 AACGAACATAAACG
1 AACGAACACAAACG
123878 AAC
1 AAC
123881 ATAATAAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.58, C:0.27, G:0.13, T:0.02
Consensus pattern (14 bp):
AACGAACACAAACG
Found at i:128429 original size:19 final size:18
Alignment explanation
Indices: 128403--128458 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
128393 CGATAAACCG
128403 AACCGAACCGAACCGAAA
1 AACCGAACCGAACCGAAA
128421 AACCCGAACCGTTAA---AAA
1 AA-CCGAACCG--AACCGAAA
128439 AACCGAACCGAACCGAAA
1 AACCGAACCGAACCGAAA
128457 AA
1 AA
128459 ACCGGTTTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
15 2 0.06
17 8 0.25
18 12 0.38
19 8 0.25
21 2 0.06
ACGTcount: A:0.52, C:0.30, G:0.14, T:0.04
Consensus pattern (18 bp):
AACCGAACCGAACCGAAA
Found at i:130111 original size:76 final size:76
Alignment explanation
Indices: 130012--130175 Score: 211
Period size: 76 Copynumber: 2.2 Consensus size: 76
130002 TTTAGGGAGA
* * * * * *
130012 TTATAATTTTGTGGTAATCCCTAAATTCAATCTAAAAAAATAAATCTTATGATTTTTTGGGATTA
1 TTATGATTTTTTGATAATCCCTAAATTCAATCTAAAAAAATAAATATTATGATTTTTAGAGATTA
*
130077 CGATTTAGAGT
66 CAATTTAGAGT
* * * *
130088 TTATGATTTTTTGATAATCCCTAATTTCATTCTAAAAAAATGAATATTATGATTTTTAGATATTA
1 TTATGATTTTTTGATAATCCCTAAATTCAATCTAAAAAAATAAATATTATGATTTTTAGAGATTA
130153 CAATTTAGAGT
66 CAATTTAGAGT
* *
130164 ATATGTTTTTTT
1 TTATGATTTTTT
130176 TAGATTTTTA
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (76 bp):
TTATGATTTTTTGATAATCCCTAAATTCAATCTAAAAAAATAAATATTATGATTTTTAGAGATTA
CAATTTAGAGT
Found at i:130221 original size:29 final size:28
Alignment explanation
Indices: 130168--130243 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
130158 TAGAGTATAT
*
130168 GTTTTTTTTAGATTTTTAGAAATTTATG
1 GTTTTTTTTAGATTTTTAGAAATTTAAG
* * **
130196 AGTTTTTTTTATATTTTTTGGTATTTAAG
1 -GTTTTTTTTAGATTTTTAGAAATTTAAG
*
130225 GTGTTTTTTTAGAATTTTA
1 GT-TTTTTTTAGATTTTTA
130244 ATAAGATCAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 2 0.05
29 36 0.95
ACGTcount: A:0.22, C:0.00, G:0.14, T:0.63
Consensus pattern (28 bp):
GTTTTTTTTAGATTTTTAGAAATTTAAG
Found at i:131246 original size:20 final size:22
Alignment explanation
Indices: 131174--131249 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
131164 CAATGGGGAG
* *
131174 GTATCGGTACCATAGTATAGTA
1 GTATCGATACCATATTATAGTA
131196 GTATCGATACCATATTATAGTA
1 GTATCGATACCATATTATAGTA
* * *
131218 GTATTGATACCATGTTA-AG-G
1 GTATCGATACCATATTATAGTA
131238 GTATCGATACCA
1 GTATCGATACCA
131250 GGCAACATCG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 11 0.23
21 2 0.04
22 35 0.73
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (22 bp):
GTATCGATACCATATTATAGTA
Found at i:132072 original size:22 final size:22
Alignment explanation
Indices: 132044--132107 Score: 112
Period size: 22 Copynumber: 2.9 Consensus size: 22
132034 GTCAAGGGTT
132044 CATAGGTCATTCGGGACATATA
1 CATAGGTCATTCGGGACATATA
132066 CATAGGTTC-TTCGGGACATATA
1 CATAGG-TCATTCGGGACATATA
132088 CATAGGTCATTCGGGACATA
1 CATAGGTCATTCGGGACATA
132108 CATGAGGTCC
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.05
22 36 0.90
23 2 0.05
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (22 bp):
CATAGGTCATTCGGGACATATA
Found at i:132125 original size:21 final size:20
Alignment explanation
Indices: 132044--132126 Score: 85
Period size: 22 Copynumber: 3.9 Consensus size: 20
132034 GTCAAGGGTT
*
132044 CATAGGTCATTCGGGACATATA
1 CATAGGTCCTTCGGGAC--ATA
*
132066 CATAGGTTCTTCGGGACATATA
1 CATAGGTCCTTCGGGAC--ATA
*
132088 CATAGGTCATTCGGGACATA
1 CATAGGTCCTTCGGGACATA
*
132108 CATGAGGTCCTTCAGGACA
1 CAT-AGGTCCTTCGGGACA
132127 AATTTCATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.11
21 13 0.24
22 35 0.65
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (20 bp):
CATAGGTCCTTCGGGACATA
Found at i:134190 original size:23 final size:23
Alignment explanation
Indices: 134164--134232 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
134154 CACCACAGCT
*
134164 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
134187 CGTAGAATTGCACC-AGAGTGCCG
1 CGTAGAATTGCACCGA-AGTGCCA
*
134210 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
134233 TATAATAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.03
23 39 0.98
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:140988 original size:23 final size:23
Alignment explanation
Indices: 140957--141025 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
140947 TACCACAGCT
*
140957 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
140980 CGTAGAATTACACC-AGAGTGCCG
1 CGTAGAATTGCACCGA-AGTGCCA
*
141003 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
141026 TATAATAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
22 1 0.03
23 37 0.97
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:146552 original size:17 final size:18
Alignment explanation
Indices: 146524--146557 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
146514 AAGTATAAAG
146524 ATTTATTTAAAATTAATC
1 ATTTATTTAAAATTAATC
146542 ATTTA-TTAAAATTAAT
1 ATTTATTTAAAATTAAT
146558 TATAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTATTTAAAATTAATC
Done.