Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold485
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: 999764
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 8
Found at i:5612 original size:11 final size:11
Alignment explanation
Indices: 5596--5621 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5586 AGGATAGCAA
5596 AAAATAAAAAT
1 AAAATAAAAAT
5607 AAAATAAAAAT
1 AAAATAAAAAT
5618 AAAA
1 AAAA
5622 AATCACTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:6007 original size:13 final size:12
Alignment explanation
Indices: 5972--6034 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
5962 GTTAAAAATT
5972 TATTTTATA-TA
1 TATTTTATATTA
5983 T-TTTGATATATTCA
1 TATTT--TATATT-A
5997 TATTTTATATTA
1 TATTTTATATTA
6009 TATTTT-TATTA
1 TATTTTATATTA
*
6020 -ATTTTTAAATTA
1 TA-TTTTATATTA
6032 TAT
1 TAT
6035 CATATTTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
10 4 0.09
11 10 0.23
12 16 0.37
13 8 0.19
14 2 0.05
15 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (12 bp):
TATTTTATATTA
Found at i:6061 original size:11 final size:12
Alignment explanation
Indices: 5991--6061 Score: 51
Period size: 12 Copynumber: 5.8 Consensus size: 12
5981 TATTTTGATA
5991 TATTCATATTTT
1 TATTCATATTTT
6003 ATATT-ATATTTT
1 -TATTCATATTTT
* *
6015 TATTAATTTTTAAAT
1 TATTCATATTT---T
6030 TATATCATATTTT
1 TAT-TCATATTTT
6043 TATT--TATTTT
1 TATTCATATTTT
6053 T-TTCATATT
1 TATTCATATT
6062 ATGTTTATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
9 2 0.04
10 7 0.15
11 8 0.17
12 13 0.27
13 8 0.17
15 4 0.08
16 6 0.12
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTCATATTTT
Found at i:6922 original size:51 final size:48
Alignment explanation
Indices: 6867--6973 Score: 133
Period size: 51 Copynumber: 2.2 Consensus size: 48
6857 TAGAGTACCC
* * *
6867 GAGTTGCCAAAGCCTGAATTGTCCAAAGCTCCTGAGTTTCCAAAAGTGCCA
1 GAGTTGCCAAAGCCTGAACTGCCCAAAGCTCCTGAGTTGCCAAAA---CCA
* * *
6918 GAGTTGCCAAAGCCTGAGCTGCCCAAGGTTCCTGAGTTGCCAAAACCA
1 GAGTTGCCAAAGCCTGAACTGCCCAAAGCTCCTGAGTTGCCAAAACCA
6966 GAGTTGCC
1 GAGTTGCC
6974 CAAGTTGCCC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
48 11 0.22
51 39 0.78
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.21
Consensus pattern (48 bp):
GAGTTGCCAAAGCCTGAACTGCCCAAAGCTCCTGAGTTGCCAAAACCA
Found at i:7066 original size:33 final size:33
Alignment explanation
Indices: 7024--7126 Score: 143
Period size: 33 Copynumber: 3.1 Consensus size: 33
7014 CCAGGGTTAT
* * * *
7024 CAAAACCAGAATTGCCTAAAGCTCCAGAGGTGC
1 CAAAGCCAGAATTGCCCAAAGCTCCTGAGTTGC
* * *
7057 CGAAGCCAGAATTGCCCAAAACTCTTGAGTTGC
1 CAAAGCCAGAATTGCCCAAAGCTCCTGAGTTGC
7090 CAAAGCCAGAATTGCCCAAAGCTCCTGAGTTGC
1 CAAAGCCAGAATTGCCCAAAGCTCCTGAGTTGC
7123 CAAA
1 CAAA
7127 AGTCCCTGAG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.17
Consensus pattern (33 bp):
CAAAGCCAGAATTGCCCAAAGCTCCTGAGTTGC
Found at i:7110 original size:16 final size:16
Alignment explanation
Indices: 7059--7111 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
7049 AGAGGTGCCG
7059 AAGCCAGAATTGCCCA
1 AAGCCAGAATTGCCCA
* * *
7075 AAACTCTTGAGTTG-CCA
1 AAGC-C-AGAATTGCCCA
7092 AAGCCAGAATTGCCCA
1 AAGCCAGAATTGCCCA
7108 AAGC
1 AAGC
7112 TCCTGAGTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
15 5 0.18
16 11 0.39
17 7 0.25
18 5 0.18
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (16 bp):
AAGCCAGAATTGCCCA
Found at i:7150 original size:33 final size:32
Alignment explanation
Indices: 7113--7194 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 32
7103 GCCCAAAGCT
*
7113 CCTGAGTTGCCAAAAGTCCCTGAGTTACCAAAG
1 CCTGAATTGCCAAAAGTCCC-GAGTTACCAAAG
* *
7146 CCTGAATTGCCTAAGATTCCCGAGTTACCAAAG
1 CCTGAATTGCC-AAAAGTCCCGAGTTACCAAAG
* *
7179 CCAGAATTGCCCAAAG
1 CCTGAATTGCCAAAAG
7195 CTTCTGAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
32 2 0.05
33 32 0.78
34 7 0.17
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.21
Consensus pattern (32 bp):
CCTGAATTGCCAAAAGTCCCGAGTTACCAAAG
Found at i:7154 original size:84 final size:84
Alignment explanation
Indices: 7083--7312 Score: 379
Period size: 84 Copynumber: 2.7 Consensus size: 84
7073 CAAAACTCTT
* * * *
7083 GAGTTGCCAAAGCCAGAATTGCCCAAAGCTCCTGAGTTGCCAAAAGTCCCTGAGTTACCAAAGCC
1 GAGTTACCAAAGCCAGAATTGCCCAAAGCTTCTGAATTGCCAAAAGTTCCTGAGTTACCAAAGCC
7148 TGAATTGCCTAAGATTCCC
66 TGAATTGCCTAAGATTCCC
*
7167 GAGTTACCAAAGCCAGAATTGCCCAAAGCTTCTGAATTGCCAAAAGTTCCTGAGTTACCAAAGAC
1 GAGTTACCAAAGCCAGAATTGCCCAAAGCTTCTGAATTGCCAAAAGTTCCTGAGTTACCAAAGCC
*
7232 TGAATTGCCTAAGGTTCCC
66 TGAATTGCCTAAGATTCCC
* * *
7251 GAGTTACCAAAGCCAGAATTGCCCAAACCTTCTGAATTGCCAAAAGTTCCGGAGTTGCCAAA
1 GAGTTACCAAAGCCAGAATTGCCCAAAGCTTCTGAATTGCCAAAAGTTCCTGAGTTACCAAA
7313 ATCAGAGTTA
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 137 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (84 bp):
GAGTTACCAAAGCCAGAATTGCCCAAAGCTTCTGAATTGCCAAAAGTTCCTGAGTTACCAAAGCC
TGAATTGCCTAAGATTCCC
Found at i:7202 original size:51 final size:49
Alignment explanation
Indices: 7140--7240 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 49
7130 CCCTGAGTTA
* *
7140 CCAAAGCCTGAATTGCC-TAAGATTCCCGAGTTACCAAAGCCAGAATTGC
1 CCAAAGCCTGAATTGCCAAAAG-TTCCCGAGTTACCAAAGACAGAATTGC
* *
7189 CCAAAGCTTCTGAATTGCCAAAAGTTCCTGAGTTACCAAAGACTGAATTGC
1 CCAAAGC--CTGAATTGCCAAAAGTTCCCGAGTTACCAAAGACAGAATTGC
7240 C
1 C
7241 TAAGGTTCCC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
49 7 0.16
51 35 0.78
52 3 0.07
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (49 bp):
CCAAAGCCTGAATTGCCAAAAGTTCCCGAGTTACCAAAGACAGAATTGC
Found at i:7235 original size:33 final size:33
Alignment explanation
Indices: 7198--7273 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
7188 CCCAAAGCTT
*
7198 CTGAATTGCCAAAAGTTCCTGAGTTACCAAAGA
1 CTGAATTGCCAAAAGTTCCCGAGTTACCAAAGA
* * *
7231 CTGAATTGCCTAAGGTTCCCGAGTTACCAAAGC
1 CTGAATTGCCAAAAGTTCCCGAGTTACCAAAGA
*
7264 CAGAATTGCC
1 CTGAATTGCC
7274 CAAACCTTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (33 bp):
CTGAATTGCCAAAAGTTCCCGAGTTACCAAAGA
Found at i:7396 original size:33 final size:33
Alignment explanation
Indices: 7359--7642 Score: 291
Period size: 33 Copynumber: 8.6 Consensus size: 33
7349 TGAGGAAATC
* * *
7359 AAAGTTCCAGAGTTATCAAAACCAGAATTGCCT
1 AAAGTTCCTGAGTTACCAAAGCCAGAATTGCCT
*
7392 AAAGTTCCTGAGTTACCCAAGCCAGAATTGCCT
1 AAAGTTCCTGAGTTACCAAAGCCAGAATTGCCT
** * * *
7425 AAAACTCCTGAGTTGCCCAAGCCAGAATTGCCC
1 AAAGTTCCTGAGTTACCAAAGCCAGAATTGCCT
* * ***
7458 AAAATTCCTGAGTTGCCAAAGTTTGAATTGCCT
1 AAAGTTCCTGAGTTACCAAAGCCAGAATTGCCT
* * *
7491 AAAGTTCCTGAGTCACCAAAACCAGAATTGCCC
1 AAAGTTCCTGAGTTACCAAAGCCAGAATTGCCT
* * * *
7524 AAAGCTCCTGAGTTGCCAAAGCCTGAATTGCCA
1 AAAGTTCCTGAGTTACCAAAGCCAGAATTGCCT
*
7557 AAAGATCCTGAGTTACCAAAGCCTA-AATTGCCT
1 AAAGTTCCTGAGTTACCAAAGCC-AGAATTGCCT
* * * *
7590 CAAGCTCCTGAGTTACTAAAGCCAGAATTGCCC
1 AAAGTTCCTGAGTTACCAAAGCCAGAATTGCCT
* * *
7623 AAAGCTCCTGAATTGCCAAA
1 AAAGTTCCTGAGTTACCAAA
7643 AGTTCCGGAG
Statistics
Matches: 209, Mismatches: 40, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
32 1 0.00
33 208 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (33 bp):
AAAGTTCCTGAGTTACCAAAGCCAGAATTGCCT
Found at i:7471 original size:150 final size:149
Alignment explanation
Indices: 7209--7480 Score: 334
Period size: 150 Copynumber: 1.8 Consensus size: 149
7199 TGAATTGCCA
* * *
7209 AAAGTTCCTGAGTTACCAAAGACTGAATTGCCTAAGGTTCCCGAGTTACCAAAGCCAGAATTGCC
1 AAAGTTCCAGAGTTACCAAAGACAGAATTGCCTAAAGTTCCCGAGTTACCAAAGCCAGAATTGCC
* * * * *
7274 CAAACCTTCTGAATTGCCAAAAGTTCCGGAGTTGCCAAAATCAGAGTTACCTAAGTTGCCTAACT
66 CAAAACTCCTGAATTGCCAAAAG-TCCAGAATTGCCAAAATCAGAGTTACCAAAGTTGCCTAACT
7339 TTAAAAAACCTGAGGAAATC
130 TTAAAAAACCTGAGGAAATC
* * *
7359 AAAGTTCCAGAGTTATCAAA-ACCAGAATTGCCTAAAGTTCCTGAGTTACCCAAGCCAGAATTGC
1 AAAGTTCCAGAGTTACCAAAGA-CAGAATTGCCTAAAGTTCCCGAGTTACCAAAGCCAGAATTGC
* * * * *
7423 CTAAAACTCCTGAGTTGCC-CAAG-CCAGAATTGCCCAAAATTCCTGAGTTGCCAAAGTT
65 CCAAAACTCCTGAATTGCCAAAAGTCCAGAATTG-CCAAAA-T-CAGAGTTACCAAAGTT
7481 TGAATTGCCT
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
147 7 0.07
148 6 0.06
149 5 0.05
150 84 0.82
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (149 bp):
AAAGTTCCAGAGTTACCAAAGACAGAATTGCCTAAAGTTCCCGAGTTACCAAAGCCAGAATTGCC
CAAAACTCCTGAATTGCCAAAAGTCCAGAATTGCCAAAATCAGAGTTACCAAAGTTGCCTAACTT
TAAAAAACCTGAGGAAATC
Found at i:7488 original size:99 final size:99
Alignment explanation
Indices: 7359--7642 Score: 363
Period size: 99 Copynumber: 2.9 Consensus size: 99
7349 TGAGGAAATC
* * * * * *
7359 AAAGTTCCAGAGTTATCAAAACCAGAATTGCCTAAAGTTCCTGAGTTACCCAAGCCAGAATTGCC
1 AAAGATCCTGAGTTACCAAAGCCTGAATTGCCTAAAGTTCCTGAGTTACCAAAGCCAGAATTGCC
* * *
7424 TAAAACTCCTGAGTTGCCCAAGCCAGAATTGCCCA
66 CAAAGCTCCTGAGTTGCCAAAGCCAGAATTG-CCA
* * ** * *
7459 AAA-TTCCTGAGTTGCCAAAGTTTGAATTGCCTAAAGTTCCTGAGTCACCAAAACCAGAATTGCC
1 AAAGATCCTGAGTTACCAAAGCCTGAATTGCCTAAAGTTCCTGAGTTACCAAAGCCAGAATTGCC
*
7523 CAAAGCTCCTGAGTTGCCAAAGCCTGAATTGCCA
66 CAAAGCTCCTGAGTTGCCAAAGCCAGAATTGCCA
* * * *
7557 AAAGATCCTGAGTTACCAAAGCCTAAATTGCCTCAAGCTCCTGAGTTACTAAAGCCAGAATTGCC
1 AAAGATCCTGAGTTACCAAAGCCTGAATTGCCTAAAGTTCCTGAGTTACCAAAGCCAGAATTGCC
*
7622 CAAAGCTCCTGAATTGCCAAA
66 CAAAGCTCCTGAGTTGCCAAA
7643 AGTTCCGGAG
Statistics
Matches: 158, Mismatches: 25, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 6 0.04
99 149 0.94
100 3 0.02
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (99 bp):
AAAGATCCTGAGTTACCAAAGCCTGAATTGCCTAAAGTTCCTGAGTTACCAAAGCCAGAATTGCC
CAAAGCTCCTGAGTTGCCAAAGCCAGAATTGCCA
Found at i:7575 original size:18 final size:17
Alignment explanation
Indices: 7419--7661 Score: 96
Period size: 18 Copynumber: 14.5 Consensus size: 17
7409 CAAGCCAGAA
*
7419 TTGCCTAAAACTCCTGAG
1 TTGCC-AAAAGTCCTGAG
* * *
7437 TTGCC-CAAG-CCAGAA
1 TTGCCAAAAGTCCTGAG
*
7452 TTGCCCAAAATTCCTGAG
1 TTG-CCAAAAGTCCTGAG
* *
7470 TTGCC-AAAGT-TTGAA
1 TTGCCAAAAGTCCTGAG
*
7485 TTGCCTAAAGTTCCTGAG
1 TTGCCAAAAG-TCCTGAG
** * *
7503 TCACCAAAA--CCAGAA
1 TTGCCAAAAGTCCTGAG
*
7518 TTGCCCAAAGCTCCTGAG
1 TTGCCAAAAG-TCCTGAG
*
7536 TTGCC-AAAG-CCTGAA
1 TTGCCAAAAGTCCTGAG
7551 TTGCCAAAAGATCCTGAG
1 TTGCCAAAAG-TCCTGAG
* * *
7569 TTACC-AAAG-CCTAAA
1 TTGCCAAAAGTCCTGAG
**
7584 TTGCCTCAAGCTCCTGAG
1 TTGCCAAAAG-TCCTGAG
* * * *
7602 TT-ACTAAAG-CCAGAA
1 TTGCCAAAAGTCCTGAG
* *
7617 TTGCCCAAAGCTCCTGAA
1 TTGCCAAAAG-TCCTGAG
*
7635 TTGCCAAAAGTTCCGGAG
1 TTGCCAAAAG-TCCTGAG
7653 TTGCCAAAA
1 TTGCCAAAA
7662 CCTGAGGAAT
Statistics
Matches: 164, Mismatches: 43, Indels: 36
0.67 0.18 0.15
Matches are distributed among these distances:
15 49 0.30
16 24 0.15
17 18 0.11
18 73 0.45
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (17 bp):
TTGCCAAAAGTCCTGAG
Found at i:9329 original size:2 final size:2
Alignment explanation
Indices: 9322--9385 Score: 103
Period size: 2 Copynumber: 31.5 Consensus size: 2
9312 CTCAATCTTG
9322 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
9364 ACT -T GAT AT AT AT AT AT AT AT A
1 A-T AT -AT AT AT AT AT AT AT AT A
9386 ATTAGTAGAG
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.02
2 56 0.95
3 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9771 original size:33 final size:33
Alignment explanation
Indices: 9734--9851 Score: 83
Period size: 33 Copynumber: 3.3 Consensus size: 33
9724 TTCCTATGCC
9734 TGAATTGCCTGACCTACTGCCATTTCCTAAGGT
1 TGAATTGCCTGACCTACTGCCATTTCCTAAGGT
* * * * **
9767 TGAATTGCTTCGGTTACCTGAATTTCCAGGTTTACCAAAGCC
1 TGAATTGC--C--TGACCT--ACTGCCA--TTT-CCTAAGGT
* *
9809 TGAAGTGCCTGACCTACTGCCATTCCCTAAGGT
1 TGAATTGCCTGACCTACTGCCATTTCCTAAGGT
9842 TGAATTGCCT
1 TGAATTGCCT
9852 CGGTTACCTG
Statistics
Matches: 61, Mismatches: 15, Indels: 18
0.65 0.16 0.19
Matches are distributed among these distances:
33 22 0.36
34 2 0.03
35 1 0.02
36 5 0.08
37 5 0.08
38 5 0.08
39 5 0.08
40 1 0.02
41 3 0.05
42 12 0.20
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.32
Consensus pattern (33 bp):
TGAATTGCCTGACCTACTGCCATTTCCTAAGGT
Found at i:9829 original size:75 final size:75
Alignment explanation
Indices: 9731--9893 Score: 263
Period size: 75 Copynumber: 2.2 Consensus size: 75
9721 AATTTCCTAT
* * *
9731 GCCTGAATTGCCTGACCTACTGCCATTTCCTAAGGTTGAATTGCTTCGGTTACCTGAATTTCCAG
1 GCCTGAACTGCCTGACCTACTGCCATTCCCTAAGGTTGAATTGCCTCGGTTACCTGAATTTCCAG
*
9796 GTTTACCAAA
66 GTTGACCAAA
* *
9806 GCCTGAAGTGCCTGACCTACTGCCATTCCCTAAGGTTGAATTGCCTCGGTTACCTGAATTTCCGG
1 GCCTGAACTGCCTGACCTACTGCCATTCCCTAAGGTTGAATTGCCTCGGTTACCTGAATTTCCAG
9871 GTTGACCAAA
66 GTTGACCAAA
*
9881 GCGTGAACTGCCT
1 GCCTGAACTGCCT
9894 AAATTGCCTG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 81 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (75 bp):
GCCTGAACTGCCTGACCTACTGCCATTCCCTAAGGTTGAATTGCCTCGGTTACCTGAATTTCCAG
GTTGACCAAA
Found at i:10072 original size:17 final size:18
Alignment explanation
Indices: 10044--10080 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
10034 AACACAACAC
*
10044 AAATTATTAAATATTTTA
1 AAATTATTAAATACTTTA
10062 AAATT-TTAAATACTTTA
1 AAATTATTAAATACTTTA
10079 AA
1 AA
10081 CGTACCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATTATTAAATACTTTA
Found at i:10414 original size:2 final size:2
Alignment explanation
Indices: 10409--10446 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
10399 TAATATATTC
* *
10409 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA GA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10447 AAACCAACGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13239 original size:15 final size:15
Alignment explanation
Indices: 13219--13275 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
13209 TTTAATAGAT
13219 TTAATTTATAATAAA
1 TTAATTTATAATAAA
13234 TTAATTTA-AATAAA
1 TTAATTTATAATAAA
**
13248 AAAATTTTATAATTTAAA
1 TTAA-TTTATAA--TAAA
13266 TTAAATTTAT
1 TT-AATTTAT
13276 TTAAATTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
14 8 0.24
15 12 0.36
16 2 0.06
18 9 0.27
19 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAATTTATAATAAA
Found at i:13685 original size:20 final size:20
Alignment explanation
Indices: 13648--13694 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
13638 ATTTATTAAA
*
13648 CATATTTAATAATAATTTAT
1 CATATTTAAAAATAATTTAT
13668 CATATTTTAAAAAT-ATTT-T
1 CATA-TTTAAAAATAATTTAT
*
13687 TATATTTA
1 CATATTTA
13695 TTTTTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 8 0.33
21 8 0.33
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
CATATTTAAAAATAATTTAT
Found at i:13701 original size:13 final size:13
Alignment explanation
Indices: 13683--13707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13673 TTTAAAAATA
13683 TTTTTATATTTAT
1 TTTTTATATTTAT
13696 TTTTTATATTTA
1 TTTTTATATTTA
13708 AAAATTTTAG
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTATATTTAT
Found at i:14155 original size:2 final size:2
Alignment explanation
Indices: 14150--14178 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14140 TGTGTGTGTG
14150 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14179 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14638 original size:2 final size:2
Alignment explanation
Indices: 14631--14670 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
14621 GGTTTTGTTT
14631 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
14671 CTCTGTTTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:18439 original size:29 final size:29
Alignment explanation
Indices: 18406--18472 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
18396 CTATATGAAT
18406 ATTAAAATTTATCATTATATTTTATTTTA
1 ATTAAAATTTATCATTATATTTTATTTTA
*
18435 ATTAAAAATTATCATTATATTTTATTTTA
1 ATTAAAATTTATCATTATATTTTATTTTA
*
18464 ATTGAAATT
1 ATTAAAATT
18473 GGCTACTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.55
Consensus pattern (29 bp):
ATTAAAATTTATCATTATATTTTATTTTA
Found at i:19025 original size:16 final size:17
Alignment explanation
Indices: 18984--19040 Score: 71
Period size: 18 Copynumber: 3.3 Consensus size: 17
18974 ATCTAAAATG
*
18984 ATAATATAATTATAATAT
1 ATAAAATAATTA-AATAT
*
19002 AAAAAATAATTAAA-AT
1 ATAAAATAATTAAATAT
19018 ATAAAATAATATAAATAT
1 ATAAAATAAT-TAAATAT
19036 ATAAA
1 ATAAA
19041 TATTTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 11 0.32
17 6 0.18
18 17 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAAATAATTAAATAT
Found at i:19035 original size:34 final size:34
Alignment explanation
Indices: 18977--19066 Score: 96
Period size: 34 Copynumber: 2.6 Consensus size: 34
18967 TTGTAACATC
18977 TAAAATGATAATATAAT-TATAATATAAAAA-ATAAT
1 TAAAAT-ATAATATAATATA-AATATAAAAATAT-AT
* * *
19012 TAAAATATAAAATAATATAAATATATAAATATTT
1 TAAAATATAATATAATATAAATATAAAAATATAT
*
19046 TAAAAT-TTATATAATATAAAT
1 TAAAATATAATATAATATAAAT
19067 TATATCAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
33 13 0.27
34 25 0.52
35 10 0.21
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (34 bp):
TAAAATATAATATAATATAAATATAAAAATATAT
Found at i:19051 original size:18 final size:18
Alignment explanation
Indices: 19011--19062 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
19001 TAAAAAATAA
*
19011 TTAAAATATA-AAATAAT
1 TTAAAATATATAAATATT
*
19028 AT-AAATATATAAATATT
1 TTAAAATATATAAATATT
*
19045 TTAAAATTTATATAATAT
1 TTAAAATATATA-AATAT
19063 AAATTATATC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 7 0.25
17 8 0.29
18 8 0.29
19 5 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAAATATATAAATATT
Found at i:19076 original size:26 final size:26
Alignment explanation
Indices: 19034--19092 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
19024 TAATATAAAT
* *
19034 ATATAAATATTTTAAAATTTATAT-A
1 ATATAAATATATCAAAATTTATATAA
19059 ATATAAATTATATCAAAATTTATATAA
1 ATATAAA-TATATCAAAATTTATATAA
19086 ATATAAA
1 ATATAAA
19093 ATAACGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 7 0.23
26 15 0.50
27 8 0.27
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
ATATAAATATATCAAAATTTATATAA
Found at i:19158 original size:22 final size:22
Alignment explanation
Indices: 19116--19158 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
19106 GTTTATAACA
* *
19116 TGATAATATATTAATATGATAT
1 TGATAATAAATTAATACGATAT
19138 TGATATATAAATTAA-ACGATA
1 TGATA-ATAAATTAATACGATA
19159 ATATACTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (22 bp):
TGATAATAAATTAATACGATAT
Found at i:19790 original size:29 final size:28
Alignment explanation
Indices: 19741--19795 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
19731 TATTAACATA
**
19741 ATAAAAAATATTTTTATTTAAATTTAATT
1 ATAAAAAATATTAATATTT-AATTTAATT
19770 ATAAAAAATATATAATA-TTAATTTAA
1 ATAAAAAATAT-TAATATTTAATTTAA
19796 AAATAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 7 0.30
29 13 0.57
30 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
ATAAAAAATATTAATATTTAATTTAATT
Found at i:22291 original size:15 final size:15
Alignment explanation
Indices: 22273--22307 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22263 ATAATTAAGG
*
22273 TTAAAATTTTATTTT
1 TTAAAATTTTATTAT
*
22288 TTAAAATTTTGTTAT
1 TTAAAATTTTATTAT
22303 TTAAA
1 TTAAA
22308 TTAAAATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TTAAAATTTTATTAT
Found at i:22591 original size:21 final size:23
Alignment explanation
Indices: 22549--22610 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
22539 ATCTTTAAAA
*
22549 TTTTTATTATTTTAA-ATATATAT
1 TTTTTAATATTTTAATATATA-AT
22572 TTTTTAATATTTTAAT-TATAAT
1 TTTTTAATATTTTAATATATAAT
*
22594 TTTTTTA-ATTTTAATAT
1 TTTTTAATATTTTAATAT
22611 TTTAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 8 0.23
22 9 0.26
23 18 0.51
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTTAATATTTTAATATATAAT
Found at i:22601 original size:15 final size:15
Alignment explanation
Indices: 22581--22626 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
22571 TTTTTTAATA
22581 TTTTAATTATAATTT
1 TTTTAATTATAATTT
* *
22596 TTTTAATTTTAA-TA
1 TTTTAATTATAATTT
22610 TTTTAA--ATAATTT
1 TTTTAATTATAATTT
22623 TTTT
1 TTTT
22627 TCGATAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 3 0.12
13 5 0.19
14 7 0.27
15 11 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTAATTATAATTT
Found at i:22611 original size:29 final size:27
Alignment explanation
Indices: 22573--22626 Score: 90
Period size: 29 Copynumber: 1.9 Consensus size: 27
22563 AATATATATT
22573 TTTTAATATTTTAATTATAATTTTTTTAA
1 TTTTAATATTTTAA--ATAATTTTTTTAA
22602 TTTTAATATTTTAAATAATTTTTTT
1 TTTTAATATTTTAAATAATTTTTTT
22627 TCGATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 11 0.44
29 14 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTAATATTTTAAATAATTTTTTTAA
Found at i:26094 original size:34 final size:33
Alignment explanation
Indices: 26056--26119 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 33
26046 AGTTGAGTTT
26056 TTAAAT-T-TTAAAAATAATATTATCTTTTAAAATA
1 TTAAATATATTAAAAATAA-A-TAT-TTTTAAAATA
*
26090 TTAAATATATTAAAATTAAATATTTTTAAA
1 TTAAATATATTAAAAATAAATATTTTTAAA
26120 GATCATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 7 0.26
34 9 0.33
35 2 0.07
36 9 0.33
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (33 bp):
TTAAATATATTAAAAATAAATATTTTTAAAATA
Found at i:26224 original size:23 final size:24
Alignment explanation
Indices: 26180--26225 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
26170 TTTTAAAAAA
26180 ATATTATTTTATATTAATATTTAT
1 ATATTATTTTATATTAATATTTAT
26204 ATATT-TTTTATAATTAA-ATTTA
1 ATATTATTTTAT-ATTAATATTTA
26226 ATACAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
ATATTATTTTATATTAATATTTAT
Found at i:26998 original size:38 final size:40
Alignment explanation
Indices: 26942--27042 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 40
26932 CTTTTTTGAT
* *
26942 TGAATGTCTTGGATTCATTGGCTAA-GG-CAAGCAAGACG
1 TGAATGTCTTGGAGTCATTGGCTAAGGGAAAAGCAAGACG
* *
26980 TGACTGTCTTGGAGTCATTGGTTAAGGGAATAAAGCAAGACG
1 TGAATGTCTTGGAGTCATTGGCTAAGGG-A-AAAGCAAGACG
*
27022 TGAATGGCTTGGAGTCATTGG
1 TGAATGTCTTGGAGTCATTGG
27043 TTCAGCCCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
38 22 0.42
39 2 0.04
42 29 0.55
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.28
Consensus pattern (40 bp):
TGAATGTCTTGGAGTCATTGGCTAAGGGAAAAGCAAGACG
Found at i:28428 original size:17 final size:16
Alignment explanation
Indices: 28383--28430 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
28373 TTTTAAAATT
28383 TATATAAAAAT-ATAA
1 TATATAAAAATAATAA
* *
28398 TATATTAAACATAATTA
1 TATA-TAAAAATAATAA
28415 TAATATAAAAATAATA
1 T-ATATAAAAATAATA
28431 TCAACACACG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 4 0.15
16 6 0.23
17 13 0.50
18 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
TATATAAAAATAATAA
Found at i:29753 original size:5 final size:5
Alignment explanation
Indices: 29743--29770 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
29733 TGCATATCTC
29743 ATCAT ATCAT ATCAT ATCAT ATCAT ATC
1 ATCAT ATCAT ATCAT ATCAT ATCAT ATC
29771 CCTTCTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (5 bp):
ATCAT
Found at i:34243 original size:2 final size:2
Alignment explanation
Indices: 34236--34265 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
34226 AATGCAATAA
34236 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
34266 TTGTCTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36047 original size:2 final size:2
Alignment explanation
Indices: 36034--36071 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
36024 TTTTACGTTA
*
36034 AT AT AC 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
36072 GCCCCTCGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:36203 original size:21 final size:22
Alignment explanation
Indices: 36179--36219 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
36169 TTACTTTAAA
*
36179 AATATAATTTA-AAAATAAAAT
1 AATATAATTAATAAAATAAAAT
36200 AATATAATTAATAAAATAAA
1 AATATAATTAATAAAATAAA
36220 TCTAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AATATAATTAATAAAATAAAAT
Found at i:36220 original size:21 final size:20
Alignment explanation
Indices: 36175--36220 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
36165 ATCGTTACTT
*
36175 TAAA-AATATAATTTAAAAA
1 TAAATAATATAATTAAAAAA
36194 TAAAATAATATAATTAATAAAA
1 T-AAATAATATAATTAA-AAAA
36216 TAAAT
1 TAAAT
36221 CTAATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 1 0.04
20 3 0.13
21 14 0.61
22 5 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATAATATAATTAAAAAA
Found at i:36694 original size:29 final size:32
Alignment explanation
Indices: 36629--36691 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 32
36619 AAATATATTA
*
36629 TTTAAAAATAAAATAAAGATAAAATTATAAAT
1 TTTAAAAATAAAATAAAGATAAAATTAAAAAT
*
36661 TTTAAAAA-AAAAT-TA-ATAAAA-TAAAAAT
1 TTTAAAAATAAAATAAAGATAAAATTAAAAAT
36689 TTT
1 TTT
36692 TAATTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 9 0.31
29 6 0.21
30 1 0.03
31 5 0.17
32 8 0.28
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (32 bp):
TTTAAAAATAAAATAAAGATAAAATTAAAAAT
Found at i:38304 original size:20 final size:21
Alignment explanation
Indices: 38262--38308 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
38252 CAAAAAAATT
*
38262 TTTC-TTTTCCCTCCTTTCTC
1 TTTCATTTTCCCTCCTTTCCC
*
38282 TTTCATTTTCCTTCC-TTCCC
1 TTTCATTTTCCCTCCTTTCCC
38302 TTTCATT
1 TTTCATT
38309 CTCTCTCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.04, C:0.36, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTCATTTTCCCTCCTTTCCC
Found at i:38373 original size:31 final size:31
Alignment explanation
Indices: 38335--38393 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
38325 CTTTCCCTTT
38335 CATTTCCCTCCCAAAATTAAAGGAAAAATTA
1 CATTTCCCTCCCAAAATTAAAGGAAAAATTA
38366 CATTTCCCTCCCAAAATTAAAGGAAAAA
1 CATTTCCCTCCCAAAATTAAAGGAAAAA
38394 AAAAAATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.24
Consensus pattern (31 bp):
CATTTCCCTCCCAAAATTAAAGGAAAAATTA
Found at i:38624 original size:32 final size:33
Alignment explanation
Indices: 38588--38653 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
38578 TATAAAATAT
* **
38588 AATAATTTAAAATTG-ATTAATTTTAATTTAAA
1 AATAATTTAAAATTGAAATAATTAAAATTTAAA
*
38620 AATAATTTAAATTTGAAATAATTAAAATTTAAA
1 AATAATTTAAAATTGAAATAATTAAAATTTAAA
38653 A
1 A
38654 TAACGCAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (33 bp):
AATAATTTAAAATTGAAATAATTAAAATTTAAA
Found at i:38654 original size:16 final size:16
Alignment explanation
Indices: 38612--38656 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
38602 GATTAATTTT
*
38612 AATTTAAAAATAATTTA
1 AATTT-AAAATAATTAA
*
38629 AATTTGAAATAATTAA
1 AATTTAAAATAATTAA
38645 AATTTAAAATAA
1 AATTTAAAATAA
38657 CGCAAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 20 0.80
17 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AATTTAAAATAATTAA
Found at i:39026 original size:22 final size:22
Alignment explanation
Indices: 38980--39027 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
38970 TTAAAATATT
*
38980 TATATTTAATATATATCAAACA
1 TATATTTAATATATAACAAACA
39002 TATATTTAA-ATATTAACATAA-A
1 TATATTTAATATA-TAACA-AACA
39024 TATA
1 TATA
39028 AATTTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 3 0.13
22 18 0.78
23 2 0.09
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (22 bp):
TATATTTAATATATAACAAACA
Found at i:39409 original size:24 final size:20
Alignment explanation
Indices: 39360--39401 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
39350 GATATTAATT
39360 ATAA-TAAAAATAAAAAATA
1 ATAATTAAAAATAAAAAATA
39379 ATAATTAAAAATAAATAAATA
1 ATAATTAAAAATAAA-AAATA
39400 AT
1 AT
39402 CAAAATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.19
20 10 0.48
21 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
ATAATTAAAAATAAAAAATA
Found at i:43448 original size:3 final size:3
Alignment explanation
Indices: 43440--43466 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
43430 AGTGATTTTG
43440 AGC AGC AGC AGC AGC AGC AGC AGC AGC
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC
43467 TAAAGTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:47476 original size:19 final size:20
Alignment explanation
Indices: 47408--47477 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 20
47398 TATCGATTGT
*
47408 AATAAATATTA-ATAATAAAA
1 AATAAATATTATA-AATATAA
*
47428 AATTAATA-TATAAATATAA
1 AATAAATATTATAAATATAA
*
47447 AATTAATATATTATAAATTTAA
1 AA-TAA-ATATTATAAATATAA
47469 AA-AAATATT
1 AATAAATATT
47478 GCATATGCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
19 15 0.36
20 12 0.29
21 3 0.07
22 12 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AATAAATATTATAAATATAA
Found at i:48368 original size:18 final size:18
Alignment explanation
Indices: 48338--48460 Score: 59
Period size: 19 Copynumber: 7.1 Consensus size: 18
48328 TTTAAAAACC
48338 ATATAATTATAATATTAAA
1 ATATAA-TATAATATTAAA
48357 ATATAATAT-A-A-T-AA
1 ATATAATATAATATTAAA
* *
48371 AT-TAATATAAAATT-TA
1 ATATAATATAATATTAAA
48387 A-ATAATATAA-ATTATAA
1 ATATAATATAATATTA-AA
* * * *
48404 ATATATTAAAAATTTTATA
1 ATATAAT-ATAATATTAAA
*
48423 A-AT-ATATAATATTTTAA
1 ATATAATATAATA-TTAAA
*
48440 ATATAATTATAATTTTAAA
1 ATATAA-TATAATATTAAA
48459 AT
1 AT
48461 TGATTAAATA
Statistics
Matches: 78, Mismatches: 13, Indels: 26
0.67 0.11 0.22
Matches are distributed among these distances:
13 6 0.08
14 5 0.06
15 5 0.06
16 16 0.21
17 8 0.10
18 11 0.14
19 18 0.23
20 9 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATATAATATTAAA
Found at i:48390 original size:26 final size:26
Alignment explanation
Indices: 48338--48400 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
48328 TTTAAAAACC
*
48338 ATATAATTATAATATTAAAATATAAT-
1 ATATAAAT-TAATATTAAAATATAATA
*
48364 ATAATAAATTAATA-TAAAATTTAAATA
1 AT-ATAAATTAATATTAAAATAT-AATA
48391 ATATAAATTA
1 ATATAAATTA
48401 TAAATATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 7 0.22
26 18 0.56
27 7 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
ATATAAATTAATATTAAAATATAATA
Found at i:48394 original size:16 final size:16
Alignment explanation
Indices: 48356--48442 Score: 61
Period size: 16 Copynumber: 5.1 Consensus size: 16
48346 ATAATATTAA
*
48356 AATATAATATAATAAATT
1 AATATAA-ATTATAAA-T
48374 AATATAAAATT-TAAAT
1 AATAT-AAATTATAAAT
48390 AATATAAATTATAAAT
1 AATATAAATTATAAAT
*
48406 ATATTAAAAATTTTATAAAT
1 A-A-TATAAA--TTATAAAT
*
48426 -ATATAATATTTTAAAT
1 AATATAA-ATTATAAAT
48442 A
1 A
48443 TAATTATAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
15 5 0.09
16 19 0.33
17 9 0.16
18 14 0.25
19 2 0.04
20 8 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATATAAATTATAAAT
Found at i:48425 original size:36 final size:36
Alignment explanation
Indices: 48353--48460 Score: 106
Period size: 36 Copynumber: 3.1 Consensus size: 36
48343 ATTATAATAT
*
48353 TAAA-ATATAATATAATAAAT-TAATATAAAA--TT-
1 TAAATATATAATATTATAAATATAAT-TAAAATTTTA
48385 TAAATAATATAA-ATTATAAATAT-ATTAAAAATTTTA
1 TAAAT-ATATAATATTATAAATATAATT-AAAATTTTA
* *
48421 TAAATATATAATATTTTAAATATAATTATAATTTTA
1 TAAATATATAATATTATAAATATAATTAAAATTTTA
48457 -AAAT
1 TAAAT
48461 TGATTAAATA
Statistics
Matches: 64, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
32 5 0.08
33 14 0.22
34 7 0.11
35 12 0.19
36 23 0.36
37 3 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (36 bp):
TAAATATATAATATTATAAATATAATTAAAATTTTA
Found at i:48443 original size:16 final size:16
Alignment explanation
Indices: 48352--48458 Score: 58
Period size: 16 Copynumber: 6.3 Consensus size: 16
48342 AATTATAATA
*
48352 TTAAA-ATATAATATA
1 TTAAATATATAATATT
* *
48367 ATAAATTAATATAA-AAT
1 TTAAA-T-ATATAATATT
48384 TTAAATAATATAA-ATT
1 TTAAAT-ATATAATATT
* *
48400 ATAAATATATTAAAAATTT
1 TTAAATATA-T-AATA-TT
48419 TATAAATATATAATATT
1 T-TAAATATATAATATT
*
48436 TTAAATATAATTATAATT
1 TTAAATAT-ATAAT-ATT
48454 TTAAA
1 TTAAA
48459 ATTGATTAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
15 7 0.10
16 23 0.32
17 14 0.19
18 18 0.25
19 3 0.04
20 8 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAAATATATAATATT
Found at i:48452 original size:20 final size:20
Alignment explanation
Indices: 48338--48452 Score: 55
Period size: 18 Copynumber: 5.7 Consensus size: 20
48328 TTTAAAAACC
*
48338 ATATAATTATAATA-TTAAA
1 ATATAATTATAATATTTTAA
**
48357 ATATAA-TATAATAAATTAA
1 ATATAATTATAATATTTTAA
*
48376 TATAAAATTTAAATAATATAAATTATAA
1 -ATATAA-TT--ATAATAT---TT-TAA
*
48404 ATAT-ATTA-AAAATTTT--
1 ATATAATTATAATATTTTAA
48420 ATA-AATATATAATATTTTAA
1 ATATAAT-TATAATATTTTAA
48440 ATATAATTATAAT
1 ATATAATTATAAT
48453 TTTAAAATTG
Statistics
Matches: 72, Mismatches: 8, Indels: 31
0.65 0.07 0.28
Matches are distributed among these distances:
16 5 0.07
17 2 0.03
18 15 0.21
19 11 0.15
20 14 0.19
21 3 0.04
22 5 0.07
23 1 0.01
24 6 0.08
25 2 0.03
26 1 0.01
27 4 0.06
28 3 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATATAATTATAATATTTTAA
Found at i:49205 original size:32 final size:30
Alignment explanation
Indices: 49144--49229 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 30
49134 ATTTTATTTA
*
49144 AATTAAAATTTATTTTATTATTTAATATAAT
1 AATTAAAAATTATTTTA-TATTTAATATAAT
*
49175 -ATTAAAAATTATTTTATATTAATATTTATAAT
1 AATTAAAAATTATTTTATATT--TA-ATATAAT
49207 AAATTAAAAA--ATTTTATATTTAA
1 -AATTAAAAATTATTTTATATTTAA
49230 AATATTTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
29 4 0.09
30 17 0.36
31 2 0.04
32 16 0.34
34 8 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
AATTAAAAATTATTTTATATTTAATATAAT
Found at i:49231 original size:16 final size:16
Alignment explanation
Indices: 49210--49240 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49200 TTATAATAAA
49210 TTAAAAAATTTTATAT
1 TTAAAAAATTTTATAT
*
49226 TTAAAATATTTTATA
1 TTAAAAAATTTTATA
49241 ATTATATACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAAAAATTTTATAT
Found at i:49236 original size:35 final size:34
Alignment explanation
Indices: 49152--49226 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 34
49142 TAAATTAAAA
* *
49152 TTTATTTTATTATTTA-ATATAATATTAAAAATTAT
1 TTTATATTAATATTTATA-ATAATATTAAAAA-TAT
49187 TTTATATTAATATTTATAATAA-ATTAAAAA-AT
1 TTTATATTAATATTTATAATAATATTAAAAATAT
49219 TTTATATT
1 TTTATATT
49227 TAAAATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
32 10 0.27
34 8 0.22
35 18 0.49
36 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (34 bp):
TTTATATTAATATTTATAATAATATTAAAAATAT
Found at i:51746 original size:17 final size:16
Alignment explanation
Indices: 51724--51757 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
51714 TGGTGTTTTT
51724 TATATTTTTTAATAAAA
1 TATATTTTTTAA-AAAA
51741 TATATTTTTTAAAAAA
1 TATATTTTTTAAAAAA
51757 T
1 T
51758 TAATTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATTTTTTAAAAAA
Found at i:51975 original size:18 final size:18
Alignment explanation
Indices: 51916--51975 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
51906 ATTGACGTTA
* * *
51916 TAATATTTTTATATATTA
1 TAATATTTATATAAATTT
*
51934 TAATATTTA-AAAAATATT
1 TAATATTTATATAAAT-TT
*
51952 TTATATTTATATAAATTT
1 TAATATTTATATAAATTT
51970 TAATAT
1 TAATAT
51976 ATTTATTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 4 0.12
18 24 0.73
19 5 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATATTTATATAAATTT
Found at i:52383 original size:13 final size:13
Alignment explanation
Indices: 52365--52391 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52355 TTTTTTAGAT
52365 TTAAATATAAATA
1 TTAAATATAAATA
52378 TTAAATATAAATA
1 TTAAATATAAATA
52391 T
1 T
52392 ATATTTAATA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAAATATAAATA
Found at i:52401 original size:17 final size:17
Alignment explanation
Indices: 52343--52410 Score: 55
Period size: 17 Copynumber: 3.8 Consensus size: 17
52333 TTTTTTTTGC
* * *
52343 TAATAAAAATATTTTTT
1 TAATATAAATATATATT
*
52360 TAGATTTAAATATAAATATT
1 TA-ATATAAATAT--ATATT
*
52380 AAATATAAATATATATT
1 TAATATAAATATATATT
*
52397 TAATATGAATATAT
1 TAATATAAATATAT
52411 TTAATTTTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
17 19 0.47
18 8 0.20
19 9 0.22
20 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TAATATAAATATATATT
Found at i:52489 original size:14 final size:15
Alignment explanation
Indices: 52470--52504 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
52460 ATTTTTAAAT
*
52470 ATATATCTAATATAA
1 ATATATCAAATATAA
52485 A-ATATCAAATATAA
1 ATATATCAAATATAA
52499 ATATAT
1 ATATAT
52505 TAAAAATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATATCAAATATAA
Found at i:52631 original size:30 final size:27
Alignment explanation
Indices: 52597--52653 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
52587 GAAATAATTT
*
52597 TTTAATTAAAATAATATATTTTTATATAAA
1 TTTAATCAAAA-AA-ATATTTTTA-ATAAA
*
52627 TTTAATCATAAAAATATTTTTAATAAA
1 TTTAATCAAAAAAATATTTTTAATAAA
52654 ATAAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 9 0.36
29 2 0.08
30 9 0.36
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TTTAATCAAAAAAATATTTTTAATAAA
Found at i:52664 original size:27 final size:28
Alignment explanation
Indices: 52612--52665 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
52602 TTAAAATAAT
* * *
52612 ATATTTTTATATAAATTTAATCATAAAA
1 ATATTTTTATATAAAATAAATAATAAAA
52640 ATATTTTTA-ATAAAATAAATAATAAA
1 ATATTTTTATATAAAATAAATAATAAA
52666 TTTAAACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
ATATTTTTATATAAAATAAATAATAAAA
Found at i:53094 original size:20 final size:21
Alignment explanation
Indices: 53056--53094 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
53046 CGAGTTATTT
*
53056 TATAAATTTAATTTGTTTAGG
1 TATAAATTTAAATTGTTTAGG
*
53077 TATAATTTTAAATT-TTTA
1 TATAAATTTAAATTGTTTA
53095 TAGATCAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (21 bp):
TATAAATTTAAATTGTTTAGG
Found at i:53171 original size:21 final size:21
Alignment explanation
Indices: 53137--53176 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
53127 AATTTTTATT
*
53137 TAAATATAATTATATAATATA
1 TAAATATAATTATAAAATATA
53158 TAAATATTAA-TATAAAATA
1 TAAATA-TAATTATAAAATA
53177 ATTTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATATAATTATAAAATATA
Found at i:53553 original size:19 final size:18
Alignment explanation
Indices: 53527--53566 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
53517 ATTATATTTA
53527 AAATTATATCATTAAATT
1 AAATTATATCATTAAATT
*
53545 AAATATATATTATTAAATT
1 AAAT-TATATCATTAAATT
53564 AAA
1 AAA
53567 AAAATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATTATATCATTAAATT
Found at i:53573 original size:19 final size:19
Alignment explanation
Indices: 53532--53573 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
53522 ATTTAAAATT
* *
53532 ATATCATTAAATTAAATAT
1 ATATCATTAAATTAAAAAA
*
53551 ATATTATTAAATTAAAAAA
1 ATATCATTAAATTAAAAAA
53570 ATAT
1 ATAT
53574 AATAATTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
ATATCATTAAATTAAAAAA
Found at i:53618 original size:24 final size:24
Alignment explanation
Indices: 53591--53638 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
53581 GAAAAGGTTA
53591 AATT-AAAAATAAAAAAATTACATC
1 AATTGAAAAA-AAAAAAATTACATC
* *
53615 AATTGAATAAAAAAAATTTACATC
1 AATTGAAAAAAAAAAAATTACATC
53639 GATTTAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.27
Consensus pattern (24 bp):
AATTGAAAAAAAAAAAATTACATC
Found at i:54934 original size:31 final size:32
Alignment explanation
Indices: 54874--54955 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 32
54864 ATTTAAGAAT
* * * *
54874 AATTTTAAAAAATAATAT-TTTATATTTATATA
1 AATTTTAAAATATTATATAATT-TATTTATAAA
*
54906 AATTTTAATATA-TATATAATTTATTTATAAA
1 AATTTTAAAATATTATATAATTTATTTATAAA
54937 AATTTTAAAATATTATATA
1 AATTTTAAAATATTATATA
54956 TTATTTTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
31 24 0.57
32 18 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
AATTTTAAAATATTATATAATTTATTTATAAA
Found at i:55705 original size:20 final size:20
Alignment explanation
Indices: 55680--55725 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
55670 GATTTGAATC
*
55680 AAATTTAGATATAATTT-TTT
1 AAATTTAAAT-TAATTTATTT
55700 AAATTTAAATTAATTTGATTT
1 AAATTTAAATTAATTT-ATTT
55721 AAATT
1 AAATT
55726 ATTTTTTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 9 0.39
21 8 0.35
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
AAATTTAAATTAATTTATTT
Found at i:57700 original size:9 final size:9
Alignment explanation
Indices: 57686--57720 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
57676 ATATCAATTT
57686 TTAAATTAA
1 TTAAATTAA
*
57695 TTAAATTTA
1 TTAAATTAA
57704 TTAAATTAA
1 TTAAATTAA
57713 TTTAAATT
1 -TTAAATT
57721 TTAATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.70
10 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
TTAAATTAA
Found at i:57709 original size:18 final size:18
Alignment explanation
Indices: 57681--57722 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
57671 ATTCAATATC
57681 AATTTTTAAATTAA-TTA
1 AATTTTTAAATTAATTTA
57698 AATTTATTAAATTAATTTA
1 AATTT-TTAAATTAATTTA
57717 AATTTT
1 AATTTT
57723 AATTTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 10 0.43
19 8 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AATTTTTAAATTAATTTA
Found at i:58316 original size:23 final size:24
Alignment explanation
Indices: 58262--58317 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
58252 TTTATATAAT
58262 TATTTTTAAAATAATAATATTTAA
1 TATTTTTAAAATAATAATATTTAA
** *
58286 TAACTTTAAAAT-TTAA-ATTTTAA
1 TATTTTTAAAATAATAATA-TTTAA
58309 TATTTTTAA
1 TATTTTTAA
58318 TTATTTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 1 0.04
23 15 0.58
24 10 0.38
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TATTTTTAAAATAATAATATTTAA
Found at i:59221 original size:2 final size:2
Alignment explanation
Indices: 59186--59210 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
59176 ATGTTTCTTA
59186 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
59211 AAAGTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59221 original size:22 final size:21
Alignment explanation
Indices: 59193--59240 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
59183 TTAATATATA
59193 TATATATATATATATATAAAAG
1 TATATATATATATAT-TAAAAG
* *
59215 TATATATTTTTATATTAAAAG
1 TATATATATATATATTAAAAG
59236 T-TATA
1 TATATA
59241 AAGATTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 7 0.29
22 13 0.54
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
TATATATATATATATTAAAAG
Found at i:60100 original size:11 final size:11
Alignment explanation
Indices: 60084--60187 Score: 51
Period size: 11 Copynumber: 9.6 Consensus size: 11
60074 TATATATTAA
60084 AAATTATATTT
1 AAATTATATTT
*
60095 AAATTAT-TAT
1 AAATTATATTT
*
60105 AAA-TAAATTT
1 AAATTATATTT
*
60115 TAA-TAT-TTT
1 AAATTATATTT
*
60124 AATATTA-CTTT
1 AA-ATTATATTT
*
60135 -AATTAATTTTTT
1 AAATT-A-TATTT
*
60147 ATATTATATTT
1 AAATTATATTT
60158 ATAATTATA-TT
1 A-AATTATATTT
*
60169 ATATTATATTT
1 AAATTATATTT
60180 AATATTAT
1 AA-ATTAT
60188 TTCATCTTAT
Statistics
Matches: 70, Mismatches: 12, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
9 9 0.13
10 20 0.29
11 23 0.33
12 15 0.21
13 3 0.04
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (11 bp):
AAATTATATTT
Found at i:60155 original size:5 final size:5
Alignment explanation
Indices: 60145--60178 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
60135 AATTAATTTT
60145 TTATA TTATA TTTATAA TTATA TTATA TTATA TT
1 TTATA TTATA -TTAT-A TTATA TTATA TTATA TT
60179 TAATATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 18 0.67
6 8 0.30
7 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:60167 original size:17 final size:16
Alignment explanation
Indices: 60145--60187 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
60135 AATTAATTTT
60145 TTATATTATATTTATAA
1 TTATATTATA-TTATAA
*
60162 TTATATTATATTATAT
1 TTATATTATATTATAA
60178 TTAATATTAT
1 TT-ATATTAT
60188 TTCATCTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATATTATATTATAA
Found at i:60184 original size:12 final size:12
Alignment explanation
Indices: 60121--60187 Score: 54
Period size: 11 Copynumber: 5.9 Consensus size: 12
60111 ATTTTAATAT
*
60121 TTTAATATTA-C
1 TTTAATATTATA
* *
60132 TTTAAT-TAATT
1 TTTAATATTATA
*
60143 TTTTATATTATA
1 TTTAATATTATA
60155 TTT-ATAATTATA
1 TTTAAT-ATTATA
60167 -TT-ATATTATA
1 TTTAATATTATA
60177 TTTAATATTAT
1 TTTAATATTAT
60188 TTCATCTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
10 8 0.17
11 19 0.41
12 19 0.41
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTAATATTATA
Found at i:62023 original size:21 final size:22
Alignment explanation
Indices: 61981--62023 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
61971 TAATTTGTAA
*
61981 ATTTGATTTAATTTAAATTATT
1 ATTTGATTTAATTAAAATTATT
62003 ATTT-ATTTAA-TAAAATATATT
1 ATTTGATTTAATTAAAAT-TATT
62024 TTTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 10 0.53
22 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTGATTTAATTAAAATTATT
Found at i:62260 original size:35 final size:32
Alignment explanation
Indices: 62180--62262 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 32
62170 TTAAAGATAA
* *
62180 TTAATAATTATTTATTAAAAATAAAAAATTATCT
1 TTAATAA-TATTT-TAAAAAATAAAAAACTATCT
62214 TT-A-AATA-TTTAAAAAATAAAAAACTATTCT
1 TTAATAATATTTTAAAAAATAAAAAACTA-TCT
62244 TAATAATAATATTTTAAAA
1 T--TAATAATATTTTAAAA
62263 TTATATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
29 15 0.37
30 6 0.15
31 2 0.05
32 3 0.07
33 2 0.05
34 6 0.15
35 7 0.17
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (32 bp):
TTAATAATATTTTAAAAAATAAAAAACTATCT
Found at i:62295 original size:14 final size:13
Alignment explanation
Indices: 62238--62296 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
62228 AATAAAAAAC
62238 TATTCTTAATAATAA
1 TATT-TTAA-AATAA
*
62253 TATTTTAAAATTA
1 TATTTTAAAATAA
*
62266 TATTTTTAAA-AA
1 TATTTTAAAATAA
62278 -ATTTTAAATATAA
1 TATTTTAAA-ATAA
62291 TATTTT
1 TATTTT
62297 TTTAATATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
11 7 0.19
12 2 0.05
13 15 0.41
14 9 0.24
15 4 0.11
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (13 bp):
TATTTTAAAATAA
Found at i:65704 original size:17 final size:17
Alignment explanation
Indices: 65682--65719 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
65672 TTTTAAACAT
* *
65682 AATAAAAATTAATTTAA
1 AATAAAAATAAATATAA
65699 AATAAAAATAAATATAA
1 AATAAAAATAAATATAA
65716 AATA
1 AATA
65720 TATTTTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAAAATAAATATAA
Found at i:65793 original size:14 final size:13
Alignment explanation
Indices: 65764--65802 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
65754 AGCTAATATC
65764 TTAAATATTAATT
1 TTAAATATTAATT
*
65777 TTAAATATGTTATT
1 TTAAATAT-TAATT
65791 TTAAATA-TAATT
1 TTAAATATTAATT
65803 ATTGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 4 0.17
13 8 0.35
14 11 0.48
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (13 bp):
TTAAATATTAATT
Found at i:68921 original size:2 final size:2
Alignment explanation
Indices: 68914--68943 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
68904 TTGAGTATGA
*
68914 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68944 TGCAGGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69375 original size:20 final size:21
Alignment explanation
Indices: 69343--69382 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
69333 GTTGATCTGA
*
69343 GTTTGATTTTTATTTAATTTG
1 GTTTGATTTTTATTCAATTTG
69364 GTTTGA-TTTTATTCAATTT
1 GTTTGATTTTTATTCAATTT
69383 TTATTGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.20, C:0.03, G:0.12, T:0.65
Consensus pattern (21 bp):
GTTTGATTTTTATTCAATTTG
Found at i:69443 original size:58 final size:58
Alignment explanation
Indices: 69369--69498 Score: 136
Period size: 58 Copynumber: 2.2 Consensus size: 58
69359 ATTTGGTTTG
* * * * * * **
69369 ATTTTATTCAATTTTTATTGAATCCATTTTGGTTTTGGTTTATG-TAATAATTAAATAT
1 ATTTGATTTAATTTTTATTAAATCAAATTTGATTTTGAATTA-GATAATAATTAAATAT
*
69427 ATTTGATTTAATTTTTATTAAATTAAATTTGATTTTGAATTAGATAATAATTAAATAT
1 ATTTGATTTAATTTTTATTAAATCAAATTTGATTTTGAATTAGATAATAATTAAATAT
* * *
69485 GTTCGGTTTAATTT
1 ATTTGATTTAATTT
69499 GATTTTTAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
57 1 0.02
58 58 0.98
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (58 bp):
ATTTGATTTAATTTTTATTAAATCAAATTTGATTTTGAATTAGATAATAATTAAATAT
Found at i:69579 original size:29 final size:27
Alignment explanation
Indices: 69547--69665 Score: 129
Period size: 26 Copynumber: 4.3 Consensus size: 27
69537 ACATTCTATT
69547 TTTTATAAAGTATAAAAATAAATATTTTA
1 TTTT-TAAA-TATAAAAATAAATATTTTA
69576 TTTTTAAAT-TAATAAA-AAATTATTTTA
1 TTTTTAAATATAA-AAATAAA-TATTTTA
69603 TGTTTTATAATATAAAAATAAATATTTTA
1 T-TTTTA-AATATAAAAATAAATATTTTA
*
69632 TTTTTAAAT-TAATAA-AAATATTTTTA
1 TTTTTAAATATAAAAATAAATA-TTTTA
*
69658 GTTTTAAA
1 TTTTTAAA
69666 AAATAAGAAA
Statistics
Matches: 81, Mismatches: 2, Indels: 17
0.81 0.02 0.17
Matches are distributed among these distances:
25 5 0.06
26 23 0.28
27 15 0.19
28 14 0.17
29 18 0.22
30 6 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.50
Consensus pattern (27 bp):
TTTTTAAATATAAAAATAAATATTTTA
Found at i:69617 original size:27 final size:25
Alignment explanation
Indices: 69547--69665 Score: 105
Period size: 28 Copynumber: 4.3 Consensus size: 25
69537 ACATTCTATT
69547 TTTTATAAAGTATAAAAATAAATATTTTA
1 TTTT-TAAA-TAT-AAAA-AAATATTTTA
*
69576 TTTTTAAATTAATAAAAAATTATTTTA
1 TTTTTAAA-T-ATAAAAAAATATTTTA
69603 TGTTTTATAATATAAAAATAAATATTTTA
1 T-TTTTA-AATAT-AAAA-AAATATTTTA
69632 TTTTTAAAT-TAATAAAAATATTTTTA
1 TTTTTAAATATAA-AAAAATA-TTTTA
*
69658 GTTTTAAA
1 TTTTTAAA
69666 AAATAAGAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 17
0.79 0.04 0.17
Matches are distributed among these distances:
25 7 0.09
26 15 0.19
27 15 0.19
28 24 0.30
29 18 0.23
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.50
Consensus pattern (25 bp):
TTTTTAAATATAAAAAAATATTTTA
Found at i:69676 original size:27 final size:28
Alignment explanation
Indices: 69558--69676 Score: 97
Period size: 27 Copynumber: 4.3 Consensus size: 28
69548 TTTATAAAGT
* * *
69558 ATAAAAATAAATATTTTATTTTTAAATTA
1 ATAAAAA-ATATATTTTAGTTTTAAATAA
69587 ATAAAAAAT-TATTTTATGTTTT--ATAA
1 ATAAAAAATATATTTTA-GTTTTAAATAA
* * *
69613 TATAAAAATAAATATTTTATTTTTAAATTA
1 -ATAAAAA-ATATATTTTAGTTTTAAATAA
69643 AT-AAAAATAT-TTTTAGTTTTAAA-AA
1 ATAAAAAATATATTTTAGTTTTAAATAA
69668 ATAAGAAAA
1 ATAA-AAAA
69677 AATTGACCTG
Statistics
Matches: 73, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
25 3 0.04
26 16 0.22
27 21 0.29
28 14 0.19
29 16 0.22
30 3 0.04
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (28 bp):
ATAAAAAATATATTTTAGTTTTAAATAA
Found at i:70172 original size:2 final size:2
Alignment explanation
Indices: 70165--70197 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
70155 TTAGCTATTA
70165 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
70198 AGATACTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:70637 original size:21 final size:21
Alignment explanation
Indices: 70593--70660 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
70583 ATCATTATTC
* * *
70593 ATATAAATAAAAAATTATTAAA
1 ATATTAATATAAAA-TATTTAA
70615 AT-TTAATTATAAAATATTTAA
1 ATATTAA-TATAAAATATTTAA
*
70636 ATATTAATATAAAA-AATTAA
1 ATATTAATATAAAATATTTAA
70656 ATATT
1 ATATT
70661 TTAATAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 10 0.25
21 18 0.45
22 12 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATTAATATAAAATATTTAA
Found at i:70657 original size:20 final size:22
Alignment explanation
Indices: 70603--70660 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
70593 ATATAAATAA
*
70603 AAAATTATTAAA-ATTTAATTAT
1 AAAATAATTAAATA-TTAATTAT
*
70625 AAAATATTTAAATATTAA-TAT
1 AAAATAATTAAATATTAATTAT
70646 AAAA-AATTAAATATT
1 AAAATAATTAAATATT
70661 TTAATAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 10 0.31
21 7 0.22
22 14 0.44
23 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATAATTAAATATTAATTAT
Found at i:70664 original size:22 final size:21
Alignment explanation
Indices: 70599--70666 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 21
70589 ATTCATATAA
*
70599 ATAAAAAATTATTAAAATTTAATT
1 ATAAAAAATTA--AATATTTAA-T
*
70623 ATAAAATATTTAAATA-TTAAT
1 ATAAAA-AATTAAATATTTAAT
70644 ATAAAAAATTAAATATTTTAAT
1 ATAAAAAATTAAATA-TTTAAT
70666 A
1 A
70667 ATTTTTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 8 0.21
21 7 0.18
22 10 0.26
23 3 0.08
24 6 0.16
25 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAAAAAATTAAATATTTAAT
Found at i:71678 original size:2 final size:2
Alignment explanation
Indices: 71671--71700 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
71661 ATTTCGTGAC
71671 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
71701 GCATCCATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72513 original size:41 final size:41
Alignment explanation
Indices: 72449--72540 Score: 150
Period size: 40 Copynumber: 2.2 Consensus size: 41
72439 TGTTTGCAGA
*
72449 TAAAAAAATTTATTAAAACAAAAAAATTAAATTTTTAATATT
1 TAAAAAAATTTA-TAAAACAAAAAAATCAAATTTTTAATATT
72491 TAAAAAAATTTA-AAAACAAAAAAATCAAATTTTTAATATT
1 TAAAAAAATTTATAAAACAAAAAAATCAAATTTTTAATATT
*
72531 TTAAAAAATT
1 TAAAAAAATT
72541 AAATAAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 36 0.75
42 12 0.25
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (41 bp):
TAAAAAAATTTATAAAACAAAAAAATCAAATTTTTAATATT
Found at i:72639 original size:26 final size:26
Alignment explanation
Indices: 72603--72656 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
72593 ATATAATTTA
72603 TTTTATATATTTTT-TTATTCTTTATT
1 TTTTATATATTTTTGTTATTCTTT-TT
*
72629 TTTTATATATTTTTGTTCTTCTTTTT
1 TTTTATATATTTTTGTTATTCTTTTT
72655 TT
1 TT
72657 ATTTTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.78
Consensus pattern (26 bp):
TTTTATATATTTTTGTTATTCTTTTT
Found at i:74053 original size:21 final size:20
Alignment explanation
Indices: 74029--74094 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 20
74019 AATTCGATTT
74029 AAATTATTATTTAATAATAAA
1 AAATTATTATTTAAT-ATAAA
*
74050 AAATTATTTAATTTAATTTAAA
1 AAATTA-TT-ATTTAATATAAA
* *
74072 ATATAATTA-TTAATATAAA
1 AAATTATTATTTAATATAAA
74091 AAAT
1 AAAT
74095 ATTTTAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 12 0.32
20 1 0.03
21 8 0.21
22 10 0.26
23 7 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAATTATTATTTAATATAAA
Found at i:74062 original size:40 final size:40
Alignment explanation
Indices: 74017--74098 Score: 98
Period size: 40 Copynumber: 2.0 Consensus size: 40
74007 ATAATTTGAA
*
74017 TTAATTCGATTT-AAAT-T-ATTATTTAATAATAAAAAATTAT
1 TTAATTCAATTTAAAATATAATTA-TTAAT-ATAAAAAA-TAT
*
74057 TTAATTTAATTTAAAATATAATTATTAATATAAAAAATAT
1 TTAATTCAATTTAAAATATAATTATTAATATAAAAAATAT
74097 TT
1 TT
74099 TAATATTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
40 15 0.41
41 12 0.32
42 6 0.16
43 4 0.11
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (40 bp):
TTAATTCAATTTAAAATATAATTATTAATATAAAAAATAT
Found at i:74090 original size:19 final size:17
Alignment explanation
Indices: 74061--74104 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
74051 AATTATTTAA
* *
74061 TTTAATTTAAAATATAAT
1 TTTAATATAAAAAAT-AT
74079 TATTAATATAAAAAATAT
1 T-TTAATATAAAAAATAT
74097 TTTAATAT
1 TTTAATAT
74105 TATTTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.30
18 4 0.17
19 12 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTAATATAAAAAATAT
Found at i:74114 original size:40 final size:41
Alignment explanation
Indices: 74025--74114 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 41
74015 AATTAATTCG
74025 ATTTAAAT-TATTATTTAATAATAAAAAATTATTTAATTTA
1 ATTTAAATATATTATTTAATAATAAAAAATTATTTAATTTA
74065 ATTTAAAATATAATTA-TTAAT-ATAAAAAA-TATTTTAATATT-
1 ATTT-AAATAT-ATTATTTAATAATAAAAAATTA-TTTAAT-TTA
74106 ATTTAAATA
1 ATTTAAATA
74115 AGGTTGACCC
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
40 11 0.24
41 22 0.49
42 8 0.18
43 4 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (41 bp):
ATTTAAATATATTATTTAATAATAAAAAATTATTTAATTTA
Found at i:76361 original size:19 final size:18
Alignment explanation
Indices: 76325--76363 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
76315 ACAAATACTT
* *
76325 AAAAATTTTAAAAGAATA
1 AAAAAATTTAAAAAAATA
76343 AAAAAATTTAAATAAAATA
1 AAAAAATTTAAA-AAAATA
76362 AA
1 AA
76364 TTATTGTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAAATTTAAAAAAATA
Found at i:77676 original size:15 final size:14
Alignment explanation
Indices: 77650--77688 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
77640 AAAGAAATAT
*
77650 AATAATATATATAA
1 AATAACATATATAA
*
77664 AATCAACATATATAT
1 AAT-AACATATATAA
77679 AATAACATAT
1 AATAACATAT
77689 GTCAAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAACATATATAA
Found at i:82759 original size:19 final size:20
Alignment explanation
Indices: 82737--82774 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
82727 TGTATAAAAT
82737 TTTTAAAAATAATT-TTTTA
1 TTTTAAAAATAATTATTTTA
82756 TTTTAAAAATAATTATTTT
1 TTTTAAAAATAATTATTTT
82775 TTATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTAAAAATAATTATTTTA
Found at i:83100 original size:16 final size:15
Alignment explanation
Indices: 83071--83144 Score: 59
Period size: 13 Copynumber: 5.0 Consensus size: 15
83061 ATATTATTAA
83071 TTTATAACTT-ATATTT
1 TTTATAA-TTAATA-TT
*
83087 TTTATTATTAATA--
1 TTTATAATTAATATT
*
83100 TTTATTATTAATA--
1 TTTATAATTAATATT
83113 TTTATAATTAATATT
1 TTTATAATTAATATT
83128 TATTATAATTAAATATT
1 T-TTATAATT-AATATT
83145 GATAAGTATA
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
13 25 0.49
15 3 0.06
16 17 0.33
17 6 0.12
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTATAATTAATATT
Found at i:83103 original size:13 final size:13
Alignment explanation
Indices: 83087--83133 Score: 85
Period size: 13 Copynumber: 3.6 Consensus size: 13
83077 ACTTATATTT
83087 TTTATTATTAATA
1 TTTATTATTAATA
83100 TTTATTATTAATA
1 TTTATTATTAATA
*
83113 TTTATAATTAATA
1 TTTATTATTAATA
83126 TTTATTAT
1 TTTATTAT
83134 AATTAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATTATTAATA
Found at i:84033 original size:18 final size:18
Alignment explanation
Indices: 84010--84046 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
84000 CAAAAATAAG
84010 TACAGATGCTACCATATT
1 TACAGATGCTACCATATT
*
84028 TACAGATGTTACCATATT
1 TACAGATGCTACCATATT
84046 T
1 T
84047 CGATGGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (18 bp):
TACAGATGCTACCATATT
Found at i:85183 original size:16 final size:16
Alignment explanation
Indices: 85159--85210 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
85149 TATATTTATT
*
85159 TAAAATTTAAAATAT-
1 TAAATTTTAAAATATA
* *
85174 TAATATTTTATATTATA
1 TAA-ATTTTAAAATATA
*
85191 TAAATTATAAAATATA
1 TAAATTTTAAAATATA
85207 TAAA
1 TAAA
85211 AAATAAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 3 0.10
16 23 0.79
17 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATTTTAAAATATA
Found at i:85205 original size:32 final size:33
Alignment explanation
Indices: 85142--85205 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
85132 TCACATTTAA
*
85142 AATACTTTATATTTATTTAAAATTTAAAATATT
1 AATACTTTATATTTATATAAAATTTAAAATATT
*
85175 AATATTTTATA-TTATAT-AAATTATAAAATAT
1 AATACTTTATATTTATATAAAATT-TAAAATAT
85206 ATAAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 5 0.18
32 13 0.46
33 10 0.36
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (33 bp):
AATACTTTATATTTATATAAAATTTAAAATATT
Found at i:85216 original size:16 final size:16
Alignment explanation
Indices: 85187--85220 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
85177 TATTTTATAT
**
85187 TATATAAATTATAAAA
1 TATATAAAAAATAAAA
85203 TATATAAAAAATAAAA
1 TATATAAAAAATAAAA
85219 TA
1 TA
85221 AAAAATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TATATAAAAAATAAAA
Found at i:88534 original size:26 final size:27
Alignment explanation
Indices: 88468--88534 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
88458 AAATAATTTA
88468 AAAAATATAAATAATTTTTTAAGAGATG
1 AAAAAT-TAAATAATTTTTTAAGAGATG
** * *
88496 TTAAGTTAGATAATTTTTTAA-AGATG
1 AAAAATTAAATAATTTTTTAAGAGATG
*
88522 AAAAATTATATAA
1 AAAAATTAAATAA
88535 ATAATAATGG
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
26 14 0.45
27 14 0.45
28 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (27 bp):
AAAAATTAAATAATTTTTTAAGAGATG
Found at i:88940 original size:22 final size:22
Alignment explanation
Indices: 88897--88940 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
88887 TTTTTTTTTT
*
88897 TGGGTAGCATAGATTTTATTCA
1 TGGGTAGCATAGAATTTATTCA
88919 TGGGTAGCATA-AATTTACTTCA
1 TGGGTAGCATAGAATTTA-TTCA
88941 GCCATCGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (22 bp):
TGGGTAGCATAGAATTTATTCA
Found at i:89839 original size:19 final size:18
Alignment explanation
Indices: 89809--89856 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 18
89799 AAAAAATTAT
89809 TAAAAGTTAAAT-TTTAAAA
1 TAAAA-TTAAATATTT-AAA
89828 TATAAATTAAATAATTTAAA
1 TA-AAATTAAAT-ATTTAAA
89848 TAAAATTAA
1 TAAAATTAA
89857 TAATTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 15 0.58
20 8 0.31
21 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
TAAAATTAAATATTTAAA
Found at i:89858 original size:18 final size:20
Alignment explanation
Indices: 89825--89862 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
89815 TTAAATTTTA
89825 AAATATAAATTAAATAATTT
1 AAATATAAATTAAATAATTT
89845 AAATA-AAATT-AATAATTT
1 AAATATAAATTAAATAATTT
89863 TTTAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 5 0.28
20 5 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATATAAATTAAATAATTT
Done.