Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 20 of 203
Found at i:6314632 original size:12 final size:14
Alignment explanation
Indices: 6314615--6314649 Score: 56
Period size: 12 Copynumber: 2.6 Consensus size: 14
6314605 CGTATGCAAT
6314615 TTTTTTTTTC-AA-
1 TTTTTTTTTCGAAC
6314627 TTTTTTTTTCGAAC
1 TTTTTTTTTCGAAC
6314641 TTTTTTTTT
1 TTTTTTTTT
6314650 ACGCACCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.48
13 2 0.10
14 9 0.43
ACGTcount: A:0.11, C:0.09, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTTTTTTTCGAAC
Found at i:6314966 original size:24 final size:23
Alignment explanation
Indices: 6314912--6314989 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
6314902 GGATAATTAA
**
6314912 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
6314935 GCTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
6314959 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
6314980 GAAATAGTAT
1 GAAATGGTAT
6314990 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.04, G:0.31, T:0.38
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:6314974 original size:21 final size:21
Alignment explanation
Indices: 6314948--6315009 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
6314938 TTGGTATTTG
6314948 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
6314969 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
6314990 GGTATTTGGTACGAATTGGT
1 GG-AATTGGTACGAAATGGT
6315010 TATGATTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 21 0.62
22 13 0.38
ACGTcount: A:0.31, C:0.03, G:0.32, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:6323769 original size:23 final size:22
Alignment explanation
Indices: 6323717--6323769 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
6323707 TCCATGTCTT
*
6323717 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
6323739 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
6323762 TTTCTTTT
1 TTTCTTTT
6323770 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:6327001 original size:10 final size:10
Alignment explanation
Indices: 6326986--6327012 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
6326976 TAGTTTCTCG
6326986 AAAAAAATTC
1 AAAAAAATTC
6326996 AAAAAAATTC
1 AAAAAAATTC
6327006 AAAAAAA
1 AAAAAAA
6327013 AACCAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:6327002 original size:11 final size:11
Alignment explanation
Indices: 6326986--6327024 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
6326976 TAGTTTCTCG
6326986 AAAAAAATTC-
1 AAAAAAATTCA
6326996 AAAAAAATTCA
1 AAAAAAATTCA
**
6327007 AAAAAAAACCA
1 AAAAAAATTCA
6327018 AAAAAAA
1 AAAAAAA
6327025 CTAGTTTCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:6327085 original size:12 final size:13
Alignment explanation
Indices: 6327063--6327100 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
6327053 GATATCAAGT
6327063 TGTGAAAAAAAAA
1 TGTGAAAAAAAAA
*
6327076 TTTGAAAAAAAAA
1 TGTGAAAAAAAAA
6327089 TGTGAAAAAAAA
1 TGTGAAAAAAAA
6327101 GAGAGCTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.18
Consensus pattern (13 bp):
TGTGAAAAAAAAA
Found at i:6327629 original size:25 final size:25
Alignment explanation
Indices: 6327595--6327645 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
6327585 AGAGGCAACC
6327595 ATGGCTAGGTTCCTTGCGGGTTTAA
1 ATGGCTAGGTTCCTTGCGGGTTTAA
*
6327620 ATGGCTAGGTTCTTTGCGGGTTTAA
1 ATGGCTAGGTTCCTTGCGGGTTTAA
6327645 A
1 A
6327646 CCGTGACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.18, C:0.14, G:0.31, T:0.37
Consensus pattern (25 bp):
ATGGCTAGGTTCCTTGCGGGTTTAA
Found at i:6333476 original size:39 final size:39
Alignment explanation
Indices: 6333422--6333498 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
6333412 ATGAGAAGTC
*
6333422 GGCACAAGTATAAGCAAAGAAGAGTAAAGAAAGAAATCA
1 GGCACAAGTATAAGCAAAGAAAAGTAAAGAAAGAAATCA
6333461 GGCACAAGTATAAGCAAAGAAAAGTAAAGAAAGAAATC
1 GGCACAAGTATAAGCAAAGAAAAGTAAAGAAAGAAATC
6333499 GAAAACAGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.57, C:0.10, G:0.22, T:0.10
Consensus pattern (39 bp):
GGCACAAGTATAAGCAAAGAAAAGTAAAGAAAGAAATCA
Found at i:6342236 original size:12 final size:12
Alignment explanation
Indices: 6342218--6342251 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 12
6342208 GCTCTCTATT
6342218 TTTTTTTTCACAA
1 TTTTTTTTCA-AA
6342231 TTTTTTTTTCAAA
1 -TTTTTTTTCAAA
6342244 TTTTTTTT
1 TTTTTTTT
6342252 TCACAACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 2 0.10
14 10 0.50
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTTTTCAAA
Found at i:6342236 original size:14 final size:14
Alignment explanation
Indices: 6342217--6342257 Score: 75
Period size: 13 Copynumber: 3.0 Consensus size: 14
6342207 AGCTCTCTAT
6342217 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
6342231 TTTTTTTTTCA-AA
1 TTTTTTTTTCACAA
6342244 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
6342258 CTTGATATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTTTTTTCACAA
Found at i:6342313 original size:12 final size:12
Alignment explanation
Indices: 6342296--6342339 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
6342286 GGAAACTAGT
6342296 TTTTTTTTCGAA
1 TTTTTTTTCGAA
*
6342308 TTTTTTTTTCAAA
1 -TTTTTTTTCGAA
* *
6342321 TTTTTTTTTGAG
1 TTTTTTTTCGAA
6342333 TTTTTTT
1 TTTTTTT
6342340 CGAGAAACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 16 0.59
13 11 0.41
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.75
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:6342313 original size:13 final size:13
Alignment explanation
Indices: 6342295--6342339 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
6342285 TGGAAACTAG
6342295 TTTTTTTTTCGAA
1 TTTTTTTTTCGAA
*
6342308 TTTTTTTTTCAAA
1 TTTTTTTTTCGAA
*
6342321 TTTTTTTTT-GAG
1 TTTTTTTTTCGAA
6342333 TTTTTTT
1 TTTTTTT
6342340 CGAGAAACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 8 0.28
13 21 0.72
ACGTcount: A:0.13, C:0.04, G:0.07, T:0.76
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:6343358 original size:23 final size:23
Alignment explanation
Indices: 6343331--6343418 Score: 88
Period size: 23 Copynumber: 3.6 Consensus size: 23
6343321 TCACCTGCAA
6343331 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATGAGTTTAT
* *
6343354 TAAACACATTAAAACTCCTA-TTAAT
1 TAAACACATTAAAA-T--GAGTTTAT
*
6343379 CATAACACATATTAAAATGAGTTTAT
1 --TAA-ACACATTAAAATGAGTTTAT
6343405 TAAACACATTAAAA
1 TAAACACATTAAAA
6343419 CACTTATTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
23 24 0.46
24 4 0.08
25 5 0.10
26 5 0.10
27 4 0.08
28 10 0.19
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATGAGTTTAT
Found at i:6343395 original size:28 final size:27
Alignment explanation
Indices: 6343361--6343445 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
6343351 TATTAAACAC
6343361 ATTAAAACTCCTATTAATCATAACACAT
1 ATTAAAACT-CTATTAATCATAACACAT
* * *
6343389 ATTAAAA-T-GAGTTTAT--TAA-ACAC
1 ATTAAAACTCTA-TTAATCATAACACAT
*
6343412 ATTAAAACACTTATTAATCATAACACAT
1 ATTAAAACTC-TATTAATCATAACACAT
6343440 ATTAAA
1 ATTAAA
6343446 CTTACTTAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
23 10 0.23
24 3 0.07
25 5 0.12
26 5 0.12
27 4 0.09
28 16 0.37
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.33
Consensus pattern (27 bp):
ATTAAAACTCTATTAATCATAACACAT
Found at i:6343400 original size:51 final size:51
Alignment explanation
Indices: 6343330--6343445 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 51
6343320 GTCACCTGCA
* *
6343330 ATAA-ACACATTAAAATGAGTTTATTAAACACATTAAAACTCCTATTAATC
1 ATAACACATATTAAAATGAGTTTATTAAACACATTAAAACACCTATTAATC
*
6343380 ATAACACATATTAAAATGAGTTTATTAAACACATTAAAACACTTATTAATC
1 ATAACACATATTAAAATGAGTTTATTAAACACATTAAAACACCTATTAATC
6343431 ATAACACATATTAAA
1 ATAACACATATTAAA
6343446 CTTACTTAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
50 4 0.06
51 58 0.94
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.32
Consensus pattern (51 bp):
ATAACACATATTAAAATGAGTTTATTAAACACATTAAAACACCTATTAATC
Found at i:6343471 original size:51 final size:51
Alignment explanation
Indices: 6343330--6343459 Score: 136
Period size: 51 Copynumber: 2.6 Consensus size: 51
6343320 GTCACCTGCA
* * * * * *
6343330 ATAA-ACACATTAAAATGAGTTTATTAAACACATTAAAACTCCTATTAATC
1 ATAACACATATTAAAATGACTTAAATAAACACACTAAAACACCTATTAATC
* * * * *
6343380 ATAACACATATTAAAATGAGTTTATTAAACACATTAAAACACTTATTAATC
1 ATAACACATATTAAAATGACTTAAATAAACACACTAAAACACCTATTAATC
* *
6343431 ATAACACATATTAAACTTACTTAAATAAA
1 ATAACACATATTAAAATGACTTAAATAAA
6343460 TGAACTAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 4 0.06
51 67 0.94
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.32
Consensus pattern (51 bp):
ATAACACATATTAAAATGACTTAAATAAACACACTAAAACACCTATTAATC
Found at i:6344024 original size:48 final size:48
Alignment explanation
Indices: 6343948--6344039 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
6343938 TGGGCCCCTC
*
6343948 GAGTTTGGACCAATCTCGGTAGCGTCGAGTTGTGTCGTAACATGCCTT
1 GAGTTTGGACCAATCTCGGTAGCATCGAGTTGTGTCGTAACATGCCTT
*
6343996 GAGTTTGGGCCAATCTCGGTAGCATCGAGTTGTGTCGTAACATG
1 GAGTTTGGACCAATCTCGGTAGCATCGAGTTGTGTCGTAACATG
6344040 ATGCGACCGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (48 bp):
GAGTTTGGACCAATCTCGGTAGCATCGAGTTGTGTCGTAACATGCCTT
Found at i:6350587 original size:19 final size:18
Alignment explanation
Indices: 6350551--6350590 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6350541 TTTCCACTCG
*
6350551 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
6350569 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
6350588 TTT
1 TTT
6350591 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:6354157 original size:10 final size:10
Alignment explanation
Indices: 6354141--6354198 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
6354131 CAACTCCGAC
6354141 CAGCTCAATT
1 CAGCTCAATT
* *
6354151 GAGCTCATTT
1 CAGCTCAATT
6354161 CAGCTCAA-T
1 CAGCTCAATT
6354170 CGAGCTCAATT
1 C-AGCTCAATT
*
6354181 TAGCTACAATT
1 CAGCT-CAATT
6354192 CAGCTCA
1 CAGCTCA
6354199 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:6354164 original size:20 final size:20
Alignment explanation
Indices: 6354141--6354201 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
6354131 CAACTCCGAC
6354141 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
6354161 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
6354182 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
6354202 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:6355597 original size:13 final size:12
Alignment explanation
Indices: 6355570--6355596 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6355560 AAAAGAGAAG
6355570 AAATTCAAAAAA
1 AAATTCAAAAAA
6355582 AAATTCAAAAAA
1 AAATTCAAAAAA
6355594 AAA
1 AAA
6355597 AAAAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATTCAAAAAA
Found at i:6356650 original size:12 final size:12
Alignment explanation
Indices: 6356629--6356792 Score: 52
Period size: 12 Copynumber: 13.4 Consensus size: 12
6356619 AGAAAAGGAG
*
6356629 AAAGAGATTGAA
1 AAAGAAATTGAA
6356641 AAAGAAATTG--
1 AAAGAAATTGAA
**
6356651 AAAGAAA-ACAA
1 AAAGAAATTGAA
**
6356662 AAAGAAAACGAA
1 AAAGAAATTGAA
**
6356674 AAAGAAAAAGAA
1 AAAGAAATTGAA
** *
6356686 ATTGCAAA-AGAA
1 AAAG-AAATTGAA
*
6356698 AAAGAAATCGAA
1 AAAGAAATTGAA
6356710 AAAGTGAAA--GAA
1 AAA--GAAATTGAA
*
6356722 AAAGAAAATGAAGA
1 AAAGAAATTG-A-A
6356736 AAAGAAAATTGAA
1 AAAG-AAATTGAA
**
6356749 AAAGAAAAAGCGAAA
1 AAAG--AAATTG-AA
*
6356764 AAAGAATTTGAA
1 AAAGAAATTGAA
**
6356776 AAAGAGTTTGAA
1 AAAGAAATTGAA
6356788 AAAGA
1 AAAGA
6356793 GAAGAGTGAA
Statistics
Matches: 120, Mismatches: 18, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
10 11 0.09
11 10 0.08
12 61 0.51
13 12 0.10
14 15 0.12
15 11 0.09
ACGTcount: A:0.68, C:0.03, G:0.19, T:0.10
Consensus pattern (12 bp):
AAAGAAATTGAA
Found at i:6356683 original size:6 final size:6
Alignment explanation
Indices: 6356651--6356758 Score: 83
Period size: 6 Copynumber: 17.7 Consensus size: 6
6356641 AAAGAAATTG
* * ** *
6356651 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * *
6356698 AAAGAA ATCGAA AAAGTG AAAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
6356749 AAAGAA AAAG
1 AAAGAA AAAG
6356759 CGAAAAAAGA
Statistics
Matches: 77, Mismatches: 22, Indels: 7
0.73 0.21 0.07
Matches are distributed among these distances:
5 3 0.04
6 63 0.82
7 7 0.09
8 4 0.05
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:6356740 original size:14 final size:13
Alignment explanation
Indices: 6356719--6356756 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
6356709 AAAAGTGAAA
6356719 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
6356731 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
6356746 GAAAAAGAAAA
1 GAAAAAGAAAA
6356757 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:6356793 original size:12 final size:12
Alignment explanation
Indices: 6356762--6356793 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
6356752 GAAAAAGCGA
*
6356762 AAAAAGAATTTG
1 AAAAAGAGTTTG
6356774 AAAAAGAGTTTG
1 AAAAAGAGTTTG
6356786 AAAAAGAG
1 AAAAAGAG
6356794 AAGAGTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.19
Consensus pattern (12 bp):
AAAAAGAGTTTG
Found at i:6360687 original size:11 final size:12
Alignment explanation
Indices: 6360670--6360714 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
6360660 ACTAGCTCTT
*
6360670 TTTTTTTTACAA
1 TTTTTTTCACAA
6360682 TTTTTTTCACAA
1 TTTTTTTCACAA
*
6360694 TTTTTTTTTCAAAA
1 --TTTTTTTCACAA
6360708 TTTTTTT
1 TTTTTTT
6360715 TTCACAACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 18 0.62
14 11 0.38
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTTTTCACAA
Found at i:6360687 original size:12 final size:12
Alignment explanation
Indices: 6360670--6360715 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
6360660 ACTAGCTCTT
6360670 TTTTTTTTACAA
1 TTTTTTTTACAA
*
6360682 TTTTTTTCACAA
1 TTTTTTTTACAA
*
6360694 TTTTTTTTTCAAAA
1 -TTTTTTTT-ACAA
6360708 TTTTTTTT
1 TTTTTTTT
6360716 TCACAACTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 11 0.38
13 15 0.52
14 3 0.10
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTTTTACAA
Found at i:6360687 original size:14 final size:14
Alignment explanation
Indices: 6360668--6360721 Score: 76
Period size: 14 Copynumber: 4.0 Consensus size: 14
6360658 AAACTAGCTC
*
6360668 TTTTTTTTTTACAA
1 TTTTTTTTTCACAA
6360682 --TTTTTTTCACAA
1 TTTTTTTTTCACAA
*
6360694 TTTTTTTTTCAAAA
1 TTTTTTTTTCACAA
6360708 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
6360722 CTTGATATCC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.31
14 24 0.69
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTTTTTTCACAA
Found at i:6360776 original size:11 final size:12
Alignment explanation
Indices: 6360759--6360803 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
6360749 TGGAAACTAG
6360759 TTTTTTTTCGAA
1 TTTTTTTTCGAA
*
6360771 TTTTTTTTTTTGAA
1 --TTTTTTTTCGAA
*
6360785 TTTTTTTTCGAG
1 TTTTTTTTCGAA
6360797 TTTTTTT
1 TTTTTTT
6360804 CGAGAAACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 17 0.61
14 11 0.39
ACGTcount: A:0.11, C:0.04, G:0.09, T:0.76
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:6360778 original size:14 final size:14
Alignment explanation
Indices: 6360759--6360792 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6360749 TGGAAACTAG
6360759 TTTTTTTTCGAATT
1 TTTTTTTTCGAATT
*
6360773 TTTTTTTTTGAATT
1 TTTTTTTTCGAATT
6360787 TTTTTT
1 TTTTTT
6360793 CGAGTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.79
Consensus pattern (14 bp):
TTTTTTTTCGAATT
Found at i:6364896 original size:23 final size:22
Alignment explanation
Indices: 6364845--6364896 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
6364835 CCTCGTCTTT
*
6364845 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
6364867 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
6364890 TTCTTTT
1 TTCTTTT
6364897 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:6366314 original size:48 final size:48
Alignment explanation
Indices: 6366243--6366337 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
6366233 CCAAAGCGCA
6366243 TTGGATCTCCATTACGAGCATCAACGATTCAATTTCGGTAGGAGATGG
1 TTGGATCTCCATTACGAGCATCAACGATTCAATTTCGGTAGGAGATGG
*
6366291 TTGGATCTCCATTACGAGCATCAACGATTCAATTTTGGTAGGAGATG
1 TTGGATCTCCATTACGAGCATCAACGATTCAATTTCGGTAGGAGATG
6366338 AATTACAAGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (48 bp):
TTGGATCTCCATTACGAGCATCAACGATTCAATTTCGGTAGGAGATGG
Found at i:6366466 original size:4 final size:4
Alignment explanation
Indices: 6366457--6366481 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6366447 CAAGTTGTAA
6366457 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
6366482 CTTAGTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:6367543 original size:17 final size:17
Alignment explanation
Indices: 6367523--6367556 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6367513 AAAAAATCAG
*
6367523 TCAAAAAAGTCAAAAAA
1 TCAAAAAAATCAAAAAA
6367540 TCAAAAAAATCAAAAAA
1 TCAAAAAAATCAAAAAA
6367557 ATACGAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.12, G:0.03, T:0.12
Consensus pattern (17 bp):
TCAAAAAAATCAAAAAA
Found at i:6367557 original size:9 final size:9
Alignment explanation
Indices: 6367523--6367558 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
6367513 AAAAAATCAG
*
6367523 TCAAAAAAG
1 TCAAAAAAA
6367532 TC-AAAAAA
1 TCAAAAAAA
6367540 TCAAAAAAA
1 TCAAAAAAA
6367549 TCAAAAAAA
1 TCAAAAAAA
6367558 T
1 T
6367559 ACGAAATTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.72, C:0.11, G:0.03, T:0.14
Consensus pattern (9 bp):
TCAAAAAAA
Found at i:6372937 original size:4 final size:4
Alignment explanation
Indices: 6372928--6372954 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6372918 AGTTGTAAAG
6372928 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
6372955 CTTAGTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:6382073 original size:22 final size:23
Alignment explanation
Indices: 6382048--6382090 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6382038 CTTGGACCAA
6382048 GATTTC-TAATATTTGAAATCTT
1 GATTTCTTAATATTTGAAATCTT
* *
6382070 GATTTCTTGATTTTTGAAATC
1 GATTTCTTAATATTTGAAATC
6382091 GCTCCAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (23 bp):
GATTTCTTAATATTTGAAATCTT
Found at i:6382447 original size:55 final size:55
Alignment explanation
Indices: 6382381--6382488 Score: 216
Period size: 55 Copynumber: 2.0 Consensus size: 55
6382371 AAATGGGGAC
6382381 AAGTCAGCCACATTAAAAGTAGAACTTACATTGTACTCACCAGGTAGATCAATGT
1 AAGTCAGCCACATTAAAAGTAGAACTTACATTGTACTCACCAGGTAGATCAATGT
6382436 AAGTCAGCCACATTAAAAGTAGAACTTACATTGTACTCACCAGGTAGATCAAT
1 AAGTCAGCCACATTAAAAGTAGAACTTACATTGTACTCACCAGGTAGATCAAT
6382489 TTTATAGCCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (55 bp):
AAGTCAGCCACATTAAAAGTAGAACTTACATTGTACTCACCAGGTAGATCAATGT
Found at i:6395342 original size:69 final size:70
Alignment explanation
Indices: 6395210--6395342 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
6395200 TAGTTTATTA
* * * * *
6395210 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
6395275 CTTAG
66 CTTAG
6395280 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
6395343 GTTATGTACT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:6396783 original size:47 final size:47
Alignment explanation
Indices: 6396729--6397009 Score: 490
Period size: 47 Copynumber: 5.9 Consensus size: 47
6396719 TATTTGAATA
*
6396729 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
6396776 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
6396823 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
6396872 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
6396919 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
6396966 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
6397010 TGGAGATTTT
Statistics
Matches: 224, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
47 179 0.80
49 45 0.20
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:6396858 original size:96 final size:94
Alignment explanation
Indices: 6396729--6397001 Score: 483
Period size: 96 Copynumber: 2.9 Consensus size: 94
6396719 TATTTGAATA
*
6396729 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
6396794 TGTGATAAGGCCGAATGGCCAATGTGATG
66 TGTGATAAGGCCTAATGGCCAATGTGATG
6396823 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
6396888 TATGTGATAAGGCCTAATAGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
*
6396919 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
6396984 TGTGATAAGGCCTAATGG
66 TGTGATAAGGCCTAATGG
6397002 TCGATGTGTG
Statistics
Matches: 171, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
94 81 0.47
96 90 0.53
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:6396888 original size:143 final size:141
Alignment explanation
Indices: 6396729--6397009 Score: 490
Period size: 143 Copynumber: 2.0 Consensus size: 141
6396719 TATTTGAATA
*
6396729 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGACCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
6396794 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
6396859 GGCCGATGTGATG
129 GGCCGATGTGATG
*
6396872 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGACCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
6396937 TGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
*
6397002 TCGATGTG
131 CCGATGTG
6397010 TGGAGATTTT
Statistics
Matches: 132, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
141 31 0.23
143 101 0.77
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGACCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATG
Found at i:6396964 original size:22 final size:22
Alignment explanation
Indices: 6396936--6397009 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
6396926 AAGTGTATAT
6396936 ATGTGATAAGGCCTAATGGTCG
1 ATGTGATAAGGCCTAATGGTCG
* *** * **
6396958 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAT-AAGGCCTAA-TG-GTCG
6396983 ATGTGATAAGGCCTAATGGTCG
1 ATGTGATAAGGCCTAATGGTCG
6397005 ATGTG
1 ATGTG
6397010 TGGAGATTTT
Statistics
Matches: 35, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 13 0.37
23 7 0.20
24 7 0.20
25 8 0.23
ACGTcount: A:0.30, C:0.08, G:0.31, T:0.31
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGTCG
Found at i:6409548 original size:12 final size:12
Alignment explanation
Indices: 6409531--6409555 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6409521 GTAATGAAAC
6409531 TTATTTAAATGG
1 TTATTTAAATGG
6409543 TTATTTAAATGG
1 TTATTTAAATGG
6409555 T
1 T
6409556 CTAAAATTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTATTTAAATGG
Found at i:6413493 original size:26 final size:26
Alignment explanation
Indices: 6413464--6413516 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
6413454 GCCCCCACTT
*
6413464 AGTCGTAGAAGAAGTATTAGGGAAAG
1 AGTCATAGAAGAAGTATTAGGGAAAG
6413490 AGTCATAGAAGAAGTATTAGGGAAAG
1 AGTCATAGAAGAAGTATTAGGGAAAG
6413516 A
1 A
6413517 ATGGAACGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.32, T:0.19
Consensus pattern (26 bp):
AGTCATAGAAGAAGTATTAGGGAAAG
Found at i:6414901 original size:14 final size:14
Alignment explanation
Indices: 6414873--6414920 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
6414863 CCGTATGCAA
6414873 TTTTTTTTCAAAATTT
1 TTTTTTTTC--AATTT
6414889 TTTTTTTTCAA-TT
1 TTTTTTTTCAATTT
* *
6414902 TTTTTTCTCGATTT
1 TTTTTTTTCAATTT
6414916 TTTTT
1 TTTTT
6414921 GATTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 11 0.38
14 9 0.31
16 9 0.31
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (14 bp):
TTTTTTTTCAATTT
Found at i:6414933 original size:11 final size:12
Alignment explanation
Indices: 6414888--6414931 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
6414878 TTTCAAAATT
*
6414888 TTTTTTTTTCAA
1 TTTTTTTTTCGA
6414900 TTTTTTTTCTCGA
1 TTTTTTTT-TCGA
6414913 -TTTTTTTT-GA
1 TTTTTTTTTCGA
6414923 TTTTTTTTT
1 TTTTTTTTT
6414932 GAATCTACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 2 0.07
11 9 0.31
12 15 0.52
13 3 0.10
ACGTcount: A:0.09, C:0.07, G:0.05, T:0.80
Consensus pattern (12 bp):
TTTTTTTTTCGA
Found at i:6417865 original size:19 final size:18
Alignment explanation
Indices: 6417829--6417868 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6417819 TTTTCACTCA
*
6417829 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
6417847 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
6417866 TTT
1 TTT
6417869 GTTTGTTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:6418949 original size:17 final size:16
Alignment explanation
Indices: 6418927--6418984 Score: 98
Period size: 16 Copynumber: 3.6 Consensus size: 16
6418917 CTTCTTCTTC
6418927 TTTTTTTCACGAAAATT
1 TTTTTTTCACG-AAATT
*
6418944 TTTTTTTCACGAATTT
1 TTTTTTTCACGAAATT
6418960 TTTTTTTCACGAAATT
1 TTTTTTTCACGAAATT
6418976 TTTTTTTCA
1 TTTTTTTCA
6418985 ACTTGATATC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
16 28 0.72
17 11 0.28
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.60
Consensus pattern (16 bp):
TTTTTTTCACGAAATT
Found at i:6419039 original size:12 final size:12
Alignment explanation
Indices: 6419022--6419055 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
6419012 ATGGAAACCA
6419022 AATTTTTTTTTG
1 AATTTTTTTTTG
6419034 AATTTTTTTTTG
1 AATTTTTTTTTG
6419046 AATTTTTTTT
1 AATTTTTTTT
6419056 CAAGTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:6419041 original size:11 final size:12
Alignment explanation
Indices: 6419025--6419066 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
6419015 GAAACCAAAT
*
6419025 TTTTTTTTGAAT
1 TTTTTTTTGAAG
6419037 TTTTTTTTGAA-
1 TTTTTTTTGAAG
*
6419048 TTTTTTTTCAAG
1 TTTTTTTTGAAG
6419060 TTTTTTT
1 TTTTTTT
6419067 CGAGAAACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.76
Consensus pattern (12 bp):
TTTTTTTTGAAG
Found at i:6428548 original size:40 final size:40
Alignment explanation
Indices: 6428518--6428740 Score: 235
Period size: 40 Copynumber: 5.6 Consensus size: 40
6428508 GCTACTCGTT
* *
6428518 CAAATGCCTTTGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
6428558 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
6428598 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
6428637 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
6428676 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
6428717 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
6428741 ACATCATTCA
Statistics
Matches: 160, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.01
39 70 0.44
40 74 0.46
41 14 0.09
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:6428621 original size:79 final size:77
Alignment explanation
Indices: 6428518--6428741 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 77
6428508 GCTACTCGTT
* * *
6428518 CAAATGCCTTTGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAA-TGCCTTCGGGACTTAGCCCGG
*
6428583 ATTTAGTAACTCGCA
63 AATTAGTAACTCGCA
* *
6428598 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCAC-AATGCCTTCGGGACTTAGCCCGGA
*
6428662 ATTAGTATCTCGCA
64 ATTAGTAACTCGCA
* * * * * *
6428676 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAATGCCTTCGGGACTTAGCCCGG
6428741 A
63 A
6428742 CATCATTCAA
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 36 0.29
79 55 0.45
80 32 0.26
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGAAT
TAGTAACTCGCA
Found at i:6428635 original size:39 final size:40
Alignment explanation
Indices: 6428518--6428741 Score: 262
Period size: 39 Copynumber: 5.7 Consensus size: 40
6428508 GCTACTCGTT
* * *
6428518 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
6428558 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
6428598 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
6428637 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
6428676 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
6428717 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
6428742 CATCATTCAA
Statistics
Matches: 163, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 74 0.45
40 74 0.45
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:6435144 original size:10 final size:10
Alignment explanation
Indices: 6435129--6435190 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
6435119 TTTGAACCAT
*
6435129 TACCAATTCG
1 TACCAATTCA
*
6435139 TACCAAATACCA
1 TACC-AAT-TCA
*
6435151 TACCATTTCA
1 TACCAATTCA
6435161 TACCAATTCCA
1 TACCAATT-CA
* *
6435172 TACCATTTCG
1 TACCAATTCA
6435182 TACCAATTC
1 TACCAATTC
6435191 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:6435174 original size:21 final size:21
Alignment explanation
Indices: 6435129--6435191 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
6435119 TTTGAACCAT
* *
6435129 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
6435151 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
6435172 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
6435192 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:6436042 original size:9 final size:10
Alignment explanation
Indices: 6436029--6436055 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
6436019 AAAAAATAAA
6436029 AAAAAAATTC
1 AAAAAAATTC
6436039 AAAAAAATTC
1 AAAAAAATTC
6436049 AAAAAAA
1 AAAAAAA
6436056 AAGTTTGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:6446910 original size:18 final size:18
Alignment explanation
Indices: 6446889--6446923 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6446879 TTTTTCTTTT
6446889 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
6446907 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
6446924 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:6449847 original size:27 final size:27
Alignment explanation
Indices: 6449816--6449870 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
6449806 TCTTTGGTAG
6449816 TTTGGTTCACACTCTCTAATTGGTTGA
1 TTTGGTTCACACTCTCTAATTGGTTGA
6449843 TTTGGTTCACACTCTCTAATTGGTTGA
1 TTTGGTTCACACTCTCTAATTGGTTGA
6449870 T
1 T
6449871 ATAAACTCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (27 bp):
TTTGGTTCACACTCTCTAATTGGTTGA
Found at i:6455398 original size:15 final size:15
Alignment explanation
Indices: 6455363--6455402 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
6455353 AAAAAAATCG
6455363 AGCAAAAAAAAGAAA
1 AGCAAAAAAAAGAAA
**
6455378 AG-AAAAAAAAGGTA
1 AGCAAAAAAAAGAAA
6455392 AGCAAAAAAAA
1 AGCAAAAAAAA
6455403 AATCAAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.03
Consensus pattern (15 bp):
AGCAAAAAAAAGAAA
Found at i:6462700 original size:6 final size:6
Alignment explanation
Indices: 6462691--6462724 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
6462681 AAGATCCGAA
6462691 TGAGGC TGAGGC TGAGGC TGAGGC TGAGGC TGAG
1 TGAGGC TGAGGC TGAGGC TGAGGC TGAGGC TGAG
6462725 CCATTTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.15, G:0.50, T:0.18
Consensus pattern (6 bp):
TGAGGC
Found at i:6466511 original size:12 final size:14
Alignment explanation
Indices: 6466494--6466525 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6466484 GAATATTTTT
6466494 ATTTTT-AATT-TA
1 ATTTTTAAATTCTA
6466506 ATTTTTAAATTCTA
1 ATTTTTAAATTCTA
6466520 ATTTTT
1 ATTTTT
6466526 TTCGTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 4 0.22
14 8 0.44
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTTTAAATTCTA
Found at i:6467193 original size:23 final size:23
Alignment explanation
Indices: 6467147--6467194 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
6467137 ATCTCTTATT
* *
6467147 TTGCTCAAATTGATTGGGATACA
1 TTGCTCAAATTGATTGGAAGACA
6467170 TTGCTCAAATTGATTGGAAGACA
1 TTGCTCAAATTGATTGGAAGACA
6467193 TT
1 TT
6467195 ATATAATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35
Consensus pattern (23 bp):
TTGCTCAAATTGATTGGAAGACA
Found at i:6474498 original size:15 final size:14
Alignment explanation
Indices: 6474467--6474564 Score: 53
Period size: 14 Copynumber: 6.9 Consensus size: 14
6474457 TTTAAATTCT
6474467 ATTATTATATTTTA
1 ATTATTATATTTTA
6474481 ATTATT-TATTATTA
1 ATTATTATATT-TTA
*
6474495 A--ATTATACTTAATAA
1 ATTATTATA-TT--TTA
6474510 ATTTATT-TATGTTTA
1 A-TTATTATAT-TTTA
*
6474525 ATTATTATTTTTTA
1 ATTATTATATTTTA
** *
6474539 ACAATTATATTTTT
1 ATTATTATATTTTA
*
6474553 ATT-TTATGTTTT
1 ATTATTATATTTT
6474565 CAACCCCGTC
Statistics
Matches: 65, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
12 3 0.05
13 14 0.22
14 32 0.49
15 9 0.14
16 1 0.02
17 3 0.05
18 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (14 bp):
ATTATTATATTTTA
Found at i:6487891 original size:4 final size:4
Alignment explanation
Indices: 6487882--6487911 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
6487872 CGCTTTCTAT
6487882 TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TA
6487912 GCATTTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:6492740 original size:19 final size:20
Alignment explanation
Indices: 6492700--6492743 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
6492690 GTCTCTTTAG
* *
6492700 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
6492719 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
6492738 GCATTA
1 GCATTA
6492744 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:6497719 original size:88 final size:87
Alignment explanation
Indices: 6497444--6497892 Score: 516
Period size: 87 Copynumber: 5.2 Consensus size: 87
6497434 AACAGATCAG
* * *
6497444 TGAAGACAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAAC-AAGCCTTGCCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
*
6497508 CATTGGTTGCAGTGGAGCTGGT
66 CATCGGTTGCAGTGGAGCTGGT
* * * *
6497530 TAAAGA-AGTAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAAC-AAGCTTTGCCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
* *
6497593 CATTGGTTACAGTGGAGCTGGT
66 CATCGGTTGCAGTGGAGCTGGT
* * *
6497615 TGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG-AAAACAAAGCCTTGCCT
6497680 CCATCGGTTGCAGTGGAGCTGGT
65 CCATCGGTTGCAGTGGAGCTGGT
* *
6497703 TGAAGATAGCAGATCTTGCTTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
* ** *
6497768 TC-TCGAG-TGTAGAAGAGTTGGT
66 -CATCG-GTTGCAGTGGAGCTGGT
* * * * ** * * * * *
6497790 TGAAGACAACTGATTTTATCTTCCTGCGTTGACAGTGAAGCAGGTCGAAGACAAA-CCTTACCTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
*
6497854 TC-TCGGTTGTAGTGGAGCTGGT
66 -CATCGGTTGCAGTGGAGCTGGT
*
6497876 TGAAGAATTGCAGATCT
1 TGAAG-ATAGCAGATCT
6497893 GATCTCCTTG
Statistics
Matches: 312, Mismatches: 44, Indels: 13
0.85 0.12 0.04
Matches are distributed among these distances:
85 81 0.26
86 71 0.23
87 86 0.28
88 74 0.24
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (87 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
CATCGGTTGCAGTGGAGCTGGT
Found at i:6497874 original size:173 final size:172
Alignment explanation
Indices: 6497444--6497892 Score: 532
Period size: 173 Copynumber: 2.6 Consensus size: 172
6497434 AACAGATCAG
* * * *
6497444 TGAAGACAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAACAAGCCTTGCCT-T
1 TGAAGACAACAGATCTTACCTTCCTGCGTTGACAGTGAAGCAGATCGAAAACAAACCTTGCCTCT
* * * *
6497508 CATTGGTTGCAGTGGAGCTGGTTAAAGA-AGTAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAG
66 CATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTACGTTAACAGCGAAGCAG
* * **
6497572 ATCGAAAACAAGCTTTGCCTTCATTGGTTACAGTGGAGCTGGT
131 ATCGAAAACAAGCCTTGCCTTCATCGGTTA-AGAAGAGCTGGT
* * * * * *
6497615 TGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCT
1 TGAAGACAACAGATCTTACCTTCCTGCGTTGACAGTGAAGCAGATCG-AAAACAAA-CCTTGCCT
*
6497680 C-CATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCTTTCCTACGTTAACAGCGAAGC
64 CTCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTACGTTAACAGCGAAGC
*
6497744 AGATCGAAAACAAAGCCTTGCCTCTC-TCGAGTGT-AGAAGAGTTGGT
129 AGATCGAAAAC-AAGCCTTGCCT-TCATCG-GT-TAAGAAGAGCTGGT
* * * * * *
6497790 TGAAGACAACTGATTTTATCTTCCTGCGTTGACAGTGAAGCAGGTCGAAGACAAACCTTACCTCT
1 TGAAGACAACAGATCTTACCTTCCTGCGTTGACAGTGAAGCAGATCGAAAACAAACCTTGCCTCT
* *
6497855 C-TCGGTTGTAGTGGAGCTGGTTGAAGAATTGCAGATCT
66 CATCGGTTGCAGTGGAGCTGGTTGAAG-ATAGCAGATCT
6497893 GATCTCCTTG
Statistics
Matches: 238, Mismatches: 30, Indels: 17
0.84 0.11 0.06
Matches are distributed among these distances:
171 42 0.18
172 7 0.03
173 66 0.28
174 60 0.25
175 58 0.24
176 4 0.02
177 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (172 bp):
TGAAGACAACAGATCTTACCTTCCTGCGTTGACAGTGAAGCAGATCGAAAACAAACCTTGCCTCT
CATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTACGTTAACAGCGAAGCAG
ATCGAAAACAAGCCTTGCCTTCATCGGTTAAGAAGAGCTGGT
Found at i:6508038 original size:23 final size:23
Alignment explanation
Indices: 6508007--6508057 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
6507997 AATTCTTAAT
*
6508007 ATTTGTTTGTTCTCTTTAATATA
1 ATTTATTTGTTCTCTTTAATATA
6508030 ATTTATTTGTTCTCTTTAATATA
1 ATTTATTTGTTCTCTTTAATATA
6508053 ATTTA
1 ATTTA
6508058 CACACATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.61
Consensus pattern (23 bp):
ATTTATTTGTTCTCTTTAATATA
Found at i:6515028 original size:21 final size:21
Alignment explanation
Indices: 6515004--6515049 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6514994 ATCCTTTTAC
* *
6515004 ATTTTATAAATTAA-AATACAA
1 ATTTAATAAAATAATAATA-AA
6515025 ATTTAATAAAATAATAATAAA
1 ATTTAATAAAATAATAATAAA
6515046 ATTT
1 ATTT
6515050 GAATTTGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTTAATAAAATAATAATAAA
Found at i:6520983 original size:46 final size:46
Alignment explanation
Indices: 6520899--6521264 Score: 323
Period size: 46 Copynumber: 7.6 Consensus size: 46
6520889 TTTGAGTACT
* * *
6520899 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCT-TTAGCTACACTTA
1 TCTGATCAAGTGA-CAAGTGATAAGTGATAGCTATCAGCTACACTTA
* * *
6520945 TCTGATCAAGTGACAAGTGGA-AAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAGT-GATAAGTGAT-AG--CTA---TCAGCTACACTTA
* * * *
6520997 TCTGATCAAGTGATAAAGTGATAAGTTATAGCT-TCGGCTATACTTA
1 TCTGATCAAGTGA-CAAGTGATAAGTGATAGCTATCAGCTACACTTA
6521043 TCTGATCAAGTGACAAAGTGATAAGTGATAGCT-TCAGCTACACTTA
1 TCTGATCAAGTGAC-AAGTGATAAGTGATAGCTATCAGCTACACTTA
*
6521089 TCTGATCAAGTGACAAGTGGAAGTGATAAGTGATAGCT-TCGGCTACACTTA
1 TCTGATCAAGTGAC------AAGTGATAAGTGATAGCTATCAGCTACACTTA
*
6521140 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCT-TCAGCTATACTTA
1 TCTGATCAAGTGAC-------AAGTGATAAGTGATAGCTATCAGCTACACTTA
* *
6521192 TCTGATCAAGAGACAAAGTGATAAGTGATAGCT-TTAGCTACACTTA
1 TCTGATCAAGTGAC-AAGTGATAAGTGATAGCTATCAGCTACACTTA
*
6521238 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGAC-AAGTGATAAGTG
6521265 GCTACACTTA
Statistics
Matches: 278, Mismatches: 25, Indels: 34
0.82 0.07 0.10
Matches are distributed among these distances:
45 10 0.04
46 142 0.51
48 1 0.00
50 1 0.00
51 44 0.16
52 70 0.25
53 10 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAGTGATAAGTGATAGCTATCAGCTACACTTA
Found at i:6521019 original size:98 final size:97
Alignment explanation
Indices: 6520899--6521264 Score: 490
Period size: 98 Copynumber: 3.7 Consensus size: 97
6520889 TTTGAGTACT
* *
6520899 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
* *
6520964 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCAGCTATACTTA
* * *
6520997 TCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
6521057 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCAGCTATACTTA
* *
6521089 TCTGATCAAGTGACAAGTGGAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 TCTGATCAAGTG---A-T-AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
6521154 AAGTGAAAAGTGATAAGTGATAGCTTCAGCTATACTTA
61 AAGTG-AAAGTGATAAGTGATAGCTTCAGCTATACTTA
* * * *
6521192 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
6521257 GATAAGTG
65 GA-AAGTG
6521265 GCTACACTTA
Statistics
Matches: 237, Mismatches: 18, Indels: 25
0.85 0.06 0.09
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
97 43 0.18
98 98 0.41
99 10 0.04
100 1 0.00
103 42 0.18
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCAGCTATACTTA
Found at i:6521134 original size:51 final size:50
Alignment explanation
Indices: 6521058--6521258 Score: 293
Period size: 51 Copynumber: 4.0 Consensus size: 50
6521048 TCAAGTGACA
*
6521058 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGT-G
* *
6521109 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
*
6521159 AAAAGTGATAAGTGATAGCTTCAGCTATACTTATCTGATCAAGAGAC-A---
1 --AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
*
6521207 AAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-AAGTG
6521258 A
1 A
6521259 TAAGTGGCTA
Statistics
Matches: 137, Mismatches: 6, Indels: 14
0.87 0.04 0.09
Matches are distributed among these distances:
46 43 0.31
48 1 0.01
50 1 0.01
51 50 0.36
52 42 0.31
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
Found at i:6521246 original size:195 final size:195
Alignment explanation
Indices: 6520914--6521264 Score: 585
Period size: 195 Copynumber: 1.8 Consensus size: 195
6520904 TCAAGTGATA
* * *
6520914 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTAA
1 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTAA
* * * * * *
6520979 TAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTAT
66 TAGCTTCAGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTAT
*
6521044 CTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
131 CTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
* *
6521109 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGA
1 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTAA
*
6521174 TAGCTTCAGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTAT
66 TAGCTTCAGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTAT
6521239 CTGATCAAGAGACAAAGTGATAAGTG
131 CTGATCAAGAGACAAAGTGATAAGTG
6521265 GCTACACTTA
Statistics
Matches: 143, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
195 143 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (195 bp):
AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTAA
TAGCTTCAGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTAT
CTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:6521272 original size:37 final size:37
Alignment explanation
Indices: 6521228--6521337 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
6521218 GATAGCTTTA
6521228 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
6521265 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
6521302 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
6521338 ATCATACGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 12 0.17
37 58 0.83
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:6527226 original size:16 final size:18
Alignment explanation
Indices: 6527192--6527229 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
6527182 TTAATCATTT
6527192 AAATATTATAAATACATA
1 AAATATTATAAATACATA
6527210 AAATATTA-AAATA-ATA
1 AAATATTATAAATACATA
6527226 AAAT
1 AAAT
6527230 TGTATCTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 5 0.25
18 8 0.40
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATATTATAAATACATA
Found at i:6544230 original size:6 final size:6
Alignment explanation
Indices: 6544219--6544267 Score: 89
Period size: 6 Copynumber: 8.0 Consensus size: 6
6544209 TACCTTATAT
6544219 TCACCA TCACCA TCACCA TCACCA TCACCA TCACCA TCACCA TTCACCA
1 TCACCA TCACCA TCACCA TCACCA TCACCA TCACCA TCACCA -TCACCA
6544268 GAAACAAGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 36 0.86
7 6 0.14
ACGTcount: A:0.33, C:0.49, G:0.00, T:0.18
Consensus pattern (6 bp):
TCACCA
Found at i:6561149 original size:104 final size:104
Alignment explanation
Indices: 6560964--6561169 Score: 306
Period size: 104 Copynumber: 2.0 Consensus size: 104
6560954 TAGTAGGGAT
* * * *
6560964 TAAAGATTTCTTACTAATCAAGCAATGAATTTATTATTGAATCAAATGGTCGTATGGTTTTTTGA
1 TAAAGATTTCTTACAAATCAAGCAATGAATTTATTATTAAATCAAATGATCGTATGATTTTTTGA
* *
6561029 TGAAATTAACGTATCTTCCATAGAGTTTG-TCCCTATTAC
66 TGAAATTAACGTATCTTCAATAGAATTTGCT-CCTATTAC
* * * *
6561068 TAAATATTTCTTACAAATCAAGCAATTAATTTATTGTTAAATCAAATGATTGTATGATTTTTTGA
1 TAAAGATTTCTTACAAATCAAGCAATGAATTTATTATTAAATCAAATGATCGTATGATTTTTTGA
6561133 TGAAATTAACGTATCTTCAATAGAATTTGCTCCTATT
66 TGAAATTAACGTATCTTCAATAGAATTTGCTCCTATT
6561170 TCTTACAAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
104 90 0.99
105 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (104 bp):
TAAAGATTTCTTACAAATCAAGCAATGAATTTATTATTAAATCAAATGATCGTATGATTTTTTGA
TGAAATTAACGTATCTTCAATAGAATTTGCTCCTATTAC
Found at i:6565148 original size:21 final size:21
Alignment explanation
Indices: 6565122--6565162 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6565112 AGACGAGCAA
*
6565122 TACTCCACAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
6565143 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
6565163 TTGAGCAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:6570430 original size:3 final size:3
Alignment explanation
Indices: 6570422--6570450 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6570412 ATTAAGCATA
6570422 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6570451 AAGTATGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6574635 original size:32 final size:32
Alignment explanation
Indices: 6574594--6574679 Score: 145
Period size: 32 Copynumber: 2.7 Consensus size: 32
6574584 AAACTTAAAT
6574594 AAAAACTTTCGAATAATTCAATTGACTTGAAC
1 AAAAACTTTCGAATAATTCAATTGACTTGAAC
* *
6574626 AAAAACTTTCGAATAATTCAGTTGACTTGAAT
1 AAAAACTTTCGAATAATTCAATTGACTTGAAC
*
6574658 AAAAACTTTTGAATAATTCAAT
1 AAAAACTTTCGAATAATTCAAT
6574680 AACCGTTTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (32 bp):
AAAAACTTTCGAATAATTCAATTGACTTGAAC
Found at i:6580520 original size:143 final size:143
Alignment explanation
Indices: 6580346--6580773 Score: 856
Period size: 143 Copynumber: 3.0 Consensus size: 143
6580336 CAAATTAGAC
6580346 TTATTCATGAGTCGAGTTATTCGTCTAAATTTCCCTAAAATTAAGAGGGTTTAGACAAAATATGA
1 TTATTCATGAGTCGAGTTATTCGTCTAAATTTCCCTAAAATTAAGAGGGTTTAGACAAAATATGA
6580411 AACCCAAAAATTGGACTTAGGTAAAATTTAAAACTCATTTTTTTTATATGAGTTGAATCTTGAAT
66 AACCCAAAAATTGGACTTAGGTAAAATTTAAAACTCATTTTTTTTATATGAGTTGAATCTTGAAT
6580476 AAGATAATTTTAA
131 AAGATAATTTTAA
6580489 TTATTCATGAGTCGAGTTATTCGTCTAAATTTCCCTAAAATTAAGAGGGTTTAGACAAAATATGA
1 TTATTCATGAGTCGAGTTATTCGTCTAAATTTCCCTAAAATTAAGAGGGTTTAGACAAAATATGA
6580554 AACCCAAAAATTGGACTTAGGTAAAATTTAAAACTCATTTTTTTTATATGAGTTGAATCTTGAAT
66 AACCCAAAAATTGGACTTAGGTAAAATTTAAAACTCATTTTTTTTATATGAGTTGAATCTTGAAT
6580619 AAGATAATTTTAA
131 AAGATAATTTTAA
6580632 TTATTCATGAGTCGAGTTATTCGTCTAAATTTCCCTAAAATTAAGAGGGTTTAGACAAAATATGA
1 TTATTCATGAGTCGAGTTATTCGTCTAAATTTCCCTAAAATTAAGAGGGTTTAGACAAAATATGA
6580697 AACCCAAAAATTGGACTTAGGTAAAATTTAAAACTCATTTTTTTTATATGAGTTGAATCTTGAAT
66 AACCCAAAAATTGGACTTAGGTAAAATTTAAAACTCATTTTTTTTATATGAGTTGAATCTTGAAT
6580762 AAGATAATTTTA
131 AAGATAATTTTA
6580774 CTCGAACCCA
Statistics
Matches: 285, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
143 285 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (143 bp):
TTATTCATGAGTCGAGTTATTCGTCTAAATTTCCCTAAAATTAAGAGGGTTTAGACAAAATATGA
AACCCAAAAATTGGACTTAGGTAAAATTTAAAACTCATTTTTTTTATATGAGTTGAATCTTGAAT
AAGATAATTTTAA
Found at i:6592650 original size:13 final size:13
Alignment explanation
Indices: 6592632--6592658 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6592622 TAAAACTTCA
6592632 CCAATTAAATGTG
1 CCAATTAAATGTG
6592645 CCAATTAAATGTG
1 CCAATTAAATGTG
6592658 C
1 C
6592659 ATCTATATAT
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:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (13 bp):
CCAATTAAATGTG
Found at i:6600906 original size:2 final size:2
Alignment explanation
Indices: 6600899--6600925 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6600889 TCTTTTTGCC
6600899 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
6600926 ACACACACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:6613421 original size:15 final size:16
Alignment explanation
Indices: 6613401--6613439 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
6613391 GAAAATTTAA
6613401 AAAAATATAA-AAATT
1 AAAAATATAATAAATT
6613416 AAAAATA-AATAAATT
1 AAAAATATAATAAATT
6613431 -AAAATATAA
1 AAAAATATAA
6613440 CGATTAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATATAATAAATT
Found at i:6615613 original size:94 final size:94
Alignment explanation
Indices: 6615246--6615582 Score: 665
Period size: 94 Copynumber: 3.6 Consensus size: 94
6615236 TTCCCTTCTC
6615246 TAATGAATCATATAGTCCTACAACTTCATATACTAATAAGAATAAGGTCAAAAAACAATTGCAAT
1 TAATGAATCATATAGTCCTACAACTTCATATACTAATAAGAATAAGGTCAAAAAACAATTGCAAT
6615311 TGCAATTGAAATGAATGAAAATTATGAGT
66 TGCAATTGAAATGAATGAAAATTATGAGT
6615340 TAATGAATCATATAGTCCTACAACTTCATATACTAATAAGAATAAGGTCAAAAAACAATTGCAAT
1 TAATGAATCATATAGTCCTACAACTTCATATACTAATAAGAATAAGGTCAAAAAACAATTGCAAT
6615405 TGCAATTGAAATGAATGAAAATTATGAGT
66 TGCAATTGAAATGAATGAAAATTATGAGT
6615434 TAATGAATCATATAGTCCTACAACTTCATATACTAATAAGAATAAGGTCAAAAAACAATTGCAAT
1 TAATGAATCATATAGTCCTACAACTTCATATACTAATAAGAATAAGGTCAAAAAACAATTGCAAT
6615499 TGCAATTGAAATGAATGAAAATTATGAGT
66 TGCAATTGAAATGAATGAAAATTATGAGT
*
6615528 TAATGAATCATATAGTCCTACAACTTCATATACTAATAAGAATAAGGTTAAAAAA
1 TAATGAATCATATAGTCCTACAACTTCATATACTAATAAGAATAAGGTCAAAAAA
6615583 TGAATTATAG
Statistics
Matches: 242, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 242 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (94 bp):
TAATGAATCATATAGTCCTACAACTTCATATACTAATAAGAATAAGGTCAAAAAACAATTGCAAT
TGCAATTGAAATGAATGAAAATTATGAGT
Found at i:6629067 original size:2 final size:2
Alignment explanation
Indices: 6629062--6629105 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
6629052 ATATATATCT
6629062 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6629104 AG
1 AG
6629106 TAAATTAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6638367 original size:16 final size:16
Alignment explanation
Indices: 6638346--6638400 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
6638336 TTTACATTAA
6638346 AGAAAATTAGAAAGAT
1 AGAAAATTAGAAAGAT
* *
6638362 AGAAAA-TCGAATGACT
1 AGAAAATTAGAAAGA-T
* *
6638378 AGAAAAATAGAAAGAA
1 AGAAAATTAGAAAGAT
6638394 AGAAAAT
1 AGAAAAT
6638401 ATATTCTCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 6 0.19
16 19 0.61
17 6 0.19
ACGTcount: A:0.64, C:0.04, G:0.18, T:0.15
Consensus pattern (16 bp):
AGAAAATTAGAAAGAT
Found at i:6640316 original size:13 final size:14
Alignment explanation
Indices: 6640300--6640333 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
6640290 AATAAATATA
6640300 TATTTTTT-ATTTT
1 TATTTTTTAATTTT
6640313 TATTTTTTAATTTT
1 TATTTTTTAATTTT
6640327 TAATTTT
1 T-ATTTT
6640334 AAAATACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 6 0.32
15 5 0.26
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTTTAATTTT
Found at i:6643903 original size:6 final size:6
Alignment explanation
Indices: 6643868--6643902 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
6643858 TTCTGCTTCT
*
6643868 GAAAGG GAAAGG GAAAGG GAAAGG GAAAGA GAAAG
1 GAAAGG GAAAGG GAAAGG GAAAGG GAAAGG GAAAG
6643903 AAATTTCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
GAAAGG
Found at i:6648028 original size:6 final size:6
Alignment explanation
Indices: 6648018--6648051 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
6648008 TACTTTCTTT
*
6648018 TATTAT TATTAG TATTAG TATTAG TATTAG TATT
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATT
6648052 TTGATAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (6 bp):
TATTAG
Found at i:6650682 original size:3 final size:3
Alignment explanation
Indices: 6650674--6650720 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
6650664 TGTAAATTTC
6650674 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6650721 AGTGAACAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6652034 original size:4 final size:4
Alignment explanation
Indices: 6652025--6652131 Score: 155
Period size: 4 Copynumber: 27.0 Consensus size: 4
6652015 CTGGTGTTTG
6652025 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
6652073 ATGT ATGT ATGG ATGG ATGC ATGT ATGT ATGT ATGT -TGT GATGT TTG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT -ATGT ATGT
6652120 ATGT ATGT ATGT
1 ATGT ATGT ATGT
6652132 TGTGATGGCA
Statistics
Matches: 95, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
3 5 0.05
4 87 0.92
5 3 0.03
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:6656611 original size:61 final size:62
Alignment explanation
Indices: 6656515--6656634 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 62
6656505 ATCCGGATTA
* * * * *
6656515 TAATTAGAAATGATTGGCTTTTTGTGCTCATGAACTGGTGCTTTGCAATGGTGGTGGTGATC
1 TAATTAGAAAGGACTGGCTTTCTGTGCTCATGAACTGATGCTTTGCAATGGTGGCGGTGATC
* *
6656577 TAATTAGAAAGGACTGG-TTTCTGTGCTCTTGAACTGATGCTTTGCGATGGTGGCGGTG
1 TAATTAGAAAGGACTGGCTTTCTGTGCTCATGAACTGATGCTTTGCAATGGTGGCGGTG
6656635 GTGATTTTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
61 36 0.71
62 15 0.29
ACGTcount: A:0.20, C:0.12, G:0.31, T:0.37
Consensus pattern (62 bp):
TAATTAGAAAGGACTGGCTTTCTGTGCTCATGAACTGATGCTTTGCAATGGTGGCGGTGATC
Found at i:6661479 original size:12 final size:12
Alignment explanation
Indices: 6661462--6661486 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6661452 AGATAAACTT
6661462 AAAAAGAAAAAA
1 AAAAAGAAAAAA
6661474 AAAAAGAAAAAA
1 AAAAAGAAAAAA
6661486 A
1 A
6661487 GAGGGAGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:6670087 original size:20 final size:21
Alignment explanation
Indices: 6670055--6670093 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
6670045 AATAATAAAA
6670055 AAAAGATATCTTTTACTTTAG
1 AAAAGATATCTTTTACTTTAG
*
6670076 AAAAGA-ATCTTTTGCTTT
1 AAAAGATATCTTTTACTTT
6670094 TTATTCATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
AAAAGATATCTTTTACTTTAG
Found at i:6670965 original size:39 final size:39
Alignment explanation
Indices: 6670889--6671009 Score: 190
Period size: 39 Copynumber: 3.1 Consensus size: 39
6670879 TTGACCTGGA
*
6670889 TTGATTGT-GATTGTATAATCTGTGTTTTTCTGAATGTTATG
1 TTGATTGTAG-TTGTGTAATC--TGTTTTTCTGAATGTTATG
6670930 TTGATTGTAGTTGTGTAATCTGTTTTTCTGAATGTTATG
1 TTGATTGTAGTTGTGTAATCTGTTTTTCTGAATGTTATG
*
6670969 TTGATTGTAGTTGTGTAATCTGTTTTTCTGAATGTTGTG
1 TTGATTGTAGTTGTGTAATCTGTTTTTCTGAATGTTATG
6671008 TT
1 TT
6671010 TCTCTGATGA
Statistics
Matches: 77, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
39 59 0.77
41 17 0.22
42 1 0.01
ACGTcount: A:0.17, C:0.05, G:0.23, T:0.55
Consensus pattern (39 bp):
TTGATTGTAGTTGTGTAATCTGTTTTTCTGAATGTTATG
Found at i:6685911 original size:12 final size:12
Alignment explanation
Indices: 6685894--6685918 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6685884 TAACCCATCT
6685894 ATATATATATAC
1 ATATATATATAC
6685906 ATATATATATAC
1 ATATATATATAC
6685918 A
1 A
6685919 CTTGCATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATATATAC
Found at i:6698989 original size:3 final size:3
Alignment explanation
Indices: 6698981--6699022 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
6698971 TCTTAGAAAG
6698981 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6699023 ATAGTGTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6705971 original size:14 final size:14
Alignment explanation
Indices: 6705952--6705978 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6705942 TACTTCTTGC
6705952 TTCAGTTTTGCAAA
1 TTCAGTTTTGCAAA
6705966 TTCAGTTTTGCAA
1 TTCAGTTTTGCAA
6705979 CTTTGTTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (14 bp):
TTCAGTTTTGCAAA
Found at i:6717369 original size:17 final size:17
Alignment explanation
Indices: 6717347--6717380 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6717337 ATCCACTAAT
*
6717347 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
6717364 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
6717381 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:6722008 original size:17 final size:17
Alignment explanation
Indices: 6721986--6722019 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6721976 ATCCACTAAT
*
6721986 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
6722003 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
6722020 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:6725700 original size:21 final size:22
Alignment explanation
Indices: 6725677--6725752 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
6725667 AGTAGAAATT
*
6725677 AAATTATAATTTTATAATTGTA
1 AAATTATAATTTTATAATTTTA
* *
6725699 AAAATATAA-TTTATTATTTTA
1 AAATTATAATTTTATAATTTTA
6725720 ATAATTAT-ATTTTATAATTTTA
1 A-AATTATAATTTTATAATTTTA
6725742 AAGATTA-AATT
1 AA-ATTATAATT
6725753 AAATTTTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
21 13 0.29
22 32 0.71
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (22 bp):
AAATTATAATTTTATAATTTTA
Found at i:6725985 original size:32 final size:32
Alignment explanation
Indices: 6725944--6726009 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
6725934 TCATCATTTC
*
6725944 GATTTTGAATCTTGATGTGCTGCAATGGGAGA
1 GATTTTGAATCTTGATGTGATGCAATGGGAGA
*
6725976 GATTTTGAATTTTGATGTGATGCAATGGGAGA
1 GATTTTGAATCTTGATGTGATGCAATGGGAGA
6726008 GA
1 GA
6726010 GTGATTCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.27, C:0.06, G:0.32, T:0.35
Consensus pattern (32 bp):
GATTTTGAATCTTGATGTGATGCAATGGGAGA
Found at i:6726431 original size:13 final size:13
Alignment explanation
Indices: 6726413--6726438 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6726403 TACTTTTAGC
6726413 TTAGAAAAATATT
1 TTAGAAAAATATT
6726426 TTAGAAAAATATT
1 TTAGAAAAATATT
6726439 AATTGATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
TTAGAAAAATATT
Found at i:6732465 original size:2 final size:2
Alignment explanation
Indices: 6732458--6732487 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6732448 AACATAACTT
*
6732458 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6732488 AGGATCTATT
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):
TA
Found at i:6737125 original size:30 final size:30
Alignment explanation
Indices: 6737079--6737202 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
6737069 TTTTATTATG
*
6737079 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
6737110 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
6737140 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
6737170 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
6737200 CCA
1 CCA
6737203 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:6737134 original size:15 final size:15
Alignment explanation
Indices: 6737089--6737196 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
6737079 CCAATATCTC
6737089 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
6737104 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
6737119 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
6737134 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
6737149 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
6737164 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
6737179 GATACCCATATCTTT
1 GATACCCATATCTTT
6737194 GAT
1 GAT
6737197 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:6741941 original size:18 final size:18
Alignment explanation
Indices: 6741907--6741941 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6741897 AATTTTGATA
*
6741907 AATTAAATTAAAATAATT
1 AATTAAATGAAAATAATT
*
6741925 AATTAAATGAAATTAAT
1 AATTAAATGAAAATAAT
6741942 GTACCCTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
AATTAAATGAAAATAATT
Found at i:6753897 original size:23 final size:22
Alignment explanation
Indices: 6753871--6753951 Score: 54
Period size: 23 Copynumber: 3.4 Consensus size: 22
6753861 ATTTCTATTT
6753871 TTATATAAACTTCAAACTTGTCA
1 TTAT-TAAACTTCAAACTTGTCA
* * * **
6753894 TTATTAAAATGACTAATATTTCGATTT
1 TTATTAAACT-TC-AA-ACTT-G-TCA
6753921 TTATATAAACTTCAAACTTGTCA
1 TTAT-TAAACTTCAAACTTGTCA
6753944 TTATTAAA
1 TTATTAAA
6753952 ATGACTTACA
Statistics
Matches: 42, Mismatches: 10, Indels: 13
0.65 0.15 0.20
Matches are distributed among these distances:
22 9 0.21
23 10 0.24
24 3 0.07
25 6 0.14
26 3 0.07
27 6 0.14
28 5 0.12
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (22 bp):
TTATTAAACTTCAAACTTGTCA
Found at i:6753915 original size:50 final size:50
Alignment explanation
Indices: 6753861--6753957 Score: 185
Period size: 50 Copynumber: 1.9 Consensus size: 50
6753851 TAAATTTAAC
*
6753861 ATTTCTATTTTTATATAAACTTCAAACTTGTCATTATTAAAATGACTAAT
1 ATTTCGATTTTTATATAAACTTCAAACTTGTCATTATTAAAATGACTAAT
6753911 ATTTCGATTTTTATATAAACTTCAAACTTGTCATTATTAAAATGACT
1 ATTTCGATTTTTATATAAACTTCAAACTTGTCATTATTAAAATGACT
6753958 TACAAGACGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.45
Consensus pattern (50 bp):
ATTTCGATTTTTATATAAACTTCAAACTTGTCATTATTAAAATGACTAAT
Found at i:6753958 original size:26 final size:26
Alignment explanation
Indices: 6753879--6753958 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
6753869 TTTTATATAA
6753879 ACTTCAAACTTGTCATTATTAAAATG
1 ACTTCAAACTTGTCATTATTAAAATG
*
6753905 AC-T-AATA-TT-TCGATTTTTATATAA--
1 ACTTCAA-ACTTGTC-ATTATTA-A-AATG
6753929 ACTTCAAACTTGTCATTATTAAAATG
1 ACTTCAAACTTGTCATTATTAAAATG
6753955 ACTT
1 ACTT
6753959 ACAAGACGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 20
0.66 0.03 0.31
Matches are distributed among these distances:
23 2 0.05
24 14 0.33
25 6 0.14
26 18 0.43
27 2 0.05
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (26 bp):
ACTTCAAACTTGTCATTATTAAAATG
Found at i:6755186 original size:7 final size:7
Alignment explanation
Indices: 6755174--6755202 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
6755164 ACAGTATGTG
6755174 TTGAAAA
1 TTGAAAA
6755181 TTGAAAA
1 TTGAAAA
6755188 TTGAAAA
1 TTGAAAA
6755195 TTGAAAA
1 TTGAAAA
6755202 T
1 T
6755203 ATACAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (7 bp):
TTGAAAA
Found at i:6766246 original size:5 final size:5
Alignment explanation
Indices: 6766236--6766265 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
6766226 AAGCAACTTA
6766236 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
6766266 GAATAGCGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:6769187 original size:33 final size:33
Alignment explanation
Indices: 6769145--6769208 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
6769135 ATAACATTGA
6769145 AATATGATATGCGATTATCAATCTCTTTTCTGC
1 AATATGATATGCGATTATCAATCTCTTTTCTGC
6769178 AATATGATATGCGATTATCAATCTCTTTTCT
1 AATATGATATGCGATTATCAATCTCTTTTCT
6769209 CCTTGGGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (33 bp):
AATATGATATGCGATTATCAATCTCTTTTCTGC
Found at i:6774740 original size:22 final size:24
Alignment explanation
Indices: 6774705--6774748 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
6774695 AACTACGTCG
*
6774705 TTTTGCTCTGCTAAAATTTTTTTA
1 TTTTGCTCTGCTAAAAATTTTTTA
6774729 TTTTG-TC-GCTAAAAATTTTT
1 TTTTGCTCTGCTAAAAATTTTT
6774749 AGTTAACTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 2 0.11
24 5 0.26
ACGTcount: A:0.23, C:0.11, G:0.09, T:0.57
Consensus pattern (24 bp):
TTTTGCTCTGCTAAAAATTTTTTA
Found at i:6775539 original size:15 final size:15
Alignment explanation
Indices: 6775503--6775542 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
6775493 CCATAAATCG
*
6775503 TAAACCCCTAACCCC
1 TAAACCCATAACCCC
6775518 T-AACCCATAACCCC
1 TAAACCCATAACCCC
6775532 TAAACCCATAA
1 TAAACCCATAA
6775543 TCCATAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.40, C:0.45, G:0.00, T:0.15
Consensus pattern (15 bp):
TAAACCCATAACCCC
Found at i:6775547 original size:22 final size:21
Alignment explanation
Indices: 6775505--6775549 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
6775495 ATAAATCGTA
*
6775505 AACCCCTAACCCCTAACCCAT
1 AACCCCTAACCCATAACCCAT
*
6775526 AACCCCTAAACCCATAATCCAT
1 AACCCCT-AACCCATAACCCAT
6775548 AA
1 AA
6775550 ACTTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (21 bp):
AACCCCTAACCCATAACCCAT
Found at i:6775550 original size:15 final size:15
Alignment explanation
Indices: 6775503--6775551 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
6775493 CCATAAATCG
* *
6775503 TAAACCCCTAACCCC
1 TAAACCCATAACCCA
*
6775518 T-AACCCATAACCCC
1 TAAACCCATAACCCA
*
6775532 TAAACCCATAATCCA
1 TAAACCCATAACCCA
6775547 TAAAC
1 TAAAC
6775552 TTTAAAATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 13 0.43
15 17 0.57
ACGTcount: A:0.41, C:0.43, G:0.00, T:0.16
Consensus pattern (15 bp):
TAAACCCATAACCCA
Done.