Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007994.1 Hibiscus syriacus cultivar Beakdansim tig00110444_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 788627
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 4
Found at i:565 original size:18 final size:18
Alignment explanation
Indices: 524--561 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
514 TTATTTTAAC
*
524 TTTAATTACTTTTATTTA
1 TTTAATCACTTTTATTTA
542 TTTAATCACTTTTA-TTA
1 TTTAATCACTTTTATTTA
559 TTT
1 TTT
562 TAATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTAATCACTTTTATTTA
Found at i:4366 original size:22 final size:22
Alignment explanation
Indices: 4331--4393 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
4321 ATGATGTTAG
4331 AAAAAAAA-GAGAAAAAAAGAC
1 AAAAAAAATGAGAAAAAAAGAC
4352 ATAAAAAAATG-GAAAACAAA-AC
1 A-AAAAAAATGAGAAAA-AAAGAC
* * *
4374 AATAAAAGTGTGAAAAAAAG
1 AAAAAAAATGAGAAAAAAAG
4394 GAAGAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
21 11 0.31
22 20 0.57
23 4 0.11
ACGTcount: A:0.73, C:0.05, G:0.14, T:0.08
Consensus pattern (22 bp):
AAAAAAAATGAGAAAAAAAGAC
Found at i:5420 original size:22 final size:21
Alignment explanation
Indices: 5392--5442 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
5382 AGTTTTAATA
5392 AAGTTTTCTCTTTTTACTTTTC
1 AAGTTTTCTCTTTTT-CTTTTC
*
5414 AAGTTTTTTTCTTTTTCTTTTC
1 AAG-TTTTCTCTTTTTCTTTTC
5436 AAGTTTT
1 AAGTTTT
5443 TTTCCCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 4 0.15
22 12 0.44
23 11 0.41
ACGTcount: A:0.14, C:0.14, G:0.06, T:0.67
Consensus pattern (21 bp):
AAGTTTTCTCTTTTTCTTTTC
Found at i:5443 original size:22 final size:22
Alignment explanation
Indices: 5395--5457 Score: 90
Period size: 23 Copynumber: 2.8 Consensus size: 22
5385 TTTAATAAAG
*
5395 TTTTCTCTTTTTACTTTTCAAGT
1 TTTTTTCTTTTT-CTTTTCAAGT
5418 TTTTTTCTTTTTCTTTTCAAGT
1 TTTTTTCTTTTTCTTTTCAAGT
*
5440 TTTTTTCCCTTTTCTTTT
1 TTTTTT-CTTTTTCTTTT
5458 ATTTTCACGA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.43
23 21 0.57
ACGTcount: A:0.08, C:0.17, G:0.03, T:0.71
Consensus pattern (22 bp):
TTTTTTCTTTTTCTTTTCAAGT
Found at i:6084 original size:18 final size:18
Alignment explanation
Indices: 6056--6098 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6046 TCTTCTTATT
*
6056 TTTACTTTAATTACTTTTA
1 TTTA-TTTAATCACTTTTA
*
6075 TTTATTTAATCGCTTTTA
1 TTTATTTAATCACTTTTA
6093 -TTATTT
1 TTTATTT
6099 TAATATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 12 0.55
19 4 0.18
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTATTTAATCACTTTTA
Found at i:7771 original size:17 final size:17
Alignment explanation
Indices: 7748--7789 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
7738 GATCATCTGT
**
7748 AGTCAACGCCGGTCAAC
1 AGTCAACGCAAGTCAAC
*
7765 GGTCAACGCAAGTCAAC
1 AGTCAACGCAAGTCAAC
7782 AGTCAACG
1 AGTCAACG
7790 GTTAACAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.31, G:0.24, T:0.12
Consensus pattern (17 bp):
AGTCAACGCAAGTCAAC
Found at i:7798 original size:14 final size:14
Alignment explanation
Indices: 7779--7806 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7769 AACGCAAGTC
7779 AACAGTCAACGGTT
1 AACAGTCAACGGTT
7793 AACAGTCAACGGTT
1 AACAGTCAACGGTT
7807 TTACACAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (14 bp):
AACAGTCAACGGTT
Found at i:12602 original size:17 final size:17
Alignment explanation
Indices: 12580--12619 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
12570 GTCAACTATA
**
12580 GTCAACGCCGGTCAACG
1 GTCAACGCAAGTCAACG
*
12597 GTCAACGCAAGTCAATG
1 GTCAACGCAAGTCAACG
12614 GTCAAC
1 GTCAAC
12620 AGTCAACCGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.15
Consensus pattern (17 bp):
GTCAACGCAAGTCAACG
Found at i:16858 original size:15 final size:15
Alignment explanation
Indices: 16838--16883 Score: 83
Period size: 15 Copynumber: 3.1 Consensus size: 15
16828 ATTAGACAGA
16838 GGAAGAAAATTGATG
1 GGAAGAAAATTGATG
16853 GGAAGAAAATTGATG
1 GGAAGAAAATTGATG
*
16868 GGAAGAAAACTGATG
1 GGAAGAAAATTGATG
16883 G
1 G
16884 TATAGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.46, C:0.02, G:0.35, T:0.17
Consensus pattern (15 bp):
GGAAGAAAATTGATG
Found at i:20499 original size:2 final size:2
Alignment explanation
Indices: 20487--20529 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
20477 CAGGCTCTTT
20487 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20528 TA
1 TA
20530 ATTTGTCTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23913 original size:72 final size:71
Alignment explanation
Indices: 23823--24015 Score: 237
Period size: 72 Copynumber: 2.7 Consensus size: 71
23813 TTGAGCTTGG
* *
23823 ACAACAATCTTGAAGGGAAAATACCCATGACTATGGGAAACCTTTCAAAACTAGAAGCGTCGAA-
1 ACAACAATCTCGAAGGGAAAAT-CCCATGACTATGGGAAACCTTTCAAAACTAGAAGCAT-GAAC
23887 CTTGAT-TA
64 CTTG-TCTA
* * * * *
23895 ATAATAATCTCGAAGGGAAAATTCTCATGACTATGGGAAGCCTTTCAAAACTAGAAGCATTAACC
1 ACAACAATCTCGAAGGGAAAA-TCCCATGACTATGGGAAACCTTTCAAAACTAGAAGCATGAACC
23960 TTGTCTA
65 TTGTCTA
* **
23967 ACAACAATCTCAAAGGGAAAATCCTTGTGACTATGGGAAACCTTTCAAA
1 ACAACAATCTCGAAGGGAAAATCC-CATGACTATGGGAAACCTTTCAAA
24016 TTTGAAATGG
Statistics
Matches: 103, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
71 5 0.05
72 97 0.94
73 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.24
Consensus pattern (71 bp):
ACAACAATCTCGAAGGGAAAATCCCATGACTATGGGAAACCTTTCAAAACTAGAAGCATGAACCT
TGTCTA
Found at i:25858 original size:72 final size:71
Alignment explanation
Indices: 25710--25890 Score: 206
Period size: 72 Copynumber: 2.5 Consensus size: 71
25700 AACAATCTTG
* * *
25710 AAGGGAAAATACCCATGACTATGGGAAACCTTTCAAAACTAGAAGTGTCAAACTTGATTAATAAT
1 AAGGGAAAAT-CCCATGACTATGGGAAACCTTTCAAAACTAGAAGTGTCAAACTTGATCAACAAC
* *
25775 AATCTCG
65 AATATCA
* * *
25782 AAGGGAAAATCCTCATGACTATGGGAAGCCTTTCAAAACTAGAAGCAT-TGACA-TTG-TCCAAC
1 AAGGGAAAATCC-CATGACTATGGGAAACCTTTCAAAACTAGAAG--TGTCAAACTTGAT-CAAC
25844 AACAATATCA
62 AACAATATCA
*
25854 AAGGGAAAATCCCTGTGACTATGGGAAACCTTTCAAA
1 AAGGGAAAATCCC-ATGACTATGGGAAACCTTTCAAA
25891 TTTGAAATGG
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
71 4 0.04
72 86 0.91
73 3 0.03
74 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (71 bp):
AAGGGAAAATCCCATGACTATGGGAAACCTTTCAAAACTAGAAGTGTCAAACTTGATCAACAACA
ATATCA
Found at i:42960 original size:43 final size:43
Alignment explanation
Indices: 42846--42967 Score: 163
Period size: 43 Copynumber: 2.8 Consensus size: 43
42836 TCTATGACTT
* *
42846 GTAAGACCTTACCATTTTTGCAGGCTCCTTTTCTATGTACAAGG
1 GTAAGACCTTACCATTTTTGCAGGCTCCTCTGCT-TGTACAAGG
* *
42890 GTAAGACCTTACCGTTTTTGCAGGCTCCTCTGCTTGTGCAAGG
1 GTAAGACCTTACCATTTTTGCAGGCTCCTCTGCTTGTACAAGG
* * * *
42933 GTAAGACCTTACCACTTTCGCATGCTCCTCGGCTT
1 GTAAGACCTTACCATTTTTGCAGGCTCCTCTGCTT
42968 TGTGGTCAGG
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
43 38 0.55
44 31 0.45
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (43 bp):
GTAAGACCTTACCATTTTTGCAGGCTCCTCTGCTTGTACAAGG
Found at i:43001 original size:39 final size:39
Alignment explanation
Indices: 42956--43069 Score: 165
Period size: 39 Copynumber: 2.9 Consensus size: 39
42946 ACTTTCGCAT
* *
42956 GCTCCTCGGCTTTGTGGTCAGGGTAAATCCTTACTGTAG
1 GCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTGTAG
*
42995 GCTCCTCGACTTTGTGCTCAGGGTAAGTCCTTACTGTAG
1 GCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTGTAG
* * * *
43034 GCTCATCTGCTTTGTGCACAGGGTAAGCCCTTACTG
1 GCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTG
43070 AGTGTACAGG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.16, C:0.25, G:0.26, T:0.32
Consensus pattern (39 bp):
GCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTGTAG
Found at i:43737 original size:2 final size:2
Alignment explanation
Indices: 43730--43775 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
43720 TCACACTCTA
43730 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
43772 AT AT
1 AT AT
43776 CTGAAAAAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47825 original size:3 final size:3
Alignment explanation
Indices: 47817--47841 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
47807 CTACTTGAAT
47817 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
47842 AACCCTATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:50217 original size:308 final size:309
Alignment explanation
Indices: 49520--50297 Score: 1220
Period size: 308 Copynumber: 2.5 Consensus size: 309
49510 GACTCGAGAA
* *
49520 TATACAAGTGCAAAGATTTGAAGCATTTATCATTGTGGAGCAACTCTATGGAAGGAAATATACCT
1 TATACAAGTGCAAAGAGTTGAGGCATTTATCATTGTGGAGCAACTCTATGGAAGGAAATATACCT
*
49585 ATAGAAATCGGAAATTTGACAATGCTCCAATATTTGGATCTTGGTTACAACAACTTCAAAGGTAA
66 ATAGAAATTGGAAATTTGACAATGCTCCAATATTTGGATCTTGGTTACAACAACTTCAAAGGTAA
* * *
49650 ACAATTTCTCATTTGCATTCCGTTCTCTTTTATTTTCATGAGGTAAAATCATAAGAGTTGATTTA
131 ACAATTTCTCATTTGCATTTCGTTCTCTTTTACTTTCATGAGATAAAATCATAAGAGTTGATTTA
* *
49715 TAATTAACAATCTCACTACAGGCCATCTAGAGTCGGGAATATTTGATAACCTTTCTAAATTGCAA
196 TAATTAACAATCTCACTACAGGCCATCTAGAGCCGAGAATATTTGATAACCTTTCTAAATTGCAA
49780 GAATTAAGGTTGGATGTGAATCAGATTTCTGGTAGCATTCCCAACAGTT
261 GAATTAAGGTTGGATGTGAATCAGATTTCTGGTAGCATTCCCAACAGTT
* * * *
49829 TATACAAGTGCAAAGAGTTGAGGTATATATCATTGTGGAGCAACTCTATGAAAGGAAGTATACCT
1 TATACAAGTGCAAAGAGTTGAGGCATTTATCATTGTGGAGCAACTCTATGGAAGGAAATATACCT
* * * * *
49894 ATAGAAA-TCGAAATTTGACAATGCTCCAATATTTGGATATTAGTGACAACAACCTCAAAGGTAA
66 ATAGAAATTGGAAATTTGACAATGCTCCAATATTTGGATCTTGGTTACAACAACTTCAAAGGTAA
* * * * *
49958 ACAATTTCTCATTAGCATTTTGTTCTCTTTTACTTTCATTAGATAAAATCATAATAGTTGTTTTA
131 ACAATTTCTCATTTGCATTTCGTTCTCTTTTACTTTCATGAGATAAAATCATAAGAGTTGATTTA
* ** *
50023 TAATTAACGAT-TCACTACAGGTTATCTAGAGCCGAGAATATTTGATAGCCTTTCTAAATTGCAA
196 TAATTAACAATCTCACTACAGGCCATCTAGAGCCGAGAATATTTGATAACCTTTCTAAATTGCAA
50087 GAATTAAGGTTGGATAG-GAATCAGATTTCTGGTAGCATTCCCAACAGTT
261 GAATTAAGGTTGGAT-GTGAATCAGATTTCTGGTAGCATTCCCAACAGTT
** *
50136 TATACAAGTGCAAAGAGTTGAGGCATTTATCATTGTGGAATAACTCAATGGAAGGAAATATACCT
1 TATACAAGTGCAAAGAGTTGAGGCATTTATCATTGTGGAGCAACTCTATGGAAGGAAATATACCT
*
50201 ATAGAAATTGGAAATTTGACAATGCTCCAATATTTGGATCTTGGTTTCAACAACTTCAAAGGTAA
66 ATAGAAATTGGAAATTTGACAATGCTCCAATATTTGGATCTTGGTTACAACAACTTCAAAGGTAA
* * * *
50266 GCAATTACTCATTTGCGTTTCGTTCTCCTTTA
131 ACAATTTCTCATTTGCATTTCGTTCTCTTTTA
50298 TTTTGTTAGT
Statistics
Matches: 422, Mismatches: 45, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
307 160 0.38
308 196 0.46
309 66 0.16
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (309 bp):
TATACAAGTGCAAAGAGTTGAGGCATTTATCATTGTGGAGCAACTCTATGGAAGGAAATATACCT
ATAGAAATTGGAAATTTGACAATGCTCCAATATTTGGATCTTGGTTACAACAACTTCAAAGGTAA
ACAATTTCTCATTTGCATTTCGTTCTCTTTTACTTTCATGAGATAAAATCATAAGAGTTGATTTA
TAATTAACAATCTCACTACAGGCCATCTAGAGCCGAGAATATTTGATAACCTTTCTAAATTGCAA
GAATTAAGGTTGGATGTGAATCAGATTTCTGGTAGCATTCCCAACAGTT
Found at i:50468 original size:23 final size:25
Alignment explanation
Indices: 50442--50488 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
50432 GAAAAAACAT
*
50442 TCAATTTCAA-TTTTGATG-ATAAC
1 TCAATGTCAATTTTTGATGCATAAC
50465 TCAATGTCAATTTTTGATGCATAA
1 TCAATGTCAATTTTTGATGCATAA
50489 TTTAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
24 8 0.38
25 4 0.19
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43
Consensus pattern (25 bp):
TCAATGTCAATTTTTGATGCATAAC
Found at i:54466 original size:13 final size:13
Alignment explanation
Indices: 54448--54476 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
54438 ACCAGTCATA
54448 ACCCGACCCGTTG
1 ACCCGACCCGTTG
54461 ACCCGACCCGTTG
1 ACCCGACCCGTTG
54474 ACC
1 ACC
54477 GGCATTGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.48, G:0.21, T:0.14
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:56962 original size:48 final size:47
Alignment explanation
Indices: 56910--57032 Score: 158
Period size: 48 Copynumber: 2.6 Consensus size: 47
56900 TTTTTATTTC
* *
56910 AATTCTAATATGATACTTGACATTGATTCTGATCTGATA-TCTGGCATG
1 AATTCTGATATGATACTTGAC-TTGATTCTGATCTGATACT-TGACATG
* * *
56958 AATTCTGATCTGATACTTGACTTGGATTCTGATCTGCTACTTGACCTG
1 AATTCTGATATGATACTTGACTT-GATTCTGATCTGATACTTGACATG
*
57006 ATTTCTGATATGATACTTGACTTGATT
1 AATTCTGATATGATACTTGACTTGATT
57033 TATGTTTTGA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
47 6 0.09
48 59 0.89
49 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.41
Consensus pattern (47 bp):
AATTCTGATATGATACTTGACTTGATTCTGATCTGATACTTGACATG
Found at i:57033 original size:24 final size:23
Alignment explanation
Indices: 56911--57032 Score: 129
Period size: 24 Copynumber: 5.1 Consensus size: 23
56901 TTTTATTTCA
* *
56911 ATTCTAATATGATACTTGACATTG
1 ATTCTGATCTGATACTTGAC-TTG
* *
56935 ATTCTGATCTGATA-TCTGGCATG
1 ATTCTGATCTGATACT-TGACTTG
56958 AATTCTGATCTGATACTTGACTTGG
1 -ATTCTGATCTGATACTTGACTT-G
* *
56983 ATTCTGATCTGCTACTTGACCTG
1 ATTCTGATCTGATACTTGACTTG
*
57006 ATTTCTGATATGATACTTGACTTG
1 A-TTCTGATCTGATACTTGACTTG
57030 ATT
1 ATT
57033 TATGTTTTGA
Statistics
Matches: 82, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
23 7 0.09
24 73 0.89
25 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (23 bp):
ATTCTGATCTGATACTTGACTTG
Found at i:60678 original size:24 final size:24
Alignment explanation
Indices: 60651--60766 Score: 146
Period size: 24 Copynumber: 4.8 Consensus size: 24
60641 TTCGATTTGA
*
60651 ATTCTAATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
60675 ATTCTGATCTGATA-TCTGGCATGG
1 ATTCTGATCTGATACT-TGACATGG
*
60699 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
60723 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACATGG
*
60746 ATTTCTGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
60767 CTGATTTATG
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
23 3 0.04
24 77 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:60789 original size:24 final size:24
Alignment explanation
Indices: 60703--60776 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
60693 GCATGGATTC
* * *
60703 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
60727 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
60751 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
60775 TG
1 TG
60777 TTTTGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:60951 original size:2 final size:2
Alignment explanation
Indices: 60944--60972 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
60934 CGGATGGGGG
60944 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
60973 GTTTTAAAAA
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:64059 original size:5 final size:5
Alignment explanation
Indices: 64049--64081 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
64039 AACGGTCAAA
64049 GGTCG GGTCG GGTCG GGTCG GGTC- GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
64082 AGACCGGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.00, C:0.21, G:0.58, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:64069 original size:15 final size:14
Alignment explanation
Indices: 64049--64081 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
64039 AACGGTCAAA
64049 GGTCGGGTCGGGTCG
1 GGTCGGGTC-GGTCG
64064 GGTCGGGTCGGTCG
1 GGTCGGGTCGGTCG
64078 GGTC
1 GGTC
64082 AGACCGGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.00, C:0.21, G:0.58, T:0.21
Consensus pattern (14 bp):
GGTCGGGTCGGTCG
Found at i:71269 original size:13 final size:13
Alignment explanation
Indices: 71246--71277 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
71236 GGTCAAAGGA
71246 GGTCAACGGTCAAC
1 GGTC-ACGGTCAAC
71260 GGTCACGGTCAAC
1 GGTCACGGTCAAC
71273 GGTCA
1 GGTCA
71278 ATGGTCGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.25, C:0.28, G:0.31, T:0.16
Consensus pattern (13 bp):
GGTCACGGTCAAC
Found at i:71271 original size:20 final size:20
Alignment explanation
Indices: 71246--71283 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
71236 GGTCAAAGGA
71246 GGTCAACGGTCAACGGTCAC
1 GGTCAACGGTCAACGGTCAC
*
71266 GGTCAACGGTCAATGGTC
1 GGTCAACGGTCAACGGTC
71284 GGGTCGGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.26, G:0.32, T:0.18
Consensus pattern (20 bp):
GGTCAACGGTCAACGGTCAC
Found at i:71295 original size:17 final size:16
Alignment explanation
Indices: 71273--71324 Score: 63
Period size: 14 Copynumber: 3.3 Consensus size: 16
71263 CACGGTCAAC
*
71273 GGTCAATGGTCGGGTCG
1 GGTCAACGGTC-GGTCG
71290 GGTCAACGGTCGGTCG
1 GGTCAACGGTCGGTCG
*
71306 GGTC--GGGTCGGTCG
1 GGTCAACGGTCGGTCG
71320 GGTCA
1 GGTCA
71325 GACCGGTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 13 0.41
16 9 0.28
17 10 0.31
ACGTcount: A:0.10, C:0.21, G:0.48, T:0.21
Consensus pattern (16 bp):
GGTCAACGGTCGGTCG
Found at i:71300 original size:7 final size:7
Alignment explanation
Indices: 71246--71283 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
71236 GGTCAAAGGA
71246 GGTCAAC
1 GGTCAAC
71253 GGTCAAC
1 GGTCAAC
71260 GGTC-AC
1 GGTCAAC
71266 GGTCAAC
1 GGTCAAC
*
71273 GGTCAAT
1 GGTCAAC
71280 GGTC
1 GGTC
71284 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.24, C:0.26, G:0.32, T:0.18
Consensus pattern (7 bp):
GGTCAAC
Found at i:71306 original size:21 final size:22
Alignment explanation
Indices: 71266--71314 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 22
71256 CAACGGTCAC
71266 GGTCAACGGTCAATGGTCGGGTCG
1 GGTCAACGGTC-A-GGTCGGGTCG
71290 GGTCAACGGTC-GGTCGGGTCG
1 GGTCAACGGTCAGGTCGGGTCG
71311 GGTC
1 GGTC
71315 GGTCGGGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 14 0.56
24 11 0.44
ACGTcount: A:0.12, C:0.22, G:0.45, T:0.20
Consensus pattern (22 bp):
GGTCAACGGTCAGGTCGGGTCG
Found at i:71366 original size:18 final size:19
Alignment explanation
Indices: 71322--71369 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
71312 GTCGGTCGGG
71322 TCAGACCGGTCAAACTGGT
1 TCAGACCGGTCAAACTGGT
71341 TCAGACCGGTCAAAC-GGT
1 TCAGACCGGTCAAACTGGT
71359 TC-GAACCGGTC
1 TCAG-ACCGGTC
71370 TAACCGGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 1 0.04
18 12 0.43
19 15 0.54
ACGTcount: A:0.25, C:0.29, G:0.27, T:0.19
Consensus pattern (19 bp):
TCAGACCGGTCAAACTGGT
Found at i:75044 original size:21 final size:21
Alignment explanation
Indices: 74998--75044 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
74988 ATTTCACAAA
* *
74998 AAAAGCTACTTACATCCCATG
1 AAAATCTACTTACATCCCAGG
*
75019 AAAATCTAGTTACATCCCAGG
1 AAAATCTACTTACATCCCAGG
75040 AAAAT
1 AAAAT
75045 TCCAAAGTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (21 bp):
AAAATCTACTTACATCCCAGG
Found at i:78537 original size:33 final size:33
Alignment explanation
Indices: 78495--78560 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
78485 CAGGAAAAAT
*
78495 CAAGTAATTTGCACACAAAACAATCAAATTTTA
1 CAAGTAATTTACACACAAAACAATCAAATTTTA
*
78528 CAAGTAATTTACACACAAATCAATCAAATTTTA
1 CAAGTAATTTACACACAAAACAATCAAATTTTA
78561 AGTCCAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.29
Consensus pattern (33 bp):
CAAGTAATTTACACACAAAACAATCAAATTTTA
Found at i:79374 original size:19 final size:20
Alignment explanation
Indices: 79350--79398 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
79340 TTTTACTTCA
79350 AAAATAAATAGAT-AAAAAT
1 AAAATAAATAGATAAAAAAT
79369 AAAATAAATAGATAAAAAAT
1 AAAATAAATAGATAAAAAAT
79389 AAAATAAATA
1 AAAATAAATA
79399 AGTGAAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (20 bp):
AAAATAAATAGATAAAAAAT
Found at i:79387 original size:15 final size:16
Alignment explanation
Indices: 79349--79391 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 16
79339 ATTTTACTTC
79349 AAAAATAAATAGATAAAA
1 AAAAATAAATAGAT--AA
79367 ATAAAATAAATAGAT-A
1 A-AAAATAAATAGATAA
79383 AAAAATAAA
1 AAAAATAAA
79392 ATAAATAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.33
16 2 0.08
18 1 0.04
19 13 0.54
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (16 bp):
AAAAATAAATAGATAA
Found at i:80159 original size:15 final size:15
Alignment explanation
Indices: 80139--80174 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
80129 ACACTGTTCT
* *
80139 TCAGGGAATATTGAA
1 TCAGGGAAGATTAAA
80154 TCAGGGAAGATTAAA
1 TCAGGGAAGATTAAA
80169 TCAGGG
1 TCAGGG
80175 TAGACGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.39, C:0.08, G:0.31, T:0.22
Consensus pattern (15 bp):
TCAGGGAAGATTAAA
Found at i:80711 original size:42 final size:42
Alignment explanation
Indices: 80577--80719 Score: 157
Period size: 41 Copynumber: 3.5 Consensus size: 42
80567 AGGTCTTATG
* * * *
80577 GATGGCCCAAAGGACTTAT-CATCTTGCTCGAAAGACTTACA
1 GATGGCCCAAAGGATTTATGCATCATGCTCGGAAGACTTACT
**
80618 GA-GGACCCAAAGGATTTATGCATCATGCTTAGAA-ACTTACT
1 GATGG-CCCAAAGGATTTATGCATCATGCTCGGAAGACTTACT
* * *
80659 GATGACCCGAATGATTTATGCATCATGCTCGGAAGACTTACT
1 GATGGCCCAAAGGATTTATGCATCATGCTCGGAAGACTTACT
* *
80701 GATGGCCCGAAGGACTTAT
1 GATGGCCCAAAGGATTTAT
80720 AAATTTTGGA
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
40 2 0.02
41 48 0.57
42 34 0.40
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (42 bp):
GATGGCCCAAAGGATTTATGCATCATGCTCGGAAGACTTACT
Found at i:80926 original size:42 final size:42
Alignment explanation
Indices: 80880--80991 Score: 154
Period size: 41 Copynumber: 2.7 Consensus size: 42
80870 TCTTGCTCGA
* ***
80880 AAGACTTACAGATGACCCGAAGGATTTATGCATCATGTTCAG
1 AAGACTTACTGATGACCCGAAGGATTTATGCATCACACTCAG
*
80922 AAGACTTACTGATGA-CCGAAGGATTTATGCATCACACTCGG
1 AAGACTTACTGATGACCCGAAGGATTTATGCATCACACTCAG
* *
80963 AAGACTTACTGATGGCCCGAAGGACTTAT
1 AAGACTTACTGATGACCCGAAGGATTTAT
80992 AAATTTTGGA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 36 0.58
42 26 0.42
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (42 bp):
AAGACTTACTGATGACCCGAAGGATTTATGCATCACACTCAG
Found at i:80949 original size:272 final size:272
Alignment explanation
Indices: 80443--81222 Score: 1305
Period size: 272 Copynumber: 2.9 Consensus size: 272
80433 TGCTCGGGAT
* * * * *
80443 ACTTAAAAATTTTGGAAATATTTTACTAGGTAAGAAACCATTCTTACTTTTCAACAATTTCAATT
1 ACTTATAAATTTTGGAAATAATTTACTAGGTAATAAACCTTTCTTACTTTTCAATAATTTCAATT
* * *
80508 TCAGATTTAAATAAG-AAGCTTTCTCATTTCATGATAGACATTTGAAAACATCCCGCCAAAGGTC
66 TCAGATTTAAATGAGAAACCTTTCTCATTTCATGATAGACATTTGAAAACATCCTGCCAAAGGTC
*
80572 TTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTTACAGAGGACCCAAAGGATTTAT
131 TTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCAAAGGATTTAT
* **
80637 GCATCATGCTT-AGAA-ACTTACTGATGACCCGAATGATTTATGCATCATGCTCGGAAGACTTAC
196 GCATCATG-TTCAGAAGACTTACTGATGA-CCGAAGGATTTATGCATCACACTCGGAAGACTTAC
80700 TGATGGCCCGAAGG
259 TGATGGCCCGAAGG
*
80714 ACTTATAAATTTTGGAAATAGTTTACTAGGTAATAAACCTTTCTTACTTTTCAATAATTTCAATT
1 ACTTATAAATTTTGGAAATAATTTACTAGGTAATAAACCTTTCTTACTTTTCAATAATTTCAATT
80779 TCAGATTTAAATGAGAAACCTTTCTCATTTCATGATAGACATTTGAAAACATCCTGCCAAAGGTC
66 TCAGATTTAAATGAGAAACCTTTCTCATTTCATGATAGACATTTGAAAACATCCTGCCAAAGGTC
*
80844 TTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAT
131 TTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCAAAGGATTTAT
80909 GCATCATGTTCAGAAGACTTACTGATGACCGAAGGATTTATGCATCACACTCGGAAGACTTACTG
196 GCATCATGTTCAGAAGACTTACTGATGACCGAAGGATTTATGCATCACACTCGGAAGACTTACTG
80974 ATGGCCCGAAGG
261 ATGGCCCGAAGG
80986 ACTTATAAATTTTGGAAATAATTTACTAGGTAATAAACCTTTCTTACTTTTCAATAATTTCAATT
1 ACTTATAAATTTTGGAAATAATTTACTAGGTAATAAACCTTTCTTACTTTTCAATAATTTCAATT
* * * *
81051 TCAAACTTAAACGAGAAACCTTTCTCATTTCATGATAGACATTTGAAAACATCCTACCAAAGGTC
66 TCAGATTTAAATGAGAAACCTTTCTCATTTCATGATAGACATTTGAAAACATCCTGCCAAAGGTC
*
81116 TTATGGATGGCCCAAAGGACTTATCATCTTGGTCGAAAGACTTACAGATGACCCAAAGGATTTAT
131 TTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCAAAGGATTTAT
* * * *
81181 GCATCATGCTCGGAAGACTTACTGATGGCCCGAAGGACTTAT
196 GCATCATGTTCAGAAGACTTACTGAT-GACCGAAGGATTTAT
81223 AAATTTTGGA
Statistics
Matches: 481, Mismatches: 24, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
271 76 0.16
272 380 0.79
273 25 0.05
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (272 bp):
ACTTATAAATTTTGGAAATAATTTACTAGGTAATAAACCTTTCTTACTTTTCAATAATTTCAATT
TCAGATTTAAATGAGAAACCTTTCTCATTTCATGATAGACATTTGAAAACATCCTGCCAAAGGTC
TTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCAAAGGATTTAT
GCATCATGTTCAGAAGACTTACTGATGACCGAAGGATTTATGCATCACACTCGGAAGACTTACTG
ATGGCCCGAAGG
Found at i:81202 original size:42 final size:41
Alignment explanation
Indices: 81121--81222 Score: 132
Period size: 42 Copynumber: 2.5 Consensus size: 41
81111 AGGTCTTATG
* *
81121 GATGGCCCAAAGGACTTATCATCTTGGTCGAAAGACTTACA
1 GATGGCCCAAAGGACTTATCATCATGCTCGAAAGACTTACA
* * * *
81162 GATGACCCAAAGGATTTATGCATCATGCTCGGAAGACTTACT
1 GATGGCCCAAAGGACTTAT-CATCATGCTCGAAAGACTTACA
*
81204 GATGGCCCGAAGGACTTAT
1 GATGGCCCAAAGGACTTAT
81223 AAATTTTGGA
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
41 17 0.33
42 34 0.67
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (41 bp):
GATGGCCCAAAGGACTTATCATCATGCTCGAAAGACTTACA
Found at i:84679 original size:29 final size:29
Alignment explanation
Indices: 84647--84704 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
84637 AATAACAATT
84647 TTTTAAAAATATTTACAAAAATAGCACCC
1 TTTTAAAAATATTTACAAAAATAGCACCC
* *
84676 TTTTAAAAATATTTACGAAACTAGCACCC
1 TTTTAAAAATATTTACAAAAATAGCACCC
84705 GGTCAACGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (29 bp):
TTTTAAAAATATTTACAAAAATAGCACCC
Found at i:84735 original size:21 final size:21
Alignment explanation
Indices: 84711--84772 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
84701 ACCCGGTCAA
* *
84711 CGGTCAATGATCGGGTCGGGT
1 CGGTCAATGGTAGGGTCGGGT
* * *
84732 CGGTCAACGGTTGGGTCAGGT
1 CGGTCAATGGTAGGGTCGGGT
84753 CGGATCAATGGTAGGGTCGG
1 CGG-TCAATGGTAGGGTCGG
84773 ACCGGGTCAG
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
21 20 0.61
22 13 0.39
ACGTcount: A:0.16, C:0.18, G:0.44, T:0.23
Consensus pattern (21 bp):
CGGTCAATGGTAGGGTCGGGT
Found at i:84803 original size:19 final size:19
Alignment explanation
Indices: 84781--84817 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
84771 GGACCGGGTC
*
84781 AGACCGGTCAACCTGGTTT
1 AGACCGGTCAAACTGGTTT
84800 AGACCGGTCAAACTGGTT
1 AGACCGGTCAAACTGGTT
84818 AATTGCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (19 bp):
AGACCGGTCAAACTGGTTT
Found at i:91867 original size:29 final size:29
Alignment explanation
Indices: 91813--91911 Score: 135
Period size: 29 Copynumber: 3.4 Consensus size: 29
91803 CATTTTACAC
*
91813 AAATATCACCCTTTTTAAAAATATTTATGA
1 AAATAACACCC-TTTTAAAAATATTTATGA
*
91843 AAATAACACCCTTTTGAAAATATTTATGA
1 AAATAACACCCTTTTAAAAATATTTATGA
* *
91872 AAATAACATCCTTTTAAAAATATTTACGA
1 AAATAACACCCTTTTAAAAATATTTATGA
* *
91901 AACTAGCACCC
1 AAATAACACCC
91912 GATAAACGGT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
29 51 0.84
30 10 0.16
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
AAATAACACCCTTTTAAAAATATTTATGA
Found at i:91945 original size:21 final size:21
Alignment explanation
Indices: 91919--91999 Score: 92
Period size: 22 Copynumber: 3.8 Consensus size: 21
91909 CCCGATAAAC
91919 GGTCAACGGTCGGGTCAGGTT
1 GGTCAACGGTCGGGTCAGGTT
*
91940 GGTCAACGGTCGGGTCGGGTT
1 GGTCAACGGTCGGGTCAGGTT
* *
91961 GGGAT-AACAGTCGGGTCAGGTC
1 -GG-TCAACGGTCGGGTCAGGTT
*
91983 GTGCCAACGGTCGGGTC
1 G-GTCAACGGTCGGGTC
92000 GGACAGGTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
21 21 0.42
22 28 0.56
23 1 0.02
ACGTcount: A:0.15, C:0.21, G:0.43, T:0.21
Consensus pattern (21 bp):
GGTCAACGGTCGGGTCAGGTT
Found at i:99008 original size:33 final size:33
Alignment explanation
Indices: 98966--99031 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
98956 CAGGAAAAAT
*
98966 CAAGTAATTTGCACACAAATCAATCAAATTTTA
1 CAAGTAATTTACACACAAATCAATCAAATTTTA
*
98999 CAAGTAATTTACACACAAATCAATTAAATTTTA
1 CAAGTAATTTACACACAAATCAATCAAATTTTA
99032 AGTCCAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.32
Consensus pattern (33 bp):
CAAGTAATTTACACACAAATCAATCAAATTTTA
Found at i:99855 original size:18 final size:17
Alignment explanation
Indices: 99822--99855 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
99812 ATTTTACTTC
*
99822 AAAAATAAATAGATAAA
1 AAAAATAAAAAGATAAA
99839 AAAAATAAAAAGTATAA
1 AAAAATAAAAAG-ATAA
99856 TACCTCTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAATAAAAAGATAAA
Found at i:101088 original size:42 final size:42
Alignment explanation
Indices: 100954--101096 Score: 141
Period size: 41 Copynumber: 3.5 Consensus size: 42
100944 AGGTCTTATG
* * *
100954 GATGGCCCAAAGGACATAT-CATCTTGCTCTA-AAGACTTACA
1 GATGGCCCAAAGGACTTATGCATCATGCTC-AGAAGACTTACT
* * *
100995 GA-GGACCCAAAGGATTTATGCATCATACTTAGAA-ACTTACT
1 GATGG-CCCAAAGGACTTATGCATCATGCTCAGAAGACTTACT
* * * *
101036 GATGACCCGAAGGATTTATGCATCATGCTCGGAAGACTTACT
1 GATGGCCCAAAGGACTTATGCATCATGCTCAGAAGACTTACT
*
101078 GATGGCCCGAAGGACTTAT
1 GATGGCCCAAAGGACTTAT
101097 AAATTTTGGA
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
40 2 0.02
41 48 0.57
42 34 0.40
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (42 bp):
GATGGCCCAAAGGACTTATGCATCATGCTCAGAAGACTTACT
Found at i:101403 original size:231 final size:231
Alignment explanation
Indices: 101029--101742 Score: 1248
Period size: 231 Copynumber: 3.1 Consensus size: 231
101019 ATACTTAGAA
* * *
101029 ACTTACTGATGACCCGAAGGATTTATGCATCATGCTCGGAAGACTTACTGATGGCCCGAAGGACT
1 ACTTACAGATGACCCGAAGGATTTATGCATCACGCTAGGAAGACTTACTGATGGCCCGAAGGACT
101094 TATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAATAATTTCAATTTCA
66 TATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAATAATTTCAATTTCA
*
101159 GATTTAAATGAGAAACCTTTCTCATTTCATGATAGACATTTGAAAACATCCTACCAAATGTCTTA
131 GATTTAAATGAGAAACCTTTCTCATTTCATGATAGACATTTGAAAACATCCTACCAAAGGTCTTA
101224 TGGATGGCCCAAAGGACTAATCATCTTGCTCGAAAG
196 TGGATGGCCCAAAGGACTAATCATCTTGCTCGAAAG
** *
101260 ACTTACAGATGACCCGAAGGATTTATGCATCACAATAGGAAGACTTACTGATGGCCTGAAGGACT
1 ACTTACAGATGACCCGAAGGATTTATGCATCACGCTAGGAAGACTTACTGATGGCCCGAAGGACT
101325 TATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAATAATTTCAATTTCA
66 TATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAATAATTTCAATTTCA
*
101390 GATTTAAATGAGAAACCTTTCTCATTTCATGATAGACATTTGAAAACATCATACCAAAGGTCTTA
131 GATTTAAATGAGAAACCTTTCTCATTTCATGATAGACATTTGAAAACATCCTACCAAAGGTCTTA
101455 TGGATGGCCCAAAGGACTAATCATCTTGCTCGAAAG
196 TGGATGGCCCAAAGGACTAATCATCTTGCTCGAAAG
101491 ACTTACAGATGACCCGAAGGATTTATGCATCACGCTAGGAAGACTTACTGATGGCCCGAAGGACT
1 ACTTACAGATGACCCGAAGGATTTATGCATCACGCTAGGAAGACTTACTGATGGCCCGAAGGACT
* * * *
101556 TATAAATTTTTGAAATAATTTACAAGGTAAGAAACCTTTCTTATTTTTCAATAATTTCAATTTCA
66 TATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAATAATTTCAATTTCA
* * *
101621 TACTTAAATGAGAAACCTTTCTCATTTCATGATAGGCATTTGAAAACATCCTACCAAAGGTCTTA
131 GATTTAAATGAGAAACCTTTCTCATTTCATGATAGACATTTGAAAACATCCTACCAAAGGTCTTA
* * *
101686 TGGATGGCCCAAACGACTTATCATCTTGCTCGGAAG
196 TGGATGGCCCAAAGGACTAATCATCTTGCTCGAAAG
* *
101722 ACTTACTGATGGCCCGAAGGA
1 ACTTACAGATGACCCGAAGGA
101743 CATATAAATT
Statistics
Matches: 459, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
231 459 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (231 bp):
ACTTACAGATGACCCGAAGGATTTATGCATCACGCTAGGAAGACTTACTGATGGCCCGAAGGACT
TATAAATTTTGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAATAATTTCAATTTCA
GATTTAAATGAGAAACCTTTCTCATTTCATGATAGACATTTGAAAACATCCTACCAAAGGTCTTA
TGGATGGCCCAAAGGACTAATCATCTTGCTCGAAAG
Found at i:105145 original size:29 final size:29
Alignment explanation
Indices: 105091--105189 Score: 126
Period size: 29 Copynumber: 3.4 Consensus size: 29
105081 CATTTTACAC
* **
105091 AAATATCACCCTTTTTAAAAATATTTGGGA
1 AAATAACACCC-TTTTAAAAATATTTACGA
105121 AAATAACACCCTTTTAAAAATATTTACGA
1 AAATAACACCCTTTTAAAAATATTTACGA
* *
105150 AAATAGCACCCTTTTAAAAATATTTATGA
1 AAATAACACCCTTTTAAAAATATTTACGA
* *
105179 AACTAGCACCC
1 AAATAACACCC
105190 ATCAACGGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
29 53 0.84
30 10 0.16
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.31
Consensus pattern (29 bp):
AAATAACACCCTTTTAAAAATATTTACGA
Found at i:112278 original size:29 final size:30
Alignment explanation
Indices: 112224--112292 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 30
112214 CATTTTACAT
* *
112224 AAATATCACCCTTTTTAAAAATATTTATGA
1 AAATAGCACCCTTTTTAAAAATATTTACGA
112254 AAATAGCACCC-TTTTAAAAATATTTACGA
1 AAATAGCACCCTTTTTAAAAATATTTACGA
*
112283 AACTAGCACC
1 AAATAGCACC
112293 AGATCAACGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
29 26 0.72
30 10 0.28
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (30 bp):
AAATAGCACCCTTTTTAAAAATATTTACGA
Found at i:112326 original size:21 final size:21
Alignment explanation
Indices: 112300--112361 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
112290 ACCAGATCAA
112300 CGGTCAACGGTCGGGTCGGGT
1 CGGTCAACGGTCGGGTCGGGT
* *
112321 CGGTCAATGGTCGAGTCGGGT
1 CGGTCAACGGTCGGGTCGGGT
* *
112342 CGGGTCAACAGACGGGTCGG
1 C-GGTCAACGGTCGGGTCGG
112362 ACATGTTCAG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 20 0.59
22 14 0.41
ACGTcount: A:0.15, C:0.23, G:0.45, T:0.18
Consensus pattern (21 bp):
CGGTCAACGGTCGGGTCGGGT
Found at i:115661 original size:46 final size:47
Alignment explanation
Indices: 115598--115689 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 47
115588 TAGAACATCT
*
115598 TAACTTCATGTCATCTAGTTCGCATAC-TTACTCAAGAAATTAAACC
1 TAACTGCATGTCATCTAGTTCGCATACATTACTCAAGAAATTAAACC
* *
115644 TAACTGCATGATC-TCTAGTTCGCATACATTTATTCGAGAAATTAAA
1 TAACTGCATG-TCATCTAGTTCGCATACA-TTACTCAAGAAATTAAA
115690 ATTACACTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
46 23 0.57
47 2 0.05
48 15 0.38
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.34
Consensus pattern (47 bp):
TAACTGCATGTCATCTAGTTCGCATACATTACTCAAGAAATTAAACC
Found at i:117946 original size:10 final size:9
Alignment explanation
Indices: 117923--117962 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
117913 GCTGCTGGAA
117923 ACCGGTTTG
1 ACCGGTTTG
117932 ACCGGTTTCG
1 ACCGGTTT-G
117942 ACCGGTTTG
1 ACCGGTTTG
*
117951 ACCGGTCTG
1 ACCGGTTTG
117960 ACC
1 ACC
117963 CGACCCGACC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 20 0.69
10 9 0.31
ACGTcount: A:0.12, C:0.30, G:0.30, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:117985 original size:22 final size:22
Alignment explanation
Indices: 117959--118001 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
117949 TGACCGGTCT
117959 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
117981 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
118002 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:118003 original size:7 final size:7
Alignment explanation
Indices: 117991--118015 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
117981 GACCCGACCC
117991 GACCGTT
1 GACCGTT
117998 GACCGTT
1 GACCGTT
118005 GACCGTT
1 GACCGTT
118012 GACC
1 GACC
118016 TTCTTTGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.32, G:0.28, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:125311 original size:22 final size:22
Alignment explanation
Indices: 125285--125329 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
125275 CCCAACTAGA
125285 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
125307 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
125329 C
1 C
125330 GTTGACCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.51, G:0.22, T:0.09
Consensus pattern (22 bp):
CCGACCCGACCCGACCGTTGAC
Found at i:127738 original size:33 final size:33
Alignment explanation
Indices: 127696--127761 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
127686 CAGGAAAAAT
*
127696 CAAGTAATTTGCACACAAATCAATCAAATTTTA
1 CAAGTAATTTACACACAAATCAATCAAATTTTA
127729 CAAGTAATTTACACACAAATCAATCAAATTTTA
1 CAAGTAATTTACACACAAATCAATCAAATTTTA
127762 AGTCCAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.47, C:0.18, G:0.05, T:0.30
Consensus pattern (33 bp):
CAAGTAATTTACACACAAATCAATCAAATTTTA
Found at i:131442 original size:11 final size:11
Alignment explanation
Indices: 131426--131450 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
131416 AGGCAATCCA
131426 TTTCATTTTAT
1 TTTCATTTTAT
131437 TTTCATTTTAT
1 TTTCATTTTAT
131448 TTT
1 TTT
131451 AGCAAACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCATTTTAT
Found at i:137658 original size:9 final size:9
Alignment explanation
Indices: 137634--137666 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
137624 TGTGACATTA
*
137634 TAATAAATA
1 TAATAAATT
137643 TAA-AAATT
1 TAATAAATT
137651 TAATAAATT
1 TAATAAATT
137660 TAATAAA
1 TAATAAA
137667 CATTTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
TAATAAATT
Found at i:137671 original size:11 final size:10
Alignment explanation
Indices: 137645--137689 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
137635 AATAAATATA
137645 AAAATTTAAT
1 AAAATTTAAT
137655 -AAATTTAAT
1 AAAATTTAAT
*
137664 AAACATTTTAT
1 AAA-ATTTAAT
137675 AAAATTTCAAT
1 AAAATTT-AAT
137686 AAAA
1 AAAA
137690 ATTTGATGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 9 0.30
10 6 0.20
11 15 0.50
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATTTAAT
Found at i:149353 original size:16 final size:15
Alignment explanation
Indices: 149315--149353 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
149305 CTTAAACCCC
149315 TATTTATCTTATTCT
1 TATTTATCTTATTCT
*
149330 TATCTTATCTTATATTT
1 TAT-TTATCTTAT-TCT
149347 TATTTAT
1 TATTTAT
149354 TTTTTACCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 13 0.62
17 5 0.24
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTATCTTATTCT
Found at i:150347 original size:151 final size:152
Alignment explanation
Indices: 150073--151173 Score: 2158
Period size: 151 Copynumber: 7.3 Consensus size: 152
150063 TACTATTCAA
150073 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150138 CCCGAAGGCTTTTTGGAAACATCATGCACTGAA-GACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
150202 ATCAAAAAGCTCCCGAAGGCTT
131 ATCAAAAAGCTCCCGAAGGCTT
*
150224 TTTGGAAACATCATGAACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150288 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
150353 ATCAAAAAGCTCCCGAAGGCTT
131 ATCAAAAAGCTCCCGAAGGCTT
150375 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150440 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
150505 ATC-AAAAGCTCCCGAAGGCTT
131 ATCAAAAAGCTCCCGAAGGCTT
150526 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150590 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
150655 ATCAAAAAGCTCCCGAAGGCTT
131 ATCAAAAAGCTCCCGAAGGCTT
150677 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150742 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
150807 ATCAAAAAGCTCCCGAAGGCTT
131 ATCAAAAAGCTCCCGAAGGCTT
150829 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150894 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
150959 ATCAAAAAGCTCCCGAAGGCTT
131 ATCAAAAAGCTCCCGAAGGCTT
150981 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
151045 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
151110 ATCAAAAAGCTCCCGAAGGCTT
131 ATCAAAAAGCTCCCGAAGGCTT
151132 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
151174 ACATCATGCA
Statistics
Matches: 944, Mismatches: 2, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
150 115 0.12
151 459 0.49
152 370 0.39
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (152 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
ATCAAAAAGCTCCCGAAGGCTT
Found at i:150401 original size:76 final size:76
Alignment explanation
Indices: 150073--151173 Score: 2158
Period size: 76 Copynumber: 14.6 Consensus size: 76
150063 TACTATTCAA
150073 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150138 CCCGAAGGCTT
66 CCCGAAGGCTT
150149 TTTGGAAACATCATGCACTGAA-GACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150213 CCCGAAGGCTT
66 CCCGAAGGCTT
*
150224 TTTGGAAACATCATGAACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150288 CCCGAAGGCTT
66 CCCGAAGGCTT
150299 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150364 CCCGAAGGCTT
66 CCCGAAGGCTT
150375 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150440 CCCGAAGGCTT
66 CCCGAAGGCTT
150451 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150515 CCCGAAGGCTT
66 CCCGAAGGCTT
150526 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150590 CCCGAAGGCTT
66 CCCGAAGGCTT
150601 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150666 CCCGAAGGCTT
66 CCCGAAGGCTT
150677 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150742 CCCGAAGGCTT
66 CCCGAAGGCTT
150753 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150818 CCCGAAGGCTT
66 CCCGAAGGCTT
150829 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150894 CCCGAAGGCTT
66 CCCGAAGGCTT
150905 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150970 CCCGAAGGCTT
66 CCCGAAGGCTT
150981 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
151045 CCCGAAGGCTT
66 CCCGAAGGCTT
151056 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
151121 CCCGAAGGCTT
66 CCCGAAGGCTT
151132 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
151174 ACATCATGCA
Statistics
Matches: 1019, Mismatches: 2, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
75 373 0.37
76 646 0.63
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:150497 original size:227 final size:228
Alignment explanation
Indices: 150073--151173 Score: 2158
Period size: 227 Copynumber: 4.9 Consensus size: 228
150063 TACTATTCAA
150073 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150138 CCCGAAGGCTTTTTGGAAACATCATGCACTGAA-GACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
*
150202 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGAACTGAAGGACTTACAGATGACCCGAAG
131 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
150267 GCTTTGAAAACATC-AAAAGCTCCCGAAGGCTT
196 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
150299 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150364 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
150429 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
131 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
150494 GCTTTGAAAACATC-AAAAGCTCCCGAAGGCTT
196 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
150526 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150590 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
150655 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
131 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
150720 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
196 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
150753 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
150818 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
150883 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
131 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
150948 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
196 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
150981 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
151045 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
151110 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
131 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
151174 ACATCATGCA
Statistics
Matches: 871, Mismatches: 1, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
226 249 0.29
227 403 0.46
228 219 0.25
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (228 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
Found at i:151182 original size:35 final size:35
Alignment explanation
Indices: 151136--151208 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
151126 AGGCTTTTTG
151136 GAAACATCATGCACTGAAGGACTTACAGATGACCC
1 GAAACATCATGCACTGAAGGACTTACAGATGACCC
151171 GAAACATCATGCACTGAAGGACTTACAGATGACCC
1 GAAACATCATGCACTGAAGGACTTACAGATGACCC
151206 GAA
1 GAA
151209 GGCTTTGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (35 bp):
GAAACATCATGCACTGAAGGACTTACAGATGACCC
Found at i:151204 original size:111 final size:111
Alignment explanation
Indices: 151060--151284 Score: 450
Period size: 111 Copynumber: 2.0 Consensus size: 111
151050 AGGCTTTTTG
151060 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151125 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
151171 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151236 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
151282 GAA
1 GAA
151285 GGCTTTGAAA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 114 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (111 bp):
GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
Found at i:151299 original size:187 final size:186
Alignment explanation
Indices: 150985--151360 Score: 743
Period size: 187 Copynumber: 2.0 Consensus size: 186
150975 AGGCTTTTTG
150985 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTCCCGA
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTCCCGA
151050 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAA
151115 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
151171 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCTCCCG
151236 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
65 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
151301 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
130 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
151358 GAA
1 GAA
151361 GGCTTTGAAA
Statistics
Matches: 189, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
186 45 0.24
187 144 0.76
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (186 bp):
GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTCCCGA
AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAA
AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
Found at i:151567 original size:151 final size:152
Alignment explanation
Indices: 151171--153235 Score: 3995
Period size: 151 Copynumber: 13.7 Consensus size: 152
151161 CAGATGACCC
151171 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151236 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
151301 AAAAGCTCCCGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
151323 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151388 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
151452 AAAAGCTCCCGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
151474 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151539 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
151604 AAAAGCTCCCGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
151626 GAAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151690 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
151754 AAAAGCTCCCGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
151776 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151841 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
151906 AAAAGCTCCCGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
151928 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
*
151993 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AACCATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
152057 AAAAGCTCCCGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
152079 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152143 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
152208 AAAAGCT-CCGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
152229 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152294 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
152358 AAAAGCTCCCGAAGGC-TTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
152379 GAAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGCTTTG-AAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152442 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
152506 AAAAGCTCCCGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
152528 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152593 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
152658 AAAAGCTCCCGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
152680 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT-CCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152744 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
152808 AAAAGCTCCCGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
152830 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152895 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA-GACCCGAAGGCTTTGAAAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
152959 AAAAGCTCCCGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
152981 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT-CCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
153044 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGCTTTGAAAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
153108 AAAAGCT-CCGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
153129 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
153194 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
153236 TGGGAAATAG
Statistics
Matches: 1896, Mismatches: 2, Indels: 32
0.98 0.00 0.02
Matches are distributed among these distances:
148 158 0.08
149 135 0.07
150 412 0.22
151 782 0.41
152 409 0.22
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (152 bp):
GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
AAAAGCTCCCGAAGGCTTTTTG
Found at i:153261 original size:75 final size:76
Alignment explanation
Indices: 151171--153235 Score: 3995
Period size: 76 Copynumber: 27.4 Consensus size: 76
151161 CAGATGACCC
151171 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151236 AAGGCTTTTTG
66 AAGGCTTTTTG
151247 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151312 AAGGCTTTTTG
66 AAGGCTTTTTG
151323 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151388 AAGGCTTTTTG
66 AAGGCTTTTTG
151399 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151463 AAGGCTTTTTG
66 AAGGCTTTTTG
151474 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151539 AAGGCTTTTTG
66 AAGGCTTTTTG
151550 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151615 AAGGCTTTTTG
66 AAGGCTTTTTG
151626 GAAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151690 AAGGCTTTTTG
66 AAGGCTTTTTG
151701 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151765 AAGGCTTTTTG
66 AAGGCTTTTTG
151776 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151841 AAGGCTTTTTG
66 AAGGCTTTTTG
151852 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151917 AAGGCTTTTTG
66 AAGGCTTTTTG
151928 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
151993 AAGGCTTTTTG
66 AAGGCTTTTTG
*
152004 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AACCATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152068 AAGGCTTTTTG
66 AAGGCTTTTTG
152079 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152143 AAGGCTTTTTG
66 AAGGCTTTTTG
152154 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT-CCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152218 AAGGCTTTTTG
66 AAGGCTTTTTG
152229 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152294 AAGGCTTTTTG
66 AAGGCTTTTTG
152305 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152369 AAGGC-TTTTG
66 AAGGCTTTTTG
152379 GAAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGCTTTG-AAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152442 AAGGCTTTTTG
66 AAGGCTTTTTG
152453 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152517 AAGGCTTTTTG
66 AAGGCTTTTTG
152528 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152593 AAGGCTTTTTG
66 AAGGCTTTTTG
152604 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152669 AAGGCTTTTTG
66 AAGGCTTTTTG
152680 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT-CCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152744 AAGGCTTTTTG
66 AAGGCTTTTTG
152755 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152819 AAGGCTTTTTG
66 AAGGCTTTTTG
152830 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152895 AAGGCTTTTTG
66 AAGGCTTTTTG
152906 GAAACATCATGCACTGAAGGACTTACAGA-GACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
152970 AAGGCTTTTTG
66 AAGGCTTTTTG
152981 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT-CCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
153044 AAGGCTTTTTG
66 AAGGCTTTTTG
153055 GAAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGCTTTGAAAACATCAAAAAGCT-CCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
153118 AAGGCTTTTTG
66 AAGGCTTTTTG
153129 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
153194 AAGGCTTTTTG
66 AAGGCTTTTTG
153205 GAAACATCATGCACTGAAGGACTTACAGATG
1 GAAACATCATGCACTGAAGGACTTACAGATG
153236 TGGGAAATAG
Statistics
Matches: 1970, Mismatches: 2, Indels: 34
0.98 0.00 0.02
Matches are distributed among these distances:
72 7 0.00
73 40 0.02
74 196 0.10
75 788 0.40
76 939 0.48
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (76 bp):
GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
AAGGCTTTTTG
Found at i:153951 original size:22 final size:22
Alignment explanation
Indices: 153926--153980 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
153916 CATAAAGCTT
153926 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
153948 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
153970 TCATCTTTGAA
1 TCATCTTTGAA
153981 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:154415 original size:54 final size:54
Alignment explanation
Indices: 154333--154444 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
154323 CGAATAGCAG
** *
154333 GTTCGTAAAACATTTAACAGTACATTCATCATTTCCTGTGGTTTCTGCTCAGAT
1 GTTCGTAAAACATTTAACAACACATTCATCATTTCCTGTGGCTTCTGCTCAGAT
* * **
154387 GTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTAACAACACATTCATCATTTCCTGTGGCTTCTGCTCAGAT
154441 GTTC
1 GTTC
154445 TCAATCATTG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (54 bp):
GTTCGTAAAACATTTAACAACACATTCATCATTTCCTGTGGCTTCTGCTCAGAT
Found at i:161651 original size:21 final size:21
Alignment explanation
Indices: 161627--161666 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
161617 AAAAGTAAAA
161627 ATACAAAATGAAAATGCATAG
1 ATACAAAATGAAAATGCATAG
*
161648 ATACAAAATGTAAATGCAT
1 ATACAAAATGAAAATGCAT
161667 GTATTAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (21 bp):
ATACAAAATGAAAATGCATAG
Found at i:165195 original size:13 final size:13
Alignment explanation
Indices: 165177--165202 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
165167 CGTACTCCGC
165177 CGCCGGCCACCGT
1 CGCCGGCCACCGT
165190 CGCCGGCCACCGT
1 CGCCGGCCACCGT
165203 AAACGGTGGC
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:0.08, C:0.54, G:0.31, T:0.08
Consensus pattern (13 bp):
CGCCGGCCACCGT
Found at i:165894 original size:3 final size:3
Alignment explanation
Indices: 165886--165916 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
165876 GGCTTTGTAA
*
165886 TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
165917 TAATGATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:165978 original size:35 final size:38
Alignment explanation
Indices: 165910--165982 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
165900 TTATTATTAT
* *
165910 TTTTATTTAATGATAATATATATATATATAATAATATA
1 TTTTATTTAATAATAATATATATATATAAAATAATATA
165948 TTTTATTTAATAATAATA-ATA-AT-TAAAATAATATA
1 TTTTATTTAATAATAATATATATATATAAAATAATATA
165983 ATGAAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 11 0.33
36 2 0.06
37 3 0.09
38 17 0.52
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (38 bp):
TTTTATTTAATAATAATATATATATATAAAATAATATA
Found at i:167629 original size:17 final size:16
Alignment explanation
Indices: 167604--167646 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
167594 GTTTTCAAAC
*
167604 TCTAATTATTATTTTAT
1 TCTATTTATTATTTT-T
167621 TCTATTTATTATTTTT
1 TCTATTTATTATTTTT
167637 TCTACTTTAT
1 TCTA-TTTAT
167647 CTTTATCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.67
Consensus pattern (16 bp):
TCTATTTATTATTTTT
Found at i:169664 original size:23 final size:23
Alignment explanation
Indices: 169629--169672 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
169619 CAAACAACAG
* * *
169629 AAAATATGTCATAGAGGCAGAGA
1 AAAACATGCCATAAAGGCAGAGA
169652 AAAACATGCCATAAAGGCAGA
1 AAAACATGCCATAAAGGCAGA
169673 AGAATACGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.14, G:0.23, T:0.14
Consensus pattern (23 bp):
AAAACATGCCATAAAGGCAGAGA
Found at i:178214 original size:26 final size:27
Alignment explanation
Indices: 178154--178215 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 27
178144 TTATTAATTT
* *
178154 TATTATATATATATATTTATCATTAGC
1 TATTATATATATATACTTATCATTACC
* *
178181 -ATTGTATATATATACTTAT-ATTTCC
1 TATTATATATATATACTTATCATTACC
*
178206 TATTTTATAT
1 TATTATATAT
178216 CCTATATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 4 0.14
26 25 0.86
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (27 bp):
TATTATATATATATACTTATCATTACC
Found at i:178239 original size:2 final size:2
Alignment explanation
Indices: 178234--178260 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
178224 TATATATATA
178234 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
178261 TTTCTATTAT
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:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:181013 original size:2 final size:2
Alignment explanation
Indices: 181006--181032 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
180996 CAGTTGTTGG
181006 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 T
181033 TCCTAATTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:191656 original size:7 final size:7
Alignment explanation
Indices: 191638--191671 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
191628 GAACATTTCA
191638 TGCATCTT
1 TGCAT-TT
191646 TGCATTT
1 TGCATTT
191653 TGCATTT
1 TGCATTT
191660 TGCATTT
1 TGCATTT
191667 TGCAT
1 TGCAT
191672 CTACATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.81
8 5 0.19
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.53
Consensus pattern (7 bp):
TGCATTT
Found at i:191663 original size:14 final size:15
Alignment explanation
Indices: 191638--191673 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
191628 GAACATTTCA
191638 TGCATCTTTGCATTT
1 TGCATCTTTGCATTT
191653 TGCAT-TTTGCATTT
1 TGCATCTTTGCATTT
191667 TGCATCT
1 TGCATCT
191674 ACATTTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.53
Consensus pattern (15 bp):
TGCATCTTTGCATTT
Found at i:192974 original size:16 final size:15
Alignment explanation
Indices: 192909--192977 Score: 61
Period size: 16 Copynumber: 4.5 Consensus size: 15
192899 GTAAAAAAAG
*
192909 CAAAAAG-AAAGCAA
1 CAAAAAGAAAAGGAA
*
192923 -AAAAGAGAAACAAGAA
1 CAAAA-AGAAA-AGGAA
192939 CAAAAAGAAAAGGAA
1 CAAAAAGAAAAGGAA
*
192954 TCAAAAAGAAAAAGGGA
1 -CAAAAAG-AAAAGGAA
192971 CAAAAAG
1 CAAAAAG
192978 CACATGCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
13 4 0.09
14 2 0.04
15 6 0.13
16 22 0.49
17 11 0.24
ACGTcount: A:0.71, C:0.09, G:0.19, T:0.01
Consensus pattern (15 bp):
CAAAAAGAAAAGGAA
Found at i:193602 original size:22 final size:22
Alignment explanation
Indices: 193574--193628 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
193564 GCTACCCCAT
193574 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
193596 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
193618 CAAACCTTTGA
1 CAAACCTTTGA
193629 CCAAACACGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:194527 original size:36 final size:36
Alignment explanation
Indices: 194432--194535 Score: 93
Period size: 36 Copynumber: 2.9 Consensus size: 36
194422 ATCACACTTG
* * **
194432 AGATTGTTTTTTTTAAAAC-AGACTTTGTCTCACTTG
1 AGATTGTTTTTCTTAAAACAAGA-TTTATCTCACTCA
* * ** * *
194468 AGACTGTTTTACTCGAAAGAAGATTTATTTCACTCA
1 AGATTGTTTTTCTTAAAACAAGATTTATCTCACTCA
194504 AGATTGTTTTTCTTAAAACAAGATTTTATCTC
1 AGATTGTTTTTCTTAAAACAAGA-TTTATCTC
194536 GCTTGAGATA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
36 40 0.80
37 10 0.20
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (36 bp):
AGATTGTTTTTCTTAAAACAAGATTTATCTCACTCA
Found at i:194587 original size:37 final size:37
Alignment explanation
Indices: 194515--194606 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 37
194505 GATTGTTTTT
* * *
194515 CTTAAAACAAGATTTTATCTCGCTTGAGATAGTTTCC
1 CTTAAAACAAAATTTTGTCTCGCTTGAGACAGTTTCC
* *
194552 CTTAAAACAAAATTTTGTCTC-CTTTGAGACCGTTTCT
1 CTTAAAACAAAATTTTGTCTCGC-TTGAGACAGTTTCC
* *
194589 CTTGAAACATAAACTTTG
1 CTTAAAACA-AAATTTTG
194607 AAAACAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
36 1 0.02
37 38 0.83
38 7 0.15
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (37 bp):
CTTAAAACAAAATTTTGTCTCGCTTGAGACAGTTTCC
Found at i:194691 original size:36 final size:36
Alignment explanation
Indices: 194644--194766 Score: 185
Period size: 36 Copynumber: 3.4 Consensus size: 36
194634 TTGAATATGT
* *
194644 TTTCTCTTGAAATAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
194680 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* *
194716 TCTTC-CTTGAAACAAATTTTGTCTCCCTTGAGATAG
1 T-TTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
194752 TTTCTCTCGAAACAA
1 TTTCTCTTGAAACAA
194767 CACAATTTGC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
35 3 0.04
36 74 0.93
37 3 0.04
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:194744 original size:21 final size:21
Alignment explanation
Indices: 194685--194746 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
194675 GACAGTTTCT
*
194685 CTTGAAACAAATTTTGTCTCT
1 CTTGAAACAAATTTTGTCTCC
* *
194706 CTTGAGAC--A----GTCTTC
1 CTTGAAACAAATTTTGTCTCC
194721 CTTGAAACAAATTTTGTCTCC
1 CTTGAAACAAATTTTGTCTCC
194742 CTTGA
1 CTTGA
194747 GATAGTTTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 12
0.64 0.11 0.26
Matches are distributed among these distances:
15 11 0.37
17 1 0.03
19 1 0.03
21 17 0.57
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.39
Consensus pattern (21 bp):
CTTGAAACAAATTTTGTCTCC
Found at i:195305 original size:106 final size:106
Alignment explanation
Indices: 195182--195404 Score: 349
Period size: 106 Copynumber: 2.1 Consensus size: 106
195172 TCAACACTCA
*
195182 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTC
*
195247 CAGAATCAATTTCAACTTCAC-AGCGAAGGATATTGGACGCG
66 CAGAACCAATTTCAACTTCACGA-CGAAGGATATTGGACGCG
* * *
195288 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAATTTCCCAGTTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTC
* *
195353 CAGAACCAATTTCAACTTCACGACGGAGGATATTGGACTCG
66 CAGAACCAATTTCAACTTCACGACGAAGGATATTGGACGCG
* *
195394 AAACAATACAA
1 AGACAACACAA
195405 CTTACTTGGA
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
106 106 0.99
107 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (106 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTC
CAGAACCAATTTCAACTTCACGACGAAGGATATTGGACGCG
Found at i:197411 original size:2 final size:2
Alignment explanation
Indices: 197404--197430 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
197394 TTTTATAACC
197404 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 T
197431 GTTTTTCTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:199878 original size:180 final size:183
Alignment explanation
Indices: 199555--199887 Score: 494
Period size: 180 Copynumber: 1.8 Consensus size: 183
199545 CATGACTCTG
199555 GGAAAACTTTCAAACTTGGAATGGTTAGAACTGGATGATAATTCTCTTTCAGGTCCCATACTTTT
1 GGAAAACTTTCAAACTTGGAATGGTTAGAACTGGATGATAA-T-TCTTTCAGGTCCCATACTTTT
**
199620 CTCAATCATGACTTTATTTTCACTAGTAAAAAAATTATTTTATAACGTTGCATTTCAGGCCATCT
64 CTCAATCATGACTTTATTTTCACTAGTAAAAAAATTATTTTATAACGTAACATTTCAGGCCATCT
*
199685 ACTCTCGCTTGAACAATTCCAATTTTACATTTCAGGTACAATTCCATCTGTTATC
129 ACTCTCACTTGAACAATTCCAATTTTACATTTCAGGTACAATTCCATCTGTTATC
* * * **
199740 GGAAACCTTTCAAACTTGGGATGGTTATATTTGGATGATAA-T-TTTCAGGT-CCATACTTTTCT
1 GGAAAACTTTCAAACTTGGAATGGTTAGAACTGGATGATAATTCTTTCAGGTCCCATACTTTTCT
* ** *
199802 CAATTATGACTTTATTTTCACTAGTAAAAAGTTTATTTTATAAC-TAACGTTGTCAGGCCATCTA
66 CAATCATGACTTTATTTTCACTAGTAAAAAAATTATTTTATAACGTAACATT-TCAGGCCATCTA
*
199866 TTCTCACTTGAACAATTCCAAT
130 CTCTCACTTGAACAATTCCAAT
199888 ATTTTGTTAT
Statistics
Matches: 134, Mismatches: 13, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
179 4 0.03
180 85 0.63
181 8 0.06
182 1 0.01
185 36 0.27
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (183 bp):
GGAAAACTTTCAAACTTGGAATGGTTAGAACTGGATGATAATTCTTTCAGGTCCCATACTTTTCT
CAATCATGACTTTATTTTCACTAGTAAAAAAATTATTTTATAACGTAACATTTCAGGCCATCTAC
TCTCACTTGAACAATTCCAATTTTACATTTCAGGTACAATTCCATCTGTTATC
Found at i:208759 original size:19 final size:20
Alignment explanation
Indices: 208725--208762 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
208715 CGGTACCTAA
*
208725 TTAATATTTATTTTATTTTT
1 TTAATATTTATATTATTTTT
208745 TTAAT-TTTATATTATTTT
1 TTAATATTTATATTATTTT
208763 AAAAATCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TTAATATTTATATTATTTTT
Found at i:212818 original size:13 final size:13
Alignment explanation
Indices: 212800--212825 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
212790 TACTTGTATA
212800 CAAAAGAGATTAT
1 CAAAAGAGATTAT
212813 CAAAAGAGATTAT
1 CAAAAGAGATTAT
212826 ACCTTTAAAG
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:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
CAAAAGAGATTAT
Found at i:216161 original size:2 final size:2
Alignment explanation
Indices: 216154--216199 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
216144 CTTTGCAAGT
216154 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
216196 TA TA
1 TA TA
216200 AAAGCTTATC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:217682 original size:42 final size:42
Alignment explanation
Indices: 217636--217798 Score: 195
Period size: 42 Copynumber: 3.9 Consensus size: 42
217626 AAATAAATAA
* *
217636 ATAACAACATTAAATCTCAATAAGTCTAAAATAAATAACATC
1 ATAACAACATTAAATCTCAATAAATCTAAAATAAATAATATC
* *
217678 ATAACACCATTAAATCTCAATAAATCGAAAATAAATAATA-C
1 ATAACAACATTAAATCTCAATAAATCTAAAATAAATAATATC
* * *
217719 TATAATATCATTAAGTCTCAATAAATCTAAAATAAATAATATC
1 -ATAACAACATTAAATCTCAATAAATCTAAAATAAATAATATC
* * * *
217762 ATAAC-ACTATTAAGTATCAATAAGTTTAAAATAAATA
1 ATAACAAC-ATTAAATCTCAATAAATCTAAAATAAATA
217799 TAGTGTGCAT
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.02
42 102 0.97
43 1 0.01
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.29
Consensus pattern (42 bp):
ATAACAACATTAAATCTCAATAAATCTAAAATAAATAATATC
Found at i:217763 original size:84 final size:84
Alignment explanation
Indices: 217643--217798 Score: 231
Period size: 84 Copynumber: 1.9 Consensus size: 84
217633 TAAATAACAA
* *
217643 CATTAAATCTCAATAAGTCTAAAATAAATAACATCATAACACCATTAAATCTCAATAAATCGAAA
1 CATTAAATCTCAATAAATCTAAAATAAATAACATCATAACACCATTAAATATCAATAAATCGAAA
217708 ATAAATAATACTATAATAT
66 ATAAATAATACTATAATAT
* * * * * **
217727 CATTAAGTCTCAATAAATCTAAAATAAATAATATCATAACACTATTAAGTATCAATAAGTTTAAA
1 CATTAAATCTCAATAAATCTAAAATAAATAACATCATAACACCATTAAATATCAATAAATCGAAA
217792 ATAAATA
66 ATAAATA
217799 TAGTGTGCAT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 63 1.00
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.30
Consensus pattern (84 bp):
CATTAAATCTCAATAAATCTAAAATAAATAACATCATAACACCATTAAATATCAATAAATCGAAA
ATAAATAATACTATAATAT
Found at i:220557 original size:16 final size:17
Alignment explanation
Indices: 220536--220570 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
220526 TTACTATTCA
220536 CGTGAATAGT-AAATTT
1 CGTGAATAGTGAAATTT
220552 CGTGAATAGTGAAATTT
1 CGTGAATAGTGAAATTT
220569 CG
1 CG
220571 GTCGGCGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (17 bp):
CGTGAATAGTGAAATTT
Found at i:227477 original size:46 final size:47
Alignment explanation
Indices: 227387--227477 Score: 105
Period size: 46 Copynumber: 1.9 Consensus size: 47
227377 CACACTCCAA
* * * *
227387 TTTGCCTTTTCATCGCGACTAGGAGGGTTGGTTAGAGCATTTATCGTG
1 TTTGCCTTTTCATC-CGACTAGGAGGGCTCGATAGAGCACTTATCGTG
*
227435 TTTGCCTTTTCAT-TGACTAGGAGGGCTCGATAG-GACACTTATC
1 TTTGCCTTTTCATCCGACTAGGAGGGCTCGATAGAG-CACTTATC
227478 CATCTATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
45 1 0.03
46 23 0.62
48 13 0.35
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (47 bp):
TTTGCCTTTTCATCCGACTAGGAGGGCTCGATAGAGCACTTATCGTG
Found at i:227964 original size:10 final size:10
Alignment explanation
Indices: 227951--227996 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
227941 AGAAAAACAA
227951 AAAAAAAGGC
1 AAAAAAAGGC
227961 AAAAAAAAAGGC
1 --AAAAAAAGGC
227973 AAAAAAA--C
1 AAAAAAAGGC
*
227981 AAAAAAAGCC
1 AAAAAAAGGC
227991 AAAAAA
1 AAAAAA
227997 GCCAAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.25
10 14 0.44
12 10 0.31
ACGTcount: A:0.78, C:0.11, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAGGC
Found at i:227994 original size:8 final size:9
Alignment explanation
Indices: 227964--228003 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
227954 AAAAGGCAAA
*
227964 AAAAAAGGC
1 AAAAAAGCC
* *
227973 AAAAAAACA
1 AAAAAAGCC
227982 AAAAAAGCC
1 AAAAAAGCC
227991 AAAAAAGCC
1 AAAAAAGCC
228000 AAAA
1 AAAA
228004 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.75, C:0.15, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAGCC
Found at i:227996 original size:12 final size:12
Alignment explanation
Indices: 227948--227979 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
227938 TTTAGAAAAA
227948 CAAAAAAAAAGG
1 CAAAAAAAAAGG
227960 CAAAAAAAAAGG
1 CAAAAAAAAAGG
227972 CAAAAAAA
1 CAAAAAAA
227980 CAAAAAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.78, C:0.09, G:0.12, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAGG
Found at i:234040 original size:48 final size:48
Alignment explanation
Indices: 233948--234040 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
233938 CACACTCCAA
* * * *
233948 TTTGCCTTTTCATCGCGACTAGGAGGGTTGGTTAGAGCCATTATCGTG
1 TTTGCCTTTTCATCGCGACTAGGAGGGCTCGATAGAGACATTATCGTG
*
233996 TTTGCCTTTTCATTGCGACTAGGAGGGCTCGATAG-GACACTTATC
1 TTTGCCTTTTCATCGCGACTAGGAGGGCTCGATAGAGACA-TTATC
234041 CATCTATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 3 0.08
48 36 0.92
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.34
Consensus pattern (48 bp):
TTTGCCTTTTCATCGCGACTAGGAGGGCTCGATAGAGACATTATCGTG
Found at i:235718 original size:29 final size:29
Alignment explanation
Indices: 235676--235736 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
235666 CCTATTCTGC
235676 ATTCATTCGACAGAATATGAAAACAACCT
1 ATTCATTCGACAGAATATGAAAACAACCT
235705 ATTCATTCGACAGAATATGAAAACAACCT
1 ATTCATTCGACAGAATATGAAAACAACCT
235734 ATT
1 ATT
235737 ACTATAAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (29 bp):
ATTCATTCGACAGAATATGAAAACAACCT
Found at i:238020 original size:20 final size:20
Alignment explanation
Indices: 237997--238041 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
237987 ATTGATAACA
*
237997 ATACTAAAT-TATAAATATTG
1 ATACTAAATGGAT-AATATTG
*
238017 ATACTATATGGATAATATTG
1 ATACTAAATGGATAATATTG
238037 ATACT
1 ATACT
238042 CTTCGAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (20 bp):
ATACTAAATGGATAATATTG
Found at i:238054 original size:19 final size:20
Alignment explanation
Indices: 238010--238058 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
238000 CTAAATTATA
* *
238010 AATATTGATACTATATGGAT
1 AATATTGATACTATATCGAG
*
238030 AATATTGATACTCT-TCGAG
1 AATATTGATACTATATCGAG
238049 AATATTGATA
1 AATATTGATA
238059 TCAATTTAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (20 bp):
AATATTGATACTATATCGAG
Found at i:238495 original size:11 final size:11
Alignment explanation
Indices: 238479--238542 Score: 65
Period size: 11 Copynumber: 5.6 Consensus size: 11
238469 ATCGTTTTTG
238479 AGCTCGATTCA
1 AGCTCGATTCA
*
238490 AGCTCGAACTCA
1 AGCTCG-ATTCA
* **
238502 AACTCGAATTTG
1 AGCTCG-ATTCA
*
238514 AGCTCGGTTCA
1 AGCTCGATTCA
238525 AGCTCGATTCA
1 AGCTCGATTCA
238536 AGCTCGA
1 AGCTCGA
238543 ACTCGAATTT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
11 25 0.60
12 17 0.40
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (11 bp):
AGCTCGATTCA
Found at i:240752 original size:17 final size:17
Alignment explanation
Indices: 240730--240762 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
240720 TTAGTGTTCC
240730 TTCAATT-TGTGCTTGTT
1 TTCAATTGTGT-CTTGTT
240747 TTCAATTGTGTCTTGT
1 TTCAATTGTGTCTTGT
240763 AATTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (17 bp):
TTCAATTGTGTCTTGTT
Found at i:241078 original size:21 final size:21
Alignment explanation
Indices: 241052--241163 Score: 130
Period size: 21 Copynumber: 5.7 Consensus size: 21
241042 GTGTATAAAT
*
241052 TAAACCATAAACCATAAATCC
1 TAAACCATAAACCCTAAATCC
*
241073 TAAACCAT-AA-GCT--A---
1 TAAACCATAAACCCTAAATCC
* *
241087 TAAACCCTAAACCCTAATTCC
1 TAAACCATAAACCCTAAATCC
241108 TAAACCATAAACCCTAAATCC
1 TAAACCATAAACCCTAAATCC
241129 TAAACCATAAACCCTAAATCC
1 TAAACCATAAACCCTAAATCC
*
241150 TAAACCCTAAACCC
1 TAAACCATAAACCC
241164 GATCATATAA
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.09
15 2 0.03
16 2 0.03
17 1 0.01
19 1 0.01
20 2 0.03
21 61 0.80
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (21 bp):
TAAACCATAAACCCTAAATCC
Found at i:241163 original size:7 final size:7
Alignment explanation
Indices: 241052--241163 Score: 107
Period size: 7 Copynumber: 16.0 Consensus size: 7
241042 GTGTATAAAT
*
241052 TAAACCA
1 TAAACCC
*
241059 TAAACCA
1 TAAACCC
*
241066 TAAATCC
1 TAAACCC
*
241073 TAAACCA
1 TAAACCC
* **
241080 TAAGCTA
1 TAAACCC
241087 TAAACCC
1 TAAACCC
241094 TAAACCC
1 TAAACCC
**
241101 TAATTCC
1 TAAACCC
*
241108 TAAACCA
1 TAAACCC
241115 TAAACCC
1 TAAACCC
*
241122 TAAATCC
1 TAAACCC
*
241129 TAAACCA
1 TAAACCC
241136 TAAACCC
1 TAAACCC
*
241143 TAAATCC
1 TAAACCC
241150 TAAACCC
1 TAAACCC
241157 TAAACCC
1 TAAACCC
241164 GATCATATAA
Statistics
Matches: 84, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 84 1.00
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:242949 original size:21 final size:23
Alignment explanation
Indices: 242910--242951 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
242900 GTACTCATGT
*
242910 CATTTCTCTTGTGATCACATATA
1 CATTTCTCTTCTGATCACATATA
242933 CATTT-TCTTCTG-TCACATA
1 CATTTCTCTTCTGATCACATA
242952 CCACATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.45
Consensus pattern (23 bp):
CATTTCTCTTCTGATCACATATA
Found at i:242957 original size:22 final size:23
Alignment explanation
Indices: 242910--242957 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
242900 GTACTCATGT
* *
242910 CATTTCTCTTGTGATCACATATA
1 CATTTCTCTTCTGATCACATACA
242933 CATTT-TCTTCTG-TCACATACCA
1 CATTTCTCTTCTGATCACATA-CA
242955 CAT
1 CAT
242958 GTATGTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 7 0.32
22 10 0.45
23 5 0.23
ACGTcount: A:0.25, C:0.27, G:0.06, T:0.42
Consensus pattern (23 bp):
CATTTCTCTTCTGATCACATACA
Found at i:245057 original size:21 final size:21
Alignment explanation
Indices: 245033--245080 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
245023 TCTTCCAAAA
*
245033 AGTCAAAGTTAACGA-TCAAC
1 AGTCAAAGTCAACGAGTCAAC
*
245053 GAGTCAAAGTCAATGAGTCAAC
1 -AGTCAAAGTCAACGAGTCAAC
245075 AGTCAA
1 AGTCAA
245081 GTCGAGTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (21 bp):
AGTCAAAGTCAACGAGTCAAC
Found at i:245070 original size:14 final size:15
Alignment explanation
Indices: 245048--245080 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
245038 AAGTTAACGA
245048 TCAACGAGTCAA-AG
1 TCAACGAGTCAACAG
*
245062 TCAATGAGTCAACAG
1 TCAACGAGTCAACAG
245077 TCAA
1 TCAA
245081 GTCGAGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.18
Consensus pattern (15 bp):
TCAACGAGTCAACAG
Found at i:245142 original size:23 final size:23
Alignment explanation
Indices: 245110--245175 Score: 105
Period size: 23 Copynumber: 2.9 Consensus size: 23
245100 TTTGGTTCAG
*
245110 TTTAGTCAGTTCGATTCAACAAT
1 TTTAGGCAGTTCGATTCAACAAT
245133 TTTAGGCAGTTCGATTCAACAAT
1 TTTAGGCAGTTCGATTCAACAAT
**
245156 TTTAGGTGGTTCGATTCAAC
1 TTTAGGCAGTTCGATTCAAC
245176 GGTTTAACTG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (23 bp):
TTTAGGCAGTTCGATTCAACAAT
Found at i:246773 original size:39 final size:39
Alignment explanation
Indices: 246681--246833 Score: 121
Period size: 39 Copynumber: 3.9 Consensus size: 39
246671 CTTTTCGCAA
* * *
246681 GCTCCT-TGGCTTTGTGCACATGATAAGACCTTAAC-GCAT
1 GCTCCTAT-GCTTTGTGCACAGGGTAAGACCTT-ACTGCAG
* ** * * *
246720 GCTCATCGGCTTTGTACTCAGGGTAAGTCCTTACTGCAG
1 GCTCCTATGCTTTGTGCACAGGGTAAGACCTTACTGCAG
* * * * *
246759 TCTCCTGTGGTTTGTGCACAGGATAAGACCTTATTGCAG
1 GCTCCTATGCTTTGTGCACAGGGTAAGACCTTACTGCAG
* * *
246798 GCTCTTATGCTTTCTGCACAGGGTAAGCCCTTACTG
1 GCTCCTATGCTTTGTGCACAGGGTAAGACCTTACTG
246834 GGTGTACAGG
Statistics
Matches: 86, Mismatches: 26, Indels: 4
0.74 0.22 0.03
Matches are distributed among these distances:
38 2 0.02
39 84 0.98
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.32
Consensus pattern (39 bp):
GCTCCTATGCTTTGTGCACAGGGTAAGACCTTACTGCAG
Found at i:246820 original size:78 final size:78
Alignment explanation
Indices: 246682--246833 Score: 189
Period size: 78 Copynumber: 1.9 Consensus size: 78
246672 TTTTCGCAAG
* * * * *
246682 CTCCTTGGCTTTGTGCACATGATAAGACCTTAACGCATGCTCATCGGCTTTGTACTCAGGGTAAG
1 CTCCTTGGCTTTGTGCACAGGATAAGACCTTAACGCAGGCTCATAGGCTTTCTACACAGGGTAAG
*
246747 TCCTTACTGCAGT
66 CCCTTACTGCAGT
** * * *
246760 CTCCTGTGG-TTTGTGCACAGGATAAGACCTTATTGCAGGCTCTTATGCTTTCTGCACAGGGTAA
1 CTCCT-TGGCTTTGTGCACAGGATAAGACCTTAACGCAGGCTCATAGGCTTTCTACACAGGGTAA
246824 GCCCTTACTG
65 GCCCTTACTG
246834 GGTGTACAGG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
78 59 0.95
79 3 0.05
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (78 bp):
CTCCTTGGCTTTGTGCACAGGATAAGACCTTAACGCAGGCTCATAGGCTTTCTACACAGGGTAAG
CCCTTACTGCAGT
Found at i:263696 original size:20 final size:20
Alignment explanation
Indices: 263668--263713 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
263658 ATCGAATGTA
* *
263668 AGTACCGATATTGCTATAGT
1 AGTATCGATATTGCTACAGT
*
263688 AGTATCGATGTTGCTACAGT
1 AGTATCGATATTGCTACAGT
*
263708 AATATC
1 AGTATC
263714 AAGCCTAACG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (20 bp):
AGTATCGATATTGCTACAGT
Found at i:267049 original size:20 final size:21
Alignment explanation
Indices: 267024--267072 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
267014 AGTATTGTAT
267024 TGTATGAACT-GTACCGATAC
1 TGTATGAACTAGTACCGATAC
*
267044 TGTATGAA-TAGTATCGATAC
1 TGTATGAACTAGTACCGATAC
*
267064 TGTGTGAAC
1 TGTATGAAC
267073 ATTAATGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (21 bp):
TGTATGAACTAGTACCGATAC
Done.