Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008532.1 Hibiscus syriacus cultivar Beakdansim tig00111410_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: 857509
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:884 original size:7 final size:7
Alignment explanation
Indices: 872--951 Score: 76
Period size: 7 Copynumber: 11.6 Consensus size: 7
862 TGAACCCCCC
872 TTTATTT
1 TTTATTT
879 TTTATTT
1 TTTATTT
*
886 TTTTTTCT
1 TTTATT-T
*
894 TCTTCTTT
1 T-TTATTT
902 TTTATTT
1 TTTATTT
*
909 TTT-TTA
1 TTTATTT
915 TTT-TTT
1 TTTATTT
*
921 TTCATTT
1 TTTATTT
*
928 TTCATTT
1 TTTATTT
935 TTTA-TT
1 TTTATTT
941 TTTATTT
1 TTTATTT
948 TTTA
1 TTTA
952 AGCAAAACCC
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
6 15 0.24
7 39 0.63
8 4 0.06
9 4 0.06
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTATTT
Found at i:906 original size:30 final size:32
Alignment explanation
Indices: 872--950 Score: 110
Period size: 31 Copynumber: 2.5 Consensus size: 32
862 TGAACCCCCC
872 TTTATTTTTTATTTTTTTTTC-TTCTTC-TTT
1 TTTATTTTTTATTTTTTTTTCATTCTTCATTT
* *
902 TTTATTTTTTTTATTTTTTTTCATTTTTCATTT
1 TTTATTTTTTAT-TTTTTTTTCATTCTTCATTT
935 TTTA-TTTTTATTTTTT
1 TTTATTTTTTATTTTTT
951 AAGCAAAACC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 11 0.26
31 14 0.33
32 11 0.26
33 7 0.16
ACGTcount: A:0.10, C:0.06, G:0.00, T:0.84
Consensus pattern (32 bp):
TTTATTTTTTATTTTTTTTTCATTCTTCATTT
Found at i:915 original size:39 final size:39
Alignment explanation
Indices: 872--950 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 39
862 TGAACCCCCC
**
872 TTTATTTTTTATTTTTTTTTC-TTCTTCT-TTTTTATTTTT
1 TTTATTTTTT-TTCATTTTTCATT-TTCTATTTTTATTTTT
*
911 TTTATTTTTTTTCATTTTTCATTTTTTATTTTTATTTTT
1 TTTATTTTTTTTCATTTTTCATTTTCTATTTTTATTTTT
950 T
1 T
951 AAGCAAAACC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 11 0.31
39 24 0.69
ACGTcount: A:0.10, C:0.06, G:0.00, T:0.84
Consensus pattern (39 bp):
TTTATTTTTTTTCATTTTTCATTTTCTATTTTTATTTTT
Found at i:920 original size:33 final size:33
Alignment explanation
Indices: 872--943 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
862 TGAACCCCCC
*
872 TTTATTTTTTAT-TTTTTTTTC-TTCTTC-TTT
1 TTTATTTTTTTTATTTTTTTTCATTCTTCATTT
*
902 TTTATTTTTTTTATTTTTTTTCATTTTTCATTT
1 TTTATTTTTTTTATTTTTTTTCATTCTTCATTT
935 TTTATTTTT
1 TTTATTTTT
944 ATTTTTTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 11 0.30
31 9 0.24
32 5 0.14
33 12 0.32
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (33 bp):
TTTATTTTTTTTATTTTTTTTCATTCTTCATTT
Found at i:2075 original size:3 final size:3
Alignment explanation
Indices: 2061--2094 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
2051 GTACCAAGGC
2061 CTT CTAT CTT CTT CTT CTT CTT -TT CTT CTT CTT C
1 CTT CT-T CTT CTT CTT CTT CTT CTT CTT CTT CTT C
2095 AATGGGTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:12379 original size:20 final size:20
Alignment explanation
Indices: 12354--12394 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
12344 TCATTTCATT
12354 TAAAGGTCTTAACCTTTCAA
1 TAAAGGTCTTAACCTTTCAA
12374 TAAAGGTCTTAACCTTTCAA
1 TAAAGGTCTTAACCTTTCAA
12394 T
1 T
12395 CCTCTCCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TAAAGGTCTTAACCTTTCAA
Found at i:15275 original size:22 final size:22
Alignment explanation
Indices: 15245--15291 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
15235 GTTGCCCAGA
*
15245 ATAGAGGAAATCGGTACCCCTTC
1 ATAGAGG-AATCGATACCCCTTC
15268 ATAG-GGAATCGATACCCCTTC
1 ATAGAGGAATCGATACCCCTTC
15289 ATA
1 ATA
15292 ATATTCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.74
22 2 0.09
23 4 0.17
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (22 bp):
ATAGAGGAATCGATACCCCTTC
Found at i:15365 original size:20 final size:21
Alignment explanation
Indices: 15326--15367 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
15316 GCTGTTGAAC
15326 AGGGGGGAATCGGTACCCCCT
1 AGGGGGGAATCGGTACCCCCT
15347 AGGGGGGAATCGGTACCCCCT
1 AGGGGGGAATCGGTACCCCCT
15368 GGACATTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.38, T:0.14
Consensus pattern (21 bp):
AGGGGGGAATCGGTACCCCCT
Found at i:15428 original size:20 final size:20
Alignment explanation
Indices: 15403--15465 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
15393 AAAACCTGCA
15403 GGGGGGTATCTGTACCCCCT
1 GGGGGGTATCTGTACCCCCT
15423 GGGGGGTATCTGTACCCCCT
1 GGGGGGTATCTGTACCCCCT
* *
15443 GGGGGGAATCTATACCCCCT
1 GGGGGGTATCTGTACCCCCT
15463 GGG
1 GGG
15466 CAATCTTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.13, C:0.29, G:0.37, T:0.22
Consensus pattern (20 bp):
GGGGGGTATCTGTACCCCCT
Found at i:15587 original size:29 final size:31
Alignment explanation
Indices: 15555--15614 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
15545 AAACTTTGAA
15555 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
15584 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
15615 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:15805 original size:22 final size:22
Alignment explanation
Indices: 15774--15820 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
15764 AAGCTCCCCC
15774 TTTTTCATTAAGAAATTGAATT
1 TTTTTCATTAAGAAATTGAATT
*
15796 TTTTTTATTAAGAAATTGAATT
1 TTTTTCATTAAGAAATTGAATT
15818 TTT
1 TTT
15821 CAAACTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (22 bp):
TTTTTCATTAAGAAATTGAATT
Found at i:17843 original size:34 final size:32
Alignment explanation
Indices: 17789--17858 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
17779 ACCTTACAAC
* *
17789 TCCCTAGTTTTTCCGGGCTAAACTATAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
17821 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
17855 TCCC
1 TCCC
17859 CTTTATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:18098 original size:20 final size:22
Alignment explanation
Indices: 18073--18112 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
18063 AGTCGTATAT
18073 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
18093 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
18113 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:18164 original size:21 final size:21
Alignment explanation
Indices: 18140--18182 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
18130 CCCAGAATAG
*
18140 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
*
18161 AGGGAATCGATACCCTTTCAT
1 AGGGAATCGATACCCCTTCAT
18182 A
1 A
18183 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:18255 original size:19 final size:20
Alignment explanation
Indices: 18218--18259 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
18208 CTGTTGAACA
18218 GGGGGGAATCGGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
18238 GGGGGGAATCGGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
18258 GG
1 GG
18260 ACATTCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.29, G:0.43, T:0.14
Consensus pattern (20 bp):
GGGGGGAATCGGTACCCCCT
Found at i:18314 original size:15 final size:15
Alignment explanation
Indices: 18294--18323 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18284 AAACCTGCAG
*
18294 GGGGTATCTGTACCC
1 GGGGTAACTGTACCC
18309 GGGGTAACTGTACCC
1 GGGGTAACTGTACCC
18324 CCTGGGGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.27, G:0.33, T:0.23
Consensus pattern (15 bp):
GGGGTAACTGTACCC
Found at i:18507 original size:34 final size:29
Alignment explanation
Indices: 18439--18498 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
18429 AAACTTTGAA
*
18439 TAAATTCAATTAAGTCCAAAAATATTTTG
1 TAAATTCAATTAAGTCCAAAAACATTTTG
18468 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
18499 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (29 bp):
TAAATTCAATTAAGTCCAAAAACATTTTG
Found at i:21008 original size:28 final size:28
Alignment explanation
Indices: 20989--21059 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
20979 AAGCGTTGAC
*
20989 TCGACGACATAATGTTTTAAGTAATACT
1 TCGACGACATAATGTTTTAAGCAATACT
* *
21017 TTGACGACATAATGTTTTAAGCAGTACT
1 TCGACGACATAATGTTTTAAGCAATACT
* *
21045 TTGATGACATAATGT
1 TCGACGACATAATGT
21060 CAATGGAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (28 bp):
TCGACGACATAATGTTTTAAGCAATACT
Found at i:34558 original size:14 final size:15
Alignment explanation
Indices: 34539--34576 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
34529 TTCCCATCTC
34539 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
34553 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
34569 TAATTTTT
1 TAATTTTT
34577 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:35360 original size:24 final size:24
Alignment explanation
Indices: 35302--35348 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
35292 AGTCAGTATT
*
35302 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
35326 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
35349 TCGGATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:35550 original size:9 final size:9
Alignment explanation
Indices: 35536--35568 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
35526 TATAACCCTG
35536 AAGAAGAAA
1 AAGAAGAAA
35545 AAGAAGAAA
1 AAGAAGAAA
35554 AAGAA-AAA
1 AAGAAGAAA
35562 GAAGAAG
1 -AAGAAG
35569 TCACCGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.14
9 19 0.86
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (9 bp):
AAGAAGAAA
Found at i:35559 original size:15 final size:15
Alignment explanation
Indices: 35539--35567 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35529 AACCCTGAAG
35539 AAGAAAAAGAAGAAA
1 AAGAAAAAGAAGAAA
35554 AAGAAAAAGAAGAA
1 AAGAAAAAGAAGAA
35568 GTCACCGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAAGAAA
Found at i:36783 original size:20 final size:20
Alignment explanation
Indices: 36760--36804 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
36750 AAATCGCAAC
* *
36760 GCGAATTTGACTTTCGCGTT
1 GCGAATTTGAATTTCACGTT
36780 GCGAATTTGAATTTCACGTT
1 GCGAATTTGAATTTCACGTT
36800 GCGAA
1 GCGAA
36805 AGTGTATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (20 bp):
GCGAATTTGAATTTCACGTT
Found at i:36967 original size:64 final size:64
Alignment explanation
Indices: 36863--37011 Score: 244
Period size: 64 Copynumber: 2.3 Consensus size: 64
36853 AATTTAAAAC
36863 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
* *** * *
36927 AATAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTTCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
36991 AACAAATCAACTTTTACAAAT
1 AACAAATCAACTTTTACAAAT
37012 GCATCAATTT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 78 1.00
ACGTcount: A:0.52, C:0.16, G:0.02, T:0.30
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
Found at i:38402 original size:21 final size:22
Alignment explanation
Indices: 38378--38476 Score: 116
Period size: 21 Copynumber: 4.7 Consensus size: 22
38368 GTGGGAGAGA
*
38378 CCTCTTGAACGATGA-CAGGGG
1 CCTCTTGAACGATGAGGAGGGG
*
38399 CCTCTTGAACGGT-AGGAGGGG
1 CCTCTTGAACGATGAGGAGGGG
* * *
38420 CCTCTTGAAGGATGA-TAGGGT
1 CCTCTTGAACGATGAGGAGGGG
*
38441 CCTCTTGAACGAT-AGGAGAGG
1 CCTCTTGAACGATGAGGAGGGG
38462 CCTCTTGAACGATGA
1 CCTCTTGAACGATGA
38477 AAGGTGAATC
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.03
21 60 0.94
22 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.22
Consensus pattern (22 bp):
CCTCTTGAACGATGAGGAGGGG
Found at i:38424 original size:42 final size:42
Alignment explanation
Indices: 38363--38476 Score: 165
Period size: 42 Copynumber: 2.7 Consensus size: 42
38353 TCGGGTTCTC
* *
38363 GAACGGTGGGAGAGACCTCTTGAACGATGACAGGGGCCTCTT
1 GAACGGTAGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTT
* * * *
38405 GAACGGTAGGAGGGGCCTCTTGAAGGATGATAGGGTCCTCTT
1 GAACGGTAGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTT
*
38447 GAACGATAGGAGAGGCCTCTTGAACGATGA
1 GAACGGTAGGAGAGGCCTCTTGAACGATGA
38477 AAGGTGAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.25, C:0.18, G:0.36, T:0.20
Consensus pattern (42 bp):
GAACGGTAGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTT
Found at i:42560 original size:22 final size:22
Alignment explanation
Indices: 42530--42576 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
42520 GAAGGGAAAA
*
42530 CCAACAATTTCACTCATTTGAT
1 CCAACAATTTCACTCATTTAAT
* *
42552 CCAAGAATTTCATTCATTTAAT
1 CCAACAATTTCACTCATTTAAT
42574 CCA
1 CCA
42577 TAATTCCCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (22 bp):
CCAACAATTTCACTCATTTAAT
Found at i:44399 original size:20 final size:20
Alignment explanation
Indices: 44374--44436 Score: 101
Period size: 20 Copynumber: 3.1 Consensus size: 20
44364 GTTCTTAGCC
44374 CATTTAGGATCATATAGATG
1 CATTTAGGATCATATAGATG
44394 CATTTAGGATCATATAGATG
1 CATTTAGGATCATATAGATG
*
44414 CATTTAGG-TGCATATAGTTG
1 CATTTAGGAT-CATATAGATG
44434 CAT
1 CAT
44437 GTGGTAGAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 1 0.02
20 40 0.98
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (20 bp):
CATTTAGGATCATATAGATG
Found at i:44435 original size:10 final size:10
Alignment explanation
Indices: 44384--44436 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
44374 CATTTAGGAT
44384 CATATAGATG
1 CATATAGATG
*
44394 CATTTAGGAT-
1 CATATA-GATG
44404 CATATAGATG
1 CATATAGATG
* *
44414 CATTTAGGTG
1 CATATAGATG
*
44424 CATATAGTTG
1 CATATAGATG
44434 CAT
1 CAT
44437 GTGGTAGAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 3 0.09
10 29 0.83
11 3 0.09
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (10 bp):
CATATAGATG
Found at i:47396 original size:31 final size:34
Alignment explanation
Indices: 47361--47435 Score: 84
Period size: 35 Copynumber: 2.3 Consensus size: 34
47351 TTTAATTTGT
*
47361 AATAATAAAT-AA-TAT-TATAACATAAATATTA
1 AATAATAAATCAAGTATATATAACATAAATAATA
* * *
47392 AATAATATATCAAGTTATATGTAACGTAAATAATA
1 AATAATAAATCAAG-TATATATAACATAAATAATA
47427 AATAATAAA
1 AATAATAAA
47436 ATTGACAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 9 0.26
32 2 0.06
34 3 0.09
35 21 0.60
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (34 bp):
AATAATAAATCAAGTATATATAACATAAATAATA
Found at i:48724 original size:38 final size:37
Alignment explanation
Indices: 48639--48731 Score: 114
Period size: 38 Copynumber: 2.5 Consensus size: 37
48629 ACTTTATTTT
*
48639 GTTCGGGTTGGGTCGGGGTTTTTAAGTGTGATATTAG
1 GTTCGGGTCGGGTCGGGGTTTTTAAGTGTGATATTAG
* * * * *
48676 GGTCGAGTCGGGTCGGGATTTTTTAAGTGTGCTATTCG
1 GTTCGGGTCGGGTCGGG-GTTTTTAAGTGTGATATTAG
48714 GTTCGGGTCGGGTTCGGG
1 GTTCGGGTCGGG-TCGGG
48732 TTTAGGGTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 14 0.30
38 27 0.59
39 5 0.11
ACGTcount: A:0.11, C:0.11, G:0.42, T:0.37
Consensus pattern (37 bp):
GTTCGGGTCGGGTCGGGGTTTTTAAGTGTGATATTAG
Found at i:49325 original size:17 final size:18
Alignment explanation
Indices: 49299--49345 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
49289 TATGAAATTG
* *
49299 GATTCCAATTCC-TGACA
1 GATTCTAATTCCTTCACA
49316 GATTCTAATTCCTTCACA
1 GATTCTAATTCCTTCACA
49334 GATTCTAATTCC
1 GATTCTAATTCC
49346 CTCATAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.36
Consensus pattern (18 bp):
GATTCTAATTCCTTCACA
Found at i:54880 original size:18 final size:17
Alignment explanation
Indices: 54853--54886 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
54843 CCAGAATGTC
54853 GAAAAGGTATCGATACT
1 GAAAAGGTATCGATACT
54870 GAAATAGGTATCGATAC
1 GAAA-AGGTATCGATAC
54887 CATAGAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (17 bp):
GAAAAGGTATCGATACT
Found at i:55733 original size:23 final size:23
Alignment explanation
Indices: 55697--55803 Score: 133
Period size: 23 Copynumber: 4.7 Consensus size: 23
55687 GTCGAGGGTT
*
55697 CTATGTGGTTCTTCGGGAAAAAC
1 CTATGTGGTCCTTCGGGAAAAAC
* ** *
55720 CAATGTGGTCCTTCAAGATAAAC
1 CTATGTGGTCCTTCGGGAAAAAC
* *
55743 CTATGTGGTCCTTCAGGAAAAAT
1 CTATGTGGTCCTTCGGGAAAAAC
*
55766 CTATGTGGTCCTTTGGGAAAAAC
1 CTATGTGGTCCTTCGGGAAAAAC
*
55789 CTATGTGGTCATTCG
1 CTATGTGGTCCTTCG
55804 AGACAAATAT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGAAAAAC
Found at i:61173 original size:14 final size:12
Alignment explanation
Indices: 61150--61210 Score: 59
Period size: 14 Copynumber: 4.8 Consensus size: 12
61140 AAAGAGAGAG
*
61150 AAAAACGAAAACA
1 AAAAAAGAAAA-A
61163 ACAAAAAGAAAAA
1 A-AAAAAGAAAAA
*
61176 AAAAGAGAAAAGA
1 AAAAAAGAAAA-A
61189 AAAAAGAGAAAAA
1 AAAAA-AGAAAAA
*
61202 TAAAAAGAA
1 AAAAAAGAA
61211 GAAAGAGAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
12 13 0.32
13 13 0.32
14 15 0.37
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.02
Consensus pattern (12 bp):
AAAAAAGAAAAA
Found at i:61186 original size:26 final size:26
Alignment explanation
Indices: 61150--61210 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
61140 AAAGAGAGAG
61150 AAAAACGAAAACAACAAAA-AGAAAAA-
1 AAAAA-GAAAACAA-AAAAGAGAAAAAT
*
61176 AAAAGAGAAAAGAAAAAAGAGAAAAAT
1 AAAA-AGAAAACAAAAAAGAGAAAAAT
61203 AAAAAGAA
1 AAAAAGAA
61211 GAAAGAGAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 4 0.13
26 22 0.71
27 5 0.16
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.02
Consensus pattern (26 bp):
AAAAAGAAAACAAAAAAGAGAAAAAT
Found at i:61191 original size:15 final size:14
Alignment explanation
Indices: 61171--61214 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
61161 CAACAAAAAG
61171 AAAAAAAAAGAGAA
1 AAAAAAAAAGAGAA
*
61185 AAGAAAAAAGAGAA
1 AAAAAAAAAGAGAA
*
61199 AAATAAAAAGAAGAA
1 AAAAAAAAAG-AGAA
61214 A
1 A
61215 GAGAGCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 21 0.81
15 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAGAGAA
Found at i:61210 original size:12 final size:12
Alignment explanation
Indices: 61165--61210 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
61155 CGAAAACAAC
61165 AAAA-AGAAAAA
1 AAAAGAGAAAAA
61176 AAAAGAGAAAAGAA
1 AAAAGAG-AAA-AA
61190 AAAAGAGAAAAA
1 AAAAGAGAAAAA
61202 TAAAA-AGAA
1 -AAAAGAGAA
61211 GAAAGAGAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 4 0.13
12 8 0.26
13 10 0.32
14 9 0.29
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (12 bp):
AAAAGAGAAAAA
Found at i:63089 original size:41 final size:42
Alignment explanation
Indices: 62988--63094 Score: 126
Period size: 42 Copynumber: 2.6 Consensus size: 42
62978 CCAAAATTTG
* * *
62988 TAAGTCCTTCGGGCCATCAATAAGTCTTTCAAGCATGATGAT
1 TAAGTCCTTCGGGCCATCTATAAGTCATTCAAGCAAGATGAT
* * * * * *
63030 TAAATCCTTTGGGTCATCTTTCAGTCATTCGAGCAAGATGA-
1 TAAGTCCTTCGGGCCATCTATAAGTCATTCAAGCAAGATGAT
63071 TAAGTCCTTCGGGCCATCTATAAG
1 TAAGTCCTTCGGGCCATCTATAAG
63095 ACCTTTGGAC
Statistics
Matches: 51, Mismatches: 14, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
41 19 0.37
42 32 0.63
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (42 bp):
TAAGTCCTTCGGGCCATCTATAAGTCATTCAAGCAAGATGAT
Found at i:63295 original size:42 final size:42
Alignment explanation
Indices: 63248--63331 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
63238 CCAAAATTGG
*
63248 TAAATCATTCGGGTCATCAGT-AAGTCTTTCAAGCACGATGAT
1 TAAATCATTCGGGTCATCAGTCAA-TCTTTCAAGCAAGATGAT
* * *
63290 TAAATCCTTCGGGTCATCTGTCAATCTTTCGAGCAAGATGAT
1 TAAATCATTCGGGTCATCAGTCAATCTTTCAAGCAAGATGAT
63332 AAGCCTTTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 35 0.95
43 2 0.05
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (42 bp):
TAAATCATTCGGGTCATCAGTCAATCTTTCAAGCAAGATGAT
Found at i:63323 original size:260 final size:259
Alignment explanation
Indices: 62866--63819 Score: 1395
Period size: 259 Copynumber: 3.7 Consensus size: 259
62856 TTGTTTTAAT
*
62866 ATAATTTTAAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATT
1 ATAATTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATT
* * * *
62931 TTTG--AA--AAGAAAGCGATTTCTAAAGGTTT-TTACCCAGTAGACTATTTCCAAAATTTGTAA
66 TTTGAAAAGTAAGAAAGCGATTTCCAAA-GTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAA
* * * *
62991 GTCCTTCGGGCCATCAATAAGTCTTTCAAGCATGATGATTAAATCCTTTGGGTCATCTTTCAGTC
130 ATCATTCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTCATCTTTCAGTC
* * *
63056 ATTCGAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTTGGACAAGATGCTTTCATATG
195 TTTCGAGCAAGATGATAAGTCCTTCGGGACATCTATAAGACCTTTGGGCAAGATGCTTTCATATG
*
63121 ATAATTTGAAAATTGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAAATGAAAT
1 ATAATTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAG-AAAATGAAAT
* *
63186 TTTTGAAAATTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAA
65 TTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAA
* * * *
63251 ATCATTCGGGTCATCAGTAAGTCTTTCAAGCACGATGATTAAATCCTTCGGGTCATCTGTCAATC
130 ATCATTCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTCATCTTTCAGTC
* *
63316 TTTCGAGCAAGATGATAAG-CCTTTCTGGACATCTATAAGACCTTTGGGCAAGATGATTTCATAT
195 TTTCGAGCAAGATGATAAGTCC-TTCGGGACATCTATAAGACCTTTGGGCAAGATGCTTTCATAT
63380 G
259 G
* * *
63381 ATAATTTGAAAAATGAGAAAGCGGTTTTCAAAGTTTCTTATTTAATATTTTCAGAAAATGAAAAT
1 ATAATTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATT
**
63446 TTTGAAAAGTAAGAAAGTTATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGG-AAA
66 TTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAA
* *
63510 GTCATTCGGGCCATCAGAAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTTATCTTTCAGTC
131 -TCATTCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTCATCTTTCAGTC
* * * * * *
63575 TTACGAGCAAGATGATAAGTCATTCGGGTCATCTATAATATCTTTGGGTAAGATGCTTTCATATG
195 TTTCGAGCAAGATGATAAGTCCTTCGGGACATCTATAAGACCTTTGGGCAAGATGCTTTCATATG
* * *
63640 ACAATTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAGA-ATTTTTAGAAAATAAAAT
1 ATAATTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTA-ATATTTTCAGAAAATGAAAT
* *
63704 TTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACCTAGTGAACTATTTCCAAAATTGGTAA
65 TTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAA
* * * * *
63769 GTCTTTTGGGCCATCAGTAAGCCTTTCGAA-CATGATGATTAAATCTTTCGG
130 ATCATTCGGGCCATCAGTAAGTCTTTC-AAGCATGATGATTAAATCCTTCGG
63820 ATTACAATCT
Statistics
Matches: 631, Mismatches: 56, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
255 52 0.08
256 15 0.02
258 5 0.01
259 344 0.55
260 215 0.34
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (259 bp):
ATAATTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATT
TTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAA
TCATTCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTCATCTTTCAGTCT
TTCGAGCAAGATGATAAGTCCTTCGGGACATCTATAAGACCTTTGGGCAAGATGCTTTCATATG
Found at i:63575 original size:42 final size:41
Alignment explanation
Indices: 63529--63608 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
63519 GCCATCAGAA
* * * *
63529 AGTCTTTCAAGCATGATGATTAAATCCTTCGGGTTATCTTTC
1 AGTCTTACAAGCAAGATGA-TAAATCATTCGGGTCATCTTTC
* *
63571 AGTCTTACGAGCAAGATGATAAGTCATTCGGGTCATCT
1 AGTCTTACAAGCAAGATGATAAATCATTCGGGTCATCT
63609 ATAATATCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 16 0.50
42 16 0.50
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (41 bp):
AGTCTTACAAGCAAGATGATAAATCATTCGGGTCATCTTTC
Found at i:63945 original size:8 final size:8
Alignment explanation
Indices: 63934--64062 Score: 57
Period size: 8 Copynumber: 15.2 Consensus size: 8
63924 TTTTTAAGAG
63934 AAAAGAAAA
1 AAAAG-AAA
63943 AAAATGAAA
1 AAAA-GAAA
* *
63952 AATTAGGAA
1 AA-AAGAAA
63961 -AAAGAAA
1 AAAAGAAA
63968 AAAGAGAAGAA
1 AAA-AG-A-AA
63979 AAAAGAAA
1 AAAAGAAA
63987 AAAATG--A
1 AAAA-GAAA
*
63994 GAAAGAAA
1 AAAAGAAA
**
64002 ATGAGAAA
1 AAAAGAAA
*
64010 AAAAGAAG
1 AAAAGAAA
*
64018 AGAAGAAA
1 AAAAGAAA
*
64026 AGAGAGAAA
1 A-AAAGAAA
*
64035 GAAAAAAGAA
1 -AAAAGA-AA
64045 AAAAGAAA
1 AAAAGAAA
*
64053 AAAGGAAA
1 AAAAGAAA
64061 AA
1 AA
64063 GGGAAAAGAA
Statistics
Matches: 89, Mismatches: 19, Indels: 25
0.67 0.14 0.19
Matches are distributed among these distances:
6 1 0.01
7 8 0.09
8 38 0.43
9 29 0.33
10 8 0.09
11 5 0.06
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (8 bp):
AAAAGAAA
Found at i:63953 original size:10 final size:9
Alignment explanation
Indices: 63934--64055 Score: 63
Period size: 9 Copynumber: 13.2 Consensus size: 9
63924 TTTTTAAGAG
63934 AAAAGAAAA
1 AAAAGAAAA
63943 AAAATGAAAA
1 AAAA-GAAAA
** *
63953 ATTAG-GA-
1 AAAAGAAAA
63960 AAAAGAAAA
1 AAAAGAAAA
*
63969 AAGAGAAGAA
1 AAAAGAA-AA
63979 AAAAGAAAA
1 AAAAGAAAA
63988 AAATGAGAAAGA
1 AAA--AGAAA-A
*
64000 AAATGAGAAA
1 AAAAGA-AAA
*
64010 AAAAG-AAG
1 AAAAGAAAA
*
64018 AGAAGAAAA
1 AAAAGAAAA
* *
64027 GAGAGAAAGA
1 AAAAGAAA-A
*
64037 AAAA-AGAA
1 AAAAGAAAA
64045 AAAAGAAAA
1 AAAAGAAAA
64054 AA
1 AA
64056 GGAAAAAGGG
Statistics
Matches: 82, Mismatches: 20, Indels: 22
0.66 0.16 0.18
Matches are distributed among these distances:
7 3 0.04
8 13 0.16
9 30 0.37
10 25 0.30
11 7 0.09
12 4 0.05
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:63996 original size:18 final size:18
Alignment explanation
Indices: 63949--63997 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
63939 AAAAAAAATG
* *
63949 AAAAATTAGGAAAAAGAA
1 AAAAATGAGAAAAAAGAA
63967 AAAAGA-GAAGAAAAAAGAA
1 AAAA-ATG-AGAAAAAAGAA
63986 AAAAATGAGAAA
1 AAAAATGAGAAA
63998 GAAAATGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (18 bp):
AAAAATGAGAAAAAAGAA
Found at i:64003 original size:56 final size:59
Alignment explanation
Indices: 63937--64048 Score: 151
Period size: 56 Copynumber: 1.9 Consensus size: 59
63927 TTAAGAGAAA
* *
63937 AGAAAAAAAATGA-AAAATTAGGAA-A-AAGAAAAAAGAG-AAGAAAAAAGAAAAAAATG
1 AGAAAAAAAATGAGAAAA-AAAGAAGAGAAGAAAAAAGAGAAAGAAAAAAGAAAAAAATG
* *
63993 AGAAAGAAAATGAGAAAAAAAGAAGAGAAGAAAAGAGAGAAAGAAAAAAGAAAAAA
1 AGAAAAAAAATGAGAAAAAAAGAAGAGAAGAAAAAAGAGAAAGAAAAAAGAAAAAA
64049 GAAAAAAGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
56 16 0.33
57 5 0.10
58 11 0.23
59 16 0.33
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (59 bp):
AGAAAAAAAATGAGAAAAAAAGAAGAGAAGAAAAAAGAGAAAGAAAAAAGAAAAAAATG
Found at i:64080 original size:8 final size:7
Alignment explanation
Indices: 63932--64087 Score: 97
Period size: 7 Copynumber: 21.6 Consensus size: 7
63922 AATTTTTAAG
63932 AGAAAAGA
1 AGAAAA-A
63940 A-AAAAA
1 AGAAAAA
63946 ATGAAAAA
1 A-GAAAAA
*
63954 TTAGGAAAA
1 --AGAAAAA
63963 AGAAAAA
1 AGAAAAA
*
63970 AG--AGA
1 AGAAAAA
63975 AGAAAAA
1 AGAAAAA
63982 AGAAAAA
1 AGAAAAA
*
63989 A-ATGAGAA
1 AGA--AAAA
*
63997 AGAAAATG
1 AGAAAA-A
64005 AGAAAAA
1 AGAAAAA
* *
64012 A-AGAAG
1 AGAAAAA
64018 AGAAGAAA
1 AGAA-AAA
*
64026 AGAGAGAA
1 AGA-AAAA
64034 AGAAAAA
1 AGAAAAA
64041 AGAAAAA
1 AGAAAAA
64048 AGAAAAA
1 AGAAAAA
*
64055 AGGAAAA
1 AGAAAAA
**
64062 AGGGAAA
1 AGAAAAA
64069 AGAAAAA
1 AGAAAAA
64076 TAGAAAAA
1 -AGAAAAA
64084 AGAA
1 AGAA
64088 GGAAAAAAGA
Statistics
Matches: 116, Mismatches: 18, Indels: 29
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.03
6 7 0.06
7 64 0.55
8 33 0.28
9 7 0.06
10 1 0.01
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (7 bp):
AGAAAAA
Found at i:65392 original size:42 final size:42
Alignment explanation
Indices: 65332--65447 Score: 205
Period size: 42 Copynumber: 2.8 Consensus size: 42
65322 CCTGAAATCT
*
65332 CGTGTTTGTTTCATGTAATTCGTTTTCCGGAAAATGTTTTCC
1 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTTCC
*
65374 CGTGTTTGTTTCACGTAATTCGTTTTCCGAAAAATGTTTTCC
1 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTTCC
*
65416 CGTGTTTGTTTCACATAATTCGTTTTCCGGAA
1 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
65448 CGTAATTCAT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (42 bp):
CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTTCC
Found at i:65679 original size:29 final size:28
Alignment explanation
Indices: 65646--65816 Score: 90
Period size: 29 Copynumber: 6.0 Consensus size: 28
65636 AAATATTTAA
65646 AATATATTTATTAATATTTATAATAATAT
1 AATATATTTATT-ATATTTATAATAATAT
* *
65675 AATATTATATTTTTA-ATATTAT-ATAAAAT
1 AATA-TAT-TTATTATAT-TTATAATAATAT
* * *
65704 AATCA-ATTATATTATAATAAT-ATAAGAT
1 AAT-ATATT-TATTATATTTATAATAATAT
*
65732 ATTATATTT-TTAT-TTTAATAATATATAT
1 AATATATTTATTATATTT-ATAATA-ATAT
* *
65760 AATACATTTTTTATATATT-TAATAATGAAT
1 AATATATTTATTATAT-TTATAATAAT--AT
*
65790 AATTTTATTTA-TATATTTA-AATAATAT
1 AA-TATATTTATTATATTTATAATAATAT
65817 TTTAGTAAAG
Statistics
Matches: 110, Mismatches: 15, Indels: 36
0.68 0.09 0.22
Matches are distributed among these distances:
25 1 0.01
26 6 0.05
27 8 0.07
28 32 0.29
29 33 0.30
30 19 0.17
31 11 0.10
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
AATATATTTATTATATTTATAATAATAT
Found at i:65684 original size:22 final size:23
Alignment explanation
Indices: 65637--65697 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 23
65627 TAATTATTAA
* *
65637 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
65658 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
* *
65681 -ATATTTTTAATATTATA
1 AATATTTATAATAATATA
65698 TAAAATAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.32
22 19 0.56
23 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:65939 original size:90 final size:86
Alignment explanation
Indices: 65832--66001 Score: 191
Period size: 90 Copynumber: 1.9 Consensus size: 86
65822 TAAAGATATT
* * * * * *
65832 TAAAATATACTAATTAATAATTTTA-AAATATAA-TATAACACTATTACTTTAATAAATAATTAA
1 TAAAATATACAAATTAATAATTTTATAAATAAAATTATAAAAATAATA-TTTAAT-AATAAATAA
65895 TATAATTTATAATATTTTATTTCAC
64 -ATAATTT-TAATATTTTATTTCAC
* *
65920 TAAAATATACCAATATTAATATTTTTATTAATAAAATTATAAAAATAATATTTAATAATAAATAA
1 TAAAATATA-CAA-ATTAATAATTTTATAAATAAAATTATAAAAATAATATTTAATAATAAATAA
*
65985 ATTATTTTAATATTTTA
64 ATAATTTTAATATTTTA
66002 AAATAATAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
88 19 0.28
89 8 0.12
90 20 0.29
91 12 0.17
92 10 0.14
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (86 bp):
TAAAATATACAAATTAATAATTTTATAAATAAAATTATAAAAATAATATTTAATAATAAATAAAT
AATTTTAATATTTTATTTCAC
Found at i:66192 original size:15 final size:15
Alignment explanation
Indices: 66156--66222 Score: 82
Period size: 15 Copynumber: 4.5 Consensus size: 15
66146 TTCCAGAAAT
*
66156 GTAATTCATTTTCCA
1 GTAATTCAATTTCCA
*
66171 G-AATTCAAGTTCCA
1 GTAATTCAATTTCCA
* *
66185 GTAATTCATTTTCGA
1 GTAATTCAATTTCCA
*
66200 GTAATTCAAATTCCA
1 GTAATTCAATTTCCA
66215 GTAATTCA
1 GTAATTCA
66223 TTTTTCGAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
14 12 0.28
15 31 0.72
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (15 bp):
GTAATTCAATTTCCA
Found at i:66193 original size:29 final size:30
Alignment explanation
Indices: 66156--66226 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
66146 TTCCAGAAAT
*
66156 GTAATTCATTTTCCAG-AATTCAAGTTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
*
66185 GTAATTCATTTTCGAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
66215 GTAATTCATTTT
1 GTAATTCATTTT
66227 TCGAAAAACC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 15 0.38
30 24 0.62
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:68750 original size:18 final size:18
Alignment explanation
Indices: 68718--68769 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 18
68708 TCAAGAATGG
68718 ATTTGGTTAAACAATGTGTC
1 ATTT-GTTAAACAATGTG-C
68738 ATTTGTT-AACAA--TGC
1 ATTTGTTAAACAATGTGC
68753 ATTTGTTAAACAATGTG
1 ATTTGTTAAACAATGTG
68770 AAACTGTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.28
16 7 0.24
18 7 0.24
19 3 0.10
20 4 0.14
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (18 bp):
ATTTGTTAAACAATGTGC
Found at i:68757 original size:15 final size:16
Alignment explanation
Indices: 68713--68767 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 16
68703 TGCATTCAAG
*
68713 AATGGATTTGGTTAAAC
1 AATGCATTT-GTTAAAC
68730 AATGTGTCATTTGTT-AAC
1 AA--TG-CATTTGTTAAAC
68748 AATGCATTTGTTAAAC
1 AATGCATTTGTTAAAC
68764 AATG
1 AATG
68768 TGAAACTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
15 8 0.24
16 9 0.27
17 2 0.06
18 5 0.15
19 5 0.15
20 4 0.12
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (16 bp):
AATGCATTTGTTAAAC
Found at i:72225 original size:24 final size:23
Alignment explanation
Indices: 72198--72242 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
72188 AATTCTTGTG
* *
72198 AGAAATTGAGAGAATGAAAAAGGA
1 AGAAACTGAGA-AAAGAAAAAGGA
72222 AGAAACTGAGAAAAGAAAAAG
1 AGAAACTGAGAAAAGAAAAAG
72243 AAATTTTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.62, C:0.02, G:0.27, T:0.09
Consensus pattern (23 bp):
AGAAACTGAGAAAAGAAAAAGGA
Found at i:75385 original size:37 final size:36
Alignment explanation
Indices: 75344--75512 Score: 139
Period size: 35 Copynumber: 4.8 Consensus size: 36
75334 AATATGGGTT
* *
75344 TTTTTGAAAACATATAATATGTAGTTTTGGAAACTCA
1 TTTTTGAAAACATATAATATATAGTTTTGGAAA-ACA
* ** *
75381 TTTTTAAAAACATATAATATATA-TTTTTTAAAACG
1 TTTTTGAAAACATATAATATATAGTTTTGGAAAACA
* * * *
75416 GTTGTGAAAACATATAATATATAGTTTT-TAAAACG
1 TTTTTGAAAACATATAATATATAGTTTTGGAAAACA
* * * *
75451 GTTTTGAAAACATATAGTATATGGGTTTT--AAAATA
1 TTTTTGAAAACATATAATATAT-AGTTTTGGAAAACA
* * *
75486 ATTTTGAAAACATATAGTATATGGTTT
1 TTTTTGAAAACATATAATATATAGTTT
75513 CTAAAATAAT
Statistics
Matches: 115, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
34 5 0.04
35 73 0.63
36 16 0.14
37 21 0.18
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (36 bp):
TTTTTGAAAACATATAATATATAGTTTTGGAAAACA
Found at i:75433 original size:35 final size:35
Alignment explanation
Indices: 75387--75552 Score: 163
Period size: 35 Copynumber: 4.8 Consensus size: 35
75377 CTCATTTTTA
*
75387 AAAACATATAATATATATTTTTTAAAACGGTTGTG
1 AAAACATATAATATATAGTTTTTAAAACGGTTGTG
*
75422 AAAACATATAATATATAGTTTTTAAAACGGTTTTG
1 AAAACATATAATATATAGTTTTTAAAACGGTTGTG
* * * *** *
75457 AAAACATATAGTATATGGGTTTTAAAATAATTTTG
1 AAAACATATAATATATAGTTTTTAAAACGGTTGTG
* * * *** *
75492 AAAACATATAGTATATGGTTTCTAAAATAATT-TA
1 AAAACATATAATATATAGTTTTTAAAACGGTTGTG
* *
75526 AAAAAATATAGTATATAGTTTTTAAAA
1 AAAACATATAATATATAGTTTTTAAAA
75553 TAATTTAAAA
Statistics
Matches: 117, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
34 25 0.21
35 92 0.79
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (35 bp):
AAAACATATAATATATAGTTTTTAAAACGGTTGTG
Found at i:75483 original size:70 final size:70
Alignment explanation
Indices: 75348--75584 Score: 194
Period size: 70 Copynumber: 3.4 Consensus size: 70
75338 TGGGTTTTTT
* * * * **
75348 TGAAAACATATAATATGTAGTTTTGGAAACTCATTTTTAAAAACATATAATATATATTTTTTAAA
1 TGAAAACATATAATATATAGTTTT-TAAA-ACAGTTTTAAAAACATATAATATATAGGTTTTAAA
**
75413 ACGGTTG
64 ACAATTG
* * * * *
75420 TGAAAACATATAATATATAGTTTTTAAAACGGTTTTGAAAACATATAGTATATGGGTTTTAAAAT
1 TGAAAACATATAATATATAGTTTTTAAAACAGTTTTAAAAACATATAATATATAGGTTTTAAAAC
*
75485 AATTT
66 AATTG
* * * * * * * * *
75490 TGAAAACATATAGTATATGGTTTCTAAAATA-ATTTAAAAAAATATAGTATATAGTTTTTAAAAT
1 TGAAAACATATAATATATAGTTTTTAAAACAGTTTTAAAAACATATAATATATAGGTTTTAAAAC
75554 AATT-
66 AATTG
* **
75558 TAAAAATGTATAATATA-A-TTTTTAAAA
1 TGAAAACATATAATATATAGTTTTTAAAA
75585 TAATTTTGAA
Statistics
Matches: 135, Mismatches: 30, Indels: 6
0.79 0.18 0.04
Matches are distributed among these distances:
66 8 0.06
68 13 0.10
69 32 0.24
70 56 0.41
71 3 0.02
72 23 0.17
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (70 bp):
TGAAAACATATAATATATAGTTTTTAAAACAGTTTTAAAAACATATAATATATAGGTTTTAAAAC
AATTG
Found at i:75614 original size:32 final size:33
Alignment explanation
Indices: 75457--75617 Score: 155
Period size: 34 Copynumber: 4.8 Consensus size: 33
75447 AACGGTTTTG
* *
75457 AAAACATATAGTATATGGGTTTTAAAATAATTTTG
1 AAAATATATAGTATAT-GGTTTTAAAATAA-TTTA
*
75492 AAAACATATAGTATATGGTTTCTAAAATAATTTA
1 AAAATATATAGTATATGGTTT-TAAAATAATTTA
* *
75526 AAAAAATATAGTATATAGTTTTTAAAATAATTTA
1 AAAATATATAGTATAT-GGTTTTAAAATAATTTA
* * *
75560 AAAATGTATAATATAAT--TTTTAAAATAATTTT
1 AAAATATATAGTAT-ATGGTTTTAAAATAATTTA
* * * *
75592 GAAATGTATAGTATATGATTTAAAAA
1 AAAATATATAGTATATGGTTTTAAAA
75618 AAAAAATTGA
Statistics
Matches: 111, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
31 2 0.02
32 26 0.23
33 7 0.06
34 46 0.41
35 30 0.27
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.40
Consensus pattern (33 bp):
AAAATATATAGTATATGGTTTTAAAATAATTTA
Found at i:75658 original size:22 final size:21
Alignment explanation
Indices: 75624--75700 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 21
75614 AAAAAAAAAA
**
75624 TTGAAAACGTATAATATGGTTT
1 TTGAAAATATATAATAT-GTTT
75646 TTGAAAATATATATAATAT-TTT
1 TTG-AAA-ATATATAATATGTTT
*
75668 TTGAAAATCTATTACATA-GTTT
1 TTGAAAATATA-TA-ATATGTTT
*
75690 TTGGAAATATA
1 TTGAAAATATA
75701 ATATAGTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
20 4 0.09
21 5 0.11
22 24 0.53
23 3 0.07
24 9 0.20
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (21 bp):
TTGAAAATATATAATATGTTT
Found at i:75690 original size:23 final size:22
Alignment explanation
Indices: 75633--75705 Score: 76
Period size: 22 Copynumber: 3.2 Consensus size: 22
75623 ATTGAAAACG
75633 TATAATATGGTTTTTGAAAATATA
1 TATAATAT--TTTTTGAAAATATA
*
75657 TATAATATTTTTTGAAAATCTA
1 TATAATATTTTTTGAAAATATA
* *
75679 T-TACATAGTTTTTGGAAATATAA
1 TATA-ATATTTTTTGAAAATAT-A
75702 TATA
1 TATA
75706 GTTATTATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
21 2 0.05
22 28 0.67
23 2 0.05
24 10 0.24
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.47
Consensus pattern (22 bp):
TATAATATTTTTTGAAAATATA
Found at i:75715 original size:3 final size:3
Alignment explanation
Indices: 75707--75765 Score: 93
Period size: 3 Copynumber: 19.7 Consensus size: 3
75697 TATAATATAG
*
75707 TTA TTA TTA TTA TTA TT- TATA TTA TTA TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
75752 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
75766 TTAGATTTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 1 0.02
3 50 0.96
4 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:77029 original size:30 final size:31
Alignment explanation
Indices: 76972--77029 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
76962 TTTACTTTAT
* *
76972 TTTTAAACTTTTTTTTACTTTTTTATTTCTC
1 TTTTAAACTTTTTTATACTTTTATATTTCTC
77003 TTTT-AACATTTTTTATA-TTTTATATTT
1 TTTTAAAC-TTTTTTATACTTTTATATTT
77030 TTTTAGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (31 bp):
TTTTAAACTTTTTTATACTTTTATATTTCTC
Found at i:77092 original size:5 final size:5
Alignment explanation
Indices: 77049--77077 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
77039 TTAATATTTA
77049 TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
77078 TATTTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (5 bp):
TTTTG
Found at i:77099 original size:15 final size:14
Alignment explanation
Indices: 77069--77133 Score: 55
Period size: 15 Copynumber: 4.6 Consensus size: 14
77059 TTTTGTTTTG
*
77069 TTTTGTTTT-TATT
1 TTTTATTTTATATT
77082 TTTTATTTTATCATT
1 TTTTATTTTAT-ATT
*
77097 TTTTACTTTATTATT
1 TTTTATTTTA-TATT
*
77112 CTTT-TTTTA-ATT
1 TTTTATTTTATATT
77124 TTTTCATTTT
1 TTTT-ATTTT
77134 CTTAATCTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
12 6 0.14
13 8 0.19
14 9 0.21
15 18 0.43
16 1 0.02
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (14 bp):
TTTTATTTTATATT
Found at i:85785 original size:35 final size:35
Alignment explanation
Indices: 85669--85967 Score: 327
Period size: 35 Copynumber: 8.5 Consensus size: 35
85659 TAATATGGTT
* * * * *
85669 TTTTTAAAACATATAATATGTAGTTTTGGAAACTTA
1 TTTTGAAAACATATAATATATAGTTTT-TAAAATAA
* * **
85705 TTTTTAAAAGCATATAATATACAGTTTTTTAAAACGA
1 TTTTGAAAA-CATATAATATATAG-TTTTTAAAATAA
* * **
85742 TTTCGAAAACATATAATATATAATTTTTAAAATGG
1 TTTTGAAAACATATAATATATAGTTTTTAAAATAA
* *
85777 TTCTGAAAACATATAGTATATAGTTTTTAAAATAA
1 TTTTGAAAACATATAATATATAGTTTTTAAAATAA
* *
85812 TTTTGAAAACATATAGTATATAGTTTCTAAAATAA
1 TTTTGAAAACATATAATATATAGTTTTTAAAATAA
*
85847 TTTTAAAAACATATAATATATAGTTTTTAAAATAA
1 TTTTGAAAACATATAATATATAGTTTTTAAAATAA
85882 TTTTGAAAACATAT-A-ATATAGTTTTTAAAATAA
1 TTTTGAAAACATATAATATATAGTTTTTAAAATAA
* * * *
85915 TTTTG-AAACGTATAGTATAT-GGTTTTAAAAAATA
1 TTTTGAAAACATATAATATATAGTTTTTAAAATA-A
*
85949 TTTTGAAAACGTATAATAT
1 TTTTGAAAACATATAATAT
85968 GGTTTTGAAA
Statistics
Matches: 228, Mismatches: 29, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.03
33 33 0.14
34 11 0.05
35 129 0.57
36 21 0.09
37 23 0.10
38 4 0.02
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (35 bp):
TTTTGAAAACATATAATATATAGTTTTTAAAATAA
Found at i:85906 original size:33 final size:33
Alignment explanation
Indices: 85669--86015 Score: 275
Period size: 35 Copynumber: 10.0 Consensus size: 33
85659 TAATATGGTT
* * * *
85669 TTTTTAAAACATATAATATGTAGTTTTGGAAACTTA
1 TTTTGAAAACATATAATA--TAGTTTT-TAAAATAA
* **
85705 TTTTTAAAAGCATATAATATACAGTTTTTTAAAACGA
1 TTTTGAAAA-CATATAATAT--AG-TTTTTAAAATAA
* * **
85742 TTTCGAAAACATATAATATATAATTTTTAAAATGG
1 TTTTGAAAACATAT-A-ATATAGTTTTTAAAATAA
*
85777 TTCTGAAAACATATAGTATATAGTTTTTAAAATAA
1 TTTTGAAAACATATA--ATATAGTTTTTAAAATAA
*
85812 TTTTGAAAACATATAGTATATAGTTTCTAAAATAA
1 TTTTGAAAACATATA--ATATAGTTTTTAAAATAA
*
85847 TTTTAAAAACATATAATATATAGTTTTTAAAATAA
1 TTTTGAAAACATAT-A-ATATAGTTTTTAAAATAA
85882 TTTTGAAAACATATAATATAGTTTTTAAAATAA
1 TTTTGAAAACATATAATATAGTTTTTAAAATAA
* * * *
85915 TTTTG-AAACGTATAGTATATGGTTTTAAAAAATA
1 TTTTGAAAACATATAATATA-GTTTTTAAAATA-A
* * * **
85949 TTTTGAAAACGTATAATATGGTTTTGAAAATGGT
1 TTTTGAAAACATATAATATAGTTTTTAAAAT-AA
* *
85983 TTTTGAAAATATAT-ATAATATTTTTTGAAAATA
1 TTTTGAAAACATATAAT-ATAGTTTTT-AAAATA
86016 TATTACACAG
Statistics
Matches: 261, Mismatches: 36, Indels: 30
0.80 0.11 0.09
Matches are distributed among these distances:
32 12 0.05
33 35 0.13
34 34 0.13
35 133 0.51
36 16 0.06
37 23 0.09
38 8 0.03
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (33 bp):
TTTTGAAAACATATAATATAGTTTTTAAAATAA
Found at i:86047 original size:20 final size:21
Alignment explanation
Indices: 85981--86050 Score: 88
Period size: 22 Copynumber: 3.3 Consensus size: 21
85971 TTTGAAAATG
85981 GTTTTTGAAAATATATATAATA
1 GTTTTTGAAAATATATAT-ATA
* * *
86003 TTTTTTGAAAATATATTACACA
1 GTTTTTGAAAATATA-TATATA
86025 GTTTTTGAAAATATA-ATATA
1 GTTTTTGAAAATATATATATA
86045 GTTTTT
1 GTTTTT
86051 ATAATTATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 9 0.22
22 30 0.73
23 2 0.05
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (21 bp):
GTTTTTGAAAATATATATATA
Found at i:86074 original size:15 final size:16
Alignment explanation
Indices: 86048--86081 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
86038 TAATATAGTT
86048 TTTATAATTATTATTA
1 TTTATAATTATTATTA
86064 TTTAT-ATTATTATTA
1 TTTATAATTATTATTA
86079 TTT
1 TTT
86082 TAGATTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATAATTATTATTA
Found at i:86120 original size:22 final size:23
Alignment explanation
Indices: 86085--86129 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
86075 ATTATTTTAG
*
86085 ATTTGTTTAGGTT-ATATTTATTT
1 ATTTATTTAGGTTAAT-TTTATTT
86108 ATTTATTTA-GTTAATTTTATTT
1 ATTTATTTAGGTTAATTTTATTT
86130 CTTAATTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (23 bp):
ATTTATTTAGGTTAATTTTATTT
Found at i:87325 original size:23 final size:22
Alignment explanation
Indices: 87272--87332 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 22
87262 CTTCATTTAC
87272 TTTATTTTTATTTTAAACCTTTT
1 TTTATTTTTATTTTAAA-CTTTT
* *
87295 TTTCTTTTTCTTTTAATA-TTTT
1 TTTATTTTTATTTTAA-ACTTTT
87317 TTATATTTTATATTTT
1 TT-TATTTT-TATTTT
87333 TATGTCTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 6 0.19
23 19 0.61
24 6 0.19
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTATTTTTATTTTAAACTTTT
Found at i:87395 original size:17 final size:17
Alignment explanation
Indices: 87354--87396 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
87344 GAATTTAATA
87354 TTTTC-TTTATTTTATT
1 TTTTCTTTTATTTTATT
87370 TTTAT-TTTTATTTTATT
1 TTT-TCTTTTATTTTATT
87387 TTTTCTTTTA
1 TTTTCTTTTA
87397 ACATTTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTTTTATTTTATT
Found at i:87424 original size:14 final size:15
Alignment explanation
Indices: 87407--87438 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
87397 ACATTTTTAC
87407 TTTATTATTCTT-TT
1 TTTATTATTCTTCTT
87421 TTTATTATTCTTCTT
1 TTTATTATTCTTCTT
87436 TTT
1 TTT
87439 TCATTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATTATTCTTCTT
Found at i:91954 original size:59 final size:59
Alignment explanation
Indices: 91862--92010 Score: 244
Period size: 59 Copynumber: 2.5 Consensus size: 59
91852 ATACACCATT
* **
91862 TTTCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAATGCAAAGTTAGGTATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCAAAGTTAGACATTTAACC
** *
91921 TTTCATCTAACTTATATTATTGGCACCTTTCTGCCAAATGCATAGTTAGACATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCAAAGTTAGACATTTAACC
91980 TTTCATCTAACTTGCATTATTGGCACCTTTC
1 TTTCATCTAACTTGCATTATTGGCACCTTTC
92011 ATTTTAGAGA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 82 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (59 bp):
TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCAAAGTTAGACATTTAACC
Found at i:93833 original size:20 final size:20
Alignment explanation
Indices: 93810--93851 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
93800 CATAAATAAA
*
93810 ATAGTAAAAATGTATTTGGT
1 ATAGTAAAAATGCATTTGGT
93830 ATAGTAAAAATGCATTTGGT
1 ATAGTAAAAATGCATTTGGT
93850 AT
1 AT
93852 CTAATATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (20 bp):
ATAGTAAAAATGCATTTGGT
Found at i:94442 original size:12 final size:12
Alignment explanation
Indices: 94421--94450 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
94411 CTTATTTAAT
94421 TTTAAA-AAATA
1 TTTAAATAAATA
94432 TTTAAATAAATA
1 TTTAAATAAATA
94444 TTTAAAT
1 TTTAAAT
94451 TAAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TTTAAATAAATA
Found at i:96191 original size:20 final size:20
Alignment explanation
Indices: 96138--96191 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
96128 CCAACAACTC
96138 AACTCGACTC-ATATTTTATA
1 AACTCGACTCGA-ATTTTATA
* * *
96158 TACTCAACTTGAATTTTATA
1 AACTCGACTCGAATTTTATA
*
96178 AATTCGACTCGAAT
1 AACTCGACTCGAAT
96192 CGAAAAAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (20 bp):
AACTCGACTCGAATTTTATA
Found at i:96461 original size:21 final size:21
Alignment explanation
Indices: 96435--96480 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
96425 AAATTTACTG
*
96435 CTCAACTCGTTGCTCGTTAAA
1 CTCAACTCATTGCTCGTTAAA
* * *
96456 CTCAACTTATTGTTCGTTAAG
1 CTCAACTCATTGCTCGTTAAA
96477 CTCA
1 CTCA
96481 CTAAAAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (21 bp):
CTCAACTCATTGCTCGTTAAA
Found at i:96607 original size:41 final size:42
Alignment explanation
Indices: 96555--96661 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 42
96545 TGGTTTTTTG
96555 TATT-AAAATAAT-ATTATTAA-TTAATTAATATTTTATTATT
1 TATTAAAAATAATAATTATTAACTT-ATTAATATTTTATTATT
* *
96595 TATTAAAAATAATAGATTAGTTAACTTATTATTTTTTTATTATT
1 TATTAAAAATAATA-ATTA-TTAACTTATTAATATTTTATTATT
96639 TATTAATAAATTAATAATTATTA
1 TATTAA-AAA-TAATAATTATTA
96662 TTTAGATTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
40 4 0.07
41 8 0.14
43 4 0.07
44 28 0.48
45 9 0.16
46 5 0.09
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (42 bp):
TATTAAAAATAATAATTATTAACTTATTAATATTTTATTATT
Found at i:96676 original size:44 final size:42
Alignment explanation
Indices: 96560--96676 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 42
96550 TTTTGTATTA
*
96560 AAATAAT-ATTATTAATTAATTAATATTTTATTATTTATTAA-
1 AAATAATAATTATTAATTAATTTAT-TTTTATTATTTATTAAT
*
96601 AAATAATAGATTAGTTAACTT-ATTATTTTTTTATTATTTATTAAT
1 AAATAATA-ATTA-TTAA-TTAATT-TATTTTTATTATTTATTAAT
*
96646 AAATTAATAATTATTATTTAGATTTATTTTT
1 AAA-TAATAATTATTAATTA-ATTTATTTTT
96677 GAATGAAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
41 7 0.11
43 6 0.10
44 32 0.51
45 13 0.21
46 5 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (42 bp):
AAATAATAATTATTAATTAATTTATTTTTATTATTTATTAAT
Found at i:97131 original size:15 final size:15
Alignment explanation
Indices: 97111--97152 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
97101 TCTTGGGTTC
*
97111 CTCTTCTTTCTTTGG
1 CTCTTCCTTCTTTGG
97126 CTCTTCCTTCTTTGG
1 CTCTTCCTTCTTTGG
*
97141 CTCTCCCTTCTT
1 CTCTTCCTTCTT
97153 CTCCGGCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.10, T:0.55
Consensus pattern (15 bp):
CTCTTCCTTCTTTGG
Found at i:104956 original size:19 final size:19
Alignment explanation
Indices: 104932--104970 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
104922 GAGCAGAATA
104932 TTTTTGATAGGATAGAGTT
1 TTTTTGATAGGATAGAGTT
104951 TTTTTGATAGGATAGAGTT
1 TTTTTGATAGGATAGAGTT
104970 T
1 T
104971 CCCTTTGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (19 bp):
TTTTTGATAGGATAGAGTT
Found at i:107937 original size:23 final size:22
Alignment explanation
Indices: 107910--107956 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
107900 TGATAATTAA
107910 ATATT-ATATATATATTAATTGTT
1 ATATTCATAT-TATATTAATT-TT
*
107933 ATATTCATATTTTATTAATTTT
1 ATATTCATATTATATTAATTTT
107955 AT
1 AT
107957 TTTTTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 14 0.64
24 4 0.18
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
ATATTCATATTATATTAATTTT
Found at i:109002 original size:31 final size:31
Alignment explanation
Indices: 108953--109023 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
108943 CTTTTGGTAT
*
108953 TCGGGTCGGATTTTTTTTAAAAAAAATCGGGA
1 TCGGGTC-GAATTTTTTTAAAAAAAATCGGGA
** *
108985 TCGGGTCGAATTTTTTTAAAAAATTTCGGGT
1 TCGGGTCGAATTTTTTTAAAAAAAATCGGGA
109016 TCGGGTCG
1 TCGGGTCG
109024 GGGTCGGGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
31 28 0.80
32 7 0.20
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.37
Consensus pattern (31 bp):
TCGGGTCGAATTTTTTTAAAAAAAATCGGGA
Found at i:110006 original size:17 final size:17
Alignment explanation
Indices: 109960--110007 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 17
109950 ATCAATAGTT
*
109960 ATAAAATATTTTTAAAA
1 ATAAATTATTTTTAAAA
*
109977 ATATTATTTATTTTTAAAA
1 ATA--AATTATTTTTAAAA
109996 ATAAATTATTTT
1 ATAAATTATTTT
110008 AATATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 11 0.42
19 15 0.58
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATAAATTATTTTTAAAA
Found at i:110316 original size:51 final size:51
Alignment explanation
Indices: 110261--110372 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 51
110251 GCTCCCTGCC
* ** *
110261 CCGCGTTATATGCTGATTTGGC-GCCACGTGGGGTATAGCGCGCCCCCTGTA
1 CCGCGCTATATGCTGACATGGCTGACACGT-GGGTATAGCGCGCCCCCTGTA
* *
110312 CCGCGCTATATGCTGACATGGCTTACACGTGGGTATAGCGCGTCCCCTG-A
1 CCGCGCTATATGCTGACATGGCTGACACGTGGGTATAGCGCGCCCCCTGTA
110362 TCCGCGCTATA
1 -CCGCGCTATA
110373 CGCCACGTAG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 1 0.02
51 47 0.89
52 5 0.09
ACGTcount: A:0.16, C:0.30, G:0.29, T:0.25
Consensus pattern (51 bp):
CCGCGCTATATGCTGACATGGCTGACACGTGGGTATAGCGCGCCCCCTGTA
Found at i:114085 original size:35 final size:34
Alignment explanation
Indices: 114000--114086 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
113990 AATATAATTT
*
114000 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
114034 TAAATAATAACCAAATTACAATAATTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
114072 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
114087 AATGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:115123 original size:51 final size:50
Alignment explanation
Indices: 115005--115131 Score: 121
Period size: 51 Copynumber: 2.5 Consensus size: 50
114995 GATAAACAGC
* * ** * *
115005 TATAGCGCGGATCAGGGGGTGCGCTATACCCACGTGTAAGCCATGTCAGCG
1 TATAGCGCGGAACAGGGGGCGCGCTATACCCACGTGT-AGCCAAATCAACA
**
115056 TATAGCGCGTTACAGGGGGCGCGCTATACCCCACGTGGT-GCCAAATCAACA
1 TATAGCGCGGAACAGGGGGCGCGCTATA-CCCACGT-GTAGCCAAATCAACA
** *
115107 TATAGCGCGGGGCAGGGAGCGCGCT
1 TATAGCGCGGAACAGGGGGCGCGCT
115132 TTACTGCTAC
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
51 53 0.85
52 7 0.11
53 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.34, T:0.17
Consensus pattern (50 bp):
TATAGCGCGGAACAGGGGGCGCGCTATACCCACGTGTAGCCAAATCAACA
Found at i:116691 original size:17 final size:17
Alignment explanation
Indices: 116671--116706 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
116661 AATATGATAA
* *
116671 ATGAATGAATAACAAAT
1 ATGAATAAAAAACAAAT
116688 ATGAATAAAAAACAAAT
1 ATGAATAAAAAACAAAT
116705 AT
1 AT
116707 TAAAACACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.06, G:0.08, T:0.22
Consensus pattern (17 bp):
ATGAATAAAAAACAAAT
Found at i:118526 original size:23 final size:23
Alignment explanation
Indices: 118500--118586 Score: 122
Period size: 23 Copynumber: 3.8 Consensus size: 23
118490 AGAATTTGCA
*
118500 CCGAAGTG-CCACATAGATTTATC
1 CCGAAG-GACCACATAGAATTATC
*
118523 CCGAAGGACCACGTAGAATTATC
1 CCGAAGGACCACATAGAATTATC
*
118546 CCGAAGGACCACATAGAATTGTC
1 CCGAAGGACCACATAGAATTATC
*
118569 CCGAAGGACCGCATAGAA
1 CCGAAGGACCACATAGAA
118587 CCCTCGACTA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 1 0.02
23 57 0.98
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.17
Consensus pattern (23 bp):
CCGAAGGACCACATAGAATTATC
Found at i:118558 original size:46 final size:47
Alignment explanation
Indices: 118487--118578 Score: 127
Period size: 46 Copynumber: 2.0 Consensus size: 47
118477 AAAATTTCCG
*
118487 CGTAGAATTTGCACCGAAGTGCCACATAGATTTATCCCGAAGGACCA
1 CGTAGAATTTGCACCGAAGTGCCACATAGAATTATCCCGAAGGACCA
*
118534 CGTAGAATTAT-C-CCGAAG-GACCACATAGAATTGTCCCGAAGGACC
1 CGTAGAATT-TGCACCGAAGTG-CCACATAGAATTATCCCGAAGGACC
118579 GCATAGAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
45 1 0.02
46 29 0.71
47 10 0.24
48 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.20
Consensus pattern (47 bp):
CGTAGAATTTGCACCGAAGTGCCACATAGAATTATCCCGAAGGACCA
Found at i:121202 original size:20 final size:18
Alignment explanation
Indices: 121157--121208 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
121147 TTTTCAATTA
121157 CAGTATCGATACCTTACT
1 CAGTATCGATACCTTACT
*
121175 CTTGGTATCGATACCTTCACAT
1 C--AGTATCGATACCTT-AC-T
121197 CAGTATCGATAC
1 CAGTATCGATAC
121209 TAATTCAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 1 0.04
20 23 0.82
21 2 0.07
22 2 0.07
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (18 bp):
CAGTATCGATACCTTACT
Found at i:125719 original size:134 final size:134
Alignment explanation
Indices: 125418--125827 Score: 533
Period size: 134 Copynumber: 3.0 Consensus size: 134
125408 TCTGCGAGAT
* * *
125418 AGATCAGA-TCGAG-AAACGTTGATCTA-TTCCACTATTCTTCAGGGAAGATTGAATCAGAATCG
1 AGATCAGACTCGAGAAAACTTTGATCCACTT-CACTGTTCTTCAGGGAAGATTGAATCAGAATCG
*
125480 ATTTGCTTCACTACTCTTCAGGAAGACCAAATCTAAAAGAAGAAGAAGAAGAATATGCTCCACTA
65 ATTTGCTTCACTACTCTTTAGGAAGACCAAATCT-----AA-AAGAAGAAGAATATGCTCCACTA
*
125545 CTCTTTAGGGG
124 CTCTTTAAGGG
* * ** * *
125556 AGATCAAACTCGAGAAAA-TGTTGACCCACTTCACTGTTCTTCAGACAAGATTGAATCAAAATCA
1 AGATCAGACTCGAGAAAACT-TTGATCCACTTCACTGTTCTTCAGGGAAGATTGAATCAGAATCG
* *
125620 ATTTGCTTCACTTCTCTTTAGGAAGACCAAATCTAAAATAAGAAGAATATGCTCCACTACTCTTT
65 ATTTGCTTCACTACTCTTTAGGAAGACCAAATCTAAAAGAAGAAGAATATGCTCCACTACTCTTT
125685 AAGGG
130 AAGGG
*
125690 AGATCAGACTCGAGAAAACTTTGATCCACTTCACTGCTT-TTCAGGGAAGATTGAATCAGAATTG
1 AGATCAGACTCGAGAAAACTTTGATCCACTTCACTG-TTCTTCAGGGAAGATTGAATCAGAATCG
* ** *
125754 ATTTGCTTCACTACTCTTTAGGAAGACCAAATCTGAAAGAAGAAGTTTTTGCTCCACTACTCTTT
65 ATTTGCTTCACTACTCTTTAGGAAGACCAAATCTAAAAGAAGAAGAATATGCTCCACTACTCTTT
*
125819 AAGGA
130 AAGGG
125824 AGAT
1 AGAT
125828 TGAATCGAAC
Statistics
Matches: 239, Mismatches: 27, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
134 151 0.63
135 5 0.02
138 7 0.03
139 5 0.02
140 69 0.29
141 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (134 bp):
AGATCAGACTCGAGAAAACTTTGATCCACTTCACTGTTCTTCAGGGAAGATTGAATCAGAATCGA
TTTGCTTCACTACTCTTTAGGAAGACCAAATCTAAAAGAAGAAGAATATGCTCCACTACTCTTTA
AGGG
Found at i:125843 original size:87 final size:86
Alignment explanation
Indices: 125734--125914 Score: 222
Period size: 87 Copynumber: 2.1 Consensus size: 86
125724 TGCTTTTCAG
* * * *
125734 GGAAGATTGAATCAGAATTGATTTGCTTCACTACTCTTTAGGAAGACCAAATCTGAAAGAAGAAG
1 GGAAGATTGAATCAGAAATGATTTACTTCACTACTCTTCAGGAAGACCAAATATGAAAGAAGAAG
*
125799 -TTTTTGCTCCACTACTCTTTAA
66 AATTTT-CTCCACTACTCTTT-A
* * * *
125821 GGAAGATTGAATC-GAACATGATTTATTTCGCTGCTCTTCAGGAATACCAAATATGAAAGAAGAA
1 GGAAGATTGAATCAGAA-ATGATTTACTTCACTACTCTTCAGGAAGACCAAATATGAAAGAAGAA
*
125885 GAATTTTCTCTACTACTCTTTA
65 GAATTTTCTCCACTACTCTTTA
125907 GGAGAGAT
1 GGA-AGAT
125915 CAGACTCGAG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
86 7 0.09
87 70 0.86
88 4 0.05
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (86 bp):
GGAAGATTGAATCAGAAATGATTTACTTCACTACTCTTCAGGAAGACCAAATATGAAAGAAGAAG
AATTTTCTCCACTACTCTTTA
Found at i:125994 original size:221 final size:221
Alignment explanation
Indices: 125633--126040 Score: 629
Period size: 221 Copynumber: 1.8 Consensus size: 221
125623 TGCTTCACTT
* * *
125633 CTCTTTAGGAAGACCAAATCTAAAATAAGAAGAATATGCTCCACTACTCTTTAAGGGAGATCAGA
1 CTCTTCAGGAAGACCAAATATAAAAGAAGAAGAATATGCTCCACTACTCTTTAAGGGAGATCAGA
* **
125698 CTCGAGAAAACTTTGATCCACTTCACTGCTTTTCAGGGAAGATTGAATCAGAATTGATTTGCTTC
66 CTCGAGAAAACTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCAGAATCAATTTGCTTC
** *
125763 ACTACTCTTTAGGAAGACCAAATCTGAAAGAAGAAGTTTTTGCTCCACTACTCTTTAAGGAAGAT
131 ACTACTCTTTAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTTTAAGGAAGAT
125828 TGAATCGAACATGATTTATTTCGCTG
196 TGAATCGAACATGATTTATTTCGCTG
* * * * *
125854 CTCTTCAGGAATACCAAATATGAAAGAAGAAGAATTTTCTCTACTACTCTTT-AGGAGAGATCAG
1 CTCTTCAGGAAGACCAAATATAAAAGAAGAAGAATATGCTCCACTACTCTTTAAGG-GAGATCAG
* *
125918 ACTCGAGAAAACTTTGATCCACTTCATTGCTCTTCAGGGAAGATTGAATCAGAATCAATTTGTTT
65 ACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCAGAATCAATTTGCTT
* * *
125983 TACTGCTCTTTAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCATTACTCTTTA
130 CACTACTCTTTAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTTTA
126041 GGGGAGATCA
Statistics
Matches: 167, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
220 3 0.02
221 164 0.98
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (221 bp):
CTCTTCAGGAAGACCAAATATAAAAGAAGAAGAATATGCTCCACTACTCTTTAAGGGAGATCAGA
CTCGAGAAAACTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCAGAATCAATTTGCTTC
ACTACTCTTTAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTTTAAGGAAGAT
TGAATCGAACATGATTTATTTCGCTG
Found at i:126132 original size:131 final size:135
Alignment explanation
Indices: 125806--126227 Score: 453
Period size: 134 Copynumber: 3.2 Consensus size: 135
125796 AAGTTTTTGC
* * * * *
125806 TCCACTACTCTTTAAGGAAGATTGAATCGAACAT-GATTTATTTCGCTGCTCTTCAGGAATACCA
1 TCCACTACTCTTCAGGGAAGATTGAATC-AAAATCGATTTATTTCACTGCTCTTCAGGAAGACCA
* * * * * * *
125870 AATATGAAAGAAGAAGAATTTTCTCTACTACTCTTTAGGAGAGATCAGACTCGAGAAAACTTTGA
65 AATATGAAAGAAGAAGAATCTACTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAACGTTAA
125935 TCCACT
130 TCCACT
* * * * * * *
125941 T-CATTGCTCTTCAGGGAAGATTGAATCAGAATCAATTTGTTTTACTGCTCTTTAGGAAGACCAA
1 TCCACTACTCTTCAGGGAAGATTGAATCAAAATCGATTTATTTCACTGCTCTTCAGGAAGACCAA
* * *
126005 ATCTGAAAGAAGAAGAATCTGCTCCATTACTCTTTAGGGGAGATCAG-C-CAAG-AAACGTTAAT
66 ATATGAAAGAAGAAGAATCTACTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAACGTTAAT
*
126067 TCA-T
131 CCACT
* * *
126071 TCCACTATTCTTCAGGGAAGATTGAATCAAAATCGATTTATTTCACTACTCTTCGGGAAGACCAA
1 TCCACTACTCTTCAGGGAAGATTGAATCAAAATCGATTTATTTCACTGCTCTTCAGGAAGACCAA
** * * * * ** *
126136 ATATGAAAGAAGAAGCGTCTACTCCACTAATCTTTAGGGGAGATAAAACTCGAGAAAATTTTGAT
66 ATATGAAAGAAGAAGAATCTACTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAACGTTAAT
126201 CCACT
131 CCACT
* *
126206 T-CACTTCTCTTCAGGAAAGATT
1 TCCACTACTCTTCAGGGAAGATT
126228 TTATTGAATT
Statistics
Matches: 233, Mismatches: 48, Indels: 13
0.79 0.16 0.04
Matches are distributed among these distances:
130 2 0.01
131 102 0.44
132 4 0.02
133 7 0.03
134 115 0.49
135 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (135 bp):
TCCACTACTCTTCAGGGAAGATTGAATCAAAATCGATTTATTTCACTGCTCTTCAGGAAGACCAA
ATATGAAAGAAGAAGAATCTACTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAACGTTAAT
CCACT
Found at i:127002 original size:45 final size:45
Alignment explanation
Indices: 126924--127106 Score: 183
Period size: 45 Copynumber: 4.1 Consensus size: 45
126914 CACTATTCGT
* * * *
126924 GAGAAAGTCAA-GAAGGATAACACTAAAATATTGACTTCTCTTCAC
1 GAGAAAGTCAAGGAA-GACAAAACTAAAAGATTGACTCCTCTTCAC
* * * *
126969 GAGAAAGTCAAGGAAAACAATACTGAAAGATTGACTCCTCTTCGC
1 GAGAAAGTCAAGGAAGACAAAACTAAAAGATTGACTCCTCTTCAC
* *
127014 GAGAAAGTCAA-GAATGACAACATTAAAAGATT-ATCTCCTCTTCAC
1 GAGAAAGTCAAGGAA-GACAAAACTAAAAGATTGA-CTCCTCTTCAC
* * * * *
127059 GAGAAAGCCAAGGATGACAAAACTAAAATATTGACTTCTCTTGAC
1 GAGAAAGTCAAGGAAGACAAAACTAAAAGATTGACTCCTCTTCAC
127104 GAG
1 GAG
127107 GAAATCATGA
Statistics
Matches: 114, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
44 4 0.04
45 104 0.91
46 6 0.05
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (45 bp):
GAGAAAGTCAAGGAAGACAAAACTAAAAGATTGACTCCTCTTCAC
Found at i:127092 original size:90 final size:90
Alignment explanation
Indices: 126919--127100 Score: 231
Period size: 90 Copynumber: 2.0 Consensus size: 90
126909 GACAACACTA
* * * * *
126919 TTCGTGAGAAAGTCAAGAAGGATAACACTAAAATATTGACTTCTCTTCACGAGAAAGTCAAGGAA
1 TTCGCGAGAAAGTCAAGAAGGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGCCAAGGAA
* *
126984 AACAATACTGAAAGATTGACTCCTC
66 AACAAAACTAAAAGATTGACTCCTC
* *
127009 TTCGCGAGAAAGTCAAGAATGACAACATTAAAAGATT-ATCTCCTCTTCACGAGAAAGCCAAGGA
1 TTCGCGAGAAAGTCAAGAAGGACAACACTAAAAGATTGA-CTCCTCTTCACGAGAAAGCCAAGGA
** * *
127073 TGACAAAACTAAAATATTGACTTCTC
65 AAACAAAACTAAAAGATTGACTCCTC
127099 TT
1 TT
127101 GACGAGGAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
89 1 0.01
90 77 0.99
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (90 bp):
TTCGCGAGAAAGTCAAGAAGGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGCCAAGGAA
AACAAAACTAAAAGATTGACTCCTC
Found at i:127144 original size:38 final size:38
Alignment explanation
Indices: 127088--127445 Score: 369
Period size: 38 Copynumber: 9.1 Consensus size: 38
127078 AAACTAAAAT
* * * **
127088 ATTGACTTCTCTTGACGAGGAAATCATGAATGTCAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
*
127126 ATTGAGTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATCG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC-AA-A--G
* * * * * *
127168 ATTGACTCCTCTTCACGAGGTAGTTAATAATGATAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
*
127206 ATTGACTTCTCTTCACGAGCAAGTCAAGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* *
127244 ATCGACTTCTCTTCACGAGGAAGTCAAGAATAACATGATCG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACA--A-AG
* *
127285 ATTTACTTCTCTTCACGAGGGAGTCAAGAATGAA-AAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAAT-AACAAAG
* *
127323 ATTGAATTCTCTTCACGAGGAAGTCAAGAATAAAAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
*
127361 ATTGACTTCTCTTCACGAGGTAGTCAAGAATAACATTGAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC----AAAG
* * * *
127403 ATTGACTCCTCTTCGCGAGGGAGTC-GGTAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAG-AATAACAAAG
127441 ATTGA
1 ATTGA
127446 GTCTCCTAGG
Statistics
Matches: 269, Mismatches: 37, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
37 2 0.01
38 166 0.62
39 3 0.01
40 3 0.01
41 33 0.12
42 62 0.23
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.26
Consensus pattern (38 bp):
ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
Found at i:127336 original size:117 final size:117
Alignment explanation
Indices: 127083--127427 Score: 474
Period size: 117 Copynumber: 2.9 Consensus size: 117
127073 TGACAAAACT
* * * * ** *
127083 AAAATATTGACTTCTCTTGACGAGGAAATCATGAATGTCAAAGATTGAGTTCTCTTCACGAGGAA
1 AAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAA
* * * *
127148 GTCAAGAATAACAAAGATCGATTGACTCCTCTTCACGAGGTAGTTAATAATGA
66 GTCAAGAATAAC-ATGATCGATTGACTCCTCTTCACGAGGGAGTCAAGAATGA
* * *
127201 TAAAGATTGACTTCTCTTCACGAGCAAGTCAAGAATAACAAAGATCGACTTCTCTTCACGAGGAA
1 AAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAA
* *
127266 GTCAAGAATAACATGATCGATTTACTTCTCTTCACGAGGGAGTCAAGAATGA
66 GTCAAGAATAACATGATCGATTGACTCCTCTTCACGAGGGAGTCAAGAATGA
* * *
127318 AAAAGATTGAATTCTCTTCACGAGGAAGTCAAGAATAAAAAAGATTGACTTCTCTTCACGAGGTA
1 AAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAA
** *
127383 GTCAAGAATAACATTGAAAGATTGACTCCTCTTCGCGAGGGAGTC
66 GTCAAGAATAACA-TGATCGATTGACTCCTCTTCACGAGGGAGTC
127428 GGTAATAACA
Statistics
Matches: 199, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
117 106 0.53
118 93 0.47
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (117 bp):
AAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAA
GTCAAGAATAACATGATCGATTGACTCCTCTTCACGAGGGAGTCAAGAATGA
Found at i:127441 original size:80 final size:77
Alignment explanation
Indices: 127083--127445 Score: 372
Period size: 80 Copynumber: 4.6 Consensus size: 77
127073 TGACAAAACT
* * * * * ** *
127083 AAAATATTGACTTCTCTTGACGAGGAAATCATGAATGTCAAAGATTGAGTTCTCTTCACGAGGAA
1 AAAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAA
127148 GTCAAGAATAAC
66 GTCAAGAATAAC
* * * * *
127160 AAAGATCGATTGACTCCTCTTCACGAGGTAGTTAATAATGATAAAGATTGACTTCTCTTCACGAG
1 AAA-A--GATTGACTCCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAG
*
127225 CAAGTCAAGAATAAC
63 GAAGTCAAGAATAAC
* * * *
127240 -AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAACATGATCGATTTACTTCTCTTCACGAG
1 AAAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACA--A-AGATTGACTTCTCTTCACGAG
* *
127304 GGAGTCAAGAATGA-
63 GAAGTCAAGAATAAC
* * * *
127318 AAAAGATTGAATTCTCTTCACGAGGAAGTCAAGAATAAAAAAGATTGACTTCTCTTCACGAGGTA
1 AAAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAA
127383 GTCAAGAATAAC
66 GTCAAGAATAAC
* * *
127395 ATTGAAAGATTGACTCCTCTTCGCGAGGGAGTC-GGTAATAACAAAGATTGA
1 A---AAAGATTGACTCCTCTTCACGAGGAAGTCAAG-AATAACAAAGATTGA
127446 GTCTCCTAGG
Statistics
Matches: 237, Mismatches: 37, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
76 60 0.25
77 5 0.02
78 3 0.01
79 69 0.29
80 100 0.42
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (77 bp):
AAAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAA
GTCAAGAATAAC
Found at i:128388 original size:24 final size:25
Alignment explanation
Indices: 128337--128395 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
128327 TTCCATCAAA
*
128337 TTGAAAAATATCAATTAAAATAATT
1 TTGAAAAATATCAATCAAAATAATT
*
128362 TTGAAAAATATTTAATCAAAA-AA-T
1 TTGAAAAATA-TCAATCAAAATAATT
128386 TTGAAAAATA
1 TTGAAAAATA
128396 ATGCCCCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 11 0.35
25 12 0.39
26 8 0.26
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (25 bp):
TTGAAAAATATCAATCAAAATAATT
Found at i:129315 original size:7 final size:7
Alignment explanation
Indices: 129303--129461 Score: 97
Period size: 7 Copynumber: 20.7 Consensus size: 7
129293 TTTCTTCTTA
129303 TTTTTCT
1 TTTTTCT
129310 TTTTTCT
1 TTTTTCT
129317 TTTTTCT
1 TTTTTCT
129324 TTTTTCT
1 TTTTTCT
129331 TTTTTCT
1 TTTTTCT
129338 TTTTCTCT
1 TTTT-TCT
129346 CTTTTTCT
1 -TTTTTCT
129354 TCTTCTTC-
1 T-TT-TTCT
129362 TTTTTCT
1 TTTTTCT
129369 ATCTTTTCT
1 -T-TTTTCT
* *
129378 CTTTATAT
1 -TTTTTCT
129386 TTTCTATCT
1 TTT-T-TCT
**
129395 TTTCCCT
1 TTTTTCT
129402 TTTCTT-T
1 TTT-TTCT
*
129409 TTCTATCT
1 TT-TTTCT
*
129417 TTTATCTTT
1 TTT-T-TCT
129426 TTTTCTCT
1 TTTT-TCT
129434 ATATTTTCT
1 -T-TTTTCT
*
129443 CTTTTCT
1 TTTTTCT
129450 TTTTTCT
1 TTTTTCT
129457 TTTTT
1 TTTTT
129462 TCTTCTCTTT
Statistics
Matches: 121, Mismatches: 15, Indels: 32
0.72 0.09 0.19
Matches are distributed among these distances:
6 3 0.02
7 65 0.54
8 22 0.18
9 28 0.23
10 3 0.02
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTCT
Found at i:129329 original size:21 final size:21
Alignment explanation
Indices: 129303--129461 Score: 97
Period size: 24 Copynumber: 6.9 Consensus size: 21
129293 TTTCTTCTTA
129303 TTTTTCTTTTTTCTTTTTTCT
1 TTTTTCTTTTTTCTTTTTTCT
129324 TTTTTCTTTTTTCTTTTTCTCT
1 TTTTTCTTTTTTCTTTTT-TCT
129346 CTTTTTCTTCTTCTTC-TTTTTCT
1 -TTTTTCTT-TT-TTCTTTTTTCT
* *
129369 ATCTTTTCTCTTTATATTTTCTATCT
1 -T-TTTTCT-TTTTTCTTTT-T-TCT
** *
129395 TTTCCCTTTTCTT-TTTCTATCT
1 TTTTTCTTTT-TTCTTT-TTTCT
*
129417 TTTATCTTTTTTTCTCTATATTTTCT
1 TTT-T-TCTTTTT-TCT-T-TTTTCT
*
129443 CTTTTCTTTTTTCTTTTTT
1 TTTTTCTTTTTTCTTTTTT
129462 TCTTCTCTTT
Statistics
Matches: 108, Mismatches: 13, Indels: 34
0.70 0.08 0.22
Matches are distributed among these distances:
21 22 0.20
22 10 0.09
23 23 0.21
24 34 0.31
25 8 0.07
26 10 0.09
27 1 0.01
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTTCTTTTTTCTTTTTTCT
Found at i:129334 original size:22 final size:22
Alignment explanation
Indices: 129304--129465 Score: 107
Period size: 22 Copynumber: 7.0 Consensus size: 22
129294 TTCTTCTTAT
129304 TTTTCTTTTTTC-TTTTTTCTT
1 TTTTCTTTTTTCTTTTTTTCTT
*
129325 TTTTCTTTTTTCTTTTTCTCTCT
1 TTTTCTTTTTTCTTTTTTTCT-T
*
129348 TTTTC-TTCTTCTTCTTTTTCTAT
1 TTTTCTTTTTTCTT-TTTTTCT-T
* * *
129371 CTTTTC-TCTTT-ATATTTTCTAT
1 -TTTTCTTTTTTCTTTTTTTCT-T
**
129393 CTTTTCCCTTTTCTTTTTCTATCTT
1 -TTTTCTTTTTTCTTTTT-T-TCTT
* *
129418 TTATCTTTTTTTCTCTATATTTTCTC
1 TTTTC-TTTTTTCT-T-T-TTTTCTT
129444 TTTTCTTTTTTCTTTTTTTCTT
1 TTTTCTTTTTTCTTTTTTTCTT
129466 CTCTTTATCT
Statistics
Matches: 111, Mismatches: 18, Indels: 23
0.73 0.12 0.15
Matches are distributed among these distances:
21 12 0.11
22 34 0.31
23 18 0.16
24 16 0.14
25 16 0.14
26 11 0.10
27 2 0.02
28 2 0.02
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTCTTTTTTCTTTTTTTCTT
Found at i:129449 original size:43 final size:42
Alignment explanation
Indices: 129298--129453 Score: 148
Period size: 44 Copynumber: 3.8 Consensus size: 42
129288 TTTATTTTCT
* *
129298 TCTTATTTT-TCT-TTTTTCTTTTTTC-TTTT-T-TCTTTT-
1 TCTTTTTTTCTCTATTTTTCTCTTTTCTTTTTCTATCTTTTA
* * *
129334 T-TCTTTTTCTCTCTTTTTCTTCTTCTTCTTTTTCTATCTTTTC
1 TCTTTTTTTCTCTATTTTTC-TCTT-TTCTTTTTCTATCTTTTA
*
129377 TCTTTATATTT-TCTATCTTTTCCCTTTTCTTTTTCTATCTTTTA
1 TCTTT-T-TTTCTCTAT-TTTTCTCTTTTCTTTTTCTATCTTTTA
129421 TCTTTTTTTCTCTATATTTTCTCTTTTCTTTTT
1 TCTTTTTTTCTCTAT-TTTTCTCTTTTCTTTTT
129454 TCTTTTTTTC
Statistics
Matches: 98, Mismatches: 9, Indels: 19
0.78 0.07 0.15
Matches are distributed among these distances:
35 5 0.05
36 4 0.04
37 6 0.06
38 3 0.03
39 3 0.03
40 4 0.04
41 1 0.01
42 9 0.09
43 23 0.23
44 24 0.24
45 8 0.08
46 8 0.08
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (42 bp):
TCTTTTTTTCTCTATTTTTCTCTTTTCTTTTTCTATCTTTTA
Found at i:129477 original size:44 final size:44
Alignment explanation
Indices: 129304--129480 Score: 136
Period size: 44 Copynumber: 4.0 Consensus size: 44
129294 TTCTTCTTAT
* * * * *
129304 TTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTT-TCTCTCT-
1 TTTTCTCTTTTC-TTTTTCTATTTT-TATCTTCTTTTATCTCTATA
* * *
129348 TTTTCTTCTTCTTCTTTTTCTATCTTT-TC-TCTTTATATTTTCTATC
1 TTTTC-TCTT-TTCTTTTTCTATTTTTATCTTCTTT-TA-TCTCTATA
*
129394 TTTTCCCTTTTCTTTTTCTATCTTTTATCTT-TTTT-TCTCTATA
1 TTTTCTCTTTTCTTTTTCTAT-TTTTATCTTCTTTTATCTCTATA
129437 TTTTCTCTTTTCTTTTTTCT-TTTTT-TCTTCTCTTTATCTCTATA
1 TTTTCTCTTTTC-TTTTTCTATTTTTATCTTCT-TTTATCTCTATA
129481 CTTTATGAAT
Statistics
Matches: 109, Mismatches: 11, Indels: 26
0.75 0.08 0.18
Matches are distributed among these distances:
41 4 0.04
42 10 0.09
43 23 0.21
44 33 0.30
45 25 0.23
46 13 0.12
47 1 0.01
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.73
Consensus pattern (44 bp):
TTTTCTCTTTTCTTTTTCTATTTTTATCTTCTTTTATCTCTATA
Found at i:136469 original size:3 final size:3
Alignment explanation
Indices: 136451--136484 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
136441 ATTGGGCCTG
136451 TAA TAAA TAA -AA TAA TAA TAA TAA TAA TAA TAA T
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
136485 GGGTATCCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:139644 original size:22 final size:22
Alignment explanation
Indices: 139616--139676 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
139606 GGGTCTACGT
** *
139616 GGTCCTTTGGGACATATACAGA
1 GGTCCTTCAGGACAAATACAGA
*
139638 GGTCCTTCAGGACAAATACATA
1 GGTCCTTCAGGACAAATACAGA
* *
139660 GGTCCTCCGGGACAAAT
1 GGTCCTTCAGGACAAAT
139677 TTCATATGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (22 bp):
GGTCCTTCAGGACAAATACAGA
Found at i:140505 original size:21 final size:20
Alignment explanation
Indices: 140464--140505 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
140454 GCCAAAGTTA
*
140464 CTGTAGCAGGGTATCGGTAC
1 CTGTAGCAGGGTATCGATAC
*
140484 CTGTAGCAGGGGTATTGATAC
1 CTGTAGCA-GGGTATCGATAC
140505 C
1 C
140506 CTAAAGTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.26
Consensus pattern (20 bp):
CTGTAGCAGGGTATCGATAC
Found at i:140921 original size:20 final size:20
Alignment explanation
Indices: 140892--140937 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
140882 TATTTTGCTG
* *
140892 AGAAAACATCCCCAACAGTT
1 AGAAATCATCCCCAACAGCT
*
140912 AGAAATCATCCCCAACGGCT
1 AGAAATCATCCCCAACAGCT
140932 AGAAAT
1 AGAAAT
140938 GGCCATAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.28, G:0.13, T:0.15
Consensus pattern (20 bp):
AGAAATCATCCCCAACAGCT
Found at i:144492 original size:22 final size:22
Alignment explanation
Indices: 144462--144508 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
144452 TTACCCTACC
*
144462 TTTTATCATGTTATTTT-TAGTT
1 TTTTATCATATTATTTTATA-TT
*
144484 TTTTTTCATATTATTTTATATT
1 TTTTATCATATTATTTTATATT
144506 TTT
1 TTT
144509 GTTACGATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTATCATATTATTTTATATT
Found at i:160418 original size:224 final size:224
Alignment explanation
Indices: 159869--160546 Score: 1320
Period size: 224 Copynumber: 3.0 Consensus size: 224
159859 GATATTTTCT
159869 TGAAGCCATTGATGAGTGCTGCAGAGATTGCAGAAAAGGTTAAAGGACTTGCATATAAGAGAGAA
1 TGAAGCCATTGATGAGTGCTGCAGAGATTGCAGAAAAGGTTAAAGGACTTGCATATAAGAGAGAA
*
159934 GAATCCAAACTTGAGACAGGTTCTTCTATACAAGCTGGCTCAGAAAGTTTGGTTTTATGCTGCTT
66 GAATCCAAACTTGAGACAGGTTCTTCTATACAAGCTGGCTTAGAAAGTTTGGTTTTATGCTGCTT
159999 ATTTTTCACTCTACGTTATGCATAAAGGGGGGAATTTTGTAGTTTCTCTAAATTAGTTTGAGTAA
131 ATTTTTCACTCTACGTTATGCATAAAGGGGGG-ATTTTGTAGTTTCTCTAAATTAGTTTGAGTAA
*
160064 AAGATTTTGTGCATATGACATGCAGATTAA
195 AAGTTTTTGTGCATATGACATGCAGATTAA
160094 TGAAGCCATTGATGAGTGCTGCAGAGATTGCAGAAAAGGTTAAAGGACTTGCATATAAGAGAGAA
1 TGAAGCCATTGATGAGTGCTGCAGAGATTGCAGAAAAGGTTAAAGGACTTGCATATAAGAGAGAA
160159 GAATCCAAACTTGAGACAGGTTCTTCTATACAAGCTGGCTTAGAAAGTTTGGTTTTATGCTGCTT
66 GAATCCAAACTTGAGACAGGTTCTTCTATACAAGCTGGCTTAGAAAGTTTGGTTTTATGCTGCTT
160224 ATTTTTCACTCTACGTTATGCATAAAGGGGGGATTTTGTAGTTTCTCTAAATTAGTTTGAGTAAA
131 ATTTTTCACTCTACGTTATGCATAAAGGGGGGATTTTGTAGTTTCTCTAAATTAGTTTGAGTAAA
160289 AGTTTTTGTGCATATGACATGCAGATTAA
196 AGTTTTTGTGCATATGACATGCAGATTAA
160318 TGAAGCCATTGATGAGTGCTGCAGAGATTGCAGAAAAGGTTAAAGGACTTGCATATAAGAGAGAA
1 TGAAGCCATTGATGAGTGCTGCAGAGATTGCAGAAAAGGTTAAAGGACTTGCATATAAGAGAGAA
160383 GAATCCAAACTTGAGACAGGTTCTTCTATACAAGCTGGCTTAGAAAGTTTGGTTTTATGCTGCTT
66 GAATCCAAACTTGAGACAGGTTCTTCTATACAAGCTGGCTTAGAAAGTTTGGTTTTATGCTGCTT
*
160448 ATTTTTCACTCTATGTTATGCATAAAGGGGGGATTTTGTAGTTTCTCTAAATTAGTTTGAGTAAA
131 ATTTTTCACTCTACGTTATGCATAAAGGGGGGATTTTGTAGTTTCTCTAAATTAGTTTGAGTAAA
160513 AGTTTTTGTGCATATGACATGCAGATTAA
196 AGTTTTTGTGCATATGACATGCAGATTAA
160542 TGAAG
1 TGAAG
160547 AGAGGTCAAA
Statistics
Matches: 450, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
224 289 0.64
225 161 0.36
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.33
Consensus pattern (224 bp):
TGAAGCCATTGATGAGTGCTGCAGAGATTGCAGAAAAGGTTAAAGGACTTGCATATAAGAGAGAA
GAATCCAAACTTGAGACAGGTTCTTCTATACAAGCTGGCTTAGAAAGTTTGGTTTTATGCTGCTT
ATTTTTCACTCTACGTTATGCATAAAGGGGGGATTTTGTAGTTTCTCTAAATTAGTTTGAGTAAA
AGTTTTTGTGCATATGACATGCAGATTAA
Found at i:164573 original size:60 final size:60
Alignment explanation
Indices: 164484--164598 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
164474 TCAGATGACC
* *
164484 ATTTTATAACTTTTAGTAGTCGGGAGACTCAACAAAACAACACCTTATAATCGAGTGATA
1 ATTTTATAACTTTTAATAGTCAGGAGACTCAACAAAACAACACCTTATAATCGAGTGATA
* * * * * * *
164544 ATTTTATAACTTTTAATAGTTATGTGACTCAATAAAATAATACTTTATAATCGAG
1 ATTTTATAACTTTTAATAGTCAGGAGACTCAACAAAACAACACCTTATAATCGAG
164599 GGACTATTTG
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAGTCAGGAGACTCAACAAAACAACACCTTATAATCGAGTGATA
Found at i:167991 original size:18 final size:18
Alignment explanation
Indices: 167970--168012 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
167960 AAGGCGAAAA
167970 GGAACTTGAAGGGCATAT
1 GGAACTTGAAGGGCATAT
* *
167988 GGAACTTGAGGGGGATAT
1 GGAACTTGAAGGGCATAT
168006 GGAACTT
1 GGAACTT
168013 CACAAACCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.37, T:0.23
Consensus pattern (18 bp):
GGAACTTGAAGGGCATAT
Found at i:174057 original size:21 final size:21
Alignment explanation
Indices: 174031--174094 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
174021 GTGCATATTC
*
174031 TTCTGCCTCTATGACATTTTT
1 TTCTGCCTCTATGACACTTTT
*
174052 TTCTGCCTCTATGGCACTTTT
1 TTCTGCCTCTATGACACTTTT
* *
174073 TTCTGCCTCTATGGCACGTTT
1 TTCTGCCTCTATGACACTTTT
174094 T
1 T
174095 CGATTCTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.11, C:0.27, G:0.14, T:0.48
Consensus pattern (21 bp):
TTCTGCCTCTATGACACTTTT
Found at i:177827 original size:45 final size:45
Alignment explanation
Indices: 177777--178177 Score: 680
Period size: 45 Copynumber: 8.9 Consensus size: 45
177767 AATTTCTTAT
*
177777 CAATATACATACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
*
177822 CAATATACTTACCATTTATCCCATAAGCTAGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
*
177867 CAATAAACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
*
177912 CAATATACTTACCATTTATCCCATAAGCTCATAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
*
177957 CAATATACTTAACATTTATCCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
178002 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
* * * *
178047 CAATATACTCACTATTTATCCCATAAGCCCGTAAGTTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
178092 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
* *
178137 CAATATACTTGCCA-TTA-CTCTATAAGCTCGTAAGCTTATTT
1 CAATATACTTACCATTTATC-CCATAAGCTCGTAAGCTTATTT
178178 GCATGGTTAC
Statistics
Matches: 336, Mismatches: 19, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
43 1 0.00
44 24 0.07
45 311 0.93
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (45 bp):
CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
Found at i:177863 original size:25 final size:24
Alignment explanation
Indices: 177790--178043 Score: 71
Period size: 25 Copynumber: 11.2 Consensus size: 24
177780 TATACATACC
177790 ATTTATCCCATAAGCTCGTAAGCTT
1 ATTTATCCCATAAGCT-GTAAGCTT
* *
177815 ATTT-TACCAATATA-CT-T-A-C-C
1 ATTTAT-CCCATA-AGCTGTAAGCTT
177835 ATTTATCCCATAAGCTAGTAAGCTT
1 ATTTATCCCATAAGCT-GTAAGCTT
* * *
177860 ATTT-TACCAATAAACT-T-A-C-C
1 ATTTAT-CCCATAAGCTGTAAGCTT
177880 ATTTATCCCATAAGCTCGTAAGCTT
1 ATTTATCCCATAAGCT-GTAAGCTT
* *
177905 ATTT-TACCAATATA-CT-T-A-C-C
1 ATTTAT-CCCATA-AGCTGTAAGCTT
*
177925 ATTTATCCCATAAGCTCATAAGCTT
1 ATTTATCCCATAAGCT-GTAAGCTT
*
177950 ATTT-TACCAATATA-CT-TAA-C--
1 ATTTAT-CCCATA-AGCTGTAAGCTT
177970 ATTTATCCCATAAGCTCGTAAGCTT
1 ATTTATCCCATAAGCT-GTAAGCTT
* *
177995 ATTT-TACCAATATA-CT-T-A-C-C
1 ATTTAT-CCCATA-AGCTGTAAGCTT
178015 ATTTATCCCATAAGCTCGTAAGCTT
1 ATTTATCCCATAAGCT-GTAAGCTT
178040 ATTT
1 ATTT
178044 TACCAATATA
Statistics
Matches: 166, Mismatches: 20, Indels: 86
0.61 0.07 0.32
Matches are distributed among these distances:
19 4 0.02
20 56 0.34
21 9 0.05
22 12 0.07
23 12 0.07
24 9 0.05
25 60 0.36
26 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (24 bp):
ATTTATCCCATAAGCTGTAAGCTT
Found at i:178354 original size:17 final size:18
Alignment explanation
Indices: 178328--178362 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
178318 GTCGTGCCCA
*
178328 CCTTATACACT-TAGTGT
1 CCTTACACACTATAGTGT
178345 CCTTACACACTATAGTGT
1 CCTTACACACTATAGTGT
178363 AATATAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (18 bp):
CCTTACACACTATAGTGT
Done.