Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012436.1 Kokia drynarioides strain JFW-HI SEQ_127440, 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: 145928
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Warning! 31 characters in sequence are not A, C, G, or T
Found at i:704 original size:58 final size:59
Alignment explanation
Indices: 606--1077 Score: 700
Period size: 58 Copynumber: 8.0 Consensus size: 59
596 AAGGTCCCTA
*
606 AACTTCCAAAAATCCCATTTTTAA-CCTCGAACCTTCCAAAAATTACCATTTTACCCCCG
1 AACTTCCAAAAATCCCATTTTTAACCCT-AAACCTTCCAAAAATTACCATTTTACCCCCG
* *
665 AACTTCCAAAAATCTCA-TTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCA
1 AACTTCCAAAAATCCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCG
* *
723 AACTTCCAAAAATCTCATTTTTAATCCCTAAACCTTCCAAAATTTACCATTTTACCCCCG
1 AACTTCCAAAAATCCCATTTTTAA-CCCTAAACCTTCCAAAAATTACCATTTTACCCCCG
* *
783 AACTTCCAAAAATCCCATTTTTAACCCTAAA-TTTCCAAAAATTACCATTTTACCGCCG
1 AACTTCCAAAAATCCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCG
**
841 AACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCCCCG
1 AACTTCCAAAAATCCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCG
* **
900 AACTTCC-AAAATCCCATTTTTAACCTTAAACCTTCCAAAAATTACCATTTTACCCCTA
1 AACTTCCAAAAATCCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCG
* *
958 AACTTCCAAAAAGTCCCATTTTTTACCCTAAACCTTCCAAAAATTACCATTTTACCCTCG
1 AACTTCCAAAAA-TCCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCG
* * * * * *
1018 AACTTCCAAAAATCTCATTTTTGACTCTAAACCTTCCCCAAAACTACCATTTTGCCCCCG
1 AACTTCCAAAAATCCCATTTTTAACCCTAAACCTT-CCAAAAATTACCATTTTACCCCCG
1078 TGCATCCGGA
Statistics
Matches: 376, Mismatches: 30, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
58 158 0.42
59 88 0.23
60 130 0.35
ACGTcount: A:0.34, C:0.33, G:0.03, T:0.31
Consensus pattern (59 bp):
AACTTCCAAAAATCCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCG
Found at i:795 original size:118 final size:118
Alignment explanation
Indices: 605--1076 Score: 709
Period size: 118 Copynumber: 4.0 Consensus size: 118
595 GAAGGTCCCT
*
605 AAACTTCCAAAAATCCCATTTTTAA-CCTCGAACCTTCCAAAAATTACCATTTTACCCCCGAACT
1 AAACTTCCAAAAATCCCATTTTTAACCCT-AAACCTTCCAAAAATTACCATTTTACCCCCGAACT
*
669 TCCAAAAATCTCA-TTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCC
65 TCCAAAAATCCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCC
* *
722 AAACTTCCAAAAATCTCATTTTTAATCCCTAAACCTTCCAAAATTTACCATTTTACCCCCGAACT
1 AAACTTCCAAAAATCCCATTTTTAA-CCCTAAACCTTCCAAAAATTACCATTTTACCCCCGAACT
* *
787 TCCAAAAATCCCATTTTTAACCCTAAA-TTTCCAAAAATTACCATTTTACCGCC
65 TCCAAAAATCCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCC
* **
840 GAACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCCCCGAACTT
1 AAACTTCCAAAAATCCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCGAACTT
* *
905 CC-AAAATCCCATTTTTAACCTTAAACCTTCCAAAAATTACCATTTTACCCCT
66 CCAAAAATCCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCC
* *
957 AAACTTCCAAAAAGTCCCATTTTTTACCCTAAACCTTCCAAAAATTACCATTTTACCCTCGAACT
1 AAACTTCCAAAAA-TCCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCGAACT
* * * * * *
1022 TCCAAAAATCTCATTTTTGACTCTAAACCTTCCCCAAAACTACCATTTTGCCCCC
65 TCCAAAAATCCCATTTTTAACCCTAAACCTT-CCAAAAATTACCATTTTACCCCC
1077 GTGCATCCGG
Statistics
Matches: 320, Mismatches: 28, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
116 22 0.07
117 98 0.31
118 142 0.44
119 39 0.12
120 19 0.06
ACGTcount: A:0.35, C:0.33, G:0.02, T:0.31
Consensus pattern (118 bp):
AAACTTCCAAAAATCCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCGAACTT
CCAAAAATCCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCC
Found at i:1022 original size:235 final size:235
Alignment explanation
Indices: 606--1048 Score: 755
Period size: 235 Copynumber: 1.9 Consensus size: 235
596 AAGGTCCCTA
*
606 AACTTCCAAAAATCCCATTTTTAACCTCGAACCTTCCAAAAATTACCATTTTACCCCCGAACTTC
1 AACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCCCCGAACTTC
*
671 CAAAAATCTCATTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAAT
66 CAAAAATCCCATTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAAT
* *
736 CTCATTTTTAATCCCTAAACCTTCCAAAATTTACCATTTTACCCCCGAACTTCCAAAAATCCCAT
131 CCCATTTTTAATCCCTAAACCTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCAT
801 TTTTAACCCTAAATTTCCAAAAATTACCATTTTACCGCCG
196 TTTTAACCCTAAATTTCCAAAAATTACCATTTTACCGCCG
841 AACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCCCCGAACTTC
1 AACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCCCCGAACTTC
* *
906 C-AAAATCCCATTTTTAACCTTAAACCTTCCAAAAATTACCATTTTACCCCTAAACTTCCAAAAA
66 CAAAAATCCCA-TTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAA
* * *
970 GTCCCATTTTTTA-CCCTAAACCTTCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCTC
130 -TCCCATTTTTAATCCCTAAACCTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCC
* *
1034 ATTTTTGACTCTAAA
194 ATTTTTAACCCTAAA
1049 CCTTCCCCAA
Statistics
Matches: 195, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
234 8 0.04
235 177 0.91
236 10 0.05
ACGTcount: A:0.35, C:0.32, G:0.02, T:0.31
Consensus pattern (235 bp):
AACTTCCAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCCCCGAACTTC
CAAAAATCCCATTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAAT
CCCATTTTTAATCCCTAAACCTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCAT
TTTTAACCCTAAATTTCCAAAAATTACCATTTTACCGCCG
Found at i:9989 original size:14 final size:16
Alignment explanation
Indices: 9970--10001 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
9960 AAAATTATAG
9970 AAAATTA-TAA-AAAT
1 AAAATTAGTAATAAAT
9984 AAAATTAGTAATAAAT
1 AAAATTAGTAATAAAT
10000 AA
1 AA
10002 TTGTGAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 3 0.19
16 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (16 bp):
AAAATTAGTAATAAAT
Found at i:10799 original size:10 final size:10
Alignment explanation
Indices: 10766--10845 Score: 54
Period size: 10 Copynumber: 7.7 Consensus size: 10
10756 TTTTTTTACT
10766 TTTTTATATAA
1 TTTTT-TATAA
**
10777 TTTCCTATAA
1 TTTTTTATAA
*
10787 TTTTTTATGA
1 TTTTTTATAA
*
10797 TTTTGTATTAAA
1 TTTTTTA-T-AA
*
10809 TTTTTAATAA
1 TTTTTTATAA
*
10819 TCTTTTTATTA
1 T-TTTTTATAA
*
10830 TTTTCTAT-A
1 TTTTTTATAA
10839 TTTTTTA
1 TTTTTTA
10846 AAAATCTATT
Statistics
Matches: 53, Mismatches: 13, Indels: 8
0.72 0.18 0.11
Matches are distributed among these distances:
9 7 0.13
10 27 0.51
11 13 0.25
12 6 0.11
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:11361 original size:50 final size:52
Alignment explanation
Indices: 11279--11388 Score: 127
Period size: 50 Copynumber: 2.2 Consensus size: 52
11269 ATAAATATGG
* * *
11279 TGAAAATAGAGAAATGAGAAATATTTGAAAATGATTACGGTTTTCTACGAAA
1 TGAAAATGGAGAAATGAGAAATATTTGAAAATGAATACGGTTTTCTACAAAA
* ** *
11331 TGAAAATGGA-AAATG-G-AATCATTTGGAAATGAATGTGGTTTTCTCCAAAA
1 TGAAAATGGAGAAATGAGAAAT-ATTTGAAAATGAATACGGTTTTCTACAAAA
11381 TGAAAATG
1 TGAAAATG
11389 ACCTGAAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
49 3 0.06
50 33 0.66
51 5 0.10
52 9 0.18
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (52 bp):
TGAAAATGGAGAAATGAGAAATATTTGAAAATGAATACGGTTTTCTACAAAA
Found at i:12851 original size:158 final size:158
Alignment explanation
Indices: 12563--12886 Score: 506
Period size: 158 Copynumber: 2.1 Consensus size: 158
12553 GAATTCGGGA
12563 ATTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGTTGAGATCCGACATATGTTAC
1 ATTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGTTGAGATCCGACATATGTTAC
* * ** *
12628 GGATTCTCCACAGCTCGTGTGAGCAGCATTGTGTAGCTTAACATCTCGACCTACGGCTCGTGTGA
66 GGATTCTCCACAGCTCGTGTGAGCAGCATCGTGTAGCTTAACATCTCGACCCAAAGCTCATGTGA
*
12693 GCAGGCCCATTTCACAGCTCGTGTGAGC
131 GCAGGCCCATTTCACAACTCGTGTGAGC
* *
12721 ATTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGTTGAGATCTGGCATATGTTGA
1 ATTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGTTGAGATCCGACATATGTT-A
* *
12786 -GGATTCTCCACATCTCGTGTGAGTAGCATCGTGTAGCTTAACATCTCGACCCAAAGCTCATGTG
65 CGGATTCTCCACAGCTCGTGTGAGCAGCATCGTGTAGCTTAACATCTCGACCCAAAGCTCATGTG
***
12850 AGCAGGTTTATTTCACAACTCGTGTGAGC
130 AGCAGGCCCATTTCACAACTCGTGTGAGC
*
12879 ACTACATG
1 ATTACATG
12887 ATACAGGAAA
Statistics
Matches: 151, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
158 150 0.99
159 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (158 bp):
ATTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGTTGAGATCCGACATATGTTAC
GGATTCTCCACAGCTCGTGTGAGCAGCATCGTGTAGCTTAACATCTCGACCCAAAGCTCATGTGA
GCAGGCCCATTTCACAACTCGTGTGAGC
Found at i:17508 original size:31 final size:30
Alignment explanation
Indices: 17468--17525 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
17458 TTTTTATAGT
17468 TTTTAAAGGATTA-AATCAAAATTTTATCAA
1 TTTTAAAGGATTATAAT-AAAATTTTATCAA
*
17498 TTTTAGAAGGATTATAATACAATTTTAT
1 TTTTA-AAGGATTATAATAAAATTTTAT
17526 ATTTACTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 5 0.20
31 17 0.68
32 3 0.12
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (30 bp):
TTTTAAAGGATTATAATAAAATTTTATCAA
Found at i:19040 original size:21 final size:22
Alignment explanation
Indices: 19008--19057 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
18998 TACAAGCAAC
*
19008 TTAA-TAT-ATATTTCA-ATTA
1 TTAATTATAATATTTAATATTA
19027 TTAATTATAATATTTAATATTA
1 TTAATTATAATATTTAATATTA
19049 -TAATTATAA
1 TTAATTATAA
19058 AATAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 4 0.15
20 3 0.11
21 16 0.59
22 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTAATTATAATATTTAATATTA
Found at i:19506 original size:33 final size:34
Alignment explanation
Indices: 19447--19510 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
19437 GTTTTATTTT
*
19447 TTTCAAGATTCTTTTACTATTCTTTTAATTTTAA
1 TTTCAAGATTATTTTACTATTCTTTTAATTTTAA
*
19481 TTTCAA-ATTATTTTAATTATT-TTTTAATTT
1 TTTCAAGATTATTTT-ACTATTCTTTTAATTT
19511 ACGTCCAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 16 0.59
34 11 0.41
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (34 bp):
TTTCAAGATTATTTTACTATTCTTTTAATTTTAA
Found at i:20100 original size:16 final size:16
Alignment explanation
Indices: 20062--20109 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
20052 AAAACTTCAT
*
20062 AAATATATATTTTTGA
1 AAATATATATTTTTAA
**
20078 ATTTATATATTTTTAA
1 AAATATATATTTTTAA
20094 AAATATATTATTTTTA
1 AAATATA-TATTTTTA
20110 TTTTTGAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 18 0.69
17 8 0.31
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
AAATATATATTTTTAA
Found at i:20824 original size:15 final size:16
Alignment explanation
Indices: 20798--20828 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
20788 GCTTGACCCT
20798 TTAATAAAATTATAAA
1 TTAATAAAATTATAAA
20814 TTAAT-AAATTATAAA
1 TTAATAAAATTATAAA
20829 ACTATATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAATAAAATTATAAA
Found at i:21120 original size:16 final size:17
Alignment explanation
Indices: 21078--21122 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
21068 ATGTTTATTC
21078 GTATTAT-TA-TTAAAA
1 GTATTATATATTTAAAA
21093 GTATTCATATATTTAAAA
1 GTATT-ATATATTTAAAA
21111 -TATTATATATTT
1 GTATTATATATTT
21123 TATATAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.19
16 10 0.37
17 6 0.22
18 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (17 bp):
GTATTATATATTTAAAA
Found at i:21124 original size:17 final size:19
Alignment explanation
Indices: 21082--21124 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
21072 TTATTCGTAT
21082 TATTATTAAAAGTATTCATA
1 TATT-TTAAAAGTATTCATA
21102 TA-TTTAAAA-TATT-ATA
1 TATTTTAAAAGTATTCATA
21118 TATTTTA
1 TATTTTA
21125 TATAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 8 0.36
18 6 0.27
19 1 0.05
20 2 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (19 bp):
TATTTTAAAAGTATTCATA
Found at i:22294 original size:30 final size:29
Alignment explanation
Indices: 22260--22328 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
22250 TTAAATTAGT
22260 AATAATAAAATTAT-ATTTTAATT-TTCTAAA
1 AATAATAAAATT-TGA-TTTAATTCTT-TAAA
22290 AATAATAAAAATTTGATTTAATTCTTTAAA
1 AATAAT-AAAATTTGATTTAATTCTTTAAA
*
22320 AATTATAAA
1 AATAATAAA
22329 GATATAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
29 3 0.09
30 23 0.66
31 9 0.26
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (29 bp):
AATAATAAAATTTGATTTAATTCTTTAAA
Found at i:33823 original size:41 final size:40
Alignment explanation
Indices: 33792--33867 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
33782 TTTGGATAGA
*
33792 AAACACCGCAAAAGATAAAGCAATAGCGGCGTTTTTACAT
1 AAACACCGCAAAAGATAAAGCAATAGCGGCGTTTATACAT
* * *
33832 AAACACCGCAAAAGGTAGAGCAATAGCGGCGCTTAT
1 AAACACCGCAAAAGATAAAGCAATAGCGGCGTTTAT
33868 GGAAAAGTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (40 bp):
AAACACCGCAAAAGATAAAGCAATAGCGGCGTTTATACAT
Found at i:33902 original size:41 final size:41
Alignment explanation
Indices: 33837--34070 Score: 267
Period size: 41 Copynumber: 5.7 Consensus size: 41
33827 TACATAAACA
* *
33837 CCGCAAAAGGT-AGAGCAATAGCGGCGCTTATGGAAAAGTG
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGCG
*
33877 CCGCTAAAGGTCAGAGCAACAGCGGCGCTTATAGG-AAAGCG
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTAT-GGAAAAGCG
* * * *
33918 CCGGTAAAGATCAGAGCAATAGTGGTGCTTATGGAAAAGCG
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGCG
* * * * *
33959 CCGCTAAAGGTTAGAACAATAGCGGTGCTTTTTGAAAAGCG
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGCG
* * * **
34000 CCACTAAAGGTCAGAGCAATAGCGGTGCTTACGGGCAAGCG
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGCG
*
34041 CCGCTAAAGGTCA-ATGTAATAGCGGCGCTT
1 CCGCTAAAGGTCAGA-GCAATAGCGGCGCTT
34071 GTCAGAGCAA
Statistics
Matches: 164, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
40 13 0.08
41 149 0.91
42 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.30, T:0.18
Consensus pattern (41 bp):
CCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGCG
Found at i:34106 original size:62 final size:62
Alignment explanation
Indices: 34009--34132 Score: 194
Period size: 62 Copynumber: 2.0 Consensus size: 62
33999 GCCACTAAAG
* * * * *
34009 GTCAGAGCAATAGCGGTGCTTACGGGCAAGCGCCGCTAAAGGTCAATGTAATAGCGGCGCTT
1 GTCAGAGCAATAACGGCGCTTACGGGCAAGCGCCGCTAAAGATCAAAGCAATAGCGGCGCTT
*
34071 GTCAGAGCAATAACGGCGCTTATGGGCAAGCGCCGCTAAAGATCAAAGCAATAGCGGCGCTT
1 GTCAGAGCAATAACGGCGCTTACGGGCAAGCGCCGCTAAAGATCAAAGCAATAGCGGCGCTT
34133 AAGGGCAAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.28, C:0.23, G:0.31, T:0.18
Consensus pattern (62 bp):
GTCAGAGCAATAACGGCGCTTACGGGCAAGCGCCGCTAAAGATCAAAGCAATAGCGGCGCTT
Found at i:40819 original size:43 final size:43
Alignment explanation
Indices: 40763--40854 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
40753 AATTTTAGTG
* *
40763 GCGTTTGTGGGAAAACCGCCGCTAAAGACCAGGTTCTTTAGCA
1 GCGTTTATAGGAAAACCGCCGCTAAAGACCAGGTTCTTTAGCA
* * *
40806 GCGTTTATAGGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCG
1 GCGTTTATAGGAAAACCGCCGCTAAAGACCAGGTTCTTTAGCA
40849 GCGTTT
1 GCGTTT
40855 GTGAGATCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (43 bp):
GCGTTTATAGGAAAACCGCCGCTAAAGACCAGGTTCTTTAGCA
Found at i:40866 original size:21 final size:21
Alignment explanation
Indices: 40840--40879 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
40830 AAGACCATGT
*
40840 TCTTTAGCGGCGTTTGTGAGA
1 TCTTTAACGGCGTTTGTGAGA
40861 TCTTTAACGGCGTTTGTGA
1 TCTTTAACGGCGTTTGTGA
40880 AAAAAGCACC
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:0.15, C:0.15, G:0.30, T:0.40
Consensus pattern (21 bp):
TCTTTAACGGCGTTTGTGAGA
Found at i:40906 original size:107 final size:107
Alignment explanation
Indices: 40762--40961 Score: 287
Period size: 107 Copynumber: 1.9 Consensus size: 107
40752 TAATTTTAGT
** * *
40762 GGCGTTTGTGGGAAAACCGCCGCTAAAGACCAGGTTCTTTAGC-AGCGTTTATAGG-AAAAGCGC
1 GGCGTTTGTGAAAAAACCACCGCTAAAGACCAGGTTCTTTAGCGA-CGTTTAT-GGAAAAAGCAC
*
40825 CGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGAGATCTTTAAC
64 CGCTAAAGACCATGTTCTTTAGCGACGTTTGTGAGATCTTTAAC
* * * *
40869 GGCGTTTGTGAAAAAAGCACCGCTAAAGATCATGTTCTTTAGCGACGTTTGTGGAAAAAGCACCG
1 GGCGTTTGTGAAAAAACCACCGCTAAAGACCAGGTTCTTTAGCGACGTTTATGGAAAAAGCACCG
40934 CTAAAGACCATGTTCTTTAGCGACGTTT
66 CTAAAGACCATGTTCTTTAGCGACGTTT
40962 TTCCAAATAA
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
106 2 0.02
107 79 0.96
108 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (107 bp):
GGCGTTTGTGAAAAAACCACCGCTAAAGACCAGGTTCTTTAGCGACGTTTATGGAAAAAGCACCG
CTAAAGACCATGTTCTTTAGCGACGTTTGTGAGATCTTTAAC
Found at i:40927 original size:43 final size:43
Alignment explanation
Indices: 40861--40961 Score: 166
Period size: 43 Copynumber: 2.3 Consensus size: 43
40851 GTTTGTGAGA
* * *
40861 TCTTTAACGGCGTTTGTGAAAAAAGCACCGCTAAAGATCATGT
1 TCTTTAGCGACGTTTGTGAAAAAAGCACCGCTAAAGACCATGT
*
40904 TCTTTAGCGACGTTTGTGGAAAAAGCACCGCTAAAGACCATGT
1 TCTTTAGCGACGTTTGTGAAAAAAGCACCGCTAAAGACCATGT
40947 TCTTTAGCGACGTTT
1 TCTTTAGCGACGTTT
40962 TTCCAAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (43 bp):
TCTTTAGCGACGTTTGTGAAAAAAGCACCGCTAAAGACCATGT
Found at i:49101 original size:43 final size:43
Alignment explanation
Indices: 49045--49136 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
49035 AATTTTAGTG
* *
49045 GCGTTTGTGGGAAAACCGCCGCTAAAGACCAGGTTCTTTAGCA
1 GCGTTTATAGGAAAACCGCCGCTAAAGACCAGGTTCTTTAGCA
* * *
49088 GCGTTTATAGGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCG
1 GCGTTTATAGGAAAACCGCCGCTAAAGACCAGGTTCTTTAGCA
49131 GCGTTT
1 GCGTTT
49137 GTGAGATCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (43 bp):
GCGTTTATAGGAAAACCGCCGCTAAAGACCAGGTTCTTTAGCA
Found at i:49148 original size:21 final size:21
Alignment explanation
Indices: 49122--49161 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
49112 AAGACCATGT
*
49122 TCTTTAGCGGCGTTTGTGAGA
1 TCTTTAACGGCGTTTGTGAGA
49143 TCTTTAACGGCGTTTGTGA
1 TCTTTAACGGCGTTTGTGA
49162 AAAAAGCACC
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:0.15, C:0.15, G:0.30, T:0.40
Consensus pattern (21 bp):
TCTTTAACGGCGTTTGTGAGA
Found at i:49188 original size:107 final size:107
Alignment explanation
Indices: 49044--49243 Score: 287
Period size: 107 Copynumber: 1.9 Consensus size: 107
49034 TAATTTTAGT
** * *
49044 GGCGTTTGTGGGAAAACCGCCGCTAAAGACCAGGTTCTTTAGC-AGCGTTTATAGG-AAAAGCGC
1 GGCGTTTGTGAAAAAACCACCGCTAAAGACCAGGTTCTTTAGCGA-CGTTTAT-GGAAAAAGCAC
*
49107 CGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGAGATCTTTAAC
64 CGCTAAAGACCATGTTCTTTAGCGACGTTTGTGAGATCTTTAAC
* * * *
49151 GGCGTTTGTGAAAAAAGCACCGCTAAAGATCATGTTCTTTAGCGACGTTTGTGGAAAAAGCACCG
1 GGCGTTTGTGAAAAAACCACCGCTAAAGACCAGGTTCTTTAGCGACGTTTATGGAAAAAGCACCG
49216 CTAAAGACCATGTTCTTTAGCGACGTTT
66 CTAAAGACCATGTTCTTTAGCGACGTTT
49244 TTCCAAATAA
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
106 2 0.02
107 79 0.96
108 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (107 bp):
GGCGTTTGTGAAAAAACCACCGCTAAAGACCAGGTTCTTTAGCGACGTTTATGGAAAAAGCACCG
CTAAAGACCATGTTCTTTAGCGACGTTTGTGAGATCTTTAAC
Found at i:49209 original size:43 final size:43
Alignment explanation
Indices: 49143--49243 Score: 166
Period size: 43 Copynumber: 2.3 Consensus size: 43
49133 GTTTGTGAGA
* * *
49143 TCTTTAACGGCGTTTGTGAAAAAAGCACCGCTAAAGATCATGT
1 TCTTTAGCGACGTTTGTGAAAAAAGCACCGCTAAAGACCATGT
*
49186 TCTTTAGCGACGTTTGTGGAAAAAGCACCGCTAAAGACCATGT
1 TCTTTAGCGACGTTTGTGAAAAAAGCACCGCTAAAGACCATGT
49229 TCTTTAGCGACGTTT
1 TCTTTAGCGACGTTT
49244 TTCCAAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (43 bp):
TCTTTAGCGACGTTTGTGAAAAAAGCACCGCTAAAGACCATGT
Found at i:57383 original size:43 final size:43
Alignment explanation
Indices: 57327--57418 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
57317 AATTTTAGTG
* *
57327 GCGTTTGTGGGAAAACCGCCGCTAAAGACCAGGTTCTTTAGCA
1 GCGTTTATAGGAAAACCGCCGCTAAAGACCAGGTTCTTTAGCA
* * *
57370 GCGTTTATAGGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCG
1 GCGTTTATAGGAAAACCGCCGCTAAAGACCAGGTTCTTTAGCA
57413 GCGTTT
1 GCGTTT
57419 GTGAGATCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (43 bp):
GCGTTTATAGGAAAACCGCCGCTAAAGACCAGGTTCTTTAGCA
Found at i:57430 original size:21 final size:21
Alignment explanation
Indices: 57404--57443 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
57394 AAGACCATGT
*
57404 TCTTTAGCGGCGTTTGTGAGA
1 TCTTTAACGGCGTTTGTGAGA
57425 TCTTTAACGGCGTTTGTGA
1 TCTTTAACGGCGTTTGTGA
57444 AAAAAGCACC
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:0.15, C:0.15, G:0.30, T:0.40
Consensus pattern (21 bp):
TCTTTAACGGCGTTTGTGAGA
Found at i:57470 original size:107 final size:107
Alignment explanation
Indices: 57326--57525 Score: 287
Period size: 107 Copynumber: 1.9 Consensus size: 107
57316 TAATTTTAGT
** * *
57326 GGCGTTTGTGGGAAAACCGCCGCTAAAGACCAGGTTCTTTAGC-AGCGTTTATAGG-AAAAGCGC
1 GGCGTTTGTGAAAAAACCACCGCTAAAGACCAGGTTCTTTAGCGA-CGTTTAT-GGAAAAAGCAC
*
57389 CGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGAGATCTTTAAC
64 CGCTAAAGACCATGTTCTTTAGCGACGTTTGTGAGATCTTTAAC
* * * *
57433 GGCGTTTGTGAAAAAAGCACCGCTAAAGATCATGTTCTTTAGCGACGTTTGTGGAAAAAGCACCG
1 GGCGTTTGTGAAAAAACCACCGCTAAAGACCAGGTTCTTTAGCGACGTTTATGGAAAAAGCACCG
57498 CTAAAGACCATGTTCTTTAGCGACGTTT
66 CTAAAGACCATGTTCTTTAGCGACGTTT
57526 TTCCAAATAA
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
106 2 0.02
107 79 0.96
108 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (107 bp):
GGCGTTTGTGAAAAAACCACCGCTAAAGACCAGGTTCTTTAGCGACGTTTATGGAAAAAGCACCG
CTAAAGACCATGTTCTTTAGCGACGTTTGTGAGATCTTTAAC
Found at i:57491 original size:43 final size:43
Alignment explanation
Indices: 57425--57525 Score: 166
Period size: 43 Copynumber: 2.3 Consensus size: 43
57415 GTTTGTGAGA
* * *
57425 TCTTTAACGGCGTTTGTGAAAAAAGCACCGCTAAAGATCATGT
1 TCTTTAGCGACGTTTGTGAAAAAAGCACCGCTAAAGACCATGT
*
57468 TCTTTAGCGACGTTTGTGGAAAAAGCACCGCTAAAGACCATGT
1 TCTTTAGCGACGTTTGTGAAAAAAGCACCGCTAAAGACCATGT
57511 TCTTTAGCGACGTTT
1 TCTTTAGCGACGTTT
57526 TTCCAAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (43 bp):
TCTTTAGCGACGTTTGTGAAAAAAGCACCGCTAAAGACCATGT
Found at i:61299 original size:857 final size:857
Alignment explanation
Indices: 59646--61347 Score: 2858
Period size: 857 Copynumber: 2.0 Consensus size: 857
59636 TAGTTGTCTA
* **
59646 GGGTAAATTCTCTCTACTTGAATCTTATAAACATTTGATTACCATAAATGCACCGGATAAGATTG
1 GGGTAAATTCTCTCTACTTGAATCTTATAAACATTTGATTACCACAAATGCACCAAATAAGATTG
* *
59711 CAAGTGATGAGCTTACTTAGAGAATAAAGGCACCGCAAAGGGTTCGAGTGTTCTTCTGGTTATTG
66 CAAGTGATGAGCTTACTTAGAGAATAAAGGCACCACAAAGGGTTCAAGTGTTCTTCTGGTTATTG
*
59776 GCTCGATATAAACTCTTGACAAACGAGGAACAGACCAAGCGAGGCATGACTTCATTTCCTTTCTA
131 GCTCGAGATAAACTCTTGACAAACGAGGAACAGACCAAGCGAGGCATGACTTCATTTCCTTTCTA
*
59841 TGATCGATGTGGACTGGATGTAGAGTCTATAATGCATGTTGTTAGGGACTATGGGTTTTCTAATT
196 TGATCAATGTGGACTGGATGTAGAGTCTATAATGCATGTTGTTAGGGACTATGGGTTTTCTAATT
59906 TAGTTGAAAATCTATTGTACCGAGAAGTGCGTGGAATGCCTTTTTTAGCTTACTGCTTGTTCGAT
261 TAGTTGAAAATCTATTGTACCGAGAAGTGCGTGGAATGCCTTTTTTAGCTTACTGCTTGTTCGAT
* *
59971 GGAATATTTGGAATATTGGGAATGAAGGTAATATAGAGTCTCAATATGGTGAATGGCTTACTTTT
326 GGAATATTTGGAATATTGGGAATGAAGGTAATATAAAGTCTCAATATGGTGAATGGCTGACTTTT
*
60036 TTCCTATTATTACTTGGTTTCTTTTGAAGAGTTGAAATGAATTCATCTCCACTACGGTGAGTAAC
391 TTCCTATTATTACTTGGTTTCTTTGGAAGAGTTGAAATGAATTCATCTCCACTACGGTGAGTAAC
* * *
60101 AATAGTCATGCTCTCTTAACTTTAGTTGGTGCTTAGACAAGGTCTTTATATACTAAAGGAGTGTC
456 AACAGCCATGCTCTCTTAACTTTAGTTGGAGCTTAGACAAGG-CTTTATATACTAAAGGAGTGTC
*
60166 TGTAAATTGAGCTTGTAGATTCATGACTAAAGGTTTGTGGAAATTTCCTATTCATGGATGGGTTA
520 TGTAAATTGAGCTTGTAGATTCATGACTAAAGGTTTGTGGAAATTTCCTACTCATGGATGGGTTA
* *
60231 AGGTGAACGTTGATGGCTCGGTATCGAATTCTAGACCAAGAGCGGCCATAGGTGGAGTGGTGAGA
585 AGGTGAACGTTGATGGCTCGATATCGAATTCTAGACCAAGAGCAGCCATAGGTGGAGTGGTGAGA
* * *
60296 AGGCTGAATGAAAGTTGGATGGGGGTTTTGAAATGGTGGTAGGATTGTCAAATATTTTTTAGGTT
650 AGGCTGAATGAAAGTTGGATGGGGGTTTTGAAACGGTGGTAGGATTGTCAAATATTTGTCAGGTT
* * *
60361 GAAGCTCGAGCATTACTTGAAGGTTTGAAGTATGCTTGGGCACAAAGGTACTGTCAAGTGGAGAT
715 GAAGCTCGAGCATTACTTGAAGGTTTAAAGTATGCTTGGGAACAAAGGTACCGTCAAGTGGAGAT
*
60426 TAAAAGTGATAATTCTCTGCTGATTGTCGTTATACAAAATGGGTTAGCAGCAGCCAATAATTACA
780 TAAAAGTGATAATTCTCTACTGATTGTCGTTATACAAAATGGGTTAGCAGCAGCCAATAATTACA
60491 AATGGTTGTTCGG
845 AATGGTTGTTCGG
*
60504 GGGTAAATTCTCTCTA-TCTGAATCTTATAAACATTTGATTACCACAAATGCACCAAATAGGATT
1 GGGTAAATTCTCTCTACT-TGAATCTTATAAACATTTGATTACCACAAATGCACCAAATAAGATT
* *
60568 GCAAGTGATGAGCTTACTTGGAGAATAAGGGCACCACAAAGGGTTCAAGTGTTCTTCTGGTTATT
65 GCAAGTGATGAGCTTACTTAGAGAATAAAGGCACCACAAAGGGTTCAAGTGTTCTTCTGGTTATT
* * * * *
60633 GGCTCGAGATAGACTCTTGACAAACGAGGAACAGA-CTAGATGAGGTATGACTTCGTTTCCTTTC
130 GGCTCGAGATAAACTCTTGACAAACGAGGAACAGACCAAG-CGAGGCATGACTTCATTTCCTTTC
*
60697 TATGATCAATGTGGATTGGATGTAGAGTCTATAATGCATGTTGTTAGGGACTATGGGTTTTCTAA
194 TATGATCAATGTGGACTGGATGTAGAGTCTATAATGCATGTTGTTAGGGACTATGGGTTTTCTAA
* * *
60762 TTTAGTTTGAAAATCTATTGTACCGGGAAGTGCGTGGAATGTCTTTTTTAGCTTATTGCTTGTTC
259 TTTAG-TTGAAAATCTATTGTACCGAGAAGTGCGTGGAATGCCTTTTTTAGCTTACTGCTTGTTC
60827 GATGGAATATTTGGAATATTGGGAATGAAGGTAATATAAAGTCTCAATATGGTGAATGGCTGACT
323 GATGGAATATTTGGAATATTGGGAATGAAGGTAATATAAAGTCTCAATATGGTGAATGGCTGACT
* *
60892 TCTTTT-CTATTATTACTTGGTTTCTTTGGAAGAGTTGAAATGAATTCATCTTCACTGCGGTGAG
388 T-TTTTCCTATTATTACTTGGTTTCTTTGGAAGAGTTGAAATGAATTCATCTCCACTACGGTGAG
60956 TAACAACAGCCATGCTCTCTTAACTTTAGTTGGAGCTTAGACAAGG-TTTATATACTAAAGGAGT
452 TAACAACAGCCATGCTCTCTTAACTTTAGTTGGAGCTTAGACAAGGCTTTATATACTAAAGGAGT
* *
61020 GTTTGTAAATTGAGCTTGTAGATTCATGACTAAGGGTTTGTGGAAATTTCCTACTCATGGATGGG
517 GTCTGTAAATTGAGCTTGTAGATTCATGACTAAAGGTTTGTGGAAATTTCCTACTCATGGATGGG
61085 TTAAGGTGAACGTTGATGGCTCGATATCGAATTCTAGACCAAGAGCAGCCATAGGTGGAGTGGTG
582 TTAAGGTGAACGTTGATGGCTCGATATCGAATTCTAGACCAAGAGCAGCCATAGGTGGAGTGGTG
* *
61150 AGAAGGCCT-AATGGAAGTTGGATGGGGGTTTTGAAACGTTGGTAGGATTGTCAGAA-ATTTGTC
647 AGAAGG-CTGAATGAAAGTTGGATGGGGGTTTTGAAACGGTGGTAGGATTGTCA-AATATTTGTC
* * * *
61213 AGGTTGAAGCTTGAGCATTATTTGAAGGTTTAAAGTATGCTTGGGAACAAGGGTACCGTTAAGTG
710 AGGTTGAAGCTCGAGCATTACTTGAAGGTTTAAAGTATGCTTGGGAACAAAGGTACCGTCAAGTG
* * * *
61278 GAGATTGAGAGTGATAATTCTCTATTGATTGTCGTTATACAAAATGGGTTAGCAGTAGCCAATAA
775 GAGATTAAAAGTGATAATTCTCTACTGATTGTCGTTATACAAAATGGGTTAGCAGCAGCCAATAA
61343 TTACA
840 TTACA
61348 GCAAAGTTAG
Statistics
Matches: 789, Mismatches: 49, Indels: 13
0.93 0.06 0.02
Matches are distributed among these distances:
857 322 0.41
858 245 0.31
859 218 0.28
860 4 0.01
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.33
Consensus pattern (857 bp):
GGGTAAATTCTCTCTACTTGAATCTTATAAACATTTGATTACCACAAATGCACCAAATAAGATTG
CAAGTGATGAGCTTACTTAGAGAATAAAGGCACCACAAAGGGTTCAAGTGTTCTTCTGGTTATTG
GCTCGAGATAAACTCTTGACAAACGAGGAACAGACCAAGCGAGGCATGACTTCATTTCCTTTCTA
TGATCAATGTGGACTGGATGTAGAGTCTATAATGCATGTTGTTAGGGACTATGGGTTTTCTAATT
TAGTTGAAAATCTATTGTACCGAGAAGTGCGTGGAATGCCTTTTTTAGCTTACTGCTTGTTCGAT
GGAATATTTGGAATATTGGGAATGAAGGTAATATAAAGTCTCAATATGGTGAATGGCTGACTTTT
TTCCTATTATTACTTGGTTTCTTTGGAAGAGTTGAAATGAATTCATCTCCACTACGGTGAGTAAC
AACAGCCATGCTCTCTTAACTTTAGTTGGAGCTTAGACAAGGCTTTATATACTAAAGGAGTGTCT
GTAAATTGAGCTTGTAGATTCATGACTAAAGGTTTGTGGAAATTTCCTACTCATGGATGGGTTAA
GGTGAACGTTGATGGCTCGATATCGAATTCTAGACCAAGAGCAGCCATAGGTGGAGTGGTGAGAA
GGCTGAATGAAAGTTGGATGGGGGTTTTGAAACGGTGGTAGGATTGTCAAATATTTGTCAGGTTG
AAGCTCGAGCATTACTTGAAGGTTTAAAGTATGCTTGGGAACAAAGGTACCGTCAAGTGGAGATT
AAAAGTGATAATTCTCTACTGATTGTCGTTATACAAAATGGGTTAGCAGCAGCCAATAATTACAA
ATGGTTGTTCGG
Found at i:61666 original size:28 final size:28
Alignment explanation
Indices: 61607--61672 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
61597 AATCATGTTT
* * *
61607 TAACATAAATATAAATTTAGTAATTATT
1 TAACATAAATATAAATTTAGCAACTATC
*
61635 TAACATAAATATATATTTA-CAACTATAC
1 TAACATAAATATAAATTTAGCAACTAT-C
61663 TAAC-TAAATA
1 TAACATAAATA
61673 GTTTAATCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 11 0.33
28 22 0.67
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.38
Consensus pattern (28 bp):
TAACATAAATATAAATTTAGCAACTATC
Found at i:67957 original size:37 final size:38
Alignment explanation
Indices: 67916--67988 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 38
67906 AGAAATATGT
* * *
67916 TTTTAG-GAATTAAATTGTAGAATAATA-AAAATTTGGA
1 TTTTAGAG-ATTAAATTATAAAAAAATATAAAATTTGGA
67953 TTTTAGAGATTAAATTATAAAAAAATATAAAATTTG
1 TTTTAGAGATTAAATTATAAAAAAATATAAAATTTG
67989 AATATAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 22 0.71
38 9 0.29
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.38
Consensus pattern (38 bp):
TTTTAGAGATTAAATTATAAAAAAATATAAAATTTGGA
Found at i:75500 original size:24 final size:26
Alignment explanation
Indices: 75466--75516 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
75456 AAATTTAAAG
*
75466 ATATTTATAAAAA-AT-TTAAAATTT
1 ATATTTATAAAAATATATAAAAATTT
*
75490 ATATTTTTAAAAATATATAAAAATTT
1 ATATTTATAAAAATATATAAAAATTT
75516 A
1 A
75517 AAAATTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 12 0.52
25 2 0.09
26 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATATTTATAAAAATATATAAAAATTT
Found at i:75628 original size:16 final size:16
Alignment explanation
Indices: 75607--75637 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75597 GCTTTAAAAT
75607 TTTCAAATATATATAA
1 TTTCAAATATATATAA
*
75623 TTTCAAATTTATATA
1 TTTCAAATATATATA
75638 TTCTATCATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATAA
Found at i:79525 original size:12 final size:12
Alignment explanation
Indices: 79508--79536 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
79498 TTTATTATTA
79508 TTATTGTTGTTG
1 TTATTGTTGTTG
79520 TTATTGTTGTTG
1 TTATTGTTGTTG
79532 TTATT
1 TTATT
79537 ACTATTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.00, G:0.21, T:0.69
Consensus pattern (12 bp):
TTATTGTTGTTG
Found at i:79982 original size:20 final size:20
Alignment explanation
Indices: 79957--79996 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
79947 ATATACATTC
79957 GTATGT-ATGAATGCTTGCAT
1 GTATGTAAT-AATGCTTGCAT
79977 GTATGTACATAATGCTTGCA
1 GTATGTA-ATAATGCTTGCA
79997 CGTACATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 10 0.56
22 2 0.11
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.38
Consensus pattern (20 bp):
GTATGTAATAATGCTTGCAT
Found at i:89011 original size:22 final size:21
Alignment explanation
Indices: 88973--89021 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
88963 ATTATATTAT
88973 TGTTTTGGTGCTATTTTTTTAC
1 TGTTTTGGTGC-ATTTTTTTAC
*
88995 TGTTTTGATTGC-TTTTTTTAC
1 TGTTTTG-GTGCATTTTTTTAC
*
89016 TCTTTT
1 TGTTTT
89022 TTACTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 14 0.58
22 7 0.29
23 3 0.12
ACGTcount: A:0.08, C:0.10, G:0.14, T:0.67
Consensus pattern (21 bp):
TGTTTTGGTGCATTTTTTTAC
Found at i:89012 original size:21 final size:19
Alignment explanation
Indices: 88986--89033 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
88976 TTTGGTGCTA
* *
88986 TTTTTTTACTGTTTTGATTGC
1 TTTTTTTACTCTTTT--TTAC
89007 TTTTTTTACTCTTTTTTAC
1 TTTTTTTACTCTTTTTTAC
89026 TTTTTTTA
1 TTTTTTTA
89034 TTTCTGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.44
21 14 0.56
ACGTcount: A:0.10, C:0.10, G:0.06, T:0.73
Consensus pattern (19 bp):
TTTTTTTACTCTTTTTTAC
Found at i:89021 original size:10 final size:9
Alignment explanation
Indices: 88986--89033 Score: 51
Period size: 10 Copynumber: 4.9 Consensus size: 9
88976 TTTGGTGCTA
88986 TTTTTTTAC
1 TTTTTTTAC
*
88995 TGTTTTGATTGC
1 T-TTTT--TTAC
89007 TTTTTTTAC
1 TTTTTTTAC
89016 TCTTTTTTAC
1 T-TTTTTTAC
89026 TTTTTTTA
1 TTTTTTTA
89034 TTTCTGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
9 12 0.36
10 13 0.39
11 4 0.12
12 4 0.12
ACGTcount: A:0.10, C:0.10, G:0.06, T:0.73
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:89043 original size:20 final size:19
Alignment explanation
Indices: 89006--89044 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
88996 GTTTTGATTG
*
89006 CTTTTTTTACTCTTTTTTA
1 CTTTTTTTACTCTGTTTTA
*
89025 CTTTTTTTATTTCTGTTTTA
1 CTTTTTTTA-CTCTGTTTTA
89045 GTGTTGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.74
Consensus pattern (19 bp):
CTTTTTTTACTCTGTTTTA
Found at i:89067 original size:24 final size:23
Alignment explanation
Indices: 89046--89120 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
89036 TCTGTTTTAG
89046 TGTTGTT-T-TTGCTATTATTTT
1 TGTTGTTGTCTTGCTATTATTTT
*
89067 TGTTGTTGTCTTGCTGTTATTTT
1 TGTTGTTGTCTTGCTATTATTTT
** * * *
89090 TGTTACTGTTTTGGTTGTTATTTT
1 TGTTGTTGTCTT-GCTATTATTTT
89114 TGTTGTT
1 TGTTGTT
89121 TGGATGTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
21 7 0.16
22 1 0.02
23 21 0.48
24 15 0.34
ACGTcount: A:0.07, C:0.05, G:0.20, T:0.68
Consensus pattern (23 bp):
TGTTGTTGTCTTGCTATTATTTT
Found at i:89107 original size:15 final size:12
Alignment explanation
Indices: 89046--89120 Score: 53
Period size: 12 Copynumber: 6.3 Consensus size: 12
89036 TCTGTTTTAG
* *
89046 TGTTGTTTTTGC
1 TGTTATTTTTGT
*
89058 TATTATTTTTGT
1 TGTTATTTTTGT
* * *
89070 TGTT-GTCTTGC
1 TGTTATTTTTGT
89081 TGTTATTTTTGT
1 TGTTATTTTTGT
** * *
89093 TACTGTTTTGGT
1 TGTTATTTTTGT
89105 TGTTATTTTTGT
1 TGTTATTTTTGT
89117 TGTT
1 TGTT
89121 TGGATGTTAT
Statistics
Matches: 44, Mismatches: 18, Indels: 2
0.69 0.28 0.03
Matches are distributed among these distances:
11 8 0.18
12 36 0.82
ACGTcount: A:0.07, C:0.05, G:0.20, T:0.68
Consensus pattern (12 bp):
TGTTATTTTTGT
Found at i:89128 original size:20 final size:21
Alignment explanation
Indices: 89081--89142 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
89071 GTTGTCTTGC
* *
89081 TGTTATTTTTGTTACTGTTTTGGT
1 TGTTATTTTTG-T-GTG-TTTGGA
89105 TGTTATTTTTGT-TGTTTGGA
1 TGTTATTTTTGTGTGTTTGGA
89125 TGTTATTTTTGTGTGTTT
1 TGTTATTTTTGTGTGTTT
89143 TTACTATTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 17 0.47
21 7 0.19
23 1 0.03
24 11 0.31
ACGTcount: A:0.08, C:0.02, G:0.23, T:0.68
Consensus pattern (21 bp):
TGTTATTTTTGTGTGTTTGGA
Found at i:89272 original size:9 final size:10
Alignment explanation
Indices: 89251--89283 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
89241 TATAAAAAAA
89251 TTTAATATTT
1 TTTAATATTT
89261 TTTAAT-TTT
1 TTTAATATTT
*
89270 TTTAATGTTT
1 TTTAATATTT
89280 TTTA
1 TTTA
89284 GTGTATATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (10 bp):
TTTAATATTT
Found at i:97587 original size:105 final size:105
Alignment explanation
Indices: 97399--98231 Score: 820
Period size: 105 Copynumber: 8.0 Consensus size: 105
97389 ACCAGGCTAC
* * * * ** * *
97399 CACTTTTCGGTAGTCCGGACAATCTACGTAAGCTAGAGTGTGGTTCAATAGTTTGTCTGCTAATA
1 CACTTTTCGATAGTCTGGACGATCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAAAA
* * *
97464 TTTCTTACAGTATCTGGGGTACTTTCTTTCATTGAAAGGA
66 TTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
* * * * *
97504 CACTTTTCGATAGTCTGGATGATATAGGTAAGCTAGAGTGCCGTTTAGTATTTTGTCTGGTAAAA
1 CACTTTTCGATAGTCTGGACGATCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAAAA
97569 TTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
66 TTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
* * * * * * *
97609 CGCTTCTCAATAGTTTGGACGATCTAGGTAAGCTAGAGTGCCTTTCAGTAGTTTGTCTGCTCATA
1 CACTTTTCGATAGTCTGGACGATCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAAAA
* *
97674 TTTCTTACAGCATTTTGGGTA-TTTGCTTTCATTGAAGAGA
66 TTTCTTACAGCATTTGGGGTACTTT-CTTTCATTGAAGGGA
* * * * * * * *
97714 CATTTTTCAATAGTTTGGACGATCTAGGTAAGATAAAGTGCCTTTCAGTAGTTTGTCTGCTCATA
1 CACTTTTCGATAGTCTGGACGATCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAAAA
* *
97779 TTTCTTACAGCATTTTGGGTACTTTCTTTAATTGAAGGGA
66 TTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
* *
97819 CACTTTTC-AGTAGTTTGGACGATCTAGGTAAGCTAGAGTGCCATTCAGTAGTTTGTCTGC-AAA
1 CACTTTTCGA-TAGTCTGGACGATCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAAA
**
97882 TATTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAACAGA
65 -ATTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
* * ** * * * * *
97924 CAGTTTTCCATAGTCCAGACAACCTAGGTAAGCTAGAGCGCGGTTCGGTAGTTTGTCTGC-AAAT
1 CACTTTTCGATAGTCTGGACGATCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAAA-
* ** * **
97988 ATCTCGAACAGCATTTTGGGTACTTTCTTTTGTTGAAGGGA
65 ATTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
* ** * ** * *
98029 CGCTTTTCGATAGTCCAGA-TAGTCTAGGTAAGCT--A-TGTTGTTTAATAGTTTGTCTGCTAAA
1 CACTTTTCGATAGTCTGGACGA-TCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAAA
* * *
98090 ATTTCTTTCAGCA-TT----T-C---CTTCCATTGAGGGGA
65 ATTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
* * ** *
98122 CACTTTTTGATAGTCTGGACAATCTAGGTAA-CTTAGAGTGTGGTTCAGTAGTTTGTCTGCTAAT
1 CACTTTTCGATAGTCTGGACGATCTAGGTAAGC-TAGAGTGCCGTTCAGTAGTTTGTCTGCTAAA
* * * *
98186 ATTTCTTACTGCATTTCGGGTACTTTCTTTCGTTGAAGGGT
65 ATTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
98227 CACTT
1 CACTT
98232 CTGTTGACCT
Statistics
Matches: 608, Mismatches: 99, Indels: 42
0.81 0.13 0.06
Matches are distributed among these distances:
92 1 0.00
93 36 0.06
94 1 0.00
95 1 0.00
96 34 0.06
97 3 0.00
101 3 0.00
102 26 0.04
103 4 0.01
104 6 0.01
105 489 0.80
106 4 0.01
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.38
Consensus pattern (105 bp):
CACTTTTCGATAGTCTGGACGATCTAGGTAAGCTAGAGTGCCGTTCAGTAGTTTGTCTGCTAAAA
TTTCTTACAGCATTTGGGGTACTTTCTTTCATTGAAGGGA
Found at i:102288 original size:26 final size:26
Alignment explanation
Indices: 102259--102313 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
102249 CTTGTGAGCT
102259 TTCATTGGGTTCATTTAGCTTAAGTG
1 TTCATTGGGTTCATTTAGCTTAAGTG
102285 TTCATTGGGTTCATTTAGCTTAAGTG
1 TTCATTGGGTTCATTTAGCTTAAGTG
102311 TTC
1 TTC
102314 TTCTTTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.18, C:0.13, G:0.22, T:0.47
Consensus pattern (26 bp):
TTCATTGGGTTCATTTAGCTTAAGTG
Found at i:105492 original size:24 final size:24
Alignment explanation
Indices: 105465--105521 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
105455 TTTAGCCTAC
*
105465 ACGAGCCTAGAATGGTTAGCTCTT
1 ACGAGCCCAGAATGGTTAGCTCTT
105489 ACGAGCCCAGAATGGTTAGCTCTT
1 ACGAGCCCAGAATGGTTAGCTCTT
*
105513 TCGAGCCCA
1 ACGAGCCCA
105522 AACAGGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (24 bp):
ACGAGCCCAGAATGGTTAGCTCTT
Found at i:109630 original size:20 final size:20
Alignment explanation
Indices: 109585--109653 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
109575 TTTGAAGTGC
* **
109585 TAAAATGATTTTGACTTGGT
1 TAAAATTATTTTGACTTATT
*
109605 TCAAATTATTTTGACTTATT
1 TAAAATTATTTTGACTTATT
* *
109625 TAAAATCATTTTAACTTGATTT
1 TAAAATTATTTTGACTT-A-TT
109647 TAAAATT
1 TAAAATT
109654 GTTTCAAACT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 30 0.77
21 1 0.03
22 8 0.21
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (20 bp):
TAAAATTATTTTGACTTATT
Found at i:112951 original size:37 final size:37
Alignment explanation
Indices: 112864--112953 Score: 92
Period size: 38 Copynumber: 2.4 Consensus size: 37
112854 AGATCCGTCT
* * * * *
112864 AAGACAACCTT-AAAAATGTTGGAATAGACCTTGTCTA
1 AAGA-AACCTTAAAAAAGGTCGAAATAAACCTTCTCTA
* *
112901 AAGCATCCTTTAAAAAAGGTCGAAATAAACCTTCTCTA
1 AAGAAACC-TTAAAAAAGGTCGAAATAAACCTTCTCTA
112939 AAGAAACCTTAAAAA
1 AAGAAACCTTAAAAA
112954 GATTAAGATA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
36 3 0.07
37 12 0.29
38 27 0.64
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (37 bp):
AAGAAACCTTAAAAAAGGTCGAAATAAACCTTCTCTA
Found at i:112975 original size:36 final size:36
Alignment explanation
Indices: 112895--113055 Score: 132
Period size: 34 Copynumber: 4.4 Consensus size: 36
112885 GAATAGACCT
* * * *
112895 TGTCTAAAGCATCCTTTAAAAAAGGTCGAA-ATAAACCT
1 TGTCTAAAGAAACC-TTAAAAAAGGT-TAAGATAAA-CA
* * * *
112933 TCTCTAAAGAAACCTT-AAAAAGATTAAGATATATCT
1 TGTCTAAAGAAACCTTAAAAAAGGTTAAGATA-AACA
* *
112969 TGTCTAAGGGAACCTTTAAAAAAGGTTAAGATAAACA
1 TGTCTAAAGAAACC-TTAAAAAAGGTTAAGATAAACA
*
113006 TGTCTAAAGCAA--TTAAAAAAGGTTAAGATAAACA
1 TGTCTAAAGAAACCTTAAAAAAGGTTAAGATAAACA
* *
113040 TATCTAAAGCAACCTT
1 TGTCTAAAGAAACCTT
113056 TAAAGGGTTG
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
34 33 0.32
35 2 0.02
36 25 0.25
37 17 0.17
38 25 0.25
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (36 bp):
TGTCTAAAGAAACCTTAAAAAAGGTTAAGATAAACA
Found at i:112998 original size:38 final size:37
Alignment explanation
Indices: 112893--113359 Score: 165
Period size: 37 Copynumber: 12.8 Consensus size: 37
112883 TGGAATAGAC
* * *
112893 CTTGTCTAAAGCATCCTTTAAAAAAGGTCGAA-ATAAAC
1 CTTGTCTAAAGCAACCTTTAAAAAAGGT-TAAGAT-AAT
* * *
112931 CTTCTCTAAAGAAACC-TT-AAAAAGATTAAGATATAT
1 CTTGTCTAAAGCAACCTTTAAAAAAGGTTAAGATA-AT
* * *
112967 CTTGTCTAAGGGAACCTTTAAAAAAGGTTAAGATAAA
1 CTTGTCTAAAGCAACCTTTAAAAAAGGTTAAGATAAT
* *
113004 CATGTCTAAAGCAA---TTAAAAAAGGTTAAGATAAA
1 CTTGTCTAAAGCAACCTTTAAAAAAGGTTAAGATAAT
* * * *
113038 CATATCTAAAGCAACCTTT--AAAGGGTTGAGATAGAT
1 CTTGTCTAAAGCAACCTTTAAAAAAGGTTAAGATA-AT
* * * * * *
113074 -TTGATCTAAGGTAAACTTTTAAAAAAGATTAGGATAAA
1 CTTG-TCTAAAG-CAACCTTTAAAAAAGGTTAAGATAAT
* *
113112 GTTGTCTAATA-CAACC-TT-AAAAAGGTTGGAA-A-AGAC
1 CTTGTCTAA-AGCAACCTTTAAAAAAGGTT--AAGATA-AT
* * * *
113148 CTTATTTAAAGCAACCTTTTAAAAAA-ATT-AGTATAAA
1 CTTGTCTAAAGCAACC-TTTAAAAAAGGTTAAG-ATAAT
** * *
113185 CCAGTGTAAAGCAACCTTTTAAAAAA-GTTGAA-ATAGAC
1 CTTGTCTAAAGCAACC-TTTAAAAAAGGTT-AAGATA-AT
* *
113223 CTTGTCTAAAACAACCTTT-AAAAAGAGTTGAGATAGA-
1 CTTGTCTAAAGCAACCTTTAAAAAAG-GTTAAGATA-AT
*** * ** *
113260 CCAATCTAAAGCAACC-TT-AAAATGGTTGGGATAGAC
1 CTTGTCTAAAGCAACCTTTAAAAAAGGTTAAGATA-AT
** * * *
113296 CTAATCT-AAGACAACCTTTAAAAAAAGTTGAGATAAA
1 CTTGTCTAAAG-CAACCTTTAAAAAAGGTTAAGATAAT
* *
113333 CATGTCTAAAACAACC-TT-AAAAAGGTT
1 CTTGTCTAAAGCAACCTTTAAAAAAGGTT
113360 GGAATAAACC
Statistics
Matches: 328, Mismatches: 66, Indels: 73
0.70 0.14 0.16
Matches are distributed among these distances:
34 33 0.10
35 48 0.15
36 70 0.21
37 85 0.26
38 73 0.22
39 19 0.06
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (37 bp):
CTTGTCTAAAGCAACCTTTAAAAAAGGTTAAGATAAT
Found at i:113200 original size:73 final size:72
Alignment explanation
Indices: 113115--113363 Score: 256
Period size: 73 Copynumber: 3.4 Consensus size: 72
113105 GGATAAAGTT
*
113115 GTCTAATA-CAACCTTAAAAAGGTTGGAAAAGACCTTATTTAAAGCAACCTTTTAAAAAAATT-A
1 GTCTAA-AGCAACCTTAAAAAGGTTGGAAAAGACCTTATCTAAAGCAACC-TTTAAAAAAATTGA
113178 GTATAAACCA
64 G-ATAAACCA
* * * * *
113188 GTGTAAAGCAACCTTTTAAAAAAGTT-GAAATAGACCTTGTCTAAAACAACCTTTAAAAAGAGTT
1 GTCTAAAGCAACC--TTAAAAAGGTTGGAAA-AGACCTTATCTAAAGCAACCTTTAAAAA-AATT
*
113252 GAGATAGACCA
62 GAGATAAACCA
* * * * *
113263 ATCTAAAGCAACCTTAAAATGGTTGGGATAGACCTAATCT-AAGACAACCTTTAAAAAAAGTTGA
1 GTCTAAAGCAACCTTAAAAAGGTTGGAAAAGACCTTATCTAAAG-CAACCTTTAAAAAAA-TTGA
113327 GATAAA-CA
64 GATAAACCA
*
113335 TGTCTAAAACAACCTTAAAAAGGTTGGAA
1 -GTCTAAAGCAACCTTAAAAAGGTTGGAA
113364 TAAACCCGTG
Statistics
Matches: 144, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
72 6 0.04
73 74 0.51
74 14 0.10
75 48 0.33
76 2 0.01
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.25
Consensus pattern (72 bp):
GTCTAAAGCAACCTTAAAAAGGTTGGAAAAGACCTTATCTAAAGCAACCTTTAAAAAAATTGAGA
TAAACCA
Found at i:116926 original size:29 final size:29
Alignment explanation
Indices: 116881--116936 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
116871 AAAATTTTGG
116881 GATTATGAGTTATGAGTTTGAGGTTTAGT
1 GATTATGAGTTATGAGTTTGAGGTTTAGT
*
116910 GATTAT-AGTTTTAGAGTTTGAGGTTTA
1 GATTATGAGTTAT-GAGTTTGAGGTTTA
116937 AGAATATCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (29 bp):
GATTATGAGTTATGAGTTTGAGGTTTAGT
Found at i:116950 original size:29 final size:29
Alignment explanation
Indices: 116894--116950 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
116884 TATGAGTTAT
* * *
116894 GAGTTTGAGGTTTAGTGATTATAGTTTTA
1 GAGTTTGAGGTTTAGAGAATATACTTTTA
116923 GAGTTTGAGGTTTA-AGAATATCACTTTT
1 GAGTTTGAGGTTTAGAGAATAT-ACTTTT
116951 TTATTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.26, C:0.04, G:0.25, T:0.46
Consensus pattern (29 bp):
GAGTTTGAGGTTTAGAGAATATACTTTTA
Found at i:117436 original size:401 final size:400
Alignment explanation
Indices: 116557--117549 Score: 1267
Period size: 401 Copynumber: 2.5 Consensus size: 400
116547 TTGTACAATA
* ** *
116557 TTTATTTAAACATAAAATTAAACTAAATTATCACACATG--A-TATAGAT-AAAAAAA-TTATTT
1 TTTATTTAATCATAAAATTAAGTTAGATTATCACACATGATATTATAGATGAAAAAAATTTATTT
* * *
116617 A-T-AAAAAATTGTTGGTTGCTTAGTTTATTTTTAATTTTTTATTTAAA-GTTTCATATAAAAAT
66 ATTAAAAAAATTGTTGGTTGCTCAGTTTATTTTTAATTTTTTATTTAAATATTTTATATAAAAAT
*
116679 ATTGTAATAATATTTATTATCATTAAAAAACTTCTAAGGTTTGTTT-AATTAAATAATGA-TTTT
131 ATTGTAATAATATTTATTATCATTAAAAAACTTCTAA-GTTTTTTTCAATTAAATAAT-ACTTTT
* * * *
116742 ATTTTACGTAATTAATATGAACATTAAATTTTAAACCTTAAACCTCGAATCTCAAAGTTTAAGAT
194 ATTTCACATAATT-ATATGAACACTAAATTTTAAACCTTAAACCTCGAACCTCAAAGTTTAAGAT
** *
116807 TTGCGATCAAGATATAAAGTTCAGGGTTTTAGGTCTAAGATTTAAAGTTCATGTCTAGGGTTTAA
258 TTGCGATCAAGATATAAAGTTCAAAGTTTGAGGTCTAAGATTTAAAGTTCATGTCTAGGGTTTAA
* * * * * *
116872 AAATTTTGGGATTATGAGTTATGAGTTTGAGGTTTAGTGATTATAGTTTTAGAGTTTGAGGTTTA
323 AAATTTTGGGATTATAAATTATAAGTTTGAGGTTTAATGATTATAGTTTTAAAGTTTGAGGGTTA
116937 AGAATATCACTTT
388 AGAATATCACTTT
*
116950 TTTATTTAAAT-ATAAAATTAAGTTAGATTATCACACATGATATTATAGATGAAAGGAAATTTTA
1 TTTATTT-AATCATAAAATTAAGTTAGATTATCACACATGATATTATAGATGAAA--AAAATTTA
*
117014 TTTATTAAAAAAA-TATTGGTTGCTCAGTTTATTTTTAATTTTTTATTTAAATATTTTATAT-AA
63 TTTATTAAAAAAATTGTTGGTTGCTCAGTTTATTTTTAATTTTTTATTTAAATATTTTATATAAA
117077 AATATTGTAATAATATTTATTATCATTAAAAAACTT-TAAGTTTTTTTTTCAATTAAATAATACT
128 AATATTGTAATAATATTTATTATCATTAAAAAACTTCTAAG--TTTTTTTCAATTAAATAATAC-
* ** * * *
117141 TTTTATTTCACATAA-T-TATGAACCCTAAATTTTAAATTTTAAATCTCGAACCTTAAGGTTTAA
190 TTTTATTTCACATAATTATATGAACACTAAATTTTAAACCTTAAACCTCGAACCTCAAAGTTTAA
* * * *
117204 CG-TTTGGGATCGAGATAT-AAGATTCAAAGTTTGAGGT-TCAAGATTTAATGTTCATGTTTAGG
255 -GATTTGCGATCAAGATATAAAG-TTCAAAGTTTGAGGTCT-AAGATTTAAAGTTCATGTCTAGG
117266 GTTTAAAAATTTTGGG-TTATAAATTATAAGTTTGAGGTTTAATG-TCTAT-GATTTTAAAGTTT
317 GTTTAAAAATTTTGGGATTATAAATTATAAGTTTGAGGTTTAATGAT-TATAG-TTTTAAAGTTT
* * **
117328 GGGGGTTAAGGATATCGTTTT
380 GAGGGTTAAGAATATCACTTT
*
117349 TTTATTTAATCCTAAAATTAAGTTAGATTATCACACATGATATTATAGATTAGAAAAAAATTGTA
1 TTTATTTAATCATAAAATTAAGTTAGATTATCACACATGATATTATAGA-T-GAAAAAAATT-TA
*
117414 TTTATTAAAAAAATTGTTGGTTGCTCAGATTATTTTTAATTTTTTATTTAAATATTTTATATAAA
63 TTTATTAAAAAAATTGTTGGTTGCTCAGTTTATTTTTAATTTTTTATTTAAATATTTTATATAAA
* * * *
117479 AATATCGTAATAATATTTATTATCATTAAACAA-TTCTAAAGTTTTTTTCAATCAAATAATGCGT
128 AATATTGTAATAATATTTATTATCATTAAAAAACTTCT-AAGTTTTTTTCAATTAAATAATAC-T
117543 TTTATTT
191 TTTATTT
117550 AAAGTAGTTA
Statistics
Matches: 525, Mismatches: 46, Indels: 50
0.85 0.07 0.08
Matches are distributed among these distances:
393 32 0.06
394 2 0.00
395 1 0.00
396 7 0.01
397 3 0.01
398 5 0.01
399 110 0.21
400 128 0.24
401 162 0.31
402 59 0.11
403 16 0.03
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (400 bp):
TTTATTTAATCATAAAATTAAGTTAGATTATCACACATGATATTATAGATGAAAAAAATTTATTT
ATTAAAAAAATTGTTGGTTGCTCAGTTTATTTTTAATTTTTTATTTAAATATTTTATATAAAAAT
ATTGTAATAATATTTATTATCATTAAAAAACTTCTAAGTTTTTTTCAATTAAATAATACTTTTAT
TTCACATAATTATATGAACACTAAATTTTAAACCTTAAACCTCGAACCTCAAAGTTTAAGATTTG
CGATCAAGATATAAAGTTCAAAGTTTGAGGTCTAAGATTTAAAGTTCATGTCTAGGGTTTAAAAA
TTTTGGGATTATAAATTATAAGTTTGAGGTTTAATGATTATAGTTTTAAAGTTTGAGGGTTAAGA
ATATCACTTT
Found at i:118224 original size:38 final size:38
Alignment explanation
Indices: 118148--118666 Score: 399
Period size: 36 Copynumber: 14.2 Consensus size: 38
118138 TTTATTAAAG
*
118148 GGTTGGGAT-AGA-CTTGTCTAAAGCAA-CTTTAAAAA
1 GGTTGGGATAAGACCTTGTCTAAGGCAACCTTTAAAAA
* **
118183 GGTTGGGGTAAG-CCTTGTCTAAGATAACCTTTAAAAAA
1 GGTTGGGATAAGACCTTGTCTAAGGCAACCTTT-AAAAA
118221 GGTTGGGATAA-ACCTAT-T-TAAGGCAACCTTTAAAAAA
1 GGTTGGGATAAGACCT-TGTCTAAGGCAACCTTT-AAAAA
* * *
118258 GATTGGGA-CAGACCTTGTCTAAAGCAACC-TTAAAAA
1 GGTTGGGATAAGACCTTGTCTAAGGCAACCTTTAAAAA
* * ***
118294 GGTTGGAAT-AGACCTTGTTTAAAATAACC-TTAAAAA
1 GGTTGGGATAAGACCTTGTCTAAGGCAACCTTTAAAAA
* * *
118330 GGTT-GGACTACG-CATTGTCTAAGGCAACATTTAAAAAA
1 GGTTGGGA-TAAGACCTTGTCTAAGGCAACCTTT-AAAAA
* * *
118368 GGTTGGGAT-AGACC-CGTTTAAGGCAA-TTTTAAAAA
1 GGTTGGGATAAGACCTTGTCTAAGGCAACCTTTAAAAA
* * * * *
118403 AGTTGGGATAA-ATCATGTCTAAGACAATC-TTAAAAA
1 GGTTGGGATAAGACCTTGTCTAAGGCAACCTTTAAAAA
* * * * *
118439 TGTTAGGAT-AGACCTTGTTTGAGGTAACCTTTAAAAAA
1 GGTTGGGATAAGACCTTGTCTAAGGCAACCTTT-AAAAA
** * * *
118477 AATTGAGAT-AGACCTTGTTTAAGGTAACCTTTAAAAAA
1 GGTTGGGATAAGACCTTGTCTAAGGCAACCTTT-AAAAA
* *
118515 AGTTGGGATAA-ACCTTGTCTAAGGCGACC-TTAAAAA
1 GGTTGGGATAAGACCTTGTCTAAGGCAACCTTTAAAAA
* * *
118551 TGTTGGGATAA-ATCTTATCTAAGGCAACCTTTTAAAAA
1 GGTTGGGATAAGACCTTGTCTAAGGCAACC-TTTAAAAA
* *
118589 AGTTGGGAT-AGACCTTGTCTAAGACAACC-TTAAAAA
1 GGTTGGGATAAGACCTTGTCTAAGGCAACCTTTAAAAA
* *
118625 GGTTAGGAT-AGACCTTTTCTAAGGCAACC-TTAAAAA
1 GGTTGGGATAAGACCTTGTCTAAGGCAACCTTTAAAAA
118661 GGTTGG
1 GGTTGG
118667 CATAGTGTTA
Statistics
Matches: 392, Mismatches: 66, Indels: 51
0.77 0.13 0.10
Matches are distributed among these distances:
35 26 0.07
36 178 0.45
37 54 0.14
38 129 0.33
39 5 0.01
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (38 bp):
GGTTGGGATAAGACCTTGTCTAAGGCAACCTTTAAAAA
Found at i:118252 original size:74 final size:74
Alignment explanation
Indices: 118148--118671 Score: 405
Period size: 74 Copynumber: 7.1 Consensus size: 74
118138 TTTATTAAAG
* * * * **
118148 GGTTGGGATAGACTTGTCTAAAGCAA-CTTTAAAAAGGTTGGGGTAAGCCTTGTCTAAGATAACC
1 GGTTGGGATAGACCTGTTTAAGGCAACCTTTAAAAAGGTTGGGATAAGCCTTGTCTAAGGCAACC
118212 TTTAAAAAA
66 TTTAAAAAA
* * * * *
118221 GGTTGGGATAAACCTATTTAAGGCAACCTTTAAAAAAGATTGGGA-CAGACCTTGTCTAAAGCAA
1 GGTTGGGATAGACCTGTTTAAGGCAACCTTT-AAAAAGGTTGGGATAAG-CCTTGTCTAAGGCAA
118285 CC-TT-AAAAA
64 CCTTTAAAAAA
* *** * *
118294 GGTTGGAATAGACCTTGTTTAAAATAACC-TTAAAAAGGTT-GGACTACGCATTGTCTAAGGCAA
1 GGTTGGGATAGACC-TGTTTAAGGCAACCTTTAAAAAGGTTGGGA-TAAGCCTTGTCTAAGGCAA
*
118357 CATTTAAAAAA
64 CCTTTAAAAAA
* * * ** * * *
118368 GGTTGGGATAGACCCGTTTAAGGCAA-TTTTAAAAAAGTTGGGATAAATCATGTCTAAGACAATC
1 GGTTGGGATAGACCTGTTTAAGGCAACCTTTAAAAAGGTTGGGATAAGCCTTGTCTAAGGCAACC
118432 -TT-AAAAA
66 TTTAAAAAA
* * * * ** * * *
118439 TGTTAGGATAGACCTTGTTTGAGGTAACCTTTAAAAAAAATTGAGAT-AGACCTTGTTTAAGGTA
1 GGTTGGGATAGACC-TGTTTAAGGCAACCTTT-AAAAAGGTTGGGATAAG-CCTTGTCTAAGGCA
118503 ACCTTTAAAAAA
63 ACCTTTAAAAAA
* * * * * ** *
118515 AGTTGGGATAAACCTTGTCTAAGGCGACC-TTAAAAATGTTGGGATAAATCTTATCTAAGGCAAC
1 GGTTGGGATAGACC-TGTTTAAGGCAACCTTTAAAAAGGTTGGGATAAGCCTTGTCTAAGGCAAC
118579 CTTTTAAAAAA
65 C-TTTAAAAAA
* * * *
118590 -GTTGGGATAGACCTTGTCTAAGACAACC-TTAAAAAGGTTAGGAT-AGACCTTTTCTAAGGCAA
1 GGTTGGGATAGACC-TGTTTAAGGCAACCTTTAAAAAGGTTGGGATAAG-CCTTGTCTAAGGCAA
118652 CC-TT-AAAAA
64 CCTTTAAAAAA
*
118661 GGTTGGCATAG
1 GGTTGGGATAG
118672 TGTTAGACAA
Statistics
Matches: 354, Mismatches: 77, Indels: 41
0.75 0.16 0.09
Matches are distributed among these distances:
71 25 0.07
72 44 0.12
73 79 0.22
74 140 0.40
75 39 0.11
76 27 0.08
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (74 bp):
GGTTGGGATAGACCTGTTTAAGGCAACCTTTAAAAAGGTTGGGATAAGCCTTGTCTAAGGCAACC
TTTAAAAAA
Found at i:118952 original size:141 final size:139
Alignment explanation
Indices: 118657--119086 Score: 610
Period size: 140 Copynumber: 3.1 Consensus size: 139
118647 GGCAACCTTA
* * *
118657 AAAAG-GTTGGCATAGTGTTAGACAAAGCCAACTCTTATTTAAGTGTTGCCTTAGGCATGCATAT
1 AAAAGTGTCGGCATAGTGTTGGACAAAG-CAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
* *
118721 CCCAACCCTTATACAAAGTGTTGGCCAAAGCATATGCCAACAAGTCTATCCCAACACTTAGGAAA
65 CCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTCAACAAGTCTATCCCAACACTTAGGAAA
* *
118786 GTGTCGGCGC
130 GTGTCGCCCC
* * * * *
118796 AAAAGTGTCGCCATAGTGTTGGACAAAGTCGACTCTTATTTTAGCATTGCCTTAGGCGTGCATAT
1 AAAAGTGTCGGCATAGTGTTGGACAAAG-CAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
* * * *
118861 CTCAACCCTTATACAAAAGAGTTGGCAAAAGCGTATGTCAACAAGTTTATCCCAACACTTAGGAA
65 CCCAACCCTTATAC-AAAGAGTTGGCCAAAGCATATGTCAACAAGTCTATCCCAACACTTAGGAA
*
118926 AGTGTCGTCCC
129 AGTGTCGCCCC
*
118937 AAAAGTGTCGGCATAGTGTTGGACAAAAGCAACTCTTATTTAAGCGTTGTCTTAGGCATGCATAT
1 AAAAGTGTCGGCATAGTGTTGGAC-AAAGCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
* * *
119002 CCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTTATCAAGTCTATCCCAACACTTAGAAAA
65 CCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTCAACAAGTCTATCCCAACACTTAGGAAA
*
119067 GTGTTGCCCC
130 GTGTCGCCCC
*
119077 AGAAGTGTCG
1 AAAAGTGTCG
119087 TCTTAGAACT
Statistics
Matches: 255, Mismatches: 33, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
139 5 0.02
140 125 0.49
141 121 0.47
142 4 0.02
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (139 bp):
AAAAGTGTCGGCATAGTGTTGGACAAAGCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
CCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTCAACAAGTCTATCCCAACACTTAGGAAAG
TGTCGCCCC
Found at i:120051 original size:96 final size:96
Alignment explanation
Indices: 119874--120058 Score: 250
Period size: 96 Copynumber: 1.9 Consensus size: 96
119864 GAAAATGATG
* * *
119874 TTCGATTATCTCGATTTGATGAAAGATTGCACCTGGTAAGTTAAGGCGCAAATTTTCAGAATCGA
1 TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCGA
* *
119939 AGATAAGGAAACATTGCCTCGATTAAGGGTA
66 AAATAAAGAAACATTGCCTCGATTAAGGGTA
* *
119970 TTCGATTATTTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCATATTTTC-GAAACTC
1 TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAG-AA-TC
*
120034 -AAAATAAA-AGAATATTGCCTCGATT
64 GAAAATAAAGA-AACATTGCCTCGATT
120059 TTAAAGTTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
95 2 0.03
96 74 0.95
97 2 0.03
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (96 bp):
TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCGA
AAATAAAGAAACATTGCCTCGATTAAGGGTA
Found at i:120331 original size:30 final size:29
Alignment explanation
Indices: 120295--120526 Score: 149
Period size: 30 Copynumber: 7.9 Consensus size: 29
120285 GGATACTCGA
**
120295 GGGTAAAATGGTAATTTTTAAAAGTTTTAG
1 GGGTAAAATGG-AATTTTTGGAAGTTTTAG
120325 GGGTAAAATTGCG-ATTTTTGGAAGTTTT-G
1 GGGTAAAA-TG-GAATTTTTGGAAGTTTTAG
*
120354 GGGATAAAATTGGGATTTTTGGAAG-TTTAG
1 GGG-TAAAA-TGGAATTTTTGGAAGTTTTAG
120384 GGGTAAAAT-GAGATTTTTGGAAGTTTTAG
1 GGGTAAAATGGA-ATTTTTGGAAGTTTTAG
* * *
120413 GGTTAAAAAT-TAGATCTTTT-GAAG-TTTGG
1 GGGT-AAAATGGA-AT-TTTTGGAAGTTTTAG
* * *
120442 GGGTAAAAATGGGATTTTTAGAAG-TTTCG
1 GGGT-AAAATGGAATTTTTGGAAGTTTTAG
* * * *
120471 AGGTCAAAAATGGGATTTTTAGAAGTTTGA-
1 GGGT--AAAATGGAATTTTTGGAAGTTTTAG
* *
120501 GGGTAAAAATGGGATTTTTAGAAGTT
1 GGGT-AAAATGGAATTTTTGGAAGTT
120527 CCAAGGTCAA
Statistics
Matches: 175, Mismatches: 14, Indels: 27
0.81 0.06 0.12
Matches are distributed among these distances:
27 1 0.01
28 16 0.09
29 69 0.39
30 80 0.46
31 8 0.05
32 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.29, T:0.38
Consensus pattern (29 bp):
GGGTAAAATGGAATTTTTGGAAGTTTTAG
Found at i:120534 original size:59 final size:59
Alignment explanation
Indices: 120308--120587 Score: 244
Period size: 59 Copynumber: 4.7 Consensus size: 59
120298 TAAAATGGTA
* * * * * *** * *
120308 ATTTTTAAAAGTTTTAGGGGTAAAATTGCGATTTTTGGAAGTTTTGGGGAT-AAAATTGGG
1 ATTTTTAGAAGTTTGA-GGGTAAAAATGGGATTTTTAGAAGTTTCAAGG-TCAAAAATGAG
* * * * * * *
120368 ATTTTTGGAAGTTT-AGGGGT-AAAATGAGATTTTTGGAAGTTTTAGGGTTAAAAATTAG
1 ATTTTTAGAAGTTTGA-GGGTAAAAATGGGATTTTTAGAAGTTTCAAGGTCAAAAATGAG
* * *
120426 ATCTTTT-GAAGTTTGGGGGTAAAAATGGGATTTTTAGAAGTTTCGAGGTCAAAAATGGG
1 AT-TTTTAGAAGTTTGAGGGTAAAAATGGGATTTTTAGAAGTTTCAAGGTCAAAAATGAG
*
120485 ATTTTTAGAAGTTTGAGGGTAAAAATGGGATTTTTAGAAGTTCCAAGGTCAAAAATGAG
1 ATTTTTAGAAGTTTGAGGGTAAAAATGGGATTTTTAGAAGTTTCAAGGTCAAAAATGAG
* * * * * *
120544 ATTTTCAAAAGTTCGGGGGTAAACATGGGATTTTTGGACAGTTT
1 ATTTTTAGAAGTTTGAGGGTAAAAATGGGATTTTTAGA-AGTTT
120588 AGGGACCTCC
Statistics
Matches: 186, Mismatches: 28, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
57 1 0.01
58 47 0.25
59 122 0.66
60 16 0.09
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.36
Consensus pattern (59 bp):
ATTTTTAGAAGTTTGAGGGTAAAAATGGGATTTTTAGAAGTTTCAAGGTCAAAAATGAG
Found at i:120576 original size:29 final size:29
Alignment explanation
Indices: 120324--120578 Score: 192
Period size: 30 Copynumber: 8.7 Consensus size: 29
120314 AAAAGTTTTA
* * * *
120324 GGGGTAAAATTGCGATTTTTGGAAGTTTTG
1 GGGGTAAAAATGGGATTTTTAGAAG-TTCG
* * * **
120354 GGGATAAAATTGGGATTTTTGGAAGTTTA
1 GGGGTAAAAATGGGATTTTTAGAAGTTCG
* * **
120383 GGGGT-AAAATGAGATTTTTGGAAGTTTTA
1 GGGGTAAAAATGGGATTTTTAGAAG-TTCG
* ** *
120412 GGGTTAAAAATTAGATCTTTT-GAAGTTTG
1 GGGGTAAAAATGGGAT-TTTTAGAAGTTCG
120441 GGGGTAAAAATGGGATTTTTAGAAGTTTC-
1 GGGGTAAAAATGGGATTTTTAGAAG-TTCG
* *
120470 GAGGTCAAAAATGGGATTTTTAGAAGTTTG
1 GGGGT-AAAAATGGGATTTTTAGAAGTTCG
* *
120500 AGGGTAAAAATGGGATTTTTAGAAGTTCC
1 GGGGTAAAAATGGGATTTTTAGAAGTTCG
** * * *
120529 AAGGTCAAAAATGAGATTTTCAAAAGTTCG
1 GGGGT-AAAAATGGGATTTTTAGAAGTTCG
*
120559 GGGGTAAACATGGGATTTTT
1 GGGGTAAAAATGGGATTTTT
120579 GGACAGTTTA
Statistics
Matches: 188, Mismatches: 29, Indels: 17
0.80 0.12 0.07
Matches are distributed among these distances:
28 21 0.11
29 79 0.42
30 84 0.45
31 4 0.02
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.35
Consensus pattern (29 bp):
GGGGTAAAAATGGGATTTTTAGAAGTTCG
Found at i:128972 original size:4 final size:4
Alignment explanation
Indices: 128965--128991 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
128955 TAGACCTGAA
128965 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
128992 TATCAATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:136052 original size:2 final size:2
Alignment explanation
Indices: 136045--136069 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
136035 ATACACAATT
136045 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
136070 TCATGGGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:136659 original size:59 final size:58
Alignment explanation
Indices: 136596--136771 Score: 146
Period size: 59 Copynumber: 3.0 Consensus size: 58
136586 GTGTTGGCCA
136596 TCATTGGCCGACACCAGTATTTTTTTGTTAGATAAAAAATTCAATTTTTTTGGTGTTGG
1 TCATTGGCCGACACCA-TATTTTTTTGTTAGATAAAAAATTCAATTTTTTTGGTGTTGG
* * * * * *
136655 TCATTGCATGACCGACACC-T-CTTTTTTATCAGGTAAAAAATT-ATTTTTTTTGGTATTGG
1 TCATTG---G-CCGACACCATATTTTTTTGTTAGATAAAAAATTCAATTTTTTTGGTGTTGG
* * * *
136714 CCATT-GCATGAC-CGATACTCCCTTTTTGTTAGATAAAAAATTCAATTTTTTTGGTGTT
1 TCATTGGC-CGACACCATA-T--TTTTTTGTTAGATAAAAAATTCAATTTTTTTGGTGTT
136772 TGCCATTGCA
Statistics
Matches: 90, Mismatches: 16, Indels: 21
0.71 0.13 0.17
Matches are distributed among these distances:
54 2 0.02
55 5 0.06
59 42 0.47
60 31 0.34
61 1 0.01
62 1 0.01
63 8 0.09
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.44
Consensus pattern (58 bp):
TCATTGGCCGACACCATATTTTTTTGTTAGATAAAAAATTCAATTTTTTTGGTGTTGG
Found at i:136739 original size:60 final size:60
Alignment explanation
Indices: 136616--136874 Score: 303
Period size: 60 Copynumber: 4.3 Consensus size: 60
136606 ACACCAGTAT
* * * *
136616 TTTTTTGTTAGATAAAAAATTCAATTTTTTTGGTGTTGGTCATTGCATGACCGACACCTC
1 TTTTTTATCAGATAAAAAATTCAATTTTTTTGGTGTTGGCCATTGCATGACCGACACCCC
* * * *
136676 TTTTTTATCAGGTAAAAAATT-ATTTTTTTTGGTATTGGCCATTGCATGACCGATACTCCC
1 TTTTTTATCAGATAAAAAATTCAATTTTTTTGGTGTTGGCCATTGCATGACCGACAC-CCC
* **
136736 TTTTTGT-T-AGATAAAAAATTCAATTTTTTTGGTGTTTGCCATTGCATGGTCGACACTCCC
1 TTTTT-TATCAGATAAAAAATTCAATTTTTTTGGTGTTGGCCATTGCATGACCGACAC-CCC
** * *
136796 TTTTTTATTTGGTAAAAAA-TCAATTTTTTT-GTGTTGGTCATTGCATGACCGACACCCC
1 TTTTTTATCAGATAAAAAATTCAATTTTTTTGGTGTTGGCCATTGCATGACCGACACCCC
* *
136854 CTTTTTGTCAGATAAAAAATT
1 TTTTTTATCAGATAAAAAATT
136875 TAACTGATAA
Statistics
Matches: 167, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
58 17 0.10
59 65 0.39
60 76 0.46
61 9 0.05
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.43
Consensus pattern (60 bp):
TTTTTTATCAGATAAAAAATTCAATTTTTTTGGTGTTGGCCATTGCATGACCGACACCCC
Found at i:136740 original size:119 final size:119
Alignment explanation
Indices: 136617--136874 Score: 374
Period size: 119 Copynumber: 2.2 Consensus size: 119
136607 CACCAGTATT
* *
136617 TTTTTGTTAGATAAAAAATTCAATTTTTTTGGTGTTGGTCATTGCATGACCGACAC-CTCTTTTT
1 TTTTTGTTAGATAAAAAATTCAATTTTTTTGGTGTTGGCCATTGCATGACCGACACTCCCTTTTT
* * * *
136681 TATCAGGTAAAAAATTATTTTTTTTGGTATTGGCCATTGCATGACCGATACTCCC
66 TATCAGGTAAAAAATCAATTTTTTT-GTATTGGCCATTGCATGACCGACACCCCC
* **
136736 TTTTTGTTAGATAAAAAATTCAATTTTTTTGGTGTTTGCCATTGCATGGTCGACACTCCCTTTTT
1 TTTTTGTTAGATAAAAAATTCAATTTTTTTGGTGTTGGCCATTGCATGACCGACACTCCCTTTTT
** * *
136801 TATTTGGTAAAAAATCAATTTTTTTGTGTTGGTCATTGCATGACCGACACCCCC
66 TATCAGGTAAAAAATCAATTTTTTTGTATTGGCCATTGCATGACCGACACCCCC
*
136855 TTTTTGTCAGATAAAAAATT
1 TTTTTGTTAGATAAAAAATT
136875 TAACTGATAA
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
119 96 0.77
120 28 0.23
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.43
Consensus pattern (119 bp):
TTTTTGTTAGATAAAAAATTCAATTTTTTTGGTGTTGGCCATTGCATGACCGACACTCCCTTTTT
TATCAGGTAAAAAATCAATTTTTTTGTATTGGCCATTGCATGACCGACACCCCC
Found at i:136856 original size:59 final size:61
Alignment explanation
Indices: 136616--136859 Score: 300
Period size: 59 Copynumber: 4.1 Consensus size: 61
136606 ACACCAGTAT
* * * *
136616 TTTTTTGTTAGATAAAAAATTCAATTTTTTTGGTGTTGGTCATTGCATGACCGACA-CCTC
1 TTTTTTATTAGGTAAAAAATTCAATTTTTTTGGTGTTGGCCATTGCATGACCGACACCCCC
* * * * *
136676 TTTTTTATCAGGTAAAAAATT-ATTTTTTTTGGTATTGGCCATTGCATGACCGATACTCCC
1 TTTTTTATTAGGTAAAAAATTCAATTTTTTTGGTGTTGGCCATTGCATGACCGACACCCCC
* * * ** *
136736 -TTTTTGTTAGATAAAAAATTCAATTTTTTTGGTGTTTGCCATTGCATGGTCGACACTCCC
1 TTTTTTATTAGGTAAAAAATTCAATTTTTTTGGTGTTGGCCATTGCATGACCGACACCCCC
* *
136796 TTTTTTATTTGGTAAAAAA-TCAATTTTTTT-GTGTTGGTCATTGCATGACCGACACCCCC
1 TTTTTTATTAGGTAAAAAATTCAATTTTTTTGGTGTTGGCCATTGCATGACCGACACCCCC
136855 TTTTT
1 TTTTT
136860 GTCAGATAAA
Statistics
Matches: 155, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
59 76 0.49
60 64 0.41
61 15 0.10
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (61 bp):
TTTTTTATTAGGTAAAAAATTCAATTTTTTTGGTGTTGGCCATTGCATGACCGACACCCCC
Found at i:140814 original size:17 final size:16
Alignment explanation
Indices: 140792--140826 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
140782 ATTTGCGTAA
*
140792 AAATTAATTTGAAAATT
1 AAATTAAGTTG-AAATT
140809 AAATTAAGTTGAAATT
1 AAATTAAGTTGAAATT
140825 AA
1 AA
140827 TTTGAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (16 bp):
AAATTAAGTTGAAATT
Found at i:141202 original size:93 final size:91
Alignment explanation
Indices: 140946--141275 Score: 500
Period size: 93 Copynumber: 3.5 Consensus size: 91
140936 TAAAATTATA
*
140946 TTAAAGTTATTTAAATAAAAAACTATTATTATATTACAATTTTTATCAAATAATTTGTGTATATT
1 TTAAATTTATTTAAAT-AAAAACTATTATTATATTACAATTTTTATCAAATAA--TGTGT-TATT
* *
141011 TGACAATAGATTATTTATCAAATTTAAAAT
62 TGACAATACATTATTTATCAAATTTAAATT
*
141041 TTAAATTTATTTAAATAAAAACTATTATTATATTACAAATTTTATCAAATAATGTGTTAATTTGA
1 TTAAATTTATTTAAATAAAAACTATTATTATATTACAATTTTTATCAAATAATGTGTT-ATTTGA
*
141106 CAATACATTATTTATCAATTTTAAATT
65 CAATACATTATTTATCAAATTTAAATT
*
141133 TTAAATTTATTTAAATAAAGACCTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTG
1 TTAAATTTATTTAAATAAA-AACTATTATTATATTACAATTTTTATCAAATAATGTGTT-ATTTG
141198 ACAATACATTATTTATCAAATTTAAATT
64 ACAATACATTATTTATCAAATTTAAATT
* * *
141226 TTAAATTTATTTTAA-AAAAACTATTATTATTTTACATTTTTTTATCAAAT
1 TTAAATTTATTTAAATAAAAACTATTATTATATTACA-ATTTTTATCAAAT
141276 TTTATATTTA
Statistics
Matches: 219, Mismatches: 13, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
91 17 0.08
92 69 0.32
93 83 0.38
94 35 0.16
95 15 0.07
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.47
Consensus pattern (91 bp):
TTAAATTTATTTAAATAAAAACTATTATTATATTACAATTTTTATCAAATAATGTGTTATTTGAC
AATACATTATTTATCAAATTTAAATT
Found at i:142133 original size:23 final size:23
Alignment explanation
Indices: 142052--142202 Score: 112
Period size: 23 Copynumber: 6.5 Consensus size: 23
142042 ATATACGGAA
* * *
142052 TAAACAGAGAGTAC-CAAAGTAC
1 TAAACAGAGAGCACACACAGTGC
*
142074 T-AACAGAGAGCACATA-AGTGC
1 TAAACAGAGAGCACACACAGTGC
* * *
142095 TGGGCAATAGAGAGCAGACACAGTGC
1 T---AAACAGAGAGCACACACAGTGC
*
142121 TAAACAGAGAGCACACAAAGTGC
1 TAAACAGAGAGCACACACAGTGC
* *
142144 TAATCAAAGAGCACACACAGTGC
1 TAAACAGAGAGCACACACAGTGC
**
142167 TAATAACAGAGAGCACGTGAC-GTGC
1 T-A-AACAGAGAGCAC-ACACAGTGC
142192 TAAACAGAGAG
1 TAAACAGAGAG
142203 TGCGCTAGTG
Statistics
Matches: 103, Mismatches: 17, Indels: 17
0.75 0.12 0.12
Matches are distributed among these distances:
21 16 0.16
22 2 0.02
23 48 0.47
24 2 0.02
25 27 0.26
26 8 0.08
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.13
Consensus pattern (23 bp):
TAAACAGAGAGCACACACAGTGC
Found at i:142178 original size:71 final size:69
Alignment explanation
Indices: 142052--142202 Score: 162
Period size: 71 Copynumber: 2.2 Consensus size: 69
142042 ATATACGGAA
* * * ** *
142052 TAAACAGAGAGTACCAAAGTACTAACAGAGAGCACATAAGTGCTGGGCAATAGAGAGCA-GACAC
1 TAAACAGAGAGCACCAAAGTACTAACAAAGAGCACACAAGTGCTGAACAACAGAGAGCACGACAC
142116 AGTGC
66 -GTGC
* * *
142121 TAAACAGAGAGCACACAAAGTGCTAATCAAAGAGCACACACAGTGCT-AATAACAGAGAGCACGT
1 TAAACAGAGAGCAC-CAAAGTACTAA-CAAAGAGCACACA-AGTGCTGAACAACAGAGAGCACGA
*
142185 GACGTGC
63 CACGTGC
142192 TAAACAGAGAG
1 TAAACAGAGAG
142203 TGCGCTAGTG
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
69 13 0.19
70 10 0.15
71 36 0.53
72 9 0.13
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.13
Consensus pattern (69 bp):
TAAACAGAGAGCACCAAAGTACTAACAAAGAGCACACAAGTGCTGAACAACAGAGAGCACGACAC
GTGC
Found at i:145238 original size:170 final size:173
Alignment explanation
Indices: 145053--145411 Score: 521
Period size: 170 Copynumber: 2.1 Consensus size: 173
145043 TGTAAGATAT
* *
145053 ATTTTCGATTTTTTTATAATATTTTTTTCTATTTTTGAAATG-TTTTTTATAATTTCAAATTTTT
1 ATTTTCGAATTTTTTATAATA-TTTTTTCTATTTTCGAAATGTTTTTTTATAATTTCAAATTTTT
* * * * * *
145117 TAAAAATTAAAATATGATA-TTTTTACACATA-TTTTTTACATTTTCGAAATACAAAGAATATAT
65 AAAAAATAAAAATATGATATTTTTTACAAATATTTTTTTACATTTTCAAAATACAAAAAATACAT
145180 TTTC-GAA-ATATTTTTTACAAATAAAAAATCTAATATTTTTTAC
130 TTTCAGAATAT-TTTTTTACAAATAAAAAATCTAATATTTTTTAC
* *
145223 ATTTTCGAATTTTTTATAATATTTTTTCTATTTTCGAAATGTTTTTTTATATTTTCGAATTTTTA
1 ATTTTCGAATTTTTTATAATATTTTTTCTATTTTCGAAATGTTTTTTTATAATTTCAAATTTTTA
* *
145288 AAAAATAAAAATCTGATATTTTTTACAAATATTTTTTTTACATTTTCAAAATATAAAAAATACAT
66 AAAAATAAAAATATGATATTTTTTACAAATA-TTTTTTTACATTTTCAAAATACAAAAAATACAT
* *
145353 TTTCAGAATATTTTTTTACAAATAAAAAATCTGATTTTTTTTAC
130 TTTCAGAATATTTTTTTACAAATAAAAAATCTAATATTTTTTAC
*
145397 ACTTTCGAATTTTTT
1 ATTTTCGAATTTTTT
145412 TAACTAAAAT
Statistics
Matches: 168, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
169 19 0.11
170 56 0.33
171 11 0.07
173 32 0.19
174 48 0.29
175 2 0.01
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (173 bp):
ATTTTCGAATTTTTTATAATATTTTTTCTATTTTCGAAATGTTTTTTTATAATTTCAAATTTTTA
AAAAATAAAAATATGATATTTTTTACAAATATTTTTTTACATTTTCAAAATACAAAAAATACATT
TTCAGAATATTTTTTTACAAATAAAAAATCTAATATTTTTTAC
Found at i:145243 original size:29 final size:30
Alignment explanation
Indices: 145210--145277 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
145200 ATAAAAAATC
145210 TAATATTTTTTAC-ATTTTCG-AAT-TTTTT
1 TAATATTTTTT-CTATTTTCGAAATGTTTTT
145238 ATAATATTTTTTCTATTTTCGAAATGTTTTT
1 -TAATATTTTTTCTATTTTCGAAATGTTTTT
*
145269 TTATATTTT
1 TAATATTTT
145278 CGAATTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
28 1 0.03
29 18 0.51
30 11 0.31
31 5 0.14
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (30 bp):
TAATATTTTTTCTATTTTCGAAATGTTTTT
Done.