Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001590.1 Hibiscus syriacus cultivar Beakdansim tig00003170_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: 49942
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:1141 original size:22 final size:23
Alignment explanation
Indices: 1116--1160 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
1106 GTATATTTAT
*
1116 ACTATATAGTATAA-ACATATGC
1 ACTATATAATATAATACATATGC
*
1138 ACTATATAATATAATATATATGC
1 ACTATATAATATAATACATATGC
1161 GTTATACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
ACTATATAATATAATACATATGC
Found at i:1959 original size:83 final size:85
Alignment explanation
Indices: 1781--1960 Score: 256
Period size: 83 Copynumber: 2.1 Consensus size: 85
1771 TGCTGTCATC
* * * * *
1781 GAGCTGAATGAAATCGAACTTGAAGGTTTTTGTTGACAGATAACCCTTTTCGCCTTAAGCCATGC
1 GAGCTGAATGGAATCGAACTCGAAGGTTTTTATTGACAGATAACCCTCTTCGCCTCAAGCCATGC
1846 TGTAAATTTGATATGGCCTT
66 TGTAAATTTGATATGGCCTT
* * * * *
1866 GAGCTTAATGGAATCGAACTCGAAGGTTTTTATTGACAGAT-A-GCTCTTCTCCTCGAGCTATGC
1 GAGCTGAATGGAATCGAACTCGAAGGTTTTTATTGACAGATAACCCTCTTCGCCTCAAGCCATGC
1929 TGTAAATTTGATATGGCCTT
66 TGTAAATTTGATATGGCCTT
1949 GAGCTGAATGGA
1 GAGCTGAATGGA
1961 TTGTTGACAT
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
83 46 0.55
84 1 0.01
85 37 0.44
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (85 bp):
GAGCTGAATGGAATCGAACTCGAAGGTTTTTATTGACAGATAACCCTCTTCGCCTCAAGCCATGC
TGTAAATTTGATATGGCCTT
Found at i:2005 original size:68 final size:66
Alignment explanation
Indices: 1898--2026 Score: 195
Period size: 68 Copynumber: 1.9 Consensus size: 66
1888 AAGGTTTTTA
* *
1898 TTGACAGATAGCTCTTCTCCTCGAGCTATGCTGTAAATTTGATATGGCCTTGAGCTGAATGGATT
1 TTGACAGATAACTCTTCTCCTCGAGCTATGCTGTAAATTTGATATGCCCTTGAGCTGAATGGATT
1963 G
66 G
* * *
1964 TTGACATATAACTCTTCTCGCCTTGAGCTATGTTGTAAATTTGATATGCCCTTGAGCTGAATG
1 TTGACAGATAACTCTTCT--CCTCGAGCTATGCTGTAAATTTGATATGCCCTTGAGCTGAATG
2027 TAATCAAACT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 16 0.29
68 40 0.71
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (66 bp):
TTGACAGATAACTCTTCTCCTCGAGCTATGCTGTAAATTTGATATGCCCTTGAGCTGAATGGATT
G
Found at i:3390 original size:19 final size:21
Alignment explanation
Indices: 3347--3398 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
3337 GAAACCCCTT
3347 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGACTTTTAAA
3368 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGACTTTTAAA
*
3387 TGAAGATACATG
1 TGAAAATACATG
3399 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGACTTTTAAA
Found at i:6732 original size:11 final size:11
Alignment explanation
Indices: 6691--6715 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6681 TTTGAACTTC
6691 TCTTTTTCTTT
1 TCTTTTTCTTT
6702 TCTTTTTCTTT
1 TCTTTTTCTTT
6713 TCT
1 TCT
6716 GATTTTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TCTTTTTCTTT
Found at i:7500 original size:19 final size:21
Alignment explanation
Indices: 7457--7508 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
7447 GAAACCCCTT
7457 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGACTTTTAAA
7478 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGACTTTTAAA
*
7497 TGAAGATACATG
1 TGAAAATACATG
7509 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGACTTTTAAA
Found at i:9773 original size:98 final size:99
Alignment explanation
Indices: 9604--9797 Score: 327
Period size: 98 Copynumber: 2.0 Consensus size: 99
9594 ACAACTCAAT
* * *
9604 ATTATAATTACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTCGGGGCGTTTAACCAATTGC
1 ATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGAGTTTAACCAATTGC
* *
9669 TTTAGAGGGACAGCTAAAGC-TTATTGTATATAC
66 TCTAGAGGGACAACTAAAGCTTTATTGTATATAC
9702 ATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGAGTTTAACCAATTGC
1 ATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGAGTTTAACCAATTGC
*
9767 TCTAGAGGGACAACTTAAGCTTTATTGTATA
66 TCTAGAGGGACAACTAAAGCTTTATTGTATA
9798 CATTTAATAT
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 79 0.89
99 10 0.11
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (99 bp):
ATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGAGTTTAACCAATTGC
TCTAGAGGGACAACTAAAGCTTTATTGTATATAC
Found at i:12595 original size:19 final size:19
Alignment explanation
Indices: 12571--12607 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12561 TGTAAATGAT
*
12571 AAAAATAAAATGAAAGAGA
1 AAAAATAAAAGGAAAGAGA
12590 AAAAATAAAAGGAAAGAG
1 AAAAATAAAAGGAAAGAG
12608 TTAGTGAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (19 bp):
AAAAATAAAAGGAAAGAGA
Found at i:15068 original size:6 final size:5
Alignment explanation
Indices: 15041--15110 Score: 58
Period size: 5 Copynumber: 13.8 Consensus size: 5
15031 GATAAGATGC
15041 ATAAA AT-AA ATAAGA AT-AA ATAAGA ATAAGA ATAAGA AT-AA A-AAA
1 ATAAA ATAAA ATAA-A ATAAA ATAA-A ATAA-A ATAA-A ATAAA ATAAA
*
15086 CTAAAA ATAAA ATAAA ATAAA ATAA
1 AT-AAA ATAAA ATAAA ATAAA ATAA
15111 TGGAATTAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
4 11 0.20
5 23 0.41
6 22 0.39
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:15295 original size:24 final size:23
Alignment explanation
Indices: 15255--15307 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
15245 AGGACTAAAT
*
15255 TAAAA-TAAAAATAAAATAGAGGG
1 TAAAATTAAAAAGAAAATAG-GGG
* *
15278 TAAAATTAAAAAGGAAATCGGGG
1 TAAAATTAAAAAGAAAATAGGGG
15301 TAAAATT
1 TAAAATT
15308 GAATTAAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.58, C:0.02, G:0.19, T:0.21
Consensus pattern (23 bp):
TAAAATTAAAAAGAAAATAGGGG
Found at i:22513 original size:26 final size:26
Alignment explanation
Indices: 22470--22521 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
22460 TTTCGGTTCG
22470 TTTATGTTCACGAATAAACTCGTTTA
1 TTTATGTTCACGAATAAACTCGTTTA
*
22496 TTTATGTTCA-TAAGTAAACTCGTTTA
1 TTTATGTTCACGAA-TAAACTCGTTTA
22522 CTCGGTTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (26 bp):
TTTATGTTCACGAATAAACTCGTTTA
Found at i:24807 original size:10 final size:10
Alignment explanation
Indices: 24792--24866 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
24782 CATTTAATAA
24792 ATAAACGAAC
1 ATAAACGAAC
24802 ATAAACGAAC
1 ATAAACGAAC
24812 ----ACGAAC
1 ATAAACGAAC
24818 ATAAACGAAC
1 ATAAACGAAC
** *
24828 ACGAAC-ATAA
1 ATAAACGA-AC
24838 ATTAACACGAAC
1 A-TAA-ACGAAC
24850 ATAAACGAAC
1 ATAAACGAAC
24860 ATAAACG
1 ATAAACG
24867 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 4 0.08
12 4 0.08
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.11, T:0.11
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:24817 original size:16 final size:16
Alignment explanation
Indices: 24796--24860 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
24786 TAATAAATAA
24796 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
24812 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
**
24828 ACGAACATAAATTAAC
1 ACGAACATAAACGAAC
24844 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
24860 A
1 A
24861 TAAACGTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.57, C:0.23, G:0.11, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:25628 original size:14 final size:14
Alignment explanation
Indices: 25611--25666 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
25601 AATGAACATA
25611 AACGAACATAATCG
1 AACGAACATAATCG
25625 AACGAACAT-A---
1 AACGAACATAATCG
* *
25635 AACAAACATAACCG
1 AACGAACATAATCG
25649 AACGAACATAATCG
1 AACGAACATAATCG
25663 AACG
1 AACG
25667 TTCACGAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.11
Consensus pattern (14 bp):
AACGAACATAATCG
Found at i:25631 original size:24 final size:24
Alignment explanation
Indices: 25591--25665 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
25581 GATTGAGTTA
*
25591 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
*
25615 AACATAATCGAACGAACATAAACA
1 AACATAATCGAACGAACATAAACG
* *
25639 AACATAACCGAACGAACATAATCG
1 AACATAATCGAACGAACATAAACG
25663 AAC
1 AAC
25666 GTTCACGAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
23 3 0.07
24 42 0.93
ACGTcount: A:0.56, C:0.20, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:28116 original size:15 final size:15
Alignment explanation
Indices: 28098--28163 Score: 96
Period size: 15 Copynumber: 4.4 Consensus size: 15
28088 TTCCGGAAAA
28098 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
28113 TGAATTACTAAAATT
1 TGAATTACTGGAATT
**
28128 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
28143 TGAATTACTGGAATT
1 TGAATTACTGGAATT
28158 TGAATT
1 TGAATT
28164 CAGGAAAATG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.38
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:28132 original size:30 final size:30
Alignment explanation
Indices: 28098--28179 Score: 112
Period size: 30 Copynumber: 2.8 Consensus size: 30
28088 TTCCGGAAAA
**
28098 TGAATTACTGGAATTTGAATTACTAAAATT
1 TGAATTACTGGAAAATGAATTACTAAAATT
**
28128 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTAAAATT
*
28158 TGAATT-CAGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
28180 ATTTCTGGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 15 0.32
30 32 0.68
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTAAAATT
Found at i:28175 original size:14 final size:15
Alignment explanation
Indices: 28092--28180 Score: 67
Period size: 15 Copynumber: 6.0 Consensus size: 15
28082 TTGGTTTTCC
*
28092 GGAAAATGAATTACT
1 GGAAAATGAATTACA
**
28107 GGAATTTGAATTACTA
1 GGAAAATGAATTAC-A
* *
28123 --AAATTTGAATTACT
1 GGAAA-ATGAATTACA
*
28137 GGAAAATGAATTACT
1 GGAAAATGAATTACA
**
28152 GGAATTTGAATT-CA
1 GGAAAATGAATTACA
28166 GGAAAATGAATTACA
1 GGAAAATGAATTACA
28181 TTTCTGGAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
14 13 0.22
15 42 0.72
16 3 0.05
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.31
Consensus pattern (15 bp):
GGAAAATGAATTACA
Found at i:28189 original size:20 final size:20
Alignment explanation
Indices: 28166--28231 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
28156 TTTGAATTCA
28166 GGAAAATGAATTACATTTCT
1 GGAAAATGAATTACATTTCT
28186 GGAAAATGAATTACATTTCT
1 GGAAAATGAATTACATTTCT
**
28206 GGAAAACAAATTACATTTCT
1 GGAAAATGAATTACATTTCT
28226 GGAAAA
1 GGAAAA
28232 CATCTGGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (20 bp):
GGAAAATGAATTACATTTCT
Found at i:28617 original size:30 final size:28
Alignment explanation
Indices: 28560--28650 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 28
28550 CTTTACTGAA
*
28560 ATATTATTTAAATATATAAATAATATTAT
1 ATATTA-TTAAATATATAAAAAATATTAT
*
28589 -TCATTATTAAGTATATAAAAAATTTATTAT
1 AT-ATTATTAAATATATAAAAAA--TATTAT
*
28619 ATATTATT-AA-A-ATAAAAAATATAAT
1 ATATTATTAAATATATAAAAAATATTAT
*
28644 ATCTTAT
1 ATATTAT
28651 ATTATTATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
25 11 0.21
27 8 0.15
28 16 0.30
29 5 0.09
30 12 0.23
31 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (28 bp):
ATATTATTAAATATATAAAAAATATTAT
Found at i:28712 original size:22 final size:20
Alignment explanation
Indices: 28687--28735 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
28677 ACTAAACTAA
*
28687 AAATATAATATTATATTATTAT
1 AAATATAATA-AATA-TATTAT
*
28709 AAATATTAATAAATATATTTT
1 AAATA-TAATAAATATATTAT
28730 AAATAT
1 AAATAT
28736 TTTTAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 1 0.04
21 10 0.42
22 8 0.33
23 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATATAATAAATATATTAT
Found at i:28987 original size:42 final size:42
Alignment explanation
Indices: 28928--29041 Score: 192
Period size: 42 Copynumber: 2.7 Consensus size: 42
28918 AATTACGTTC
*
28928 CGGAAAACGAATTACGTGAAACAAACACGGGAAAATATTTTT
1 CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTT
*
28970 CGGAAAATGAATTACGTGAAACAAACACGGGAAAACATTTTT
1 CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTT
* *
29012 CGAAAAACGAATTACATGAAACAAACACGG
1 CGGAAAACGAATTACGTGAAACAAACACGG
29042 AATTTCGGGG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.18
Consensus pattern (42 bp):
CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTT
Found at i:33601 original size:31 final size:32
Alignment explanation
Indices: 33566--33625 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
33556 TAATATACAG
*
33566 TTAAAAAAA-GTGATACCGATTTTATTATCGA
1 TTAAAAAAATATGATACCGATTTTATTATCGA
33597 TTAAAAAAATATGATACCGATTTTATTAT
1 TTAAAAAAATATGATACCGATTTTATTAT
33626 TATTATACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 9 0.33
32 18 0.67
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.38
Consensus pattern (32 bp):
TTAAAAAAATATGATACCGATTTTATTATCGA
Found at i:34329 original size:30 final size:29
Alignment explanation
Indices: 34288--34348 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
34278 ATTTTATAAA
*
34288 TAAAAAAAATTATGAT-TATTATATTTTAT
1 TAAAAAAAATTATGATAAATTATA-TTTAT
*
34317 TAAAATAAAATTATTATAAATTATATTTAT
1 TAAAA-AAAATTATGATAAATTATATTTAT
34347 TA
1 TA
34349 TTTATTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 5 0.18
30 17 0.61
31 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
TAAAAAAAATTATGATAAATTATATTTAT
Found at i:34594 original size:19 final size:19
Alignment explanation
Indices: 34566--34619 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
34556 GGTAAAGCGC
34566 TACCGGTTTTGTTATTTTT
1 TACCGGTTTTGTTATTTTT
* *
34585 TACCGATTTTATTATTTTT
1 TACCGGTTTTGTTATTTTT
34604 TACCGGTTTTGTTATT
1 TACCGGTTTTGTTATT
34620 GTTGGGCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.15, C:0.11, G:0.13, T:0.61
Consensus pattern (19 bp):
TACCGGTTTTGTTATTTTT
Found at i:34968 original size:24 final size:25
Alignment explanation
Indices: 34941--35009 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
34931 AACATCAAAT
34941 ACAATAA-AATAATATTATTTATTA
1 ACAATAAGAATAATATTATTTATTA
*
34965 ACAA-AATAATAATATTATTT-TTA
1 ACAATAAGAATAATATTATTTATTA
34988 A-AATATTAGAATAAT-TTATTTA
1 ACAATA--AGAATAATATTATTTA
35010 ATATTACCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 2 0.05
23 7 0.18
24 23 0.59
25 7 0.18
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (25 bp):
ACAATAAGAATAATATTATTTATTA
Found at i:35043 original size:14 final size:14
Alignment explanation
Indices: 35024--35110 Score: 61
Period size: 14 Copynumber: 6.2 Consensus size: 14
35014 TACCTATGTC
35024 AATATTATTATTAA
1 AATATTATTATTAA
*
35038 AATATTA-TATCTAT
1 AATATTATTAT-TAA
* * *
35052 AATTTTATAAATAA
1 AATATTATTATTAA
* *
35066 AATATTATGATTAT
1 AATATTATTATTAA
*
35080 TATATT-TTATTAA
1 AATATTATTATTAA
**
35093 AATAAAATTATTATA
1 AATATTATTATTA-A
35108 AAT
1 AAT
35111 TATATTTATT
Statistics
Matches: 54, Mismatches: 15, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
13 11 0.20
14 38 0.70
15 5 0.09
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:35059 original size:28 final size:28
Alignment explanation
Indices: 35024--35113 Score: 87
Period size: 28 Copynumber: 3.3 Consensus size: 28
35014 TACCTATGTC
35024 AATATTATTATTAAAATATTAT-ATCTAT
1 AATATTATTATTAAAATATTATGAT-TAT
* * *
35052 AATTTTATAAATAAAATATTATGATTAT
1 AATATTATTATTAAAATATTATGATTAT
* ** *
35080 TATATT-TTATTAAAATAAAATTATTAT
1 AATATTATTATTAAAATATTATGATTAT
35107 AA-ATTAT
1 AATATTAT
35114 ATTTATTATT
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
26 3 0.06
27 18 0.37
28 26 0.53
29 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
AATATTATTATTAAAATATTATGATTAT
Found at i:35119 original size:30 final size:32
Alignment explanation
Indices: 35053--35121 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 32
35043 TATATCTATA
*
35053 ATTTTA-T-AAATAAAATATTATGATTATTAT
1 ATTTTATTAAAATAAAATATTATGATAATTAT
35083 ATTTTATTAAAATAAAATTATTAT-A-AATTAT
1 ATTTTATTAAAATAAAA-TATTATGATAATTAT
35114 A-TTTATTA
1 ATTTTATTA
35122 TTATTATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
30 13 0.37
31 7 0.20
32 9 0.26
33 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (32 bp):
ATTTTATTAAAATAAAATATTATGATAATTAT
Found at i:35123 original size:33 final size:32
Alignment explanation
Indices: 35035--35135 Score: 95
Period size: 28 Copynumber: 3.2 Consensus size: 32
35025 ATATTATTAT
35035 TAAAATATTAT-ATCTA-TA-ATTTTA-T-AAA
1 TAAAATATTATAAT-TATTATATTTTATTAAAA
*
35063 TAAAATATTATGATTATTATATTTTATTAAAA
1 TAAAATATTATAATTATTATATTTTATTAAAA
* *
35095 TAAAATTATTATAAATTATATTTATTATTATTATAA
1 TAAAA-TATTAT-AATTAT-TATATT-TTATTAAAA
35131 TAAAA
1 TAAAA
35136 ATAATATATC
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
28 13 0.21
29 4 0.07
30 6 0.10
31 1 0.02
32 8 0.13
33 6 0.10
34 5 0.08
35 5 0.08
36 13 0.21
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (32 bp):
TAAAATATTATAATTATTATATTTTATTAAAA
Found at i:35126 original size:36 final size:36
Alignment explanation
Indices: 35030--35135 Score: 105
Period size: 36 Copynumber: 3.0 Consensus size: 36
35020 TGTCAATATT
* * *
35030 ATTATTAAAATATTATATCTATAATT-TTATAAATAAA
1 ATTATTATAA-ATTATATATATTATTATTA-AAATAAA
*
35067 A-TATTAT-GATTAT-TATATT-TTATTAAAATAAA
1 ATTATTATAAATTATATATATTATTATTAAAATAAA
* *
35099 ATTATTATAAATTATATTTATTATTATTATAATAAA
1 ATTATTATAAATTATATATATTATTATTAAAATAAA
35135 A
1 A
35136 ATAATATATC
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
32 10 0.18
33 13 0.23
34 10 0.18
35 5 0.09
36 18 0.32
37 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (36 bp):
ATTATTATAAATTATATATATTATTATTAAAATAAA
Found at i:35783 original size:14 final size:14
Alignment explanation
Indices: 35766--35851 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
35756 TATTTATCTC
35766 AATATTATTATTAA
1 AATATTATTATTAA
*
35780 AATATTA-TATCTAT
1 AATATTATTAT-TAA
* * *
35794 AATTTTATAAATAA
1 AATATTATTATTAA
* *
35808 AA-ATTATGATTAT
1 AATATTATTATTAA
*
35821 TATATT-TTATTAA
1 AATATTATTATTAA
**
35834 AATAAAATTATTATA
1 AATATTATTATTA-A
35849 AAT
1 AAT
35852 TATATTTATT
Statistics
Matches: 52, Mismatches: 15, Indels: 9
0.68 0.20 0.12
Matches are distributed among these distances:
13 19 0.37
14 28 0.54
15 5 0.10
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:35843 original size:30 final size:32
Alignment explanation
Indices: 35795--35862 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 32
35785 TATATCTATA
*
35795 ATTTTA-T-AAATAAAAATTATGAT-TATTAT
1 ATTTTATTAAAATAAAAATTATGATAAATTAT
*
35824 ATTTTATTAAAAT-AAAATTATTATAAATTAT
1 ATTTTATTAAAATAAAAATTATGATAAATTAT
35855 A-TTTATTA
1 ATTTTATTA
35863 TTTATTATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 6 0.18
30 18 0.53
31 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (32 bp):
ATTTTATTAAAATAAAAATTATGATAAATTAT
Found at i:36021 original size:738 final size:749
Alignment explanation
Indices: 33751--36786 Score: 3978
Period size: 772 Copynumber: 4.0 Consensus size: 749
33741 ATAAAATCGG
* * *
33751 TAAAAATTACCGAAAACATCATTATTTTAACAAAATCGGTAAAGCGCTACCGATTTTGTTATTGT
1 TAAAAATTACCGAAAACATCATTATTTTAACAAAACCGGTAAAGCACTACCGGTTTTGTTATTGT
* * * *
33816 TGGGCATTTAACCGGAAATGTTAAAAAATATTGATATTTTAGGTAGAAATAATAATATTTTAGGT
66 TGGGCATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGATAGAAATAATAATATTTTAGGT
* * * ** *
33881 AATTTTTATCAATTTTGTTATGCCCAACAATAATAAAATAGGTAAAAATATACTTTTTAATGATA
131 AATTTTTACCGATTTTGTTATGCCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATG---
* * *
33946 AATTTAATAAACACAAATTATATAAATTAATTGTAATTTTTTAGTTTGTAAGTTGTCACAATATA
193 AA-CTAAT--ATAC-AA--AT-T-AA-T--TT-TAATTTTTTAGTTTGTAAGTTGCCACAATATA
* *
34011 ACTAA-TAAAAAAAAGATACGGTATTTCTATTTCGATATTAGTTTTTTAATAAAAAAATAAAAAA
246 ACTAATTAAAAAAAAGATACGGTATTTCTATTTCGATATTAGCTTTCTAAT-----AATAAAAAA
* *
34075 ATATATATATAATTACAATATAATTTTAAAAAATAATCATAATGAAGTGATAAAAAATAATTATA
306 A-ATATATATAATTACAATATAATTTTAAAAAA-AATCATAATGAAGTGATGAAAAATAATCATA
* *
34140 ATTACAATATAACTATAAACATAAAATATAATAAAATAATATTATTTATTAACAAAATAATAATA
369 ATTACAATATAACTATAAACATCAAATACAATAAAATAATATTATTTATTAACAAAATAATAATA
* *
34205 TTATTTTTTAAATATTAGAATAATTTATTTAATATTATTTATGTCAATATTATTATTAAAATATT
434 TTATTTTTAAAATATTAGAATAAATTATTTAATATTATTTATGTCAATATTATTATTAAAATATT
34270 ATATCTAT-ATTTTATAAATAAAAAAAATTATGATTATTATATTTTATTAAAATAAAATTATTAT
499 ATATCTATAATTTTATAAAT--AAAAAATTATGATTATTATATTTTATTAAAATAAAATTATTAT
34334 AAATTATATTTATTATTTATTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAAT
562 AAATTATATTTATTATTTATTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAAT
* *
34399 AGTTAAATATATGCGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCG---
627 AGTTAAACATATGTGTCGATACATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATA
* * *
34461 ATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATACAACAATAACAAAATCGG
692 ATTATAATATAATAGGTAAATTTACAATGTAACCGGTATACAACAATAACAAAACCGA
* * *
34519 TAAAAATTACCGAAAATATCATTATTTTAACAAAACCGGTAAAGCGCTACCGGTTTTGTTATTTT
1 TAAAAATTACCGAAAACATCATTATTTTAACAAAACCGGTAAAGCACTACCGGTTTTGTTATTGT
*** ** ** * ****** * *
34584 TTACCGATTTTA--TTATTTTTTACCGGTTTTGTTATTGTTGGGCATTTTACCGGAAATATTAAA
66 TGGGC-ATTTTACCGGAAATGTTA-----AAAAACATTGAT--G--TTTTA---G--ATA-GAAA
* * * **
34647 -AAGTATTGATGTTTTAGGTAATTTTTACAGGTTTTGTTATGCCCAACAATAACAAAACCAATAA
115 TAA-TA---ATATTTTAGGTAATTTTTACCGATTTTGTTATGCCCAACAATAACAAAACCGGTAA
*
34711 AAATAGACTTTTTAATAATAAAATTAGTAAACACAAATTATACAAATTAATTTTAATTTTTTAGT
176 AAATAGAC--TTT--T--T--AA-T-G---A-ACTAA-TATACAAATTAATTTTAATTTTTTAGT
* * *
34776 TTGTAAGTTGTCACAATATAACTAATGAAAAAAATA-ATACGGTATTTCTATTTTGATATTAGCT
226 TTGTAAGTTGCCACAATATAACTAATTAAAAAAA-AGATACGGTATTTCTATTTCGATATTAGCT
* * *
34840 TTCTAATAATAAAATAAA-A-A-ACAATTA-TATATAA-TTTAAAAAAAATCATAATGAAGTGAT
290 TTCTAATAATAAAAAAAATATATATAATTACAATATAATTTTAAAAAAAATCATAATGAAGTGAT
*
34900 GAAAAATAATCATAATTATAATATAACTATAAACATCAAATACAATAAAATAATATTATTTATTA
355 GAAAAATAATCATAATTACAATATAACTATAAACATCAAATACAATAAAATAATATTATTTATTA
* **
34965 ACAAAATAATAATATTATTTTTAAAATATTAGAATAATTTATTTAATATTACCTATGTCAATATT
420 ACAAAATAATAATATTATTTTTAAAATATTAGAATAAATTATTTAATATTATTTATGTCAATATT
*
35030 ATTATTAAAATATTATATCTATAATTTTATAAATAAAATATTATGATTATTATATTTTATTAAAA
485 ATTATTAAAATATTATATCTATAATTTTATAAATAAAAAATTATGATTATTATATTTTATTAAAA
*
35095 TAAAATTATTATAAATTATATTTATTA-TTATTATAATAAAAATAATATATCATTAATTATATTA
550 TAAAATTATTATAAATTATATTTATTATTTATTATAATAAGAATAATATATCATTAATTATATTA
35159 TAATGAGAGAATAGTTAAACATATGTGTCGATACATTTTCTAAAAGTATCGACACATATGTTACA
615 TAATGAGAGAATAGTTAAACATATGTGTCGATACATTTTCTAAAAGTATCGACACATATGTTACA
*
35224 TCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATACAACAATAACAAA
680 TCGAAACCGATAATTATAATATAATAGGTAAATTTACAATGTAACCGGTATACAACAATAACAAA
35289 ACCGA
745 ACCGA
* *
35294 TAAAAATTATCGAAAACATCATTATTTTAACAAAACCGGTAAAGCACTACCGGTTTTGTTATTAT
1 TAAAAATTACCGAAAACATCATTATTTTAACAAAACCGGTAAAGCACTACCGGTTTTGTTATTGT
*
35359 TGGGCATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGATAGAAATAATAATGTTTTAGGT
66 TGGGCATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGATAGAAATAATAATATTTTAGGT
*
35424 AATTTTTACCGGTTTTGTTATGCCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATG-A-
131 AATTTTTACCGATTTTGTTATGCCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGAAC
*
35487 TAA-A-ACAAATTAA-TTTAA-TTTTTAGTTTATAAGTTGCCACAATATAACTAATTAAAAAAAA
196 TAATATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAATTAAAAAAAA
*
35548 GACACGGTATTTCTATTTCGATATTAG-TTTCTAATAATAAATTAAAAATTATATATAATTACAA
261 GATACGGTATTTCTATTTCGATATTAGCTTTCTAATAATAAA--AAAAA-TATATATAATTACAA
*
35612 TATAATTTTTAAAAAAATCATAATGAAGTGATGAAAAATAATCATAATTACAATATAACTATAAA
323 TATAATTTTAAAAAAAATCATAATGAAGTGATGAAAAATAATCATAATTACAATATAACTATAAA
*
35677 CATCAAATATAAT-AAA-AATATTATTTATTAACAAAATAATAATATTATTTTTAAAATATTAGA
388 CATCAAATACAATAAAATAATATTATTTATTAACAAAATAATAATATTATTTTTAAAATATTAGA
*
35740 ATAAATTATTTAATATTATTTATCTCAATATTATTATTAAAATATTATATCTATAATTTTATAAA
453 ATAAATTATTTAATATTATTTATGTCAATATTATTATTAAAATATTATATCTATAATTTTATAAA
35805 T-AAAAATTATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATATTTATTATTTATT
518 TAAAAAATTATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATATTTATTATTTATT
* * * *
35869 ATAATAA-AAT-A-ATATCATTAATTATATTATAAGGAGAGAATATTTAAATATATGTGT-AATA
583 ATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGTGTCGATA
35930 CATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATAATTATAATATAATAGGTAAAT
648 CATTTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATAATTATAATATAATAGGTAAAT
* *
35995 TTATAATGTAACCGGCATACAACAATAACAAAACC-A
713 TTACAATGTAACCGGTATACAACAATAACAAAACCGA
* * *
36031 GTAAAAATTATCGAAAACATCATTATTTTAACAAAACTGATAAAGCTCTACCGGTTTTGTTATTT
1 -TAAAAATTACCGAAAACATCATTATTTTAACAAAACCGGTAAAG--C-A-C-------------
*** * * *
36096 TTTACCGGTTTTGTTATTGTTGGGCATTTT-TTTGAAAAGTTAAAAAACATTAATGTTTTAGGTA
48 --TACCGGTTTTGTTATTGTTGGGCATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGATA
*
36160 GAAATAATAATATTTTAGGTAATTTTTACCGATTTTGTTATGCCAAACAATAACAAAACCGGTAA
111 GAAATAATAATATTTTAGGTAATTTTTACCGATTTTGTTATGCCCAACAATAACAAAACCGGTAA
*
36225 AAATAGACTTTTTAATGATAAAATTAGTAAACACAAATTATACAAATTAATTTTAATTTTTTTAG
176 AAATAGAC--TTT--T--T--AA-T-G---A-ACTAA-TATACAAATTAATTTTAA-TTTTTTAG
* *
36290 TTTGTAAGTTGCCACAATATAACT-ATT-GAAAAAAG-GACGGTATTTCTATTTCGATATTAGCT
225 TTTGTAAGTTGCCACAATATAACTAATTAAAAAAAAGATACGGTATTTCTATTTCGATATTAGCT
*
36352 TTC---TAAT-AAAAAAAT-TATATAATTACAATATAATTTAAAAAAAAATCATAATGAAGTGAT
290 TTCTAATAATAAAAAAAATATATATAATTACAATATAATTTTAAAAAAAATCATAATGAAGTGAT
*
36412 GAAAAATAATCATAATTACAATATAATTATAAACATCAAATACAATAAAATAATATTATTTATTA
355 GAAAAATAATCATAATTACAATATAACTATAAACATCAAATACAATAAAATAATATTATTTATTA
*
36477 ACAAAATAATAATATTATTTTGTTAAATATTAGAATAAATTATTTAATATTATTTATGTCAATAT
420 ACAAAATAATAATATTATTTT-TAAAATATTAGAATAAATTATTTAATATTATTTATGTCAATAT
36542 TATTATTAAAATATTATATCTATAATTTTATAAATAAAAAATTATGATTATTATATTTTATTAAA
484 TATTATTAAAATATTATATCTATAATTTTATAAATAAAAAATTATGATTATTATATTTTATTAAA
*
36607 ACAAAATTATTATAAATTATA-TTATTATTTATTATAATAAGAAT-A-ATATCATTAATTATATT
549 ATAAAATTATTATAAATTATATTTATTATTTATTATAATAAGAATAATATATCATTAATTATATT
*
36669 ATAATGAGAGAATAGTTAAACATATGTGTCGATATATTTTCTAAAAGTATCGACACATATGTTAC
614 ATAATGAGAGAATAGTTAAACATATGTGTCGATACATTTTCTAAAAGTATCGACACATATGTTAC
36734 ATCGAAACCGATAATTATAATATAATAGGTAAATTTACAATGTAACCGGTATA
679 ATCGAAACCGATAATTATAATATAATAGGTAAATTTACAATGTAACCGGTATA
36787 AATATACCGG
Statistics
Matches: 2032, Mismatches: 136, Indels: 195
0.86 0.06 0.08
Matches are distributed among these distances:
736 15 0.01
737 64 0.03
738 151 0.07
739 52 0.03
740 4 0.00
741 61 0.03
742 130 0.06
743 10 0.00
744 69 0.03
748 1 0.00
749 1 0.00
750 2 0.00
752 1 0.00
754 1 0.00
756 101 0.05
757 27 0.01
758 64 0.03
760 1 0.00
761 5 0.00
762 6 0.00
764 3 0.00
765 1 0.00
766 1 0.00
767 10 0.00
768 150 0.07
769 10 0.00
770 40 0.02
771 101 0.05
772 214 0.11
773 145 0.07
774 168 0.08
775 172 0.08
776 32 0.02
777 9 0.00
778 31 0.02
779 2 0.00
780 1 0.00
781 13 0.01
782 5 0.00
785 90 0.04
786 41 0.02
787 4 0.00
788 1 0.00
789 3 0.00
790 1 0.00
791 3 0.00
793 4 0.00
794 4 0.00
795 5 0.00
796 2 0.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (749 bp):
TAAAAATTACCGAAAACATCATTATTTTAACAAAACCGGTAAAGCACTACCGGTTTTGTTATTGT
TGGGCATTTTACCGGAAATGTTAAAAAACATTGATGTTTTAGATAGAAATAATAATATTTTAGGT
AATTTTTACCGATTTTGTTATGCCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGAAC
TAATATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAATTAAAAAAAA
GATACGGTATTTCTATTTCGATATTAGCTTTCTAATAATAAAAAAAATATATATAATTACAATAT
AATTTTAAAAAAAATCATAATGAAGTGATGAAAAATAATCATAATTACAATATAACTATAAACAT
CAAATACAATAAAATAATATTATTTATTAACAAAATAATAATATTATTTTTAAAATATTAGAATA
AATTATTTAATATTATTTATGTCAATATTATTATTAAAATATTATATCTATAATTTTATAAATAA
AAAATTATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATATTTATTATTTATTATA
ATAAGAATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGTGTCGATACAT
TTTCTAAAAGTATCGACACATATGTTACATCGAAACCGATAATTATAATATAATAGGTAAATTTA
CAATGTAACCGGTATACAACAATAACAAAACCGA
Found at i:36572 original size:28 final size:30
Alignment explanation
Indices: 36541--36635 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
36531 TATGTCAATA
* *
36541 TTATTATTAAAATATTAT-ATCTA-TA-ATT
1 TTATTAATAAAAAATTATGAT-TATTATATT
*
36569 TTATAAATAAAAAATTATGATTATTATATT
1 TTATTAATAAAAAATTATGATTATTATATT
* *
36599 TTATTAA-AACAAAATTATTATAAATTATATT
1 TTATTAATAA-AAAATTATGAT-TATTATATT
36630 ATTATT
1 -TTATT
36636 TATTATAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
28 17 0.31
29 6 0.11
30 19 0.35
31 8 0.15
32 5 0.09
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (30 bp):
TTATTAATAAAAAATTATGATTATTATATT
Found at i:37190 original size:198 final size:198
Alignment explanation
Indices: 36732--37220 Score: 680
Period size: 200 Copynumber: 2.5 Consensus size: 198
36722 CACATATGTT
* *
36732 ACATCGAAACCGATAATTATAATATAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGG
1 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTTACCGGTATAAATATACC-G
* *
36797 TTTTATGAGAGAATAAGTCAACATAATGTATCCAAACAAATTTAAAAAATGTCGATACATTTTTT
65 TTTTATGAGAAAATAGGTCAACATAATGTATCCAAACAAATTTAAAAAATGTCGATACATTTTTT
*
36862 CCAAAATGAATGCCTAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGATCA
130 CCAAAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTA-TAAAAGTATCGATCA
36927 CAAAA
194 CAAAA
* * *
36932 ACATCAAAACCGATAATTACAATGTAATAGGTAAATTTACAATG-TACTCGGTAGAAATATACCA
1 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTTAC-CGGTATAAATATACC-
** * * ** ****
36996 GTTTTATGAGAAAATAGGTTTACATAATGTATCGACAC-GTTTTAAGTTTGTGTCGATAC-TTTT
64 GTTTTATGAGAAAATAGGTCAACATAATGTATCCAAACAAATTTAA-AAAATGTCGATACATTTT
*
37059 TTCCAAAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTA-AAATTGTATCGAT
128 TTCCAAAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTATAAA-AGTATCGAT
*
37123 CCCAAAA
192 CACAAAA
*
37130 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTTACCGGTATAAATATACCGG
1 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTTACCGGTATAAATATACCGT
* *
37195 TTTAGTTAGAAAATAGGTCAATATAA
66 TTTA-TGAGAAAATAGGTCAACATAA
37221 GCGCTACCTA
Statistics
Matches: 255, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
197 8 0.03
198 87 0.34
199 64 0.25
200 96 0.38
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (198 bp):
ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTTACCGGTATAAATATACCGT
TTTATGAGAAAATAGGTCAACATAATGTATCCAAACAAATTTAAAAAATGTCGATACATTTTTTC
CAAAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTATAAAAGTATCGATCACA
AAA
Found at i:37299 original size:64 final size:64
Alignment explanation
Indices: 37225--37353 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
37215 ATATAAGCGC
*
37225 TACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAA
1 TACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCAGTTAAA
37289 TACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCAGTTAAA
1 TACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCAGTTAAA
37353 T
1 T
37354 GATATAACAT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (64 bp):
TACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCAGTTAAA
Found at i:37985 original size:32 final size:34
Alignment explanation
Indices: 37944--38016 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
37934 TTTTTTAACT
*
37944 TACTAACATTCTAAC-TTTT-ATTTTATTGTTTA
1 TACTAACATTCTAACTTTTTAATTTTATTGTTCA
*
37976 TACTGACATTCTAACTTTTTAATTTTATTGTTCA
1 TACTAACATTCTAACTTTTTAATTTTATTGTTCA
38010 TACTAAC
1 TACTAAC
38017 TTTTATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 14 0.39
33 4 0.11
34 18 0.50
ACGTcount: A:0.29, C:0.15, G:0.04, T:0.52
Consensus pattern (34 bp):
TACTAACATTCTAACTTTTTAATTTTATTGTTCA
Found at i:38026 original size:25 final size:26
Alignment explanation
Indices: 37986--38051 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 26
37976 TACTGACATT
* *
37986 CTAACTTTTTAATTTTATTGTTCATA
1 CTAACATTTTATTTTTATTGTTCATA
*
38012 CTAAC-TTTTATTTTTATTGTTCTTA
1 CTAACATTTTATTTTTATTGTTCATA
*
38037 CTAACATTTTGTTTT
1 CTAACATTTTATTTT
38052 ATTACACAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 23 0.64
26 13 0.36
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.61
Consensus pattern (26 bp):
CTAACATTTTATTTTTATTGTTCATA
Found at i:40309 original size:40 final size:40
Alignment explanation
Indices: 40265--40351 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
40255 ATGGGGGCAG
* *
40265 AAAGCATGTTTTGGGTAGGATTTAACCTAATAAGGGTAGA
1 AAAGCATGTTTCGGGTAGGATTTAACCAAATAAGGGTAGA
40305 AAAGCATGTTTCGGGTAGGATTTAACCAAATAAGGGTAGA
1 AAAGCATGTTTCGGGTAGGATTTAACCAAATAAGGGTAGA
40345 AAAGCAT
1 AAAGCAT
40352 ATGGGATGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.26
Consensus pattern (40 bp):
AAAGCATGTTTCGGGTAGGATTTAACCAAATAAGGGTAGA
Found at i:41971 original size:20 final size:20
Alignment explanation
Indices: 41946--41983 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
41936 TGAAAAATTA
41946 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
41966 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
41984 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:41974 original size:91 final size:91
Alignment explanation
Indices: 41812--41985 Score: 244
Period size: 91 Copynumber: 1.9 Consensus size: 91
41802 GGTGCACTAA
** *
41812 GAGTGCACCGATGCATAAAATGCATTCGATGTTTTGAAAAAGCCTGAGTGAATCGATGCATGGTT
1 GAGTGCACCGATGCATAAAATGCATTCGATGTTTTGAAAAAAACTGAGTGAATCGATGCATGGAT
*
41877 TTGTGCATCGATGCATCAAATGCACT
66 TGGTGCATCGATGCATCAAATGCACT
* * *
41903 GAGTGCATCGATGCATAAAATGCATTCGATG-TTTGAAAAATTAATTG-GTGCATCGATGCATGG
1 GAGTGCACCGATGCATAAAATGCATTCGATGTTTTGAAAAA--AACTGAGTGAATCGATGCATGG
*
41966 ATTGGTGCATCGGTGCATCA
64 ATTGGTGCATCGATGCATCA
41986 CTTTGAAAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
90 9 0.12
91 62 0.85
92 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (91 bp):
GAGTGCACCGATGCATAAAATGCATTCGATGTTTTGAAAAAAACTGAGTGAATCGATGCATGGAT
TGGTGCATCGATGCATCAAATGCACT
Found at i:42631 original size:2 final size:2
Alignment explanation
Indices: 42624--42662 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
42614 AACTAAACTA
42624 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42663 GTTTAAAATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.