Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000277.1 Hibiscus syriacus cultivar Beakdansim tig00000513_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: 63348
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Found at i:3480 original size:45 final size:45
Alignment explanation
Indices: 3424--3562 Score: 206
Period size: 45 Copynumber: 3.0 Consensus size: 45
3414 ATAAAATTTC
*
3424 TTACCAATATACTTATCATTTAACCCATAAGCTCATAAGCTTATT
1 TTACCAATATACTTAACATTTAACCCATAAGCTCATAAGCTTATT
*
3469 TTACTAATATACCCTTAAACATTTAACCCATAAGCTCATAAGCTTATT
1 TTACCAATATA--CTT-AACATTTAACCCATAAGCTCATAAGCTTATT
* * *
3517 TTACCAATATACTCACCATTTAACCCATAAGCTCGTAAGCTTATT
1 TTACCAATATACTTAACATTTAACCCATAAGCTCATAAGCTTATT
3562 T
1 T
3563 GCATTGTTAC
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
45 40 0.47
46 2 0.02
47 3 0.04
48 40 0.47
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (45 bp):
TTACCAATATACTTAACATTTAACCCATAAGCTCATAAGCTTATT
Found at i:3729 original size:40 final size:40
Alignment explanation
Indices: 3680--3841 Score: 261
Period size: 40 Copynumber: 4.0 Consensus size: 40
3670 ACCGTAGTGC
3680 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
* *
3720 TACACATAAGGTCGTGCCCACCATATATACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
* * *
3760 TACATATAAGGTCGTGTCCACCATATACACCGAACTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
* *
3800 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
3840 TA
1 TA
3842 TAAACATGCA
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
Found at i:4153 original size:24 final size:24
Alignment explanation
Indices: 4118--4189 Score: 126
Period size: 24 Copynumber: 3.0 Consensus size: 24
4108 GTCTTCCTGG
*
4118 TGATGTATAAAACATCTATATACA
1 TGATGTATAAAACATCTATGTACA
*
4142 TGATGTACAAAACATCTATGTACA
1 TGATGTATAAAACATCTATGTACA
4166 TGATGTATAAAACATCTATGTACA
1 TGATGTATAAAACATCTATGTACA
4190 ATGTCATGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (24 bp):
TGATGTATAAAACATCTATGTACA
Found at i:4762 original size:31 final size:30
Alignment explanation
Indices: 4724--4795 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
4714 AACCATTTAC
* * * *
4724 AACTTTTCCAAAGTTACTGAATTGGTCCCCT
1 AACTTTTCCAAAATTA-TAAAATGGTCCCCA
*
4755 AACTTTTCAAAAATTATAAAATGGTCCCCA
1 AACTTTTCCAAAATTATAAAATGGTCCCCA
*
4785 AATTTTTCCAA
1 AACTTTTCCAA
4796 GGCTTGTAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 20 0.59
31 14 0.41
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (30 bp):
AACTTTTCCAAAATTATAAAATGGTCCCCA
Found at i:10272 original size:21 final size:20
Alignment explanation
Indices: 10239--10277 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
10229 AGTTAATATG
10239 AATATAAAAACA-TGAAAAA
1 AATATAAAAACATTGAAAAA
10258 AATATAAATAAACATTGAAA
1 AATAT-AA-AAACATTGAAA
10278 GTAAAATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 5 0.29
22 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (20 bp):
AATATAAAAACATTGAAAAA
Found at i:13528 original size:22 final size:22
Alignment explanation
Indices: 13503--13564 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 22
13493 TGAAAATAAT
13503 AAATAAAAAAATAAAAAAGGA-A
1 AAATAAAAAAATAAAAAA-GATA
* *
13525 AAATAATAAAATAAATAAGATA
1 AAATAAAAAAATAAAAAAGATA
13547 AAATAAAATAAAATAAAA
1 AAAT-AAA-AAAATAAAA
13565 TAAATAAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 21 0.64
23 2 0.06
24 8 0.24
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (22 bp):
AAATAAAAAAATAAAAAAGATA
Found at i:13535 original size:15 final size:14
Alignment explanation
Indices: 13495--13562 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 14
13485 TATAAATATG
13495 AAAATAATAAATAAA
1 AAAATAATAAA-AAA
*
13510 AAAATAA-AAAAGGA
1 AAAATAATAAAA-AA
13524 AAAATAATAAAATAA
1 AAAATAATAAAA-AA
13539 ATAAGATAA-AATAAAA
1 A-AA-ATAATAA-AAAA
13555 TAAAATAA
1 -AAAATAA
13563 AATAAATAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
13 1 0.02
14 11 0.25
15 17 0.39
16 8 0.18
17 7 0.16
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (14 bp):
AAAATAATAAAAAA
Found at i:13537 original size:5 final size:5
Alignment explanation
Indices: 13529--13604 Score: 68
Period size: 5 Copynumber: 15.4 Consensus size: 5
13519 AAGGAAAAAT
* *
13529 AATAA AAT-A AATAA GATAA AATAA AATAA AATAA AAT-A AATAA GACTAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA -AATAA
* * *
13578 ACTAA ACTAA ACTAA ACA-AA AATAA AA
1 AATAA AATAA AATAA A-ATAA AATAA AA
13605 ATAATGGAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
4 9 0.15
5 49 0.79
6 4 0.06
ACGTcount: A:0.72, C:0.07, G:0.03, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:13774 original size:2 final size:2
Alignment explanation
Indices: 13769--13795 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13759 TAAAAAATGA
13769 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 A
13796 GGTGTTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13852 original size:9 final size:8
Alignment explanation
Indices: 13832--13871 Score: 53
Period size: 9 Copynumber: 4.6 Consensus size: 8
13822 GAGAAAACAG
13832 AAATAAAGA
1 AAATAAA-A
13841 AAATAGAAA
1 AAATA-AAA
13850 AAATAAAA
1 AAATAAAA
13858 AAATAAAA
1 AAATAAAA
13866 TAAATA
1 -AAATA
13872 TTATATATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 11 0.38
9 16 0.55
10 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (8 bp):
AAATAAAA
Found at i:13862 original size:17 final size:18
Alignment explanation
Indices: 13810--13871 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 18
13800 TTAGATATAA
* *
13810 AAAATAAATAATGAGAA-
1 AAAATAAATAAAGAAAAT
* *
13827 AACAGAAATAAAGAAAAT
1 AAAATAAATAAAGAAAAT
13845 AGAAA-AAATAAA-AAAAT
1 A-AAATAAATAAAGAAAAT
13862 AAAATAAATA
1 AAAATAAATA
13872 TTATATATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
16 3 0.08
17 24 0.65
18 8 0.22
19 2 0.05
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.15
Consensus pattern (18 bp):
AAAATAAATAAAGAAAAT
Found at i:13865 original size:22 final size:22
Alignment explanation
Indices: 13808--13867 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
13798 TGTTAGATAT
*
13808 AAAAAATAAATAATGAGAAAACAGA
1 AAAAAAT-AA-AAT-AGAAAAAAGA
* * *
13833 AATAAAGAAAATAGAAAAAATA
1 AAAAAATAAAATAGAAAAAAGA
13855 AAAAAATAAAATA
1 AAAAAATAAAATA
13868 AATATTATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 19 0.66
23 3 0.10
24 2 0.07
25 5 0.17
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.13
Consensus pattern (22 bp):
AAAAAATAAAATAGAAAAAAGA
Found at i:14001 original size:13 final size:13
Alignment explanation
Indices: 13983--14007 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13973 CTAAATTAAA
13983 AAAATTAAATTTG
1 AAAATTAAATTTG
13996 AAAATTAAATTT
1 AAAATTAAATTT
14008 AATAAGGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AAAATTAAATTTG
Found at i:15030 original size:2 final size:2
Alignment explanation
Indices: 15020--15090 Score: 105
Period size: 2 Copynumber: 37.5 Consensus size: 2
15010 ATGTGTAATG
15020 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
15061 AT AT AT AT AT -T AT A- AT AT AT AC AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15091 ATTATGTAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
1 4 0.06
2 59 0.94
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15100 original size:8 final size:8
Alignment explanation
Indices: 15015--15104 Score: 56
Period size: 10 Copynumber: 10.0 Consensus size: 8
15005 AATATATGTG
*
15015 TAATGATA
1 TAATTATA
15023 TAATATATA
1 TAAT-TATA
15032 TATATATATA
1 TA-AT-TATA
15042 TATATATATA
1 TA-AT-TATA
15052 TATATATATA
1 TA-AT-TATA
15062 TATATATATTA
1 TA-AT-TA-TA
15073 TAA-TATA
1 TAATTATA
15080 TACATTATA
1 TA-ATTATA
*
15089 TAATTATG
1 TAATTATA
15097 TAATTATA
1 TAATTATA
15105 ACATAAGGAC
Statistics
Matches: 74, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
7 4 0.05
8 19 0.26
9 11 0.15
10 36 0.49
11 4 0.05
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (8 bp):
TAATTATA
Found at i:17139 original size:36 final size:35
Alignment explanation
Indices: 17090--17159 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 35
17080 GAATTAAGAT
*
17090 AGAAAATGCAAAAAT-ATGAAAATAATAAATAAAAAA
1 AGAAAAAGCAAAAATAAT-AAAATAA-AAATAAAAAA
* *
17126 AGAAAAAGGAAAAATAATAAAATAAAGATAAAAA
1 AGAAAAAGCAAAAATAATAAAATAAAAATAAAAA
17160 TAACAGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 8 0.27
36 20 0.67
37 2 0.07
ACGTcount: A:0.74, C:0.01, G:0.10, T:0.14
Consensus pattern (35 bp):
AGAAAAAGCAAAAATAATAAAATAAAAATAAAAAA
Found at i:17204 original size:16 final size:16
Alignment explanation
Indices: 17135--17206 Score: 55
Period size: 14 Copynumber: 4.8 Consensus size: 16
17125 AAGAAAAAGG
*
17135 AAAAATAATAA-AAT-
1 AAAAATAAAAATAATC
*
17149 AAAGATAAAAATAA-C
1 AAAAATAAAAATAATC
*
17164 AGAAAATAAAATTAAT-
1 A-AAAATAAAAATAATC
* *
17180 -AAAACAAAACTAATC
1 AAAAATAAAAATAATC
17195 AAAAATAAAAAT
1 AAAAATAAAAAT
17207 GATGGAAGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
14 21 0.48
15 3 0.07
16 20 0.45
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAAATAAAAATAATC
Found at i:17359 original size:2 final size:2
Alignment explanation
Indices: 17352--17390 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
17342 ATAAAAACAA
17352 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
17391 GGTGTTAGAT
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
Found at i:17460 original size:22 final size:21
Alignment explanation
Indices: 17403--17460 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
17393 TGTTAGATAT
*
17403 AAAAAATAAAT-AATGAGAAA
1 AAAAAATAAATAAAAGAGAAA
*
17423 ACAGAAAT-AATGAAAAGAGAAA
1 A-AAAAATAAAT-AAAAGAGAAA
17445 AAAATAATAAATAAAA
1 AAAA-AATAAATAAAA
17461 TAAATACTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
20 4 0.13
21 7 0.23
22 16 0.53
23 3 0.10
ACGTcount: A:0.74, C:0.02, G:0.10, T:0.14
Consensus pattern (21 bp):
AAAAAATAAATAAAAGAGAAA
Found at i:18624 original size:2 final size:2
Alignment explanation
Indices: 18617--18667 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
18607 TGTAAGGATA
18617 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
18658 AC AT -T AT AT A
1 AT AT AT AT AT A
18668 ATTATAACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18677 original size:16 final size:16
Alignment explanation
Indices: 18614--18673 Score: 68
Period size: 18 Copynumber: 3.6 Consensus size: 16
18604 ATATGTAAGG
*
18614 ATAATATATATATATAT
1 ATAATATATACAT-TAT
*
18631 ATATATATATATATATAT
1 ATA-ATATATACAT-TAT
18649 ATAATATATACATTAT
1 ATAATATATACATTAT
18665 ATAAT-TATA
1 ATAATATATA
18674 ACATAAGGAC
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
15 4 0.10
16 8 0.20
17 12 0.29
18 17 0.41
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAATATATACATTAT
Found at i:25696 original size:33 final size:33
Alignment explanation
Indices: 25649--25713 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
25639 TGATGAGGTA
* *
25649 GTACCGATACTGTCAAAACAGAATGCTGAAATG
1 GTACCGATAATGTCAAAACAGAATGCTAAAATG
25682 GTACCGATAATGTCAAAACAGAATGCTAAAAT
1 GTACCGATAATGTCAAAACAGAATGCTAAAAT
25714 AGTATTGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (33 bp):
GTACCGATAATGTCAAAACAGAATGCTAAAATG
Found at i:26739 original size:20 final size:20
Alignment explanation
Indices: 26716--26800 Score: 91
Period size: 20 Copynumber: 4.2 Consensus size: 20
26706 GATCTCCAAT
26716 TTCGCAACTCAGTTTTGAAA
1 TTCGCAACTCAGTTTTGAAA
26736 TTCGCAACTCAGTTTTGAAA
1 TTCGCAACTCAGTTTTGAAA
* * *
26756 TTCACAACGC-GATTTTCTAAA
1 TTCGCAACTCAG-TTTT-GAAA
* * *
26777 TTCGCAACACGGTTTTCAAA
1 TTCGCAACTCAGTTTTGAAA
26797 TTCG
1 TTCG
26801 TAACACGAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.02
20 39 0.70
21 15 0.27
22 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (20 bp):
TTCGCAACTCAGTTTTGAAA
Found at i:26779 original size:21 final size:20
Alignment explanation
Indices: 26748--26799 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
26738 CGCAACTCAG
* *
26748 TTTTGAAATTCACAACGCGA
1 TTTTCAAATTCACAACACGA
* *
26768 TTTTCTAAATTCGCAACACGG
1 TTTTC-AAATTCACAACACGA
26789 TTTTCAAATTC
1 TTTTCAAATTC
26800 GTAACACGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (20 bp):
TTTTCAAATTCACAACACGA
Found at i:26973 original size:20 final size:19
Alignment explanation
Indices: 26945--27004 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
26935 AATTCGCAAC
*
26945 ACAAG-TTTCCTTTTCGCA
1 ACAAGATTTTCTTTTCGCA
*
26963 ACAAGATTTTCTAATTCGCA
1 ACAAGATTTTCT-TTTCGCA
* *
26983 ACATGAATTTTGTTTTCGCA
1 ACAAG-ATTTTCTTTTCGCA
27003 AC
1 AC
27005 TCGATTTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 5 0.15
19 5 0.15
20 18 0.53
21 6 0.18
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (19 bp):
ACAAGATTTTCTTTTCGCA
Found at i:27013 original size:20 final size:20
Alignment explanation
Indices: 26977--27043 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
26967 GATTTTCTAA
*
26977 TTCGCAACAT-GAATTTTGTT
1 TTCGCAAC-TCGAATTTTGAT
* *
26997 TTCGCAACTCGATTTTTGAA
1 TTCGCAACTCGAATTTTGAT
* *
27017 TTCGCAACACGAATTTTAAT
1 TTCGCAACTCGAATTTTGAT
27037 TTCGCAA
1 TTCGCAA
27044 TAACTTTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 1 0.03
20 38 0.97
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.39
Consensus pattern (20 bp):
TTCGCAACTCGAATTTTGAT
Found at i:27033 original size:40 final size:39
Alignment explanation
Indices: 26859--27043 Score: 135
Period size: 40 Copynumber: 4.6 Consensus size: 39
26849 TTTGGTATTT
* * *
26859 GCAACACGAAATTTCTTTTTCGCAACTTGATTTCTGAATCC
1 GCAACACG-AATTT-TTTTTCGCAACTCGATTTTTGAATTC
** * * *
26900 ATAACGCGAATTTCTTTTTAC-CAA-TGCAATTTTTAAATTC
1 GCAACACGAATTT-TTTTT-CGCAACT-CGATTTTTGAATTC
* **
26940 GCAACAC-AAGTTTCCTTTTCGCAACAAGATTTTCT-AATTC
1 GCAACACGAA-TTT-TTTTTCGCAACTCGATTTT-TGAATTC
*
26980 GCAACATGAATTTTGTTTTCGCAACTCGATTTTTGAATTC
1 GCAACACGAATTTT-TTTTCGCAACTCGATTTTTGAATTC
*
27020 GCAACACGAATTTTAATTTCGCAA
1 GCAACACGAATTTT-TTTTCGCAA
27044 TAACTTTTAA
Statistics
Matches: 113, Mismatches: 22, Indels: 19
0.73 0.14 0.12
Matches are distributed among these distances:
39 5 0.04
40 99 0.88
41 9 0.08
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (39 bp):
GCAACACGAATTTTTTTTCGCAACTCGATTTTTGAATTC
Found at i:28006 original size:24 final size:25
Alignment explanation
Indices: 27979--28030 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
27969 AGTCAGTATT
27979 CGAAAC-TTGATCTTGATCAATACC
1 CGAAACTTTGATCTTGATCAATACC
* *
28003 CG-AACTTTGATCTTGGTCAATACT
1 CGAAACTTTGATCTTGATCAATACC
28027 CGAA
1 CGAA
28031 TTTTGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.12
24 20 0.83
25 1 0.04
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (25 bp):
CGAAACTTTGATCTTGATCAATACC
Found at i:28035 original size:24 final size:24
Alignment explanation
Indices: 27985--28037 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
27975 TATTCGAAAC
27985 TTGATCTTGATCAATACCCGAACT
1 TTGATCTTGATCAATACCCGAACT
* * *
28009 TTGATCTTGGTCAATACTCGAATT
1 TTGATCTTGATCAATACCCGAACT
28033 TTGAT
1 TTGAT
28038 TATGTTTCGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (24 bp):
TTGATCTTGATCAATACCCGAACT
Found at i:29004 original size:24 final size:24
Alignment explanation
Indices: 28955--29006 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
28945 ATTCGAAACA
* *
28955 TGATCTTGGTTAATACCCGGACTT
1 TGATCTTGGTCAATACCCGAACTT
* *
28979 TGATCTTGGTCAATACTCGAATTT
1 TGATCTTGGTCAATACCCGAACTT
29003 TGAT
1 TGAT
29007 GATGTTTCGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (24 bp):
TGATCTTGGTCAATACCCGAACTT
Found at i:29489 original size:968 final size:967
Alignment explanation
Indices: 27613--29539 Score: 3604
Period size: 968 Copynumber: 2.0 Consensus size: 967
27603 GTTGAACGAT
27613 TCATTGCTTACATTTGTGTTTCACAAGATGATGTTACATTGTATGTTGTTGAACCTAGAAGTAGT
1 TCATTGCTTACATTTGTGTTTCACAAGATGATGTTACATTGTATGTTGTTGAACCTAGAAGTAGT
*
27678 GAAGTTGGGTCAGTAACGAGCAATAATCAACTAGGTTATTCAGCCCCAGTTTATGGTGCTCACAA
66 GAAGTTGGGTCAGTAACGAGCAATAATCAACTAGGTTATTCAGCCCCAGTTTATGGTACTCACAA
27743 TGTACAACGTTGTTATCAACCTCAAAATTTCATGGTTCCACCACAATTTCATCCCCAAGAAAATT
131 TGTACAACGTTGTTATCAACCTCAAAATTTCATGGTTCCACCACAATTTCATCCCCAAGAAAATT
* * *
27808 TTGTTTTACCATATTTCCAATACCAAACATAATATCAAACACAATCTCAAAACCCACAACCTTTC
196 TTGTTTCACCACATTTCCAATACCAAACACAATATCAAACACAATCTCAAAACCCACAACCTTTC
*
27873 CCTAATCCAAATCACAATCAACTTTCAGCACCAAATTCCGGTTTTTGTATTGACCAGTTAGACGA
261 CCTAATCCAAATCACAATCAACTTTCAGCACCAAATTCCGGTTTTCGTATTGACCAGTTAGACGA
*
27938 TGATGAGCCAACATAAAAAAATTTGAGTACTAGTCAGTATTCGAAACTTGATCTTGATCAATACC
326 TGATGAGCCAACATAAAAAAATTTGAGTACTAGTCAGTATTCGAAACATGATCTTGATCAATACC
*
28003 CGAACTTTGATCTTGGTCAATACTCGAATTTTGATTATGTTTCGGAAGAAGAAACAGACCATGCG
391 CGAACTTTGATCTTGGTCAATACTCGAATTTTGATGATGTTTCGGAAGAAGAAACAGACCATGCG
28068 TGTAATGATGTTGATATTGGTCAATACCCGAATTTTGATGATGAAACAACCGCTGACGAGGAAGA
456 TGTAATGATGTTGATATTGGTCAATACCCGAATTTTGATGATGAAACAACCGCTGACGAGGAAGA
28133 TGTTGATAATAATGAGGAGGAAGTTACGGCTGTGAATGAACATGTTGAACATCCATTCTATAATT
521 TGTTGATAATAATGAGGAGGAAGTTACGGCTGTGAATGAACATGTTGAACATCCATTCTATAATT
28198 CATATAACCCTGAAGAAGAAGTCCCCGAAGAAAATAAAAAGAAGAAAATGCCACGGGAGTATAAC
586 CATATAACCCTGAAGAAGAAGTCCCCGAAGAAAATAAAAAGAAGAAAATGCCACGGGAGTATAAC
* *
28263 TGGAATATGCCATAATTACTTCAGATACCGGAAGAAGAGTTGGTAAAGATAGCAGTTGATTGTTA
651 TGGAATATGCCAGAATTACTTCAAATACCGGAAGAAGAGTTGGTAAAGATAGCAGTTGATTGTTA
*
28328 CACAAAAGTTATTCGTATCAAGAAAGATGATTGTTTTGATACAAAGGAATACTTGAAGATAGCTT
716 CACAAAAGTTATTCATATCAAGAAAGATGATTGTTTTGATACAAAGGAATACTTGAAGATAGCTT
*
28393 TATATACAAAATGTGTGGAAGATGGCTATCAACTAAAAGTTAACAAATCAAGCAAAGATCGTTTC
781 TATATACAAAATGTGTGGAAGATGGCTATCAACTAAAAGTTAACAAATCAAGCAAAGATCATTTC
28458 GAAACAAAGTATAGGATTGACAAAAACTATACGTGGCGTATGATTGCAAAGAGGATAAAAGATTG
846 GAAACAAAGTATAGGATTGACAAAAACTATACGTGGCGTATGATTGCAAAGAGGATAAAAGATTG
28523 CGAAATGTTTCAAGTTAGGACTTTTATTGATAAACATACATCGGTTCAAGATTAGTATC
911 CGAAATGTTTCAAGTTAGGACTTTTATTGATAAACATACAT--GTTCAAGATTAGTATC
28582 TCATTGCTTACATTTGTGTTTCACAAGATGATGTTACATTGTATGTTGTTGAACCTAGAAGTAGT
1 TCATTGCTTACATTTGTGTTTCACAAGATGATGTTACATTGTATGTTGTTGAACCTAGAAGTAGT
* * *
28647 GAAGTTGGGTCAGTAACGGGTAATAATCAACTAGGTTATTCAGTCCCAGTTTATGGTACTCACAA
66 GAAGTTGGGTCAGTAACGAGCAATAATCAACTAGGTTATTCAGCCCCAGTTTATGGTACTCACAA
*
28712 TGTACAACGTTGTTATCAATCTCAAAATTTCATGGTTCCACCACAATTTCATCCCCAAGAAAATT
131 TGTACAACGTTGTTATCAACCTCAAAATTTCATGGTTCCACCACAATTTCATCCCCAAGAAAATT
* *
28777 TTGTTTCACCCCATTTCCAATACCAAACACAATATCAAACGCAATCTCAAAACCCACAACCTTTC
196 TTGTTTCACCACATTTCCAATACCAAACACAATATCAAACACAATCTCAAAACCCACAACCTTTC
*
28842 CCTAATCCAAATCCCAATCAACTTTCAGCACCAAATTCCGGTTTTCGTATTGACCAGTTAGACGA
261 CCTAATCCAAATCACAATCAACTTTCAGCACCAAATTCCGGTTTTCGTATTGACCAGTTAGACGA
* *
28907 TGATGAGCCAACATAAAAAAATTTGAGTACTAGTCAGTATTCGAAACATGATCTTGGTTAATACC
326 TGATGAGCCAACATAAAAAAATTTGAGTACTAGTCAGTATTCGAAACATGATCTTGATCAATACC
* *
28972 CGGACTTTGATCTTGGTCAATACTCGAATTTTGATGATGTTTCGGAAGAAGAATCAGACCATGCG
391 CGAACTTTGATCTTGGTCAATACTCGAATTTTGATGATGTTTCGGAAGAAGAAACAGACCATGCG
*
29037 TG-AATGATGTTGATATTGGTCAATACCCGAATTTTGATGATGAAATAACCGCTGACGAGGAAGA
456 TGTAATGATGTTGATATTGGTCAATACCCGAATTTTGATGATGAAACAACCGCTGACGAGGAAGA
29101 TGTTGATAATAATGAGGAGGAAGTTACGGCTGTGAATGAACATGTTGAACATCCATTCTATAATT
521 TGTTGATAATAATGAGGAGGAAGTTACGGCTGTGAATGAACATGTTGAACATCCATTCTATAATT
29166 CATATAACCCTGAAGAAGAAGTCCCCGAAGAAAATAAAAAGAAGAAAATGCCACGGGAGTATAAC
586 CATATAACCCTGAAGAAGAAGTCCCCGAAGAAAATAAAAAGAAGAAAATGCCACGGGAGTATAAC
29231 TGGAATATGCCAGAATTACTTCAAATACCGGAAGAAGAGTTGGTAAAGATAGCAGTTGATTGTTA
651 TGGAATATGCCAGAATTACTTCAAATACCGGAAGAAGAGTTGGTAAAGATAGCAGTTGATTGTTA
29296 CACAAAAGTTATTCATATCAAGAAAGATGATTGTTTTGATACAAAGGAATACTTGAAGATAGCTT
716 CACAAAAGTTATTCATATCAAGAAAGATGATTGTTTTGATACAAAGGAATACTTGAAGATAGCTT
29361 TATATACAAAATGTGTGGAAGATGGCTATCAACTAAAAGTTAACAAATCAAGCAAAGATCATTTC
781 TATATACAAAATGTGTGGAAGATGGCTATCAACTAAAAGTTAACAAATCAAGCAAAGATCATTTC
*
29426 GAAACAAAGTGTAGGATTGACAAAAACTATACGTGGCGTATGATTGCAAAGAGGATAAAAGATTG
846 GAAACAAAGTATAGGATTGACAAAAACTATACGTGGCGTATGATTGCAAAGAGGATAAAAGATTG
*
29491 TGAAATGTTTCAAGTTAGGACTTTTATTGATAAACATACATGTTCAAGA
911 CGAAATGTTTCAAGTTAGGACTTTTATTGATAAACATACATGTTCAAGA
29540 ACCCAAGTTT
Statistics
Matches: 933, Mismatches: 25, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
966 8 0.01
968 486 0.52
969 439 0.47
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (967 bp):
TCATTGCTTACATTTGTGTTTCACAAGATGATGTTACATTGTATGTTGTTGAACCTAGAAGTAGT
GAAGTTGGGTCAGTAACGAGCAATAATCAACTAGGTTATTCAGCCCCAGTTTATGGTACTCACAA
TGTACAACGTTGTTATCAACCTCAAAATTTCATGGTTCCACCACAATTTCATCCCCAAGAAAATT
TTGTTTCACCACATTTCCAATACCAAACACAATATCAAACACAATCTCAAAACCCACAACCTTTC
CCTAATCCAAATCACAATCAACTTTCAGCACCAAATTCCGGTTTTCGTATTGACCAGTTAGACGA
TGATGAGCCAACATAAAAAAATTTGAGTACTAGTCAGTATTCGAAACATGATCTTGATCAATACC
CGAACTTTGATCTTGGTCAATACTCGAATTTTGATGATGTTTCGGAAGAAGAAACAGACCATGCG
TGTAATGATGTTGATATTGGTCAATACCCGAATTTTGATGATGAAACAACCGCTGACGAGGAAGA
TGTTGATAATAATGAGGAGGAAGTTACGGCTGTGAATGAACATGTTGAACATCCATTCTATAATT
CATATAACCCTGAAGAAGAAGTCCCCGAAGAAAATAAAAAGAAGAAAATGCCACGGGAGTATAAC
TGGAATATGCCAGAATTACTTCAAATACCGGAAGAAGAGTTGGTAAAGATAGCAGTTGATTGTTA
CACAAAAGTTATTCATATCAAGAAAGATGATTGTTTTGATACAAAGGAATACTTGAAGATAGCTT
TATATACAAAATGTGTGGAAGATGGCTATCAACTAAAAGTTAACAAATCAAGCAAAGATCATTTC
GAAACAAAGTATAGGATTGACAAAAACTATACGTGGCGTATGATTGCAAAGAGGATAAAAGATTG
CGAAATGTTTCAAGTTAGGACTTTTATTGATAAACATACATGTTCAAGATTAGTATC
Found at i:30352 original size:16 final size:16
Alignment explanation
Indices: 30328--30360 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
30318 TACATACTAG
30328 AAGGCTGTAAAAGCTT
1 AAGGCTGTAAAAGCTT
*
30344 AAGGTTGTAAAAGCTT
1 AAGGCTGTAAAAGCTT
30360 A
1 A
30361 TCGGGAAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.27
Consensus pattern (16 bp):
AAGGCTGTAAAAGCTT
Found at i:31686 original size:16 final size:16
Alignment explanation
Indices: 31652--31686 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31642 TGTAGATTGA
* *
31652 AATTAAACAACAAATC
1 AATTAAACAAAAAAAC
31668 AATTAAACAAAAAAAC
1 AATTAAACAAAAAAAC
31684 AAT
1 AAT
31687 ATTTATTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (16 bp):
AATTAAACAAAAAAAC
Found at i:33118 original size:21 final size:21
Alignment explanation
Indices: 33092--33224 Score: 133
Period size: 21 Copynumber: 6.3 Consensus size: 21
33082 AGTATGCCAT
**
33092 GTGGATCCTGAACGGTGGGAG
1 GTGGATCCTGAACAATGGGAG
**
33113 GTGGATCCTGAATGATGGGAG
1 GTGGATCCTGAACAATGGGAG
* * * **
33134 G-GGCCTCTTGAACGATGACAG
1 GTGG-ATCCTGAACAATGGGAG
* *
33155 GTGAATCCTGAACAATGGGGG
1 GTGGATCCTGAACAATGGGAG
*
33176 GTAGATCCTGAACAATGGGAG
1 GTGGATCCTGAACAATGGGAG
*
33197 GTGGATCCTGAACAATGGTAG
1 GTGGATCCTGAACAATGGGAG
33218 GTGGATC
1 GTGGATC
33225 GGGCTTCTTC
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
20 2 0.02
21 88 0.97
22 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.38, T:0.21
Consensus pattern (21 bp):
GTGGATCCTGAACAATGGGAG
Found at i:33390 original size:4 final size:4
Alignment explanation
Indices: 33358--33403 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
33348 GGGCCGCTAA
* * * *
33358 AAAT AAAT TAAT ACAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
33404 TGCCGAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:33592 original size:63 final size:63
Alignment explanation
Indices: 33525--33687 Score: 181
Period size: 63 Copynumber: 2.6 Consensus size: 63
33515 CGCAGAGCAG
* *
33525 CTACCTCATCACGTAAAACAAATACCTCACCACGTAAAGCACCATTGTCATCACGTAACACAA-
1 CTACCTCATCACGTAAAACAACTACCTCATCACGTAAAGCACCATTGTCATCACGTAA-ACAAC
* * ** * *
33588 CTACCTCACCAAG-AAAA-AACTCTACCTCATCACGCCATGCACCATTGTCATCACGTAAAGAAC
1 CTACCTCATCACGTAAAACAA--CTACCTCATCACGTAAAGCACCATTGTCATCACGTAAACAAC
*
33651 CTACCTCATAACGTAAAAC-ACTGACCTCATCACGTAA
1 CTACCTCATCACGTAAAACAACT-ACCTCATCACGTAA
33688 CTCCCCTAAC
Statistics
Matches: 81, Mismatches: 13, Indels: 12
0.76 0.12 0.11
Matches are distributed among these distances:
61 2 0.02
62 9 0.11
63 65 0.80
64 5 0.06
ACGTcount: A:0.38, C:0.34, G:0.09, T:0.20
Consensus pattern (63 bp):
CTACCTCATCACGTAAAACAACTACCTCATCACGTAAAGCACCATTGTCATCACGTAAACAAC
Found at i:33659 original size:21 final size:22
Alignment explanation
Indices: 33635--33687 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
33625 TGCACCATTG
33635 TCATCACGTAAAGAAC-CT-ACC
1 TCATCACGTAAA-AACACTGACC
*
33656 TCATAACGT-AAAACACTGACC
1 TCATCACGTAAAAACACTGACC
33677 TCATCACGTAA
1 TCATCACGTAA
33688 CTCCCCTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.11
20 4 0.15
21 19 0.70
22 1 0.04
ACGTcount: A:0.40, C:0.30, G:0.09, T:0.21
Consensus pattern (22 bp):
TCATCACGTAAAAACACTGACC
Found at i:33861 original size:42 final size:42
Alignment explanation
Indices: 33802--33912 Score: 150
Period size: 42 Copynumber: 2.6 Consensus size: 42
33792 GTGATGGAAT
* * * **
33802 AGGTGATGGCTCTCGGTGTCGAGGTGTAGAATCGGCTCGATC
1 AGGTGATGGATCTCGGTGTCGAAGTGGAGAAGAGGCTCGATC
*
33844 AGGTGATGGATCTCGGTGTCGAAGTGGAGAAGAGGCTCGATG
1 AGGTGATGGATCTCGGTGTCGAAGTGGAGAAGAGGCTCGATC
* *
33886 AGGTAATGGATCTCGGTGCCGAAGTGG
1 AGGTGATGGATCTCGGTGTCGAAGTGG
33913 GGGGTGCTCA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.21, C:0.15, G:0.41, T:0.23
Consensus pattern (42 bp):
AGGTGATGGATCTCGGTGTCGAAGTGGAGAAGAGGCTCGATC
Found at i:35459 original size:14 final size:14
Alignment explanation
Indices: 35442--35469 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35432 CAACTCGAAA
35442 ATGAAATTCGCAAC
1 ATGAAATTCGCAAC
35456 ATGAAATTCGCAAC
1 ATGAAATTCGCAAC
35470 GCGAAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.21
Consensus pattern (14 bp):
ATGAAATTCGCAAC
Found at i:35487 original size:34 final size:34
Alignment explanation
Indices: 35405--35487 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
35395 TTTATTCTTG
*
35405 AAACTTAAATTCGCAACATGAAAAGCGCAACTCGA
1 AAAC-TAAATTCGCAACATGAAAAGCGCAACGCGA
**
35440 AAA-TGAAATTCGCAACATGAAATTCGCAACGCGA
1 AAACT-AAATTCGCAACATGAAAAGCGCAACGCGA
*
35474 AAACTAAAATCGCA
1 AAACTAAATTCGCA
35488 TTACGAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 1 0.02
34 37 0.88
35 4 0.10
ACGTcount: A:0.47, C:0.22, G:0.14, T:0.17
Consensus pattern (34 bp):
AAACTAAATTCGCAACATGAAAAGCGCAACGCGA
Found at i:35894 original size:22 final size:22
Alignment explanation
Indices: 35869--35915 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
35859 GATGGAGGGG
*
35869 GTCGCCGGATATGGGGACGAAT
1 GTCGCCAGATATGGGGACGAAT
*
35891 GTCGCCAGATATGGGGACGGAT
1 GTCGCCAGATATGGGGACGAAT
35913 GTC
1 GTC
35916 ACCTTAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.40, T:0.19
Consensus pattern (22 bp):
GTCGCCAGATATGGGGACGAAT
Found at i:36105 original size:20 final size:20
Alignment explanation
Indices: 36080--36125 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
36070 CGTGCTTTGG
*
36080 GAATTTAACTTCTGTGTTGC
1 GAATTTAACCTCTGTGTTGC
*
36100 GAATTTGACCTCTGTGTTGC
1 GAATTTAACCTCTGTGTTGC
36120 GAATTT
1 GAATTT
36126 CAAAACTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (20 bp):
GAATTTAACCTCTGTGTTGC
Found at i:36124 original size:40 final size:38
Alignment explanation
Indices: 36080--36186 Score: 90
Period size: 40 Copynumber: 2.7 Consensus size: 38
36070 CGTGCTTTGG
**
36080 GAATTTAACTTCTGTGTTGCGAATTTGACCTCTGTGTTGC
1 GAATTTAA-TTCTGTGTTGCGAATTTGA-AACTGTGTTGC
** *
36120 GAATTTCAAAACTGAGTTGCGAATTTGGAAACTGTGTTGC
1 GAATTT-AATTCTGTGTTGCGAATTT-GAAACTGTGTTGC
* *
36160 GAAATTGGAGTTC-GTGTTGCGAATTTG
1 G-AATT-TAATTCTGTGTTGCGAATTTG
36187 TTAGTTATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
39 1 0.02
40 42 0.79
41 10 0.19
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.37
Consensus pattern (38 bp):
GAATTTAATTCTGTGTTGCGAATTTGAAACTGTGTTGC
Found at i:36167 original size:20 final size:20
Alignment explanation
Indices: 36091--36186 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
36081 AATTTAACTT
**
36091 CTGTGTTGCGAATTT-GACCT
1 CTGTGTTGCGAATTTGGA-AA
**
36111 CTGTGTTGCGAATTTCAAAA
1 CTGTGTTGCGAATTTGGAAA
*
36131 CTGAGTTGCGAATTTGGAAA
1 CTGTGTTGCGAATTTGGAAA
* *
36151 CTGTGTTGCGAAATTGG-AG
1 CTGTGTTGCGAATTTGGAAA
*
36170 TTCGTGTTGCGAATTTG
1 CT-GTGTTGCGAATTTG
36187 TTAGTTATTT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
19 2 0.03
20 60 0.95
21 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.36
Consensus pattern (20 bp):
CTGTGTTGCGAATTTGGAAA
Found at i:36630 original size:26 final size:26
Alignment explanation
Indices: 36601--36659 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
36591 TATTATTAAG
*
36601 TATATTACTTATT-AAAATAATAATAT
1 TATAATAC-TATTGAAAATAATAATAT
* *
36627 TATAATACTATTGAAACTTATAATAT
1 TATAATACTATTGAAAATAATAATAT
*
36653 TAAAATA
1 TATAATA
36660 AGAATATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (26 bp):
TATAATACTATTGAAAATAATAATAT
Found at i:36795 original size:22 final size:22
Alignment explanation
Indices: 36733--36804 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
36723 TTATGAAATT
*
36733 AATAAATAATATTATTTTTATTAA
1 AATAAAT-ATATTA-TATTATTAA
**
36757 TAATTTAT-TA-TATATTATTAA
1 -AATAAATATATTATATTATTAA
*
36778 AATAAATATATTATATTATAAA
1 AATAAATATATTATATTATTAA
36800 AATAA
1 AATAA
36805 TTTAATAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
20 5 0.13
21 10 0.26
22 17 0.44
23 2 0.05
25 5 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATAAATATATTATATTATTAA
Found at i:37265 original size:34 final size:33
Alignment explanation
Indices: 37208--37306 Score: 173
Period size: 34 Copynumber: 3.0 Consensus size: 33
37198 AACGTAATCT
37208 CTTAAATTAAT-AAAAAAATTCAAAGATTGCGA
1 CTTAAATTAATAAAAAAAATTCAAAGATTGCGA
37240 CTTAAATTAATAAAACAAAATTCAAAGATTGCGA
1 CTTAAATTAATAAAA-AAAATTCAAAGATTGCGA
*
37274 CTTAAATTAATAAAAATAATTCAAAGATTGCGA
1 CTTAAATTAATAAAAAAAATTCAAAGATTGCGA
37307 TTGCTTTATT
Statistics
Matches: 64, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
32 11 0.17
33 20 0.31
34 33 0.52
ACGTcount: A:0.53, C:0.10, G:0.09, T:0.28
Consensus pattern (33 bp):
CTTAAATTAATAAAAAAAATTCAAAGATTGCGA
Found at i:37597 original size:10 final size:10
Alignment explanation
Indices: 37582--37639 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
37572 CGACCTCCAT
37582 GCCCATGCAC
1 GCCCATGCAC
37592 GCCCATGCAC
1 GCCCATGCAC
*
37602 GCCCAT-CTC
1 GCCCATGCAC
* *
37611 GCCAAAGGAGCAC
1 GCC-CA--TGCAC
37624 GCCCATGCAC
1 GCCCATGCAC
37634 GCCCAT
1 GCCCAT
37640 CCATGCCCTG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 5 0.13
10 27 0.71
12 1 0.03
13 5 0.13
ACGTcount: A:0.22, C:0.47, G:0.21, T:0.10
Consensus pattern (10 bp):
GCCCATGCAC
Found at i:37922 original size:29 final size:29
Alignment explanation
Indices: 37861--37944 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 29
37851 ATGAATCCTT
** * **
37861 GGTCGCCCCGAGTGCATGGCGACCTCCTT
1 GGTCGCCGGGAGTGCATGGCGACCTACGA
* *
37890 GGTCGCCGGGCGTGCATGGCGACCTAGGA
1 GGTCGCCGGGAGTGCATGGCGACCTACGA
*
37919 GGTCGCTGGGAGTGCATGGCGACCTA
1 GGTCGCCGGGAGTGCATGGCGACCTA
37945 TGGTTTGGGT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.13, C:0.30, G:0.39, T:0.18
Consensus pattern (29 bp):
GGTCGCCGGGAGTGCATGGCGACCTACGA
Found at i:39192 original size:24 final size:24
Alignment explanation
Indices: 39161--39220 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
39151 TTCATTTATT
*
39161 GTGTTCGTTTATGTTCGTTCGTTC
1 GTGTTCGTTTATGTCCGTTCGTTC
39185 GTGTTCGTTTATGTCCGTTCGTTC
1 GTGTTCGTTTATGTCCGTTCGTTC
39209 GTGTTCGTTTAT
1 GTGTTCGTTTAT
39221 TTATTAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.05, C:0.17, G:0.25, T:0.53
Consensus pattern (24 bp):
GTGTTCGTTTATGTCCGTTCGTTC
Found at i:43216 original size:3 final size:3
Alignment explanation
Indices: 43204--43268 Score: 53
Period size: 3 Copynumber: 22.0 Consensus size: 3
43194 ATCCATTTTT
* * * * * *
43204 TTA TTT TTA TTA TTA GT- TTA TTTA TTA TAA ATA TTA TTA TAA ATA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
43249 TT- TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
43269 GTAATATAAT
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
2 3 0.06
3 41 0.87
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:43240 original size:12 final size:12
Alignment explanation
Indices: 43225--43266 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
43215 ATTAGTTTAT
43225 TTATTATAAATA
1 TTATTATAAATA
43237 TTATTATAAATA
1 TTATTATAAATA
* *
43249 TT-TTATTATTA
1 TTATTATAAATA
43260 TTATTAT
1 TTATTAT
43267 TAGTAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATTATAAATA
Found at i:44885 original size:20 final size:19
Alignment explanation
Indices: 44860--44901 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
44850 CTATTTTATA
44860 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
44880 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
44899 AAT
1 AAT
44902 ATCGAGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:52918 original size:114 final size:114
Alignment explanation
Indices: 52718--52936 Score: 375
Period size: 114 Copynumber: 1.9 Consensus size: 114
52708 ACGTTCTCGG
* * *
52718 AGTAGAAATAAGGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1 AGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTCG
* *
52783 GTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCAT
66 GTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGCTCAT
52832 AGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTCG
1 AGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTCG
* *
52897 GTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 GTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAA
52937 CTGCATGATC
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 98 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (114 bp):
AGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTCG
GTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGCTCAT
Found at i:54190 original size:75 final size:75
Alignment explanation
Indices: 54043--54217 Score: 219
Period size: 75 Copynumber: 2.3 Consensus size: 75
54033 AAAAAGAAAC
* * *
54043 AAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAGGAATGTTGATGTATCCTGAATAT
1 AAATGTTGGGGCATGCTGAAAGCCCTTTTCAATCAGAATCAAGAATGTTGATGTATCCTGAACAT
*
54108 TTATATC-AT
66 TCATATCAAT
* **
54117 CAAAATGTTGGGGCATGCTGAAAGCCC-TTTCAATCAGAATGAAGAATGTTGATGTATTTTGAAC
1 --AAATGTTGGGGCATGCTGAAAGCCCTTTTCAATCAGAATCAAGAATGTTGATGTATCCTGAAC
* *
54181 GTTCGTATCAAT
64 ATTCATATCAAT
* *
54193 AATTGTTGGGGCATGTTGAAAGCCC
1 AAATGTTGGGGCATGCTGAAAGCCC
54218 ACAACATCCT
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
74 23 0.26
75 38 0.44
76 26 0.30
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (75 bp):
AAATGTTGGGGCATGCTGAAAGCCCTTTTCAATCAGAATCAAGAATGTTGATGTATCCTGAACAT
TCATATCAAT
Found at i:55586 original size:22 final size:22
Alignment explanation
Indices: 55555--55609 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
55545 ATCTACACTC
*
55555 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
55577 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
55599 TTCAAAGATGA
1 TTCAAAGATGA
55610 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:56500 original size:112 final size:112
Alignment explanation
Indices: 56025--57503 Score: 1607
Period size: 112 Copynumber: 12.9 Consensus size: 112
56015 CCATCATTTA
* * *
56025 ATGGATCAACATTGCC-G-GAAGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGT
1 ATGGATCAACTTTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGT
*
56088 TCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATTCATCATTCG
65 TCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTGAATTCATCACTCG
* * * ** * *
56136 ATGGATCAGCATTACCAG-GTCGAGTTCATAATGAGAAGAAATCATCTGAAGAAGAAAGAAGAAG
1 ATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAG
* * ** *
56200 TTCATAATGAGAAGAACTTGTTCAACTTTTTACTCAAATCCATCACTCG
64 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCG
* * ** * *
56249 ATGGATCAACATTACCAG-GTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGATG
1 ATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAG
* * ** *
56313 TTCATAATGAGAAGAACTTGTTCAACTTTTTACTCAAATCCATCACTCG
64 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCG
* * * * *
56362 ATGGATCAACATTACCAG-GTAGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAAT
1 ATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGT
* * **
56426 TCATAATGAGAAGAATTTGTTCAACTTTTTATTTGAATTCATCACTCG
65 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCG
*
56474 ATGGATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGT
* * * * *
56539 TCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCATAGAAGGAGATAG
65 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGA--AT-TCAT-----CA-CTCG
** * * *
56596 ATCAACATCAACTTTTCCAGAGGAAGTTCATAATGAAAAGAACTCATCTGAAGAGGAAGAAGAAA
1 AT--GGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAG
* *
56661 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTAG
64 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCG
* * **
56710 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTAAAGAAAAAGAAGAAGTT
1 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTT
* * * *
56775 CATAATGAGAAGAACTTGTTCAACCTTTTGCATG-ACTCTATCATTGAAGGAG
66 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTC-ATCACT-----CG
* *
56827 ATAGATCAACATCAACTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAA
1 AT-G-----GATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAA
* *
56892 GAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTCG
60 GAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCG
* *
56945 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGA-AAAGAAGAAGTT
1 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTT
* * * ***
57009 CATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCATAGAAGGAG
66 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTGA--AT-TCAT--CACTCG
* *
57061 ATAGATCAACATCACTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAG
1 ATGGAT---CA--ACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAG
* *
57126 AAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTCG
61 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCG
* **
57178 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAAAAGAAGAAGTT
1 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTT
* * * * *
57243 CATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCATAGAAGGAGATAG
66 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTGA--AT-TCAT-----CA-CTCG
** * *
57299 ATCAACATCAACTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAA
1 AT--GGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAG
57364 TTCATAATGAGAAGAA-TTGTT-AACCTTTTGCTTGAATTCATCACTCG
64 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCG
* *
57411 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGA--AAGAAGAAGCT
1 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTT
*
57474 -ATAATGAGAAGAGCTTGTTCAACCTTTTGC
66 CATAATGAGAAGAACTTGTTCAACCTTTTGC
57504 ATAACTCTAT
Statistics
Matches: 1183, Mismatches: 131, Indels: 110
0.83 0.09 0.08
Matches are distributed among these distances:
107 12 0.01
108 14 0.01
109 10 0.01
110 46 0.04
111 60 0.05
112 355 0.30
113 252 0.21
114 16 0.01
115 6 0.01
116 11 0.01
117 12 0.01
118 8 0.01
119 7 0.01
120 6 0.01
121 61 0.05
122 52 0.04
123 208 0.18
124 47 0.04
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (112 bp):
ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTT
CATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCG
Found at i:56795 original size:20 final size:20
Alignment explanation
Indices: 56733--56796 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
56723 TCCAGAGAAA
56733 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* * * ***
56753 -ATC-TAAAGAAAAAGAAGAA
1 GTTCATAATG-AGAAGAACTT
56772 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
56792 GTTCA
1 GTTCA
56797 ACCTTTTGCA
Statistics
Matches: 29, Mismatches: 12, Indels: 6
0.62 0.26 0.13
Matches are distributed among these distances:
18 4 0.14
19 8 0.28
20 13 0.45
21 4 0.14
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:56875 original size:235 final size:235
Alignment explanation
Indices: 56158--57576 Score: 2184
Period size: 235 Copynumber: 6.1 Consensus size: 235
56148 TACCAGGTCG
* * * *
56158 AGTTCATAATGAGAAGAAATCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* * ** * * * **
56223 AACTTTTTACTCAAATCCATCACTCGATGGATCAACATTACCAG-GTCGAGTTCATAATGAGAAG
65 AACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAG
* *
56287 AA-TTCATCTGAAGAAGGAAGAAGATGTTCATAATGAGAAGAACTTGTTCAA-CTTTT---T-AC
129 AACTT-ATCTGAAGAA-AAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAC
* * *** * * *
56346 TCAAATCCAT--CACTCGATGGATC-A-A-C-A--TTACCAG-GTA
192 TC-TAT-CATAGAAGGAGATAGATCAACATCAACTTTTCCAGAGGA
*
56383 GAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 -AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* ** *
56448 AACTTTTTATTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGA
65 AACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGA
* *
56513 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTC
130 ACTTATCTGAAGAA-AAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTC
56578 TATCATAGAAGGAGATAGATCAACATCAACTTTTCCAGAGGA
194 TATCATAGAAGGAGATAGATCAACATCAACTTTTCCAGAGGA
*
56620 AGTTCATAATGAAAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
*
56685 ACCTTTTGCTTGAATTCATCACTAGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
66 ACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
*
56750 CTTATCTAAAGAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTA
131 CTTATCTGAAGAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTA
*
56815 TCATTGAAGGAGATAGATCAACATCAACTTTTCCAGAGGA
196 TCATAGAAGGAGATAGATCAACATCAACTTTTCCAGAGGA
56855 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
56920 ACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
66 ACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
56985 CTTATCTGAAG-AAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTA
131 CTTATCTGAAGAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTA
57049 TCATAGAAGGAGATAGATCAACATC-ACTTTTCCAGAGGA
196 TCATAGAAGGAGATAGATCAACATCAACTTTTCCAGAGGA
57088 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
57153 ACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
66 ACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
57218 CTTATCTGAAGAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTA
131 CTTATCTGAAGAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTA
57283 TCATAGAAGGAGATAGATCAACATCAACTTTTCCAGAGGA
196 TCATAGAAGGAGATAGATCAACATCAACTTTTCCAGAGGA
57323 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAA-TTGTT-A
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
57386 ACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
66 ACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
* * *
57451 CTTATCTGAAG--AAAGAAGAAGCT-ATAATGAGAAGAGCTTGTTCAACCTTTTGCATAACTCTA
131 CTTATCTGAAGAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTA
* * **
57513 TCACAGAAGGA-ATAGATCAGCATCAACATTGTCATCCAGAAAA
196 TCATAGAAGGAGATAGATCAACATCAAC-TT-T--TCCAGAGGA
57556 AGTTTCATAATGAGAAGAACT
1 AG-TTCATAATGAGAAGAACT
57577 ATTTGAAAGA
Statistics
Matches: 1124, Mismatches: 46, Indels: 38
0.93 0.04 0.03
Matches are distributed among these distances:
225 132 0.12
226 34 0.03
228 3 0.00
229 18 0.02
230 61 0.05
231 13 0.01
232 1 0.00
233 242 0.22
234 179 0.16
235 299 0.27
236 140 0.12
237 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (235 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
ACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
CTTATCTGAAGAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTA
TCATAGAAGGAGATAGATCAACATCAACTTTTCCAGAGGA
Found at i:57029 original size:20 final size:20
Alignment explanation
Indices: 56968--57030 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
56958 TCCAGAGAAA
56968 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* * ***
56988 -ATC-TGAA-GAAAAGAAGAA
1 GTTCAT-AATGAGAAGAACTT
57006 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
57026 GTTCA
1 GTTCA
57031 ACCTTTTGCA
Statistics
Matches: 29, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
18 8 0.28
19 8 0.28
20 13 0.45
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:57263 original size:468 final size:469
Alignment explanation
Indices: 56158--57576 Score: 2198
Period size: 468 Copynumber: 3.0 Consensus size: 469
56148 TACCAGGTCG
* * * *
56158 AGTTCATAATGAGAAGAAATCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* * ** * * * **
56223 AACTTTTTACTCAAATCCATCACTCGATGGATCAACATTACCAG-GTCGAGTTCATAATGAGAAG
65 AACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAG
* *
56287 AA-TTCATCTGAAGAAGGAAGAAGATGTTCATAATGAGAAGAACTTGTTCAA-CTTTT---T-AC
129 AACTT-ATCTGAAGAA-AAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAC
* * *** * * * *
56346 TCAAATCCA-T-CACTCGATGGATC-A-A-C-A--TTACCAG-GTAGAGTTCATAATAAGAAGAA
192 TC-TAT-CATTGAAGGAGATAGATCAACATCAACTTTTCCAGAGGA-AGTTCATAATGAGAAGAA
* **
56402 CTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTATTTGAATTCA
254 CTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCA
* *
56467 TCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAG
319 TCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAA--AAG
56532 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCATAGAAGGAGATAGA
382 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCATAGAAGGAGATAGA
56597 TCAACATCAACTTTTCCAGAGGA
447 TCAACATCAACTTTTCCAGAGGA
*
56620 AGTTCATAATGAAAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
*
56685 ACCTTTTGCTTGAATTCATCACTAGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
66 ACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
*
56750 CTTATCTAAAGAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTA
131 CTTATCTGAAGAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTA
56815 TCATTGAAGGAGATAGATCAACATCAACTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCT
196 TCATTGAAGGAGATAGATCAACATCAACTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCT
56880 GAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTCG
261 GAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTCG
56945 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAAAGAAGAAGTTC
326 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAAAGAAGAAGTTC
57010 ATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCATAGAAGGAGATAGATCAACATC-
391 ATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCATAGAAGGAGATAGATCAACATCA
57074 ACTTTTCCAGAGGA
456 ACTTTTCCAGAGGA
57088 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
57153 ACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
66 ACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
57218 CTTATCTGAAGAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTA
131 CTTATCTGAAGAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTA
*
57283 TCATAGAAGGAGATAGATCAACATCAACTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCT
196 TCATTGAAGGAGATAGATCAACATCAACTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCT
57348 GAAGAGGAAGAAGAAATTCATAATGAGAAGAA-TTGTT-AACCTTTTGCTTGAATTCATCACTCG
261 GAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTCG
*
57411 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AAAGAAGAAGCT-
326 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAAAGAAGAAGTTC
* * * *
57474 ATAATGAGAAGAGCTTGTTCAACCTTTTGCATAACTCTATCACAGAAGGA-ATAGATCAGCATCA
391 ATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCATAGAAGGAGATAGATCAACATCA
**
57538 ACATTGTCATCCAGAAAA
456 AC-TT-T--TCCAGAGGA
57556 AGTTTCATAATGAGAAGAACT
1 AG-TTCATAATGAGAAGAACT
57577 ATTTGAAAGA
Statistics
Matches: 892, Mismatches: 43, Indels: 37
0.92 0.04 0.04
Matches are distributed among these distances:
460 33 0.04
461 100 0.11
462 30 0.03
463 14 0.02
464 53 0.06
465 25 0.03
466 79 0.09
467 6 0.01
468 312 0.35
469 95 0.11
471 143 0.16
472 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (469 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
ACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
CTTATCTGAAGAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTA
TCATTGAAGGAGATAGATCAACATCAACTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCT
GAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCACTCG
ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAAAGAAGAAGTTC
ATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCATAGAAGGAGATAGATCAACATCA
ACTTTTCCAGAGGA
Found at i:57436 original size:110 final size:109
Alignment explanation
Indices: 57305--57503 Score: 312
Period size: 110 Copynumber: 1.8 Consensus size: 109
57295 ATAGATCAAC
* *
57305 ATCAACTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATA
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA--AAGAAGAAACT-ATA
57370 ATGAGAAGA-ATTGTT-AACCTTTTGCTTGAATTCATCACTCGATGG
63 ATGAGAAGAGATTGTTCAACCTTTTGCTTGAATTCATCACTCGATGG
* *
57415 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAAGAAGAAGCTATAATG
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAACTATAATG
*
57480 AGAAGAGCTTGTTCAACCTTTTGC
66 AGAAGAGATTGTTCAACCTTTTGC
57504 ATAACTCTAT
Statistics
Matches: 82, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
107 12 0.15
108 14 0.17
109 10 0.12
110 46 0.56
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (109 bp):
ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAACTATAATG
AGAAGAGATTGTTCAACCTTTTGCTTGAATTCATCACTCGATGG
Found at i:57870 original size:3 final size:3
Alignment explanation
Indices: 57858--57921 Score: 51
Period size: 3 Copynumber: 21.3 Consensus size: 3
57848 TTTTATTTTT
* * * * *
57858 TTA TTT TTA TTA TTA GTTA TTTA TTA TAA ATA TTA TTA TAA ATA TT-
1 TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
57904 TTA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA T
57922 ATAATAAATT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:57906 original size:26 final size:26
Alignment explanation
Indices: 57877--57927 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
57867 TTATTAGTTA
57877 TTTATTATAAATATTATTATA-AATAT
1 TTTATTATAAATA-TATTATATAATAT
* *
57903 TTTATTATTATTATATTATATAATA
1 TTTATTATAAATATATTATATAATA
57928 AATTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTATTATAAATATATTATATAATAT
Found at i:57921 original size:14 final size:14
Alignment explanation
Indices: 57864--57921 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
57854 TTTTTTATTT
57864 TTATTATTAGTTAT-
1 TTATTATTA-TTATA
*
57878 TTATTA-TA-AATA
1 TTATTATTATTATA
* * *
57890 TTATTATAAATATT
1 TTATTATTATTATA
57904 TTATTATTATTATA
1 TTATTATTATTATA
57918 TTAT
1 TTAT
57922 ATAATAAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
11 2 0.06
12 6 0.18
13 3 0.09
14 23 0.68
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
TTATTATTATTATA
Found at i:59526 original size:20 final size:19
Alignment explanation
Indices: 59501--59542 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
59491 CTATTTTATA
59501 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
59521 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
59540 AAT
1 AAT
59543 ATCGAGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:59614 original size:21 final size:21
Alignment explanation
Indices: 59589--59628 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59579 CCTTTTCTGA
59589 TATTTCTAAATAAATAAATAT
1 TATTTCTAAATAAATAAATAT
* *
59610 TATTTGTAAATATATAAAT
1 TATTTCTAAATAAATAAAT
59629 TAATATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (21 bp):
TATTTCTAAATAAATAAATAT
Found at i:61035 original size:14 final size:14
Alignment explanation
Indices: 61016--61086 Score: 55
Period size: 13 Copynumber: 5.4 Consensus size: 14
61006 CTAAATAAAT
61016 AAATAAATAAAACA
1 AAATAAATAAAACA
*
61030 AAATAAA-AAAATA
1 AAATAAATAAAACA
61043 AATATAAA-AGAAACA
1 AA-ATAAATA-AAACA
61058 AAAT---TAAAACA
1 AAATAAATAAAACA
* *
61069 AAA-ATATAAAAGA
1 AAATAAATAAAACA
61082 AAATA
1 AAATA
61087 TACTAAAAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
11 8 0.17
12 1 0.02
13 16 0.34
14 16 0.34
15 6 0.13
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.15
Consensus pattern (14 bp):
AAATAAATAAAACA
Found at i:61049 original size:28 final size:29
Alignment explanation
Indices: 61007--61083 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 29
60997 AAAAATGAAC
* *
61007 TAAATAAATAAATA-AATA-AAACAAAA-
1 TAAAAAAATAAATATAAAAGAAACAAAAT
61033 TAAAAAAATAAATATAAAAGAAACAAAAT
1 TAAAAAAATAAATATAAAAGAAACAAAAT
*
61062 TAAAACAA-AAATATAAAAGAAA
1 TAAAAAAATAAATATAAAAGAAA
61084 ATATACTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 13 0.29
27 3 0.07
28 22 0.49
29 7 0.16
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.17
Consensus pattern (29 bp):
TAAAAAAATAAATATAAAAGAAACAAAAT
Found at i:61084 original size:12 final size:12
Alignment explanation
Indices: 61022--61088 Score: 55
Period size: 12 Copynumber: 5.2 Consensus size: 12
61012 AAATAAATAA
*
61022 ATAAAACAAAAT
1 ATAAAAAAAAAT
61034 A-AAAAAATAAAT
1 ATAAAAAA-AAAT
*
61046 ATAAAAGAAACAAA
1 ATAAAA-AAA-AAT
61060 ATTAAAACAAAAAT
1 A-TAAAA-AAAAAT
*
61074 ATAAAAGAAAAT
1 ATAAAAAAAAAT
61086 ATA
1 ATA
61089 CTAAAAGAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
11 5 0.11
12 14 0.31
13 10 0.22
14 8 0.18
15 8 0.18
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.16
Consensus pattern (12 bp):
ATAAAAAAAAAT
Found at i:61095 original size:15 final size:13
Alignment explanation
Indices: 61029--61097 Score: 61
Period size: 15 Copynumber: 5.1 Consensus size: 13
61019 TAAATAAAAC
61029 AAAATA-AAAA-A
1 AAAATATAAAAGA
61040 ATAAATATAAAAGA
1 A-AAATATAAAAGA
* *
61054 AACAAAATTAAAACA
1 AA-AATA-TAAAAGA
61069 AAAATATAAAAGA
1 AAAATATAAAAGA
61082 AAATATACTAAAAGA
1 AAA-ATA-TAAAAGA
61097 A
1 A
61098 TGCGAATAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
11 1 0.02
12 5 0.11
13 14 0.30
14 11 0.23
15 16 0.34
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAATATAAAAGA
Found at i:62399 original size:22 final size:22
Alignment explanation
Indices: 62371--62423 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
62361 GCAGCGGGTC
62371 GCTCCAGCGGGCCGGTTCAAGT
1 GCTCCAGCGGGCCGGTTCAAGT
** * **
62393 GCTCCAGTAGGTCGGTTCGGGT
1 GCTCCAGCGGGCCGGTTCAAGT
62415 GCTCCAGCG
1 GCTCCAGCG
62424 AGTCTTGAAC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.11, C:0.30, G:0.38, T:0.21
Consensus pattern (22 bp):
GCTCCAGCGGGCCGGTTCAAGT
Done.