Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold7
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: 6555642
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 349864 characters in sequence are not A, C, G, or T
File 28 of 37
Found at i:4873802 original size:32 final size:32
Alignment explanation
Indices: 4873749--4873811 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
4873739 AATTGTTCAG
*
4873749 GTCATTTCAAGTTCGGATCATTTCAGGTTCGA
1 GTCATTTCAAGTTAGGATCATTTCAGGTTCGA
* *
4873781 GTCATTTCGAGTTTAGG-TCATTTCGGGTTCG
1 GTCATTTCAAG-TTAGGATCATTTCAGGTTCG
4873812 GGTCGATCGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.40
Consensus pattern (32 bp):
GTCATTTCAAGTTAGGATCATTTCAGGTTCGA
Found at i:4873815 original size:16 final size:16
Alignment explanation
Indices: 4873743--4873815 Score: 65
Period size: 16 Copynumber: 4.6 Consensus size: 16
4873733 CTGGTTAATT
*
4873743 GTTCAGGTCATTTCAA
1 GTTCGGGTCATTTCAA
* *
4873759 GTTCGGATCATTTCAG
1 GTTCGGGTCATTTCAA
* *
4873775 GTTCGAGTCATTTCGA
1 GTTCGGGTCATTTCAA
** **
4873791 GTTTAGGTCATTTCGG
1 GTTCGGGTCATTTCAA
4873807 GTTCGGGTC
1 GTTCGGGTC
4873816 GATCGGTTTC
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.16, C:0.18, G:0.27, T:0.38
Consensus pattern (16 bp):
GTTCGGGTCATTTCAA
Found at i:4878653 original size:21 final size:22
Alignment explanation
Indices: 4878629--4878685 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
4878619 AATGATTGTG
4878629 TTTGTAGTCATTGTT-GTCTTA
1 TTTGTAGTCATTGTTAGTCTTA
*
4878650 TTTG--GTGC-TTGTATAGTCTTG
1 TTTGTAGT-CATTGT-TAGTCTTA
4878671 TTTGTAGTCATTGTT
1 TTTGTAGTCATTGTT
4878686 CCCTCATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 11
0.71 0.02 0.27
Matches are distributed among these distances:
19 6 0.21
20 2 0.07
21 13 0.45
22 2 0.07
23 6 0.21
ACGTcount: A:0.12, C:0.09, G:0.23, T:0.56
Consensus pattern (22 bp):
TTTGTAGTCATTGTTAGTCTTA
Found at i:4878894 original size:19 final size:19
Alignment explanation
Indices: 4878850--4878905 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
4878840 CTGCCAGTTT
* **
4878850 CATGTATTGATACAACTGTG
1 CATGTATCGATACAA-TGAA
4878870 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
4878889 CATGTATCGATACAATG
1 CATGTATCGATACAATG
4878906 TATTGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:4879067 original size:22 final size:22
Alignment explanation
Indices: 4879040--4879081 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
4879030 ATTTGGTTTA
4879040 TTCGATTTAAGGCTTAAAAACC
1 TTCGATTTAAGGCTTAAAAACC
*
4879062 TTCGATTTAAGGCTTGAAAA
1 TTCGATTTAAGGCTTAAAAA
4879082 TATTTATACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (22 bp):
TTCGATTTAAGGCTTAAAAACC
Found at i:4879489 original size:22 final size:23
Alignment explanation
Indices: 4879457--4879502 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
4879447 AATATCAAAG
*
4879457 TTTCTCTCCCTTTA-AAAAAAAT
1 TTTCTCCCCCTTTACAAAAAAAT
*
4879479 TTTCTCCCCCTTTACAAAATAAT
1 TTTCTCCCCCTTTACAAAAAAAT
4879502 T
1 T
4879503 AAGGCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (23 bp):
TTTCTCCCCCTTTACAAAAAAAT
Found at i:4882861 original size:16 final size:16
Alignment explanation
Indices: 4882840--4882870 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4882830 CAACATTTCC
*
4882840 TCTATTAAAACTTTTT
1 TCTATTAAAAATTTTT
4882856 TCTATTAAAAATTTT
1 TCTATTAAAAATTTT
4882871 GAAAGCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (16 bp):
TCTATTAAAAATTTTT
Found at i:4885976 original size:15 final size:15
Alignment explanation
Indices: 4885958--4885992 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
4885948 CGAGTCAATT
4885958 TCATCATTATCATCA
1 TCATCATTATCATCA
*
4885973 TCATCATTATCTTCA
1 TCATCATTATCATCA
4885988 TCATC
1 TCATC
4885993 TTTGATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:4887844 original size:39 final size:39
Alignment explanation
Indices: 4887800--4887885 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 39
4887790 TATTTACAAA
4887800 TTTTAAAGCT-AATACTTCAATGGAGAAGTTATTTTAAA-T
1 TTTTAAAGCTGAATAC-TCAATGGAGAAG-TATTTTAAATT
* * * *
4887839 TTTTAAAGTTGAATTCTCGATGGAGAAGTCTTTTAAATT
1 TTTTAAAGCTGAATACTCAATGGAGAAGTATTTTAAATT
4887878 TTTTAAAG
1 TTTTAAAG
4887886 TTAAATCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
38 8 0.20
39 29 0.71
40 4 0.10
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (39 bp):
TTTTAAAGCTGAATACTCAATGGAGAAGTATTTTAAATT
Found at i:4887886 original size:39 final size:38
Alignment explanation
Indices: 4887819--4887929 Score: 123
Period size: 39 Copynumber: 2.8 Consensus size: 38
4887809 TAATACTTCA
* *
4887819 ATGGAGAAGTTATTTTAAATTTTTAAAGTTGAATTCTCG
1 ATGGAGAAG-TATTTTAAATTTTTAAAGTTAAATCCTCG
*
4887858 ATGGAGAAGTCTTTTAAATTTTTTAAAGTTAAATCCTCG
1 ATGGAGAAGTATTTTAAA-TTTTTAAAGTTAAATCCTCG
* * * * *
4887897 ATGGAAAAGTTATCTCAAAATTTTAAAATTAAA
1 ATGGAGAAG-TATTTTAAATTTTTAAAGTTAAA
4887930 GCTTTAGTCG
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
38 8 0.13
39 47 0.77
40 6 0.10
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (38 bp):
ATGGAGAAGTATTTTAAATTTTTAAAGTTAAATCCTCG
Found at i:4894270 original size:24 final size:23
Alignment explanation
Indices: 4894243--4894287 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
4894233 AAAAAAATTC
4894243 AAAAA-ATTAGAAATTATAAAATAG
1 AAAAATATTAG-AATTA-AAAATAG
*
4894267 AAAAATTTTAGAATTAAAAAT
1 AAAAATATTAGAATTAAAAAT
4894288 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 10 0.53
25 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (23 bp):
AAAAATATTAGAATTAAAAATAG
Found at i:4898119 original size:31 final size:31
Alignment explanation
Indices: 4898083--4898144 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
4898073 GCCTGGATGG
4898083 AAGAGTTTTTCTTATTTTTAAAGTTATAGTC
1 AAGAGTTTTTCTTATTTTTAAAGTTATAGTC
4898114 AAGAGTTTTTCTTATTTTTAAAGTTATAGTC
1 AAGAGTTTTTCTTATTTTTAAAGTTATAGTC
4898145 TCACTGGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (31 bp):
AAGAGTTTTTCTTATTTTTAAAGTTATAGTC
Found at i:4898302 original size:78 final size:79
Alignment explanation
Indices: 4898194--4898354 Score: 175
Period size: 78 Copynumber: 2.0 Consensus size: 79
4898184 AGTGGAGGAG
* * * *
4898194 TTATTTCAATTTTTTTTTAAGTTAAAGCTTCGATATAGGAGTTATTTTAAAATTTTT-AAGTTGA
1 TTATTTCAA-TTTTTTTAAAGTTAAAGCTTCGATAGAGAAG-T-CTTTAAAATTTTTAAAGTTGA
4898258 AGC-TTTAGTGGAAAAT
63 AGCTTTTAGTGGAAAAT
* * * * *
4898274 TTATTTCAA-TTTTTTAAAGTTGATGCTTCTATAGAGAAGTCTTTCAAATTTTTAAATTTGAAGC
1 TTATTTCAATTTTTTTAAAGTTAAAGCTTCGATAGAGAAGTCTTTAAAATTTTTAAAGTTGAAGC
* *
4898338 TTTTTGTGGAATAT
66 TTTTAGTGGAAAAT
4898352 TTA
1 TTA
4898355 CAAATTTTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
76 11 0.16
77 10 0.15
78 38 0.56
80 9 0.13
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.48
Consensus pattern (79 bp):
TTATTTCAATTTTTTTAAAGTTAAAGCTTCGATAGAGAAGTCTTTAAAATTTTTAAAGTTGAAGC
TTTTAGTGGAAAAT
Found at i:4898405 original size:39 final size:37
Alignment explanation
Indices: 4898356--4898438 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 37
4898346 GAATATTTAC
*
4898356 AAATTTTAAAGCT-AATACCTCAATGGAGAAGTTATTTT
1 AAATTTTAAAGCTGAAT-CCTCAATGGAAAAG-TATTTT
* * *
4898394 AAATTTGTAAAGTTGAATTCTCAATGGAAAAGTCTTTT
1 AAATTT-TAAAGCTGAATCCTCAATGGAAAAGTATTTT
4898432 AAATTTT
1 AAATTTT
4898439 TTGGAGTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
37 1 0.03
38 17 0.44
39 18 0.46
40 3 0.08
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (37 bp):
AAATTTTAAAGCTGAATCCTCAATGGAAAAGTATTTT
Found at i:4905410 original size:13 final size:13
Alignment explanation
Indices: 4905392--4905417 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4905382 AATTTTTTGG
4905392 TGTATCGATACAT
1 TGTATCGATACAT
4905405 TGTATCGATACAT
1 TGTATCGATACAT
4905418 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4907513 original size:21 final size:20
Alignment explanation
Indices: 4907484--4907526 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4907474 GGCTAGTGTG
*
4907484 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
4907505 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
4907525 GG
1 GG
4907527 TGGGTGCTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:4907825 original size:21 final size:21
Alignment explanation
Indices: 4907801--4907847 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
4907791 TTTGAGGCTG
4907801 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
*
4907821 AATTTGAAGTGAAAAACAAGT
1 ATTTTGAAGTGAAAAACAAGT
4907842 ATTTTG
1 ATTTTG
4907848 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:4907990 original size:13 final size:13
Alignment explanation
Indices: 4907981--4908006 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4907971 GTCGATATAG
4907981 TGTATCGATACAA
1 TGTATCGATACAA
4907994 TGTATCGATACAA
1 TGTATCGATACAA
4908007 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4911908 original size:21 final size:21
Alignment explanation
Indices: 4911879--4911923 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
4911869 AAGTTTTTAT
*
4911879 TTTTCTTAGCTAA-TTCATTA
1 TTTTCTTAGCCAAGTTCATTA
*
4911899 TTTTCATTAGCCAAGTTCTTTA
1 TTTTC-TTAGCCAAGTTCATTA
4911921 TTT
1 TTT
4911924 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.22, C:0.16, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTTCTTAGCCAAGTTCATTA
Found at i:4911923 original size:22 final size:21
Alignment explanation
Indices: 4911868--4911923 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
4911858 ATGAATCATG
4911868 CAAGTT-TTTATTTTTCTTAGC
1 CAAGTTCTTTA-TTTTCTTAGC
* *
4911889 TAA-TTCATTATTTTCATTAGC
1 CAAGTTCTTTATTTTC-TTAGC
4911910 CAAGTTCTTTATTT
1 CAAGTTCTTTATTT
4911924 CAACTTGCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 7 0.25
21 12 0.43
22 9 0.32
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.55
Consensus pattern (21 bp):
CAAGTTCTTTATTTTCTTAGC
Found at i:4912521 original size:12 final size:12
Alignment explanation
Indices: 4912506--4912539 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4912496 TCCGAGTCAC
4912506 CATCTTCATCAA
1 CATCTTCATCAA
*
4912518 CATCTTCATCAT
1 CATCTTCATCAA
*
4912530 CTTCTTCATC
1 CATCTTCATC
4912540 CTTGATGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (12 bp):
CATCTTCATCAA
Found at i:4914084 original size:19 final size:19
Alignment explanation
Indices: 4914047--4914085 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4914037 TCCCGTGTAA
*
4914047 ATGTATCGTACAATTTTTG
1 ATGTATCGTACAATATTTG
4914066 ATGTATCGATAC-ATATTTG
1 ATGTATCG-TACAATATTTG
4914085 A
1 A
4914086 AAATATAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (19 bp):
ATGTATCGTACAATATTTG
Found at i:4914157 original size:13 final size:13
Alignment explanation
Indices: 4914139--4914164 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4914129 AATTTTTTGG
4914139 TGTATCGATACAT
1 TGTATCGATACAT
4914152 TGTATCGATACAT
1 TGTATCGATACAT
4914165 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4915051 original size:11 final size:10
Alignment explanation
Indices: 4915011--4915052 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
4915001 ATTTTTAGAA
4915011 TTAAAATTTT
1 TTAAAATTTT
4915021 TTAAAATTTT
1 TTAAAATTTT
*
4915031 GTT-AATTTTT
1 -TTAAAATTTT
4915041 TTGAAAATTTT
1 TT-AAAATTTT
4915052 T
1 T
4915053 CTTTATGCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 2 0.07
10 16 0.59
11 9 0.33
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (10 bp):
TTAAAATTTT
Found at i:4916308 original size:33 final size:33
Alignment explanation
Indices: 4916268--4916336 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
4916258 CCATTACAAG
*
4916268 CAATGTATCGATACATT-TCCTCATGTATCGATA
1 CAATGTATCGATACATTATAC-CATGTATCGATA
4916301 CAATGTATCGATACATTATACCATGTATCGATA
1 CAATGTATCGATACATTATACCATGTATCGATA
4916334 CAA
1 CAA
4916337 ATATTGATAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 32 0.94
34 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACATTATACCATGTATCGATA
Found at i:4916321 original size:20 final size:20
Alignment explanation
Indices: 4916298--4916335 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4916288 TCATGTATCG
4916298 ATACAATGTATCGATACATT
1 ATACAATGTATCGATACATT
*
4916318 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
4916336 AATATTGATA
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:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCGATACATT
Found at i:4916334 original size:13 final size:13
Alignment explanation
Indices: 4916290--4916315 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4916280 ACATTTCCTC
4916290 ATGTATCGATACA
1 ATGTATCGATACA
4916303 ATGTATCGATACA
1 ATGTATCGATACA
4916316 TTATACCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4916446 original size:33 final size:32
Alignment explanation
Indices: 4916389--4916450 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
4916379 TTTGTCTATG
*
4916389 TATCGATACAAGGAACATGTATCGATACAATA
1 TATCGATACAAGCAACATGTATCGATACAATA
*
4916421 TATCGATACAAAGCAGCATGTATCGATACA
1 TATCGATAC-AAGCAACATGTATCGATACA
4916451 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 9 0.33
33 18 0.67
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (32 bp):
TATCGATACAAGCAACATGTATCGATACAATA
Found at i:4917019 original size:39 final size:41
Alignment explanation
Indices: 4916969--4917056 Score: 135
Period size: 39 Copynumber: 2.2 Consensus size: 41
4916959 TTCTCCCCTT
* *
4916969 AAAAAATTCTCCCCCTTAAGCGATTATCTCTTCC-TTTA-A
1 AAAAAATTCTCCCCCTTAAACGATTATCTCCTCCTTTTATA
*
4917008 AAAAAATTCTCCCCCTTAAATGATTATCTCCTCCTTTTATA
1 AAAAAATTCTCCCCCTTAAACGATTATCTCCTCCTTTTATA
4917049 AAAAAATT
1 AAAAAATT
4917057 ATTTTCACAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 31 0.70
40 4 0.09
41 9 0.20
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.36
Consensus pattern (41 bp):
AAAAAATTCTCCCCCTTAAACGATTATCTCCTCCTTTTATA
Found at i:4924349 original size:20 final size:20
Alignment explanation
Indices: 4924324--4924376 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
4924314 GTTACAAGCA
*
4924324 ATGTATCGATACATT-TCCTC
1 ATGTATCGATACATTGTAC-C
4924344 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
4924364 ATGTATCGATACA
1 ATGTATCGATACA
4924377 AATATTGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:4927606 original size:20 final size:20
Alignment explanation
Indices: 4927569--4927641 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
4927559 TTTTACAATT
* *
4927569 TGTATCGATATAATAAGTTAA
1 TGTATCGATA-CATAAGTGAA
4927590 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
* ***
4927610 TGTATTGATACATGTTTGAAA
1 TGTATCGATACATAAGTG-AA
4927631 TGTATCGATAC
1 TGTATCGATAC
4927642 TGGACCATGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 22 0.50
21 22 0.50
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:4927768 original size:13 final size:13
Alignment explanation
Indices: 4927750--4927776 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4927740 TACATTCTTT
4927750 AATGTATCGATAC
1 AATGTATCGATAC
4927763 AATGTATCGATAC
1 AATGTATCGATAC
4927776 A
1 A
4927777 TGCAGGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:4928690 original size:21 final size:18
Alignment explanation
Indices: 4928664--4928705 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 18
4928654 AGTCCACATT
4928664 CATGCATTTTGAACCATGTTC
1 CATGCATTTT-AA-CATG-TC
4928685 CATGCATTTTAACATGTC
1 CATGCATTTTAACATGTC
4928703 CAT
1 CAT
4928706 TCTATAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 4 0.19
20 2 0.10
21 10 0.48
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (18 bp):
CATGCATTTTAACATGTC
Found at i:4928784 original size:64 final size:64
Alignment explanation
Indices: 4928713--4928833 Score: 206
Period size: 64 Copynumber: 1.9 Consensus size: 64
4928703 CATTCTATAG
* * *
4928713 TTAATGTTTAAGCTGACATCTTATAAGAATGTTCATGCATCAACTTGCATTTTGTCATGATCCA
1 TTAATGTTGAAGCTGACATCTCATAAGAATATTCATGCATCAACTTGCATTTTGTCATGATCCA
*
4928777 TTAATGTTGAAGCTGACATCTCGTAAGAATATTCATGCATCAACTTGCATTTTGTCA
1 TTAATGTTGAAGCTGACATCTCATAAGAATATTCATGCATCAACTTGCATTTTGTCA
4928834 AATGTTGCTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (64 bp):
TTAATGTTGAAGCTGACATCTCATAAGAATATTCATGCATCAACTTGCATTTTGTCATGATCCA
Found at i:4929423 original size:23 final size:23
Alignment explanation
Indices: 4929380--4929424 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4929370 ACCTCTCAAT
*
4929380 TTCTTCAAGAATTATACCCTAAA
1 TTCTTCAAGAATTATAACCTAAA
*
4929403 TTCTT-AAGAGATTGTAACCTAA
1 TTCTTCAAGA-ATTATAACCTAA
4929425 GGTTGAATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
TTCTTCAAGAATTATAACCTAAA
Found at i:4931961 original size:33 final size:32
Alignment explanation
Indices: 4931906--4931969 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 32
4931896 TTAGAAGCAA
*
4931906 TGTATCGATACAATTCATCATGTATTGATACCT
1 TGTATCGATACAATTCA-CATGTATCGATACCT
4931939 TGTATCGATACAATGTGC-CATGTATCGATAC
1 TGTATCGATACAAT-T-CACATGTATCGATAC
4931970 AAACAGTAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.36
Consensus pattern (32 bp):
TGTATCGATACAATTCACATGTATCGATACCT
Found at i:4932025 original size:20 final size:20
Alignment explanation
Indices: 4932000--4932038 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
4931990 TTGTCAGTTT
4932000 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTC
4932020 CATGTATCGATACAATTGT
1 CATGTATCGATACAATTGT
4932039 ATCGATACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (20 bp):
CATGTATCGATACAATTGTC
Found at i:4932041 original size:14 final size:14
Alignment explanation
Indices: 4932022--4932048 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4932012 CAATTGTCCA
4932022 TGTATCGATACAAT
1 TGTATCGATACAAT
4932036 TGTATCGATACAA
1 TGTATCGATACAA
4932049 AGCATACTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (14 bp):
TGTATCGATACAAT
Found at i:4934392 original size:21 final size:22
Alignment explanation
Indices: 4934354--4934394 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
4934344 TGATTTTGAT
* *
4934354 GAAAAATGAAGTATTTTGAAGC
1 GAAAAATGAAGAAATTTGAAGC
4934376 GAAAAAT-AAGAAATTTGAA
1 GAAAAATGAAGAAATTTGAA
4934395 AAAGATTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.54, C:0.02, G:0.20, T:0.24
Consensus pattern (22 bp):
GAAAAATGAAGAAATTTGAAGC
Found at i:4938829 original size:3 final size:3
Alignment explanation
Indices: 4938823--4938859 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
4938813 TCCAAGTCAC
*
4938823 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
4938860 GTCTTTGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:4945207 original size:155 final size:153
Alignment explanation
Indices: 4944712--4945195 Score: 436
Period size: 155 Copynumber: 3.1 Consensus size: 153
4944702 ATTCGATTCT
* * * * * * * *
4944712 AAAAATTACAAAAATACCCTTATG-GGTATACTTTCGTCATGAAAGTATCCCGGTAACCCTAAAA
1 AAAAATTACAAAAATGCCCCTA-GAGG-ATACTTTCGACGTAAAAGTA-CCTGAT-ACCCTAAAG
* * * * * *
4944776 GACTT-AAAAAGATTATAGATGAGATAAACCTATCCTAAATACCCACCTTCAACATAAAAGTAGA
62 GACTTAAAAAAGATTTTAAATGGGATGAACCTATCCTAAATACCCACCTTCAATATAAAAGCAGA
* * * *
4944840 CCAAGTGACAACTTAGGAGTTGGTTTTG
127 CC-GGTGACAACCTAGGAGTCGGTTTTA
* * * * * * *
4944868 AAAAATTATAAAGATGCCTCTAAAAGATGCTTTCGACGTAGAAGTA-CTCGATACCCCTAAAGGA
1 AAAAATTACAAAAATGCCCCTAGAGGATACTTTCGACGTAAAAGTACCT-GATA-CCCTAAAGGA
* * * * * *
4944932 TTTAAAAAGGATTTTAAAAGGGATGAACCTATTCTAAATATCCACCTTCAATATAAAAGCGGACC
64 CTTAAAAAAGATTTTAAATGGGATGAACCTATCCTAAATACCCACCTTCAATATAAAAGCAGA-C
* * *
4944997 CGGTGACGACCTAGGAGTGGGTTCTA
128 CGGTGACAACCTAGGAGTCGGTTTTA
* * * * *
4945023 GAAAATTACGAAATTCCCCCTACAGGATACTTTCGACGTAAAAGTACCTGATACTCCTAAAGGAC
1 AAAAATTACAAAAATGCCCCTAGAGGATACTTTCGACGTAAAAGTACCTGATAC-CCTAAAGGAC
* * * *
4945088 TTAAAAAAGATTTTAAATGGGATGGACCTACCCTAAATACCCACCTTCAGTATAAAAGCAAACTC
65 TTAAAAAAGATTTTAAATGGGATGAACCTATCCTAAATACCCACCTTCAATATAAAAGCAGAC-C
* *
4945153 GGTGACAACCTA-AACTCGGTTTTAA
129 GGTGACAACCTAGGAGTCGGTTTT-A
4945178 AAAAATTACAAAAATGCC
1 AAAAATTACAAAAATGCC
4945196 TTTAGGGGAT
Statistics
Matches: 256, Mismatches: 63, Indels: 19
0.76 0.19 0.06
Matches are distributed among these distances:
153 2 0.01
154 22 0.09
155 210 0.82
156 22 0.09
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (153 bp):
AAAAATTACAAAAATGCCCCTAGAGGATACTTTCGACGTAAAAGTACCTGATACCCTAAAGGACT
TAAAAAAGATTTTAAATGGGATGAACCTATCCTAAATACCCACCTTCAATATAAAAGCAGACCGG
TGACAACCTAGGAGTCGGTTTTA
Found at i:4945247 original size:155 final size:154
Alignment explanation
Indices: 4944802--4945249 Score: 389
Period size: 155 Copynumber: 2.9 Consensus size: 154
4944792 AGATGAGATA
* * * * ** * * * * *
4944802 AACCTATCCTAAATACCCACCTTCAACATAAAAGTAGACCAAGTGACAACTTAGGAGTTGGTTTT
1 AACCTACCCTAAATACCCACCTTCAATATAAAAGCAAACCCGGTGACAACCTAGAACTCGGTTCT
* * * * * * * *
4944867 GAAAAATTATAAAGATGCCTCTAAAAGATGCTTTCGACGTAGAAGTACTCGATACCCCTAAAGGA
66 AAAAAATTACAAAAATCCCCCTACAGGATACTTTCGACGTAGAAGTA-TCGATACCCCTAAAGGA
*
4944932 TTTAAAAAGGATTTTAAAAGGGATG
130 TTTAAAAAAGATTTTAAAAGGGATG
** * ** * * * *
4944957 AACCTATTCTAAATATCCACCTTCAATATAAAAGCGGACCCGGTGACGACCTAGGAGTGGGTTCT
1 AACCTACCCTAAATACCCACCTTCAATATAAAAGCAAACCCGGTGACAACCTAGAACTCGGTTCT
* * * * * *
4945022 AGAAAATTACGAAATTCCCCCTACAGGATACTTTCGACGTAAAAGTACCTGATACTCCTAAAGGA
66 AAAAAATTACAAAAATCCCCCTACAGGATACTTTCGACGTAGAAGTATC-GATACCCCTAAAGGA
* *
4945087 CTTAAAAAAGATTTTAAATGGGATG
130 TTTAAAAAAGATTTTAAAAGGGATG
* * * *
4945112 GACCTACCCTAAATACCCACCTTCAGTATAAAAGCAAACTCGGTGACAACCTA-AACTCGGTTTT
1 AACCTACCCTAAATACCCACCTTCAATATAAAAGCAAACCCGGTGACAACCTAGAACTCGGTTCT
* ** ** * *
4945176 AAAAAAATTACAAAAATGCCTTTAGGGGATACATTT-GACTTCGAAGTATTCGATACCCCT-AAG
66 -AAAAAATTACAAAAATCCCCCTACAGGATAC-TTTCGACGTAGAAGTA-TCGATACCCCTAAAG
4945239 GCATTTAAAAA
128 G-ATTTAAAAA
4945250 CGTGAGGGAA
Statistics
Matches: 233, Mismatches: 55, Indels: 10
0.78 0.18 0.03
Matches are distributed among these distances:
154 12 0.05
155 217 0.93
156 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (154 bp):
AACCTACCCTAAATACCCACCTTCAATATAAAAGCAAACCCGGTGACAACCTAGAACTCGGTTCT
AAAAAATTACAAAAATCCCCCTACAGGATACTTTCGACGTAGAAGTATCGATACCCCTAAAGGAT
TTAAAAAAGATTTTAAAAGGGATG
Found at i:4946888 original size:22 final size:23
Alignment explanation
Indices: 4946863--4946923 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
4946853 TGTATTCTAA
4946863 TTTTCTCTCTATTTTTTTCTC-T
1 TTTTCTCTCTATTTTTTTCTCTT
* **
4946885 TTTTCTTTCT-TTTCCTTCTCTT
1 TTTTCTCTCTATTTTTTTCTCTT
4946907 TTTTCTCTCTTATTTTT
1 TTTTCTCTC-TATTTTT
4946924 CAGCTTATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 8 0.27
22 18 0.60
23 1 0.03
24 3 0.10
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTCTCTCTATTTTTTTCTCTT
Found at i:4946895 original size:10 final size:11
Alignment explanation
Indices: 4946863--4946909 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
4946853 TGTATTCTAA
4946863 TTTTC-TCTCT
1 TTTTCTTCTCT
*
4946873 ATTTTTTTCTCT
1 -TTTTCTTCTCT
4946885 TTTTCTT-TCT
1 TTTTCTTCTCT
*
4946895 TTTCCTTCTCT
1 TTTTCTTCTCT
4946906 TTTT
1 TTTT
4946910 TCTCTCTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 9 0.30
11 16 0.53
12 5 0.17
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTCTTCTCT
Found at i:4948798 original size:155 final size:155
Alignment explanation
Indices: 4948548--4949235 Score: 652
Period size: 155 Copynumber: 4.4 Consensus size: 155
4948538 TAGGTTCAAG
* * * *
4948548 AAAAATTACGAAAATGCCTCTATG-GGATTA-CTTCAACGTAAAAGTACTCGATACCCCTGTAAA
1 AAAAAATACCAAAATGCCCCTA-GAGGA-TACCTTCAACGTAAAAGTACCCGATACCCC--TAAA
* * * * *
4948611 GGACTTAAAAAGGAATATAGATGAGATGAACCTATCCTAAATACCCACTTTCAACATAAAAGCGG
62 GGACTTAAAAAGGAAAATAGATGAGATGAACCTATCCTAAATACCTACCTTCGACATAAAAGCAG
*
4948676 ACCCGGTGACAACCTAAGACTCAGTTCTA
127 ACCCAGTGACAACCTAAGACTCAGTTCTA
* * * *
4948705 AAAAAATACCAAAATGCCCTTAGAGGATACCTTCGATGTAAAAGTACCCGATACCCCTAAAAGAC
1 AAAAAATACCAAAATGCCCCTAGAGGATACCTTCAACGTAAAAGTACCCGATACCCCTAAAGGAC
* * ** * *
4948770 TTAAAGAGGAAAATAGATGAGATTAACCTATCCTAAATATTTACCTTCGATATAAAAGCAGACCT
66 TTAAAAAGGAAAATAGATGAGATGAACCTATCCTAAATACCTACCTTCGACATAAAAGCAGACCC
* **
4948835 AGTGACAACATAAGACTGGGTTCTA
131 AGTGACAACCTAAGACTCAGTTCTA
* ** * * * * * * *
4948860 AAAAATTATGAAGATGCCCCTAGGGGATACCTTTAACGTAAAAGCACTCGATACCCTTAAAGTAC
1 AAAAAATACCAAAATGCCCCTAGAGGATACCTTCAACGTAAAAGTACCCGATACCCCTAAAGGAC
* * * * * *
4948925 TTAAAAAGGAATATAGATGAGACGTACCTATCCTAAATACCAACTTTTGACATAAAAGCAGACCC
66 TTAAAAAGGAAAATAGATGAGATGAACCTATCCTAAATACCTACCTTCGACATAAAAGCAGACCC
* *
4948990 AGTGACAACCTAGGACTTAGTTC-A
131 AGTGACAACCTAAGACTCAGTTCTA
* * * * * * * * **
4949014 AAAAAATTACCAAAATACCCCTAGGGGATACTTTCGATGTAAAAGTATCAGGTACTTCTAAAGGA
1 AAAAAA-TACCAAAATGCCCCTAGAGGATACCTTCAACGTAAAAGTACCCGATACCCCTAAAGGA
* * * * *
4949079 CTTAAAGAGG-AAAGAGATGAGATGAACCTATCCGAAATATCTGCCTTCTG-CATAAAAGCAGAC
65 CTTAAAAAGGAAAATAGATGAGATGAACCTATCCTAAATACCTACCTTC-GACATAAAAGCAGAC
*** * * *
4949142 TTGGTGATAACCTAGGACTC-GATTTTA
129 CCAGTGACAACCTAAGACTCAG-TTCTA
* ** * *
4949169 AAAAATTATGAAAATGCCCCTA-AGAGATACCTTCAACGTAAAAGTACCCGGTACACCTAAAGGA
1 AAAAAATACCAAAATGCCCCTAGAG-GATACCTTCAACGTAAAAGTACCCGATACCCCTAAAGGA
4949233 CTT
65 CTT
4949236 GGAATAATGC
Statistics
Matches: 424, Mismatches: 100, Indels: 17
0.78 0.18 0.03
Matches are distributed among these distances:
153 2 0.00
154 112 0.26
155 262 0.62
156 3 0.01
157 45 0.11
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (155 bp):
AAAAAATACCAAAATGCCCCTAGAGGATACCTTCAACGTAAAAGTACCCGATACCCCTAAAGGAC
TTAAAAAGGAAAATAGATGAGATGAACCTATCCTAAATACCTACCTTCGACATAAAAGCAGACCC
AGTGACAACCTAAGACTCAGTTCTA
Found at i:4951056 original size:20 final size:21
Alignment explanation
Indices: 4951031--4951084 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
4951021 GTTGGGCTTA
4951031 ATGTATCGATACAATGC-ACT
1 ATGTATCGATACAATGCAACT
* * *
4951051 ATGTATCAATACAATTCAAGT
1 ATGTATCGATACAATGCAACT
*
4951072 ATGTATTGATACA
1 ATGTATCGATACA
4951085 TAGTTTTAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACAATGCAACT
Found at i:4951955 original size:20 final size:21
Alignment explanation
Indices: 4951914--4951952 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
4951904 TTTCACTCTA
4951914 TTTTCTCTTATTTTTTCTTTC
1 TTTTCTCTTATTTTTTCTTTC
4951935 TTTTCT-TTA-TTTTTCTTT
1 TTTTCTCTTATTTTTTCTTT
4951953 TCTCTCTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTCTCTTATTTTTTCTTTC
Found at i:4952516 original size:19 final size:20
Alignment explanation
Indices: 4952473--4952521 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4952463 CACACCTAGA
*
4952473 TGTATCGATACATATTGCTT
1 TGTATCGATACATATTGCGT
* *
4952493 TGTATTGATACATGTT-CGT
1 TGTATCGATACATATTGCGT
4952512 TGTATCGATA
1 TGTATCGATA
4952522 TACACTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATATTGCGT
Found at i:4952585 original size:13 final size:13
Alignment explanation
Indices: 4952567--4952609 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
4952557 GCTAAAACTC
4952567 ACATTGTATTGAT
1 ACATTGTATTGAT
4952580 ACATTGTATTGAT
1 ACATTGTATTGAT
*
4952593 GCATTGTATTGAT
1 ACATTGTATTGAT
4952606 ACAT
1 ACAT
4952610 AGGAAATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.44
Consensus pattern (13 bp):
ACATTGTATTGAT
Found at i:4953968 original size:165 final size:163
Alignment explanation
Indices: 4953699--4954163 Score: 530
Period size: 165 Copynumber: 2.8 Consensus size: 163
4953689 AATCCCTTCG
* * * * * *
4953699 AAAATATTTATGGAATAGAAAACTTGAATTTTTCAAAGAAAGGAGAATTTCAAGGAAAAAATTCA
1 AAAAAATTTACGGAAAAGAAAACTTGTA-TTTTCAAA-AAAAGAGAATTTCAA-GAAAAATTTCA
* * *
4953764 AAATTCATAGAAATGAATAAATTTTT-AAAGATTGAATTAATAGGAAATAAATAATAATATTTTA
63 AAATTTAT-GAAATGAATGAATTTTTGAAA-ATTGAATTAATAGGAAATAAATAATAATATTTGA
* *
4953828 TGAATTTTGAAAACTAAAAACCAAGAAAAAT-CCTCCC
126 TGAATTTTAAAAACTAAAAACCAAGAAAAATCCCCCCC
* *
4953865 AAAAAACTTTACGGAAAAGAAAACTATGTATTTTGAAAAAAAGAGAATTTCAAGAAAAATTTCCA
1 AAAAAA-TTTACGGAAAAGAAAACT-TGTATTTTCAAAAAAAGAGAATTTCAAGAAAAATTTCAA
*
4953930 AATTTATGGAAATGAATGAATTTTTGAAAATTGAATTAACATGG-AATAAATAATAATATTTGAT
64 AATTTAT-GAAATGAATGAATTTTTGAAAATTGAATTAATA-GGAAATAAATAATAATATTTGAT
*
4953994 GAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCCC
127 GAATTTTAAAAACTAAAAACCAAGAAAAATCCCCCCC
* * * *
4954031 AAAAAATTTAC-AAAATAGAAAACTCCGTA-TTTCAAGAAAA-A-AATTTCAAGAAAAAATTTAA
1 AAAAAATTTACGGAAA-AGAAAACT-TGTATTTTCAAAAAAAGAGAATTTCAAG-AAAAATTTCA
* * * * * * *
4954092 AAATTTAATAAAATAAATGAATTTTTGAGAATTGATTTAATAGGAATTAAATGATAATATTTGAG
63 AAATTT-ATGAAATGAATGAATTTTTGAAAATTGAATTAATAGGAAATAAATAATAATATTTGAT
4954157 GAATTTT
127 GAATTTT
4954164 TATGTTTAAA
Statistics
Matches: 259, Mismatches: 31, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
162 11 0.04
163 67 0.26
164 14 0.05
165 106 0.41
166 35 0.14
167 23 0.09
168 3 0.01
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (163 bp):
AAAAAATTTACGGAAAAGAAAACTTGTATTTTCAAAAAAAGAGAATTTCAAGAAAAATTTCAAAA
TTTATGAAATGAATGAATTTTTGAAAATTGAATTAATAGGAAATAAATAATAATATTTGATGAAT
TTTAAAAACTAAAAACCAAGAAAAATCCCCCCC
Found at i:4954089 original size:13 final size:14
Alignment explanation
Indices: 4954059--4954086 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4954049 AAAACTCCGT
4954059 ATTTCAAGAAAAAA
1 ATTTCAAGAAAAAA
4954073 ATTTCAAGAAAAAA
1 ATTTCAAGAAAAAA
4954087 TTTAAAAATT
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:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (14 bp):
ATTTCAAGAAAAAA
Found at i:4958516 original size:13 final size:13
Alignment explanation
Indices: 4958498--4958523 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4958488 AATTTTTTTG
4958498 TGTATCGATACAT
1 TGTATCGATACAT
4958511 TGTATCGATACAT
1 TGTATCGATACAT
4958524 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4961085 original size:13 final size:13
Alignment explanation
Indices: 4961067--4961105 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
4961057 ATAATCACCC
4961067 TGTATCGATACAA
1 TGTATCGATACAA
4961080 TGTATCGATACAA
1 TGTATCGATACAA
4961093 TGTATCGATACAA
1 TGTATCGATACAA
4961106 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4963204 original size:15 final size:15
Alignment explanation
Indices: 4963184--4963214 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4963174 ATTTCGTTTG
*
4963184 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4963199 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4963214 G
1 G
4963215 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4964999 original size:20 final size:21
Alignment explanation
Indices: 4964967--4965005 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4964957 AGCCTTTGAC
*
4964967 CATGCATTTTTTATTATGTTT
1 CATGCATTTTTTAATATGTTT
4964988 CATGCA-TTTTTAATATGT
1 CATGCATTTTTTAATATGT
4965006 CCAGCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (21 bp):
CATGCATTTTTTAATATGTTT
Found at i:4966898 original size:9 final size:9
Alignment explanation
Indices: 4966884--4966911 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
4966874 TATCGAGTCA
4966884 AAACCAATG
1 AAACCAATG
4966893 AAACCAATG
1 AAACCAATG
4966902 AAACCAATG
1 AAACCAATG
4966911 A
1 A
4966912 CAAGTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.21, G:0.11, T:0.11
Consensus pattern (9 bp):
AAACCAATG
Found at i:4975414 original size:58 final size:58
Alignment explanation
Indices: 4975324--4975443 Score: 240
Period size: 58 Copynumber: 2.1 Consensus size: 58
4975314 TACATGACAT
4975324 GATGCATAAAGAAATTGAGGTCTATGTTGATGACATGATTGCCAAGTCAACAAAAGAG
1 GATGCATAAAGAAATTGAGGTCTATGTTGATGACATGATTGCCAAGTCAACAAAAGAG
4975382 GATGCATAAAGAAATTGAGGTCTATGTTGATGACATGATTGCCAAGTCAACAAAAGAG
1 GATGCATAAAGAAATTGAGGTCTATGTTGATGACATGATTGCCAAGTCAACAAAAGAG
4975440 GATG
1 GATG
4975444 AGCATGCCAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (58 bp):
GATGCATAAAGAAATTGAGGTCTATGTTGATGACATGATTGCCAAGTCAACAAAAGAG
Found at i:4978064 original size:1 final size:1
Alignment explanation
Indices: 4978058--4978144 Score: 66
Period size: 1 Copynumber: 87.0 Consensus size: 1
4978048 CTTTATACCC
* * * * * * * *
4978058 AAAAAAAACAAAAAAACAAAAAAAACAAAAAAAATAAAAAACAAAAAAACAAAAAAACAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** *
4978123 AAATAGCAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAA
4978145 GGGGTCTAGA
Statistics
Matches: 63, Mismatches: 23, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:4978072 original size:8 final size:8
Alignment explanation
Indices: 4978059--4978144 Score: 97
Period size: 8 Copynumber: 10.6 Consensus size: 8
4978049 TTTATACCCA
4978059 AAAAAAAC
1 AAAAAAAC
4978067 AAAAAAAC
1 AAAAAAAC
4978075 AAAAAAAAC
1 -AAAAAAAC
4978084 AAAAAAA-
1 AAAAAAAC
4978091 ATAAAAAAC
1 A-AAAAAAC
4978100 AAAAAAAC
1 AAAAAAAC
4978108 AAAAAAAC
1 AAAAAAAC
4978116 AAAGAAAA-
1 AAA-AAAAC
**
4978124 AATAGCAA-
1 AA-AAAAAC
4978132 AAAAAAAC
1 AAAAAAAC
4978140 AAAAA
1 AAAAA
4978145 GGGGTCTAGA
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
7 4 0.06
8 50 0.74
9 14 0.21
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:4978097 original size:32 final size:35
Alignment explanation
Indices: 4978060--4978144 Score: 117
Period size: 33 Copynumber: 2.6 Consensus size: 35
4978050 TTATACCCAA
4978060 AAAAAACAAAAAAACAAAAAAAAC-AA-AAAAAAT
1 AAAAAACAAAAAAACAAAAAAAACAAAGAAAAAAT
4978093 AAAAAACAAAAAAAC-AAAAAAACAAAGAAAAAAT
1 AAAAAACAAAAAAACAAAAAAAACAAAGAAAAAAT
**
4978127 -AGCAA-AAAAAAACAAAAA
1 AAAAAACAAAAAAACAAAAA
4978145 GGGGTCTAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
32 16 0.34
33 24 0.51
34 7 0.15
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.02
Consensus pattern (35 bp):
AAAAAACAAAAAAACAAAAAAAACAAAGAAAAAAT
Found at i:4979459 original size:32 final size:32
Alignment explanation
Indices: 4979417--4979618 Score: 250
Period size: 32 Copynumber: 6.4 Consensus size: 32
4979407 TCAGTGGCAT
*
4979417 CATTTCAAAGCCCACACAAGTTGGTAGCAACC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* *** ** *
4979449 CATTTGAAAGCTTGCACAAGTCAGTGGC-A-T
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* *
4979479 CATTTCAAAGCCCACACAAGTCGGTAGCAACC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
*
4979511 CATTTTAAAGCCCACACAAGTTGGTGGCAACC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
4979543 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
* **
4979575 CATTTCAAAGCCCACGCAAGTCAGTGGC-ACC
1 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
4979606 C-TTTCAAAGCCCA
1 CATTTCAAAGCCCA
4979619 TAAGTCAGTG
Statistics
Matches: 146, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
30 34 0.23
31 6 0.04
32 106 0.73
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.20
Consensus pattern (32 bp):
CATTTCAAAGCCCACACAAGTTGGTGGCAACC
Found at i:4979694 original size:29 final size:29
Alignment explanation
Indices: 4979364--4980053 Score: 589
Period size: 28 Copynumber: 23.4 Consensus size: 29
4979354 CATTCATCTC
* *
4979364 TTCAAAGCCCACAAGTTAGTGGCAC-ATT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
4979392 TTCAAAGCCCACAAGTCAGTGGCA-TCAT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
** * * *
4979420 TTCAAAGCCCACACAAGTTGGTAGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACTCTT
* * *
4979452 TTGAAAGCTTGCACAAGTCAGTGGCA-TCAT
1 TTCAAAGC--CCACAAGTCAGTGGCACTCTT
* * *
4979482 TTCAAAGCCCACACAAGTCGGTAGCAACCCATT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACTC-TT
** * *
4979515 TT-AAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACTCTT
** * *
4979546 TTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACTCTT
*
4979578 TTCAAAGCCCACGCAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACTCTT
*
4979608 TTCAAAGCCCATAAGTCAGTGGCAC-CTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* ** * *
4979636 TTCAAAACCCATGAGTCGGTGGCAAATCTT
1 TTCAAAGCCCACAAGTCAGTGGC-ACTCTT
*
4979666 TTCAAACCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
4979695 TTCAAAGCTCACAAATCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
4979723 TTCAAAGCCCACAAGTCAGTAGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
4979752 TTCAAAGCCCACAAGTCAGTGGTACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
4979781 TTTAAAGCGCACAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
4979809 TCCAAAGCCCACAAGTCAATGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
4979837 TTCAAAGCCCACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
4979866 TTCAAAGCCCACAAGTCAGTGGCA-TCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
4979894 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
4979922 TTCAAAGCCCATAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
** *
4979950 TTCAAAGCCCGTAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
4979979 TTTAAAGCCCAGAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CACTCTT
*
4980009 TTCAAAGCCCACACGAGTCGGTGATG-ACTCTT
1 TTCAAAGCCCACA--AGTCAGTG--GCACTCTT
4980041 TTCAAAGCCCACA
1 TTCAAAGCCCACA
4980054 CAAGTTAATG
Statistics
Matches: 560, Mismatches: 73, Indels: 54
0.82 0.11 0.08
Matches are distributed among these distances:
28 218 0.39
29 123 0.22
30 86 0.15
31 12 0.02
32 116 0.21
33 4 0.01
34 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:4979737 original size:57 final size:57
Alignment explanation
Indices: 4979364--4980053 Score: 593
Period size: 57 Copynumber: 11.7 Consensus size: 57
4979354 CATTCATCTC
* * * *
4979364 TTCAAAGCCCACAAGTTAGTGGCAC-ATTTTCAAAGCCCACAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
** * * * * * * *
4979420 TTCAAAGCCCACACAAGTTGGTAGCAACCCATTTGAAAGCTTGCACAAGTCAGTGGCATCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACTCTTTTCAAAGC--CCACAAGTCAGTGGCACCCT
* * * **
4979482 TTCAAAGCCCACACAAGTCGGTAGCAACCCATTTT-AAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACTC-TTTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-T
** * *
4979546 TTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACGCAAGTCAGTGGCACCCT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACTCTTTTCAAAGCCCA--CAAGTCAGTGGCACCCT
* * ** * * *
4979608 TTCAAAGCCCATAAGTCAGTGGCAC-CTTTTCAAAACCCATGAGTCGGTGGCAAATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGC--ACCCT
* * *
4979666 TTCAAACCCCACAAGTCAGTGGCACTCTTTTCAAAGCTCACAAATCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
4979723 TTCAAAGCCCACAAGTCAGTAGCACTCTTTTCAAAGCCCACAAGTCAGTGGTACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * * * * *
4979781 TTTAAAGCGCACAAGTTAGTGGCA-TCCTTCCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
4979837 TTCAAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4979894 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
** * * * * *
4979950 TTCAAAGCCCGTAAGTCAATGGCACTCTTTTTAAAGCCCAGAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTC-AGTGG-CAC-CCT
*
4980009 TTCAAAGCCCACACGAGTCGGTGATG-ACTCTTTTCAAAGCCCACA
1 TTCAAAGCCCACA--AGTCAGTG--GCACTCTTTTCAAAGCCCACA
4980054 CAAGTTAATG
Statistics
Matches: 527, Mismatches: 80, Indels: 48
0.80 0.12 0.07
Matches are distributed among these distances:
56 89 0.17
57 150 0.28
58 74 0.14
59 37 0.07
60 19 0.04
61 8 0.02
62 91 0.17
63 16 0.03
64 43 0.08
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:4980949 original size:20 final size:20
Alignment explanation
Indices: 4980926--4981000 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
4980916 AAGTACCCAG
4980926 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
4980946 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
4980966 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
4980986 ATGTATCGATACATT
1 ATGTATCGATACATT
4981001 CTGTCTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:4982042 original size:20 final size:21
Alignment explanation
Indices: 4982005--4982043 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4981995 AGCCTTTGGC
*
4982005 CATGCATATTTTATTATGTTT
1 CATGCATATTTTAATATGTTT
4982026 CATGCAT-TTTTAATATGT
1 CATGCATATTTTAATATGT
4982044 CCAGCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (21 bp):
CATGCATATTTTAATATGTTT
Found at i:4984267 original size:13 final size:13
Alignment explanation
Indices: 4984249--4984274 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4984239 ACATACAAGA
4984249 TGTATCGATACAT
1 TGTATCGATACAT
4984262 TGTATCGATACAT
1 TGTATCGATACAT
4984275 GACTAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4990452 original size:13 final size:13
Alignment explanation
Indices: 4990430--4990466 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
4990420 AGCATTCTCA
*
4990430 GTATCGATACATT
1 GTATCGATACACT
*
4990443 GTATCAATACACT
1 GTATCGATACACT
4990456 GTATCGATACA
1 GTATCGATACA
4990467 AAGGGTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (13 bp):
GTATCGATACACT
Found at i:4995253 original size:98 final size:96
Alignment explanation
Indices: 4995128--4995357 Score: 259
Period size: 98 Copynumber: 2.4 Consensus size: 96
4995118 ATGAAACTAA
* ** * *
4995128 AGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCT-CGACAATGACAATTTAAGC-AAATATAAG
1 AGTATCCCCTCGAAAAAATGGGGTTGGAGTATCCTACGA-AA-GA-AATCTAAGCGAAAT-TAAG
4995191 AATTAAATCTTGATAAGTTTTAAAAACAGGGTTGG
62 AATTAAATCTTGATAAGTTTTAAAAACAGGGTTGG
* * *
4995226 AGTATCCCTTC-AAAATAATGGGGTTGGAGTATCCCTAAGGAAAGAAATCTAAGCGAAATTAAGG
1 AGTATCCCCTCGAAAA-AATGGGGTTGGAGTAT-CCT-ACGAAAGAAATCTAAGCGAAATTAAGA
* * * *
4995290 TTTAAGTCTTGATAAGTTTTAAAGACGGGGTTGG
63 ATTAAATCTTGATAAGTTTTAAAAACAGGGTTGG
*
4995324 AGTATCCCCTCGAAAAAATGGGATTGGAGTATCC
1 AGTATCCCCTCGAAAAAATGGGGTTGGAGTATCC
4995358 CCAATAAAGG
Statistics
Matches: 112, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
97 3 0.03
98 92 0.82
99 13 0.12
100 2 0.02
101 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.27
Consensus pattern (96 bp):
AGTATCCCCTCGAAAAAATGGGGTTGGAGTATCCTACGAAAGAAATCTAAGCGAAATTAAGAATT
AAATCTTGATAAGTTTTAAAAACAGGGTTGG
Found at i:5001474 original size:13 final size:13
Alignment explanation
Indices: 5001456--5001483 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5001446 ATACAAAGAT
5001456 CAATGTATCGATA
1 CAATGTATCGATA
5001469 CAATGTATCGATA
1 CAATGTATCGATA
5001482 CA
1 CA
5001484 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:5001563 original size:33 final size:33
Alignment explanation
Indices: 5001526--5001590 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
5001516 TAGCTTAAAA
5001526 TGTATCGATACAAAAAAATATGTATCGATACAT
1 TGTATCGATACAAAAAAATATGTATCGATACAT
* ***
5001559 TGTATCGATACAACATTTTATGTATCGATACA
1 TGTATCGATACAAAAAAATATGTATCGATACA
5001591 AATTGTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAAAAATATGTATCGATACAT
Found at i:5001564 original size:13 final size:13
Alignment explanation
Indices: 5001546--5001570 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5001536 CAAAAAAATA
5001546 TGTATCGATACAT
1 TGTATCGATACAT
5001559 TGTATCGATACA
1 TGTATCGATACA
5001571 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5002541 original size:55 final size:52
Alignment explanation
Indices: 5002481--5003013 Score: 209
Period size: 49 Copynumber: 11.1 Consensus size: 52
5002471 CGATATTGGG
* * *
5002481 CTTAAAGATGAGAAAAAGGATGTCAAGGTGCTGATTCAAGGCCAGCTACATTGAA
1 CTTAAAGATG-G-AAAAGG-TGCCAAGATACTGATTCAAGGCCAGCTACATTGAA
* * *
5002536 CTTAAAGATGGAAAAGGTGCCAATATACTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAAGATACTGATTCAAGGCCAGCTACATTGAA
* *
5002588 C-T-----T---AAAGGTGCCAATG-TGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAA-GATACTGATTCAAGGCCAGCTACATTGAA
* * * * * *
5002631 CTTAAAGAT---AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAAGATACTGATTCAAGGCCAGCTACATTGAA
* *
5002680 C-T-----T---AAAGGTGCCAATG-TGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAA-GATACTGATTCAAGGCCAGCTACATTGAA
* * * * * *
5002723 CTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAAGATACTGATTCAAGGCCAGCTACATTGAA
* *
5002772 C-T-----T---AAAGGTGCCAATG-TGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAA-GATACTGATTCAAGGCCAGCTACATTGAA
* * * * * *
5002815 CTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAAGATACTGATTCAAGGCCAGCTACATTGAA
* *
5002864 C-T-----T---AAAGGTGCCAATG-TGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAA-GATACTGATTCAAGGCCAGCTACATTGAA
* * * * * *
5002907 CTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAAGATACTGATTCAAGGCCAGCTACATTGAA
* ** * * * * * *
5002956 CTTAAAGGT-GCCAATGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAAGATACTGATTCAAGGCCAGCTACATTGAA
5003007 CTTAAAG
1 CTTAAAG
5003014 GTGCCAATGT
Statistics
Matches: 399, Mismatches: 40, Indels: 82
0.77 0.08 0.16
Matches are distributed among these distances:
43 146 0.37
44 4 0.01
46 1 0.00
48 3 0.01
49 153 0.38
51 45 0.11
52 30 0.08
53 6 0.02
54 1 0.00
55 10 0.03
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (52 bp):
CTTAAAGATGGAAAAGGTGCCAAGATACTGATTCAAGGCCAGCTACATTGAA
Found at i:5002597 original size:43 final size:43
Alignment explanation
Indices: 5002548--5003058 Score: 572
Period size: 43 Copynumber: 11.1 Consensus size: 43
5002538 TAAAGATGGA
*
5002548 AAAGGTGCCAATATACTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
5002591 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
5002634 AAAGATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAG-----G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
5002683 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
5002726 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
5002775 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
5002818 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
5002867 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
5002910 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
5002959 AAAGGTGCCAATGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAA---G-----GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
5003010 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
5003053 AGAAGG
1 A-AAGG
5003059 GTTGCCACCG
Statistics
Matches: 409, Mismatches: 29, Indels: 59
0.82 0.06 0.12
Matches are distributed among these distances:
43 185 0.45
44 13 0.03
45 3 0.01
46 5 0.01
47 3 0.01
48 11 0.03
49 146 0.36
51 41 0.10
52 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:5002682 original size:92 final size:92
Alignment explanation
Indices: 5002508--5002974 Score: 862
Period size: 92 Copynumber: 5.0 Consensus size: 92
5002498 GGATGTCAAG
* * *
5002508 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATACTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAG
*
5002573 GCCAGCTATATTGGACTTAAAGGTGCCAAT
63 GCCAGCGATATTGGACTTAAAGGTGCCAAT
*
5002603 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
5002668 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
5002695 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
5002760 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
5002787 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
5002852 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
5002879 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
5002944 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
5002971 GTGC
1 GTGC
5002975 CAATATGCTG
Statistics
Matches: 366, Mismatches: 6, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
92 330 0.90
95 36 0.10
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGGTGCCAAT
Found at i:5002995 original size:51 final size:51
Alignment explanation
Indices: 5002871--5003025 Score: 244
Period size: 51 Copynumber: 3.1 Consensus size: 51
5002861 GGACTTAAAG
* * * *
5002871 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG--AA-
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
5002919 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
1 G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
5002971 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
5003022 GTGC
1 GTGC
5003026 TGATTCAAGG
Statistics
Matches: 99, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
48 1 0.01
49 41 0.41
51 56 0.57
52 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (51 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
Found at i:5003132 original size:33 final size:33
Alignment explanation
Indices: 5003053--5003116 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
5003043 CATTGGGCTT
*
5003053 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
5003086 AGAATGGTTGCCACCGACTTGTGTGGGCTTT
1 AGAATGGTTGCCACCGACTTGTGTGGGCTTT
5003117 GGGAAGAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.34, T:0.30
Consensus pattern (33 bp):
AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:5003164 original size:34 final size:34
Alignment explanation
Indices: 5003125--5003576 Score: 287
Period size: 34 Copynumber: 13.6 Consensus size: 34
5003115 TTGGGAAGAA
* * *
5003125 GGTGCCACGAAGTCGTGGACTTGAAAGGAAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* ** *
5003159 GGTGCCACGGAGTTGTGGGCTTTGAA--AAGAA-
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* * ***
5003190 GGTGCCACGGAGTTGTAGCCTTTGCA-G-AAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* * ** **
5003222 GATACCACTAAGTCATGGACTGTAAAAGGGAAAAAG
1 GGTGCCACGGAGTTGTGGACT-TAAAA-GGAAAAAG
* * * *
5003258 AGTGCCACAGAGTTATGGAATTTGAAAA-GAAAAA-
1 GGTGCCACGGAGTTGTGG-ACTT-AAAAGGAAAAAG
*
5003292 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* * * * *
5003326 AGTGCCACGGTGTTGTGGGCTT-------CAACG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* *
5003353 GGTGCCACGAAATTGTGGACTTAAAAGGAAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* * *
5003387 AGTGCCAC-GATGTTGTGGGCTTTAAAAAGAAAAA-
1 GGTGCCACGGA-GTTGTGGAC-TTAAAAGGAAAAAG
*
5003421 GGTGCCACGGAGTTGTGGACTTAAAAGGAACAA-
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
*
5003454 GGTACCACGGAGTTGTGGACTTAAAAGGGAAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAA-GGAAAAAG
* * *
5003489 AGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA-
1 GGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAG
* * **
5003523 AGTGCCACGGAGTTGTGGGCTTTGAA-G-AAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* * *
5003555 GATGCCACTGAGTCGTGGACTT
1 GGTGCCACGGAGTTGTGGACTT
5003577 TGAGACAAAA
Statistics
Matches: 327, Mismatches: 67, Indels: 50
0.74 0.15 0.11
Matches are distributed among these distances:
27 20 0.06
31 30 0.09
32 38 0.12
33 52 0.16
34 113 0.35
35 44 0.13
36 24 0.07
37 6 0.02
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (34 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
Found at i:5003370 original size:61 final size:61
Alignment explanation
Indices: 5003292--5003408 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 61
5003282 AAAAGAAAAA
* * * *
5003292 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGTGTTGTGGGCTTCAACG
1 GGTGCCACGAAATTGTGGACTTAAAAGGAAAAAGAGTGCCACGATGTTGTGGGCTTCAACG
5003353 GGTGCCACGAAATTGTGGACTTAAAAGGAAAAAGAGTGCCACGATGTTGTGGGCTT
1 GGTGCCACGAAATTGTGGACTTAAAAGGAAAAAGAGTGCCACGATGTTGTGGGCTT
5003409 TAAAAAGAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.22
Consensus pattern (61 bp):
GGTGCCACGAAATTGTGGACTTAAAAGGAAAAAGAGTGCCACGATGTTGTGGGCTTCAACG
Found at i:5003415 original size:129 final size:130
Alignment explanation
Indices: 5003237--5003471 Score: 359
Period size: 129 Copynumber: 1.8 Consensus size: 130
5003227 CACTAAGTCA
*
5003237 TGGACTGTAAAAGGGAAAAAGAGTGCCACAGAGTTATGGAATTTGAAAAGAAAAAGGTGCCACGG
1 TGGACTGTAAAAGGGAAAAAGAGTGCCACAGAGTTATGGAATTTAAAAAGAAAAAGGTGCCACGG
* * *
5003302 AGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGTGTTGTGGGCTTCAACGGGTGCCACGAAATT
66 AGTTGTGGACTTAAAAGGAAAAAG-GTACCACGGAGTTGTGGGCTTCAACGGGTGCCACGAAATT
5003367 G
130 G
* **
5003368 TGGACT-TAAAA-GGAAAAAGAGTGCCAC-GATGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACG
1 TGGACTGTAAAAGGGAAAAAGAGTGCCACAGA-GTTATGGAATTTAAAAAGAAAAAGGTGCCACG
*
5003430 GAGTTGTGGACTTAAAAGGAACAAGGTACCACGGAGTTGTGG
65 GAGTTGTGGACTTAAAAGGAAAAAGGTACCACGGAGTTGTGG
5003472 ACTTAAAAGG
Statistics
Matches: 95, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
128 17 0.18
129 67 0.71
130 5 0.05
131 6 0.06
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (130 bp):
TGGACTGTAAAAGGGAAAAAGAGTGCCACAGAGTTATGGAATTTAAAAAGAAAAAGGTGCCACGG
AGTTGTGGACTTAAAAGGAAAAAGGTACCACGGAGTTGTGGGCTTCAACGGGTGCCACGAAATTG
Found at i:5003530 original size:231 final size:226
Alignment explanation
Indices: 5003125--5003562 Score: 576
Period size: 231 Copynumber: 1.9 Consensus size: 226
5003115 TTGGGAAGAA
* * * *
5003125 GGTGCCACGAAGTCGTGGACTTGAAAGGAAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 GGTGCCACGAAATCGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *** *
5003190 GGTGCCACGGAGTTGTAGCCTTTGCAGAAAAGGATACCACTAAGTCATGGACTGTAAAAGGGAAA
66 GGTGCCACGGAGTTGTAGACTTAAAAGAAAAGGATACCACGAAGTCATGGACTGTAAAAGGGAAA
* *
5003255 AAGAGTGCCACAGAGTTATGGAATTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGG
131 AAGAGTGCCACAGAGTTATGGAATTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTAGAA-G
5003320 AAAAAGAGTGCCACGGTGTTGTGGGCTTCAACG
195 AAAAAGA-TGCCACGGTGTTGTGGGCTTCAACG
*
5003353 GGTGCCACGAAATTGTGGACTTAAAAGGAAAAAGAGTGCCAC-GATGTTGTGGGCTTTAAAAAGA
1 GGTGCCACGAAATCGTGGACTTAAAAGGAAAAAGAGTGCCACGGA-GTTGTGGGCTTTAAAAAG-
* * **
5003417 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGG-TACCACGGAGTTGTGGACT-TAAAA
64 --AAGGTGCCACGGAGTTGTAGACTTAAAA-GAA-AAGGATACCACGAAGTCATGGACTGTAAAA
* * ** *
5003480 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTT
125 GGGAAAAAGAGTGCCACAGAGTTATGGAATTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTT
* *
5003545 TGAAGAAAAGGATGCCAC
190 AGAAGAAAAAGATGCCAC
5003563 TGAGTCGTGG
Statistics
Matches: 181, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
227 2 0.01
228 55 0.30
229 6 0.03
230 7 0.04
231 89 0.49
232 18 0.10
233 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (226 bp):
GGTGCCACGAAATCGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
GGTGCCACGGAGTTGTAGACTTAAAAGAAAAGGATACCACGAAGTCATGGACTGTAAAAGGGAAA
AAGAGTGCCACAGAGTTATGGAATTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTAGAAGA
AAAAGATGCCACGGTGTTGTGGGCTTCAACG
Found at i:5003608 original size:62 final size:61
Alignment explanation
Indices: 5003519--5003672 Score: 227
Period size: 62 Copynumber: 2.5 Consensus size: 61
5003509 TTTAAAAAGA
* *
5003519 AAAAAGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAG
1 AAAAA-TGCCACTGAGTAGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAG
*
5003581 ACAAAATGCCACTGAGTAGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAG
1 A-AAAATGCCACTGAGTAGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAG
* *
5003643 AAGAGATTGCCACTGAGTCGTGGGCTTTGA
1 AA-A-AATGCCACTGAGTAGTGGGCTTTGA
5003673 GAAGAGATTT
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
61 1 0.01
62 56 0.67
63 26 0.31
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (61 bp):
AAAAATGCCACTGAGTAGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAG
Found at i:5003681 original size:31 final size:30
Alignment explanation
Indices: 5003520--5003680 Score: 191
Period size: 32 Copynumber: 5.2 Consensus size: 30
5003510 TTAAAAAGAA
* * *
5003520 AAAAG-TGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
5003550 AAAAGGATGCCACTGAGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
*
5003581 ACAAA-ATGCCACTGAGTAGTGGACTTTGAAG
1 A-AAAGATGCCACTGAGTCGTGGACTTTG-AG
5003612 AAAAGGATGCCACTGAGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
* *
5003643 AAGAGATTGCCACTGAGTCGTGGGCTTTGAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
*
5003674 AAGAGAT
1 AAAAGAT
5003681 TTGAAGAATT
Statistics
Matches: 117, Mismatches: 7, Indels: 14
0.85 0.05 0.10
Matches are distributed among these distances:
30 32 0.27
31 41 0.35
32 44 0.38
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:5004629 original size:10 final size:10
Alignment explanation
Indices: 5004616--5004642 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
5004606 GTTTTTCCCC
5004616 TTTTTTTGTT
1 TTTTTTTGTT
5004626 TTTTTTTGTT
1 TTTTTTTGTT
5004636 TTTTTTT
1 TTTTTTT
5004643 TGTGAAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:5004630 original size:11 final size:11
Alignment explanation
Indices: 5004616--5004645 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
5004606 GTTTTTCCCC
5004616 TTTTTTTG-TT
1 TTTTTTTGTTT
5004626 TTTTTTTGTTT
1 TTTTTTTGTTT
5004637 TTTTTTTGT
1 TTTTTTTGT
5004646 GAAGATTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:5011963 original size:13 final size:13
Alignment explanation
Indices: 5011945--5011972 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5011935 ATACAAAGAT
5011945 CAATGTATCGATA
1 CAATGTATCGATA
5011958 CAATGTATCGATA
1 CAATGTATCGATA
5011971 CA
1 CA
5011973 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:5012052 original size:33 final size:33
Alignment explanation
Indices: 5012015--5012079 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
5012005 TAGCTTAAAA
5012015 TGTATCGATACAAAAAAATATGTATCGATACAT
1 TGTATCGATACAAAAAAATATGTATCGATACAT
* ***
5012048 TGTATCGATACAACATTTTATGTATCGATACA
1 TGTATCGATACAAAAAAATATGTATCGATACA
5012080 AATTGTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAAAAATATGTATCGATACAT
Found at i:5012053 original size:13 final size:13
Alignment explanation
Indices: 5012035--5012059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5012025 CAAAAAAATA
5012035 TGTATCGATACAT
1 TGTATCGATACAT
5012048 TGTATCGATACA
1 TGTATCGATACA
5012060 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5012616 original size:20 final size:20
Alignment explanation
Indices: 5012566--5012619 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
5012556 TTAGCCTAAA
*
5012566 TGTATCAATAAATTTTTCAT
1 TGTATCAATACATTTTTCAT
5012586 TGTATCAATACATTTTTCAT
1 TGTATCAATACATTTTTCAT
*
5012606 TGTATCGATACATT
1 TGTATCAATACATT
5012620 CTGTGTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.48
Consensus pattern (20 bp):
TGTATCAATACATTTTTCAT
Found at i:5015881 original size:13 final size:13
Alignment explanation
Indices: 5015863--5015888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5015853 AATTTTTTTG
5015863 TGTATCGATACAT
1 TGTATCGATACAT
5015876 TGTATCGATACAT
1 TGTATCGATACAT
5015889 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5016558 original size:40 final size:41
Alignment explanation
Indices: 5016512--5016602 Score: 116
Period size: 39 Copynumber: 2.3 Consensus size: 41
5016502 TTTTTTTTCT
5016512 CCCTTAACTAAAG-TAATTTTAACAAATTCATACATTCTCC
1 CCCTTAACTAAAGATAATTTTAACAAATTCATACATTCTCC
* * *
5016552 CCCTTAA-T-AAGATAATTTTAGCAAATTTATGCATTCTCC
1 CCCTTAACTAAAGATAATTTTAACAAATTCATACATTCTCC
* *
5016591 CCTTTTACTAAA
1 CCCTTAACTAAA
5016603 AAAATCTCCC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
38 3 0.07
39 30 0.70
40 8 0.19
41 2 0.05
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.37
Consensus pattern (41 bp):
CCCTTAACTAAAGATAATTTTAACAAATTCATACATTCTCC
Found at i:5017993 original size:21 final size:20
Alignment explanation
Indices: 5017964--5018006 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5017954 GACTAGTGTG
*
5017964 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGTGACCT
*
5017985 GGGAGTGCCGGTCGTGACCT
1 GGGACTGCCGGTCGTGACCT
5018005 GG
1 GG
5018007 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.26, G:0.44, T:0.21
Consensus pattern (20 bp):
GGGACTGCCGGTCGTGACCT
Found at i:5018438 original size:13 final size:13
Alignment explanation
Indices: 5018420--5018457 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
5018410 ATAATCCCCC
5018420 TGTATCGATACAG
1 TGTATCGATACAG
*
5018433 TGTATCGATACAT
1 TGTATCGATACAG
5018446 TGTATCGATACA
1 TGTATCGATACA
5018458 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:5020558 original size:15 final size:15
Alignment explanation
Indices: 5020538--5020568 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5020528 ATTTCGTTTG
*
5020538 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
5020553 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
5020568 G
1 G
5020569 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:5025287 original size:80 final size:79
Alignment explanation
Indices: 5025006--5025449 Score: 486
Period size: 81 Copynumber: 5.6 Consensus size: 79
5024996 GATCTTAACA
5025006 TCCAAAATATCAAA-TTTT-ATCCATC-GAGGATACTCCAACCCCATCATTTTTGAGGGGATACT
1 TCCAAAATATCAAATTTTTCA-CCATCAG-GGATACTCCAACCCCATCATTTTTGA-GGGATACT
*
5025068 CCAACCCCATTTTTTACT
63 CCAACCCC-GTTTTTACT
**
5025086 TCCAAAATATCAAAAATTTCACCATCAGGGATACTCCAACCCCATCATTTTTGAGGGGATACTCC
1 TCCAAAATATCAAATTTTTCACCATCAGGGATACTCCAACCCCATCATTTTTGA-GGGATACTCC
*
5025151 AACCCCATTTTTTACT
65 AACCCC-GTTTTTACT
** * ** *
5025167 TCCAAAATATCAAAAATTTCACCATCAGGGATACTTCAACCCCATCATTTCCGAGTGGATACTCT
1 TCCAAAATATCAAATTTTTCACCATCAGGGATACTCCAACCCCATCATTTTTGAG-GGATACTCC
* *
5025232 AACGCCGTTCTTACT
65 AACCCCGTTTTTACT
* * ** * *
5025247 TCCAAAATATCAATTTTTTCACTATCAGAAATACTCCAA-CCCATCATTTCTAAGGCGATACTCC
1 TCCAAAATATCAAATTTTTCACCATCAGGGATACTCCAACCCCATCATTTTTGAGG-GATACTCC
5025311 AACCCCGTTTTTACT
65 AACCCCGTTTTTACT
* * * *
5025326 TCCAAAAGCATCAAATTTTTCACCAT-ATGGGATACTCCAATCGCATCATTTTTGAGGGAAAACT
1 TCCAAAA-TATCAAATTTTTCACCATCA-GGGATACTCCAACCCCATCATTTTTGAGGG-ATACT
** *
5025390 CCAACATCGTTTTTATT
63 CCAACCCCGTTTTTACT
* * * *
5025407 TTCAAAATATC-AATTTCTCACTATTAGGGATACTCCAACCCCA
1 TCCAAAATATCAAATTTTTCACCATCAGGGATACTCCAACCCCA
5025450 CTATCTTCGA
Statistics
Matches: 316, Mismatches: 38, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.00
79 67 0.21
80 84 0.27
81 162 0.51
82 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (79 bp):
TCCAAAATATCAAATTTTTCACCATCAGGGATACTCCAACCCCATCATTTTTGAGGGATACTCCA
ACCCCGTTTTTACT
Found at i:5025349 original size:160 final size:158
Alignment explanation
Indices: 5025033--5025447 Score: 483
Period size: 160 Copynumber: 2.6 Consensus size: 158
5025023 TATCCATCGA
* *
5025033 GGATACTCCAACCCCATCATTTTTGAGGGGATACTCCAACCCCATTTTTTACTTCCAAAATATCA
1 GGATACTCCAACCCCATCATTTTTGA-GGGATACTCCAACACC-GTTTTTACTTCCAAAATATC-
** * * * * *
5025098 AAAATTTCACCATCAGGGATACTCCAACCCCATCATTTTTGAGGGGATACTCCAACCCCATTTTT
63 AATTTTTCACTATCAGGGATACTCCAA-CCCATCATTTCTAAGGCGATACTCCAACCCCAGTTTT
*
5025163 TACTTCCAAAATATCAAAAATTTCACCATCA-G
127 TACTTCCAAAACATCAAAAATTTCACCAT-ATG
* ** * * *
5025195 GGATACTTCAACCCCATCATTTCCGAGTGGATACTCTAACGCCGTTCTTACTTCCAAAATATCAA
1 GGATACTCCAACCCCATCATTTTTGAG-GGATACTCCAACACCGTTTTTACTTCCAAAATATCAA
**
5025260 TTTTTTCACTATCAGAAATACTCCAACCCATCATTTCTAAGGCGATACTCCAACCCC-GTTTTTA
65 -TTTTTCACTATCAGGGATACTCCAACCCATCATTTCTAAGGCGATACTCCAACCCCAGTTTTTA
**
5025324 CTTCCAAAAGCATCAAATTTTTCACCATATG
129 CTTCCAAAA-CATCAAAAATTTCACCATATG
* * * * * *
5025355 GGATACTCCAATCGCATCATTTTTGAGGGAAAACTCCAACATCGTTTTTATTTTCAAAATATCAA
1 GGATACTCCAACCCCATCATTTTTGAGGG-ATACTCCAACACCGTTTTTACTTCCAAAATATCAA
* *
5025420 TTTCTCACTATTAGGGATACTCCAACCC
65 TTTTTCACTATCAGGGATACTCCAACCC
5025448 CACTATCTTC
Statistics
Matches: 213, Mismatches: 35, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
159 42 0.20
160 96 0.45
161 39 0.18
162 36 0.17
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (158 bp):
GGATACTCCAACCCCATCATTTTTGAGGGATACTCCAACACCGTTTTTACTTCCAAAATATCAAT
TTTTCACTATCAGGGATACTCCAACCCATCATTTCTAAGGCGATACTCCAACCCCAGTTTTTACT
TCCAAAACATCAAAAATTTCACCATATG
Found at i:5026564 original size:44 final size:43
Alignment explanation
Indices: 5026511--5026844 Score: 199
Period size: 44 Copynumber: 7.6 Consensus size: 43
5026501 CATTTCAATC
* * * *
5026511 TGACATATGGTTAGCACCTTAGTCAGATTCTTTTTATTCTAATT
1 TGACGTATGGTTACCACCTTGGTCA-ATTCTTTTCATTCTAATT
* * ** * **
5026555 TGACGTATGGTTACTACCTTGGTCAAATCTGCCTCCTTCTTGTT
1 TGACGTATGGTTACCACCTTGGTCAATTCT-TTTCATTCTAATT
* ** *
5026599 TGACGTATGGTTACCACCTTGGTCAAACTT-TTCTCATT-TCGGTC
1 TGACGTATGGTTACCACCTTGGTC-AA-TTCTTTTCATTCT-AATT
* *
5026643 TGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTATAATT
1 TGACGTATGGTTACCACCTTGGTCA-ATTCTTTTCATTCTAATT
* * * * * **
5026687 TGACTTATGGTTACCACATTTGTCAAATT-TTCCTT-TTTGTTGTT
1 TGACGTATGGTTACCACCTTGGTC-AATTCTT--TTCATTCTAATT
* * * * * * ** *
5026731 TGATGCATGGTTACCACATTGGTCAAACTCTTCTCATTTTGGTC
1 TGACGTATGGTTACCACCTTGGTC-AATTCTTTTCATTCTAATT
* * *
5026775 TGACGTATGGTCACCACCTTGGTTAAATTCTTTTTATTCTAATT
1 TGACGTATGGTTACCACCTTGG-TCAATTCTTTTCATTCTAATT
* *
5026819 TGACGTAAGGTTACCACCCTGGTCAA
1 TGACGTATGGTTACCACCTTGGTCAA
5026845 ATCTGCCTCT
Statistics
Matches: 221, Mismatches: 56, Indels: 27
0.73 0.18 0.09
Matches are distributed among these distances:
43 14 0.06
44 196 0.89
45 10 0.05
46 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (43 bp):
TGACGTATGGTTACCACCTTGGTCAATTCTTTTCATTCTAATT
Found at i:5026608 original size:88 final size:87
Alignment explanation
Indices: 5026511--5026864 Score: 288
Period size: 88 Copynumber: 4.0 Consensus size: 87
5026501 CATTTCAATC
* * * * * *
5026511 TGACATATGGTTAGCACCTTAGTCAGATTCTTTTTATTCTAATTTGACGTATGGTTACTACCTTG
1 TGACGTATGGTTACCACCTTGGTCAAATTCTTTTTATTCTAATTTGACGTATGGTTACCACCCTG
*
5026576 GTCAAATCTGCCTCCTTCTTGTT
66 GTCAAATCT-CCTCATTCTTGTT
** *
5026599 TGACGTATGGTTACCACCTTGGTCAAA--CTTTTCTCATT-TCGGTCTGACGTATGGTTACCACC
1 TGACGTATGGTTACCACCTTGGTCAAATTCTTTT-T-ATTCT-AATTTGACGTATGGTTACCACC
* ** * **
5026661 CTGGTCAGATTCTTTTCATTATAATT
63 CTGGTCA-AATCTCCTCATTCTTGTT
* * * * ** * * **
5026687 TGACTTATGGTTACCACATTTGTCAAATT-TTCCTTT-TTGTTGTTTGATGCATGGTTACCACAT
1 TGACGTATGGTTACCACCTTGGTCAAATTCTT--TTTATTCTAATTTGACGTATGGTTACCACCC
* *
5026750 TGGTCAAACTCTTCTCATT-TTGGTC
64 TGGTCAAA-TCTCCTCATTCTT-GTT
* * *
5026775 TGACGTATGGTCACCACCTTGGTTAAATTCTTTTTATTCTAATTTGACGTAAGGTTACCACCCTG
1 TGACGTATGGTTACCACCTTGGTCAAATTCTTTTTATTCTAATTTGACGTATGGTTACCACCCTG
*
5026840 GTCAAATCTGCCTCTTTCTTGTT
66 GTCAAATCT-CCTCATTCTTGTT
5026863 TG
1 TG
5026865 CCGCAAGGTT
Statistics
Matches: 205, Mismatches: 46, Indels: 30
0.73 0.16 0.11
Matches are distributed among these distances:
86 5 0.02
87 10 0.05
88 176 0.86
89 11 0.05
90 1 0.00
91 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.42
Consensus pattern (87 bp):
TGACGTATGGTTACCACCTTGGTCAAATTCTTTTTATTCTAATTTGACGTATGGTTACCACCCTG
GTCAAATCTCCTCATTCTTGTT
Found at i:5026669 original size:132 final size:132
Alignment explanation
Indices: 5026463--5026939 Score: 506
Period size: 132 Copynumber: 3.6 Consensus size: 132
5026453 TTTTCATTTA
** * * * * *
5026463 TGTTTGACATATGGTTACCACCCTAATCAAACCCATCTCATTTCAATCTGACATATGGTTAGCAC
1 TGTTTGACGCATGGTTACCACCCTAGTCAAACTCTTCTCATTTCAGTCTGACATATGGTTACCAC
* * * *
5026528 CTTAGTCAGATTCTTTTTATTCTAATTTGACGTATGGTTACTACCTTGGTCAAATCTGCCTCCTT
66 CCTGGTCAGATTCTTTTTATTCTAATTTGACGTATGGTTACCACCTTGGTCAAATCTGCCTCTTT
5026593 CT
131 CT
* * * * * *
5026595 TGTTTGACGTATGGTTACCACCTTGGTCAAACTTTTCTCATTTCGGTCTGACGTATGGTTACCAC
1 TGTTTGACGCATGGTTACCACCCTAGTCAAACTCTTCTCATTTCAGTCTGACATATGGTTACCAC
* * * * * * * *
5026660 CCTGGTCAGATTCTTTTCATTATAATTTGACTTATGGTTACCACATTTGTCAAATTTTCCTTTTT
66 CCTGGTCAGATTCTTTTTATTCTAATTTGACGTATGGTTACCACCTTGGTCAAATCTGCCTCTTT
*
5026725 GT
131 CT
* ** * ** * *
5026727 TGTTTGATGCATGGTTACCACATTGGTCAAACTCTTCTCATTTTGGTCTGACGTATGGTCACCAC
1 TGTTTGACGCATGGTTACCACCCTAGTCAAACTCTTCTCATTTCAGTCTGACATATGGTTACCAC
* * * * *
5026792 CTTGGTTAAATTCTTTTTATTCTAATTTGACGTAAGGTTACCACCCTGGTCAAATCTGCCTCTTT
66 CCTGGTCAGATTCTTTTTATTCTAATTTGACGTATGGTTACCACCTTGGTCAAATCTGCCTCTTT
5026857 CT
131 CT
* * * * * ** * *
5026859 TGTTTGCCGCAAGGTTGCCGCCCTAGTCAAACTCTTTTCAAGTCAGTTTGACATATGGATACCA-
1 TGTTTGACGCATGGTTACCACCCTAGTCAAACTCTTCTCATTTCAGTCTGACATATGGTTACCAC
*
5026923 CCTGGTCAGACTCTTTT
66 CCTGGTCAGATTCTTTT
5026940 CATCCTTGCT
Statistics
Matches: 280, Mismatches: 65, Indels: 1
0.81 0.19 0.00
Matches are distributed among these distances:
131 13 0.05
132 267 0.95
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (132 bp):
TGTTTGACGCATGGTTACCACCCTAGTCAAACTCTTCTCATTTCAGTCTGACATATGGTTACCAC
CCTGGTCAGATTCTTTTTATTCTAATTTGACGTATGGTTACCACCTTGGTCAAATCTGCCTCTTT
CT
Found at i:5027277 original size:40 final size:42
Alignment explanation
Indices: 5027224--5027328 Score: 106
Period size: 40 Copynumber: 2.5 Consensus size: 42
5027214 TGGTAAACTC
* *
5027224 CTTTAGCCTTTGCTGACTTATCGATTCAGT-CCTAGTCAACA
1 CTTTATCCTTTGCTGACTTATCGACTCAGTCCCTAGTCAACA
* * * * * *
5027265 -TTTATCTTTTGCTTACTTGTCGGCTCAGTCCCTGGTGAACA
1 CTTTATCCTTTGCTGACTTATCGACTCAGTCCCTAGTCAACA
*
5027306 CTTTTATCCTTTGTTGACTTATC
1 C-TTTATCCTTTGCTGACTTATC
5027329 AGTTTAGCCC
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
40 23 0.47
41 9 0.18
43 17 0.35
ACGTcount: A:0.17, C:0.25, G:0.15, T:0.43
Consensus pattern (42 bp):
CTTTATCCTTTGCTGACTTATCGACTCAGTCCCTAGTCAACA
Found at i:5028863 original size:166 final size:166
Alignment explanation
Indices: 5028576--5028983 Score: 446
Period size: 166 Copynumber: 2.5 Consensus size: 166
5028566 TTTTAAAAAA
**** * * * **
5028576 TTTTA-ATTTTTTCCTTGAAATTTTTTTGTTTTCAAAAAATGAAGTTTTTTGCTCTGTAAATG-T
1 TTTTATATTTTTTCCTTGAAATTTCCCAGTTTTCGAAAAATGAAGTTTTCTACTCCATAAATGTT
* * * * ** *
5028639 TTTCGGGGGATTTTTATTGGTCTATAATTTTTAAAATTTATCAAATACAATTATTTAATTTGTGT
66 TTTGGGGGGATTTCTATTGCTCTATAATTTTTAAAATTCATCAAATACAATTATTTAATTCATAT
* ** *
5028704 TAAATTAGTTGTAAAAAAT-TCTTTCATTTTCATGAG
131 TAAATCAGTTCCAAAAAATATATTT-ATTTTCATGAG
5028740 TTTTCAT-TTTTTTCCTTGAAATTTCCCAGTTTTCGAAAAATGAAGTTTTCTACTCCATAAATGT
1 TTTT-ATATTTTTTCCTTGAAATTTCCCAGTTTTCGAAAAATGAAGTTTTCTACTCCATAAATGT
* * * **
5028804 TTTTGGGGGGATTTCTCTTGCTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATA
65 TTTTGGGGGGATTTCTATTGCTCTATAATTTTTAAAATTCATCAAATACAATTATTTAATTCATA
*
5028869 TTATATCAGTTCCAAAAAATATATTTATTTTCATGAG
130 TTAAATCAGTTCCAAAAAATATATTTATTTTCATGAG
* * ** * ** *
5028906 TTTTTTATTTTTTCTTTGAAATCCCCCAATTTTCGAAAAACCAAGTTTTCTACTACATAAATGTT
1 TTTTATATTTTTTCCTTGAAATTTCCCAGTTTTCGAAAAATGAAGTTTTCTACTCCATAAATGTT
* *
5028971 TTCGGAGGGATTT
66 TTTGGGGGGATTT
5028984 TTTTTCTCAT
Statistics
Matches: 203, Mismatches: 36, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
164 4 0.02
165 49 0.24
166 146 0.72
167 4 0.02
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (166 bp):
TTTTATATTTTTTCCTTGAAATTTCCCAGTTTTCGAAAAATGAAGTTTTCTACTCCATAAATGTT
TTTGGGGGGATTTCTATTGCTCTATAATTTTTAAAATTCATCAAATACAATTATTTAATTCATAT
TAAATCAGTTCCAAAAAATATATTTATTTTCATGAG
Found at i:5029047 original size:52 final size:52
Alignment explanation
Indices: 5028985--5029102 Score: 132
Period size: 52 Copynumber: 2.2 Consensus size: 52
5028975 GAGGGATTTT
* *
5028985 TTTTCTCATCTTCAAGTCCAAT-GTCG-TCGGCCTTGAATCAGTATATTGGCACC
1 TTTT-TCATCTTCAAG-CCAATCATCGCT-GGCCTTGAATCAGCATATTGGCACC
* * *
5029038 TTTTTCATCTTTAAGCCCATCATCGCTGGCCTTGAATCAGCATATTGGCATC
1 TTTTTCATCTTCAAGCCAATCATCGCTGGCCTTGAATCAGCATATTGGCACC
*
5029090 TTTATCATTCTTC
1 TTTTTCA-TCTTC
5029103 TTATCTTCAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
51 4 0.07
52 42 0.76
53 9 0.16
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.39
Consensus pattern (52 bp):
TTTTTCATCTTCAAGCCAATCATCGCTGGCCTTGAATCAGCATATTGGCACC
Found at i:5029196 original size:61 final size:61
Alignment explanation
Indices: 5029042--5029201 Score: 182
Period size: 61 Copynumber: 2.6 Consensus size: 61
5029032 GGCACCTTTT
* * *
5029042 TCATCTTTAAGCCC-ATCATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCATTCTTC
1 TCATCTTCAAGCCCAAT-ATCGCTGGCCTTGAATCAGCATATTGGAACCTTTATCATTCTTC
* * * *
5029103 TTATCTTCAAGCCCGATATCACTGGCCGTGAATCAGCATATTGGAACCTTTATCATTCTT-
1 TCATCTTCAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGAACCTTTATCATTCTTC
* * *
5029163 TGCATCCTT-AAGTCCAATGTCGCTGACCTTGAATCAGCA
1 T-CAT-CTTCAAGCCCAATATCGCTGGCCTTGAATCAGCA
5029202 CATGGGCACT
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
60 1 0.01
61 77 0.93
62 5 0.06
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (61 bp):
TCATCTTCAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGAACCTTTATCATTCTTC
Found at i:5030996 original size:97 final size:98
Alignment explanation
Indices: 5030794--5030999 Score: 215
Period size: 97 Copynumber: 2.1 Consensus size: 98
5030784 TCCTTCATTT
* * * *
5030794 GGGATACTCCAAACCTATCTTTAAAACTTATCAAGATTTAAACGTTAATTTCGCTTAGATTTCCT
1 GGGATACTCTAAACCTATCTTTAAAACTTATCAAGATTGAAACGTTAATTTCGCTTAAATTTCCA
* * * *
5030859 TCATTGGGAATACTCCAGCCCCATTCTTCTGAT
66 TCATTGGGAATACTCAAACCCCATTCCTCTGAA
* * * * *
5030892 GGAATACTCTAACCCT-TTTTTAAAACTTATCAAGATTGAATTC-TT-ATCTTTGCTTAAATTGT
1 GGGATACTCTAAACCTATCTTTAAAACTTATCAAGATTGAA-ACGTTAAT-TTCGCTTAAATT-T
*
5030954 -CATCATTGGGGATACTCAAACCCCATTCCTCAT-AA
63 CCATCATTGGGAATACTCAAACCCCATTCCTC-TGAA
5030989 GGGATACTCTA
1 GGGATACTCTA
5031000 GCCCCATTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
96 2 0.02
97 71 0.80
98 16 0.18
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (98 bp):
GGGATACTCTAAACCTATCTTTAAAACTTATCAAGATTGAAACGTTAATTTCGCTTAAATTTCCA
TCATTGGGAATACTCAAACCCCATTCCTCTGAA
Found at i:5033795 original size:19 final size:20
Alignment explanation
Indices: 5033746--5033801 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
5033736 TACTACCAGT
*
5033746 TTCATGTATGGATACAATTG
1 TTCATGTATCGATACAATTG
*
5033766 TGT-AAGTATCGATACAA-TG
1 T-TCATGTATCGATACAATTG
5033785 TTCATGTATCGATACAA
1 TTCATGTATCGATACAA
5033802 GGTATGGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 1 0.03
19 16 0.52
20 13 0.42
21 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (20 bp):
TTCATGTATCGATACAATTG
Found at i:5034456 original size:58 final size:58
Alignment explanation
Indices: 5034385--5034563 Score: 295
Period size: 58 Copynumber: 3.1 Consensus size: 58
5034375 GCTCTCCCTT
* * *
5034385 AAAAATTTTCTCCCCATTGATAAAATAATTAAGGCTCTTTTTTAAAAAAAATTTCAAA
1 AAAAATTTTCTCCCCATTGATAAAATAATTAAGGCTCTCTTTTAAAAAGATTTTCAAA
*
5034443 AAAAATTTTCTCCCCCTTGATAAAATAATTAAGGCTCTCTTTTAAAAAGATTTTCAAA
1 AAAAATTTTCTCCCCATTGATAAAATAATTAAGGCTCTCTTTTAAAAAGATTTTCAAA
* * *
5034501 AAAAAATTCCTCCCCATTGATAAAATAATTAAAGCTCTCTTTTAAAAAGATTTTCAAA
1 AAAAATTTTCTCCCCATTGATAAAATAATTAAGGCTCTCTTTTAAAAAGATTTTCAAA
5034559 AAAAA
1 AAAAA
5034564 AAATCTTTCT
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 113 1.00
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.34
Consensus pattern (58 bp):
AAAAATTTTCTCCCCATTGATAAAATAATTAAGGCTCTCTTTTAAAAAGATTTTCAAA
Found at i:5036488 original size:13 final size:13
Alignment explanation
Indices: 5036470--5036503 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
5036460 GTAACTCATA
*
5036470 TATCGATACATTG
1 TATCGATACAATG
5036483 TATCGATACAATG
1 TATCGATACAATG
5036496 TATCGATA
1 TATCGATA
5036504 TGGAGAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:5039848 original size:20 final size:20
Alignment explanation
Indices: 5039803--5039854 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
5039793 GTAGCCAAAC
* **
5039803 TTGTATCGATACACCAAGTA
1 TTGTATCGATACACAAAAAA
5039823 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
5039842 TTGTATCGATACA
1 TTGTATCGATACA
5039855 TTGGCTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:5040355 original size:34 final size:35
Alignment explanation
Indices: 5040292--5040358 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
5040282 CTAAGTGATT
5040292 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
5040328 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
5040359 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:5042839 original size:70 final size:70
Alignment explanation
Indices: 5042753--5042897 Score: 272
Period size: 70 Copynumber: 2.1 Consensus size: 70
5042743 ATGTTTATGG
*
5042753 TGATAATTTTTGATTGTGTTTGAATGCTTAAATAAAAATTCATTCAAATATTTGTAGGTTTGTTC
1 TGATTATTTTTGATTGTGTTTGAATGCTTAAATAAAAATTCATTCAAATATTTGTAGGTTTGTTC
5042818 AATCT
66 AATCT
*
5042823 TGATTATTTTTTATTGTGTTTGAATGCTTAAATAAAAATTCATTCAAATATTTGTAGGTTTGTTC
1 TGATTATTTTTGATTGTGTTTGAATGCTTAAATAAAAATTCATTCAAATATTTGTAGGTTTGTTC
5042888 AATCT
66 AATCT
5042893 TGATT
1 TGATT
5042898 TTTATTGCAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (70 bp):
TGATTATTTTTGATTGTGTTTGAATGCTTAAATAAAAATTCATTCAAATATTTGTAGGTTTGTTC
AATCT
Found at i:5043656 original size:13 final size:13
Alignment explanation
Indices: 5043638--5043662 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5043628 TTTTTCAGAT
5043638 TGTATCGATACAA
1 TGTATCGATACAA
5043651 TGTATCGATACA
1 TGTATCGATACA
5043663 TTGCTTCAGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5045519 original size:13 final size:13
Alignment explanation
Indices: 5045501--5045526 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5045491 TACACCAAGT
5045501 ATGTATCGATACA
1 ATGTATCGATACA
5045514 ATGTATCGATACA
1 ATGTATCGATACA
5045527 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:5045524 original size:32 final size:33
Alignment explanation
Indices: 5045483--5045546 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
5045473 TAGCCAAACT
* **
5045483 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
5045515 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
5045547 TTGGCTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:5046047 original size:34 final size:35
Alignment explanation
Indices: 5045984--5046050 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
5045974 CTAAGTGATT
5045984 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
5046020 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
5046051 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:5048532 original size:70 final size:70
Alignment explanation
Indices: 5048445--5048589 Score: 281
Period size: 70 Copynumber: 2.1 Consensus size: 70
5048435 ATGTTTATGG
*
5048445 TGATAATTTTTGATTGTGTTTGAATGCTTAAATAAAAATTCATTCAAATATTTGTAGGTTTGTTC
1 TGATTATTTTTGATTGTGTTTGAATGCTTAAATAAAAATTCATTCAAATATTTGTAGGTTTGTTC
5048510 AATCT
66 AATCT
5048515 TGATTATTTTTGATTGTGTTTGAATGCTTAAATAAAAATTCATTCAAATATTTGTAGGTTTGTTC
1 TGATTATTTTTGATTGTGTTTGAATGCTTAAATAAAAATTCATTCAAATATTTGTAGGTTTGTTC
5048580 AATCT
66 AATCT
5048585 TGATT
1 TGATT
5048590 TTTATTGCAT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 74 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.48
Consensus pattern (70 bp):
TGATTATTTTTGATTGTGTTTGAATGCTTAAATAAAAATTCATTCAAATATTTGTAGGTTTGTTC
AATCT
Found at i:5049349 original size:13 final size:13
Alignment explanation
Indices: 5049331--5049355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5049321 TTTTTCAGAT
5049331 TGTATCGATACAA
1 TGTATCGATACAA
5049344 TGTATCGATACA
1 TGTATCGATACA
5049356 TTGCTTCAGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5051212 original size:13 final size:13
Alignment explanation
Indices: 5051194--5051219 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5051184 TACACCAAGT
5051194 ATGTATCGATACA
1 ATGTATCGATACA
5051207 ATGTATCGATACA
1 ATGTATCGATACA
5051220 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:5051217 original size:32 final size:33
Alignment explanation
Indices: 5051176--5051239 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
5051166 TAGCCAAACT
* **
5051176 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
5051208 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
5051240 TTGGCTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:5051740 original size:34 final size:35
Alignment explanation
Indices: 5051677--5051743 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
5051667 CTAAGTGATT
5051677 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
5051713 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
5051744 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:5059384 original size:13 final size:13
Alignment explanation
Indices: 5059366--5059401 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
5059356 GCATTCTCTA
**
5059366 TATCGATACATTG
1 TATCGATACAGCG
5059379 TATCGATACAGCG
1 TATCGATACAGCG
5059392 TATCGATACA
1 TATCGATACA
5059402 AAGGGTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (13 bp):
TATCGATACAGCG
Found at i:5062030 original size:34 final size:32
Alignment explanation
Indices: 5061967--5062035 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
5061957 CCTTAACTGT
5061967 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
*
5061999 TTGTATCGTTACATGACCAA-ATTGTATCGATACA
1 TTGTATCGATACAT-A-CAAGA-TGTATCGATACA
5062033 TTG
1 TTG
5062036 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
32 13 0.39
33 2 0.06
34 18 0.55
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Done.