Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 88 of 250
Found at i:28357593 original size:17 final size:17
Alignment explanation
Indices: 28357573--28357606 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
28357563 AAATTGATAG
28357573 TTTTTCTTAATTTGGTA
1 TTTTTCTTAATTTGGTA
*
28357590 TTTTTTTTAATTTGGTA
1 TTTTTCTTAATTTGGTA
28357607 CCTGAGCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.12, T:0.68
Consensus pattern (17 bp):
TTTTTCTTAATTTGGTA
Found at i:28358589 original size:27 final size:27
Alignment explanation
Indices: 28358553--28358616 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
28358543 GTCTTTGAAT
28358553 TTTGATGAAATGAGCTATTTG-GGG-CTAA
1 TTTG-TGAAATGAG-T-TTTGAGGGACTAA
28358581 TTTGTGAAAATGAGTTTTGAGGGACTAA
1 TTTGTG-AAATGAGTTTTGAGGGACTAA
*
28358609 ATTGTGAA
1 TTTGTGAA
28358617 TTAAATATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 4 0.12
27 8 0.25
28 20 0.62
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (27 bp):
TTTGTGAAATGAGTTTTGAGGGACTAA
Found at i:28358591 original size:28 final size:28
Alignment explanation
Indices: 28358560--28358616 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
28358550 AATTTTGATG
*
28358560 AAATGAGCTATTTG-GGG-CTAATTTGTGA
1 AAATGAG-T-TTTGAGGGACTAAATTGTGA
28358588 AAATGAGTTTTGAGGGACTAAATTGTGA
1 AAATGAGTTTTGAGGGACTAAATTGTGA
28358616 A
1 A
28358617 TTAAATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 4 0.15
28 18 0.69
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (28 bp):
AAATGAGTTTTGAGGGACTAAATTGTGA
Found at i:28363880 original size:27 final size:27
Alignment explanation
Indices: 28363749--28363879 Score: 181
Period size: 27 Copynumber: 4.9 Consensus size: 27
28363739 ATTACCAAAG
* *
28363749 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
28363776 TACCATCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
28363803 TACCATCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
28363830 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
28363857 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
28363880 AAAATACCCT
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:28363887 original size:27 final size:27
Alignment explanation
Indices: 28363803--28364185 Score: 190
Period size: 27 Copynumber: 14.1 Consensus size: 27
28363793 ATTACCGTTT
* * ****
28363803 TACCATCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
* * * ***
28363830 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTAAAA
*
28363857 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * *
28363884 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
28363911 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACTAAAA
* * *
28363938 TACCCTAG-TCTATAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
28363964 TACCC-CTAGTTTGTAAAATTAC-AGAAA
1 TACCCTCGA-TTTATAAAATTACTA-AAA
* * *
28363991 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
28364018 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACTAAAA
* * *
28364045 TACCACT-GGTTTGTAAAATTA-TCGAAA
1 TACC-CTCGATTTATAAAATTACT-AAAA
* * *
28364072 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
28364099 TACCCTTGATTTACAAAGTTAC-AGAAA
1 TACCCTCGATTTATAAAATTACTA-AAA
* * *
28364126 TACCCTTGACTTTCTAAAAATTA-TGGAAA
1 TACCCTCGA-TTTAT-AAAATTACT-AAAA
* * * * *
28364155 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACTAAAA
28364182 TACC
1 TACC
28364186 ATTGGTTTGT
Statistics
Matches: 288, Mismatches: 49, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
26 25 0.09
27 236 0.82
28 11 0.04
29 16 0.06
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:28363888 original size:54 final size:54
Alignment explanation
Indices: 28363783--28363907 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 54
28363773 TTTTACCATC
* * * ****
28363783 GATTTACAGAATTACCGTTTTACCATCGATTTATAGAATTACTGTTTTACCCTT
1 GATTTACAGAATTACCATTTTACCATCGATTTACAAAATTACTAAAATACCCTT
* *
28363837 GATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTT
1 GATTTACAGAATTACCATTTTACCATCGATTTACAAAATTACTAAAATACCCTT
* *
28363891 GGTTTACAAAATTACCA
1 GATTTACAGAATTACCA
28363908 AAATACCCTC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (54 bp):
GATTTACAGAATTACCATTTTACCATCGATTTACAAAATTACTAAAATACCCTT
Found at i:28363915 original size:54 final size:55
Alignment explanation
Indices: 28363830--28364185 Score: 262
Period size: 54 Copynumber: 6.6 Consensus size: 55
28363820 ATTACTGTTT
* * * *** ** *
28363830 TACCCTTGATTTACAGAATTACTATTTTACCCTCGA-TTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCTCGAGTTTGTAAAATTACCAAAA
**
28363884 TACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCTCGAGTTTGTAAAATTACCAAAA
* * * * * *
28363938 TACCC-TAGTCTATAAAATTGCTAAAATACCC-CTAGTTTGTAAAATTA-CAGAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCTCGAGTTTGTAAAATTACCA-AAA
*** ** *
28363991 TACCCTCAATTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCTCGAGTTTGTAAAATTACCAAAA
** * * *
28364045 TACCAC-TGGTTTGTAAAATTATCGAAATACCCTC-AATTTGTAAAATTACCAAAA
1 TACC-CTTGGTTTACAAAATTACCAAAATACCCTCGAGTTTGTAAAATTACCAAAA
* * * * * ***
28364099 TACCCTTGATTTACAAAGTTA-CAGAAATACCCTTGACTTTCTAAAAATTATGGAAA
1 TACCCTTGGTTTACAAAATTACCA-AAATACCCTCGAGTTTGT-AAAATTACCAAAA
* **
28364155 TACCATTGGTTTACAAAATTACTGAAATACC
1 TACCCTTGGTTTACAAAATTACCAAAATACC
28364186 ATTGGTTTGT
Statistics
Matches: 244, Mismatches: 47, Indels: 20
0.78 0.15 0.06
Matches are distributed among these distances:
52 4 0.02
53 41 0.17
54 155 0.64
55 9 0.04
56 35 0.14
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (55 bp):
TACCCTTGGTTTACAAAATTACCAAAATACCCTCGAGTTTGTAAAATTACCAAAA
Found at i:28363931 original size:81 final size:80
Alignment explanation
Indices: 28363857--28364133 Score: 310
Period size: 81 Copynumber: 3.4 Consensus size: 80
28363847 ATTACTATTT
** * *
28363857 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTA-CAAAATACCCTCAATT
*
28363922 AGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * * * * *
28363938 TACCCTAG-TCTATAAAATTGCTAAAATACCCCTAGTTTGTAAAATTACAGAAATACCCTCAATT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACA-AAATACCCTCAATT
28364002 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* ** * *
28364018 TACCC-CTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTAAAATTATCGAAATACCCTCAA
1 TACCCTCGA-TTTACAAAATTACTAAAATACC-CTTGGTTTGTAAAATTA-CAAAATACCCTCAA
28364081 TTTGTAAAATTACCAAAA
63 TTTGTAAAATTACCAAAA
* *
28364099 TACCCTTGATTTACAAAGTTAC-AGAAATACCCTTG
1 TACCCTCGATTTACAAAATTACTA-AAATACCCTTG
28364134 ACTTTCTAAA
Statistics
Matches: 164, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
79 2 0.01
80 66 0.40
81 93 0.57
82 3 0.02
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACAAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:28364277 original size:27 final size:27
Alignment explanation
Indices: 28364247--28364334 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
28364237 ACCCCTATTA
28364247 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
* *
28364274 GGTAAAGAGACCGTAAAGCCCTTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
** *
28364301 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAAAGACCGTAA-AGCCCCTGTAG
28364328 GGTAAAA
1 GGTAAAA
28364335 TGATGAATTA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCCCCTGTAG
Found at i:28365150 original size:25 final size:26
Alignment explanation
Indices: 28365079--28365175 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
28365069 GAGGAAGTGC
28365079 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
28365105 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
28365131 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
28365156 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
28365176 ATTAAAGAGG
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
25 33 0.49
26 35 0.51
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:28365159 original size:51 final size:51
Alignment explanation
Indices: 28365079--28365175 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
28365069 GAGGAAGTGC
*
28365079 AAAAGGGCTTATGCCCCAGTTTACTGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTTTATTG
28365131 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
28365176 ATTAAAGAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 10 0.23
51 24 0.55
52 10 0.23
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATTG
Found at i:28365379 original size:42 final size:42
Alignment explanation
Indices: 28365320--28365411 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
28365310 TAGTCTCCCC
** ** *
28365320 AAATGGGCTTGCATACATTTATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
28365362 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
28365404 AAATGGGC
1 AAATGGGC
28365412 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:28365470 original size:31 final size:31
Alignment explanation
Indices: 28365435--28365534 Score: 109
Period size: 31 Copynumber: 3.3 Consensus size: 31
28365425 CATTTACAGT
*
28365435 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
** * *
28365466 AAAGGCTTCAACCCAGT-A-ACTG-TTAAACG-
1 AAAGGCTTCGGCCCAGTGATA-TGATT-TATGA
28365495 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
28365526 AAAGGCTTC
1 AAAGGCTTC
28365535 AACCCAGTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
29 18 0.33
30 10 0.19
31 26 0.48
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:28365503 original size:29 final size:29
Alignment explanation
Indices: 28365466--28365563 Score: 110
Period size: 29 Copynumber: 3.3 Consensus size: 29
28365456 TGATTTATGA
28365466 AAAGGCTTCAACCCAGTAACTGTTAAACG
1 AAAGGCTTCAACCCAGTAACTGTTAAACG
** * *
28365495 AAAGGCTTCGGCCCAGTGATA-TGATT-TATG
1 AAAGGCTTCAACCCAGT-A-ACTG-TTAAACG
28365525 AAAAGGCTTCAACCCAGTAACTGTTAAACG
1 -AAAGGCTTCAACCCAGTAACTGTTAAACG
28365555 AAAGGCTTC
1 AAAGGCTTC
28365564 GGCTCAGTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
29 27 0.49
30 10 0.18
31 18 0.33
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (29 bp):
AAAGGCTTCAACCCAGTAACTGTTAAACG
Found at i:28365507 original size:60 final size:60
Alignment explanation
Indices: 28365435--28365566 Score: 255
Period size: 60 Copynumber: 2.2 Consensus size: 60
28365425 CATTTACAGT
28365435 AAAGGCTTCGGCCCAATGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACG
1 AAAGGCTTCGGCCCAATGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACG
*
28365495 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACG
1 AAAGGCTTCGGCCCAATGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACG
28365555 AAAGGCTTCGGC
1 AAAGGCTTCGGC
28365567 TCAGTATATG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 71 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (60 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACG
Found at i:28368207 original size:39 final size:40
Alignment explanation
Indices: 28368093--28368316 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
28368083 GCTACTCGTT
* *
28368093 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
28368133 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
28368173 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
28368212 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
28368251 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
*
28368292 CAAA-ACCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
28368317 CATCATTCGA
Statistics
Matches: 165, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 74 0.45
40 76 0.46
41 13 0.08
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:28368301 original size:118 final size:120
Alignment explanation
Indices: 28368095--28368316 Score: 292
Period size: 118 Copynumber: 1.9 Consensus size: 120
28368085 TACTCGTTCA
*
28368095 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * **
28368160 TTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACC
66 ATAGTAACTAGCACCAAAACCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
* **
28368214 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
28368276 ATATGGTCACTTAGCA-CAAAACCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACCAAAACCTTCGGGACTTAGCCCGGA
28368317 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 58 0.65
119 27 0.30
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACCAAAACCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
Found at i:28371201 original size:13 final size:14
Alignment explanation
Indices: 28371185--28371220 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
28371175 CAATCTCATA
28371185 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
28371198 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
28371211 TCTC-ATTTCA
1 TCTCAATTTCA
28371221 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:28371210 original size:18 final size:19
Alignment explanation
Indices: 28371172--28371212 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
28371162 TGGTTCATGT
28371172 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
28371191 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
28371209 TTTC
1 TTTC
28371213 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:28371734 original size:18 final size:19
Alignment explanation
Indices: 28371708--28371746 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
28371698 TTTCAATTCA
28371708 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
28371727 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
28371745 AT
1 AT
28371747 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:28373072 original size:5 final size:5
Alignment explanation
Indices: 28373062--28373118 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
28373052 TTACTTATTT
* *
28373062 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
28373110 ATAT- ATATA
1 ATATA ATATA
28373119 TTTTAACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:28373078 original size:12 final size:12
Alignment explanation
Indices: 28373061--28373116 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
28373051 TTTACTTATT
28373061 TATATAATATAA
1 TATATAATATAA
28373073 TATATAATATAATA
1 TATATAATAT-A-A
28373087 TACTATAATATAA
1 TA-TATAATATAA
*
28373100 TA-ATAATTTAA
1 TATATAATATAA
28373111 TATATA
1 TATATA
28373117 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:28373131 original size:26 final size:26
Alignment explanation
Indices: 28373063--28373118 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
28373053 TACTTATTTA
*
28373063 TATAATATAATATATAATATAATATAC
1 TATAATATAACA-ATAATATAATATAC
* *
28373090 TATAATATAATAATAATTTAATATA-
1 TATAATATAACAATAATATAATATAC
28373115 TATA
1 TATA
28373119 TTTTAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 12 0.43
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATAACAATAATATAATATAC
Found at i:28377648 original size:13 final size:14
Alignment explanation
Indices: 28377632--28377667 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
28377622 CAATCTCATA
28377632 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
28377645 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
28377658 TCTC-ATTTCA
1 TCTCAATTTCA
28377668 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:28377657 original size:18 final size:19
Alignment explanation
Indices: 28377619--28377659 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
28377609 TGGTTCATGT
28377619 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
28377638 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
28377656 TTTC
1 TTTC
28377660 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:28378181 original size:18 final size:19
Alignment explanation
Indices: 28378155--28378193 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
28378145 TTTCAATTCA
28378155 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
28378174 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
28378192 AT
1 AT
28378194 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:28379488 original size:10 final size:10
Alignment explanation
Indices: 28379451--28379498 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
28379441 TCTTTCTCCC
*
28379451 CTGTTTCTTCT
1 CTGTTTCAT-T
*
28379462 CTGTTTCGTT
1 CTGTTTCATT
28379472 -TGCTTTCATT
1 CTG-TTTCATT
28379482 CTGTTTCATT
1 CTGTTTCATT
28379492 CTGTTTC
1 CTGTTTC
28379499 TTTACTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 2 0.06
10 21 0.64
11 10 0.30
ACGTcount: A:0.04, C:0.23, G:0.12, T:0.60
Consensus pattern (10 bp):
CTGTTTCATT
Found at i:28379520 original size:5 final size:5
Alignment explanation
Indices: 28379510--28379566 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
28379500 TTACTTATTT
* *
28379510 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
28379558 ATAT- ATATA
1 ATATA ATATA
28379567 TTTTAACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:28379526 original size:12 final size:12
Alignment explanation
Indices: 28379509--28379564 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
28379499 TTTACTTATT
28379509 TATATAATATAA
1 TATATAATATAA
28379521 TATATAATATAATA
1 TATATAATAT-A-A
28379535 TACTATAATATAA
1 TA-TATAATATAA
*
28379548 TA-ATAATTTAA
1 TATATAATATAA
28379559 TATATA
1 TATATA
28379565 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:28379579 original size:26 final size:26
Alignment explanation
Indices: 28379511--28379566 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
28379501 TACTTATTTA
*
28379511 TATAATATAATATATAATATAATATAC
1 TATAATATAACA-ATAATATAATATAC
* *
28379538 TATAATATAATAATAATTTAATATA-
1 TATAATATAACAATAATATAATATAC
28379563 TATA
1 TATA
28379567 TTTTAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 12 0.43
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATAACAATAATATAATATAC
Found at i:28382517 original size:30 final size:29
Alignment explanation
Indices: 28382462--28382524 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
28382452 ATATTTAAAA
*
28382462 TATAAAATTTTAATAATGTTATTTTATATT
1 TATAAAATTTTAATAA-GTTATTTTATAAT
*
28382492 TATAAATATTTTAATTAA-TTGTTTTATAAT
1 TATAAA-ATTTTAA-TAAGTTATTTTATAAT
28382522 TAT
1 TAT
28382525 TTAAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 19 0.66
31 7 0.24
32 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (29 bp):
TATAAAATTTTAATAAGTTATTTTATAAT
Found at i:28386114 original size:18 final size:18
Alignment explanation
Indices: 28386093--28386144 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
28386083 AAAATGTGGG
*
28386093 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
*
28386111 AAATGATGTTCAGATTTC
1 AAATGATGTTCACATTTC
28386129 AAATGATGTTCACATT
1 AAATGATGTTCACATT
28386145 GATAGAAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:28386664 original size:72 final size:72
Alignment explanation
Indices: 28386569--28386832 Score: 372
Period size: 72 Copynumber: 3.7 Consensus size: 72
28386559 CAATGCTAAA
* *
28386569 CTAGTTTTATCAATTGTTATTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
28386634 GTGTAAT
66 GTGTAAT
* * * * *
28386641 CTAGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATATTTTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
28386706 GTGTAAT
66 GTGTAAT
* *
28386713 CTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
* *
28386778 ACT-AAAT
66 -GTGTAAT
* * *
28386785 -TAGTTTTATCAATAGTTGTTTATATAT-GATTTTGGATATAAAATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTAT
28386833 TCACAGGTGA
Statistics
Matches: 173, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
70 18 0.10
71 25 0.14
72 129 0.75
73 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.55
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:28388206 original size:3 final size:3
Alignment explanation
Indices: 28388198--28388238 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
28388188 GTCTAGAAAG
* * *
28388198 TGA TGA TGA TGA TGA CGA CGA TGA TGA TGG TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
28388239 GTGAATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.29, C:0.05, G:0.37, T:0.29
Consensus pattern (3 bp):
TGA
Found at i:28388618 original size:19 final size:19
Alignment explanation
Indices: 28388590--28388633 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
28388580 TAATGATTAT
28388590 ATTTAAATATT-TAAATATA
1 ATTTAAATATTCTAAATA-A
* *
28388609 ATTTATATATTCTAATTAA
1 ATTTAAATATTCTAAATAA
28388628 ATTTAA
1 ATTTAA
28388634 TAAATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTAAATATTCTAAATAA
Found at i:28389737 original size:42 final size:42
Alignment explanation
Indices: 28389678--28389791 Score: 183
Period size: 42 Copynumber: 2.7 Consensus size: 42
28389668 AAATCACTGG
28389678 CATTTCGCCTGCTAGGCTCGAGGCCCGATATCAGTTCACCGA
1 CATTTCGCCTGCTAGGCTCGAGGCCCGATATCAGTTCACCGA
*
28389720 CATTTCGCCTGCTAGGCTCGAGGCCCGATATCAGTTCACCGG
1 CATTTCGCCTGCTAGGCTCGAGGCCCGATATCAGTTCACCGA
* *
28389762 CATTATAGCCTGCTAGGCTCAAAGGCCCGA
1 CATT-TCGCCTGCTAGGCTC-GAGGCCCGA
28389792 ATAATCAAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
42 45 0.67
43 14 0.21
44 8 0.12
ACGTcount: A:0.20, C:0.32, G:0.25, T:0.23
Consensus pattern (42 bp):
CATTTCGCCTGCTAGGCTCGAGGCCCGATATCAGTTCACCGA
Found at i:28390235 original size:43 final size:43
Alignment explanation
Indices: 28390112--28390235 Score: 196
Period size: 42 Copynumber: 2.9 Consensus size: 43
28390102 ACATATCATT
* *
28390112 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* * *
28390155 TCACCGGAACGAAGCCTAC-AGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
28390197 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
28390236 TAATACCAGC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 39 0.54
43 33 0.46
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.11
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:28390271 original size:38 final size:38
Alignment explanation
Indices: 28390228--28390311 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
28390218 GGCACGAAGG
* * *
28390228 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
*
28390266 CCCGAATATAATACCAGCACGAAGCCTCCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
*
28390304 CCTGAATA
1 CCCGAATA
28390312 CACATCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
Found at i:28397326 original size:41 final size:40
Alignment explanation
Indices: 28397272--28397358 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 40
28397262 CGAAGGAGAA
*
28397272 AAAAAATTACAACAAAACTCTATTCTAAAGAAAATAAAAG
1 AAAAAATTACAACAAAAATCTATTCTAAAGAAAATAAAAG
*
28397312 AAAAAATCTACAACAAAAATCTATTCTAACGAAAATAAAAG
1 AAAAAAT-TACAACAAAAATCTATTCTAAAGAAAATAAAAG
28397353 AAAAAA
1 AAAAAA
28397359 AAACCTAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 7 0.16
41 37 0.84
ACGTcount: A:0.64, C:0.13, G:0.05, T:0.18
Consensus pattern (40 bp):
AAAAAATTACAACAAAAATCTATTCTAAAGAAAATAAAAG
Found at i:28400159 original size:110 final size:109
Alignment explanation
Indices: 28400011--28400305 Score: 414
Period size: 109 Copynumber: 2.7 Consensus size: 109
28400001 TTTGACCAGC
* * * * *
28400011 TCACAATGCTGCTCACACAAGCTGTAGAGAATCCGCAACAGATGTACGATCTCAAGCCATCGTTA
1 TCACGATGCTGCTCACACAAGCTGTAGAGAATCTGCAACAGATGCAGGATCTC-AGCCATTGTTA
* *
28400076 CAGTCTGTATCACCGGTATAT-GATACCTACTAAATAATCATCGGG
65 CGGTCTGTATCACCGGTATATAG-TACCTACTAAATAATCATCAGG
* * *
28400121 TCACGATGCTGC-CTACACAAGTTGTAGAGAATCTGCAACAGATGCAGGATCTTAGCCATTTTTA
1 TCACGATGCTGCTC-ACACAAGCTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATTGTTA
* * * *
28400185 TGGTTTATATCACGGGTATATAGTACCTACTAAATAATCATCAGG
65 CGGTCTGTATCACCGGTATATAGTACCTACTAAATAATCATCAGG
*
28400230 TCACGATGCTGCTCACACAAGCTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATTGCTAC
1 TCACGATGCTGCTCACACAAGCTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATTGTTAC
28400295 GGTCTGTATCA
66 GGTCTGTATCA
28400306 TTGGCTCAGA
Statistics
Matches: 161, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
109 114 0.71
110 47 0.29
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (109 bp):
TCACGATGCTGCTCACACAAGCTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATTGTTAC
GGTCTGTATCACCGGTATATAGTACCTACTAAATAATCATCAGG
Found at i:28400380 original size:40 final size:40
Alignment explanation
Indices: 28400328--28400412 Score: 152
Period size: 40 Copynumber: 2.1 Consensus size: 40
28400318 CTGGTAGACA
*
28400328 ACACTAGCAAAAAGCTTGCTAGGCACAATGCCCGATAAAC
1 ACACTAGCAAAAAGCTTGCTAGGCACAAAGCCCGATAAAC
*
28400368 ACACTAGCAAAAAGCTTGCTAGGCACAAAGCCCGATAAAT
1 ACACTAGCAAAAAGCTTGCTAGGCACAAAGCCCGATAAAC
28400408 ACACT
1 ACACT
28400413 GATCACGTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.15
Consensus pattern (40 bp):
ACACTAGCAAAAAGCTTGCTAGGCACAAAGCCCGATAAAC
Found at i:28416872 original size:20 final size:20
Alignment explanation
Indices: 28416849--28416906 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
28416839 ACGTGCATTT
28416849 AGGGGTACCGAAGTACAACC
1 AGGGGTACCGAAGTACAACC
* *** * *
28416869 AGGGGCATATAAGTGCAATC
1 AGGGGTACCGAAGTACAACC
28416889 AGGGGTACCGAAGTACAA
1 AGGGGTACCGAAGTACAA
28416907 GCAAGGACAT
Statistics
Matches: 27, Mismatches: 11, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.19, G:0.31, T:0.14
Consensus pattern (20 bp):
AGGGGTACCGAAGTACAACC
Found at i:28416885 original size:40 final size:40
Alignment explanation
Indices: 28416849--28416927 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
28416839 ACGTGCATTT
* *
28416849 AGGGGTACCGAAGTACAACCAGGGGCATATAAGTGCAATC
1 AGGGGTACCGAAGTACAACCAAGGACATATAAGTGCAATC
* *
28416889 AGGGGTACCGAAGTACAAGCAAGGACATGTAAGTGCAAT
1 AGGGGTACCGAAGTACAACCAAGGACATATAAGTGCAAT
28416928 AATTCAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.37, C:0.18, G:0.30, T:0.15
Consensus pattern (40 bp):
AGGGGTACCGAAGTACAACCAAGGACATATAAGTGCAATC
Found at i:28417691 original size:20 final size:20
Alignment explanation
Indices: 28417663--28417700 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
28417653 AACTATCATG
*
28417663 TTTTCTTTATGTTATTAACC
1 TTTTATTTATGTTATTAACC
*
28417683 TTTTATTTATTTTATTAA
1 TTTTATTTATGTTATTAA
28417701 TAAAATAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTTATTTATGTTATTAACC
Found at i:28419829 original size:21 final size:21
Alignment explanation
Indices: 28419803--28419870 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
28419793 AAAGTGTAAA
28419803 CAGGGGCACATATGTGCAATT
1 CAGGGGCACATATGTGCAATT
** * * *
28419824 CAGGGGCACCGAAGTACAA-A
1 CAGGGGCACATATGTGCAATT
* *
28419844 CAGGGGCACGTATGTGCTATT
1 CAGGGGCACATATGTGCAATT
28419865 CAGGGG
1 CAGGGG
28419871 TATCGAAGCA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
20 14 0.40
21 21 0.60
ACGTcount: A:0.28, C:0.21, G:0.34, T:0.18
Consensus pattern (21 bp):
CAGGGGCACATATGTGCAATT
Found at i:28419845 original size:41 final size:41
Alignment explanation
Indices: 28419800--28419905 Score: 160
Period size: 41 Copynumber: 2.6 Consensus size: 41
28419790 ACCAAAGTGT
* *
28419800 AAACAGGGGCACATATGTGCAATTCAGGGGCACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGCACCGAAGCAC
* * *
28419841 AAACAGGGGCACGTATGTGCTATTCAGGGGTATCGAAGCAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGCACCGAAGCAC
28419882 AAAC-GGGGCACGTATGTGCAATTC
1 AAACAGGGGCACGTATGTGCAATTC
28419906 GTAGAATAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 19 0.32
41 40 0.68
ACGTcount: A:0.31, C:0.21, G:0.30, T:0.18
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGCACCGAAGCAC
Found at i:28426692 original size:6 final size:6
Alignment explanation
Indices: 28426671--28426713 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
28426661 AATTTAAATA
* *
28426671 TATAA- TATAA- TATAGT TATAGT TATAAT TATAAT TATAAT TAT
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TAT
28426714 TTTATTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 9 0.26
6 26 0.74
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (6 bp):
TATAAT
Found at i:28427348 original size:25 final size:25
Alignment explanation
Indices: 28427320--28427374 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
28427310 TTTAATTAGT
*
28427320 AAATATATTTTTTAA-AAATTTTGAA
1 AAATATATTATTTAATAAATTTT-AA
28427345 AAATATATTATTTAATAAATTTTAA
1 AAATATATTATTTAATAAATTTTAA
28427370 AAATA
1 AAATA
28427375 AACACATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 21 0.75
26 7 0.25
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
AAATATATTATTTAATAAATTTTAA
Found at i:28428684 original size:25 final size:24
Alignment explanation
Indices: 28428655--28428715 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
28428645 TTTAATTAGT
**
28428655 AAATATATATTTTTAAAAATTATAA
1 AAATATATATTTAAAAAAATTA-AA
28428680 AAATATATTATTTAAAAAAATTAAA
1 AAATATA-TATTTAAAAAAATTAAA
*
28428705 AAATAAATATT
1 AAATATATATT
28428716 ACATCTTAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.12
25 15 0.47
26 13 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AAATATATATTTAAAAAAATTAAA
Found at i:28428685 original size:23 final size:25
Alignment explanation
Indices: 28428648--28428697 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
28428638 ATTCTTATTT
*
28428648 AATTAGTAAATATATATT-TTTAAA
1 AATTAGTAAAAATATATTATTTAAA
28428672 AATTA-TAAAAATATATTATTTAAA
1 AATTAGTAAAAATATATTATTTAAA
28428696 AA
1 AA
28428698 AATTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
AATTAGTAAAAATATATTATTTAAA
Found at i:28428705 original size:23 final size:23
Alignment explanation
Indices: 28428654--28428705 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
28428644 ATTTAATTAG
*
28428654 TAAATATATATTTTTAAAAATTAT
1 TAAA-ATATATTTTTAAAAATAAT
*
28428678 AAAAATATATTATTTAAAAA-AAT
1 TAAAATATATT-TTTAAAAATAAT
28428701 TAAAA
1 TAAAA
28428706 AATAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAAATATATTTTTAAAAATAAT
Found at i:28438007 original size:21 final size:21
Alignment explanation
Indices: 28437960--28438007 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
28437950 TCCTAGGGTG
*
28437960 TAAATTGAATTCAATTGAATAT
1 TAAA-TGAATTAAATTGAATAT
*
28437982 GAAATGAATTAAATTG-ATGAT
1 TAAATGAATTAAATTGAAT-AT
28438003 TAAAT
1 TAAAT
28438008 TCATTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 2 0.09
21 17 0.77
22 3 0.14
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (21 bp):
TAAATGAATTAAATTGAATAT
Found at i:28442436 original size:24 final size:23
Alignment explanation
Indices: 28442395--28442505 Score: 136
Period size: 23 Copynumber: 4.7 Consensus size: 23
28442385 AAGCTCCTCC
28442395 TGAGCTGATGAACAGTAAGCTCTAT
1 TGAGCTGA--AACAGTAAGCTCTAT
28442420 TGAGCTGAAAACAGTAAGCTCTAT
1 TGAGCTG-AAACAGTAAGCTCTAT
28442444 TGAGCTG-AACAGTAAGCTCT-T
1 TGAGCTGAAACAGTAAGCTCTAT
* * *
28442465 TCGAGCTGAATCAGTAAGCTCCAA
1 T-GAGCTGAAACAGTAAGCTCTAT
*
28442489 TGAGTTGAAACAGTAAG
1 TGAGCTGAAACAGTAAG
28442506 TTTTTACGAG
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
21 2 0.03
22 19 0.25
23 25 0.32
24 23 0.30
25 7 0.09
26 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAT
Found at i:28442457 original size:22 final size:22
Alignment explanation
Indices: 28442403--28442505 Score: 127
Period size: 24 Copynumber: 4.5 Consensus size: 22
28442393 CCTGAGCTGA
28442403 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATTGAGC
28442425 TGAAAACAGTAAGCTCTATTGAGC
1 TG--AACAGTAAGCTCTATTGAGC
28442449 TGAACAGTAAGCTCT-TTCGAGC
1 TGAACAGTAAGCTCTATT-GAGC
* * *
28442471 TGAATCAGTAAGCTCCAATGAGT
1 TGAA-CAGTAAGCTCTATTGAGC
28442494 TGAAACAGTAAG
1 TG-AACAGTAAG
28442506 TTTTTACGAG
Statistics
Matches: 72, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
21 2 0.03
22 23 0.32
23 22 0.31
24 25 0.35
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.25
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATTGAGC
Found at i:28444082 original size:49 final size:49
Alignment explanation
Indices: 28443982--28444251 Score: 192
Period size: 48 Copynumber: 5.7 Consensus size: 49
28443972 TAAGATGCCA
*
28443982 ATGCCATGTCCCAGACATGGTCTTACACT-GACTTTCATATACAAGGCCG
1 ATGCCATGTCCCAGACA-GGTCTTACACTAGACTCTCATATACAAGGCCG
* * *
28444031 ATGCCATGTCCCAGACAGGACTTACACTAG-CTCTCATATATC-GGTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTAGACTCTCATATA-CAAG-GCCG
** * * * *
28444080 ATGCCACATTCCAGACAGGTCTTACACTA-A--CACACA-ACAA-GCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTAGACTCTCATATACAAGGCCG
** * * *
28444124 ACACCATATCCCAGACAGGTCTTACACTAG-CTCGT-ATATCGCGAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTAGACTC-TCATAT-ACAAGGCCG
* * * *
28444173 ATG-CATGTCCCAGACATGTCTTACACTAG-CTCTCGTCT-CAATGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTAGACTCTCATATACAAGGCCG
* * *
28444219 ATG-CATGTCTCAAACATGTCTTACACT-GACTCT
1 ATGCCATGTCCCAGACAGGTCTTACACTAGACTCT
28444252 GATACTGTGG
Statistics
Matches: 175, Mismatches: 32, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
44 27 0.15
45 2 0.01
46 39 0.22
47 5 0.03
48 51 0.29
49 51 0.29
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.25
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTAGACTCTCATATACAAGGCCG
Found at i:28444203 original size:48 final size:46
Alignment explanation
Indices: 28444132--28444245 Score: 138
Period size: 46 Copynumber: 2.4 Consensus size: 46
28444122 TGACACCATA
* * *
28444132 TCCCAGACAGGTCTTACACTAGCTCGTATATCGCGAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTC-T-CATCGCAAGGCCGATGCATG
* * *
28444180 TCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTCTCATCGCAAGGCCGATGCATG
* *
28444226 TCTCAAACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
28444246 GACTCTGATA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 33 0.57
47 1 0.02
48 24 0.41
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTAGCTCTCATCGCAAGGCCGATGCATG
Found at i:28444282 original size:46 final size:45
Alignment explanation
Indices: 28444169--28444283 Score: 112
Period size: 46 Copynumber: 2.5 Consensus size: 45
28444159 ATATCGCGAG
*
28444169 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCT-AAT
* *
28444215 GCCGATGCATGT-CTCAAACATGTCTTACACT-GACTCT-GATACT-GT
1 GCCGATGCATGTCCT-AGACATGTCTTACACTAG-CTCTCG-T-CTAAT
*
28444260 GGCTGATGCATGTCCTAGACATGT
1 -GCCGATGCATGTCCTAGACATGT
28444284 ATTGCATTAG
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
45 4 0.07
46 50 0.86
47 4 0.07
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (45 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTAAT
Found at i:28449951 original size:6 final size:6
Alignment explanation
Indices: 28449925--28449964 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
28449915 TAAAGAAGAT
* *
28449925 AAATAA AGATAA AAGTAA AAATAA AAATAA TAAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA AAA
28449965 GTTCTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:28449951 original size:13 final size:14
Alignment explanation
Indices: 28449935--28449966 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
28449925 AAATAAAGAT
28449935 AAAAGTAA-AAATA
1 AAAAGTAATAAATA
28449948 AAAA-TAATAAATA
1 AAAAGTAATAAATA
28449961 AAAAGT
1 AAAAGT
28449967 TCTTAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 13 0.76
14 1 0.06
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (14 bp):
AAAAGTAATAAATA
Found at i:28461182 original size:48 final size:47
Alignment explanation
Indices: 28461116--28461330 Score: 229
Period size: 46 Copynumber: 4.6 Consensus size: 47
28461106 AAGCTGACAC
* * * *
28461116 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCGCAAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCAAGGCCGATG
* * ** *
28461164 CATGTCCCAAACATGTCTTACACTAGCTCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCAAGGCCGATG
* * * *
28461210 CATGTCCCAGACATGTATTACACTGGCTTAAATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCAAGGCCGATG
* * * *
28461258 CATGTCCCAGACATGTCTTACACTGGCTCTCATA-CT-ATGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TTATATCTCAAGGCCGATG
28461304 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
28461331 ACGCATATCA
Statistics
Matches: 140, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
46 69 0.49
47 3 0.02
48 67 0.48
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCAAGGCCGATG
Found at i:28461245 original size:94 final size:94
Alignment explanation
Indices: 28461116--28461330 Score: 281
Period size: 94 Copynumber: 2.3 Consensus size: 94
28461106 AAGCTGACAC
* * **
28461116 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCGCAAGGCCAATGCATGTCCCAAACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGTCCCAAACATGTC
*
28461181 TTACACTAGCTCTCGT-CTCAAT-GCCGATG
66 TTACACTAGCTCTCATACT--ATGGCCGATG
* * * * * *
28461210 CATGTCCCAGACATGTATTACACTGGCTTAAATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGTCCCAAACATGTC
* *
28461275 TTACACTGGCTCTCATACTATGGCTGATG
66 TTACACTAGCTCTCATACTATGGCCGATG
28461304 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
28461331 ACGCATATCA
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
93 2 0.02
94 100 0.96
95 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGTCCCAAACATGTC
TTACACTAGCTCTCATACTATGGCCGATG
Found at i:28463678 original size:39 final size:39
Alignment explanation
Indices: 28463635--28463763 Score: 188
Period size: 39 Copynumber: 3.3 Consensus size: 39
28463625 GGTCTTTAAC
* ** *
28463635 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
* *
28463674 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
*
28463713 CTGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
28463752 CCGGATAT-TTTC
1 CCGGATATATTTC
28463764 AATCTCATAC
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
38 4 0.05
39 76 0.95
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:28468520 original size:37 final size:37
Alignment explanation
Indices: 28468461--28468566 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
28468451 AGCTCAGACG
* * *
28468461 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
28468498 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
28468535 TAATCTCCACACGTAGTCATCGGGTCTTACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
28468567 AGAATATATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:28468840 original size:47 final size:47
Alignment explanation
Indices: 28468778--28469165 Score: 517
Period size: 47 Copynumber: 8.1 Consensus size: 47
28468768 ACACGTTTCG
* * * **
28468778 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
28468825 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
28468872 CATTGGCCATTCGGCCTTATCACACATGCACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
28468919 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * ** *
28468966 CATTGGCCATTTGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
28469019 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
28469066 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
28469117 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACA-TCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
28469163 CAT
1 CAT
28469166 AAAATCCTAA
Statistics
Matches: 304, Mismatches: 27, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
46 9 0.03
47 208 0.68
49 1 0.00
51 45 0.15
53 41 0.13
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:28468942 original size:22 final size:22
Alignment explanation
Indices: 28468868--28468942 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
28468858 GTTCACATTC
28468868 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
28468890 ATCACACAT-GCACATGTTC-ACATT
1 ATCACA-TTGGC-CA--TTCGGCCTT
28468914 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
28468937 ATCACA
1 ATCACA
28468943 CATACGCATG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.29
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:28469044 original size:100 final size:97
Alignment explanation
Indices: 28468778--28469165 Score: 583
Period size: 94 Copynumber: 4.0 Consensus size: 97
28468768 ACACGTTTCG
* * *
28468778 CATTAGCCATTCGGCCTTACCAC-ATATAT-T-CATGTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACAATATATATACAGGTTCACATTCATCACATTGGCCATTCGGC
* * *
28468840 CTTATCTCATATATGCATGTTCACATTCATCA
66 CTTATCACACATACGCATGTTCACATTCATCA
* ** *
28468872 CATTGGCCATTCGGCCTTATCAC---ACATGCACATGTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACAATATATATACAGGTTCACATTCATCACATTGGCCATTCGGC
28468934 CTTATCACACATACGCATGTTCACATTCATCA
66 CTTATCACACATACGCATGTTCACATTCATCA
*
28468966 CATTGGCCATTTGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--CA-ATATATATACAGGTTCACATTCATCACATTGGCCATTC
28469031 GGCCTTATCACACATACGCATGTTCACATTCATCA
63 GGCCTTATCACACATACGCATGTTCACATTCATCA
*
28469066 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACA-ATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
28469131 CCTTATCACACATACGCATGTTCACA-TCATCA
65 CCTTATCACACATACGCATGTTCACATTCATCA
28469163 CAT
1 CAT
28469166 AAAATCCTAA
Statistics
Matches: 271, Mismatches: 15, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
92 3 0.01
94 103 0.38
96 1 0.00
97 9 0.03
98 67 0.25
100 88 0.32
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (97 bp):
CATTGGCCATTCGGCCTTATCACAATATATATACAGGTTCACATTCATCACATTGGCCATTCGGC
CTTATCACACATACGCATGTTCACATTCATCA
Found at i:28472954 original size:56 final size:57
Alignment explanation
Indices: 28472888--28472995 Score: 164
Period size: 56 Copynumber: 1.9 Consensus size: 57
28472878 GCCCACTGAT
* *
28472888 CGATCTCGCACACATAGTGCTTGGTT-GAAGAACTCGCACACACAGTGCCTCAATTA
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTA
* * *
28472944 CGATTTCGCACACATAGTGCTCGGTTAAAAGAATTTGCACACACAGTGCCTC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTC
28472996 TAATCATTCG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
56 24 0.52
57 22 0.48
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (57 bp):
CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTA
Found at i:28473239 original size:40 final size:40
Alignment explanation
Indices: 28473207--28473557 Score: 596
Period size: 40 Copynumber: 8.8 Consensus size: 40
28473197 CCAGCATGAT
* * *
28473207 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
28473247 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
28473287 TGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
28473327 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
28473367 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
28473407 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
28473447 TGCTCTTC-GGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
28473486 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
28473526 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
28473558 CTCAATTCTC
Statistics
Matches: 293, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 38 0.13
40 255 0.87
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:28474884 original size:37 final size:37
Alignment explanation
Indices: 28474825--28474933 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
28474815 AGCTCAGACG
* * *
28474825 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
28474862 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
28474899 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
28474934 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:28475204 original size:47 final size:47
Alignment explanation
Indices: 28475142--28475628 Score: 677
Period size: 47 Copynumber: 10.1 Consensus size: 47
28475132 ACACGTTTCG
* * * **
28475142 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
28475189 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
28475236 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
28475283 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
28475330 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
28475383 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
28475430 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
28475481 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
28475528 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
28475579 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
28475626 CAT
1 CAT
28475629 AAAATCCTAA
Statistics
Matches: 398, Mismatches: 28, Indels: 28
0.88 0.06 0.06
Matches are distributed among these distances:
47 266 0.67
49 1 0.00
51 89 0.22
53 42 0.11
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:28475526 original size:98 final size:98
Alignment explanation
Indices: 28475142--28475628 Score: 792
Period size: 98 Copynumber: 5.0 Consensus size: 98
28475132 ACACGTTTCG
* *
28475142 CATTAGCCATTCGGCCTTA-C-CACATATAT-T-CATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
* * *
28475203 CCTTATCTCATATATGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
** *
28475236 CATTGGCCATTCGGCCTTATCACAC----ATACGCATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
28475297 CCTTATCACACATACGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
*
28475330 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--CACATATATATACAGGTTCACATTCATCACATTGGCCATTC
28475395 GGCCTTATCACACATACGCATGTTCACATTCATCA
64 GGCCTTATCACACATACGCATGTTCACATTCATCA
*
28475430 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
28475495 CCTTATCACACATACGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
*
28475528 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
*
28475593 CCTTATCACACATACGCATGTTCACATCCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
28475626 CAT
1 CAT
28475629 AAAATCCTAA
Statistics
Matches: 371, Mismatches: 12, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
92 2 0.01
94 101 0.27
95 1 0.00
96 5 0.01
98 174 0.47
100 88 0.24
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (98 bp):
CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
CCTTATCACACATACGCATGTTCACATTCATCA
Found at i:28477940 original size:85 final size:85
Alignment explanation
Indices: 28477811--28477989 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
28477801 TATTTTATTG
*
28477811 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
28477876 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
28477896 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
28477961 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
28477981 CCCATGCTC
1 CCCATGCTC
28477990 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:28480538 original size:26 final size:26
Alignment explanation
Indices: 28480509--28480563 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
28480499 TAAAATAATG
28480509 AAAAGGAGTATGATGAATACAAAAAA
1 AAAAGGAGTATGATGAATACAAAAAA
* *
28480535 AAAATGTGTATGATGAATACAAAAAA
1 AAAAGGAGTATGATGAATACAAAAAA
28480561 AAA
1 AAA
28480564 TGTGTGTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.62, C:0.04, G:0.16, T:0.18
Consensus pattern (26 bp):
AAAAGGAGTATGATGAATACAAAAAA
Found at i:28480558 original size:25 final size:26
Alignment explanation
Indices: 28480516--28480568 Score: 99
Period size: 25 Copynumber: 2.1 Consensus size: 26
28480506 ATGAAAAGGA
28480516 GTATGATGAATACAAAAAAAAAATGT
1 GTATGATGAATACAAAAAAAAAATGT
28480542 GTATGATGAATAC-AAAAAAAAATGT
1 GTATGATGAATACAAAAAAAAAATGT
28480567 GT
1 GT
28480569 GTAGTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 14 0.52
26 13 0.48
ACGTcount: A:0.55, C:0.04, G:0.17, T:0.25
Consensus pattern (26 bp):
GTATGATGAATACAAAAAAAAAATGT
Found at i:28481972 original size:27 final size:27
Alignment explanation
Indices: 28481941--28482118 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
28481931 TAAATTGTAC
28481941 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
28481968 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
28481994 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
28482022 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
28482050 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
28482077 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
28482104 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
28482119 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:28482055 original size:82 final size:81
Alignment explanation
Indices: 28481942--28482097 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
28481932 AAATTGTACA
* *
28481942 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
28482006 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
28482023 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
28482088 TGCGAGTTGA
65 TGCGAATTGA
28482098 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:28482109 original size:82 final size:81
Alignment explanation
Indices: 28481938--28482118 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
28481928 GATTAAATTG
* *
28481938 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
28482003 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
28482019 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
28482083 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
28482101 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
28482119 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:28490025 original size:27 final size:27
Alignment explanation
Indices: 28489994--28490171 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
28489984 TAAATTGTAC
28489994 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
28490021 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
28490047 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
28490075 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
28490103 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
28490130 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
28490157 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
28490172 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:28490108 original size:82 final size:81
Alignment explanation
Indices: 28489995--28490150 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
28489985 AAATTGTACA
* *
28489995 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
28490059 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
28490076 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
28490141 TGCGAGTTGA
65 TGCGAATTGA
28490151 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:28490162 original size:82 final size:81
Alignment explanation
Indices: 28489991--28490171 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
28489981 GATTAAATTG
* *
28489991 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
28490056 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
28490072 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
28490136 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
28490154 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
28490172 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:28493704 original size:39 final size:39
Alignment explanation
Indices: 28493661--28493786 Score: 173
Period size: 39 Copynumber: 3.3 Consensus size: 39
28493651 CTTTAACCCA
* ** *
28493661 GATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCG
1 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
* * *
28493700 GATATATTTCTAGCATATAGCCTGCGGATCTCATGTCTG
1 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
*
28493739 GATATATTTCCAACATATAGCCTGCGGACCTCATGTCCG
1 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
28493778 GATAT-TTTC
1 GATATATTTC
28493787 AATCTCATAC
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
38 4 0.05
39 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (39 bp):
GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
Found at i:28503205 original size:24 final size:24
Alignment explanation
Indices: 28503187--28503268 Score: 116
Period size: 24 Copynumber: 3.5 Consensus size: 24
28503177 TGAGCTTATA
28503187 AACAGT-AGCTCTATTGAGCTGGT
1 AACAGTAAGCTCTATTGAGCTGGT
*
28503210 AATAGTAAGCTCTATTGAGCTGGT
1 AACAGTAAGCTCTATTGAGCTGGT
*
28503234 AACAGTAAGCTCTATTAAGCT-G-
1 AACAGTAAGCTCTATTGAGCTGGT
*
28503256 AATAGTAAGCTCT
1 AACAGTAAGCTCT
28503269 TTCAAGCTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
22 12 0.22
23 6 0.11
24 36 0.67
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (24 bp):
AACAGTAAGCTCTATTGAGCTGGT
Found at i:28503321 original size:23 final size:23
Alignment explanation
Indices: 28503251--28503323 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
28503241 AGCTCTATTA
* *
28503251 AGCTG-AATAGTAAGCTCTTTCA
1 AGCTGAAATAGTAAGCTCTTACG
** *
28503273 AGCT-AAATCAGTAAGCTCCAATG
1 AGCTGAAAT-AGTAAGCTCTTACG
28503296 AGCTGAAATAGTAAGCTCTTACG
1 AGCTGAAATAGTAAGCTCTTACG
28503319 AGCTG
1 AGCTG
28503324 TGGTGAGTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
22 7 0.17
23 29 0.73
24 4 0.10
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (23 bp):
AGCTGAAATAGTAAGCTCTTACG
Found at i:28511334 original size:16 final size:17
Alignment explanation
Indices: 28511302--28511335 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
28511292 GGGGATGACG
28511302 TTTGTTTGGTGTTTATT
1 TTTGTTTGGTGTTTATT
*
28511319 TTTGTTT-GTTTTTATT
1 TTTGTTTGGTGTTTATT
28511335 T
1 T
28511336 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.06, C:0.00, G:0.18, T:0.76
Consensus pattern (17 bp):
TTTGTTTGGTGTTTATT
Found at i:28518741 original size:21 final size:20
Alignment explanation
Indices: 28518717--28518756 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
28518707 ATGCTCAAGT
28518717 TCCACACGGGCGTGTTGCCCA
1 TCCACACGGGCGTG-TGCCCA
28518738 TCCACACGGGCGTGTGCCC
1 TCCACACGGGCGTGTGCCC
28518757 TGTCTCAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.12, C:0.40, G:0.30, T:0.17
Consensus pattern (20 bp):
TCCACACGGGCGTGTGCCCA
Found at i:28521439 original size:64 final size:64
Alignment explanation
Indices: 28521290--28521529 Score: 180
Period size: 68 Copynumber: 3.7 Consensus size: 64
28521280 TACAGATAGT
* ** * * * * *
28521290 ATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACAGCATGT-GTACAAGAGAGCTACAAGACAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAGA-
*
28521354 TATG
62 TA-A
* * *
28521358 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
28521422 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGCAGTCAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
28521487 AA
63 AA
* * *
28521489 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGT
28521530 GTGCAAGAGA
Statistics
Matches: 137, Mismatches: 30, Indels: 15
0.75 0.16 0.08
Matches are distributed among these distances:
63 8 0.06
64 25 0.18
65 2 0.01
66 23 0.17
67 31 0.23
68 47 0.34
69 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:28523774 original size:40 final size:40
Alignment explanation
Indices: 28523681--28523893 Score: 254
Period size: 40 Copynumber: 5.3 Consensus size: 40
28523671 ATTATAATCT
* * * *
28523681 CGCACACTAAGTACCTTT-CATAGC-GAAAGCTATCTCAATCT
1 CGCACACTAAGT-GCTTTATATAGCTG-AAGCTATCTCGAT-A
** *
28523722 CGCACACTAAGTGCCATATATAG-TCGAAGCTAT-TCTGATT
1 CGCACACTAAGTGCTTTATATAGCT-GAAGCTATCTC-GATA
* *
28523762 CGCACAGTAAGTGCTTTATATAGCTGAAGCTATCTCAATA
1 CGCACACTAAGTGCTTTATATAGCTGAAGCTATCTCGATA
*
28523802 CGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGATA
1 CGCACACTAAGTGCTTTATATAGCTGAAGCTATCTCGATA
*
28523842 CGCACACTAAGTGGTTTATATAGCTGAAGCTATCTCGATA
1 CGCACACTAAGTGCTTTATATAGCTGAAGCTATCTCGATA
28523882 CGCACACTAAGT
1 CGCACACTAAGT
28523894 TCCAAACATA
Statistics
Matches: 151, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
40 122 0.81
41 28 0.19
42 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (40 bp):
CGCACACTAAGTGCTTTATATAGCTGAAGCTATCTCGATA
Found at i:28523834 original size:80 final size:80
Alignment explanation
Indices: 28523640--28523893 Score: 298
Period size: 80 Copynumber: 3.1 Consensus size: 80
28523630 TCGATATCTA
* * * * * * *
28523640 GCACACTAAGTGCCAAAGCATAGCTGAAGCTATTATAATCTCGCACACTAAGTACCTTT-CATAG
1 GCACACTAAGTGCCATA-TATAGCCGAAGCTATTCTGAT-TCGCACACTAAGT-GCTTTATATAG
*
28523704 C-GAAAGCTATCTCAATCTC
63 CTG-AAGCTATCTCAAT-AC
* *
28523723 GCACACTAAGTGCCATATATAGTCGAAGCTATTCTGATTCGCACAGTAAGTGCTTTATATAGCTG
1 GCACACTAAGTGCCATATATAGCCGAAGCTATTCTGATTCGCACACTAAGTGCTTTATATAGCTG
28523788 AAGCTATCTCAATAC
66 AAGCTATCTCAATAC
** * *
28523803 GCACACTAAGTGCTTTATATAGCCGAAGCTA-TCTCGATACGCACACTAAGTGGTTTATATAGCT
1 GCACACTAAGTGCCATATATAGCCGAAGCTATTCT-GATTCGCACACTAAGTGCTTTATATAGCT
*
28523867 GAAGCTATCTCGATAC
65 GAAGCTATCTCAATAC
28523883 GCACACTAAGT
1 GCACACTAAGT
28523894 TCCAAACATA
Statistics
Matches: 151, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
79 3 0.02
80 85 0.56
81 30 0.20
82 17 0.11
83 16 0.11
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (80 bp):
GCACACTAAGTGCCATATATAGCCGAAGCTATTCTGATTCGCACACTAAGTGCTTTATATAGCTG
AAGCTATCTCAATAC
Found at i:28526337 original size:16 final size:16
Alignment explanation
Indices: 28526312--28526352 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
28526302 GGTCGAAAAT
28526312 TTTTAATTTTTATGGAA
1 TTTT-ATTTTTATGGAA
*
28526329 -TTTATTTTTATGTAA
1 TTTTATTTTTATGGAA
28526344 TTTTATTTT
1 TTTTATTTT
28526353 ATTTTTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (16 bp):
TTTTATTTTTATGGAA
Found at i:28529963 original size:17 final size:17
Alignment explanation
Indices: 28529941--28529994 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
28529931 TTTGAATTCC
28529941 ATAGCTATTTAATCCTT
1 ATAGCTATTTAATCCTT
* *
28529958 ATAGCTA-CT-AGCC--
1 ATAGCTATTTAATCCTT
28529971 ATAGCTATTTAATCCTT
1 ATAGCTATTTAATCCTT
28529988 ATAGCTA
1 ATAGCTA
28529995 CTAGAATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
13 7 0.24
14 1 0.03
15 6 0.21
16 1 0.03
17 14 0.48
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.39
Consensus pattern (17 bp):
ATAGCTATTTAATCCTT
Found at i:28529975 original size:30 final size:30
Alignment explanation
Indices: 28529939--28529998 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
28529929 GTTTTGAATT
28529939 CCATAGCTATTTAATCCTTATAGCTACTAG
1 CCATAGCTATTTAATCCTTATAGCTACTAG
28529969 CCATAGCTATTTAATCCTTATAGCTACTAG
1 CCATAGCTATTTAATCCTTATAGCTACTAG
28529999 AATTCAACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (30 bp):
CCATAGCTATTTAATCCTTATAGCTACTAG
Found at i:28533857 original size:46 final size:46
Alignment explanation
Indices: 28533785--28533957 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
28533775 TGTAACCCGC
*
28533785 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
28533831 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
28533881 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTC-GCAT
28533924 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
28533958 AGATGCCCAA
Statistics
Matches: 107, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
41 1 0.01
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:28533952 original size:93 final size:93
Alignment explanation
Indices: 28533793--28533964 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
28533783 GCCCATAAGT
* * *
28533793 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
28533858 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
*
28533886 GAACTCGGACTCAACTCAACGAGTTCGGACA-TCTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTC-GCATCCATAAGTGAACTCGGACTCAACTCA
28533950 ACGAGTTCAGATGCC
65 ACGAGTTCAGATGCC
28533965 CAAATATCCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:28533979 original size:46 final size:45
Alignment explanation
Indices: 28533836--28533979 Score: 116
Period size: 46 Copynumber: 3.1 Consensus size: 45
28533826 CGCATCCATG
* * *
28533836 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GATGCCCA--TATATCCC
* * * *
28533884 A-CGAACTCGGACTCAACTCAACGAGTTCG--G-ACATCTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGATGCCCATAT--ATCC--C
*
28533929 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GATGCCCATATATCCC
28533975 AGTGA
1 AGTGA
28533980 CATGTCACTC
Statistics
Matches: 75, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
41 1 0.01
43 4 0.05
44 1 0.01
45 1 0.01
46 32 0.43
47 27 0.36
48 5 0.07
49 1 0.01
50 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGATGCCCATATATCCC
Found at i:28538796 original size:32 final size:32
Alignment explanation
Indices: 28538755--28538823 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
28538745 TAAAACAGAC
28538755 AGTAAACACACAGAGTAAGCTACAAAGAGCTT
1 AGTAAACACACAGAGTAAGCTACAAAGAGCTT
*
28538787 AGTAAACACACAGAGTAAGCTACAAATAGCTT
1 AGTAAACACACAGAGTAAGCTACAAAGAGCTT
28538819 AGTAA
1 AGTAA
28538824 GCCAAATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (32 bp):
AGTAAACACACAGAGTAAGCTACAAAGAGCTT
Found at i:28541795 original size:48 final size:46
Alignment explanation
Indices: 28541697--28541914 Score: 239
Period size: 47 Copynumber: 4.7 Consensus size: 46
28541687 GATTTCTTGT
* **
28541697 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CATAGAGATGA
* *
28541743 GTGCCAGTGTAAGACCATGTCTGGGACACGGTATCGGCATAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCATAGAGATGA
* *
28541791 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGA-GATGA
* * *
28541838 -TAGCCAGTGTAAGACGTGTCTAGGACATGCATCGGC-TA-AGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGATG-A
* *
28541882 GTGCTAGTGTAAGACATGTCCGGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
28541915 AGTACGTATA
Statistics
Matches: 148, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.01
44 29 0.20
45 2 0.01
46 26 0.18
47 66 0.45
48 24 0.16
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGATGA
Found at i:28541858 original size:94 final size:91
Alignment explanation
Indices: 28541697--28541914 Score: 271
Period size: 94 Copynumber: 2.4 Consensus size: 91
28541687 GATTTCTTGT
**
28541697 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAGTGTAAGACCATG
* *
28541762 TCTGGGACACGGTATCGGC-ATAGAGATGA
66 TCTAGGACA-GGCATCGGCTA-AGAG-T-A
* *
28541791 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGA-TAGCCAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACGATGAGT-GCCAGTGTAAGACCA
* *
28541854 TGTCTAGGACATGCATCGGCTAAGAGTT
64 TGTCTAGGACAGGCATCGGCTAAGAGTA
* *
28541882 GTGCTAGTGTAAGACATGTCCGGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
28541915 AGTACGTATA
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 31 0.28
92 1 0.01
93 11 0.10
94 51 0.46
95 17 0.15
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAGTGTAAGACCATG
TCTAGGACAGGCATCGGCTAAGAGTA
Found at i:28542865 original size:20 final size:20
Alignment explanation
Indices: 28542840--28542883 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
28542830 AGGGATAAGG
28542840 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
*
28542860 ACACGGGTGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
28542880 ACAC
1 ACAC
28542884 AGACGTGCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.39, G:0.27, T:0.11
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGCC
Found at i:28546352 original size:46 final size:46
Alignment explanation
Indices: 28546302--28546474 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
28546292 TGGTTGAGCA
*
28546302 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
28546348 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* **
28546393 CATCCGAACTCGTAGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
28546441 CCCGAGCTC-TTCGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTT-GAGTTGAGTCCGAGTTCACTTA
28546475 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 57 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:28546458 original size:93 final size:93
Alignment explanation
Indices: 28546299--28546469 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
28546289 GGATGGTTGA
* * *
28546299 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTAGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
28546364 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
28546392 GCATCCGAACTCGTAGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGCCCGAGCTC-TTCGAG
1 GCATCCGAACTCGTAGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTT-GAG
28546456 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
28546470 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTAGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:28548385 original size:19 final size:19
Alignment explanation
Indices: 28548361--28548400 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
28548351 TGTGCCATCA
28548361 TAAATTCATTGGCATAACT
1 TAAATTCATTGGCATAACT
* *
28548380 TAAATTTATTTGCATAACT
1 TAAATTCATTGGCATAACT
28548399 TA
1 TA
28548401 CACATTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (19 bp):
TAAATTCATTGGCATAACT
Found at i:28556064 original size:19 final size:19
Alignment explanation
Indices: 28556040--28556079 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
28556030 TGTGCCATCA
28556040 TAAATTCATAGGCATAACT
1 TAAATTCATAGGCATAACT
* *
28556059 TAAATTTATATGCATAACT
1 TAAATTCATAGGCATAACT
28556078 TA
1 TA
28556080 CACATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.38
Consensus pattern (19 bp):
TAAATTCATAGGCATAACT
Found at i:28559270 original size:14 final size:13
Alignment explanation
Indices: 28559243--28559285 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 13
28559233 TAGCCGTGTG
28559243 TTCTTCTTTGCTTT
1 TTCTTCTTT-CTTT
28559257 TTCTCTCTTTCTTT
1 TTCT-TCTTTCTTT
28559271 TTCTTTCTTTTCTTT
1 TTC-TTC-TTTCTTT
28559286 GATAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.74
Consensus pattern (13 bp):
TTCTTCTTTCTTT
Found at i:28560422 original size:87 final size:86
Alignment explanation
Indices: 28560273--28560435 Score: 231
Period size: 87 Copynumber: 1.9 Consensus size: 86
28560263 TTAAATTCGA
* *
28560273 TGAATTCATCAAGTTCGCCTCAATAGGACCACCCAAACTCTAGGATATGAACTCATTTAGAGTAA
1 TGAATTCATCAAGTCCGCCTCAATAGGACCACCCAAACTCTAGGATATGAACTCATTAAGAGTAA
28560338 TAAACTTAACCTCACATGTCAG
66 -AAACTTAACCTCACATGTCAG
* *
28560360 TGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAA-TCCT-GAGATATGAATTCATTAAGAGT
1 TGAATTCATCAAGTCCGCCTCAATAGGACCACCCAAACT-CTAG-GATATGAACTCATTAAGAGT
* *
28560423 GAGAACTTAACCT
64 AAAAACTTAACCT
28560436 TATGCATATT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
86 12 0.18
87 56 0.82
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (86 bp):
TGAATTCATCAAGTCCGCCTCAATAGGACCACCCAAACTCTAGGATATGAACTCATTAAGAGTAA
AAACTTAACCTCACATGTCAG
Found at i:28561867 original size:26 final size:26
Alignment explanation
Indices: 28561833--28561913 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
28561823 ACTCATGGTT
* * *
28561833 CTCTGACCAACTTAAACTCAAGGGCC
1 CTCTAACCAACTCAAACTCAAGGGAC
28561859 CTCTAACCAACTCAAACTCAAGGGAC
1 CTCTAACCAACTCAAACTCAAGGGAC
* *
28561885 CTCCAACCAACTCAAACTCAAGGGTC
1 CTCTAACCAACTCAAACTCAAGGGAC
28561911 CTC
1 CTC
28561914 AGACCCATTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.33, C:0.37, G:0.12, T:0.17
Consensus pattern (26 bp):
CTCTAACCAACTCAAACTCAAGGGAC
Found at i:28562977 original size:33 final size:32
Alignment explanation
Indices: 28562933--28562996 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
28562923 AAAACATTGT
* *
28562933 GGGCCTGAGCCCATTCCAGTAAT-AGTATCAGTG
1 GGGCCTAAGCCCATTACAG-AATCAGTA-CAGTG
28562966 GGGCCTAAGCCCATTACAGAATCAGTACAGT
1 GGGCCTAAGCCCATTACAGAATCAGTACAGT
28562997 ATGCAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (32 bp):
GGGCCTAAGCCCATTACAGAATCAGTACAGTG
Found at i:28570368 original size:2 final size:2
Alignment explanation
Indices: 28570355--28570389 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
28570345 GGAGAACAAG
*
28570355 GA GA GA GC GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
28570390 GGAAGAGAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:28570874 original size:60 final size:59
Alignment explanation
Indices: 28570793--28570923 Score: 217
Period size: 60 Copynumber: 2.2 Consensus size: 59
28570783 TATAAATTTG
* * * *
28570793 GCCACTAATATTTGTATGTTTTGTTAAAATAGTGTTAATTGTATTTTTAAATTTTTTTTT
1 GCCATTAATTTTTGTATGTTTTGTTAAAATAGTATTAATTGTATTTTTAAA-TTTTTGTT
28570853 GCCATTAATTTTTGTATGTTTTGTTAAAATAGTATTAATTGTATTTTTAAATTTTTGTT
1 GCCATTAATTTTTGTATGTTTTGTTAAAATAGTATTAATTGTATTTTTAAATTTTTGTT
28570912 GCCATTAATTTT
1 GCCATTAATTTT
28570924 GTTTCTTTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
59 19 0.28
60 48 0.72
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.56
Consensus pattern (59 bp):
GCCATTAATTTTTGTATGTTTTGTTAAAATAGTATTAATTGTATTTTTAAATTTTTGTT
Found at i:28572055 original size:16 final size:16
Alignment explanation
Indices: 28572036--28572066 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28572026 CTTCTTCACT
28572036 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
28572052 TACTTACTTACTTAA
1 TACTCACTTACTTAA
28572067 TCAAATTTAT
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:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:28572072 original size:20 final size:20
Alignment explanation
Indices: 28572033--28572072 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
28572023 AAACTTCTTC
* *
28572033 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
28572053 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
28572073 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:28572450 original size:108 final size:110
Alignment explanation
Indices: 28572304--28572500 Score: 265
Period size: 108 Copynumber: 1.8 Consensus size: 110
28572294 GTCTCCTTTT
* * * *
28572304 GAAACTTACCATTGTCATGTCTCGACATGGTCTTACATGGTATCATTGCCTTATG-AA-CTCACC
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCATTACCTTA-GAAACCTCACC
28572367 AA-TACCATGCCTTGGCATGGTCTTCCATAGGACCTTTGCATTATA
65 AATTACCATGCCTTGGCATGGTCTTCCATAGGACCTTTGCATTATA
* * * * * *
28572412 GAAACTTATCAATGCCATGTCTTGACATTGTCTTACATGATATCCTTACCTTAGAAACCTTACTA
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCATTACCTTAGAAACCTCACCA
*
28572477 ATTTCCATGCCTTGGCATGGTCTT
66 ATTACCATGCCTTGGCATGGTCTT
28572501 ACATGGTATC
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.63
109 6 0.08
110 21 0.28
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.35
Consensus pattern (110 bp):
GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCATTACCTTAGAAACCTCACCA
ATTACCATGCCTTGGCATGGTCTTCCATAGGACCTTTGCATTATA
Found at i:28575650 original size:17 final size:18
Alignment explanation
Indices: 28575613--28575648 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
28575603 GTAAGTGTAC
*
28575613 ATTGTCATTGCATTTTTTT
1 ATTGTCATTACA-TTTTTT
28575632 ATTGTCATTACATTTTT
1 ATTGTCATTACATTTTT
28575649 ATGTTAGTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.61
Consensus pattern (18 bp):
ATTGTCATTACATTTTTT
Found at i:28582578 original size:41 final size:41
Alignment explanation
Indices: 28582521--28582666 Score: 197
Period size: 41 Copynumber: 3.6 Consensus size: 41
28582511 TACTCGAATG
28582521 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
28582562 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
* * * * * *
28582603 ACATCCGGACTAAGAT-CCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAAGCGACT
* *
28582643 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
28582667 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
40 24 0.26
41 68 0.73
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
Found at i:28592886 original size:46 final size:46
Alignment explanation
Indices: 28592836--28593005 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 46
28592826 TTGAGCATCT
28592836 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * * *
28592882 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* *
28592929 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
*
28592975 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
28593006 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:28592989 original size:93 final size:93
Alignment explanation
Indices: 28592830--28593000 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
28592820 GGATGGTTGA
* * *
28592830 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
28592895 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
28592923 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
28592988 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
28593001 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:28595197 original size:39 final size:39
Alignment explanation
Indices: 28595143--28595352 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
28595133 ATTTGAATGA
* *
28595143 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
28595182 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA-TT
* * *
28595222 TATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
28595262 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
28595302 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
28595341 ATATCC-GGCTAA
1 -TATCCGGGCTAA
28595353 ATTCCGAAGA
Statistics
Matches: 152, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
39 45 0.30
40 104 0.68
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:28600288 original size:38 final size:38
Alignment explanation
Indices: 28600211--28600289 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
28600201 GTCTGAACAA
* * * *
28600211 AAACATGTATTAAAGGCGTCTTAAACTAGGACATATTT
1 AAACATATATTAAAGACGTCCTAAACTAGGAAATATTT
* * *
28600249 AAACATATATTGAAGACGTCCTAAACTATGAAATCTTT
1 AAACATATATTAAAGACGTCCTAAACTAGGAAATATTT
28600287 AAA
1 AAA
28600290 AACCCTTGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (38 bp):
AAACATATATTAAAGACGTCCTAAACTAGGAAATATTT
Found at i:28602767 original size:41 final size:41
Alignment explanation
Indices: 28602693--28602901 Score: 282
Period size: 41 Copynumber: 5.1 Consensus size: 41
28602683 CAAAAATTGT
*
28602693 AAAACACAGAGCAATAGCGGCG-TTTT-ACCAAAAACGCCGCTA
1 AAAAC-CAGAGCATTAGCGGCGCTTTTGA--AAAAACGCCGCTA
* *
28602735 AAAA-CAGAGTATTAGCGGCGCTTTAGTAAAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTG-AAAAAACGCCGCTA
* *
28602776 AAAAACAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGAAAAAACGCCGCTA
*
28602817 AAAACCAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGAAAAAACGCCGCTA
*
28602858 AAAACCAGAACATTAGCGGCGCTTTT-AGAAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGA-AAAAACGCCGCTA
28602899 AAA
1 AAA
28602902 GTCATATAAC
Statistics
Matches: 151, Mismatches: 11, Indels: 11
0.87 0.06 0.06
Matches are distributed among these distances:
40 15 0.10
41 111 0.74
42 24 0.16
43 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (41 bp):
AAAACCAGAGCATTAGCGGCGCTTTTGAAAAAACGCCGCTA
Found at i:28603080 original size:14 final size:14
Alignment explanation
Indices: 28603058--28603151 Score: 52
Period size: 14 Copynumber: 6.7 Consensus size: 14
28603048 TTAATTATCA
*
28603058 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
28603072 TTATGGTTTAAGATGGT
1 TTATGGTTT-A-A-GGT
* *
28603089 ATAGGGTTTAAGGT
1 TTATGGTTTAAGGT
28603103 TTATGAG-TTAA---
1 TTATG-GTTTAAGGT
* *
28603114 CTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
28603128 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
*
28603142 TTAAGGTTTA
1 TTATGGTTTA
28603152 TGAGTTAACT
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
10 1 0.02
11 8 0.13
14 37 0.61
15 3 0.05
16 2 0.03
17 10 0.16
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:28603218 original size:7 final size:7
Alignment explanation
Indices: 28603189--28603317 Score: 61
Period size: 7 Copynumber: 18.1 Consensus size: 7
28603179 GATGAATTAT
28603189 GGGTTTA
1 GGGTTTA
*
28603196 GGGATTA
1 GGGTTTA
* *
28603203 TGATTTA
1 GGGTTTA
28603210 GGGTTTA
1 GGGTTTA
*
28603217 GGGGTTA
1 GGGTTTA
28603224 GGG-TT-
1 GGGTTTA
28603229 GGAGTTTAA
1 GG-GTTT-A
*
28603238 GGCG-TAA
1 GG-GTTTA
28603245 GGGTTT-
1 GGGTTTA
*
28603251 GGTGTTAA
1 GG-GTTTA
*
28603259 GGGTTAA
1 GGGTTTA
28603266 GGGTTTA
1 GGGTTTA
*
28603273 GTGTTTA
1 GGGTTTA
28603280 GGGTTTA
1 GGGTTTA
*
28603287 TGGG-ATA
1 -GGGTTTA
* *
28603294 TGAGTTAA
1 -GGGTTTA
28603302 GAGGTTTA
1 G-GGTTTA
28603310 GGGTTTA
1 GGGTTTA
28603317 G
1 G
28603318 ATTAATTAGT
Statistics
Matches: 92, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
5 2 0.02
6 6 0.07
7 69 0.75
8 12 0.13
9 3 0.03
ACGTcount: A:0.21, C:0.01, G:0.40, T:0.38
Consensus pattern (7 bp):
GGGTTTA
Done.