Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 39 of 199
Found at i:15598766 original size:17 final size:17
Alignment explanation
Indices: 15598741--15598773 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15598731 ATAAAAATTT
15598741 CAACAATTAATAACTAA
1 CAACAATTAATAACTAA
*
15598758 CAACGATTAATAACTA
1 CAACAATTAATAACTA
15598774 GCTTCGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.18, G:0.03, T:0.24
Consensus pattern (17 bp):
CAACAATTAATAACTAA
Found at i:15604450 original size:19 final size:19
Alignment explanation
Indices: 15604426--15604475 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
15604416 AAAATATAAA
15604426 TAATAATAAATAATAAATTT
1 TAATAA-AAATAATAAATTT
*
15604446 T-ATAAAAATTATTAAATTT
1 TAATAAAAA-TAATAAATTT
15604465 TAATAAAAATA
1 TAATAAAAATA
15604476 TAAGAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.11
19 16 0.59
20 8 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAATAAAAATAATAAATTT
Found at i:15604486 original size:20 final size:19
Alignment explanation
Indices: 15604426--15604487 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
15604416 AAAATATAAA
*
15604426 TAATAATAAATA-ATAAATT
1 TAATAA-AAATATAAAAATT
* * *
15604445 TTATAAAAATTATTAAATTT
1 TAATAAAAA-TATAAAAATT
15604465 TAATAAAAATATAAGAAATT
1 TAATAAAAATATAA-AAATT
15604485 TAA
1 TAA
15604488 AATTTATTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
18 3 0.09
19 11 0.33
20 19 0.58
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TAATAAAAATATAAAAATT
Found at i:15604541 original size:47 final size:44
Alignment explanation
Indices: 15604421--15604547 Score: 119
Period size: 46 Copynumber: 2.7 Consensus size: 44
15604411 TAAAAAAAAT
* *
15604421 ATAAATAATAATAAATAATAAATTTTATAAAAATTATTAAATTTTA
1 ATAAA-AAT-ATAAAAAATAAATTTTATAAAAATTAATAAATTTTA
* * ** *
15604467 ATAAAAATATAAGAAATTTAAAATTTATTAAAAATTAGATATTTTTTT
1 ATAAAAATATAA-AAA-ATAAATTTTA-TAAAAATTA-ATAAATTTTA
*
15604515 ATAAAAATCGTAAAAAATAAATTTTATAAAAAT
1 ATAAAAAT-ATAAAAAATAAATTTTATAAAAAT
15604548 AAAAAAAAGT
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
44 4 0.06
45 5 0.08
46 20 0.30
47 17 0.26
48 17 0.26
49 3 0.05
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.39
Consensus pattern (44 bp):
ATAAAAATATAAAAAATAAATTTTATAAAAATTAATAAATTTTA
Found at i:15604866 original size:12 final size:12
Alignment explanation
Indices: 15604851--15604876 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15604841 GATTTTTATA
15604851 TTTTTTTCTAAT
1 TTTTTTTCTAAT
15604863 TTTTTTTCTAAT
1 TTTTTTTCTAAT
15604875 TT
1 TT
15604877 ATAATAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTTCTAAT
Found at i:15604866 original size:30 final size:28
Alignment explanation
Indices: 15604800--15604868 Score: 75
Period size: 30 Copynumber: 2.4 Consensus size: 28
15604790 ATGTATTTAA
15604800 TAATTTTTTTCGATTTTTATAAAATTTT
1 TAATTTTTTTCGATTTTTATAAAATTTT
* ***
15604828 AAATTTTTTTTACGATTTTTATATTTTTTT
1 TAA-TTTTTTT-CGATTTTTATAAAATTTT
15604858 CTAATTTTTTT
1 -TAATTTTTTT
15604869 TCTAATTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
28 2 0.06
29 7 0.21
30 22 0.67
31 2 0.06
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (28 bp):
TAATTTTTTTCGATTTTTATAAAATTTT
Found at i:15605135 original size:91 final size:88
Alignment explanation
Indices: 15604965--15605137 Score: 213
Period size: 91 Copynumber: 1.9 Consensus size: 88
15604955 ATAAAAGCAA
* *
15604965 GGGATTAATTACTTTTTTTGAAAAAGTTTGAGGGTTTTTTGATACATTTTGAAAGTTCAAGTACC
1 GGGATTAATTACTTTTTTTAAAAAAGTTTGAGGGTTTTTTGATACATTTTGAAAATTCAAGTACC
*
15605030 CAATTGATTACAAAAAAGAGTAG
66 CAATTGAGTACAAAAAAGAGTAG
* * ** * *
15605053 GGGATTAGTTGCTTTTTTTAAAAAAGGTTTGAAGATTTTTTTTTATGCATTTTGAAAATTCAAGT
1 GGGATTAATTACTTTTTTTAAAAAA-GTTTG-AG-GGTTTTTTGATACATTTTGAAAATTCAAGT
*
15605118 ACCCAAATT-AGTGCAAAAAA
63 ACCC-AATTGAGTACAAAAAA
15605138 AGCAAGGCCT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
88 22 0.31
89 5 0.07
90 2 0.03
91 38 0.54
92 4 0.06
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (88 bp):
GGGATTAATTACTTTTTTTAAAAAAGTTTGAGGGTTTTTTGATACATTTTGAAAATTCAAGTACC
CAATTGAGTACAAAAAAGAGTAG
Found at i:15608280 original size:42 final size:42
Alignment explanation
Indices: 15608232--15608325 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 42
15608222 CCGTGTGGCT
*
15608232 AGGCCGTGTGGCTCACACGGTCAAGAGACACACCCGTGTCTC
1 AGGCCGTGTGGCTCACACGGTCAAGAGACACACCCATGTCTC
**
15608274 AGGCCGTGTGGCTCACACGGTCAAGAGACATGCCCATGTCTC
1 AGGCCGTGTGGCTCACACGGTCAAGAGACACACCCATGTCTC
15608316 AGGCCGTGTG
1 AGGCCGTGTG
15608326 AGTATTCGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.18
Consensus pattern (42 bp):
AGGCCGTGTGGCTCACACGGTCAAGAGACACACCCATGTCTC
Found at i:15609370 original size:42 final size:42
Alignment explanation
Indices: 15609322--15609478 Score: 233
Period size: 42 Copynumber: 3.7 Consensus size: 42
15609312 GCTCGAAAGC
*
15609322 TGAACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGT
1 TGAACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGT
*
15609364 TGAACAGAAGTTCGTAAGAGCTGAACAGAAACTCATAAGAGT
1 TGAACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGT
* * *
15609406 TGAACAAAAGCTCGTAAGAGCTGAACAGACACTCATATGAGT
1 TGAACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGT
* * * *
15609448 TAAATAGAAGCTCGTAAGAGCTAAATAGAAA
1 TGAACAGAAGCTCGTAAGAGCTGAACAGAAA
15609479 GTAAAACATG
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 103 1.00
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (42 bp):
TGAACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGT
Found at i:15609477 original size:21 final size:21
Alignment explanation
Indices: 15609305--15609469 Score: 174
Period size: 21 Copynumber: 8.0 Consensus size: 21
15609295 CTGATATGCC
*
15609305 AACAGAAGCTC-GAA-AGCTG
1 AACAGAAGCTCATAAGAGCTG
15609324 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
* *
15609345 AACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCATAAGAGCTG
* *
15609366 AACAGAAGTTCGTAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
* *
15609387 AACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCATAAGAGCTG
* *
15609408 AACAAAAGCTCGTAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
* * *
15609429 AACAGACA-CTCATATGAGTTA
1 AACAGA-AGCTCATAAGAGCTG
* *
15609450 AATAGAAGCTCGTAAGAGCT
1 AACAGAAGCTCATAAGAGCT
15609470 AAATAGAAAG
Statistics
Matches: 118, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
19 11 0.09
20 3 0.03
21 103 0.87
22 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:15619298 original size:238 final size:242
Alignment explanation
Indices: 15618871--15619350 Score: 743
Period size: 238 Copynumber: 2.0 Consensus size: 242
15618861 TTGAAGGGAT
*
15618871 TCATGAAATGCTACGACTTATGCACTACCACCTTCTACGACCGAGGTGGGTTACATTAGATGAAA
1 TCATGAAATGCTACGACTTATGCACTACCACCTTCTACGACCGAGATGGGTTACATTAGATGAAA
* * *
15618936 TTGAACACCTAAATGTATCTTCACTCACACAGTTGTTGGATTTGCAAGGAGCTGAAGAAAAATGC
66 TTGAACACCTAAATGTACCTTCACT-ACACAGTAGTTGGATTTGCAAGAAGCTGAAGAAAAATGC
* *
15619001 AGTTTTTTTTATGTCATCTAGGTTTTGGTTCACACAGCAGTCAAAATTCGCTAACTGTAGGCATC
130 AG-TTTTTTGATGTCATCTAGGTTTTGGTTCACACAGCACTCAAAATTCGCTAACTGTAGGCATC
*
15619066 TTGTGATGATAGACAGTTTAAAACTAACTGTCCACAAACTACACATACG
194 TTGTGATGATAGACAGTGTAAAACTAACTGTCCACAAACTACACATACG
* *
15619115 TCATGAAATGCTACGACTTATGCACTACCA-C-TCTACGACTGAGATGGGTTACGTTAGATGAAA
1 TCATGAAATGCTACGACTTATGCACTACCACCTTCTACGACCGAGATGGGTTACATTAGATGAAA
* * * *
15619178 TTGACCACCTAAATGTACCTTTACT-CGCAGTAGTTGGATTTGCAAGAAGCTGAAGAAAAATGGA
66 TTGAACACCTAAATGTACCTTCACTACACAGTAGTTGGATTTGCAAGAAGCTGAAGAAAAATGCA
* *
15619242 G-TTTTTGATGTCATCTAGGTTTTGGTTCACACAGCACTCAAAATTGGCTGACTGTAGGCATCTT
131 GTTTTTTGATGTCATCTAGGTTTTGGTTCACACAGCACTCAAAATTCGCTAACTGTAGGCATCTT
* * * *
15619306 TTGATGGTCGACAGTGTAAAACTAACTGTCCACAAACTACCCATA
196 GTGATGATAGACAGTGTAAAACTAACTGTCCACAAACTACACATA
15619351 GTTCATTATA
Statistics
Matches: 217, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
238 99 0.46
240 36 0.17
242 51 0.24
243 1 0.00
244 30 0.14
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (242 bp):
TCATGAAATGCTACGACTTATGCACTACCACCTTCTACGACCGAGATGGGTTACATTAGATGAAA
TTGAACACCTAAATGTACCTTCACTACACAGTAGTTGGATTTGCAAGAAGCTGAAGAAAAATGCA
GTTTTTTGATGTCATCTAGGTTTTGGTTCACACAGCACTCAAAATTCGCTAACTGTAGGCATCTT
GTGATGATAGACAGTGTAAAACTAACTGTCCACAAACTACACATACG
Found at i:15619713 original size:9 final size:9
Alignment explanation
Indices: 15619698--15619730 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
15619688 TTGAATCTCT
15619698 CTTCTTCTG
1 CTTCTTCTG
*
15619707 TTTCTTCTG
1 CTTCTTCTG
15619716 CTTCTTCTG
1 CTTCTTCTG
15619725 CTTCTT
1 CTTCTT
15619731 TTTTTCCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.00, C:0.30, G:0.09, T:0.61
Consensus pattern (9 bp):
CTTCTTCTG
Found at i:15626430 original size:23 final size:24
Alignment explanation
Indices: 15626398--15626442 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
15626388 TTTGATCACC
*
15626398 TAAAAAATT-ATTTAAAAAAAACT
1 TAAAAAATTAATATAAAAAAAACT
*
15626421 TAAAAGATTAATATAAAAAAAA
1 TAAAAAATTAATATAAAAAAAA
15626443 GTATAAGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (24 bp):
TAAAAAATTAATATAAAAAAAACT
Found at i:15630255 original size:5 final size:5
Alignment explanation
Indices: 15630245--15630272 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
15630235 ATGGATTAAT
15630245 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
15630273 ACAAGAGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:15630821 original size:18 final size:17
Alignment explanation
Indices: 15630785--15630823 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
15630775 TTAAAAAAAT
15630785 TTTAATTTCTTTATATC
1 TTTAATTTCTTTATATC
* *
15630802 TTTAATATTTTTTGTATC
1 TTTAAT-TTCTTTATATC
15630820 TTTA
1 TTTA
15630824 TTCTTGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTAATTTCTTTATATC
Found at i:15634476 original size:30 final size:31
Alignment explanation
Indices: 15634410--15634479 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
15634400 TCCACCCTTA
* * * *
15634410 AAATATTTACACTATTGATCCTTCAACTTTT
1 AAATATTTACACTATTAACCCCTCAAATTTT
*
15634441 -CATATTTACACT-TTAACCCCTCAAATTTT
1 AAATATTTACACTATTAACCCCTCAAATTTT
15634470 AAATATTTAC
1 AAATATTTAC
15634480 TATTGGGCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 13 0.41
30 19 0.59
ACGTcount: A:0.34, C:0.21, G:0.01, T:0.43
Consensus pattern (31 bp):
AAATATTTACACTATTAACCCCTCAAATTTT
Found at i:15647198 original size:12 final size:12
Alignment explanation
Indices: 15647181--15647207 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15647171 ATAATTTATA
15647181 ATTTATGATATT
1 ATTTATGATATT
15647193 ATTTATGATATT
1 ATTTATGATATT
15647205 ATT
1 ATT
15647208 GGGAAGGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (12 bp):
ATTTATGATATT
Found at i:15647397 original size:26 final size:27
Alignment explanation
Indices: 15647341--15647397 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
15647331 TTATACAAAT
*
15647341 TAAATTCAAATTAATTAACTTCTGAAA
1 TAAATTCAAATTAATTAACTTATGAAA
15647368 -AAATATCAAATTAATT-ACTTAT-AAA
1 TAAAT-TCAAATTAATTAACTTATGAAA
15647393 TAAAT
1 TAAAT
15647398 CAGATAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 3 0.11
26 13 0.48
27 11 0.41
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.37
Consensus pattern (27 bp):
TAAATTCAAATTAATTAACTTATGAAA
Found at i:15653886 original size:19 final size:19
Alignment explanation
Indices: 15653862--15653906 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
15653852 ACATTGTTTT
15653862 CAGAAGCCCGAAGGCTGAA
1 CAGAAGCCCGAAGGCTGAA
*
15653881 CAGAAGCCCGAAGGTTGAA
1 CAGAAGCCCGAAGGCTGAA
15653900 CAGAAGC
1 CAGAAGC
15653907 TCATGAGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.24, G:0.31, T:0.07
Consensus pattern (19 bp):
CAGAAGCCCGAAGGCTGAA
Found at i:15656056 original size:11 final size:11
Alignment explanation
Indices: 15656040--15656083 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
15656030 TATACTAACA
15656040 AAAATAATAAT
1 AAAATAATAAT
* *
15656051 AAAATATCTCATT
1 AAAATA-AT-AAT
15656064 AAAATAATAAT
1 AAAATAATAAT
15656075 AAAATAATA
1 AAAATAATA
15656084 TTTATCTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
11 17 0.63
12 2 0.07
13 8 0.30
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:15656580 original size:16 final size:17
Alignment explanation
Indices: 15656553--15656584 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15656543 AACTATTTAT
15656553 TTAAAGATAATATTTTG
1 TTAAAGATAATATTTTG
15656570 TTAAA-ATAATATTTT
1 TTAAAGATAATATTTT
15656585 CCCTCTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
TTAAAGATAATATTTTG
Found at i:15666684 original size:7 final size:7
Alignment explanation
Indices: 15666672--15666703 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
15666662 CTAAAGCTAC
15666672 CACTTGT
1 CACTTGT
15666679 CACTTGT
1 CACTTGT
15666686 CACTTGT
1 CACTTGT
*
15666693 CACTTAT
1 CACTTGT
15666700 CACT
1 CACT
15666704 AATCAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (7 bp):
CACTTGT
Found at i:15666689 original size:51 final size:51
Alignment explanation
Indices: 15666574--15666742 Score: 214
Period size: 58 Copynumber: 3.2 Consensus size: 51
15666564 CGGATCACAT
* * * *
15666574 TTATCACTTGTCACTTGTCACTGCTCAGATAAGTGTAGCT-AAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCAC
*
15666624 TTATCACTTGTCACTTATCACTGATTAGATAAGTGCAACTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCAC
*
15666675 TTGTCACTTGTCACTTGTCACTTATCACTAATCAGATAAGTGCAACTAAAGCTACCAC
1 -T-T-A----TCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCAC
15666733 TTATCACTTG
1 TTATCACTTG
15666743 CTAAAGCTAC
Statistics
Matches: 104, Mismatches: 7, Indels: 15
0.83 0.06 0.12
Matches are distributed among these distances:
50 35 0.34
51 17 0.16
52 1 0.01
53 1 0.01
54 1 0.01
55 1 0.01
56 1 0.01
57 1 0.01
58 46 0.44
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAACTAAAGCTACCAC
Found at i:15666750 original size:23 final size:23
Alignment explanation
Indices: 15666720--15666765 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
15666710 ATAAGTGCAA
15666720 CTAAAGCTACCACTTATCACTTG
1 CTAAAGCTACCACTTATCACTTG
*
15666743 CTAAAGCTACCACTTATTACTTG
1 CTAAAGCTACCACTTATCACTTG
15666766 TCGCTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (23 bp):
CTAAAGCTACCACTTATCACTTG
Found at i:15666765 original size:81 final size:74
Alignment explanation
Indices: 15666679--15666816 Score: 213
Period size: 74 Copynumber: 1.9 Consensus size: 74
15666669 TACCACTTGT
* *
15666679 CACTTGTCACTTGTCACTTATCACTAATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTGC
1 CACTTATCACTTGTCGCTTATCACTAATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTGC
15666744 TAAAGCTAC
66 TAAAGCTAC
* * * * *
15666753 CACTTATTACTTGTCGCTTATTACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 CACTTATCACTTGTCGCTTATCACTAATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTG
15666817 TCGCTGATCA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 57 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (74 bp):
CACTTATCACTTGTCGCTTATCACTAATCAGATAAGTGCAACTAAAGCTACCACTTATCACTTGC
TAAAGCTAC
Found at i:15666923 original size:17 final size:17
Alignment explanation
Indices: 15666901--15666933 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15666891 TATTATCAAT
15666901 TCATCA-ACAAATATATC
1 TCATCATAC-AATATATC
15666918 TCATCATACAATATAT
1 TCATCATACAATATAT
15666934 AATTCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TCATCATACAATATATC
Found at i:15679902 original size:16 final size:16
Alignment explanation
Indices: 15679862--15679910 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
15679852 TCACTTATGC
15679862 TTTA-AAAAATGAATAAT
1 TTTATAAAAAT-AAT-AT
15679879 TTT-T-AAAATAATAT
1 TTTATAAAAATAATAT
15679893 TTTATAAAAATAATAT
1 TTTATAAAAATAATAT
15679909 TT
1 TT
15679911 CATCCAGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.17
15 4 0.14
16 17 0.59
17 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
TTTATAAAAATAATAT
Found at i:15682214 original size:2 final size:2
Alignment explanation
Indices: 15682209--15682245 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
15682199 GTGTGTGTGT
15682209 GA GA GA GA GA GA GA GA GA GA GA GA GA G- GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
15682246 TGAAGGACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15686418 original size:5 final size:5
Alignment explanation
Indices: 15686408--15686436 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
15686398 TCAGTTGTCA
15686408 TATAC TATAC TATAC TATAC TATAC TATA
1 TATAC TATAC TATAC TATAC TATAC TATA
15686437 AATAGTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAC
Found at i:15719259 original size:18 final size:18
Alignment explanation
Indices: 15719216--15719259 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
15719206 AATTTTTATG
* *
15719216 ATTGGGTTGGTTTGAGTA
1 ATTGGGTTGGGTTGAATA
*
15719234 ATTAGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
15719252 CTTGGGTT
1 ATTGGGTT
15719260 TGAATTGGGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.18, C:0.02, G:0.36, T:0.43
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:15748539 original size:30 final size:30
Alignment explanation
Indices: 15748505--15748567 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
15748495 ACTTAACAAG
15748505 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
15748535 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
15748565 CAA
1 CAA
15748568 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:15750488 original size:21 final size:22
Alignment explanation
Indices: 15750462--15750508 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
15750452 CTCTGCTCAA
*
15750462 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
15750483 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
15750505 ACTC
1 ACTC
15750509 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:15757777 original size:19 final size:20
Alignment explanation
Indices: 15757755--15757796 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
15757745 AATTTAAAAA
*
15757755 AAAAAAAAAGAACAA-CAAC
1 AAAAAAAAAGAAAAATCAAC
*
15757774 AAAAACAAAGAAAAATCAAC
1 AAAAAAAAAGAAAAATCAAC
15757794 AAA
1 AAA
15757797 GATGAAAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.79, C:0.14, G:0.05, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAGAAAAATCAAC
Found at i:15772204 original size:21 final size:21
Alignment explanation
Indices: 15772178--15772218 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15772168 ATCTGCTCAA
* *
15772178 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
15772199 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
15772219 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:15773400 original size:13 final size:13
Alignment explanation
Indices: 15773382--15773413 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15773372 TTTCCAGCAA
15773382 TTATGAATTTATT
1 TTATGAATTTATT
15773395 TTATGAATTTATT
1 TTATGAATTTATT
*
15773408 TGATGA
1 TTATGA
15773414 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:15773621 original size:50 final size:50
Alignment explanation
Indices: 15773508--15773748 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
15773498 ATTTGGGTAA
* * *
15773508 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
15773564 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
15773614 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
15773664 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
15773714 AGAACAT-CCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
15773749 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 117 0.71
51 2 0.01
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:15773697 original size:100 final size:103
Alignment explanation
Indices: 15773508--15773756 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
15773498 ATTTGGGTAA
15773508 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
15773573 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
15773614 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
15773676 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
15773714 AGAACAT-CCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
15773757 GTTATTATCA
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 85 0.64
101 4 0.03
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:15780517 original size:13 final size:13
Alignment explanation
Indices: 15780499--15780530 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15780489 TTTCCAGCAA
15780499 TTATGAATTTATT
1 TTATGAATTTATT
15780512 TTATGAATTTATT
1 TTATGAATTTATT
*
15780525 TGATGA
1 TTATGA
15780531 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:15780738 original size:50 final size:50
Alignment explanation
Indices: 15780625--15780865 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
15780615 ATTTGGGTAA
* * *
15780625 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
15780681 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
15780731 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
15780781 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
15780831 AGAACAT-CCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
15780866 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 117 0.71
51 2 0.01
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:15780814 original size:100 final size:103
Alignment explanation
Indices: 15780625--15780873 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
15780615 ATTTGGGTAA
15780625 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
15780690 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
15780731 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
15780793 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
15780831 AGAACAT-CCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
15780874 GTTATTATCA
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 85 0.64
101 4 0.03
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:15794874 original size:22 final size:22
Alignment explanation
Indices: 15794847--15794893 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
15794837 TTAATAGCTT
15794847 TTTAGTTTCAGTGCATTTATAG
1 TTTAGTTTCAGTGCATTTATAG
15794869 TTTAGTTTCAGTGCATTTATAG
1 TTTAGTTTCAGTGCATTTATAG
15794891 TTT
1 TTT
15794894 TTCTTACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.09, G:0.17, T:0.53
Consensus pattern (22 bp):
TTTAGTTTCAGTGCATTTATAG
Found at i:15797080 original size:24 final size:24
Alignment explanation
Indices: 15796992--15797082 Score: 76
Period size: 25 Copynumber: 3.7 Consensus size: 24
15796982 ACATAAACAA
* * * *
15796992 GAAGCTCTTTCGAGCCATAACACAG
1 GAAGCTCATACGAGCCATTA-ACGG
* *
15797017 GAAGCTCATGCAAGCCATATAACGG
1 GAAGCTCATACGAGCCAT-TAACGG
*
15797042 GAAGCTC-TAGAGAGCCATTAACGG
1 GAAGCTCATA-CGAGCCATTAACGG
*
15797066 GAATCTCATACGAGCCA
1 GAAGCTCATACGAGCCA
15797083 ATATTAGAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
24 19 0.36
25 33 0.62
26 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (24 bp):
GAAGCTCATACGAGCCATTAACGG
Found at i:15797161 original size:26 final size:26
Alignment explanation
Indices: 15797102--15797184 Score: 109
Period size: 26 Copynumber: 3.3 Consensus size: 26
15797092 AAGTTCAAGC
* *
15797102 GAGCCAAT-ATCGGGAAGTTC-CGAA
1 GAGCCATTAATCGGGAAGCTCACGAA
15797126 GAGCCATTAATCGGGAAGCTCAC-AA
1 GAGCCATTAATCGGGAAGCTCACGAA
*
15797151 TGAGCCTTTAATCGGGAAGCTCACGAA
1 -GAGCCATTAATCGGGAAGCTCACGAA
15797178 GAGCCAT
1 GAGCCAT
15797185 ATATCGAGAC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
24 7 0.14
25 13 0.25
26 29 0.57
27 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.18
Consensus pattern (26 bp):
GAGCCATTAATCGGGAAGCTCACGAA
Found at i:15799089 original size:21 final size:21
Alignment explanation
Indices: 15799044--15799091 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
15799034 TTGCTTAACC
*
15799044 CTTATGGGTTTCCGTTCAACC
1 CTTATGGGTTTCCGTTCAACA
* * *
15799065 CTTATGGGTTTCTGTTTAGCA
1 CTTATGGGTTTCCGTTCAACA
15799086 CTTATG
1 CTTATG
15799092 TGCTTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.44
Consensus pattern (21 bp):
CTTATGGGTTTCCGTTCAACA
Found at i:15799911 original size:42 final size:42
Alignment explanation
Indices: 15799852--15799943 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
15799842 CGTCCATACG
* * *
15799852 GGCGTGTGTCTCATTCGTGTGTGACATATGGCCTAGCATATA
1 GGCGTGTGTCTCATTCGTGTGTGACACACGGCCTAGCACATA
15799894 GGCGTGTGTCTCATTCGTGTGTGACACACGGCCTAGCACATA
1 GGCGTGTGTCTCATTCGTGTGTGACACACGGCCTAGCACATA
*
15799936 GACGTGTG
1 GGCGTGTG
15799944 GTCTGGTCGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.29
Consensus pattern (42 bp):
GGCGTGTGTCTCATTCGTGTGTGACACACGGCCTAGCACATA
Found at i:15799954 original size:42 final size:42
Alignment explanation
Indices: 15799854--15799957 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
15799844 TCCATACGGG
* * * * *
15799854 CGTGTGTCTCATTCGTGTGTGACATATGGCCTAGCATATAGG
1 CGTGTGTCTCAGTCGTGTGTGACACACGGCCTAGCACATAGA
*
15799896 CGTGTGTCTCATTCGTGTGTGACACACGGCCTAGCACATAGA
1 CGTGTGTCTCAGTCGTGTGTGACACACGGCCTAGCACATAGA
*
15799938 CGTGTGGTCT-GGTCGTGTGT
1 CGTGT-GTCTCAGTCGTGTGT
15799958 CCCCTGCATC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 51 0.93
43 4 0.07
ACGTcount: A:0.16, C:0.21, G:0.31, T:0.32
Consensus pattern (42 bp):
CGTGTGTCTCAGTCGTGTGTGACACACGGCCTAGCACATAGA
Found at i:15800585 original size:14 final size:14
Alignment explanation
Indices: 15800566--15800606 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
15800556 TAGGTGATAT
15800566 GTGTGAAAAATTTC
1 GTGTGAAAAATTTC
15800580 GTGTGAAAAATTTC
1 GTGTGAAAAATTTC
15800594 GTGTGAAAAATTT
1 GTGTGAAAAATTT
15800607 ATTGTTTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.37
Consensus pattern (14 bp):
GTGTGAAAAATTTC
Found at i:15801051 original size:19 final size:19
Alignment explanation
Indices: 15801023--15801085 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 19
15801013 CCATGCCTCA
*
15801023 ATTTTAAAATTTTATTATG
1 ATTTTGAAATTTTATTATG
*
15801042 ATTTTGAAATGTGTCATTGATG
1 ATTTTGAAAT-T-TTATT-ATG
* *
15801064 ATTTTGTAAGTTTTGTTATG
1 ATTTTG-AAATTTTATTATG
15801084 AT
1 AT
15801086 AGTTGATGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
19 9 0.26
20 6 0.17
21 7 0.20
22 10 0.29
23 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.54
Consensus pattern (19 bp):
ATTTTGAAATTTTATTATG
Found at i:15809436 original size:16 final size:16
Alignment explanation
Indices: 15809415--15809449 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15809405 AAAAATATCA
15809415 TCTTTTCTA-TTTTCTT
1 TCTTTT-TATTTTTCTT
15809431 TCTTTTTATTTTTCTT
1 TCTTTTTATTTTTCTT
15809447 TCT
1 TCT
15809450 AACCAATCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 16 0.89
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (16 bp):
TCTTTTTATTTTTCTT
Found at i:15814137 original size:3 final size:3
Alignment explanation
Indices: 15814129--15814153 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15814119 ATACGAACAG
15814129 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
15814154 ACGAGGCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:15816288 original size:31 final size:32
Alignment explanation
Indices: 15816250--15816312 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
15816240 ATCAGAACAA
*
15816250 GCAAGGCCT-GGGAAGGGCGAAGCCAAAAATT
1 GCAAGGCCTGGGGAAGGGCGAAGCAAAAAATT
*
15816281 GCAAGGCCTGGGGAAGGGTGAAGCAAAAAATT
1 GCAAGGCCTGGGGAAGGGCGAAGCAAAAAATT
15816313 TATTGTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 9 0.31
32 20 0.69
ACGTcount: A:0.37, C:0.16, G:0.37, T:0.11
Consensus pattern (32 bp):
GCAAGGCCTGGGGAAGGGCGAAGCAAAAAATT
Found at i:15821075 original size:24 final size:24
Alignment explanation
Indices: 15821041--15821100 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
15821031 AGAATGGAAA
* *
15821041 AAAAGAGAAAAGTTTAAAAAACAT
1 AAAAGAAAAAAATTTAAAAAACAT
** *
15821065 AAAAGAAAAAAATTTAAATTACTT
1 AAAAGAAAAAAATTTAAAAAACAT
15821089 AAAACGAAAAAA
1 AAAA-GAAAAAA
15821101 TATGGGGATC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 23 0.77
25 7 0.23
ACGTcount: A:0.68, C:0.05, G:0.08, T:0.18
Consensus pattern (24 bp):
AAAAGAAAAAAATTTAAAAAACAT
Found at i:15824197 original size:21 final size:22
Alignment explanation
Indices: 15824173--15824213 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15824163 AAACATGAAA
*
15824173 AATATTAAAAAAA-TTATAATT
1 AATAATAAAAAAATTTATAATT
15824194 AATAATAAAAAAATTTATAA
1 AATAATAAAAAAATTTATAA
15824214 AATTTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AATAATAAAAAAATTTATAATT
Found at i:15830586 original size:18 final size:20
Alignment explanation
Indices: 15830565--15830602 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
15830555 TCATTGGAAT
15830565 ATTTAA-TA-TATTATTTTA
1 ATTTAACTACTATTATTTTA
15830583 ATTTAACTTACTATTATTTT
1 ATTTAAC-TACTATTATTTT
15830603 TATCATATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTAACTACTATTATTTTA
Found at i:15831581 original size:43 final size:43
Alignment explanation
Indices: 15831437--15831558 Score: 172
Period size: 43 Copynumber: 2.8 Consensus size: 43
15831427 GCGTTTTTAG
15831437 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTCTCC
1 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTCTCC
* ** *
15831480 CACCAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCC
1 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTCTCC
* * * *
15831523 CACAAATGCCGCTAAAGACCAATACCTTTAGCGACG
1 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGACG
15831559 TTTTTGTAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.32, C:0.34, G:0.17, T:0.16
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTCTCC
Found at i:15831638 original size:22 final size:24
Alignment explanation
Indices: 15831612--15831655 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
15831602 TTGTTTTAAT
15831612 TAAATAATAT-TTAT-TTTTATGA
1 TAAATAATATATTATGTTTTATGA
*
15831634 TAAATATTATATTATGTTTTAT
1 TAAATAATATATTATGTTTTAT
15831656 TTTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (24 bp):
TAAATAATATATTATGTTTTATGA
Found at i:15835909 original size:3 final size:3
Alignment explanation
Indices: 15835903--15835927 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15835893 ACAACAACAA
15835903 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
15835928 TGCAAACAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:15838774 original size:91 final size:91
Alignment explanation
Indices: 15838497--15838755 Score: 491
Period size: 91 Copynumber: 2.8 Consensus size: 91
15838487 TTAAATGTAT
15838497 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
15838562 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
15838588 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
15838653 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
* * *
15838679 AAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
15838744 GAAAATTTATTA
66 GAAAATTTATTA
15838756 GGTATAATTA
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 165 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:15838925 original size:16 final size:16
Alignment explanation
Indices: 15838904--15838945 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15838894 TTATTAAATT
*
15838904 ATATATTTTAATTATA
1 ATATATTTTAATAATA
15838920 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
15838935 AT-TATGTTTAA
1 ATATAT-TTTAA
15838946 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:15838930 original size:15 final size:15
Alignment explanation
Indices: 15838895--15838936 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15838885 TTAAGAATTT
*
15838895 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15838909 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15838923 TATTTAATAATAAT
1 TATTTAATTATAAT
15838937 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15839182 original size:16 final size:16
Alignment explanation
Indices: 15839161--15839208 Score: 96
Period size: 16 Copynumber: 3.0 Consensus size: 16
15839151 GATTTGCTAT
15839161 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
15839177 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
15839193 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
15839209 GAGAGCTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:15839234 original size:11 final size:11
Alignment explanation
Indices: 15839218--15839242 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15839208 AGAGAGCTTT
15839218 GGAGACGGAAA
1 GGAGACGGAAA
15839229 GGAGACGGAAA
1 GGAGACGGAAA
15839240 GGA
1 GGA
15839243 TCGAAGAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.48, T:0.00
Consensus pattern (11 bp):
GGAGACGGAAA
Found at i:15840856 original size:40 final size:39
Alignment explanation
Indices: 15840812--15840939 Score: 102
Period size: 40 Copynumber: 3.2 Consensus size: 39
15840802 TTGGGTTTGG
* *
15840812 ATTTTTTGTGGCGTTTTTCCAAGAAA-CGCCGCTAATGCTC
1 ATTTTTAGTGGCG-CTTTCC-AGAAAGCGCCGCTAATGCTC
* * *
15840852 ATTTTTAGTGGTGCTTTCCTGAAAGCGCCGCTAATGCTTG
1 ATTTTTAGTGGCGCTTTCCAGAAAGCGCCGCTAATGC-TC
* *
15840892 ATCTTTAGCT-GCG-TTT-TATGAGAAGCGCCGCTAATGCTC
1 ATTTTTAG-TGGCGCTTTCCA-GA-AAGCGCCGCTAATGCTC
15840931 AATTTTTAG
1 -ATTTTTAG
15840940 CGTCGTTTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
38 4 0.06
39 23 0.32
40 43 0.61
41 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (39 bp):
ATTTTTAGTGGCGCTTTCCAGAAAGCGCCGCTAATGCTC
Found at i:15840940 original size:40 final size:40
Alignment explanation
Indices: 15840833--15840948 Score: 116
Period size: 40 Copynumber: 2.9 Consensus size: 40
15840823 CGTTTTTCCA
* *
15840833 AGAAACGCCGCTAATGCTCATTTTTAG-TG-GTGCTTTCCTG
1 AGAAGCGCCGCTAATGCTCATTTTTAGCTGCGT--TTTCATG
* *
15840873 A-AAGCGCCGCTAATGCTTGATCTTTAGCTGCGTTTT-ATG
1 AGAAGCGCCGCTAATGC-TCATTTTTAGCTGCGTTTTCATG
15840912 AGAAGCGCCGCTAATGCTCAATTTTTAGC-GTCGTTTT
1 AGAAGCGCCGCTAATGCTC-ATTTTTAGCTG-CGTTTT
15840949 TTGTCCAAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
39 19 0.30
40 41 0.64
41 2 0.03
42 2 0.03
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (40 bp):
AGAAGCGCCGCTAATGCTCATTTTTAGCTGCGTTTTCATG
Found at i:15841523 original size:17 final size:17
Alignment explanation
Indices: 15841490--15841523 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15841480 TTTATAGTAC
*
15841490 TTTATATTATGTTATTT
1 TTTATATTATGTAATTT
*
15841507 TTTATATTTTGTAATTT
1 TTTATATTATGTAATTT
15841524 AAAACACATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTATATTATGTAATTT
Found at i:15845864 original size:73 final size:73
Alignment explanation
Indices: 15845787--15845960 Score: 208
Period size: 73 Copynumber: 2.4 Consensus size: 73
15845777 TGTATAATGA
* * *
15845787 GAAGCTCATAAGAGCCATA-ATCGGGAAGCTCATGCGAGCCAATAACGAGTAGCTCCAAATAGCC
1 GAAGCTCATAAGAGCCATATATCGGGAAGCTCAAGCGAGCC-ATAACGAGAAGCTCCAAAGAGCC
15845851 ATTAATCAG
65 ATTAATCAG
* * * * * **
15845860 GAAGCT-TTAGATAGCCATATATCGGGAAGTTCAAGCGAGCCATATCGGGAAGCTCCGGAGAGCC
1 GAAGCTCATA-AGAGCCATATATCGGGAAGCTCAAGCGAGCCATAACGAGAAGCTCCAAAGAGCC
15845924 ATTAATCAG
65 ATTAATCAG
*
15845933 GAAGCTCACGAAGAGCCATATATCGGGA
1 GAAGCTCA-TAAGAGCCATATATCGGGA
15845961 CACTCATAAG
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
72 2 0.02
73 46 0.55
74 35 0.42
75 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.18
Consensus pattern (73 bp):
GAAGCTCATAAGAGCCATATATCGGGAAGCTCAAGCGAGCCATAACGAGAAGCTCCAAAGAGCCA
TTAATCAG
Found at i:15845900 original size:25 final size:25
Alignment explanation
Indices: 15845787--15845960 Score: 103
Period size: 25 Copynumber: 7.1 Consensus size: 25
15845777 TGTATAATGA
15845787 GAAGCTCATA-AGAGCCATA-ATCGG
1 GAAGCTCA-AGAGAGCCATATATCGG
* * * *
15845811 GAAGCTCATGCGAGCCA-ATAACGA
1 GAAGCTCAAGAGAGCCATATATCGG
* * *
15845835 GTAGCTCCAA-ATAGCCAT-TAATCAG
1 GAAGCT-CAAGAGAGCCATAT-ATCGG
** *
15845860 GAAGCTTTAGATAGCCATATATCGG
1 GAAGCTCAAGAGAGCCATATATCGG
* *
15845885 GAAGTTCAAGCGAGCC--ATATCGG
1 GAAGCTCAAGAGAGCCATATATCGG
** *
15845908 GAAGCTCCGGAGAGCCAT-TAATCAG
1 GAAGCTCAAGAGAGCCATAT-ATCGG
*
15845933 GAAGCTCACGAAGAGCCATATATCGG
1 GAAGCTCAAG-AGAGCCATATATCGG
15845959 GA
1 GA
15845961 CACTCATAAG
Statistics
Matches: 110, Mismatches: 28, Indels: 22
0.69 0.17 0.14
Matches are distributed among these distances:
23 20 0.18
24 30 0.27
25 44 0.40
26 15 0.14
27 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.18
Consensus pattern (25 bp):
GAAGCTCAAGAGAGCCATATATCGG
Found at i:15845922 original size:23 final size:23
Alignment explanation
Indices: 15845878--15845953 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
15845868 AGATAGCCAT
* ** *
15845878 ATATCGGGAAGTTCAAGCGAGCC
1 ATATCGGGAAGCTCCGGAGAGCC
15845901 ATATCGGGAAGCTCCGGAGAGCC
1 ATATCGGGAAGCTCCGGAGAGCC
* *
15845924 ATTAATCAGGAAGCTCACGAAGAGCC
1 A-T-ATCGGGAAGCTC-CGGAGAGCC
15845950 ATAT
1 ATAT
15845954 ATCGGGACAC
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
23 20 0.45
24 3 0.07
25 12 0.27
26 9 0.20
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.17
Consensus pattern (23 bp):
ATATCGGGAAGCTCCGGAGAGCC
Found at i:15846063 original size:25 final size:25
Alignment explanation
Indices: 15846034--15846097 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
15846024 GAAGAGCTAT
* *
15846034 TAACGGGAAGCTCGTAATAACCATA
1 TAACGGGAAGCTCGCAAGAACCATA
* *
15846059 TAACGAGAAGCTTGCAAGAACCATA
1 TAACGGGAAGCTCGCAAGAACCATA
15846084 TAACGAGG-AGCTCG
1 TAACG-GGAAGCTCG
15846098 AGAGGGCCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.17
Consensus pattern (25 bp):
TAACGGGAAGCTCGCAAGAACCATA
Found at i:15850668 original size:20 final size:20
Alignment explanation
Indices: 15850631--15850669 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
15850621 AGTCTATATA
*
15850631 TATATGTATATTTATTTTTT
1 TATATGTACATTTATTTTTT
15850651 TATATGTACA--TATTTTTT
1 TATATGTACATTTATTTTTT
15850669 T
1 T
15850670 CAACTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (20 bp):
TATATGTACATTTATTTTTT
Found at i:15850775 original size:30 final size:28
Alignment explanation
Indices: 15850739--15850813 Score: 71
Period size: 30 Copynumber: 2.6 Consensus size: 28
15850729 TATTTAATTA
15850739 TTTTTTAATATATTTTACATGTATACATAT
1 TTTTTTAATATATTTTACATG--TACATAT
* * * *
15850769 TTTTTTATTTACATATATATATGTACATAT
1 TTTTTTA-ATATAT-TTTACATGTACATAT
15850799 TTTTTT-ATATATTTT
1 TTTTTTAATATATTTT
15850814 CGAAAATGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
27 2 0.06
28 4 0.11
30 20 0.56
31 4 0.11
32 6 0.17
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (28 bp):
TTTTTTAATATATTTTACATGTACATAT
Found at i:15855604 original size:43 final size:41
Alignment explanation
Indices: 15855536--15855616 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 41
15855526 AAAACACATA
* *
15855536 TATCACATACAATGCCATATCCCAAATATGGTCTTACATGT
1 TATCACATACAATGCCATATCCCAAACAGGGTCTTACATGT
* *
15855577 TATCACATATCGATGCCTGTATCCCAAACAGGGTCTTACA
1 TATCACATA-CAATGCC-ATATCCCAAACAGGGTCTTACA
15855617 CGAATCATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 9 0.26
42 6 0.18
43 19 0.56
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (41 bp):
TATCACATACAATGCCATATCCCAAACAGGGTCTTACATGT
Found at i:15855690 original size:43 final size:43
Alignment explanation
Indices: 15855563--15855707 Score: 145
Period size: 43 Copynumber: 3.4 Consensus size: 43
15855553 TATCCCAAAT
* * * ** * * *
15855563 ATGGTCTTACATGTTATCACATATCGATGCCTGTATCCCAAAC
1 ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCTAGAC
* *
15855606 AGGGTCTTACACG-AA--TCATATACGGTGCCAATGT-CTCAGAC
1 ATGGTCTTACACGTAATCTCATAT-CGATGCCAATGTCCT-AGAC
15855647 ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCTAGAC
*
15855690 ATGGTCTTACACGAAATC
1 ATGGTCTTACACGTAATC
15855708 ACACCTCAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
40 6 0.07
41 23 0.28
42 3 0.04
43 43 0.52
44 8 0.10
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCTAGAC
Found at i:15857228 original size:102 final size:102
Alignment explanation
Indices: 15857097--15857294 Score: 333
Period size: 102 Copynumber: 1.9 Consensus size: 102
15857087 CCAATGAGTA
* * * *
15857097 GGGGAATCAGCACTTAGCGACCTCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGAAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGAAACCA
* *
15857162 CCAATGATTCGGGGAATCAGCACTTAGCAACACCTCG
66 CCAATGAGTCGGGGAATCAACACTTAGCAACACCTCG
*
15857199 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGAAACCA
15857264 CCAATGAGTCGGGGAATCAACACTTAGCAAC
66 CCAATGAGTCGGGGAATCAACACTTAGCAAC
15857295 CCCTTTCACA
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 89 1.00
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGAAACCA
CCAATGAGTCGGGGAATCAACACTTAGCAACACCTCG
Found at i:15857260 original size:42 final size:42
Alignment explanation
Indices: 15857201--15857337 Score: 175
Period size: 42 Copynumber: 3.5 Consensus size: 42
15857191 ACACCTCGGG
15857201 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
* *
15857243 GGAATCAGCACTTAGCAA-CCAC--CA-A--TGAG-T-CGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
* *
15857276 GGAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
15857318 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
15857338 ACCAACGAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
33 17 0.22
34 5 0.06
35 1 0.01
36 5 0.06
37 1 0.01
38 1 0.01
39 5 0.06
40 1 0.01
41 6 0.08
42 37 0.47
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
Found at i:15857293 original size:75 final size:75
Alignment explanation
Indices: 15857199--15857375 Score: 318
Period size: 75 Copynumber: 2.4 Consensus size: 75
15857189 CAACACCTCG
15857199 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
* *
15857264 CCAATGAGTC
66 CCAACGAATC
* *
15857274 GGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
15857339 CCAACGAATC
66 CCAACGAATC
15857349 GGGGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
15857376 TATATTCAAT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 96 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (75 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAACGAATC
Found at i:15857735 original size:30 final size:30
Alignment explanation
Indices: 15857701--15857758 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15857691 TAGTCCTCCA
*
15857701 CCCAAATTTTTGAAAAATTACAATTTTGCC
1 CCCAAACTTTTGAAAAATTACAATTTTGCC
* * *
15857731 CCCAAACTTTTGAATATTTACACTTTTG
1 CCCAAACTTTTGAAAAATTACAATTTTG
15857759 TCCCTAAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.40
Consensus pattern (30 bp):
CCCAAACTTTTGAAAAATTACAATTTTGCC
Found at i:15861173 original size:26 final size:26
Alignment explanation
Indices: 15861143--15861215 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
15861133 GCAACTCTTA
*
15861143 TGAGCGTCCCG-TTATATGGCTCTTCG
1 TGAGCGTCCCGATTA-AAGGCTCTTCG
* *
15861169 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCGTCCCGATTAAAGGCTCTTCG
* * *
15861195 TGAGCTTCCTGATTAATGGCT
1 TGAGCGTCCCGATTAAAGGCT
15861216 TTCCGGAGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 38 0.93
27 3 0.07
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (26 bp):
TGAGCGTCCCGATTAAAGGCTCTTCG
Found at i:15863421 original size:21 final size:21
Alignment explanation
Indices: 15863397--15863576 Score: 112
Period size: 21 Copynumber: 8.6 Consensus size: 21
15863387 GAAGCCCGAA
* * *
15863397 AGCTGAACATAAGCTCATAAG
1 AGCTGAACAGAAACCCATAAG
*
15863418 AGCTAAACAGAAACCCATAAG
1 AGCTGAACAGAAACCCATAAG
* * * * **
15863439 GGTTGAACATAAGCTTATAAG
1 AGCTGAACAGAAACCCATAAG
*
15863460 AGCTGAATAGAAACCCATAAG
1 AGCTGAACAGAAACCCATAAG
15863481 AGCTGAACAGAAA-CCATAAG
1 AGCTGAACAGAAACCCATAAG
* * * * *
15863501 GGTTGAATAGAAGCTCGA-AAG
1 AGCTGAACAGAAAC-CCATAAG
* * *
15863522 AGTTGAACAGAAACTCATATG
1 AGCTGAACAGAAACCCATAAG
* * * * *
15863543 AGTTAAATAGAAACTCGTAAG
1 AGCTGAACAGAAACCCATAAG
*
15863564 AGCTAAACAGAAA
1 AGCTGAACAGAAA
15863577 GTAAAACATG
Statistics
Matches: 120, Mismatches: 36, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
20 17 0.14
21 101 0.84
22 2 0.02
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.18
Consensus pattern (21 bp):
AGCTGAACAGAAACCCATAAG
Found at i:15863534 original size:62 final size:63
Alignment explanation
Indices: 15863397--15863556 Score: 180
Period size: 62 Copynumber: 2.6 Consensus size: 63
15863387 GAAGCCCGAA
* * * * *
15863397 AGCTGAACATAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTGAACATAAGCTTATAAG
1 AGCTGAACAGAAACCCATAAGAGCTAAACAGAAACCCATAAGGGTTGAACAGAAGCTGATAAG
* * *
15863460 AGCTGAATAGAAACCCATAAGAGCTGAACAGAAA-CCATAAGGGTTGAATAGAAGCTCGA-AAG
1 AGCTGAACAGAAACCCATAAGAGCTAAACAGAAACCCATAAGGGTTGAACAGAAGCT-GATAAG
* * * * *
15863522 AGTTGAACAGAAACTCATATGAGTTAAATAGAAAC
1 AGCTGAACAGAAACCCATAAGAGCTAAACAGAAAC
15863557 TCGTAAGAGC
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
62 50 0.62
63 30 0.38
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.18
Consensus pattern (63 bp):
AGCTGAACAGAAACCCATAAGAGCTAAACAGAAACCCATAAGGGTTGAACAGAAGCTGATAAG
Found at i:15863565 original size:42 final size:42
Alignment explanation
Indices: 15863397--15863576 Score: 157
Period size: 42 Copynumber: 4.3 Consensus size: 42
15863387 GAAGCCCGAA
* * *
15863397 AGCTGAACATAAGCTCATAAGAGCTAAACAGAAACCCATAAG
1 AGCTGAACAGAAACTCATAAGAGCTAAATAGAAACCCATAAG
* * * * * *
15863439 GGTTGAACATAAGCTTATAAGAGCTGAATAGAAACCCATAAG
1 AGCTGAACAGAAACTCATAAGAGCTAAATAGAAACCCATAAG
* * * * *
15863481 AGCTGAACAGAAAC-CATAAGGGTTGAATAGAAGCTCGA-AAG
1 AGCTGAACAGAAACTCATAAGAGCTAAATAGAAAC-CCATAAG
* * * * *
15863522 AGTTGAACAGAAACTCATATGAGTTAAATAGAAACTCGTAAG
1 AGCTGAACAGAAACTCATAAGAGCTAAATAGAAACCCATAAG
*
15863564 AGCTAAACAGAAA
1 AGCTGAACAGAAA
15863577 GTAAAACATG
Statistics
Matches: 111, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
41 32 0.29
42 79 0.71
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.18
Consensus pattern (42 bp):
AGCTGAACAGAAACTCATAAGAGCTAAATAGAAACCCATAAG
Found at i:15871468 original size:25 final size:25
Alignment explanation
Indices: 15871440--15871492 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
15871430 GTCAACAAGT
*
15871440 AATTTAAAAATTA-AAAAATATTCAA
1 AATTTAAAAACTATAAAAA-ATTCAA
* *
15871465 AATTTTAAAACTATAAAAAGTTCAA
1 AATTTAAAAACTATAAAAAATTCAA
15871490 AAT
1 AAT
15871493 AACTAGCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (25 bp):
AATTTAAAAACTATAAAAAATTCAA
Found at i:15874889 original size:44 final size:44
Alignment explanation
Indices: 15874813--15874896 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
15874803 TAGAGTGTGG
* *
15874813 AATGCCATGTTATCTTAAGAAAAACGGTATCAAATTTATCACGA
1 AATGCCATATTATCTTAAGAAAAACGGTATCAAAATTATCACGA
* *
15874857 AATGTCATATTAT-TTAAGGAAAAATGGTATCAAAATTATC
1 AATGCCATATTATCTTAA-GAAAAACGGTATCAAAATTATC
15874897 GCTTGATCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 4 0.11
44 31 0.89
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (44 bp):
AATGCCATATTATCTTAAGAAAAACGGTATCAAAATTATCACGA
Found at i:15889042 original size:48 final size:49
Alignment explanation
Indices: 15888949--15889042 Score: 109
Period size: 48 Copynumber: 1.9 Consensus size: 49
15888939 GAGAATTTTA
* * ** * ***
15888949 TTGAATCTTTTATCGTTGTGAGATTAGGCTGATTTAGGTGTTTTTATTG
1 TTGAATCCTTTATCATTGCAAGATTAGGCTGATTTAAGCACTTTTATTG
15888998 TTGAATCCTTTATCATTGCAAG-TTAGGCTGATTTAAGCACTTTTA
1 TTGAATCCTTTATCATTGCAAGATTAGGCTGATTTAAGCACTTTTA
15889043 AATAAAGAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
48 19 0.51
49 18 0.49
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.47
Consensus pattern (49 bp):
TTGAATCCTTTATCATTGCAAGATTAGGCTGATTTAAGCACTTTTATTG
Found at i:15894894 original size:20 final size:20
Alignment explanation
Indices: 15894869--15894921 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
15894859 ATTTTTTAAA
15894869 TTTTTTTAATTTTAAAATAC
1 TTTTTTTAATTTTAAAATAC
*
15894889 TTTTTTTAATTTTAAAATAT
1 TTTTTTTAATTTTAAAATAC
15894909 TTTTTTTAATTTT
1 TTTTTTTAATTTT
15894922 TTTAATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTTTAATTTTAAAATAC
Found at i:15894911 original size:30 final size:30
Alignment explanation
Indices: 15894859--15894937 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 30
15894849 AAATATATTT
* ** *
15894859 ATTTTTTAAATTTTTTTAAT-TTTAAAATA
1 ATTTTTTTAATTTTTAAAATATTTTAAATA
* ***
15894888 CTTTTTTTAATT-TTAAAATATTTTTTTTA
1 ATTTTTTTAATTTTTAAAATATTTTAAATA
15894917 ATTTTTTTAATTTTTAAAATA
1 ATTTTTTTAATTTTTAAAATA
15894938 AATTTTTGGT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
28 5 0.13
29 26 0.67
30 8 0.21
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (30 bp):
ATTTTTTTAATTTTTAAAATATTTTAAATA
Found at i:15894943 original size:29 final size:29
Alignment explanation
Indices: 15894889--15894944 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
15894879 TTTAAAATAC
**
15894889 TTTTTTTAATTTTAAAATATTTTTTTTAA
1 TTTTTTTAATTTTAAAATATAATTTTTAA
15894918 TTTTTTTAATTTTTAAAATA-AATTTTT
1 TTTTTTTAA-TTTTAAAATATAATTTTT
15894945 GGTATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTTTTTAATTTTAAAATATAATTTTTAA
Found at i:15895726 original size:26 final size:26
Alignment explanation
Indices: 15895653--15895859 Score: 145
Period size: 26 Copynumber: 8.4 Consensus size: 26
15895643 TTAGCTTTTT
* * *
15895653 TGAGCTTCCTGATTAAAGGCTTTTTG
1 TGAGCTTCCTGATTAATGGCTCTCTG
*
15895679 TGAGCTTCCTGATTAATGGCTCTTTG
1 TGAGCTTCCTGATTAATGGCTCTCTG
*
15895705 TGAGCTTCCTGATTAATGGCTCTCCG
1 TGAGCTTCCTGATTAATGGCTCTCTG
*
15895731 -GAGCTTCCCGA-T-ATGGCTCTCTG
1 TGAGCTTCCTGATTAATGGCTCTCTG
* *
15895754 -GAGCTTCCCGA-T-ATGGCTCGCT-
1 TGAGCTTCCTGATTAATGGCTCTCTG
* * *
15895776 TGAACTTCCTGA-TATAGGGCTATCTG
1 TGAGCTTCCTGATTA-ATGGCTCTCTG
* *
15895802 -GAGC-TCTCTGATGAATGACTCT-TCG
1 TGAGCTTC-CTGATTAATGGCTCTCT-G
* * *
15895827 -GAGCTTCCTGAAT-ATTGCTCT-TA
1 TGAGCTTCCTGATTAATGGCTCTCTG
15895850 TGAGCTTCCT
1 TGAGCTTCCT
15895860 ATTTTAGCTC
Statistics
Matches: 150, Mismatches: 22, Indels: 20
0.78 0.11 0.10
Matches are distributed among these distances:
23 41 0.27
24 20 0.13
25 38 0.25
26 51 0.34
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
TGAGCTTCCTGATTAATGGCTCTCTG
Found at i:15895750 original size:23 final size:23
Alignment explanation
Indices: 15895706--15895772 Score: 98
Period size: 23 Copynumber: 2.8 Consensus size: 23
15895696 GGCTCTTTGT
*
15895706 GAGCTTCCTGATTAATGGCTCTCCG
1 GAGCTTCCCGA-T-ATGGCTCTCCG
*
15895731 GAGCTTCCCGATATGGCTCTCTG
1 GAGCTTCCCGATATGGCTCTCCG
15895754 GAGCTTCCCGATATGGCTC
1 GAGCTTCCCGATATGGCTC
15895773 GCTTGAACTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
23 29 0.73
24 1 0.03
25 10 0.25
ACGTcount: A:0.15, C:0.30, G:0.25, T:0.30
Consensus pattern (23 bp):
GAGCTTCCCGATATGGCTCTCCG
Found at i:15895783 original size:23 final size:23
Alignment explanation
Indices: 15895720--15895790 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 23
15895710 TTCCTGATTA
* * *
15895720 ATGGCTCTCCGGAGCTTCCCGAT
1 ATGGCTCGCTGGAACTTCCCGAT
* *
15895743 ATGGCTCTCTGGAGCTTCCCGAT
1 ATGGCTCGCTGGAACTTCCCGAT
* *
15895766 ATGGCTCGCTTGAACTTCCTGAT
1 ATGGCTCGCTGGAACTTCCCGAT
15895789 AT
1 AT
15895791 AGGGCTATCT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.15, C:0.30, G:0.24, T:0.31
Consensus pattern (23 bp):
ATGGCTCGCTGGAACTTCCCGAT
Found at i:15898753 original size:21 final size:21
Alignment explanation
Indices: 15898711--15898755 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15898701 TTGGCTTGTT
* * *
15898711 TTATTTTTACTTTTTCCCTTA
1 TTATTGTTACTTATTCACTTA
*
15898732 TTATTGTTACTTATTCATTTA
1 TTATTGTTACTTATTCACTTA
15898753 TTA
1 TTA
15898756 CTTTGTATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.13, G:0.02, T:0.64
Consensus pattern (21 bp):
TTATTGTTACTTATTCACTTA
Found at i:15898820 original size:15 final size:15
Alignment explanation
Indices: 15898784--15898823 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
15898774 AACTTAGATT
* *
15898784 ATTATTATTACTATT
1 ATTATTGTTACTATC
15898799 ATTATTGTTACTATC
1 ATTATTGTTACTATC
15898814 ATTATTGTTA
1 ATTATTGTTA
15898824 TTTATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (15 bp):
ATTATTGTTACTATC
Found at i:15898832 original size:15 final size:14
Alignment explanation
Indices: 15898783--15898833 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
15898773 AAACTTAGAT
*
15898783 TATTATTATTACTA
1 TATTATTGTTACTA
15898797 TTATTATTGTTACTA
1 -TATTATTGTTACTA
*
15898812 TCATTATTGTTATTTA
1 T-ATTATTGTTA-CTA
15898828 TATTAT
1 TATTAT
15898834 CGTTTTCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 1 0.03
15 28 0.88
16 3 0.09
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (14 bp):
TATTATTGTTACTA
Found at i:15910718 original size:27 final size:27
Alignment explanation
Indices: 15910677--15910779 Score: 136
Period size: 27 Copynumber: 3.8 Consensus size: 27
15910667 TAGTATTGGC
*
15910677 GCCTATTTGGAAGGCTCCAATGGTGGT
1 GCCTATTTGGAAGGCGCCAATGGTGGT
*
15910704 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTGGAAGGCGCCAATGGTGGT
* * *
15910731 GCCTATGTAGCAGGCGCCAATGGTGGT
1 GCCTATTTGGAAGGCGCCAATGGTGGT
*
15910758 GCC-ATATTAGAAGGCGCCAATG
1 GCCTAT-TTGGAAGGCGCCAATG
15910780 CTGTGATTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.03
27 66 0.97
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.24
Consensus pattern (27 bp):
GCCTATTTGGAAGGCGCCAATGGTGGT
Found at i:15910880 original size:17 final size:17
Alignment explanation
Indices: 15910841--15910885 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
15910831 AAAACGGAAG
*
15910841 AAAGAAG-AAGGAAGGA
1 AAAGAAGAAAAGAAGGA
*
15910857 AGCAGAAGAAAAGAAGGA
1 A-AAGAAGAAAAGAAGGA
15910875 AAAGAAGAAAA
1 AAAGAAGAAAA
15910886 AAAGTAGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 1 0.04
17 14 0.58
18 9 0.38
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (17 bp):
AAAGAAGAAAAGAAGGA
Found at i:15913251 original size:38 final size:38
Alignment explanation
Indices: 15913208--15913289 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
15913198 AAAAAGTCAG
15913208 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
* *
15913246 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
15913284 TTATAA
1 TTATAA
15913290 ACTTTATATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
Found at i:15913472 original size:8 final size:8
Alignment explanation
Indices: 15913459--15913530 Score: 63
Period size: 8 Copynumber: 8.4 Consensus size: 8
15913449 CATACAAAAA
15913459 ATTACAAT
1 ATTACAAT
15913467 ATTACAAT
1 ATTACAAT
* * *
15913475 ATATCCCCAC
1 AT-T-ACAAT
15913485 ATTACAAT
1 ATTACAAT
*
15913493 ATTCATACAAA
1 A-T--TACAAT
15913504 ATTACAAT
1 ATTACAAT
15913512 ATTACAAT
1 ATTACAAT
15913520 ATTACAAT
1 ATTACAAT
15913528 ATT
1 ATT
15913531 CATACAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
8 37 0.73
9 3 0.06
10 5 0.10
11 6 0.12
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (8 bp):
ATTACAAT
Found at i:15913509 original size:19 final size:19
Alignment explanation
Indices: 15913485--15913968 Score: 198
Period size: 19 Copynumber: 25.2 Consensus size: 19
15913475 ATATCCCCAC
15913485 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
15913504 ATTACAATA-T--TACAAT
1 ATTACAATATTCATACAAA
15913520 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATAC---AAA
*
15913542 ATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC------A-AA
*
15913568 TATTACAATATTCATACAAC
1 -ATTACAATATTCATACAAA
*
15913588 ATTACAATATTCATAAAAA
1 ATTACAATATTCATACAAA
*
15913607 ATTATAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
15913626 ATTACAATA-T--TACAAT
1 ATTACAATATTCATACAAA
*
15913642 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
*
15913656 ATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC------A-AA
15913682 TATTACAATATTCATACAAA
1 -ATTACAATATTCATACAAA
** *
15913702 AAAATAATATTCATACAAA
1 ATTACAATATTCATACAAA
* *
15913721 ATTACAA-AAT--TACAAT
1 ATTACAATATTCATACAAA
*
15913737 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
*
15913751 ATTGCAATATTCATACAAA
1 ATTACAATATTCATACAAA
* * *
15913770 ACTATAATATT-ATTACAAT
1 ATTACAATATTCA-TACAAA
15913789 ATT-C-ATA--CA-A-AAA
1 ATTACAATATTCATACAAA
*
15913802 ATTTATAATATTCATACAAA
1 A-TTACAATATTCATACAAA
15913822 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
* * *
15913843 ATTACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-A-AA
*
15913864 ATATA-AATTTAATT-ATAAAATA
1 AT-TACAA--T-ATTCATACAA-A
*
15913886 ATTACAATATTCATACAAC
1 ATTACAATATTCATACAAA
*
15913905 ATTACAATATTCATAAAAAA
1 ATTACAATATTCAT-ACAAA
*
15913925 ATTATAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
* *
15913946 ATTTAAAAAATTCATACAAA
1 A-TTACAATATTCATACAAA
15913966 ATT
1 ATT
15913969 CTAATCTAAA
Statistics
Matches: 353, Mismatches: 53, Indels: 118
0.67 0.10 0.23
Matches are distributed among these distances:
13 3 0.01
14 19 0.05
15 5 0.01
16 40 0.11
17 4 0.01
18 11 0.03
19 129 0.37
20 37 0.10
21 26 0.07
22 38 0.11
23 2 0.01
25 5 0.01
26 4 0.01
27 30 0.08
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:15913578 original size:49 final size:46
Alignment explanation
Indices: 15913506--15913841 Score: 189
Period size: 46 Copynumber: 7.2 Consensus size: 46
15913496 CATACAAAAT
* * *
15913506 TACAATATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCA
1 TACAAAATTATAATATTACAATATTCATAC---AAAATTACAATATTCA
*
15913555 TACAAAATTATAATATTACAATATTCATACAACATTACAATATTCA
1 TACAAAATTATAATATTACAATATTCATACAAAATTACAATATTCA
* * *
15913601 TAAAAAATTATAATATTCATACAA-AAT--TACAATATTACAATATTCA
1 TACAAAATTATAATA-T--TACAATATTCATACAAAATTACAATATTCA
** * *
15913647 TACAAAAAAATTGCAATATTCATACAAAATT-AT--AATATTACAATATTCA
1 TAC---AAAATTATAATA-T--TACAATATTCATACAAAATTACAATATTCA
** *
15913696 TACAAAAAAATAATATTCATACAA-AAT--TACAAAATTACAATATTCA
1 TACAAAATTATAATA-T--TACAATATTCATACAAAATTACAATATTCA
* * *
15913742 TAC-AAA--A-AA-ATTGCAATATTCATACAAAACTATAATATT-A
1 TACAAAATTATAATATTACAATATTCATACAAAATTACAATATTCA
* * *
15913782 TTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTACAATATTCA
1 -TACAAAATT-AT----AATA-TTACAATATTCATACAAAATTACAATATTCA
15913835 TACAAAA
1 TACAAAA
15913842 AATTACTAAT
Statistics
Matches: 234, Mismatches: 27, Indels: 49
0.75 0.09 0.16
Matches are distributed among these distances:
38 4 0.02
39 2 0.01
40 2 0.01
41 19 0.08
42 4 0.02
43 1 0.00
44 1 0.00
45 6 0.03
46 83 0.35
47 1 0.00
48 2 0.01
49 71 0.30
50 4 0.02
51 2 0.01
52 31 0.13
53 1 0.00
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (46 bp):
TACAAAATTATAATATTACAATATTCATACAAAATTACAATATTCA
Found at i:15913632 original size:46 final size:47
Alignment explanation
Indices: 15913582--15913832 Score: 312
Period size: 49 Copynumber: 5.2 Consensus size: 47
15913572 ACAATATTCA
*
15913582 TACAACATTACAATATTCAT-AAAAAATTATAATATTCATACAAAAT
1 TACAATATTACAATATTCATAAAAAAATTATAATATTCATACAAAAT
**
15913628 TACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAT
1 TACAATATTACAATATTCAT--AAAAAAATTATAATATTCATACAAAAT
*
15913677 TATAATATTACAATATTCATACAAAAAA--ATAATATTCATACAAAAT
1 TACAATATTACAATATTCATA-AAAAAATTATAATATTCATACAAAAT
* **
15913723 TACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACT
1 TACAATATTACAATATTCAT--AAAAAAATTATAATATTCATACAAAA-T
15913773 ATA-ATATTATTACAATATTCATACAAAAAATTTATAATATTCATACAAAAT
1 -TACA-A-TATTACAATATTCATA-AAAAAA-TTATAATATTCATACAAAAT
15913824 TACAATATT
1 TACAATATT
15913833 CATACAAAAA
Statistics
Matches: 177, Mismatches: 13, Indels: 27
0.82 0.06 0.12
Matches are distributed among these distances:
46 53 0.30
47 7 0.04
48 7 0.04
49 62 0.35
50 6 0.03
51 11 0.06
52 31 0.18
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (47 bp):
TACAATATTACAATATTCATAAAAAAATTATAATATTCATACAAAAT
Found at i:15913657 original size:95 final size:95
Alignment explanation
Indices: 15913588--15913832 Score: 377
Period size: 95 Copynumber: 2.5 Consensus size: 95
15913578 TTCATACAAC
15913588 ATTACAATATTCATAAAAAATTATAATATTCATACAAAATTACAATATTACAATATTCATACAAA
1 ATTACAATATTCATAAAAAATTATAATATTCATACAAAATTACAATATTACAATATTCATACAAA
15913653 AAAATTGCAATATTCATACAAAATTAT-AAT
66 AAAATTGCAATATT-ATACAAAATTATAAAT
* *
15913683 ATTACAATATTCATACAAAAA-AATAATATTCATACAAAATTACAAAATTACAATATTCATACAA
1 ATTACAATATTCATA-AAAAATTATAATATTCATACAAAATTACAATATTACAATATTCATACAA
*
15913747 AAAAATTGCAATATTCATACAAAACTATAATATT
65 AAAAATTGCAATATT-ATACAAAATTATAA-A-T
15913781 ATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTACAATATT
1 ATTACAATATTCAT--AAAAAA-TTATAATATTCATACAAAATTACAATATT
15913833 CATACAAAAA
Statistics
Matches: 137, Mismatches: 5, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
95 83 0.61
96 6 0.04
97 1 0.01
98 15 0.11
99 5 0.04
100 1 0.01
101 26 0.19
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (95 bp):
ATTACAATATTCATAAAAAATTATAATATTCATACAAAATTACAATATTACAATATTCATACAAA
AAAATTGCAATATTATACAAAATTATAAAT
Found at i:15913664 original size:30 final size:27
Alignment explanation
Indices: 15913607--15913832 Score: 194
Period size: 22 Copynumber: 9.1 Consensus size: 27
15913597 TTCATAAAAA
*
15913607 ATTATAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
15913634 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
* *
15913656 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
15913683 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
*
15913705 A-T--AATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTACAAT
15913729 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
*
15913751 ATTGCAATATTCATACAAAACTATA-ATATT
1 ATTACAATATTCATACAAAA-T-TACA-A-T
15913781 ATTACAATATTCATAC-AAA--A-AAT
1 ATTACAATATTCATACAAAATTACAAT
*
15913804 -TTATAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
15913830 ATT
1 ATT
15913833 CATACAAAAA
Statistics
Matches: 167, Mismatches: 6, Indels: 52
0.74 0.03 0.23
Matches are distributed among these distances:
19 11 0.07
20 3 0.02
21 1 0.01
22 46 0.28
23 18 0.11
24 5 0.03
25 5 0.03
26 14 0.08
27 45 0.27
28 1 0.01
29 3 0.02
30 15 0.09
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:15913746 original size:114 final size:111
Alignment explanation
Indices: 15913498--15913739 Score: 385
Period size: 114 Copynumber: 2.2 Consensus size: 111
15913488 ACAATATTCA
15913498 TACAAAATTACAATATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAT
1 TACAAAATTACAATATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAT
* **
15913563 TATAATATTACAATATTCATACAACATTACAATATTCATAAAAAAT
66 TATAATATTACAATATTCATACAAAAAAACAATATTCATAAAAAAT
* * *
15913609 TATAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAA
1 TACAA-AAT--TACAATATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAA
* *
15913674 AATTATAATATTACAATATTCATACAAAAAAATAATATTCATACAAAAT
63 AATTATAATATTACAATATTCATACAAAAAAACAATATTCATAAAAAAT
15913723 TACAAAATTACAATATT
1 TACAAAATTACAATATT
15913740 CATACAAAAA
Statistics
Matches: 117, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
111 12 0.10
112 2 0.02
113 2 0.02
114 101 0.86
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (111 bp):
TACAAAATTACAATATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAT
TATAATATTACAATATTCATACAAAAAAACAATATTCATAAAAAAT
Found at i:15913811 original size:22 final size:21
Alignment explanation
Indices: 15913781--15913966 Score: 154
Period size: 22 Copynumber: 9.0 Consensus size: 21
15913771 CTATAATATT
15913781 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAA
*
15913802 ATTTATAATATTCATAC--AAA
1 A-TTACAATATTCATACAAAAA
15913822 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAA
* * * * *
15913843 ATTACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATACAAAAA
* *
15913864 ATATA-AAT-TTAATTATAAAATA
1 AT-TACAATATTCA-TACAAAA-A
*
15913886 ATTACAATATTCATAC--AAC
1 ATTACAATATTCATACAAAAA
15913905 ATTACAATATTCATA-AAAAA
1 ATTACAATATTCATACAAAAA
*
15913925 ATTATAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAA
* *
15913946 ATTTAAAAAATTCATACAAAA
1 A-TTACAATATTCATACAAAA
15913967 TTCTAATCTA
Statistics
Matches: 130, Mismatches: 21, Indels: 27
0.73 0.12 0.15
Matches are distributed among these distances:
19 29 0.22
20 26 0.20
21 31 0.24
22 41 0.32
23 3 0.02
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTACAATATTCATACAAAAA
Found at i:15913842 original size:41 final size:40
Alignment explanation
Indices: 15913781--15913944 Score: 167
Period size: 41 Copynumber: 4.0 Consensus size: 40
15913771 CTATAATATT
15913781 ATTACAATATTCATACAAAAAATTTATAATATTCATACAAA
1 ATTACAATATTCATACAAAAAA-TTATAATATTCATACAAA
* *
15913822 ATTACAATATTCATACAAAAAATTACT-A-ATCCAAAACTATAA
1 ATTACAATATTCATACAAAAAATTA-TAATATTC-ATAC-A-AA
* * * *
15913864 ATATA-AAT-TTAATTATAAAATAATTACAATATTCATACAAC
1 AT-TACAATATTCA-TACAAAA-AATTATAATATTCATACAAA
15913905 ATTACAATATTCATA-AAAAAATTATAATATTCATACAAA
1 ATTACAATATTCATACAAAAAATTATAATATTCATACAAA
15913944 A
1 A
15913945 AATTTAAAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
39 22 0.22
40 13 0.13
41 35 0.35
42 17 0.17
43 11 0.11
44 3 0.03
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (40 bp):
ATTACAATATTCATACAAAAAATTATAATATTCATACAAA
Found at i:15913967 original size:83 final size:86
Alignment explanation
Indices: 15913789--15913967 Score: 196
Period size: 83 Copynumber: 2.2 Consensus size: 86
15913779 TTATTACAAT
*
15913789 ATTCATACAAAA-AATTTATAATATTCATACAAAATTACAATATTCATACAAAAAATTACTAATC
1 ATTCATACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACTAATC
* * *
15913853 CAAAACTATAAATATAAATTTA
66 CAAAACAAAAAATATAAA-TAA
*
15913875 ATT-AT--AAAATAA-TTACAATATTCATACAACATTACAATATTCATA-AAAAAATTA-TAATA
1 ATTCATACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACT-A-A
* * *
15913934 TTC-ATACAAAAAATTTAAA-AA
64 TCCAAAACAAAAAATATAAATAA
15913955 ATTCATACAAAAT
1 ATTCATACAAAAT
15913968 TCTAATCTAA
Statistics
Matches: 79, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
80 4 0.05
81 3 0.04
82 22 0.28
83 43 0.54
84 2 0.03
85 2 0.03
86 3 0.04
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (86 bp):
ATTCATACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACTAATC
CAAAACAAAAAATATAAATAA
Found at i:15914152 original size:14 final size:14
Alignment explanation
Indices: 15914135--15914164 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
15914125 TTTCTTTCTT
15914135 TCTTCTTCTCCTTC
1 TCTTCTTCTCCTTC
15914149 TCTTCTTCTCCTTC
1 TCTTCTTCTCCTTC
15914163 TC
1 TC
15914165 CTTTCTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (14 bp):
TCTTCTTCTCCTTC
Found at i:15914175 original size:20 final size:20
Alignment explanation
Indices: 15914134--15914172 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15914124 TTTTCTTTCT
*
15914134 TTCTTCTTCTCCTTCTCTTC
1 TTCTCCTTCTCCTTCTCTTC
15914154 TTCTCCTTCTCCTTTCTCT
1 TTCTCCTTCTCC-TTCTCT
15914173 CTTTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (20 bp):
TTCTCCTTCTCCTTCTCTTC
Found at i:15918722 original size:92 final size:92
Alignment explanation
Indices: 15918565--15918847 Score: 530
Period size: 92 Copynumber: 3.1 Consensus size: 92
15918555 AATTTTGCAT
* *
15918565 ATAGGTTCAAACAAAATGCATACTTGTTGTTTAAATTATAGCTTATATGCATACTTTGATACAAA
1 ATAGGTTCAAACAAAATGCATACTTGCTGTTTAAATTGTAGCTTATATGCATACTTTGATACAAA
15918630 TAGGTTTATATTTTATTAAATATACAA
66 TAGGTTTATATTTTATTAAATATACAA
*
15918657 ATAGGTTCAAACAAAATGCATACTTGCTGTCTAAATTGTAGCTTATATGCATACTTTGATACAAA
1 ATAGGTTCAAACAAAATGCATACTTGCTGTTTAAATTGTAGCTTATATGCATACTTTGATACAAA
15918722 TAGGTTTATATTTTATTAAATATACAA
66 TAGGTTTATATTTTATTAAATATACAA
15918749 ATAGGTTCAAACAAAATGCATACTTGCTGTTTAAATTGTAGCTTATATGCATACTTTGATACAAA
1 ATAGGTTCAAACAAAATGCATACTTGCTGTTTAAATTGTAGCTTATATGCATACTTTGATACAAA
*
15918814 TAGGTTCATATTTTATTAAATATACAA
66 TAGGTTTATATTTTATTAAATATACAA
15918841 ATAGGTT
1 ATAGGTT
15918848 AAAAATTGTA
Statistics
Matches: 186, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 186 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (92 bp):
ATAGGTTCAAACAAAATGCATACTTGCTGTTTAAATTGTAGCTTATATGCATACTTTGATACAAA
TAGGTTTATATTTTATTAAATATACAA
Found at i:15919357 original size:17 final size:16
Alignment explanation
Indices: 15919335--15919374 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 16
15919325 TTACAGTGAA
15919335 TAAAAATCTATTAGCAG
1 TAAAAATCTATTA-CAG
15919352 TAAAAAATCTATTACAG
1 T-AAAAATCTATTACAG
15919369 TAAAAA
1 TAAAAA
15919375 ACCTATGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 5 0.23
18 12 0.55
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (16 bp):
TAAAAATCTATTACAG
Found at i:15919375 original size:17 final size:17
Alignment explanation
Indices: 15919318--15919380 Score: 81
Period size: 17 Copynumber: 3.5 Consensus size: 17
15919308 GAAATTAATG
15919318 AAATCTATTACAGTGAATAA
1 AAATCTATTACAGT--A-AA
15919338 AAATCTATTAGCAGTAAA
1 AAATCTATTA-CAGTAAA
15919356 AAATCTATTACAGTAAA
1 AAATCTATTACAGTAAA
*
15919373 AAACCTAT
1 AAATCTAT
15919381 GAGGACCGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
17 14 0.34
18 12 0.29
19 1 0.02
20 10 0.24
21 4 0.10
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.29
Consensus pattern (17 bp):
AAATCTATTACAGTAAA
Found at i:15923938 original size:12 final size:12
Alignment explanation
Indices: 15923921--15923953 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
15923911 AAACCAAATC
15923921 AAGGGAGAACGA
1 AAGGGAGAACGA
15923933 AAGGGAGAACGA
1 AAGGGAGAACGA
15923945 AAGGGAGAA
1 AAGGGAGAA
15923954 GGGAGAACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.52, C:0.06, G:0.42, T:0.00
Consensus pattern (12 bp):
AAGGGAGAACGA
Found at i:15925231 original size:30 final size:31
Alignment explanation
Indices: 15925197--15925264 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
15925187 TTGCCCAAGA
** * **
15925197 GTAAATACTCAAAATTTGAGGGGTTAA-AGT
1 GTAAATACAAAAAATTTGAAGGGCCAATAGT
15925227 GTAAATACAAAAAATTTGAAGGGCCAATAGT
1 GTAAATACAAAAAATTTGAAGGGCCAATAGT
15925258 GTAAATA
1 GTAAATA
15925265 TTTTAAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (31 bp):
GTAAATACAAAAAATTTGAAGGGCCAATAGT
Found at i:15935427 original size:31 final size:31
Alignment explanation
Indices: 15935325--15935433 Score: 114
Period size: 31 Copynumber: 3.4 Consensus size: 31
15935315 TGAAATATAA
15935325 ATTTTAAATATTTTTAAGTAATAAATATTAATT
1 ATTTTAAATA--TTTAAGTAATAAATATTAATT
* * *
15935358 ATTTATAAA-ATTTAATTAGA-ATATATAAACTAT
1 ATTT-TAAATATTTAAGTA-ATAAATATTAA-T-T
15935391 ATTTTAAATATTTAAGTAATAAATATTAATT
1 ATTTTAAATATTTAAGTAATAAATATTAATT
*
15935422 ATTTTAGATATT
1 ATTTTAAATATT
15935434 AACACATTTG
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
31 26 0.41
32 8 0.13
33 25 0.40
34 4 0.06
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.49
Consensus pattern (31 bp):
ATTTTAAATATTTAAGTAATAAATATTAATT
Found at i:15941402 original size:15 final size:15
Alignment explanation
Indices: 15941382--15941459 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
15941372 TTTATGGAAA
15941382 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
15941397 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
15941411 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
15941427 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
15941441 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
15941457 ATC
1 ATC
15941460 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:15941410 original size:30 final size:30
Alignment explanation
Indices: 15941376--15941469 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
15941366 TCCATATTTA
*
15941376 TGGAAAATCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
15941406 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
15941436 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
15941467 TGG
1 TGG
15941470 CATAATAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 53 0.87
31 8 0.13
ACGTcount: A:0.41, C:0.06, G:0.26, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:15946061 original size:15 final size:15
Alignment explanation
Indices: 15946041--15946148 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
15946031 TTTATGGAAA
15946041 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
15946056 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
15946070 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
15946086 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
15946100 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
15946116 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
15946130 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
15946146 ATC
1 ATC
15946149 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:15946070 original size:30 final size:30
Alignment explanation
Indices: 15946034--15946148 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
15946024 ATCCATATTT
*
15946034 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
15946064 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
15946094 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
15946124 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
15946149 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:15953276 original size:29 final size:30
Alignment explanation
Indices: 15953243--15953306 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
15953233 TAGAAAATTA
* *
15953243 AAAAAAGTATTTT-AAATTATTTTAAAAAT
1 AAAAAAGTATTTTAAAATAATTTAAAAAAT
15953272 AAAAAAGTATTTTAAAATAATTTAAAAAAT
1 AAAAAAGTATTTTAAAATAATTTAAAAAAT
15953302 AAAAA
1 AAAAA
15953307 TATATATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 13 0.41
30 19 0.59
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (30 bp):
AAAAAAGTATTTTAAAATAATTTAAAAAAT
Found at i:15954137 original size:8 final size:8
Alignment explanation
Indices: 15954124--15954157 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
15954114 TTGAAACAAC
15954124 ATAATTAA
1 ATAATTAA
15954132 ATAATTAA
1 ATAATTAA
15954140 ATAAATTAA
1 AT-AATTAA
15954149 A-AATTAA
1 ATAATTAA
15954156 AT
1 AT
15954158 TGGAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.29
8 10 0.42
9 7 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
ATAATTAA
Done.