Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 99 of 259
Found at i:32224044 original size:82 final size:81
Alignment explanation
Indices: 32223926--32224081 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32223916 TGCTATATAA
* *
32223926 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
32223991 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32224008 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
32224072 CACTTAGTGC
65 CACTTAGTGC
32224082 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32245842 original size:30 final size:29
Alignment explanation
Indices: 32245801--32245862 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
32245791 GGTATCCGAT
*
32245801 GCTAGTTAAATCGCACACTTAGTGCCAAA
1 GCTAGTTAAATCCCACACTTAGTGCCAAA
*
32245830 GCTAGTTTAAATCCCACATTTAGTGCCAAA
1 GCTAG-TTAAATCCCACACTTAGTGCCAAA
32245860 GCT
1 GCT
32245863 TTCGATTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 5 0.17
30 25 0.83
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (29 bp):
GCTAGTTAAATCCCACACTTAGTGCCAAA
Found at i:32248698 original size:41 final size:41
Alignment explanation
Indices: 32248652--32248733 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
32248642 ACTATCATCC
32248652 CCCTTTTATTCCATACAACATGAAAATAACCTCTAATTCTA
1 CCCTTTTATTCCATACAACATGAAAATAACCTCTAATTCTA
32248693 CCCTTTTATTCCATACAACATGAAAATAACCTCTAATTCTA
1 CCCTTTTATTCCATACAACATGAAAATAACCTCTAATTCTA
32248734 ACACTTAGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (41 bp):
CCCTTTTATTCCATACAACATGAAAATAACCTCTAATTCTA
Found at i:32257251 original size:33 final size:33
Alignment explanation
Indices: 32257214--32257278 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
32257204 GCCAACTCAA
32257214 ATAAGCACTTAAACATCTAGCACACAGCTTTTT
1 ATAAGCACTTAAACATCTAGCACACAGCTTTTT
32257247 ATAAGCACTTAAACATCTAGCACACAGCTTTT
1 ATAAGCACTTAAACATCTAGCACACAGCTTTT
32257279 ACATTTTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.37, C:0.25, G:0.09, T:0.29
Consensus pattern (33 bp):
ATAAGCACTTAAACATCTAGCACACAGCTTTTT
Found at i:32261377 original size:5 final size:5
Alignment explanation
Indices: 32261367--32261423 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
32261357 CTCTTGCCTC
*
32261367 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
32261414 TCTTT TCTTT
1 TCTTT TCTTT
32261424 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:32261407 original size:15 final size:14
Alignment explanation
Indices: 32261367--32261423 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
32261357 CTCTTGCCTC
*
32261367 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
32261382 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
32261397 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
32261414 TCTTTTCTTT
1 TCTTTTCTTT
32261424 ATTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:32261433 original size:21 final size:20
Alignment explanation
Indices: 32261365--32261434 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
32261355 GCCTCTTGCC
32261365 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
32261388 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
32261408 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
32261428 TCTCTTT
1 TCTCTTT
32261435 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:32262303 original size:13 final size:11
Alignment explanation
Indices: 32262285--32262351 Score: 73
Period size: 11 Copynumber: 5.6 Consensus size: 11
32262275 GCACAAATCT
32262285 TTTTTTTTGAAA
1 TTTTTTTTG-AA
32262297 CTTTTTTTTGAA
1 -TTTTTTTTGAA
32262309 TTTTTTTTCG-A
1 TTTTTTTT-GAA
32262320 TTTTTTTTCCGAA
1 TTTTTTTT--GAA
32262333 TTTTTTTTTGAA
1 -TTTTTTTTGAA
32262345 TTTTTTT
1 TTTTTTT
32262352 ATACTTGTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
11 24 0.48
12 8 0.16
13 10 0.20
14 8 0.16
ACGTcount: A:0.15, C:0.06, G:0.07, T:0.72
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:32262313 original size:12 final size:12
Alignment explanation
Indices: 32262284--32262351 Score: 84
Period size: 12 Copynumber: 5.6 Consensus size: 12
32262274 TGCACAAATC
32262284 TTTTTTTTTGAAA
1 TTTTTTTTTG-AA
*
32262297 CTTTTTTTTGAA
1 TTTTTTTTTGAA
*
32262309 TTTTTTTTCG-A
1 TTTTTTTTTGAA
*
32262320 TTTTTTTTCCGAA
1 TTTTTTTT-TGAA
32262333 TTTTTTTTTGAA
1 TTTTTTTTTGAA
32262345 TTTTTTT
1 TTTTTTT
32262352 ATACTTGTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
11 9 0.18
12 22 0.45
13 18 0.37
ACGTcount: A:0.15, C:0.06, G:0.07, T:0.72
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:32264070 original size:30 final size:30
Alignment explanation
Indices: 32263974--32264058 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
32263964 TACACTAAAA
*
32263974 TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCATGAGCTAAAGT
* * * * *
32264004 TGAGCTGAGATTAAACTCCTAAGCTAAAGT
1 TGAGCTAAGATTTAGCTCATGAGCTAAAGT
* *
32264034 TGAGCTAAGGTTTAGCTCGTGAGCT
1 TGAGCTAAGATTTAGCTCATGAGCT
32264059 GAATATGAGC
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCATGAGCTAAAGT
Found at i:32267513 original size:20 final size:20
Alignment explanation
Indices: 32267447--32267507 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
32267437 ATTTTGATAA
*
32267447 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
32267467 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
32267487 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
32267507 A
1 A
32267508 TGTGATGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:32267590 original size:24 final size:24
Alignment explanation
Indices: 32267563--32267738 Score: 284
Period size: 24 Copynumber: 7.4 Consensus size: 24
32267553 GAGGAAGTGA
32267563 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
32267587 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
32267611 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
32267635 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
32267658 TAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
32267681 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* *
32267705 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
32267729 AAAAGAGGCT
1 AAAAG-GGCT
32267739 AGGCCTCCAG
Statistics
Matches: 147, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
23 45 0.31
24 98 0.67
25 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:32267984 original size:31 final size:31
Alignment explanation
Indices: 32267946--32268009 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
32267936 CGTTTACAGT
32267946 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
** **
32267977 AAAGGCTTTGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
32268008 AA
1 AA
32268010 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:32270611 original size:30 final size:29
Alignment explanation
Indices: 32270568--32270631 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
32270558 CAAGTAGCCG
32270568 AAGCTAGTTAAATCACACACTTAGTGCCA
1 AAGCTAGTTAAATCACACACTTAGTGCCA
*
32270597 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCACACACTTAGTGCCA
32270627 AAGCT
1 AAGCT
32270632 TCTGATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCACACACTTAGTGCCA
Found at i:32276213 original size:40 final size:40
Alignment explanation
Indices: 32276158--32276473 Score: 492
Period size: 40 Copynumber: 7.9 Consensus size: 40
32276148 GCATGAGCAT
*
32276158 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32276198 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32276238 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
32276278 TTGATAAATCCTGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
32276318 TTGATATATCTGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
32276358 TTGATAAATCCGGGCTAAGACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
32276398 TTG-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
32276437 TTGCTATA-CTCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATC-CGGGCTAAGACCCGAAGGCATTTGTGC
32276474 TTGCGGTTAT
Statistics
Matches: 253, Mismatches: 21, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
39 35 0.14
40 218 0.86
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:32284535 original size:40 final size:40
Alignment explanation
Indices: 32284480--32284796 Score: 492
Period size: 40 Copynumber: 7.9 Consensus size: 40
32284470 GCATGAGCAT
* *
32284480 TTGATATATCCGGGCTAAGACCTGAAGGCATTTGTGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32284520 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32284560 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
32284600 TTGATAAATCCGGGCTAAGACCCGGAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
32284640 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
32284680 TTGATAAATCCGGGCTAAGACCCGAAGGCAATTATG-GAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCG-AG
* *
32284720 TTGGTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
32284760 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
32284797 TTGCGGTTAT
Statistics
Matches: 254, Mismatches: 21, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
39 1 0.00
40 252 0.99
41 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:32286644 original size:46 final size:46
Alignment explanation
Indices: 32286594--32286760 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 46
32286584 AGCATCTGAG
* *
32286594 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAAGTCCGAA
* * * *
32286640 CTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAAGCATCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AAG--TCCGAA
* * * *
32286687 CTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCCAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAAGTCCGAA
*
32286732 GCTCATTGAGTTGAGTCCGAGTTCACTTA
1 -CTCGTTGAGTTGAGTCCGAGTTCACTTA
32286761 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 8 0.08
46 49 0.49
47 28 0.28
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAAGTCCGAA
Found at i:32286743 original size:93 final size:93
Alignment explanation
Indices: 32286584--32286755 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
32286574 AGGATGGTTG
* * * * * *
32286584 AGCATCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCATTGAG
*
32286649 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
32286677 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCCAAGCTCATTGA
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAA-CTCATTGA
32286741 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
32286756 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 4 0.06
93 65 0.94
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (93 bp):
AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:32287022 original size:19 final size:20
Alignment explanation
Indices: 32286985--32287022 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
32286975 ATAAGGTGAT
32286985 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
32287005 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
32287023 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:32288182 original size:28 final size:28
Alignment explanation
Indices: 32288135--32288196 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
32288125 AAATTAACCC
*
32288135 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
* *
32288163 TAGGGGTATAATGGTAATTTTGCATGCA
1 TAGGGGTATAAAGGTAATTTTGCATACA
32288191 TAGGGG
1 TAGGGG
32288197 CATTCTAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.08, G:0.31, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:32289285 original size:12 final size:13
Alignment explanation
Indices: 32289266--32289298 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
32289256 GGGTTCGGCT
32289266 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
32289279 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
32289291 ATGGAGAA
1 ATGGAGAA
32289299 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:32291343 original size:29 final size:28
Alignment explanation
Indices: 32291308--32291377 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
32291298 GGTCCCTAGA
* *
32291308 AATCCATATTTTTCATTTATTTCACAATTT
1 AATCCATATTTTACA--CATTTCACAATTT
32291338 AA-CCATGAATTTTACACATTTCACAATTT
1 AATCCAT--ATTTTACACATTTCACAATTT
*
32291367 AATCCCTATTT
1 AATCCATATTT
32291378 GGACATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
28 4 0.12
29 18 0.53
30 5 0.15
31 7 0.21
ACGTcount: A:0.33, C:0.20, G:0.01, T:0.46
Consensus pattern (28 bp):
AATCCATATTTTACACATTTCACAATTT
Found at i:32298205 original size:27 final size:27
Alignment explanation
Indices: 32298175--32298351 Score: 185
Period size: 27 Copynumber: 6.5 Consensus size: 27
32298165 AAATTGTACA
* *
32298175 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
** *
32298202 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
32298229 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
32298256 GCACTAAGTGTGCGAGTTTGACTATGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* * *
32298284 GCACTAAGTGTGCAATTTGATTATGTA
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
32298311 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
32298338 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
32298352 GACTCGATAT
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:32298288 original size:82 final size:81
Alignment explanation
Indices: 32298175--32298330 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
32298165 AAATTGTACA
*
32298175 GCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAA-ATGAATATG-ATGCACTAAGT
1 GCACTAAGGGTGCGATTTGACTATGTGGCACTAAGTGTGC-AATATGAATATGTA-GCACTAAGT
32298238 GTGCGAATTGACCATGCG
64 GTGCGAATTGACCATGCG
* * *
32298256 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCAATTTGATTATGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTTGACTATGTGGCACTAAGTGTGCAATATGAATATGTAGCACTAAGTG
*
32298321 TGCGAGTTGA
65 TGCGAATTGA
32298331 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 16 0.24
82 50 0.75
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTTGACTATGTGGCACTAAGTGTGCAATATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:32298342 original size:82 final size:81
Alignment explanation
Indices: 32298171--32298351 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
32298161 GATTAAATTG
* *
32298171 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
32298236 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *
32298252 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGC-AATTTGATTATG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAA-ATGAATATGAT-GCAC
* **
32298315 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
32298334 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
32298352 GACTCGATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 19 0.23
82 65 0.77
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:32302354 original size:19 final size:17
Alignment explanation
Indices: 32302324--32302367 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
32302314 ATGAAATTTT
*
32302324 AAATAGTATTATGAGATA
1 AAATATTATTATGAGA-A
*
32302342 AAATTATTATTATTAGAA
1 AAA-TATTATTATGAGAA
32302360 AAATATTA
1 AAATATTA
32302368 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 5 0.22
18 7 0.30
19 11 0.48
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
AAATATTATTATGAGAA
Found at i:32304758 original size:20 final size:20
Alignment explanation
Indices: 32304735--32304792 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
32304725 TAAACATGGT
32304735 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
32304755 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
32304775 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
32304793 GTGTATTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:32304775 original size:11 final size:11
Alignment explanation
Indices: 32304739--32304792 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
32304729 CATGGTATGT
32304739 ATGATATGCAC
1 ATGATATGCAC
* *
32304750 ATGACATG--T
1 ATGATATGCAC
32304759 ATGATATGCAC
1 ATGATATGCAC
*
32304770 ATGATATG--T
1 ATGATATGCAC
32304779 ATGATATGCAC
1 ATGATATGCAC
32304790 ATG
1 ATG
32304793 GTGTATTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:32304873 original size:23 final size:23
Alignment explanation
Indices: 32304843--32304915 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
32304833 AAGAAGTACA
32304843 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
32304866 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
32304889 AAAATGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
32304913 AAA
1 AAA
32304916 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:32304932 original size:25 final size:24
Alignment explanation
Indices: 32304842--32304936 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
32304832 GAAGAAGTAC
32304842 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
32304866 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
32304889 AAAATGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
32304913 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
32304937 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.37
24 29 0.46
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:32307934 original size:21 final size:21
Alignment explanation
Indices: 32307908--32307949 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
32307898 ATATAGCCAG
32307908 GTAAGTTCATAGTATTAAATT
1 GTAAGTTCATAGTATTAAATT
32307929 GTAAGTTCATAGTATTAAATT
1 GTAAGTTCATAGTATTAAATT
32307950 TTATAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (21 bp):
GTAAGTTCATAGTATTAAATT
Found at i:32308050 original size:20 final size:20
Alignment explanation
Indices: 32308017--32308129 Score: 59
Period size: 20 Copynumber: 5.2 Consensus size: 20
32308007 GTAAATTCTA
* *
32308017 CCCTGATTGCACTTACGTAC
1 CCCTGTTTGTACTTACGTAC
*
32308037 CCCTGTTTGTACTTCGGTACTTAC
1 CCCTGTTTGTAC-T---TACGTAC
32308061 GTGCCCCTGTTTGTACTT-CGGTAC
1 ---CC-CTGTTTGTACTTAC-GTAC
* * * *
32308085 CCCTGATTGCACTTACATGC
1 CCCTGTTTGTACTTACGTAC
32308105 CCCTGTTTGTACTT-CAGTAC
1 CCCTGTTTGTACTTAC-GTAC
32308125 CCCTG
1 CCCTG
32308130 ATTGCACATC
Statistics
Matches: 70, Mismatches: 12, Indels: 22
0.67 0.12 0.21
Matches are distributed among these distances:
19 1 0.01
20 41 0.59
21 4 0.06
23 1 0.01
24 10 0.14
27 3 0.04
28 10 0.14
ACGTcount: A:0.14, C:0.33, G:0.18, T:0.35
Consensus pattern (20 bp):
CCCTGTTTGTACTTACGTAC
Found at i:32308067 original size:28 final size:28
Alignment explanation
Indices: 32308027--32308084 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
32308017 CCCTGATTGC
32308027 ACTTACGTACCCCTGTTTGTACTTCGGT
1 ACTTACGTACCCCTGTTTGTACTTCGGT
*
32308055 ACTTACGTGCCCCTGTTTGTACTTCGGT
1 ACTTACGTACCCCTGTTTGTACTTCGGT
32308083 AC
1 AC
32308085 CCCTGATTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.38
Consensus pattern (28 bp):
ACTTACGTACCCCTGTTTGTACTTCGGT
Found at i:32308110 original size:40 final size:40
Alignment explanation
Indices: 32308055--32308160 Score: 160
Period size: 40 Copynumber: 2.6 Consensus size: 40
32308045 GTACTTCGGT
*
32308055 ACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGC
1 ACTTACGTGCCCCTGTTTGTACTTCAGTACCCCTGATTGC
*
32308095 ACTTACATGCCCCTGTTTGTACTTCAGTACCCCTGATTGC
1 ACTTACGTGCCCCTGTTTGTACTTCAGTACCCCTGATTGC
* *
32308135 ACAT-CGGTGCCCCTGTTTGAACTTCA
1 ACTTAC-GTGCCCCTGTTTGTACTTCA
32308161 ATGCTCTTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.02
40 59 0.98
ACGTcount: A:0.16, C:0.32, G:0.18, T:0.34
Consensus pattern (40 bp):
ACTTACGTGCCCCTGTTTGTACTTCAGTACCCCTGATTGC
Found at i:32308147 original size:20 final size:20
Alignment explanation
Indices: 32308061--32308159 Score: 83
Period size: 20 Copynumber: 5.0 Consensus size: 20
32308051 CGGTACTTAC
* *
32308061 GTGCCCCTGTTTGTACTTCG
1 GTGCCCCTGATTGCACTTCG
*
32308081 GTACCCCTGATTGCACTTAC-
1 GTGCCCCTGATTGCACTT-CG
* * * *
32308101 ATGCCCCTGTTTGTACTTCA
1 GTGCCCCTGATTGCACTTCG
* *
32308121 GTACCCCTGATTGCACATCG
1 GTGCCCCTGATTGCACTTCG
* *
32308141 GTGCCCCTGTTTGAACTTC
1 GTGCCCCTGATTGCACTTC
32308160 AATGCTCTTA
Statistics
Matches: 60, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
19 1 0.02
20 58 0.97
21 1 0.02
ACGTcount: A:0.14, C:0.32, G:0.19, T:0.34
Consensus pattern (20 bp):
GTGCCCCTGATTGCACTTCG
Found at i:32308668 original size:29 final size:29
Alignment explanation
Indices: 32308626--32308686 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
32308616 AAATTTATTT
32308626 TAATATTATTCTAAGTGTTTACAGCATGA
1 TAATATTATTCTAAGTGTTTACAGCATGA
32308655 TAATATTATTCTAAGTGTTTACAGCATGA
1 TAATATTATTCTAAGTGTTTACAGCATGA
32308684 TAA
1 TAA
32308687 CATATATGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (29 bp):
TAATATTATTCTAAGTGTTTACAGCATGA
Found at i:32309892 original size:29 final size:28
Alignment explanation
Indices: 32309849--32309903 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
32309839 AGATATACCA
32309849 ATTTGGCTTCGGGCCATGAATATCAGTTG
1 ATTTGGCTTCGGGCCATG-ATATCAGTTG
*
32309878 ATTTGGCTTCTGGCCATGATATCAGT
1 ATTTGGCTTCGGGCCATGATATCAGT
32309904 GCTTCAGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (28 bp):
ATTTGGCTTCGGGCCATGATATCAGTTG
Found at i:32311739 original size:23 final size:23
Alignment explanation
Indices: 32311713--32311772 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
32311703 AGTTCATAAG
* *
32311713 AGCTTACTGTTTCAGCTTATTGA
1 AGCTTACCGATTCAGCTTATTGA
32311736 AGCTTACCGATTCAGCTTATTGA
1 AGCTTACCGATTCAGCTTATTGA
32311759 AGCTTACCGATTCA
1 AGCTTACCGATTCA
32311773 ACTCAATAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (23 bp):
AGCTTACCGATTCAGCTTATTGA
Found at i:32311785 original size:23 final size:23
Alignment explanation
Indices: 32311689--32311812 Score: 94
Period size: 23 Copynumber: 5.3 Consensus size: 23
32311679 CAGCTAGTAT
* *
32311689 GAGCTTACCGATTTAGTTC-ATAA
1 GAGCTTACCGATTCAGCTCAAT-A
* * * *
32311712 GAGCTTACTGTTTCAGCT-TATT
1 GAGCTTACCGATTCAGCTCAATA
* *
32311734 GAAGCTTACCGATTCAGCT-TATT
1 G-AGCTTACCGATTCAGCTCAATA
*
32311757 GAAGCTTACCGATTCAACTCAATA
1 G-AGCTTACCGATTCAGCTCAATA
32311781 GAGCTTACC-ATTTTCAGCTCAATA
1 GAGCTTACCGA--TTCAGCTCAATA
32311805 GAGCTTAC
1 GAGCTTAC
32311813 TGTTCATCAG
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
22 2 0.02
23 61 0.72
24 22 0.26
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (23 bp):
GAGCTTACCGATTCAGCTCAATA
Found at i:32314226 original size:140 final size:140
Alignment explanation
Indices: 32313987--32314243 Score: 433
Period size: 140 Copynumber: 1.8 Consensus size: 140
32313977 AAAGAATATC
* *
32313987 TTGAATTGAAGCAAGGACGTATGTTAGTCACAGAATATGAAAGAAAGTTTCTACGACTCAGCAAA
1 TTGAATTAAAGCAAGGACGTATGTCAGTCACAGAATATGAAAGAAAGTTTCTACGACTCAGCAAA
* *
32314052 TATGTAACGCCCCAATCCCCAAATCCCTGATAAAATTATTTTTTTGTCTTTGCTTCAATTCAAGA
66 TATGTAACACCCCAATCCCCAAATCCCTGATAAAATTATTTTTATGTCTTTGCTTCAATTCAAGA
32314117 AAATAATTTA
131 AAATAATTTA
* *
32314127 TTGAATTAAAGCAAGGACGTATGTCAGTCACTGAATATGAAAGAAAGTTTGTACGACTCAGCAAA
1 TTGAATTAAAGCAAGGACGTATGTCAGTCACAGAATATGAAAGAAAGTTTCTACGACTCAGCAAA
* * *
32314192 TATGTAACACGCCAATCCCTAAATCCCTGATAAAATTATTTTTATGTGTTTG
66 TATGTAACACCCCAATCCCCAAATCCCTGATAAAATTATTTTTATGTCTTTG
32314244 TGATGTGAAA
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
140 108 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (140 bp):
TTGAATTAAAGCAAGGACGTATGTCAGTCACAGAATATGAAAGAAAGTTTCTACGACTCAGCAAA
TATGTAACACCCCAATCCCCAAATCCCTGATAAAATTATTTTTATGTCTTTGCTTCAATTCAAGA
AAATAATTTA
Found at i:32318881 original size:27 final size:26
Alignment explanation
Indices: 32318841--32318891 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
32318831 CTCGCTGCAA
*
32318841 TCTGGTGGCCTCGTCACATATATCTAT
1 TCTGGTGACCTCGTCACA-ATATCTAT
*
32318868 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGTCACAATATCT
32318892 GGTAGCCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (26 bp):
TCTGGTGACCTCGTCACAATATCTAT
Found at i:32321008 original size:38 final size:38
Alignment explanation
Indices: 32320957--32321032 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
32320947 GTAGAAAGAC
32320957 AGAATCGTGAGAAAGATCAGAACCGTTTTAGGAGAGAT
1 AGAATCGTGAGAAAGATCAGAACCGTTTTAGGAGAGAT
32320995 AGAATCGTGAGAAAGATCAGAACCGTTTTAGGAGAGAT
1 AGAATCGTGAGAAAGATCAGAACCGTTTTAGGAGAGAT
32321033 TCAGGACTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (38 bp):
AGAATCGTGAGAAAGATCAGAACCGTTTTAGGAGAGAT
Found at i:32321032 original size:21 final size:21
Alignment explanation
Indices: 32320970--32321032 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
32320960 ATCGTGAGAA
32320970 AGATCAGAACCGTTTTAGGAG
1 AGATCAGAACCGTTTTAGGAG
* * *
32320991 AGAT-AGAATCG--TGA-GAA
1 AGATCAGAACCGTTTTAGGAG
32321008 AGATCAGAACCGTTTTAGGAG
1 AGATCAGAACCGTTTTAGGAG
32321029 AGAT
1 AGAT
32321033 TCAGGACTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 6 0.19
18 8 0.25
20 8 0.25
21 10 0.31
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (21 bp):
AGATCAGAACCGTTTTAGGAG
Found at i:32326099 original size:27 final size:26
Alignment explanation
Indices: 32326055--32326106 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
32326045 CTCGCTGCAA
*
32326055 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
32326082 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
32326107 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:32326197 original size:27 final size:26
Alignment explanation
Indices: 32326145--32326204 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
32326135 CCACATATAT
*
32326145 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
32326171 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
32326198 ATATCTG
1 ATATCTG
32326205 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:32336479 original size:18 final size:18
Alignment explanation
Indices: 32336437--32336479 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
32336427 GCCCATTCCG
* *
32336437 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
32336455 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
32336473 AAGTATG
1 AAGTATG
32336480 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:32347786 original size:42 final size:42
Alignment explanation
Indices: 32347726--32347817 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
32347716 TAGCCCATAG
*
32347726 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
*
32347768 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
32347810 GCCCATTT
1 GCCCATTT
32347818 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:32348003 original size:25 final size:25
Alignment explanation
Indices: 32347971--32348059 Score: 126
Period size: 25 Copynumber: 3.6 Consensus size: 25
32347961 TAATAATTGG
*
32347971 GGCAAAGCCCTTTTTGATAAACTGA
1 GGCAAAGCCCTTTTTGGTAAACTGA
*
32347996 GGCAAAGCCCTTTTTGGTAAACTGG
1 GGCAAAGCCCTTTTTGGTAAACTGA
*
32348021 GGCAAAGCCCTTTTCGGTAAACT-A
1 GGCAAAGCCCTTTTTGGTAAACTGA
*
32348045 GGGCATAGCCCTTTT
1 -GGCAAAGCCCTTTT
32348060 AGCACTTCCT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (25 bp):
GGCAAAGCCCTTTTTGGTAAACTGA
Found at i:32349017 original size:27 final size:27
Alignment explanation
Indices: 32348987--32349038 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
32348977 GTAAATCTAC
32348987 AAACCAAGGGTACTTC-AGTAATTTTGT
1 AAACCAAGGGTACTTCTA-TAATTTTGT
* *
32349014 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAGGGTACTTCTATAATTTT
32349039 TAGAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTACTTCTATAATTTTGT
Found at i:32349090 original size:27 final size:26
Alignment explanation
Indices: 32349050--32349219 Score: 178
Period size: 27 Copynumber: 6.3 Consensus size: 26
32349040 AGAAAGTCAA
* **
32349050 GGGTATTTTTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAA-CAG
* *
32349077 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAA-CAG
* * *
32349104 GGGTATGTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAA-CAG
*
32349131 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AG
32349158 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AG
* **
32349185 GGGTATTTTGGTAATTCTATCCTACAG
1 GGGTATTTTGGTAATTTTA-CAAACAG
32349212 GGGTATTT
1 GGGTATTT
32349220 CAGAAATTTC
Statistics
Matches: 122, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 118 0.97
28 3 0.02
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAG
Found at i:32349163 original size:81 final size:81
Alignment explanation
Indices: 32349051--32349200 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 81
32349041 GAAAGTCAAG
* ** *
32349051 GGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATGTCGGT
1 GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATGTCGGT
32349116 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
* * *
32349132 GGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATGTCGG
32349196 TAATT
65 TAATT
32349201 CTATCCTACA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 1 0.02
81 60 0.98
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATGTCGGT
AATTTCACAAACCAGT
Found at i:32349262 original size:27 final size:27
Alignment explanation
Indices: 32349232--32349321 Score: 153
Period size: 27 Copynumber: 3.3 Consensus size: 27
32349222 GAAATTTCAC
*
32349232 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
32349259 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
32349286 AATCGAGGGTAAAACGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
32349313 AATCGAGGG
1 AATCGAGGG
32349322 CATTTCAGTA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:32351005 original size:27 final size:27
Alignment explanation
Indices: 32350983--32351057 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
32350973 AGTACCCCTG
* *
32350983 GTTTATAAAATTACCGAAATACCCTCA
1 GTTTGTAAAATTACTGAAATACCCTCA
*
32351010 GTTTGCAAAATTACTGAAATACCCTC-
1 GTTTGTAAAATTACTGAAATACCCTCA
32351036 GATTTGTAAAATTACTGAAATA
1 G-TTTGTAAAATTACTGAAATA
32351058 TTCCTGTAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.02
27 42 0.98
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (27 bp):
GTTTGTAAAATTACTGAAATACCCTCA
Found at i:32351100 original size:27 final size:27
Alignment explanation
Indices: 32351070--32351266 Score: 268
Period size: 27 Copynumber: 7.3 Consensus size: 27
32351060 CCTGTAAGAT
*
32351070 AGAATTACCATTTTACCCTCAATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * **
32351097 AGAATTATCGTTTTACCCAAGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
32351124 AGAATTACCATTTTACCTTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
32351151 AGAATTATCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
32351178 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
32351205 AGAATTACCGTCTTACCCTCGAATTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
32351232 AGAATTACCATTTTACCCTCGACTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
32351259 AAAATTAC
1 AGAATTAC
32351267 TGAAATACCT
Statistics
Matches: 146, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:32351128 original size:54 final size:54
Alignment explanation
Indices: 32351070--32351265 Score: 302
Period size: 54 Copynumber: 3.6 Consensus size: 54
32351060 CCTGTAAGAT
* **
32351070 AGAATTACCATTTTACCCTCAATTTACAGAATTATCGTTTTACCCAAGATTTAC
1 AGAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
* *
32351124 AGAATTACCATTTTACCTTCGATTTACAGAATTATCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
* * *
32351178 AGAATTACCATTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGAATTAC
1 AGAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
* *
32351232 AGAATTACCATTTTACCCTCGACTTACAAAATTA
1 AGAATTACCATTTTACCCTCGATTTACAGAATTA
32351266 CTGAAATACC
Statistics
Matches: 130, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 130 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (54 bp):
AGAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
Found at i:32351275 original size:27 final size:27
Alignment explanation
Indices: 32351164--32351357 Score: 95
Period size: 27 Copynumber: 7.2 Consensus size: 27
32351154 ATTATCGTTT
* * * ***
32351164 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGACTTACAAAATTACCAAAA
* * ****
32351191 TACCCTCGATTTACAGAATTACCGTCT
1 TACCCTCGACTTACAAAATTACCAAAA
* * ***
32351218 TACCCTCGAATTACAGAATTACCATTT
1 TACCCTCGACTTACAAAATTACCAAAA
**
32351245 TACCCTCGACTTACAAAATTACTGAAA
1 TACCCTCGACTTACAAAATTACCAAAA
* * **
32351272 TACCTTTGGTTTACAAAATTACCAAAA
1 TACCCTCGACTTACAAAATTACCAAAA
* *
32351299 TACCCTCGA-TCAATAAAATTACCAAAA
1 TACCCTCGACT-TACAAAATTACCAAAA
** **
32351326 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GACTTACAAAATTACCAAAA
32351353 TACCC
1 TACCC
32351358 CTGATTTGTG
Statistics
Matches: 137, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
26 2 0.01
27 134 0.98
28 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTCGACTTACAAAATTACCAAAA
Found at i:32351286 original size:54 final size:54
Alignment explanation
Indices: 32351070--32351295 Score: 258
Period size: 54 Copynumber: 4.2 Consensus size: 54
32351060 CCTGTAAGAT
* * **
32351070 AGAATTACCATTTTACCCTCAATTTACAGAATTA-TCGTTTTACCCAAGATTTAC
1 AGAATTACCATTTTACCCTCGATTTACAGAATTACT-GTATTACCCTCGATTTAC
* * *
32351124 AGAATTACCATTTTACCTTCGATTTACAGAATTA-TCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTACAGAATTACT-GTATTACCCTCGATTTAC
* * *
32351178 AGAATTACCATTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGAATTAC
1 AGAATTACCATTTTACCCTCGATTTACAGAATTACTGTATTACCCTCGATTTAC
* * * * * * *
32351232 AGAATTACCATTTTACCCTCGACTTACAAAATTACTGAAATACCTTTGGTTTAC
1 AGAATTACCATTTTACCCTCGATTTACAGAATTACTGTATTACCCTCGATTTAC
*
32351286 AAAATTACCA
1 AGAATTACCA
32351296 AAATACCCTC
Statistics
Matches: 150, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
54 150 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.36
Consensus pattern (54 bp):
AGAATTACCATTTTACCCTCGATTTACAGAATTACTGTATTACCCTCGATTTAC
Found at i:32351358 original size:27 final size:27
Alignment explanation
Indices: 32351281--32351384 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 27
32351271 ATACCTTTGG
*
32351281 TTTACAAAATTACCAAAATA-CCCTCGA
1 TTTATAAAATTACCAAAATACCCCT-GA
** *
32351308 TCAATAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCCTGA
*
32351335 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTATAAAATTACCAAAATACCCCTGA
* * *
32351362 TTTGTGAAATTACCGAAATACCC
1 TTTATAAAATTACCAAAATACCC
32351385 TTGTAGGGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
27 62 0.94
28 4 0.06
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCCTGA
Found at i:32351399 original size:27 final size:27
Alignment explanation
Indices: 32351369--32351725 Score: 468
Period size: 27 Copynumber: 13.3 Consensus size: 27
32351359 TGATTTGTGA
*
32351369 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
32351396 AATTATTGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
32351423 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
32351450 AATTA-CTAGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
32351477 AATTACCGGAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
32351504 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* * *
32351531 AATTATCGCAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
32351558 AATTACCGAAATACCCCTGTTGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
32351585 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
32351612 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
32351639 AATTACCGAAATACCCCCGT-GGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
32351665 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
32351692 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
32351719 AATTACC
1 AATTACC
32351726 ATTTACCCCT
Statistics
Matches: 290, Mismatches: 35, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
26 24 0.08
27 265 0.91
28 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:32351400 original size:54 final size:54
Alignment explanation
Indices: 32351315--32351726 Score: 454
Period size: 54 Copynumber: 7.6 Consensus size: 54
32351305 CGATCAATAA
* ** * **
32351315 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTG-ATTTGT-G
1 AATTACCGAAATACCCCT-GTAGGGTAGAATTACCAAAATACCCCTGTA-GGGTAG
* *** * *
32351368 AAATTACCGAAATACCCTTGTAGGGTAGAATTATTGAAATACCCTTATAGGGTAG
1 -AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * *
32351423 AATTACTGAAATACCCCTGTAGGGTAGAATTACTAGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * *
32351477 AATTACCGGAATACCCCTGTATGGTAGAATTACCAGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * * * *
32351531 AATTATCGCAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTTGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* **
32351585 AATTACCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* ** *
32351639 AATTACCGAAATACCCCCGT-GGGTAGAATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * * * *
32351692 AATTACTGAGATACCCTTGTGGGGTAAAATTACCA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCA
32351727 TTTACCCCTA
Statistics
Matches: 309, Mismatches: 45, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
53 50 0.16
54 257 0.83
55 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:32351400 original size:81 final size:81
Alignment explanation
Indices: 32351315--32351725 Score: 447
Period size: 81 Copynumber: 5.1 Consensus size: 81
32351305 CGATCAATAA
* * * **
32351315 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTG-ATTTGT-GAAATTACCG
1 AATTACCGAAATACCCCT-GTATGGTAGAATTACCAAAATACCCCTGTA-GGGTAG-AATTACCG
*
32351377 AAATACCCTTGTAGGGTAG
63 AAATACCCCTGTAGGGTAG
** * * * ** *
32351396 AATTATTGAAATACCCTTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTA-CTAGA
1 AATTACCGAAATACCCCTGTATGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGA-A
32351460 ATACCCCTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
* * * *
32351477 AATTACCGGAATACCCCTGTATGGTAGAATTACCAGAATACCCCTGTAGGGTAGAATTATCGCAA
1 AATTACCGAAATACCCCTGTATGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAA
*
32351542 TACCCTTGTAGGGTAG
66 TACCCCTGTAGGGTAG
** *
32351558 AATTACCGAAATACCCCTGT-TGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTACTGAA
1 AATTACCGAAATACCCCTGTAT-GGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAA
32351622 ATACCCCTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
* * ** * * *
32351639 AATTACCGAAATACCCCCGT-GGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACTGAGA
1 AATTACCGAAATACCCCTGTATGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAA
* * *
32351703 TACCCTTGTGGGGTAA
66 TACCCCTGTAGGGTAG
32351719 AATTACC
1 AATTACC
32351726 ATTTACCCCT
Statistics
Matches: 283, Mismatches: 41, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
80 63 0.22
81 217 0.77
82 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGTATGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAA
TACCCCTGTAGGGTAG
Found at i:32352105 original size:22 final size:22
Alignment explanation
Indices: 32352072--32352130 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
32352062 CACGTTATCG
32352072 ATGGC-TCTGTGCCAACCTAAAT
1 ATGGCTTC-GTGCCAACCTAAAT
* * * *
32352094 ATGGCTTCGTGCCATCTTGACT
1 ATGGCTTCGTGCCAACCTAAAT
32352116 ATGGCTTCGTGCCAA
1 ATGGCTTCGTGCCAA
32352131 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:32352533 original size:6 final size:6
Alignment explanation
Indices: 32352495--32352561 Score: 73
Period size: 6 Copynumber: 10.8 Consensus size: 6
32352485 TTGCATTCAC
* * *
32352495 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTTTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
32352545 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
32352562 AGCTCTGATA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
5 2 0.04
6 40 0.78
7 8 0.16
8 1 0.02
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:32352568 original size:18 final size:18
Alignment explanation
Indices: 32352529--32352570 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
32352519 TGATACTGAT
* *
32352529 TCTGATTCTGATTTTGAT
1 TCTGATTCTGATTTAGAC
32352547 TCTGATTCTGATTCTAG-C
1 TCTGATTCTGATT-TAGAC
32352565 TCTGAT
1 TCTGAT
32352571 AATGTTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (18 bp):
TCTGATTCTGATTTAGAC
Found at i:32354895 original size:28 final size:28
Alignment explanation
Indices: 32354841--32354897 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
32354831 CCTATTCAGT
* *
32354841 AACAGTACAGTCTAGGCCTTAGCCCTTA
1 AACAGTACAGTATAGGCCTAAGCCCTTA
*
32354869 AACAGTAGCAGTATGGGCCTAAG-CCTTA
1 AACAGTA-CAGTATAGGCCTAAGCCCTTA
32354897 A
1 A
32354898 TTCAGTCTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (28 bp):
AACAGTACAGTATAGGCCTAAGCCCTTA
Found at i:32355045 original size:42 final size:42
Alignment explanation
Indices: 32354985--32355076 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
32354975 TGGCCCATAG
*
32354985 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
*
32355027 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
32355069 GCCCATTT
1 GCCCATTT
32355077 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:32355252 original size:25 final size:25
Alignment explanation
Indices: 32355224--32355318 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
32355214 CTCTTTTAAT
* *
32355224 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
32355249 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
32355274 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
32355299 AACTGAGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
32355319 AGCACTTCCT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:32355254 original size:50 final size:50
Alignment explanation
Indices: 32355188--32355319 Score: 146
Period size: 50 Copynumber: 2.6 Consensus size: 50
32355178 AGCATAGCTA
*
32355188 CTTTTTCATATAACTGGAGGGC-TAGCCTCTTTTAAT-AACTGGGGCAAAGCC
1 CTTTTTGATA-AACT-GAGGGCATAGCC-CTTTTAATAAACTGGGGCAAAGCC
* **
32355239 CTTTTTGATAAACTG-GGGCAAAGCCCTTTTCGGTAAACTGGGGCAAAGCC
1 CTTTTTGATAAACTGAGGGCATAGCCCTTTT-AATAAACTGGGGCAAAGCC
* *
32355289 CTTTTCGGTAAACTGA-GGCATAGCCCTTTTA
1 CTTTTTGATAAACTGAGGGCATAGCCCTTTTA
32355320 GCACTTCCTC
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
48 9 0.13
49 6 0.09
50 45 0.65
51 9 0.13
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (50 bp):
CTTTTTGATAAACTGAGGGCATAGCCCTTTTAATAAACTGGGGCAAAGCC
Found at i:32356158 original size:27 final size:27
Alignment explanation
Indices: 32356128--32356192 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
32356118 GGGCATATTC
32356128 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
32356155 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
32356182 GTCTTTTTACC
1 GTCATTTTACC
32356193 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:32356500 original size:54 final size:51
Alignment explanation
Indices: 32356334--32356528 Score: 201
Period size: 54 Copynumber: 3.6 Consensus size: 51
32356324 TTTGTAAATT
** * *
32356334 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTCAGTAATTTTACAAACT-AGGGTATTTTGGTAATTT-ACAAA-C
*
32356388 AGTGGTATTTCAGTAATTTTACAAACTAGGGTTATTTTGGTAATTTTACAAAC
1 AGGGGTATTTCAGTAATTTTACAAACTAGGG-TATTTTGGTAA-TTTACAAAC
** **
32356441 TAGGGGTATTTTGGTAATTTTACAAACTAGGGATATTTTGGTAATTCTATCCTAC
1 -AGGGGTATTTCAGTAATTTTACAAACTAGGG-TATTTTGGTAATT-TA-CAAAC
* * *
32356496 AGGGGTATTTCAGTAATTTCACAATCGAGGGTA
1 AGGGGTATTTCAGTAATTTTACAAACTAGGGTA
32356529 AAATAGTAAT
Statistics
Matches: 120, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
53 9 0.08
54 105 0.88
55 6 0.05
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (51 bp):
AGGGGTATTTCAGTAATTTTACAAACTAGGGTATTTTGGTAATTTACAAAC
Found at i:32356505 original size:27 final size:27
Alignment explanation
Indices: 32356226--32356486 Score: 213
Period size: 27 Copynumber: 9.6 Consensus size: 27
32356216 CATCCTACAA
* * * *
32356226 GGGTGTTTTGGTAAATTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* ** * *
32356253 GGGTATTTTAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* * * * *
32356280 TGGTATTTCT-ATAATTTTTAGAAAGTCAA
1 GGGTATTT-TGGTAA-TTTTACAAACT-AG
* ** *
32356309 GGGTGTTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
32356336 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
32356362 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* **
32356390 TGGTATTTCAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
32356417 GGTTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
32356444 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
32356471 GGATATTTTGGTAATT
1 GGGTATTTTGGTAATT
32356487 CTATCCTACA
Statistics
Matches: 192, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
26 3 0.02
27 159 0.83
28 17 0.09
29 13 0.07
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:32356505 original size:81 final size:81
Alignment explanation
Indices: 32356333--32356528 Score: 211
Period size: 81 Copynumber: 2.4 Consensus size: 81
32356323 TTTTGTAAAT
*
32356333 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTT
1 TAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTT
*
32356398 CAGTAATTTTACAAAC
66 CAGTAATTCTACAAAC
* * * *
32356414 TAGGGTTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACTAG-GGATAT
1 TAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTTCACAAACCAGTGG-TAT
** **
32356477 TTTGGTAATTCTATCCTAC
64 TTCAGTAATTCTA-CAAAC
** * *
32356496 -AGGGGTATTTCAGTAATTTCAC-AATCGAGGGTA
1 TAGGGGTATTTTGGTAATTTTACAAATAGAGGGTA
32356529 AAATAGTAAT
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
79 2 0.02
80 9 0.09
81 80 0.83
82 5 0.05
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.39
Consensus pattern (81 bp):
TAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTT
CAGTAATTCTACAAAC
Found at i:32356557 original size:27 final size:27
Alignment explanation
Indices: 32356518--32356661 Score: 191
Period size: 27 Copynumber: 5.3 Consensus size: 27
32356508 GTAATTTCAC
*
32356518 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTATA
* * *
32356545 AA-CTTAGGGTAAAATGGTTATTTTATA
1 AATC-GAGGGTAAAATAGTAATTTTATA
*
32356572 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTATA
* *
32356599 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTATA
* *
32356626 AATCGAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAATAGTAATTTTATA
32356653 AATCGAGGG
1 AATCGAGGG
32356662 CATTTCAGTA
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 100 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTTTATA
Found at i:32356672 original size:81 final size:81
Alignment explanation
Indices: 32356498--32356675 Score: 186
Period size: 81 Copynumber: 2.2 Consensus size: 81
32356488 TATCCTACAG
* * * * **
32356498 GGGT-ATTTCAGTAATTTCACAATCGAGGGTAAAATAGTAATTTTGTAAACTTAGGGTAAAATGG
1 GGGTAATTTCAGTAATTTCAAAATCGAGGGTAAAATAGTAATTCTATAAACTGAGGGTAAAACAG
* *
32356562 TTATTTTATAAATCGA
66 TAATTTTACAAATCGA
** *
32356578 GGGTAAAAT-AGTAA-TTCTATAAATCGAGGGTAAAATGGTAATTCTATAAA-TCGAGGGTAAAA
1 GGGTAATTTCAGTAATTTC-A-AAATCGAGGGTAAAATAGTAATTCTATAAACT-GAGGGTAAAA
32356640 CAGTAATTTTACAAATCGA
63 CAGTAATTTTACAAATCGA
*
32356659 GGG-CATTTCAGTAATTT
1 GGGTAATTTCAGTAATTT
32356676 GGTAAACTAA
Statistics
Matches: 78, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
79 3 0.04
80 13 0.17
81 60 0.77
82 2 0.03
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.33
Consensus pattern (81 bp):
GGGTAATTTCAGTAATTTCAAAATCGAGGGTAAAATAGTAATTCTATAAACTGAGGGTAAAACAG
TAATTTTACAAATCGA
Found at i:32358455 original size:28 final size:28
Alignment explanation
Indices: 32358423--32358521 Score: 103
Period size: 29 Copynumber: 3.5 Consensus size: 28
32358413 TATCTGTATC
* *
32358423 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATT-ATA
*
32358451 TGG-CCATTAGGCCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACAT-TATA
*
32358479 TAGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACA-TTATA
**
32358508 TGGCCGGTTAGGCC
1 TGGCCCATTAGGCC
32358522 TAGTCAAATT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
27 10 0.17
28 14 0.24
29 34 0.58
30 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCACATTATA
Found at i:32358772 original size:16 final size:16
Alignment explanation
Indices: 32358751--32358790 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
32358741 CCAAACTTTT
32358751 AGCTTTTTGGCATTTC
1 AGCTTTTTGGCATTTC
*
32358767 AGCTTTTCGGCATTTC
1 AGCTTTTTGGCATTTC
*
32358783 GGCTTTTT
1 AGCTTTTT
32358791 CTAATAGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.10, C:0.20, G:0.20, T:0.50
Consensus pattern (16 bp):
AGCTTTTTGGCATTTC
Found at i:32363011 original size:45 final size:45
Alignment explanation
Indices: 32362947--32363036 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
32362937 CGAATTCATC
* *
32362947 ATCAAGACTGAAGATCTCCCTTCAAGTTCCTTGAGGAGTTTTGGG
1 ATCAAGACTAAAGATCTCCCTTCAAGTTCCTTCAGGAGTTTTGGG
32362992 ATCAAGACTAAAGATCTCCCTTCAAGTTCCTTCAGGAGTTTTGGG
1 ATCAAGACTAAAGATCTCCCTTCAAGTTCCTTCAGGAGTTTTGGG
32363037 TTTTCTTATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (45 bp):
ATCAAGACTAAAGATCTCCCTTCAAGTTCCTTCAGGAGTTTTGGG
Found at i:32363938 original size:27 final size:27
Alignment explanation
Indices: 32363900--32364084 Score: 151
Period size: 27 Copynumber: 6.9 Consensus size: 27
32363890 CATACGTCAC
* * *
32363900 ATAAGGGTAAAATAGTCATCTTACCAT
1 ATAAGGGCAAAACAGTCATTTTACCAT
* *
32363927 AAAAGGGCAAAACAGTAATTTTACC-T
1 ATAAGGGCAAAACAGTCATTTTACCAT
* * *
32363953 CACAAGGGAAAAACAGTCATTTTAGCC-C
1 -ATAAGGGCAAAACAGTCATTTTA-CCAT
* **
32363981 ATAAGGGCAAAATAGTCATTTTACCCC
1 ATAAGGGCAAAACAGTCATTTTACCAT
* * * **
32364008 ATAAGGGCAAAATAATCATTTCACCCC
1 ATAAGGGCAAAACAGTCATTTTACCAT
*
32364035 ATAAGGGCAAAACAGTCATTTTA-CGT
1 ATAAGGGCAAAACAGTCATTTTACCAT
* *
32364061 CATAAGGGTAAAACAATCATTTTA
1 -ATAAGGGCAAAACAGTCATTTTA
32364085 TTAATTTGGG
Statistics
Matches: 133, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.03
27 127 0.95
28 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (27 bp):
ATAAGGGCAAAACAGTCATTTTACCAT
Found at i:32363972 original size:54 final size:52
Alignment explanation
Indices: 32363899--32364082 Score: 183
Period size: 54 Copynumber: 3.4 Consensus size: 52
32363889 ACATACGTCA
* * *
32363899 CATAAGGGTAAAATAGTCATCTTACCATAAAAGGGCAAAACAGTAATTTTACCT
1 CATAAGGGTAAAACAATCAT-TTACCAT-AAAGGGCAAAACAGTCATTTTACCT
* * * * *
32363953 CACAAGGGAAAAACAGTCATTTTAGCCCAT-AAGGGCAAAATAGTCATTTTACCC
1 CATAAGGGTAAAACAATCA-TTTA--CCATAAAGGGCAAAACAGTCATTTTACCT
* * *
32364007 CATAAGGGCAAAATAATCATTTCACCCCAT-AAGGGCAAAACAGTCATTTTACGT
1 CATAAGGGTAAAACAATCATTT-A--CCATAAAGGGCAAAACAGTCATTTTACCT
32364061 CATAAGGGTAAAACAATCATTT
1 CATAAGGGTAAAACAATCATTT
32364083 TATTAATTTG
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
53 3 0.03
54 102 0.93
55 1 0.01
56 4 0.04
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (52 bp):
CATAAGGGTAAAACAATCATTTACCATAAAGGGCAAAACAGTCATTTTACCT
Found at i:32364065 original size:81 final size:81
Alignment explanation
Indices: 32363899--32364084 Score: 221
Period size: 81 Copynumber: 2.3 Consensus size: 81
32363889 ACATACGTCA
* * * * *
32363899 CATAAGGGTAAAATAGTCATCTTACCATAAAAGGGCAAAACAGTAATTTTACCTCACAAGGGAAA
1 CATAAGGGTAAAATAGTCATTTTACCACAAAAGGGCAAAACAATAATTTCACCCCACAAGGGAAA
32363964 AACAGTCATTTTAGCC
66 AACAGTCATTTTAGCC
* * * * * * *
32363980 CATAAGGGCAAAATAGTCATTTTACCCCATAAGGGCAAAATAATCATTTCACCCCATAAGGGCAA
1 CATAAGGGTAAAATAGTCATTTTACCACAAAAGGGCAAAACAATAATTTCACCCCACAAGGGAAA
*
32364045 AACAGTCATTTTA-CGT
66 AACAGTCATTTTAGC-C
* *
32364061 CATAAGGGTAAAACAATCATTTTA
1 CATAAGGGTAAAATAGTCATTTTA
32364085 TTAATTTGGG
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 87 0.99
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (81 bp):
CATAAGGGTAAAATAGTCATTTTACCACAAAAGGGCAAAACAATAATTTCACCCCACAAGGGAAA
AACAGTCATTTTAGCC
Found at i:32365538 original size:46 final size:46
Alignment explanation
Indices: 32365488--32365660 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
32365478 TGGTTGAGCA
*
32365488 TCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
32365534 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
32365579 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
32365627 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
32365661 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 59 0.56
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:32365644 original size:93 final size:93
Alignment explanation
Indices: 32365485--32365655 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
32365475 GGATGGTTGA
*
32365485 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
32365550 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
32365578 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
32365642 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
32365656 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:32373080 original size:46 final size:46
Alignment explanation
Indices: 32373028--32373200 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
32373018 TGGTTGAGCA
32373028 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
32373074 TTCGAACTCGTTGAGTTGAGCCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
**
32373119 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
32373167 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
32373201 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.58
47 27 0.26
48 3 0.03
50 3 0.03
51 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:32373184 original size:93 final size:93
Alignment explanation
Indices: 32373025--32373195 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
32373015 GGATGGTTGA
* **
32373025 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
32373090 TGAGCCCGAGTTCGTGAAATGTAACTAG
66 TGAGCCCGAGTTCGTGAAATGTAACTAG
* *
32373118 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
32373183 TGAGTCCGAGTTC
66 TGAGCCCGAGTTC
32373196 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGCCCGAGTTCGTGAAATGTAACTAG
Found at i:32376283 original size:27 final size:27
Alignment explanation
Indices: 32376147--32376284 Score: 152
Period size: 27 Copynumber: 5.1 Consensus size: 27
32376137 TGGATAAGTT
* * *
32376147 GTAGAATTACTGTAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
32376174 GTAGAATTACCGAAATACTCC-TATAGG
1 GTAGAATTACCGAAATAC-CCTTGTAGG
* * * *
32376201 ATAGAATTACCAAAATACCTTTGTAAG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
32376228 GTAGAAATATCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
32376255 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
32376282 GTA
1 GTA
32376285 AAAATACCAT
Statistics
Matches: 90, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
26 1 0.01
27 87 0.97
28 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:32376987 original size:27 final size:26
Alignment explanation
Indices: 32376943--32376994 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
32376933 CTCGCTGCAA
*
32376943 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
32376970 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
32376995 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:32383028 original size:27 final size:27
Alignment explanation
Indices: 32382900--32383045 Score: 168
Period size: 27 Copynumber: 5.4 Consensus size: 27
32382890 TGGATAAGTT
* * *
32382900 GTAGAATTACTGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
32382927 GTAGAATTACTGAAATACGCC-TATAGG
1 GTAGAATTACCGAAATAC-CCTTGTAGG
* *
32382954 ATAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
32382981 GTAGAAATATCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
32383008 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
32383035 GTAAAATTACC
1 GTAGAATTACC
32383046 ATTTTGCCCC
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
26 2 0.02
27 98 0.96
28 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:32383813 original size:27 final size:26
Alignment explanation
Indices: 32383761--32383819 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
32383751 CCACATATAT
*
32383761 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
32383787 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
32383814 ATATCT
1 ATATCT
32383820 AGTTTCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:32388006 original size:29 final size:30
Alignment explanation
Indices: 32387963--32388021 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
32387953 ATTTAATACG
*
32387963 AACTTTGGCAAAATTACA-TTTTTGCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
* *
32387992 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
32388022 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.41
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:32388762 original size:11 final size:11
Alignment explanation
Indices: 32388746--32388778 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
32388736 CATAAACATC
32388746 AAAATAATTAT
1 AAAATAATTAT
32388757 AAAATAATTAT
1 AAAATAATTAT
32388768 AAAATAATTAT
1 AAAATAATTAT
32388779 TTCTATCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATAATTAT
Found at i:32391092 original size:43 final size:42
Alignment explanation
Indices: 32391026--32391114 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 42
32391016 AGCTCGTACA
*
32391026 ATGCCAATGTCCCAGATGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGATGTGGTCTTACATGAAATCAAATA-CG
* * *
32391069 ATGCCACTGTCCTAGATAG-GGTCTTACATGAAATCATATACG
1 ATGCCAATGTCCCAGAT-GTGGTCTTACATGAAATCAAATACG
32391111 ATGC
1 ATGC
32391115 ATCCCAAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
42 6 0.15
43 34 0.83
44 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (42 bp):
ATGCCAATGTCCCAGATGTGGTCTTACATGAAATCAAATACG
Found at i:32401281 original size:15 final size:15
Alignment explanation
Indices: 32401261--32401290 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32401251 CAAACTCGAA
32401261 CATCCATAATTCCTT
1 CATCCATAATTCCTT
32401276 CATCCATAATTCCTT
1 CATCCATAATTCCTT
32401291 TATTCACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (15 bp):
CATCCATAATTCCTT
Found at i:32403198 original size:40 final size:40
Alignment explanation
Indices: 32403104--32403248 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
32403094 TACTCGAATG
* *
32403104 ATATCCGAGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
32403145 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
32403185 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
32403225 ATATCCAGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
32403249 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:32411244 original size:40 final size:40
Alignment explanation
Indices: 32411150--32411294 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
32411140 TACTCGAATG
*
32411150 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
32411191 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
32411231 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
32411271 ATATCCAGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
32411295 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:32413041 original size:42 final size:43
Alignment explanation
Indices: 32412942--32413091 Score: 146
Period size: 42 Copynumber: 3.5 Consensus size: 43
32412932 CAATACAAAC
* * * * *
32412942 GTCCTAGACGTGGTC-TACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCAAT
*
32412984 GTCCCAGACA-GGTCTTACACGAAATCATATA-CGATGCCAAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCAAT
* * * *
32413025 GTCTCAGACATGGTCTTACATGTAAATCACAA-ATTGATGCCAAC
1 GTCCCAGACATGGTCTTACACG-AAATCA-AATATCGATGCCAAT
* *
32413069 GTCCCAAACGTGGTCTTACACGA
1 GTCCCAGACATGGTCTTACACGA
32413092 TAACGCATAT
Statistics
Matches: 88, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
41 22 0.25
42 31 0.35
43 8 0.09
44 27 0.31
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCAAT
Found at i:32421200 original size:24 final size:24
Alignment explanation
Indices: 32421163--32421267 Score: 160
Period size: 23 Copynumber: 4.4 Consensus size: 24
32421153 CTGAAGGCCT
* *
32421163 AGCCTCTTTTAATAACTGGGGTAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
32421188 AGCCCTTTTAATAATTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
32421212 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
32421235 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
32421258 AGCCCTTTTA
1 AGCCCTTTTA
32421268 CACTTCCTCC
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 45 0.60
24 26 0.35
25 4 0.05
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:32421340 original size:20 final size:20
Alignment explanation
Indices: 32421315--32421381 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
32421305 TTATGATTAC
*
32421315 ATCATGTGCATAACATACAT
1 ATCATGTGCATATCATACAT
32421335 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
32421355 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
32421375 ACCATGT
1 ATCATGT
32421382 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:32421464 original size:25 final size:25
Alignment explanation
Indices: 32421418--32421465 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
32421408 ATACATAAAC
* * * *
32421418 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
32421443 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
32421466 CATGTTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:32423593 original size:25 final size:25
Alignment explanation
Indices: 32423501--32423594 Score: 102
Period size: 25 Copynumber: 3.8 Consensus size: 25
32423491 TCTTGTACAT
* *
32423501 GTATGCTCATACGAGCTATGAA-TCG
1 GTATGCTCACACGAGCTGT-AAGTCG
*
32423526 GTATGCTCACTCGAGCTG-AAGATCG
1 GTATGCTCACACGAGCTGTAAG-TCG
** *
32423551 GTATGCTTTCACGAGCTGTAAGTCA
1 GTATGCTCACACGAGCTGTAAGTCG
32423576 GTATGCTCACACGAGCTGT
1 GTATGCTCACACGAGCTGT
32423595 GGGTCAGAAC
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
23 2 0.04
25 52 0.91
26 3 0.05
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAGTCG
Found at i:32425053 original size:13 final size:13
Alignment explanation
Indices: 32425035--32425059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32425025 AAGCTGACTT
32425035 TAACTTATTTAAC
1 TAACTTATTTAAC
32425048 TAACTTATTTAA
1 TAACTTATTTAA
32425060 TTTATTCCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
TAACTTATTTAAC
Found at i:32425053 original size:19 final size:19
Alignment explanation
Indices: 32425015--32425053 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32425005 TAAAACAAAA
*
32425015 TTAATTATTTAAGCTGACT
1 TTAATTATTTAAGCTAACT
32425034 TTAACTTATTTAA-CTAACT
1 TTAA-TTATTTAAGCTAACT
32425053 T
1 T
32425054 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.33, C:0.13, G:0.05, T:0.49
Consensus pattern (19 bp):
TTAATTATTTAAGCTAACT
Found at i:32439331 original size:28 final size:28
Alignment explanation
Indices: 32439299--32439378 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 28
32439289 CATACATGCT
*
32439299 TATGGCCCACTAGGCCCAATCTCAT-TCA
1 TATGGCCCACTAGGCCCAATCACATCT-A
*
32439327 TATGGCCCATTAGGCCCAAATCACATCTA
1 TATGGCCCACTAGGCCC-AATCACATCTA
*
32439356 TATGGCCTACTAGGCCCAATCAC
1 TATGGCCCACTAGGCCCAATCAC
32439379 TTTTACAGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.48
29 23 0.50
30 1 0.02
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.24
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATCTA
Found at i:32439359 original size:29 final size:28
Alignment explanation
Indices: 32439299--32439378 Score: 108
Period size: 28 Copynumber: 2.8 Consensus size: 28
32439289 CATACATGCT
*
32439299 TATGGCCCACTAGGCCCAATCTCATTCA
1 TATGGCCCACTAGGCCCAATCACATTCA
*
32439327 TATGGCCCATTAGGCCCAAATCACA-TCTA
1 TATGGCCCACTAGGCCC-AATCACATTC-A
*
32439356 TATGGCCTACTAGGCCCAATCAC
1 TATGGCCCACTAGGCCCAATCAC
32439379 TTTTACAGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 24 0.52
29 22 0.48
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.24
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATTCA
Found at i:32439622 original size:16 final size:16
Alignment explanation
Indices: 32439598--32439640 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
32439588 GTAGCCAAAC
* *
32439598 TTTTGGCTTTTCGGTA
1 TTTTAGCTTTTCGATA
32439614 TTTTAGCTTTTCGATA
1 TTTTAGCTTTTCGATA
*
32439630 TTTCAGCTTTT
1 TTTTAGCTTTT
32439641 TAGGATTTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.58
Consensus pattern (16 bp):
TTTTAGCTTTTCGATA
Found at i:32449325 original size:29 final size:28
Alignment explanation
Indices: 32449265--32449344 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 28
32449255 CATACATGCT
*
32449265 TATGGCCCACTAGGCCCAATCTCATTCA
1 TATGGCCCACTAGGCCCAATCACATTCA
*
32449293 TATGGCCCATTAGGCCCAAATCACA-TCTA
1 TATGGCCCACTAGGCCC-AATCACATTC-A
** *
32449322 TATGGCTTACTAGGCACAATCAC
1 TATGGCCCACTAGGCCCAATCAC
32449345 TTTTACAGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
28 24 0.55
29 20 0.45
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATTCA
Found at i:32468890 original size:27 final size:28
Alignment explanation
Indices: 32468806--32468903 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
32468796 CATGAGATTG
* * * *
32468806 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
32468835 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
32468863 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
32468890 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
32468904 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:32468914 original size:27 final size:27
Alignment explanation
Indices: 32468834--32468916 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
32468824 TAAATTGTAC
* *
32468834 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
32468862 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
32468889 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
32468916 A
1 A
32468917 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:32468917 original size:29 final size:27
Alignment explanation
Indices: 32468806--32468917 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
32468796 CATGAGATTG
** * *
32468806 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
32468835 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
32468863 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
32468890 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
32468918 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:32477253 original size:112 final size:112
Alignment explanation
Indices: 32477051--32477274 Score: 403
Period size: 112 Copynumber: 2.0 Consensus size: 112
32477041 CCGTGGACCA
* *
32477051 TTTTGGTATAATGGCTTGTCTATTTTGAGTATGACATGTATAGCATTATAATCATTTTTTGTATA
1 TTTTGGTATAATGGCTTGTATATTTTGAGTATGACATGTATAGCATTATAATCATTTTGTGTATA
32477116 TGATCTTATGATATGGCTATTGGGTGGTAAAGAAATGTTTGGTAATG
66 TGATCTTATGATATGGCTATTGGGTGGTAAAGAAATGTTTGGTAATG
* *
32477163 TTTTTGTATAGTGGCTTGTATATTTTGAGTATGACATGTATAGCATTATAATCATTTTGTGTATA
1 TTTTGGTATAATGGCTTGTATATTTTGAGTATGACATGTATAGCATTATAATCATTTTGTGTATA
*
32477228 TGATCTTATGATATGGCTATTGGGTGGTAAGGAAATGTTTGGTAATG
66 TGATCTTATGATATGGCTATTGGGTGGTAAAGAAATGTTTGGTAATG
32477275 ATTAGCCATT
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 107 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.45
Consensus pattern (112 bp):
TTTTGGTATAATGGCTTGTATATTTTGAGTATGACATGTATAGCATTATAATCATTTTGTGTATA
TGATCTTATGATATGGCTATTGGGTGGTAAAGAAATGTTTGGTAATG
Found at i:32484496 original size:33 final size:34
Alignment explanation
Indices: 32484450--32484519 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
32484440 AGGCCCACAT
* * *
32484450 TGTTACTGCATAGGGCTTAGGCCCAGACTG-TAC
1 TGTTACTGAATAGGGCTCAGGCCCAGACCGTTAC
*
32484483 TGTTATTGAATAGGGCTCAGGCCCAGACCGTTAC
1 TGTTACTGAATAGGGCTCAGGCCCAGACCGTTAC
32484517 TGT
1 TGT
32484520 ATGCACTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 26 0.81
34 6 0.19
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (34 bp):
TGTTACTGAATAGGGCTCAGGCCCAGACCGTTAC
Found at i:32487693 original size:48 final size:47
Alignment explanation
Indices: 32487593--32487724 Score: 133
Period size: 48 Copynumber: 2.8 Consensus size: 47
32487583 AAATATATTG
* * *
32487593 ATTTGGCTTTGGGCCATGAAATCGGCACTTTGGGTGTGAGTTACTTTG
1 ATTTGGCTTCGGGCCATGATATCGGCACTTTGGGTGTGAGTTAC-TTA
* *
32487641 ATTTGGCTTCGAGCCATGATA-CGGGCATTTTGGGTGTGAGCTTCAC-TA
1 ATTTGGCTTCGGGCCATGATATC-GGCACTTTGGGTGTGAG-TT-ACTTA
* ** *
32487689 ATTTGGCTACGGGCCATGATATTAGCACTTCGGGTG
1 ATTTGGCTTCGGGCCATGATATCGGCACTTTGGGTG
32487725 CAAAATATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
47 1 0.01
48 64 0.93
49 2 0.03
50 2 0.03
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.34
Consensus pattern (47 bp):
ATTTGGCTTCGGGCCATGATATCGGCACTTTGGGTGTGAGTTACTTA
Found at i:32489292 original size:25 final size:24
Alignment explanation
Indices: 32489245--32489413 Score: 202
Period size: 25 Copynumber: 7.0 Consensus size: 24
32489235 GCTTTATCAT
32489245 ATAACTGGAGGC-T-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTC
* *
32489268 AGTAACTGGGGCAAAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTC
32489293 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
* *
32489318 ATAATTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
32489343 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
* *
32489368 ATAACTGGGGCATAAGCTC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
32489391 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
32489414 GCACTTCCTC
Statistics
Matches: 128, Mismatches: 10, Indels: 15
0.84 0.07 0.10
Matches are distributed among these distances:
23 23 0.18
24 37 0.29
25 68 0.53
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTC
Found at i:32489485 original size:9 final size:9
Alignment explanation
Indices: 32489471--32489527 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
32489461 ATCTCATGTG
32489471 CATATCATA
1 CATATCATA
*
32489480 CATATCATGTG
1 CATATCA--TA
32489491 CATATCATA
1 CATATCATA
* *
32489500 CATGTCATGTG
1 CATATCA--TA
32489511 CATATCATA
1 CATATCATA
32489520 CATATCAT
1 CATATCAT
32489528 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:32489487 original size:20 final size:20
Alignment explanation
Indices: 32489459--32489529 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
32489449 GCATTTATGA
*
32489459 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
32489479 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
32489499 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
32489519 ACATATCATGT
1 ACATATCATGT
32489530 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:32489494 original size:11 final size:11
Alignment explanation
Indices: 32489464--32489518 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
32489454 TATGAACATC
32489464 TCATGTGCATA
1 TCATGTGCATA
*
32489475 TCA--TACATA
1 TCATGTGCATA
32489484 TCATGTGCATA
1 TCATGTGCATA
* *
32489495 TCA--TACATG
1 TCATGTGCATA
32489504 TCATGTGCATA
1 TCATGTGCATA
32489515 TCAT
1 TCAT
32489519 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:32489594 original size:25 final size:25
Alignment explanation
Indices: 32489566--32489613 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
32489556 ATATATAAAC
* *
32489566 CCTAGGGGTATAACGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
*
32489591 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
32489614 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:32490967 original size:56 final size:54
Alignment explanation
Indices: 32490898--32491021 Score: 133
Period size: 56 Copynumber: 2.3 Consensus size: 54
32490888 ACAAACCAAG
* *
32490898 GGTATTTCAGTAATGTTGT-AAGCCAATGGTATTTTTATAATTTTTAGAAAGTCAAA
1 GGTATTTCAGTAATGTTGTCAA-CCAAGGGTATTTTCATAA-TTTTAGAAA-TCAAA
* * * * * *
32490954 GGTATTTCTGTAATTTTGTCAATCAAGGGTATTTTCGTAATTTTATAAATTAAA
1 GGTATTTCAGTAATGTTGTCAACCAAGGGTATTTTCATAATTTTAGAAATCAAA
*
32491008 GGTATTTCGGTAAT
1 GGTATTTCAGTAAT
32491022 TTCACAAAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
54 17 0.29
55 8 0.14
56 31 0.53
57 2 0.03
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (54 bp):
GGTATTTCAGTAATGTTGTCAACCAAGGGTATTTTCATAATTTTAGAAATCAAA
Found at i:32491023 original size:54 final size:54
Alignment explanation
Indices: 32490898--32491166 Score: 190
Period size: 55 Copynumber: 4.9 Consensus size: 54
32490888 ACAAACCAAG
* * * *
32490898 GGTATTTCAGTAATGTTGT-AAGCCAATGGTATTTTTA-TAATTTTTAGAAAGTCAAA
1 GGTATTTCGGTAATTTTGTCAA-CCAAGGGTA-TTTTAGTAA-TTTTATAAA-TCAAA
* * * *
32490954 GGTATTTCTGTAATTTTGTCAATCAAGGGTATTTTCGTAATTTTATAAATTAAA
1 GGTATTTCGGTAATTTTGTCAACCAAGGGTATTTTAGTAATTTTATAAATCAAA
** * * * * **
32491008 GGTATTTCGGTAA-TTTCACAAAACTAGTGGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTCGGTAATTTTGTC-AACCAAG-GGTATTTTAGTAATTTTATAAATC-AAA
* * * * * * *
32491063 GGTATTTTGGTAATTTT-ACAAACCAGGGGTATTTTAGCAATTTTATAGA-CCAG
1 GGTATTTCGGTAATTTTGTC-AACCAAGGGTATTTTAGTAATTTTATAAATCAAA
* * *
32491116 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATC
1 GGTATTTCGGTAATTTTGTCAACCAAGGGTATTTTAGTAATTTTATAAATC
32491167 GAGGGTAAAA
Statistics
Matches: 172, Mismatches: 33, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
53 47 0.27
54 41 0.24
55 52 0.30
56 30 0.17
57 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (54 bp):
GGTATTTCGGTAATTTTGTCAACCAAGGGTATTTTAGTAATTTTATAAATCAAA
Found at i:32491129 original size:53 final size:54
Alignment explanation
Indices: 32490980--32491159 Score: 182
Period size: 53 Copynumber: 3.3 Consensus size: 54
32490970 TGTCAATCAA
* * ** ** * * *
32490980 GGGTATTTTCGTAATTTTATAAATTAAAGGTATTTCGGTAATTTCACAAAACTAG
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAC-AAACCAG
* * *
32491035 TGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAG
* * * ** *
32491089 GGGTATTTTAGCAATTTTATAGACCA-GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAG
32491142 GGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
32491160 GTAAATCGAG
Statistics
Matches: 106, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 41 0.39
54 26 0.25
55 39 0.37
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAG
Found at i:32491160 original size:27 final size:27
Alignment explanation
Indices: 32490890--32491173 Score: 187
Period size: 27 Copynumber: 10.4 Consensus size: 27
32490880 GTAAATCTAC
* * *
32490890 AAACCAAGGGTATTTCAGTAATGTTGT
1 AAACCAAGGGTATTTTAGTAATTTTAT
* * *
32490917 AAGCCAATGGTATTTTTA-TAATTTTTAG
1 AAACCAAGGGTA-TTTTAGTAA-TTTTAT
* * *
32490945 AAAGTCAAAGGTATTTCT-GTAATTTTGT
1 AAA-CCAAGGGTATTT-TAGTAATTTTAT
* * *
32490973 CAATCAAGGGTATTTTCGTAATTTTAT
1 AAACCAAGGGTATTTTAGTAATTTTAT
** * ** * *
32491000 AAATTAAAGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTTAGTAATTTTAT
* * * *
32491027 AAAACTAGTGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTTAGTAATTTTAT
* * * *
32491055 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTAT
* *
32491082 AAACCAGGGGTATTTTAGCAATTTTAT
1 AAACCAAGGGTATTTTAGTAATTTTAT
* * *
32491109 AGACC-AGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTAT
*
32491135 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTAT
* *
32491162 AAATCGAGGGTA
1 AAACCAAGGGTA
32491174 AAACTGTAAT
Statistics
Matches: 205, Mismatches: 44, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
26 22 0.11
27 133 0.65
28 39 0.19
29 11 0.05
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTAT
Done.