Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 286 of 322
Found at i:95035302 original size:30 final size:30
Alignment explanation
Indices: 95035268--95035327 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
95035258 ATTTAATACG
95035268 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
95035298 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
95035328 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:95042374 original size:93 final size:93
Alignment explanation
Indices: 95042259--95042429 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
95042249 GCCCCTAAGT
*
95042259 GAACTCGGAATCAACTCAACGAGCTCTGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGAATCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
95042323 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
* * *
95042352 GAACTCGGATTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGATCTCGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
95042417 CGAGTTCGGATGC
66 CGAGTTCGGATGC
95042430 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:95042424 original size:46 final size:46
Alignment explanation
Indices: 95042254--95042426 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
95042244 AACCCGCCCC
* * *
95042254 TAAGTGAACTCGGAATCAACTCAACGAGCTCTGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
* *
95042300 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
95042348 TCA-CGAACTCGGATTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
95042393 TAAGTGATCTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
95042427 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 56 0.54
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:95042883 original size:30 final size:30
Alignment explanation
Indices: 95042849--95042908 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
95042839 ATTTAATACG
95042849 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
95042879 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
95042909 GGCTCGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:95045882 original size:40 final size:40
Alignment explanation
Indices: 95045834--95046021 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
95045824 GCAAACACCT
* * *
95045834 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
95045874 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
95045914 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
95045954 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
95045994 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
95046022 TTCAAATGCT
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:95052181 original size:6 final size:6
Alignment explanation
Indices: 95052149--95052180 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
95052139 GTTACATTAG
95052149 TTTTCT TTTTCT TTTTC- TTTTCT TTTT-T TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
95052181 TGCAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTCT
Found at i:95052181 original size:17 final size:17
Alignment explanation
Indices: 95052149--95052180 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
95052139 GTTACATTAG
95052149 TTTTCTTTTTCTTTTTC
1 TTTTCTTTTTCTTTTTC
95052166 TTTTCTTTTT-TTTTT
1 TTTTCTTTTTCTTTTT
95052181 TGCAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTCTTTTTCTTTTTC
Found at i:95052845 original size:24 final size:24
Alignment explanation
Indices: 95052818--95052863 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
95052808 CATTAGTGAG
*
95052818 TTGCTAACTAGACTCTTTCTTACA
1 TTGCTAACTAAACTCTTTCTTACA
95052842 TTGCTAACTAAACTCTTTCTTA
1 TTGCTAACTAAACTCTTTCTTA
95052864 TAGGTTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (24 bp):
TTGCTAACTAAACTCTTTCTTACA
Found at i:95059187 original size:18 final size:18
Alignment explanation
Indices: 95059158--95059195 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
95059148 TCTTCTTCTT
*
95059158 ATTTCCCTTTTTCTTTTA
1 ATTTCCCTTTTTATTTTA
*
95059176 ATTTCCTTTTTTATTTTA
1 ATTTCCCTTTTTATTTTA
95059194 AT
1 AT
95059196 ATTTGAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTCCCTTTTTATTTTA
Found at i:95063938 original size:23 final size:23
Alignment explanation
Indices: 95063879--95063944 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
95063869 TCTTTTATTT
95063879 ATATTATAATAAT-ATTT-AATAA
1 ATATTA-AATAATAATTTAAATAA
* *
95063901 A-A-T-ACTAATATTTTAAATAA
1 ATATTAAATAATAATTTAAATAA
*
95063921 ATATTAAATAATAATTTAATTAA
1 ATATTAAATAATAATTTAAATAA
95063944 A
1 A
95063945 ATATGATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
18 5 0.15
19 3 0.09
20 7 0.21
21 2 0.06
22 2 0.06
23 15 0.44
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATATTAAATAATAATTTAAATAA
Found at i:95066607 original size:27 final size:27
Alignment explanation
Indices: 95066577--95066754 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
95066567 ATATTGAGTC
* *
95066577 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
95066604 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
95066631 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
95066659 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
95066686 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
95066713 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
95066740 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
95066755 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:95070345 original size:25 final size:25
Alignment explanation
Indices: 95070317--95070374 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
95070307 TTCATCTTGT
*
95070317 ATGAGCTTCTCATTATTCAGCTCAC
1 ATGAGCTTCCCATTATTCAGCTCAC
* * *
95070342 ATGAACTTCCCGTTATTCAGCTCAG
1 ATGAGCTTCCCATTATTCAGCTCAC
*
95070367 AAGAGCTT
1 ATGAGCTT
95070375 ACTGTTCACA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCATTATTCAGCTCAC
Found at i:95083369 original size:27 final size:27
Alignment explanation
Indices: 95083338--95083515 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
95083328 ATATTGAGCC
* *
95083338 CGCACACTCAGTGCTATGTAATCAACT
1 CGCACACTTAGTGCTACGTAATCAACT
* *
95083365 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACGTAATCAACT
* *
95083392 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACGTAATC-AACT
** * * **
95083420 CGCACACTTAGTGCCGCATGATCATTT
1 CGCACACTTAGTGCTACGTAATCAACT
* * **
95083447 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CGTAATCAACT
* * * *
95083474 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACGTAATCAACT
95083501 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
95083516 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACGTAATCAACT
Found at i:95083477 original size:82 final size:81
Alignment explanation
Indices: 95083364--95083514 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
95083354 TGTAATCAAC
* *
95083364 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
95083429 AGTGCCGCATGATCATT
65 AGTGCCGCATGATCATT
* **
95083446 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
95083510 AGTGC
65 AGTGC
95083515 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 46 0.73
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGATCATT
Found at i:95092333 original size:325 final size:325
Alignment explanation
Indices: 95091743--95092391 Score: 1208
Period size: 325 Copynumber: 2.0 Consensus size: 325
95091733 AAGGCATTAT
*
95091743 CATTTTATTTCTACATTACACATTTAATTCACGGTCATGACCACCTCGATTGGTCATAAACCATG
1 CATTTTATTTCTACATTACACATTTAATTCACGGTCATGACCACCTCGATTGGTCATAAAACATG
* *
95091808 CATTCAACACACATGACATATTACCACCCATGCATGGCAAACAGAGATATTCACATCACAATTAT
66 CATTCAACACACATGACATATTACCAACCATGCATGGCAAACAGACATATTCACATCACAATTAT
*
95091873 TAGACACAACATGAATAGTTAGATTTATAAGTCGTAATCAATAGCTCAATATAGGCCAAAACATT
131 TAGACACAACATGAATAGTTAGATTTATAAGTCGTAATAAATAGCTCAATATAGGCCAAAACATT
*
95091938 TGGCCAAATCATAATAACACATGTCATAGAACTAGGTCTCTATACATGCCAGTCACTTGATATTT
196 TGGCCAAATCATAATAACACATGTCATAGAACTAGGTCTCTATACATGCCAATCACTTGATATTT
* ** * *
95092003 CTAACTTATGTATAAATACTCCAAAGGTATTGGCTTGATAGTGTGATGTTTCCTCTGACGATCTG
261 CTAACTTATATATAAATACTCCAAAGGTATTGGCTTGATAGAATGATGTTGCCTCTGAAGATCTG
95092068 CATTTTATTTCTACATTACACATTTAATTCACGGTCATGACCACCTCGATTGGTCATAAAACATG
1 CATTTTATTTCTACATTACACATTTAATTCACGGTCATGACCACCTCGATTGGTCATAAAACATG
95092133 CATTCAACACACATGACATATTACCAACCATGCATGGCAAACAGACATATTCACATCACAATTAT
66 CATTCAACACACATGACATATTACCAACCATGCATGGCAAACAGACATATTCACATCACAATTAT
95092198 TAGACACAACATGAATAGTTAGATTTATAAGTCGTAATAAATAGCTCAATATAGGCCAAAACATT
131 TAGACACAACATGAATAGTTAGATTTATAAGTCGTAATAAATAGCTCAATATAGGCCAAAACATT
95092263 TGGCCAAATCATAATAACACATGTCATAGAACTAGGTCTCTATACATGCCAATCACTTGATATTT
196 TGGCCAAATCATAATAACACATGTCATAGAACTAGGTCTCTATACATGCCAATCACTTGATATTT
95092328 CTAACTTATATATAAATACTCCAAAGGTATTGGCTTGATAGAATGATGTTGCCTCTGAAGATCT
261 CTAACTTATATATAAATACTCCAAAGGTATTGGCTTGATAGAATGATGTTGCCTCTGAAGATCT
95092392 CCAACCCTGA
Statistics
Matches: 314, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
325 314 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (325 bp):
CATTTTATTTCTACATTACACATTTAATTCACGGTCATGACCACCTCGATTGGTCATAAAACATG
CATTCAACACACATGACATATTACCAACCATGCATGGCAAACAGACATATTCACATCACAATTAT
TAGACACAACATGAATAGTTAGATTTATAAGTCGTAATAAATAGCTCAATATAGGCCAAAACATT
TGGCCAAATCATAATAACACATGTCATAGAACTAGGTCTCTATACATGCCAATCACTTGATATTT
CTAACTTATATATAAATACTCCAAAGGTATTGGCTTGATAGAATGATGTTGCCTCTGAAGATCTG
Found at i:95096083 original size:16 final size:17
Alignment explanation
Indices: 95096054--95096086 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
95096044 ATCACAATAA
*
95096054 AATAAAGTTCTAATATT
1 AATAAACTTCTAATATT
95096071 AATAAACTT-TAATATT
1 AATAAACTTCTAATATT
95096087 TTGATATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (17 bp):
AATAAACTTCTAATATT
Found at i:95097982 original size:17 final size:17
Alignment explanation
Indices: 95097960--95097997 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
95097950 TAAGTTGTCT
95097960 TTCTCACAATATAAACG
1 TTCTCACAATATAAACG
95097977 TTCTCACAATATAAACG
1 TTCTCACAATATAAACG
95097994 TTCT
1 TTCT
95097998 TGTTATCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (17 bp):
TTCTCACAATATAAACG
Found at i:95110124 original size:14 final size:15
Alignment explanation
Indices: 95110090--95110128 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
95110080 ATACATTTTA
*
95110090 TTTATTTTTATGTTG
1 TTTATTTATATGTTG
*
95110105 TATATTTATA-GTTG
1 TTTATTTATATGTTG
95110119 TTTATTTATA
1 TTTATTTATA
95110129 CAATATGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (15 bp):
TTTATTTATATGTTG
Found at i:95112145 original size:3 final size:3
Alignment explanation
Indices: 95112137--95112196 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
95112127 TTCGGGAACA
* *
95112137 AAG AAG AAG AAG AAA AAG AGAG AAG AAG GA- AAG AAG -AG AAG AAG
1 AAG AAG AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG
*
95112181 AAG AAAG AAA AAG AAG
1 AAG -AAG AAG AAG AAG
95112197 GAGAGGAGGA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 3 0.06
3 38 0.81
4 6 0.13
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:95112162 original size:16 final size:16
Alignment explanation
Indices: 95112136--95112186 Score: 68
Period size: 18 Copynumber: 3.1 Consensus size: 16
95112126 TTTCGGGAAC
95112136 AAAGA-AGAAGAAGAA
1 AAAGAGAGAAGAAGAA
95112151 AAAGAGAGAAGAAGGAA
1 AAAGAGAGAAGAA-GAA
95112168 AGAAGAGAAGAAGAAGAA
1 A-AAGAG-AGAAGAAGAA
95112186 A
1 A
95112187 GAAAAAGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.16
16 7 0.22
17 4 0.12
18 9 0.28
19 7 0.22
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
AAAGAGAGAAGAAGAA
Found at i:95112194 original size:16 final size:17
Alignment explanation
Indices: 95112140--95112196 Score: 73
Period size: 16 Copynumber: 3.4 Consensus size: 17
95112130 GGGAACAAAG
95112140 AAGAAGAAGAAA-AAGA
1 AAGAAGAAGAAAGAAGA
*
95112156 GAGAAGAAGGAAAGAAGA
1 AAGAAGAA-GAAAGAAGA
95112174 GAAGAAGAAGAAAGAA-A
1 -AAGAAGAAGAAAGAAGA
95112191 AAGAAG
1 AAGAAG
95112197 GAGAGGAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
16 13 0.36
17 5 0.14
18 11 0.31
19 7 0.19
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAAAGAAGA
Found at i:95112837 original size:12 final size:13
Alignment explanation
Indices: 95112820--95112855 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
95112810 TTTTTTTGCT
95112820 AAAATAATATAA-
1 AAAATAATATAAG
*
95112832 AAAATAAAATAAG
1 AAAATAATATAAG
95112845 AAAATAATATA
1 AAAATAATATA
95112856 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAATAATATAAG
Found at i:95113201 original size:443 final size:443
Alignment explanation
Indices: 95112535--95113600 Score: 1333
Period size: 443 Copynumber: 2.4 Consensus size: 443
95112525 TTTTATGCTA
* * *
95112535 AAATAAAATACCAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAAAAAGTGC-A
* **
95112600 AAACCAGGGTTATTTATTAAAAAAATATAAAAAAACAC-T--TAAATAATACATTTGAAACATTA
65 AAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACTAAATAATACATTTGAAACATT-
* * *
95112662 TGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAA
129 TTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATAC----
* **
95112727 ATAAAAAAATTACGAAGAAAGTATCAAAATCAGGGTTATTTAGTAAATTAATATAAAGAAACACT
190 --AAAAAAATTACGAAGAAAGTATCAAAATCAAGGTTATTTAGTAAAAAAATATAAA-AAACACT
* ** *** *
95112792 TAAGTAATACATTTG-AATTTTTTTTGCTAAAATAATATAAA-AAAT-AA-AATAAGAAAATAAT
252 TAAATAATACATTTGAAACATTACGTACTAAAATAATATAAAGAAATAAATAATAAGAAAATAAT
* * * *
95112853 ATATTTTAAAAAATAATATAC-TAATAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTG
317 ATATTTTAAAAAATAAGATACATAAAAAAATACGAAAAAAGTGCCAAAATCAGGGTTATTTATT-
* *
95112917 AAA-AATAT-AAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATGAAG
381 AAACAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAG
*
95112978 AAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAGAAAGTGTCA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAAAAAGTG-CA
*
95113043 AAATCAGGGTTATTTATTAAATTAGTATAAAAAAACACTTACATAATATACCTAATACATTTGAA
65 AAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAC-T-A-A-A--TAATACATTTGAA
*
95113108 ACAATTTTTGCTCAAATAATATAAAAAAATAAAATACGAAAATAATATATTTT-AAAAATAATAT
124 AC-ATTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATAT
* * * *
95113172 AC-AAAAAA-TACGAATAAAGT-GCTAAAATCAAGGTTATTTATTAAAAAAATATAAAAAATACT
188 ACAAAAAAATTACGAAGAAAGTATC-AAAATCAAGGTTATTTAGTAAAAAAATATAAAAAACACT
*
95113234 TAAATAATACATTTGAAACATTACGTACTAAAATAATATAAAGAAATAAAATAATAAGAAAGTAA
252 TAAATAATACATTTGAAACATTACGTACTAAAATAATATAAAGAAAT-AAATAATAAGAAAATAA
*
95113299 TATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAAAAAGTGCCAAAATCAGTGTTATT
316 TATATTTTAAAAAATAAGATAC----ATAAAAAAATACGAAAAAAGTGCCAAAATCAGGGTTATT
*
95113364 TATTAAACTAATATAAAAAAACACTTACATAATACATTTGAAACATTATGTACTAAAATAATATA
377 TATTAAAC-AATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATA
95113429 AAG
441 AAG
* *
95113432 AAATAAAATAATATGAAAGTAATATATTTTAAAAAATAAGATACGAAAATAAAAAAAATACGAAA
1 AAAT--AA-AATACGAAAATAATATATTTTAAAAAATAAGATACG------AAAAAAATACGAAA
*
95113497 AAAGTGCCAAAATCAGTGTTATTTATTAAATTAATAT-AAAAAACACTTAC---ATAATACATTT
57 AAAGTG-CAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACTAAATAATACATTT
*
95113558 GAAACATTTTTGCTAAAATAATAT-AAAAAATAATATACGAAAA
121 GAAACATTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAA
95113601 CATTTTACTT
Statistics
Matches: 547, Mismatches: 42, Indels: 60
0.84 0.06 0.09
Matches are distributed among these distances:
442 21 0.04
443 153 0.28
444 12 0.02
446 2 0.00
447 34 0.06
448 1 0.00
449 1 0.00
450 1 0.00
451 34 0.06
452 114 0.21
453 23 0.04
454 54 0.10
455 1 0.00
456 2 0.00
457 34 0.06
462 13 0.02
463 47 0.09
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (443 bp):
AAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAAAAAGTGCAA
AATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACTAAATAATACATTTGAAACATTTT
TGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACAAAAAA
ATTACGAAGAAAGTATCAAAATCAAGGTTATTTAGTAAAAAAATATAAAAAACACTTAAATAATA
CATTTGAAACATTACGTACTAAAATAATATAAAGAAATAAATAATAAGAAAATAATATATTTTAA
AAAATAAGATACATAAAAAAATACGAAAAAAGTGCCAAAATCAGGGTTATTTATTAAACAATATA
AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAG
Found at i:95113426 original size:155 final size:149
Alignment explanation
Indices: 95112535--95113600 Score: 1251
Period size: 155 Copynumber: 7.1 Consensus size: 149
95112525 TTTTATGCTA
*
95112535 AAAT-AAAATACCAAAATAATATATTTTAAAAAATAATATACG-AAAAAAATACGAATAAAGTGC
1 AAATAAAAATACGAAAATAATATATTTTAAAAAATAATATACGTAAAAAAATACGAATAAAGTGC
* * **
95112598 TAAAACCAGGGTTATTTATTAAAAAAATATAAAAAAACACTTAAATAATACATTTGAAACATTAT
66 CAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAATAATACATTTGAAACATTAT
95112663 GTACTAAAATAATATAAAG
131 GTACTAAAATAATATAAAG
*
95112682 AAAT-AAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAATTACGAAGAA
1 AAATAAAAATACGAAAATAATATATTTTAAAAAATAATATACG----TAAAAAAA-TACGAATAA
** * * * *
95112746 AGTATCAAAATCAGGGTTATTTAGTAAATTAATATAAAGAAACACTTAAGTAATACATTTG-AAT
61 AGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAATAATACATTTGAAAC
* * * *
95112810 TTTTTTTGCTAAAATAATATAAA-
126 ATTATGTACTAAAATAATATAAAG
* *
95112833 AAAT-AAAATAAGAAAATAATATATTTTAAAAAATAATATAC-TAATAAAATACGAATAAAGTGC
1 AAATAAAAATACGAAAATAATATATTTTAAAAAATAATATACGTAAAAAAATACGAATAAAGTGC
* *
95112896 TAAAATCAGGGTTATTTATTGAAA--AATAT-AAAAAATACTTAAATAATACATTTGAAACATTA
66 CAAAATCAGGGTTATTTATT-AAATTAATATAAAAAAACACTTAAATAATACATTTGAAACATTA
*
95112958 TGTACTAAAATAATATGAAG
130 TGTACTAAAATAATATAAAG
* * *
95112978 AAAT-AAAATACGAAAATAATATATTTTAAAAAATAAGATACG-AAAAAAATACGAAGAAAGTGT
1 AAATAAAAATACGAAAATAATATATTTTAAAAAATAATATACGTAAAAAAATACGAATAAAGTGC
*
95113041 CAAAATCAGGGTTATTTATTAAATTAGTATAAAAAAACACTTACATAATATACCTAATACATTTG
66 CAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACAC-T---T-A-A-A--TAATACATTTG
* * * *
95113106 AAACAATT-TTTGCTCAAATAATATAAAA
122 AAAC-ATTATGTACTAAAATAATATAAAG
95113134 AAAT-AAAATACGAAAATAATATATTTT-AAAAATAATATAC---AAAAAATACGAATAAAGTGC
1 AAATAAAAATACGAAAATAATATATTTTAAAAAATAATATACGTAAAAAAATACGAATAAAGTGC
* * ** * *
95113194 TAAAATCAAGGTTATTTATTAAAAAAATAT-AAAAAATACTTAAATAATACATTTGAAACATTAC
66 CAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAATAATACATTTGAAACATTAT
95113258 GTACTAAAATAATATAAAG
131 GTACTAAAATAATATAAAG
* * * *
95113277 AAATAAAATAATAAGAAAGTAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAAA
1 AAAT-AAA-AATACGAAAATAATATATTTTAAAAAATAATATACG----TAAAAAAATACGAATA
* * *
95113342 AAGTGCCAAAATCAGTGTTATTTATTAAACTAATATAAAAAAACACTTACATAATACATTTGAAA
60 AAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAATAATACATTTGAAA
95113407 CATTATGTACTAAAATAATATAAAG
125 CATTATGTACTAAAATAATATAAAG
* * * *
95113432 AAATAAAATAATATGAAAGTAATATATTTTAAAAAATAAGATACGAAAATAAAAAAAATACGAAA
1 AAAT-AAA-AATACGAAAATAATATATTTTAAAAAATAATATACG----T-AAAAAAATACGAAT
* *
95113497 AAAGTGCCAAAATCAGTGTTATTTATTAAATTAATAT-AAAAAACACTTACATAATACATTTGAA
59 AAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAATAATACATTTGAA
* *
95113561 ACATT-TTTGCTAAAATAATATAAA-
124 ACATTATGTACTAAAATAATATAAAG
*
95113585 AAAT-AATATACGAAAA
1 AAATAAAAATACGAAAA
95113601 CATTTTACTT
Statistics
Matches: 804, Mismatches: 78, Indels: 71
0.84 0.08 0.07
Matches are distributed among these distances:
142 3 0.00
143 56 0.07
144 28 0.03
145 108 0.13
146 34 0.04
147 62 0.08
148 2 0.00
150 7 0.01
151 44 0.05
152 37 0.05
153 108 0.13
154 62 0.08
155 143 0.18
156 107 0.13
157 3 0.00
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (149 bp):
AAATAAAAATACGAAAATAATATATTTTAAAAAATAATATACGTAAAAAAATACGAATAAAGTGC
CAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAATAATACATTTGAAACATTAT
GTACTAAAATAATATAAAG
Found at i:95113438 original size:298 final size:296
Alignment explanation
Indices: 95112534--95113600 Score: 1413
Period size: 298 Copynumber: 3.5 Consensus size: 296
95112524 ATTTTATGCT
*
95112534 AAAATAAAATACCAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATAC-AAAAAAATACGAATAAAGTGCT
* *
95112599 AAAACCAGGGTTATTTATTAAAAAAATATAAAAAAACACTTAAATAATACATTTGAAACATTATG
65 AAAATCAAGGTTATTTATTAAAAAAATAT-AAAAAACACTTAAATAATACATTTGAAACATTATG
*
95112664 TACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAT
129 TACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAT
* * *
95112729 AAAAAAATTACGAAGAAAGTATCAAAATCAGGGTTATTTAGTAAATTAATATAAAGAAACACTTA
194 AAAAAAA-TACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTA
* ***
95112794 -AGTAATACATTTGAATTTTTTTTGCTAAAATAATATAA
258 CACTAATACATTTGAAACATTTTTGCTAAAATAATATAA
* *
95112832 AAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACTAATAAAATACGAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATAC-AAAAAAATACGAATAAAGTGCT
* * *
95112897 AAAATCAGGGTTATTTATT-GAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
65 AAAATCAAGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGT
*
95112961 ACTAAAATAATATGAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACG-----A
130 ACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATA
*
95113021 AAAAAATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAGTATAAAAAAACACTTACA
195 AAAAAATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTAC-
*
95113086 TAATATACCTAATACATTTGAAACAATTTTTGCTCAAATAATATAAA
259 ------A-CTAATACATTTGAAAC-ATTTTTGCTAAAATAATAT-AA
95113133 AAAATAAAATACGAAAATAATATATTTT-AAAAATAATATAC-AAAAAATACGAATAAAGTGCTA
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACAAAAAAATACGAATAAAGTGCTA
* *
95113196 AAATCAAGGTTATTTATTAAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTACGTA
66 AAATCAAGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTA
* *
95113261 CTAAAATAATATAAAGAAATAAAATAATAAGAAAGTAATATATTTTAAAAAATAAGATACGAAAA
131 CTAAAATAATATAAAGAAAT--AA-AATACGAAAATAATATATTTTAAAAAATAAGATACGAAAA
* * * *
95113326 TAAAAAAATACGAAAAAAGTGCCAAAATCAGTGTTATTTATTAAACTAATATAAAAAAACACTTA
193 TAAAAAAATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTA
* *
95113391 CA-TAATACATTTGAAACATTATGTACTAAAATAATATAA
258 CACTAATACATTTGAAACATT-TTTGCTAAAATAATATAA
* * *
95113430 AGAAATAAAATAATATGAAAGTAATATATTTTAAAAAATAAGATACGAAAATAAAAAAAATACGA
1 A-AAAT--AA-AATACGAAAATAATATATTTTAAAAAATAATATAC-------AAAAAAATACGA
* * ** *
95113495 AAAAAGTGCCAAAATC-AGTGTTATTTATTAAATTAATATAAAAAACACTTACATAATACATTTG
55 ATAAAGTGCTAAAATCAAG-GTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTG
* * *
95113559 AAACATT-TTTGCTAAAATAATATAAA-AAATAATATACGAAAA
119 AAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAA
95113601 CATTTTACTT
Statistics
Matches: 685, Mismatches: 49, Indels: 63
0.86 0.06 0.08
Matches are distributed among these distances:
290 53 0.08
291 7 0.01
296 92 0.13
297 14 0.02
298 150 0.22
299 76 0.11
300 33 0.05
301 50 0.07
302 46 0.07
305 7 0.01
306 2 0.00
307 60 0.09
308 4 0.01
309 18 0.03
310 73 0.11
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (296 bp):
AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACAAAAAAATACGAATAAAGTGCTA
AAATCAAGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTA
CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
AAAAATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACAC
TAATACATTTGAAACATTTTTGCTAAAATAATATAA
Found at i:95113440 original size:18 final size:19
Alignment explanation
Indices: 95113417--95113455 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
95113407 CATTATGTAC
95113417 TAAAATAATAT-AAAGAAA
1 TAAAATAATATGAAAGAAA
*
95113435 TAAAATAATATGAAAGTAA
1 TAAAATAATATGAAAGAAA
95113454 TA
1 TA
95113456 TATTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (19 bp):
TAAAATAATATGAAAGAAA
Found at i:95121028 original size:16 final size:17
Alignment explanation
Indices: 95121002--95121044 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
95120992 AAAAATTATA
* *
95121002 CTTCTTTTTTTCTTTTC
1 CTTCTTTTTTCCTTCTC
*
95121019 TTTCTTTTTTCCTTCTC
1 CTTCTTTTTTCCTTCTC
95121036 CTTCTTTTT
1 CTTCTTTTT
95121045 CTTCCTCTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
CTTCTTTTTTCCTTCTC
Found at i:95121048 original size:15 final size:15
Alignment explanation
Indices: 95121008--95121086 Score: 54
Period size: 16 Copynumber: 4.9 Consensus size: 15
95120998 TATACTTCTT
* *
95121008 TTTTTCTTTTCTTTC
1 TTTTTCTTCTCCTTC
95121023 TTTTTTCCTTCTCCTTC
1 -TTTTT-CTTCTCCTTC
95121040 TTTTTCTTCCTCTCTTC
1 TTTTTCTT-CTC-CTTC
*
95121057 TCCTTTCTT-TCCCTT-
1 T-TTTTCTTCT-CCTTC
95121072 TATTTTCTTCTCCTT
1 T-TTTTCTTCTCCTT
95121087 GCTCCTGATT
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.27
16 18 0.35
17 14 0.27
18 6 0.12
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTCTTCTCCTTC
Found at i:95121056 original size:17 final size:16
Alignment explanation
Indices: 95121002--95121057 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
95120992 AAAAATTATA
* *
95121002 CTTCTTTTTTTCTTTT
1 CTTCTTTTTTTCCTCT
95121018 CTT-TCTTTTTTCCTTCT
1 CTTCT-TTTTTTCC-TCT
95121035 CCTTCTTTTTCTTCCTCT
1 -CTTCTTTTT-TTCCTCT
95121053 CTTCT
1 CTTCT
95121058 CCTTTCTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
15 1 0.03
16 10 0.30
17 7 0.21
18 10 0.30
19 5 0.15
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
CTTCTTTTTTTCCTCT
Found at i:95121194 original size:27 final size:27
Alignment explanation
Indices: 95121164--95121233 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
95121154 GGACCCACAC
95121164 GACTGGTGCCGCCTCTGCCAGAGGCAA
1 GACTGGTGCCGCCTCTGCCAGAGGCAA
* *
95121191 GACTGGTGCTGTCTCTGCCAGAGGCAA
1 GACTGGTGCCGCCTCTGCCAGAGGCAA
*
95121218 CACTGGTGCCGCCTCT
1 GACTGGTGCCGCCTCT
95121234 AGCACCAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.16, C:0.33, G:0.31, T:0.20
Consensus pattern (27 bp):
GACTGGTGCCGCCTCTGCCAGAGGCAA
Found at i:95121280 original size:23 final size:22
Alignment explanation
Indices: 95121249--95121298 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
95121239 CAACAGGACC
*
95121249 TTTTTTTTTTCGTTTTCAGTGT
1 TTTTTTTTTTCGTTTTCAATGT
*
95121271 TTTTTCTTTTTCTTTTTCAAT-T
1 TTTTT-TTTTTCGTTTTCAATGT
95121293 TTTTTT
1 TTTTTT
95121299 ACTGTTGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 11 0.44
23 13 0.52
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.78
Consensus pattern (22 bp):
TTTTTTTTTTCGTTTTCAATGT
Found at i:95121982 original size:21 final size:20
Alignment explanation
Indices: 95121957--95121999 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
95121947 TGGGTTGATT
*
95121957 TTATATATATAATTAGTAGTA
1 TTATATATATAATT-GTAATA
*
95121978 TTATATTTATAATTGTAATA
1 TTATATATATAATTGTAATA
95121998 TT
1 TT
95122000 CTCAAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (20 bp):
TTATATATATAATTGTAATA
Found at i:95122507 original size:39 final size:39
Alignment explanation
Indices: 95122464--95122541 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
95122454 AAGCGTATTC
95122464 CGGAATTTCGCTCTTTTTTTTGGGGGGGGGGGGGGGATT
1 CGGAATTTCGCTCTTTTTTTTGGGGGGGGGGGGGGGATT
*
95122503 CGGAATTTCGCTCTTTTTTTTGGGGGGGGGGGGTGGATT
1 CGGAATTTCGCTCTTTTTTTTGGGGGGGGGGGGGGGATT
95122542 ATAAAATGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.08, C:0.10, G:0.45, T:0.37
Consensus pattern (39 bp):
CGGAATTTCGCTCTTTTTTTTGGGGGGGGGGGGGGGATT
Found at i:95123250 original size:3 final size:3
Alignment explanation
Indices: 95123242--95123267 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
95123232 CCAAAATCCT
95123242 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
95123268 GCCATGGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:95125602 original size:30 final size:31
Alignment explanation
Indices: 95125538--95125603 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
95125528 ATTGTTTTAA
* **
95125538 AAAAAAAGAAACAATGTATTTTCTTGCTGCG
1 AAAAAAAGAAACAACGTATTTTCTTGCACCG
95125569 AAAAAAA-AAACAACGTATTTTCTT-CACCAG
1 AAAAAAAGAAACAACGTATTTTCTTGCACC-G
95125599 AAAAA
1 AAAAA
95125604 TTGATACTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 2 0.06
30 22 0.71
31 7 0.23
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (31 bp):
AAAAAAAGAAACAACGTATTTTCTTGCACCG
Found at i:95136036 original size:13 final size:13
Alignment explanation
Indices: 95136018--95136042 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95136008 AAGAATAATT
95136018 ATTAAATTTAAAG
1 ATTAAATTTAAAG
95136031 ATTAAATTTAAA
1 ATTAAATTTAAA
95136043 TAAAAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
ATTAAATTTAAAG
Found at i:95136830 original size:27 final size:27
Alignment explanation
Indices: 95136791--95136844 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
95136781 ATAAAATAAG
*
95136791 GGTGGAGGATACCCAACAGGCGGCACC
1 GGTGGAGGATACCCAACAGGCAGCACC
* *
95136818 GGTGGAGGGTACCCCACAGGCAGCACC
1 GGTGGAGGATACCCAACAGGCAGCACC
95136845 AGTCACTGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.31, G:0.37, T:0.07
Consensus pattern (27 bp):
GGTGGAGGATACCCAACAGGCAGCACC
Found at i:95136983 original size:11 final size:10
Alignment explanation
Indices: 95136969--95137008 Score: 53
Period size: 11 Copynumber: 3.7 Consensus size: 10
95136959 AAGGGGGAAG
95136969 GAGAAGAGAAA
1 GAGAAGAG-AA
95136980 GAGAAGAGAA
1 GAGAAGAGAA
95136990 GAGAAGAAGAA
1 GAGAAG-AGAA
95137001 GAAGAAGA
1 G-AGAAGA
95137009 AGGAGGAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.30
11 14 0.52
12 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAGAAGAGAA
Found at i:95136990 original size:16 final size:16
Alignment explanation
Indices: 95136969--95137008 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
95136959 AAGGGGGAAG
95136969 GAGAAGAGAA-AGAGAA
1 GAGAAGAGAAGA-AGAA
95136985 GAGAAGAGAAGAAGAA
1 GAGAAGAGAAGAAGAA
95137001 GAAGAAGA
1 G-AGAAGA
95137009 AGGAGGAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (16 bp):
GAGAAGAGAAGAAGAA
Found at i:95137054 original size:6 final size:6
Alignment explanation
Indices: 95137043--95137115 Score: 67
Period size: 6 Copynumber: 12.0 Consensus size: 6
95137033 TGAGGGAAGA
* * * *
95137043 AAAAAG AAAAAG AAAAAG AGAAAG AAAAAG AGAAGGAG AAGAAG AAGAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A-AA-AAG AAAAAG AAAAAG
* *
95137093 AGAAAG AGAAAG AAAAA- AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG
95137116 GTAATATTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
5 5 0.09
6 45 0.80
7 3 0.05
8 3 0.05
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:95137765 original size:146 final size:145
Alignment explanation
Indices: 95137548--95138138 Score: 754
Period size: 146 Copynumber: 4.1 Consensus size: 145
95137538 TATATTTTAA
*
95137548 AAAATCCGAAAATAAAAT---AAA-AAA-GGCCAAAATCAGAGGTTTTTTACTAAATTAATATAA
1 AAAATCCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGA-ATTTTTTACTAAATTAATATAA
* * * *
95137608 ATATACTAAAATAATATATATGAAACATTATGTACTAAAATAATAAAAAAATAAAATACGAAAAT
65 AAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAAAAAAATAAAATACGAAAAT
95137673 AGTATATTTTGAAAAAT
130 AGTATATTTT-AAAAAT
95137690 AAAATCCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGAATTTTTTACTAAATTAATATAAA
1 AAAATCCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGAATTTTTTACTAAATTAATATAAA
* *
95137755 AAAACTAAAATAATACATTTTAAATATTATGTACTAAAATAATATAAAAAACATAAAATACGAAA
66 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAAT-A-ATAAAAAA-ATAAAATACGAAA
95137820 ATAGTATA--TT-----T
128 ATAGTATATTTTAAAAAT
* * *
95137831 -AAA----AAAATAAAATAAAAAATAAACGGCCAAAATCAG-AGTTTTTATTAAATTAATAT-AA
1 AAAATCCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGAATTTTTTACTAAATTAATATAAA
* * * *
95137889 AAAACTAAAATAACAAATTTGGAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAAAT
66 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA-AAAAAATAAAATACGAAAAT
*
95137954 AGTTTATTTTAAAAAGT
130 AGTATATTTTAAAAA-T
* * * *
95137971 AAAATCC-AAGAATAAAATAAAAAACAAACGGTCAAAATCGGATTTTTTTATTAAATTAATATAA
1 AAAATCCGAA-AATAAAATAAAAAACAAACGGCCAAAATCAGAATTTTTTACTAAATTAATATAA
* *
95138035 AAAATACAAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAATAAAATACGAAAA
65 AAAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAAAAAAATAAAATACGAAAA
*
95138100 TAATATATTTTAAAAAAT
129 TAGTATATTTT-AAAAAT
95138118 AAAATCCGAAAATAAAATAAA
1 AAAATCCGAAAATAAAATAAA
95138139 TACCAAAATA
Statistics
Matches: 392, Mismatches: 30, Indels: 49
0.83 0.06 0.10
Matches are distributed among these distances:
132 22 0.06
133 6 0.02
134 39 0.10
135 18 0.05
136 32 0.08
140 4 0.01
141 4 0.01
142 18 0.05
144 2 0.01
145 31 0.08
146 77 0.20
147 66 0.17
148 52 0.13
149 21 0.05
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (145 bp):
AAAATCCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGAATTTTTTACTAAATTAATATAAA
AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAAAAAAATAAAATACGAAAATA
GTATATTTTAAAAAT
Found at i:95138121 original size:134 final size:133
Alignment explanation
Indices: 95137698--95138122 Score: 539
Period size: 134 Copynumber: 3.1 Consensus size: 133
95137688 ATAAAATCCG
*
95137698 AAAATAAAATAAAAAACAAACGGCCAAAATCAGAATTTTTTACTAAATTAATATAAAAAAACTAA
1 AAAATAAAATAAAAAACAAACGGCCAAAATCAG-ATTTTTTATTAAATTAATATAAAAAAACTAA
* *
95137763 AATAATACATTTTAAATATTATGTACTAAAATAATATAAAAAACATAAAATACGAAAATAGTATA
65 AATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAA-ATAAAATACGAAAATAGTATA
*
95137828 TTTAAA
128 TTTTAA
* *
95137834 AAAATAAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTATTAAATTAATAT-AAAAAACTAAA
1 AAAATAAAATAAAAAACAAACGGCCAAAATCAGATTTTTTATTAAATTAATATAAAAAAACTAAA
* * * * *
95137898 ATAACAAATTTGGAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAGTTTATTT
66 ATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATA-TT
95137963 TAAAAAGTAAAA
130 T------T--AA
* *
95137975 TCCAAGAATAAAATAAAAAACAAACGGTCAAAATCGGATTTTTTTATTAAATTAATATAAAAAAT
1 ---AA-AATAAAATAAAAAACAAACGGCCAAAATCAGA-TTTTTTATTAAATTAATATAAAAAA-
* *
95138040 ACAAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAATAAAATACGAAAATAAT
60 ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGT
95138104 ATATTTTAA
125 ATATTTTAA
95138113 AAAATAAAAT
1 AAAATAAAAT
95138123 CCGAAAATAA
Statistics
Matches: 251, Mismatches: 22, Indels: 34
0.82 0.07 0.11
Matches are distributed among these distances:
132 19 0.08
133 8 0.03
134 50 0.20
135 20 0.08
136 32 0.13
138 2 0.01
140 1 0.00
141 2 0.01
144 2 0.01
145 29 0.12
146 21 0.08
147 27 0.11
148 38 0.15
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (133 bp):
AAAATAAAATAAAAAACAAACGGCCAAAATCAGATTTTTTATTAAATTAATATAAAAAAACTAAA
ATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTT
TAA
Found at i:95138132 original size:147 final size:144
Alignment explanation
Indices: 95137556--95138138 Score: 674
Period size: 147 Copynumber: 4.1 Consensus size: 144
95137546 AAAAAATCCG
* * * *
95137556 AAAATAAAATAA-AAAAGGCCAAAATCAGAGGTTTTTTACTAAATTAATATAAATATACTAAAAT
1 AAAATAAAA-AACAAACGGCCAAAATCAGA-G-TTTTTATTAAATTAATATAAA-AAACAAAAAT
* * * * *
95137620 AATATATATGAAACATTATGTACTAAAATAATA-AAAAAATAAAATACGAAAATAGTATATTTTG
62 AACAAATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTA
95137684 AAAAATAAAATCCGAAAAT
127 AAAAATAAAATCC-AAAAT
* * *
95137703 AAAATAAAAAACAAACGGCCAAAATCAGAATTTTTTACTAAATTAATATAAAAAAACTAAAATAA
1 AAAATAAAAAACAAACGGCCAAAATCAG-AGTTTTTATTAAATTAATAT-AAAAAACAAAAATAA
* * * * *
95137768 TACATTTTAAATATTATGTACTAAAATAATATAAAAAACATAAAATACGAAAATAGTATA--TT-
64 CAAATTTGAAACATTATGTACTAAAATAATAT-AAAAA-ATAAAATACGAAAATAATATATTTTA
95137830 -----T-AAA---AAAAT
127 AAAAATAAAATCCAAAAT
* *
95137839 AAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTATTAAATTAATATAAAAAACTAAAATAACA
1 AAAATAAAAAACAAACGGCCAAAATCAGAGTTTTTATTAAATTAATATAAAAAACAAAAATAACA
* * * *
95137904 AATTTGGAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAGTTTATTTTAAAAA
66 AATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAA
*
95137969 GTAAAATCCAAGAAT
131 ATAAAATCCAA-AAT
* * *
95137984 AAAATAAAAAACAAACGGTCAAAATCGGATTTTTTTATTAAATTAATATAAAAAATACAAAAATA
1 AAAATAAAAAACAAACGGCCAAAATCAGA-GTTTTTATTAAATTAATAT-AAAAA-ACAAAAATA
* *
95138049 ATACATTTGAAACATTATGTACTAAAATAATAT-AAAAATAAAATACGAAAATAATATATTTTAA
63 ACAAATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAA
95138113 AAAATAAAATCCGAAAAT
128 AAAATAAAATCC-AAAAT
95138131 AAAATAAA
1 AAAATAAA
95138139 TACCAAAATA
Statistics
Matches: 384, Mismatches: 29, Indels: 46
0.84 0.06 0.10
Matches are distributed among these distances:
132 19 0.05
133 5 0.01
134 44 0.11
135 18 0.05
136 32 0.08
140 4 0.01
141 4 0.01
144 2 0.01
145 29 0.08
146 76 0.20
147 84 0.22
148 46 0.12
149 21 0.05
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (144 bp):
AAAATAAAAAACAAACGGCCAAAATCAGAGTTTTTATTAAATTAATATAAAAAACAAAAATAACA
AATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAA
ATAAAATCCAAAAT
Found at i:95138148 original size:30 final size:28
Alignment explanation
Indices: 95138071--95138140 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 28
95138061 CATTATGTAC
95138071 TAAAATAATATAAAAATAAAATACGAAAA
1 TAAAATAA-ATAAAAATAAAATACGAAAA
* ** *
95138100 TAATATATTTTAAAAAATAAAATCCGAAAA
1 TAAAATA-AAT-AAAAATAAAATACGAAAA
95138130 TAAAATAAATA
1 TAAAATAAATA
95138141 CCAAAATATA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
28 1 0.03
29 8 0.25
30 23 0.72
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (28 bp):
TAAAATAAATAAAAATAAAATACGAAAA
Found at i:95144588 original size:17 final size:17
Alignment explanation
Indices: 95144529--95144572 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
95144519 TACCTTTTCT
95144529 TTTCTTTCTTCTTCTCC
1 TTTCTTTCTTCTTCTCC
95144546 TTTCTTTCTTCTTCTCC
1 TTTCTTTCTTCTTCTCC
95144563 TTTCTTTCTT
1 TTTCTTTCTT
95144573 TCTATCTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTCTTTCTTCTTCTCC
Found at i:95145166 original size:17 final size:18
Alignment explanation
Indices: 95145144--95145186 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
95145134 CTCACATTTA
*
95145144 TATTTTTTA-TTTTATAT
1 TATTTTTAAGTTTTATAT
*
95145161 TA-TTTTAAGTTTTTTAT
1 TATTTTTAAGTTTTATAT
95145178 TATTTTTAA
1 TATTTTTAA
95145187 TTAATGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 5 0.23
17 11 0.50
18 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (18 bp):
TATTTTTAAGTTTTATAT
Found at i:95147189 original size:14 final size:11
Alignment explanation
Indices: 95147157--95147181 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
95147147 ATTTTTTTCC
95147157 CTTTATTATAG
1 CTTTATTATAG
95147168 CTTTATTATAG
1 CTTTATTATAG
95147179 CTT
1 CTT
95147182 AAGTATTAGT
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:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (11 bp):
CTTTATTATAG
Found at i:95149190 original size:54 final size:54
Alignment explanation
Indices: 95149104--95149247 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
95149094 TGGAGGAAGC
* *
95149104 GTCCTAGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
95149158 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
95149212 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
95149248 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:95149258 original size:27 final size:27
Alignment explanation
Indices: 95149110--95149265 Score: 178
Period size: 27 Copynumber: 5.8 Consensus size: 27
95149100 AAGCGTCCTA
* *
95149110 GTGGCTATGCCACAATTATCT-AATCTG
1 GTGGCTCTGCCACAA-TATCTGTATCTG
*
95149137 GTGGCTCTGCCACATATATCTGT-CCTG
1 GTGGCTCTGCCACA-ATATCTGTATCTG
*
95149164 GTGGCTATGCCACAATTATCTG-ATCTG
1 GTGGCTCTGCCACAA-TATCTGTATCTG
95149191 GTGGCTCTGCCACATATATCTGT-TCTG
1 GTGGCTCTGCCACA-ATATCTGTATCTG
95149218 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
95149245 GTGACT-TCGTCACAATATCTG
1 GTGGCTCT-GCCACAATATCTG
95149266 GCGACTTCGT
Statistics
Matches: 113, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.09
27 101 0.89
28 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:95149259 original size:81 final size:80
Alignment explanation
Indices: 95149110--95149265 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 80
95149100 AAGCGTCCTA
*
95149110 GTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTATGCC
1 GTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTATGCC
95149175 ACAATTATCTGATCTG
66 ACAA-TATCTGATCTG
* ** *
95149191 GTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT-TC
1 GTGGCTATGCCACAAT-TATCTAATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACTAT-
*
95149253 GTCACAATATCTG
63 GCCACAATATCTG
95149266 GCGACTTCGT
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
80 17 0.26
81 49 0.74
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (80 bp):
GTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTATGCC
ACAATATCTGATCTG
Found at i:95149263 original size:21 final size:21
Alignment explanation
Indices: 95149239--95149288 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
95149229 ACAATATCTG
*
95149239 TATCTGGTGACTTCGTCACAA
1 TATCTGGCGACTTCGTCACAA
95149260 TATCTGGCGACTTCGTCACAA
1 TATCTGGCGACTTCGTCACAA
95149281 TATCTGGC
1 TATCTGGC
95149289 AGCCTCGCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (21 bp):
TATCTGGCGACTTCGTCACAA
Found at i:95152882 original size:12 final size:12
Alignment explanation
Indices: 95152865--95152889 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95152855 AAAATACATT
95152865 ATTAATAAAATA
1 ATTAATAAAATA
95152877 ATTAATAAAATA
1 ATTAATAAAATA
95152889 A
1 A
95152890 CACCTGAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTAATAAAATA
Found at i:95155167 original size:20 final size:19
Alignment explanation
Indices: 95155119--95155170 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
95155109 CAAGTGTATG
*
95155119 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATAT
95155137 GTAAAAATAATATACATAT
1 GTAAAAATAATATACATAT
*
95155156 GTATATAATAATATA
1 GTA-AAAATAATATA
95155171 TGTAATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (19 bp):
GTAAAAATAATATACATAT
Found at i:95155253 original size:20 final size:23
Alignment explanation
Indices: 95155228--95155270 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 23
95155218 TATAATAATT
95155228 ATAAAAG-AAT-AAATA-AAAAA
1 ATAAAAGAAATGAAATAGAAAAA
95155248 ATAAAAGAAATGAAATAGAAAAA
1 ATAAAAGAAATGAAATAGAAAAA
95155271 GGAATAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 3 0.15
22 5 0.25
23 5 0.25
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (23 bp):
ATAAAAGAAATGAAATAGAAAAA
Found at i:95155336 original size:24 final size:24
Alignment explanation
Indices: 95155267--95155336 Score: 58
Period size: 25 Copynumber: 2.9 Consensus size: 24
95155257 ATGAAATAGA
* *
95155267 AAAAG-GAATAGAAACAT-AGAAGT
1 AAAAGAGAA-AGAAAAATGAGAAGG
95155290 AAAA-ACGAAAGAAAAA-GAAAGAAGG
1 AAAAGA-GAAAGAAAAATG--AGAAGG
95155315 AAAAGAGAAAGAAAAATGAGAA
1 AAAAGAGAAAGAAAAATGAGAA
95155337 AAAAGCTAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
23 10 0.26
24 7 0.18
25 19 0.50
26 2 0.05
ACGTcount: A:0.69, C:0.03, G:0.23, T:0.06
Consensus pattern (24 bp):
AAAAGAGAAAGAAAAATGAGAAGG
Found at i:95155578 original size:24 final size:24
Alignment explanation
Indices: 95155550--95155596 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
95155540 TTGAAATGGA
95155550 ATTG-ATTTAGTATTTGAT-GAATTT
1 ATTGAATTTA-TA-TTGATCGAATTT
95155574 ATTGAATTTATATTGATCGAATT
1 ATTGAATTTATATTGATCGAATT
95155597 GATATACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATCGAATTT
Found at i:95156975 original size:19 final size:20
Alignment explanation
Indices: 95156938--95156984 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
95156928 TTAGCACAGA
95156938 ATGAGAAAGTTGATAAGATG
1 ATGAGAAAGTTGATAAGATG
*
95156958 ATGAGAGAAG-TG-TAAGATT
1 ATGAGA-AAGTTGATAAGATG
95156977 AT-AGAAAG
1 ATGAGAAAG
95156985 AAACCAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 3 0.12
18 3 0.12
19 8 0.32
20 8 0.32
21 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (20 bp):
ATGAGAAAGTTGATAAGATG
Found at i:95170855 original size:20 final size:19
Alignment explanation
Indices: 95170807--95170858 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
95170797 CAAGTGTATG
*
95170807 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATAT
95170825 GTAAAAATAATATACATAT
1 GTAAAAATAATATACATAT
*
95170844 GTATATAATAATATA
1 GTA-AAAATAATATA
95170859 TGTAATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (19 bp):
GTAAAAATAATATACATAT
Found at i:95170891 original size:5 final size:5
Alignment explanation
Indices: 95170881--95170929 Score: 80
Period size: 5 Copynumber: 9.8 Consensus size: 5
95170871 TATTTAAATA
* *
95170881 TATAT TATAT TATAT TGTAT TGTAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
95170930 AAAAGAGTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:95171020 original size:21 final size:20
Alignment explanation
Indices: 95170996--95171039 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
95170986 AAGTAAAACG
95170996 AAAGAAAAAAGAAAGAAGGA-A
1 AAAG-AAAAAGAAA-AAGGAGA
*
95171017 AAAGAGAAAGAAAAAGGAGA
1 AAAGAAAAAGAAAAAGGAGA
95171037 AAA
1 AAA
95171040 AGCTAGAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 12 0.57
21 4 0.19
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAAAGGAGA
Found at i:95171024 original size:16 final size:15
Alignment explanation
Indices: 95170999--95171028 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
95170989 TAAAACGAAA
95170999 GAAAAAAGAAAGAAG
1 GAAAAAAGAAAGAAG
95171014 GAAAAAGAGAAAGAA
1 GAAAAA-AGAAAGAA
95171029 AAAGGAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
GAAAAAAGAAAGAAG
Found at i:95171278 original size:24 final size:24
Alignment explanation
Indices: 95171250--95171296 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
95171240 TTGAAATGGA
95171250 ATTG-ATTTAGTATATGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
95171274 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
95171297 GATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:95171507 original size:41 final size:40
Alignment explanation
Indices: 95171461--95171594 Score: 116
Period size: 37 Copynumber: 3.4 Consensus size: 40
95171451 ACTTCGAGTT
*
95171461 GATGAGGCATTGGATGTCAATTTACTATTTCGGATTAGTTC
1 GATGAGGCATTGG-TGTCAATTTACTATTTCGGATTAGTCC
* * *
95171502 GATGAGACATTGGGTGTCAAATTAC--TTT-GGTTTAG-CC
1 GATGAGGCATT-GGTGTCAATTTACTATTTCGGATTAGTCC
* * * **
95171539 GATGAGGCACTAGGTGTCAATTTATTACTTCAAATTA-TCC
1 GATGAGGCA-TTGGTGTCAATTTACTATTTCGGATTAGTCC
95171579 GATGAGGCATTAGGTG
1 GATGAGGCATT-GGTG
95171595 CCAAACTGGT
Statistics
Matches: 73, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
37 20 0.27
38 7 0.10
39 6 0.08
40 18 0.25
41 20 0.27
42 2 0.03
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.35
Consensus pattern (40 bp):
GATGAGGCATTGGTGTCAATTTACTATTTCGGATTAGTCC
Found at i:95172947 original size:3 final size:3
Alignment explanation
Indices: 95172941--95172966 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
95172931 TGTTGTTGCA
95172941 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
95172967 CAACAATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:95176906 original size:24 final size:24
Alignment explanation
Indices: 95176851--95176906 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
95176841 ACAAAATGCC
* * *
95176851 ACAAATGCCTAATCAGAATACACC
1 ACAAAGGCCAAATCAGAATACACA
* *
95176875 ATAAAGGCCAAATCAGAATACGCA
1 ACAAAGGCCAAATCAGAATACACA
*
95176899 ACATAGGC
1 ACAAAGGC
95176907 TAATAGAATG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.46, C:0.25, G:0.14, T:0.14
Consensus pattern (24 bp):
ACAAAGGCCAAATCAGAATACACA
Found at i:95179420 original size:17 final size:17
Alignment explanation
Indices: 95179398--95179431 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
95179388 GAACTATGTT
*
95179398 ATTGAGAATACGAAAGA
1 ATTGAGAATACAAAAGA
95179415 ATTGAGAATACAAAAGA
1 ATTGAGAATACAAAAGA
95179432 GAAAATGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.21, T:0.18
Consensus pattern (17 bp):
ATTGAGAATACAAAAGA
Found at i:95180267 original size:66 final size:66
Alignment explanation
Indices: 95180185--95180316 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
95180175 AGTGGGAATG
*
95180185 GTCATAAATGGGCATATATTATGACGATTTTAAATGGTTTTGTAAAGGTTAAATATGTAATTTGG
1 GTCATAAATGGGCATATATTATGACGATTTTAAATGGTTTAGTAAAGGTTAAATATGTAATTTGG
95180250 T
66 T
*
95180251 GTCATAAATGGGCATATATTATGATGATTTTAAATGGTTTAGTAAAGGTTAAATATGTAATTTGG
1 GTCATAAATGGGCATATATTATGACGATTTTAAATGGTTTAGTAAAGGTTAAATATGTAATTTGG
95180316 T
66 T
95180317 ATAAATAAAC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (66 bp):
GTCATAAATGGGCATATATTATGACGATTTTAAATGGTTTAGTAAAGGTTAAATATGTAATTTGG
T
Found at i:95181304 original size:47 final size:47
Alignment explanation
Indices: 95181251--95181361 Score: 150
Period size: 47 Copynumber: 2.4 Consensus size: 47
95181241 GTGTGAATAA
* * *
95181251 TACCTTGATTTGGCTACGGGTCATGGCATAGGTATTCAGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGCATAGGTACTCAGAGAGAAGT
* * * *
95181298 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGCATAGGTACTCAGAGAGAAGT
*
95181345 TACCTTGGTTTGGCTAC
1 TACCTTGATTTGGCTAC
95181362 AAGACCTGGT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGCATAGGTACTCAGAGAGAAGT
Found at i:95191312 original size:18 final size:19
Alignment explanation
Indices: 95191276--95191314 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
95191266 GTAACCCTTG
* *
95191276 TTTCCCAAATTTTCATGTT
1 TTTCCAAAATTATCATGTT
95191295 TTTCCAAAATTATC-TGTT
1 TTTCCAAAATTATCATGTT
95191313 TT
1 TT
95191315 GTTTCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTCCAAAATTATCATGTT
Found at i:95199935 original size:23 final size:23
Alignment explanation
Indices: 95199909--95199956 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
95199899 ACAAAGTTAT
* *
95199909 TAATTAAAAAGATTTAAAAAGAA
1 TAATTAAAAAAATTTAAAAACAA
95199932 TAATTAAAAAAATTTAAAAACAA
1 TAATTAAAAAAATTTAAAAACAA
95199955 TA
1 TA
95199957 TATTCATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (23 bp):
TAATTAAAAAAATTTAAAAACAA
Found at i:95200897 original size:18 final size:19
Alignment explanation
Indices: 95200865--95200994 Score: 90
Period size: 18 Copynumber: 6.9 Consensus size: 19
95200855 AAATATAAAA
*
95200865 ATAAAAATCA-ATAAAATTT
1 ATAAAAAT-ATATAAAAATT
**
95200884 ATAAAAATAT-TAAATTTT
1 ATAAAAATATATAAAAATT
*
95200902 AATAAAAAAATATAAAAATT
1 -ATAAAAATATATAAAAATT
* *
95200922 AGAAAAA-ATATAAAAAAT
1 ATAAAAATATATAAAAATT
* * **
95200940 ATAAAAGTGTA-AAATTTT
1 ATAAAAATATATAAAAATT
*
95200958 ATAAAAATCATAAAAAAATT
1 ATAAAAAT-ATATAAAAATT
*
95200978 AT-AAAATATATAGAAAT
1 ATAAAAATATATAAAAAT
95200995 ATAGAAAAGA
Statistics
Matches: 87, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
18 42 0.48
19 32 0.37
20 13 0.15
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (19 bp):
ATAAAAATATATAAAAATT
Found at i:95200936 original size:9 final size:9
Alignment explanation
Indices: 95200902--95200945 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
95200892 ATTAAATTTT
95200902 AATA-AAAA
1 AATATAAAA
95200910 AATATAAAA
1 AATATAAAA
* *
95200919 ATTAGAAAA
1 AATATAAAA
95200928 AATATAAAA
1 AATATAAAA
95200937 AATATAAAA
1 AATATAAAA
95200946 GTGTAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
8 4 0.13
9 27 0.87
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (9 bp):
AATATAAAA
Found at i:95200955 original size:56 final size:54
Alignment explanation
Indices: 95200852--95201003 Score: 146
Period size: 56 Copynumber: 2.7 Consensus size: 54
95200842 GACATGCGGC
* * * *
95200852 AAAAAATATAAAAA-TAAAAATCA-ATAAAATTTATAAAAATATTAAATTTTAATA
1 AAAAAATATAAAAATTAAAAA-AATATAAAATATATAAAAGTATAAAATTTT-ATA
* *
95200906 AAAAAATATAAAAATTAGAAAAAATATAAAAAATATAAAAGTGTAAAATTTTATA
1 AAAAAATATAAAAATTA-AAAAAATATAAAATATATAAAAGTATAAAATTTTATA
* * * *
95200961 AAAATCATAAAAAAATTATAAAATATATAGAAATATAGAAAAG
1 AAAA-AATATAAAAATTA-AAAAAATATA-AAATATATAAAAG
95201004 AAATTTACAA
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
54 14 0.17
55 10 0.12
56 46 0.57
57 11 0.14
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (54 bp):
AAAAAATATAAAAATTAAAAAAATATAAAATATATAAAAGTATAAAATTTTATA
Found at i:95200960 original size:27 final size:27
Alignment explanation
Indices: 95200852--95200973 Score: 74
Period size: 27 Copynumber: 4.5 Consensus size: 27
95200842 GACATGCGGC
* **
95200852 AAAAAATATAAAAA-TA-AAAATCAAT
1 AAAAAATATAAAAATTAGAAATTTTAT
** *
95200877 AAAATTTATAAAAATAT-TAAATTTTAAT
1 AAAAAATATAAAAAT-TAGAAATTTT-AT
***
95200905 AAAAAAATATAAAAATTAGAAAAAATAT
1 -AAAAAATATAAAAATTAGAAATTTTAT
*
95200933 AAAAAATATAAAAGTGTA-AAATTTTAT
1 AAAAAATATAAAAAT-TAGAAATTTTAT
95200960 -AAAAATCATAAAAA
1 AAAAAAT-ATAAAAA
95200974 AATTATAAAA
Statistics
Matches: 73, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
25 12 0.16
26 6 0.08
27 31 0.42
28 7 0.10
29 17 0.23
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (27 bp):
AAAAAATATAAAAATTAGAAATTTTAT
Found at i:95200983 original size:9 final size:9
Alignment explanation
Indices: 95200865--95200983 Score: 53
Period size: 9 Copynumber: 12.7 Consensus size: 9
95200855 AAATATAAAA
*
95200865 ATAAAAATCA
1 ATAAAAAT-T
*
95200875 ATAAAATTT
1 ATAAAAATT
95200884 ATAAAAA-T
1 ATAAAAATT
**
95200892 ATTAAATTTT
1 A-TAAAAATT
*
95200902 AATAAAAAAAT
1 -AT-AAAAATT
95200913 ATAAAAATT
1 ATAAAAATT
* *
95200922 AGAAAAAAT
1 ATAAAAATT
*
95200931 ATAAAAAAT
1 ATAAAAATT
*
95200940 ATAAAAGTGT
1 ATAAAAAT-T
**
95200950 A-AAATTTT
1 ATAAAAATT
95200958 ATAAAAATCAT
1 ATAAAAAT--T
*
95200969 AAAAAAATT
1 ATAAAAATT
95200978 ATAAAA
1 ATAAAA
95200984 TATATAGAAA
Statistics
Matches: 81, Mismatches: 20, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
8 4 0.05
9 51 0.63
10 13 0.16
11 13 0.16
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (9 bp):
ATAAAAATT
Found at i:95201060 original size:19 final size:20
Alignment explanation
Indices: 95201028--95201084 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
95201018 TTATAAAGTA
*
95201028 GTAAGAAAATTATAAAAAAT
1 GTAAAAAAATTATAAAAAAT
* * **
95201048 GTAAAGAAA-TATACAATTT
1 GTAAAAAAATTATAAAAAAT
95201067 GTAAAAAAATTATAAAAA
1 GTAAAAAAATTATAAAAA
95201085 TTCGTTAACT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (20 bp):
GTAAAAAAATTATAAAAAAT
Found at i:95202118 original size:3 final size:3
Alignment explanation
Indices: 95202105--95202138 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
95202095 GGTTAAACTT
*
95202105 TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
95202139 AAATAGACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:95205934 original size:21 final size:21
Alignment explanation
Indices: 95205908--95205951 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
95205898 AAGAAGGATC
95205908 TCGAAACTTTTCTACAAGATT
1 TCGAAACTTTTCTACAAGATT
*
95205929 TCGAAACTTTTCTACAAGTTT
1 TCGAAACTTTTCTACAAGATT
95205950 TC
1 TC
95205952 AGTTTCAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (21 bp):
TCGAAACTTTTCTACAAGATT
Found at i:95206282 original size:24 final size:21
Alignment explanation
Indices: 95206237--95206285 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
95206227 TTGATGTGGT
95206237 TGGTGATGATGGATACGATAG
1 TGGTGATGATGGATACGATAG
95206258 TGGTGATGATGGATACGATAG
1 TGGTGATGATGGATACGATAG
*
95206279 TAGTGAT
1 TGGTGAT
95206286 CCTTGTGATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.04, G:0.37, T:0.31
Consensus pattern (21 bp):
TGGTGATGATGGATACGATAG
Found at i:95208529 original size:48 final size:48
Alignment explanation
Indices: 95208461--95208561 Score: 166
Period size: 48 Copynumber: 2.1 Consensus size: 48
95208451 TATGTAATCC
* *
95208461 AATGTACTTAATTTGTATTACAAAGTTTGTTCCAAGTTTTAATTTTGT
1 AATGTACTTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGT
* *
95208509 AATGTATTTAATTTATATTACAAAGTTTGTTTCAAGTTTTAATGTTGT
1 AATGTACTTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGT
95208557 AATGT
1 AATGT
95208562 TATAATGTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (48 bp):
AATGTACTTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGT
Found at i:95208976 original size:33 final size:33
Alignment explanation
Indices: 95208928--95209002 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
95208918 GATACGAACA
* *
95208928 AGAGGAGTGAAGTAATATGGTGGATATGGGCCG
1 AGAGGAGTGAAGTAATATGGTGGATACGGGCAG
* * *
95208961 AGAGAAGTGGAGTAATGTGGTGGATACGGGCAG
1 AGAGGAGTGAAGTAATATGGTGGATACGGGCAG
95208994 AGAGGAGTG
1 AGAGGAGTG
95209003 CTGTACTACG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.31, C:0.05, G:0.45, T:0.19
Consensus pattern (33 bp):
AGAGGAGTGAAGTAATATGGTGGATACGGGCAG
Found at i:95211471 original size:16 final size:16
Alignment explanation
Indices: 95211452--95211522 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
95211442 ATAACATGCC
95211452 AAATAAATTACATAAA
1 AAATAAATTACATAAA
*
95211468 AAATAAATCTA-AT-CA
1 AAATAAAT-TACATAAA
** ** *
95211483 ACCTAAAACACATAAC
1 AAATAAATTACATAAA
95211499 AAATAAATTACATAAAA
1 AAATAAATTACAT-AAA
95211516 AAATAAA
1 AAATAAA
95211523 ACATTATTTG
Statistics
Matches: 39, Mismatches: 12, Indels: 7
0.67 0.21 0.12
Matches are distributed among these distances:
14 1 0.03
15 8 0.21
16 19 0.49
17 11 0.28
ACGTcount: A:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATAAATTACATAAA
Found at i:95212723 original size:23 final size:23
Alignment explanation
Indices: 95212675--95212723 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
95212665 CAAAACAGAA
*
95212675 TTTTGTCTGCCTAAGTGCATGGT
1 TTTTGTCTGCCTAAGTGCATGAT
* *
95212698 TTTTGTCTGCCTATGTGCATTAT
1 TTTTGTCTGCCTAAGTGCATGAT
95212721 TTT
1 TTT
95212724 GTGCTCACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.12, C:0.16, G:0.20, T:0.51
Consensus pattern (23 bp):
TTTTGTCTGCCTAAGTGCATGAT
Found at i:95212969 original size:43 final size:43
Alignment explanation
Indices: 95212922--95213158 Score: 307
Period size: 43 Copynumber: 5.5 Consensus size: 43
95212912 AAAAAGTACA
* *
95212922 GCTAAAAGTCATGGCCTTTAGTGGCGCTTGTAGGAGAAGCGCC
1 GCTAAAAGTCATGGCCTTTAGTGGCGTTTGTGGGAGAAGCGCC
* *
95212965 GCTAAAAGTCATGACCTTTAGCT-GCATTTGTGGGAGAAGCGCC
1 GCTAAAAGTCATGGCCTTTAG-TGGCGTTTGTGGGAGAAGCGCC
* * * *
95213008 ACTAAAAGTCATAGCCTTTAGCGGCGTTTGTGGGAGAAGCACC
1 GCTAAAAGTCATGGCCTTTAGTGGCGTTTGTGGGAGAAGCGCC
*
95213051 GCTAAAAGTCATGGCCTTTTGGTGGCGTTTGTGGGAGAAGCGCC
1 GCTAAAAGTCATGGCC-TTTAGTGGCGTTTGTGGGAGAAGCGCC
* * ** *
95213095 ACTAAAAGTGATAACCTTTAGTGG-GATTTGTGGGAGAAGAGCC
1 GCTAAAAGTCATGGCCTTTAGTGGCG-TTTGTGGGAGAAGCGCC
95213138 GCTAAAAGTCATGGCCTTTAG
1 GCTAAAAGTCATGGCCTTTAG
95213159 CGGGCTTTTA
Statistics
Matches: 165, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.01
43 127 0.77
44 37 0.22
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (43 bp):
GCTAAAAGTCATGGCCTTTAGTGGCGTTTGTGGGAGAAGCGCC
Found at i:95213114 original size:87 final size:86
Alignment explanation
Indices: 95212923--95213159 Score: 325
Period size: 87 Copynumber: 2.7 Consensus size: 86
95212913 AAAAGTACAG
** * * * *
95212923 CTAAAAGTCATGGCCTTTAGTGGCGCTTGTAGGAGAAGCGCCGCTAAAAGTCATGACCTTTAGCT
1 CTAAAAGTCATAACCTTTAGTGGCGTTTGTGGGAGAAGCACCGCTAAAAGTCATGGCCTTTAGCT
95212988 GCATTTGTGGGAGAAGCGCCA
66 GCATTTGTGGGAGAAGCGCCA
* * * *
95213009 CTAAAAGTCATAGCCTTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAAAGTCATGGCCTTTTGGT
1 CTAAAAGTCATAACCTTTAGTGGCGTTTGTGGGAGAAGCACCGCTAAAAGTCATGGCCTTTAGCT
*
95213074 GGCGTTTGTGGGAGAAGCGCCA
66 -GCATTTGTGGGAGAAGCGCCA
*
95213096 CTAAAAGTGATAACCTTTAGTGG-GATTTGTGGGAGAAG-AGCCGCTAAAAGTCATGGCCTTTAG
1 CTAAAAGTCATAACCTTTAGTGGCG-TTTGTGGGAGAAGCA-CCGCTAAAAGTCATGGCCTTTAG
95213159 C
64 C
95213160 GGGCTTTTAT
Statistics
Matches: 134, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
86 59 0.44
87 75 0.56
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (86 bp):
CTAAAAGTCATAACCTTTAGTGGCGTTTGTGGGAGAAGCACCGCTAAAAGTCATGGCCTTTAGCT
GCATTTGTGGGAGAAGCGCCA
Found at i:95213127 original size:130 final size:130
Alignment explanation
Indices: 95212894--95213161 Score: 378
Period size: 130 Copynumber: 2.1 Consensus size: 130
95212884 GATAATGACT
* *
95212894 TTTAGCAGCGTTTGTGGGAAAAAGTACAGCTAAAAGTCATGGCCTTTAGTGGCGCTTGTAGGAGA
1 TTTAGCGGCGTTTGTGGGAAAAAGCACAGCTAAAAGTCATGGCCTTTAGTGGCGCTTGTAGGAGA
* * *
95212959 AGCGCCGCTAAAAGTCATGACCTTTAGCTGCATTTGTGGGAGAAGCGCCACTAAAAGTCATAGCC
66 AGCGCCACTAAAAGTCATAACCTTTAGCTGCATTTGTGGGAGAAGAGCCACTAAAAGTCATAGCC
* * * * *
95213024 TTTAGCGGCGTTTGTGGG-AGAAGCACCGCTAAAAGTCATGGCCTTTTGGTGGCGTTTGTGGGAG
1 TTTAGCGGCGTTTGTGGGAAAAAGCACAGCTAAAAGTCATGGCC-TTTAGTGGCGCTTGTAGGAG
* * * *
95213088 AAGCGCCACTAAAAGTGATAACCTTTAG-TGGGATTTGTGGGAGAAGAGCCGCTAAAAGTCATGG
65 AAGCGCCACTAAAAGTCATAACCTTTAGCT-GCATTTGTGGGAGAAGAGCCACTAAAAGTCATAG
95213152 CC
129 CC
95213154 TTTAGCGG
1 TTTAGCGG
95213162 GCTTTTATAA
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
129 23 0.19
130 99 0.81
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (130 bp):
TTTAGCGGCGTTTGTGGGAAAAAGCACAGCTAAAAGTCATGGCCTTTAGTGGCGCTTGTAGGAGA
AGCGCCACTAAAAGTCATAACCTTTAGCTGCATTTGTGGGAGAAGAGCCACTAAAAGTCATAGCC
Found at i:95213359 original size:33 final size:31
Alignment explanation
Indices: 95213276--95213361 Score: 109
Period size: 31 Copynumber: 2.7 Consensus size: 31
95213266 AACCCTTCAT
* * *
95213276 GCATTAAATCCAACAAAAAACAGCAAATATA
1 GCATAAAATCCAACCAAAAACAACAAATATA
*
95213307 GCATGAAATCCAACCAAAAACAACAAATATA
1 GCATAAAATCCAACCAAAAACAACAAATATA
*
95213338 GCATAAAAAATACAACCAAAAACA
1 GCAT--AAAATCCAACCAAAAACA
95213362 TTAAATCTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 32 0.67
33 16 0.33
ACGTcount: A:0.60, C:0.21, G:0.06, T:0.13
Consensus pattern (31 bp):
GCATAAAATCCAACCAAAAACAACAAATATA
Found at i:95213654 original size:33 final size:31
Alignment explanation
Indices: 95213576--95213656 Score: 108
Period size: 31 Copynumber: 2.5 Consensus size: 31
95213566 TTCCTGCGTT
* * *
95213576 AAATCCAACAAAAAACAGCAAATATAGCATG
1 AAATCCAACCAAAAACAACAAATATAGCATA
95213607 AAATCCAACCAAAAACAACAAATATAGCATAAA
1 AAATCCAACCAAAAACAACAAATATAGCAT--A
*
95213640 AAATACAACCAAAAACA
1 AAATCCAACCAAAAACA
95213657 TTAAATCTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 28 0.64
33 16 0.36
ACGTcount: A:0.63, C:0.21, G:0.05, T:0.11
Consensus pattern (31 bp):
AAATCCAACCAAAAACAACAAATATAGCATA
Found at i:95213752 original size:295 final size:295
Alignment explanation
Indices: 95213222--95213806 Score: 1134
Period size: 295 Copynumber: 2.0 Consensus size: 295
95213212 TTACAAATGC
95213222 CGCTAATTTTGGCAGATTTGCAATATACATTTTCACCAATATCGAACCCTTCATGCATTAAATCC
1 CGCTAATTTTGGCAGATTTGCAATATACATTTTCACCAATATCGAACCCTTCATGCATTAAATCC
95213287 AACAAAAAACAGCAAATATAGCATGAAATCCAACCAAAAACAACAAATATAGCATAAAAAATACA
66 AACAAAAAACAGCAAATATAGCATGAAATCCAACCAAAAACAACAAATATAGCATAAAAAATACA
95213352 ACCAAAAACATTAAATCTAAATGATACTTCAAATTCAACGAAAGATATATGATGTAAATTAATAA
131 ACCAAAAACATTAAATCTAAATGATACTTCAAATTCAACGAAAGATATATGATGTAAATTAATAA
*
95213417 ATAAAGTATAACTCAAAATATTCTTATAATAATTTTAAATGTGACAATGTTAAAAATAGTCTTAC
196 ATAAAGTATAACTCAAAATATTCTTACAATAATTTTAAATGTGACAATGTTAAAAATAGTCTTAC
95213482 AACGAGAAAACAAATGTCTAAGATGACGGCAACGT
261 AACGAGAAAACAAATGTCTAAGATGACGGCAACGT
* *
95213517 CGCTAATTTTGGCAGATTTGCAATATACATTTTCACCAATATCGAACCCTTCCTGCGTTAAATCC
1 CGCTAATTTTGGCAGATTTGCAATATACATTTTCACCAATATCGAACCCTTCATGCATTAAATCC
95213582 AACAAAAAACAGCAAATATAGCATGAAATCCAACCAAAAACAACAAATATAGCATAAAAAATACA
66 AACAAAAAACAGCAAATATAGCATGAAATCCAACCAAAAACAACAAATATAGCATAAAAAATACA
95213647 ACCAAAAACATTAAATCTAAATGATACTTCAAATTCAACGAAAGATATATGATGTAAATTAATAA
131 ACCAAAAACATTAAATCTAAATGATACTTCAAATTCAACGAAAGATATATGATGTAAATTAATAA
95213712 ATAAAGTATAACTCAAAATATTCTTACAATAATTTTAAATGTGACAATGTTAAAAATAGTCTTAC
196 ATAAAGTATAACTCAAAATATTCTTACAATAATTTTAAATGTGACAATGTTAAAAATAGTCTTAC
*
95213777 AATGAGAAAACAAATGTCTAAGATGACGGC
261 AACGAGAAAACAAATGTCTAAGATGACGGC
95213807 TTTTGCGACT
Statistics
Matches: 286, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
295 286 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (295 bp):
CGCTAATTTTGGCAGATTTGCAATATACATTTTCACCAATATCGAACCCTTCATGCATTAAATCC
AACAAAAAACAGCAAATATAGCATGAAATCCAACCAAAAACAACAAATATAGCATAAAAAATACA
ACCAAAAACATTAAATCTAAATGATACTTCAAATTCAACGAAAGATATATGATGTAAATTAATAA
ATAAAGTATAACTCAAAATATTCTTACAATAATTTTAAATGTGACAATGTTAAAAATAGTCTTAC
AACGAGAAAACAAATGTCTAAGATGACGGCAACGT
Found at i:95213919 original size:21 final size:21
Alignment explanation
Indices: 95213895--95213937 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
95213885 CCATCGCTGT
95213895 TGCCTCTGACTCTCTTACTGC
1 TGCCTCTGACTCTCTTACTGC
* * *
95213916 TGCCTCTGCCTCTTTTGCTGC
1 TGCCTCTGACTCTCTTACTGC
95213937 T
1 T
95213938 ACCGCTGCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.37, G:0.16, T:0.42
Consensus pattern (21 bp):
TGCCTCTGACTCTCTTACTGC
Found at i:95219454 original size:9 final size:9
Alignment explanation
Indices: 95219440--95219561 Score: 74
Period size: 9 Copynumber: 13.7 Consensus size: 9
95219430 TAAGTATAAT
95219440 TAAGTTATG
1 TAAGTTATG
95219449 TAAGTTATG
1 TAAGTTATG
* * *
95219458 ATATGATATA
1 -TAAGTTATG
*
95219468 T-ATTTATG
1 TAAGTTATG
95219476 T-A-TTATG
1 TAAGTTATG
95219483 TAAGTTATG
1 TAAGTTATG
*
95219492 TAAATTATG
1 TAAGTTATG
95219501 TAAGTTATG
1 TAAGTTATG
* * *
95219510 AAATTTGAAATC
1 TAAGTT---ATG
*
95219522 TAAATTATG
1 TAAGTTATG
95219531 TAAGTTATG
1 TAAGTTATG
95219540 T-A-TTATG
1 TAAGTTATG
*
95219547 TAAATTATG
1 TAAGTTATG
*
95219556 TGAGTT
1 TAAGTT
95219562 GCTAGTGAAC
Statistics
Matches: 87, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
7 12 0.14
8 8 0.09
9 55 0.63
10 6 0.07
12 6 0.07
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:95219509 original size:34 final size:34
Alignment explanation
Indices: 95219444--95219556 Score: 103
Period size: 34 Copynumber: 3.4 Consensus size: 34
95219434 TATAATTAAG
* * * *
95219444 TTATGTAAGTTATG-ATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAATTATGTA-AGTTATGTA
*
95219478 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAA
1 TTATGTAAGTTATGTAAATTATGTAAGTTATG-TA
*
95219513 TT-TG-AA---ATCTAAATTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAATTATGTAAGTTATGTA
*
95219542 TTATGTAAATTATGT
1 TTATGTAAGTTATGT
95219557 GAGTTGCTAG
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
29 3 0.05
30 22 0.34
31 2 0.03
33 2 0.03
34 25 0.39
35 10 0.16
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAATTATGTAAGTTATGTA
Found at i:95223275 original size:40 final size:39
Alignment explanation
Indices: 95223231--95223523 Score: 111
Period size: 40 Copynumber: 7.3 Consensus size: 39
95223221 AGATAAGTAC
*
95223231 CGCTAATGCTTGACCTATAGCGGTGTTTTTCAAGAAACGT
1 CGCTAATGCTTGACCTATAGCGGCGTTTTT-AAGAAACGT
* * * * * * *
95223271 CGCTAATGCTTGATC-ATTTGCGACATTTGTTACATAAGCGC
1 CGCTAATGCTTGACCTA-TAGCGGCGTTT-TTA-AGAAACGT
* * * * *
95223312 CGTTAATAG--TGATCTTTTGCAGCGTTTTT-AGATAA-GT
1 CGCTAAT-GCTTGACCTATAGCGGCGTTTTTAAGA-AACGT
*
95223349 GCCGCTAATGCTTGACCTATAGCGGTGTTTTTCAAGAAACGT
1 --CGCTAATGCTTGACCTATAGCGGCGTTTTT-AAGAAACGT
* * * * * * *
95223391 CGCTAATGCTTGATC-ATTTGCGACATTTGTTACATAAGCGC
1 CGCTAATGCTTGACCTA-TAGCGGCGTTT-TTA-AGAAACGT
* * * * *
95223432 CGTTAATAG--TGATCTTTTGCAGCGTTTTT-AGATAA-GT
1 CGCTAAT-GCTTGACCTATAGCGGCGTTTTTAAGA-AACGT
*
95223469 GCCGCTAATGCTTGACCTATAGCGGTGTTTTTCAAGAAACGT
1 --CGCTAATGCTTGACCTATAGCGGCGTTTTT-AAGAAACGT
*
95223511 CACTAATGCTTGA
1 CGCTAATGCTTGA
95223524 TCATTTACGG
Statistics
Matches: 182, Mismatches: 45, Indels: 52
0.65 0.16 0.19
Matches are distributed among these distances:
37 6 0.03
38 4 0.02
39 18 0.10
40 112 0.62
41 30 0.16
42 12 0.07
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (39 bp):
CGCTAATGCTTGACCTATAGCGGCGTTTTTAAGAAACGT
Found at i:95223361 original size:120 final size:120
Alignment explanation
Indices: 95223205--95223580 Score: 664
Period size: 120 Copynumber: 3.1 Consensus size: 120
95223195 TTACTCAACA
* *
95223205 CTTTTGCGGCATTTTTAGATAAGTACCGCTAATGCTTGACCTATAGCGGTGTTTTTCAAGAAACG
1 CTTTTGCAGCATTTTTAGATAAGTGCCGCTAATGCTTGACCTATAGCGGTGTTTTTCAAGAAACG
95223270 TCGCTAATGCTTGATCATTTGCGACATTTGTTACATAAGCGCCGTTAATAGTGAT
66 TCGCTAATGCTTGATCATTTGCGACATTTGTTACATAAGCGCCGTTAATAGTGAT
*
95223325 CTTTTGCAGCGTTTTTAGATAAGTGCCGCTAATGCTTGACCTATAGCGGTGTTTTTCAAGAAACG
1 CTTTTGCAGCATTTTTAGATAAGTGCCGCTAATGCTTGACCTATAGCGGTGTTTTTCAAGAAACG
95223390 TCGCTAATGCTTGATCATTTGCGACATTTGTTACATAAGCGCCGTTAATAGTGAT
66 TCGCTAATGCTTGATCATTTGCGACATTTGTTACATAAGCGCCGTTAATAGTGAT
*
95223445 CTTTTGCAGCGTTTTTAGATAAGTGCCGCTAATGCTTGACCTATAGCGGTGTTTTTCAAGAAACG
1 CTTTTGCAGCATTTTTAGATAAGTGCCGCTAATGCTTGACCTATAGCGGTGTTTTTCAAGAAACG
* * *
95223510 TCACTAATGCTTGATCATTTACGGA-GTTTGTTACATAAGCGCCGTTAATAGTGAT
66 TCGCTAATGCTTGATCATTTGC-GACATTTGTTACATAAGCGCCGTTAATAGTGAT
*
95223565 CTTTTGCGGCATTTTT
1 CTTTTGCAGCATTTTT
95223581 TTCACAAGTG
Statistics
Matches: 247, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
120 245 0.99
121 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (120 bp):
CTTTTGCAGCATTTTTAGATAAGTGCCGCTAATGCTTGACCTATAGCGGTGTTTTTCAAGAAACG
TCGCTAATGCTTGATCATTTGCGACATTTGTTACATAAGCGCCGTTAATAGTGAT
Found at i:95235996 original size:5 final size:6
Alignment explanation
Indices: 95235981--95236006 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
95235971 AATGTATCTA
95235981 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
95236007 TATGTGGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:95238782 original size:99 final size:99
Alignment explanation
Indices: 95238611--95238903 Score: 532
Period size: 99 Copynumber: 3.0 Consensus size: 99
95238601 ATCTACTGTC
95238611 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAAT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAAT
95238676 ACTAAGTGTAGGCTACTATGTGTATCAGATGATT
66 ACTAAGTGTAGGCTACTATGTGTATCAGATGATT
95238710 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAAT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAAT
95238775 ACTAAGTGTAGGCTACTATGTGTATCAGATGATT
66 ACTAAGTGTAGGCTACTATGTGTATCAGATGATT
* *
95238809 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAAT
** * *
95238874 ACTAAGTGCGGGCTACTATGCGTACCAGAT
66 ACTAAGTGTAGGCTACTATGTGTATCAGAT
95238904 AGCTTTGGCT
Statistics
Matches: 188, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 188 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (99 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAAT
ACTAAGTGTAGGCTACTATGTGTATCAGATGATT
Found at i:95238899 original size:49 final size:49
Alignment explanation
Indices: 95238619--95238904 Score: 356
Period size: 49 Copynumber: 5.8 Consensus size: 49
95238609 TCAGGTCACG
**
95238619 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
95238668 TGTGTAATACTAAGTGTAGGCTACTATGTGTATCAGATGATTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
**
95238718 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
95238767 TGTGTAATACTAAGTGTAGGCTACTATGTGTATCAGATGATTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
*
95238817 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
95238866 TGTGTAGTACTAAGTGCGGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
95238905 GCTTTGGCTA
Statistics
Matches: 196, Mismatches: 39, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 115 0.59
50 81 0.41
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:95241225 original size:13 final size:14
Alignment explanation
Indices: 95241201--95241229 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
95241191 TATTAAAGTG
95241201 ATTATCTTAATATA
1 ATTATCTTAATATA
95241215 ATTAT-TTAATATA
1 ATTATCTTAATATA
95241228 AT
1 AT
95241230 ACTTATCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTATCTTAATATA
Found at i:95241275 original size:39 final size:33
Alignment explanation
Indices: 95241186--95241282 Score: 101
Period size: 39 Copynumber: 2.8 Consensus size: 33
95241176 TAAAATACTG
*
95241186 TTTAATATTAAAGTGATTATCTTAATATAATTA
1 TTTAATATTAAAGTAATTATCTTAATATAATTA
*
95241219 TTTAATA-T-AA-TACTTATCTTAATAGTATTTTATTAA
1 TTTAATATTAAAGTAATTATCTTAATA-TA----ATT-A
95241255 TTTAATATTAAAGTAATTATCTTAATAT
1 TTTAATATTAAAGTAATTATCTTAATAT
95241283 TAAATTAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
30 12 0.23
31 4 0.08
32 1 0.02
33 7 0.13
35 3 0.06
36 8 0.15
37 1 0.02
38 3 0.06
39 13 0.25
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (33 bp):
TTTAATATTAAAGTAATTATCTTAATATAATTA
Found at i:95245758 original size:22 final size:22
Alignment explanation
Indices: 95245733--95245776 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
95245723 TAGTCATATA
95245733 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
95245755 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
95245777 TATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:95245815 original size:19 final size:19
Alignment explanation
Indices: 95245793--95245848 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
95245783 ATTTTTCAAT
95245793 TTTATTTTAATAATAAATA
1 TTTATTTTAATAATAAATA
** *
95245812 TTTATTACAATTATAAATA
1 TTTATTTTAATAATAAATA
95245831 --TA--TTAATAATAAATA
1 TTTATTTTAATAATAAATA
95245846 TTT
1 TTT
95245849 TGTAGTATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
15 10 0.34
17 3 0.10
19 16 0.55
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTATTTTAATAATAAATA
Found at i:95245844 original size:15 final size:15
Alignment explanation
Indices: 95245799--95245846 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 15
95245789 CAATTTTATT
95245799 TTAATAATAAATATTTA
1 TTAATAATAAATA--TA
*
95245816 TTACAATTATAAATATA
1 TT--AATAATAAATATA
95245833 TTAATAATAAATAT
1 TTAATAATAAATAT
95245847 TTTGTAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 11 0.41
17 6 0.22
19 10 0.37
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAATAATAAATATA
Found at i:95246024 original size:14 final size:14
Alignment explanation
Indices: 95246005--95246042 Score: 60
Period size: 13 Copynumber: 2.7 Consensus size: 14
95245995 TCAGAAAAGT
95246005 AAATCATTTTTCAG
1 AAATCATTTTTCAG
95246019 AAATCA-TTTTCAG
1 AAATCATTTTTCAG
95246032 AAAGTCATTTT
1 AAA-TCATTTT
95246043 CAGTGAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.45
14 9 0.41
15 3 0.14
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:95246043 original size:14 final size:13
Alignment explanation
Indices: 95246005--95246045 Score: 64
Period size: 14 Copynumber: 3.0 Consensus size: 13
95245995 TCAGAAAAGT
95246005 AAATCATTTTTCAG
1 AAATCA-TTTTCAG
95246019 AAATCATTTTCAG
1 AAATCATTTTCAG
95246032 AAAGTCATTTTCAG
1 AAA-TCATTTTCAG
95246046 TGAAACAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (13 bp):
AAATCATTTTCAG
Found at i:95249188 original size:3 final size:3
Alignment explanation
Indices: 95249182--95249213 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
95249172 TGATGATGAT
*
95249182 GAG GAG GAG GAG GAG GAG GAG GAG GAA GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
95249214 TAAGCAGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:95251624 original size:18 final size:18
Alignment explanation
Indices: 95251597--95251636 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
95251587 AAATTGTTAT
* *
95251597 TTAAAATAATATTTTCTG
1 TTAAAATAATAATTTCTA
*
95251615 TTAAATTAATAATTTCTA
1 TTAAAATAATAATTTCTA
95251633 TTAA
1 TTAA
95251637 TTTTATGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (18 bp):
TTAAAATAATAATTTCTA
Found at i:95252372 original size:32 final size:32
Alignment explanation
Indices: 95252336--95252400 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
95252326 TTGATCTGCG
*
95252336 AATCTATATGGACTAGTTGGACTGAGCTAAAA
1 AATCTATATGGACTAGTTGAACTGAGCTAAAA
95252368 AATCTATATGGACTAGTTGAACTGAGCTAAAA
1 AATCTATATGGACTAGTTGAACTGAGCTAAAA
95252400 A
1 A
95252401 TTTAGTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (32 bp):
AATCTATATGGACTAGTTGAACTGAGCTAAAA
Found at i:95252501 original size:20 final size:20
Alignment explanation
Indices: 95252473--95252511 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
95252463 AGTTCAAAGC
95252473 AAAAAAAAAT-TATAAAATAA
1 AAAAAAAAATATAT-AAATAA
95252493 AAAATAAAAATATATAAAT
1 AAAA-AAAAATATATAAAT
95252512 TATAAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 10 0.59
22 3 0.18
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAAAAAATATATAAATAA
Found at i:95252508 original size:22 final size:22
Alignment explanation
Indices: 95252473--95252520 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
95252463 AGTTCAAAGC
95252473 AAAA-AAAAATTATAAAATA-A
1 AAAATAAAAATTATAAAATATA
*
95252493 AAAATAAAAATATATAAATTATA
1 AAAATAAAAAT-TATAAAATATA
95252516 AAAAT
1 AAAAT
95252521 CAGTTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 6 0.25
22 8 0.33
23 6 0.25
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAATAAAAATTATAAAATATA
Found at i:95256581 original size:40 final size:40
Alignment explanation
Indices: 95256513--95256720 Score: 150
Period size: 41 Copynumber: 5.2 Consensus size: 40
95256503 GGGGTTTAGC
** * *
95256513 CGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAACA
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAACA
* * * * *
95256552 CGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAACA
** * *
95256592 CGGATATAGTCGTTAGCACAAATGCCTTCGGATCTTAGTC-
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTA-ACA
* * * * * *
95256632 CGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCG
1 CGGATATAGTCAC-TAGCACAAATGCCTTCGGGTCTTAACA
* * * * * *
95256673 CGGATATAGTCGCTTAGTACAAAAGCCTTCGGGACTTAGCC
1 CGGATATAGTCAC-TAGCACAAATGCCTTCGGGTCTTAACA
95256714 CGGATAT
1 CGGATAT
95256721 CATTCGAGTA
Statistics
Matches: 140, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
39 14 0.10
40 59 0.42
41 67 0.48
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (40 bp):
CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAACA
Found at i:95256661 original size:41 final size:41
Alignment explanation
Indices: 95256535--95256720 Score: 234
Period size: 41 Copynumber: 4.6 Consensus size: 41
95256525 CTCGCACAAG
* * * * * * *
95256535 GCCTTCGGGTCTTAACACGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
95256575 GCCTTCGGGACTTAGCCCGGATATAGTCG-TTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
95256615 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
95256656 GCCTTCGGGACTTAGCGCGGATATAGTCGCTTAGTACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
95256697 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
95256721 CATTCGAGTA
Statistics
Matches: 128, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 56 0.44
41 66 0.52
42 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:95256668 original size:81 final size:82
Alignment explanation
Indices: 95256565--95256718 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 82
95256555 ATATGGTCAC
* * *
95256565 TAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCG-TTAGCACAAATGCCTTC-GGATCTT
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGA-CTT
*
95256628 AGTCCGGATGTAGTCGCT
65 AGCCCGGATGTAGTCGCT
* *
95256646 TAGCACAAAAGCCTTCGGGACTTAGCGCGGATATAGTCGCTTAGTACAAAAGCCTTCGGGACTTA
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTA
95256711 GCCCGGAT
66 GCCCGGAT
95256719 ATCATTCGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 36 0.55
82 26 0.40
83 3 0.05
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (82 bp):
TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTA
GCCCGGATGTAGTCGCT
Found at i:95260111 original size:8 final size:8
Alignment explanation
Indices: 95260100--95260141 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
95260090 TTTAAGAAAT
95260100 TAATATAA
1 TAATATAA
95260108 TAATATAA
1 TAATATAA
95260116 TAATATAA
1 TAATATAA
95260124 T--T-TAA
1 TAATATAA
95260129 TAATATAA
1 TAATATAA
95260137 TAATA
1 TAATA
95260142 AAACATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 4 0.13
6 1 0.03
7 1 0.03
8 25 0.81
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAATATAA
Found at i:95260123 original size:13 final size:13
Alignment explanation
Indices: 95260107--95260138 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
95260097 AATTAATATA
95260107 ATAATATAATAAT
1 ATAATATAATAAT
*
95260120 ATAATTTAATAAT
1 ATAATATAATAAT
95260133 ATAATA
1 ATAATA
95260139 ATAAAACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:95260129 original size:21 final size:21
Alignment explanation
Indices: 95260100--95260141 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
95260090 TTTAAGAAAT
95260100 TAATATAATAATATAATAATA
1 TAATATAATAATATAATAATA
*
95260121 TAATTTAATAATATAATAATA
1 TAATATAATAATATAATAATA
95260142 AAACATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATATAATAATATAATAATA
Found at i:95261075 original size:44 final size:44
Alignment explanation
Indices: 95261025--95261113 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
95261015 TGTACAGGGA
95261025 TACTTCGACCTTGAGTCGATGAGGCACTAAT-AGTGTCATACTGT
1 TACTTCGACCTTGAGTCGATGAGGCACT-ATGAGTGTCATACTGT
* * * *
95261069 TACTTCGACTTTGTGTCGATGAGGCACTTTGTGTGTCATACTGT
1 TACTTCGACCTTGAGTCGATGAGGCACTATGAGTGTCATACTGT
95261113 T
1 T
95261114 TCTGTTACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (44 bp):
TACTTCGACCTTGAGTCGATGAGGCACTATGAGTGTCATACTGT
Found at i:95264202 original size:33 final size:34
Alignment explanation
Indices: 95264160--95264231 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
95264150 AGTCCATTAG
* *
95264160 TGATTCAAGAT-AGAATTTTTCTTGTTGATTTAT
1 TGATTCAAGATAAAAATTTTTCCTGTTGATTTAT
95264193 TGATTCAAGATAAAAATTTTTCCTGTTGATTTAT
1 TGATTCAAGATAAAAATTTTTCCTGTTGATTTAT
95264227 TGATT
1 TGATT
95264232 ATGCCGTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 11 0.31
34 25 0.69
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (34 bp):
TGATTCAAGATAAAAATTTTTCCTGTTGATTTAT
Found at i:95267753 original size:8 final size:8
Alignment explanation
Indices: 95267742--95267785 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
95267732 TTTAAGAAAT
95267742 TAATATAA
1 TAATATAA
95267750 TAATAT-A
1 TAATATAA
*
95267757 TTA-AT-A
1 TAATATAA
95267763 TAATATAA
1 TAATATAA
95267771 TAATATAA
1 TAATATAA
95267779 TAATATA
1 TAATATA
95267786 CTAAAACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 5 0.16
7 5 0.16
8 22 0.69
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TAATATAA
Found at i:95267761 original size:16 final size:16
Alignment explanation
Indices: 95267740--95267785 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
95267730 TATTTAAGAA
95267740 ATTAATATAATAATAT
1 ATTAATATAATAATAT
95267756 ATTAATATAAT-ATA-
1 ATTAATATAATAATAT
95267770 A-TAATATAATAATAT
1 ATTAATATAATAATAT
95267785 A
1 A
95267786 CTAAAACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.32
14 4 0.14
15 4 0.14
16 11 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTAATATAATAATAT
Found at i:95267767 original size:13 final size:13
Alignment explanation
Indices: 95267749--95267780 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
95267739 AATTAATATA
*
95267749 ATAATATATTAAT
1 ATAATATAATAAT
95267762 ATAATATAATAAT
1 ATAATATAATAAT
95267775 ATAATA
1 ATAATA
95267781 ATATACTAAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATAATATAATAAT
Done.