Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 77 of 216
Found at i:23567061 original size:9 final size:8
Alignment explanation
Indices: 23567032--23567058 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
23567022 AAATTAAATT
23567032 AAATATTA
1 AAATATTA
23567040 AAATATTA
1 AAATATTA
23567048 AAATATTA
1 AAATATTA
23567056 AAA
1 AAA
23567059 ATAATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAATATTA
Found at i:23573248 original size:148 final size:148
Alignment explanation
Indices: 23572975--23573275 Score: 494
Period size: 148 Copynumber: 2.0 Consensus size: 148
23572965 TCCAGTGTGA
* * *
23572975 GTATCGATACTTTTACCTAGAATGCTAAAATTTCACAAGTCAAAACTTTTTTCATGCTCAAAACA
1 GTATTGATACTTTTACCCAGAATGCTAAAATTTCACAAGTCAAAACATTTTTCATGCTCAAAACA
* * * *
23573040 TATTCCTACTCAACATACAAATAATATCTATTTTAACCAAGCATACTATCATCTTTTAACCATGC
66 TATTCCTACTCAACATACAAATAATACCAAATTAAACCAAGCATACTATCATCTTTTAACCATGC
23573105 TACATGCCATATTAACAC
131 TACATGCCATATTAACAC
*
23573123 GTATTGATACTTTTACCCAGAATGCTAAAATTTCACAAGTTAAAACATTTTTCATGCTCAAAACA
1 GTATTGATACTTTTACCCAGAATGCTAAAATTTCACAAGTCAAAACATTTTTCATGCTCAAAACA
* * *
23573188 TATTCCTACTCAACATACAAATAATGCCAAATTAAACCAAGCATGCTATCATCTTTTAACCATTC
66 TATTCCTACTCAACATACAAATAATACCAAATTAAACCAAGCATACTATCATCTTTTAACCATGC
23573253 TACATGCCATATTAACAC
131 TACATGCCATATTAACAC
*
23573271 ATATT
1 GTATT
23573276 TGTTAAGCAA
Statistics
Matches: 141, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
148 141 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (148 bp):
GTATTGATACTTTTACCCAGAATGCTAAAATTTCACAAGTCAAAACATTTTTCATGCTCAAAACA
TATTCCTACTCAACATACAAATAATACCAAATTAAACCAAGCATACTATCATCTTTTAACCATGC
TACATGCCATATTAACAC
Found at i:23589399 original size:20 final size:20
Alignment explanation
Indices: 23589357--23589413 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
23589347 ATTCATATAT
* **
23589357 ATTTA-TTTTTATTTGCTTT
1 ATTTATTTTTTATTTTCTGG
23589376 ATTTATTTTTTATTTTCTGG
1 ATTTATTTTTTATTTTCTGG
23589396 ATTTATATCTTTTATTTT
1 ATTTAT-T-TTTTATTTT
23589414 ATTTTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 17 0.53
21 1 0.03
22 9 0.28
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (20 bp):
ATTTATTTTTTATTTTCTGG
Found at i:23589432 original size:47 final size:48
Alignment explanation
Indices: 23589333--23589433 Score: 109
Period size: 49 Copynumber: 2.1 Consensus size: 48
23589323 TTATTTTTTA
* * *
23589333 TTTTTATTTTTTGTATTCATATATATTTATTTTTATTTGCTTTATTTAT
1 TTTTTATTTTCTGGATTCATATATATTTATTTTTATTT-CTTTATGTAT
* *
23589382 TTTTTATTTTCTGGATTTATATCT-TTTA-TTTTATTT-TATTATGTACT
1 TTTTTATTTTCTGGATTCATATATATTTATTTTTATTTCT-TTATGTA-T
23589429 TTTTT
1 TTTTT
23589434 GTTATGTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
45 1 0.02
46 6 0.13
47 14 0.31
48 4 0.09
49 20 0.44
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (48 bp):
TTTTTATTTTCTGGATTCATATATATTTATTTTTATTTCTTTATGTAT
Found at i:23600411 original size:26 final size:25
Alignment explanation
Indices: 23600382--23600442 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 25
23600372 GGAAAGGTGA
* *
23600382 TTTTCTTTGTTTTCTTCTTTTCGTT
1 TTTTTTTTGTTTTCTTCTCTTCGTT
* * *
23600407 TTTTTATTTCTTTTTTTCTCTTGGTT
1 TTTTT-TTTGTTTTCTTCTCTTCGTT
*
23600433 TTCTTTTTGT
1 TTTTTTTTGT
23600443 GTATCAAACA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.02, C:0.13, G:0.08, T:0.77
Consensus pattern (25 bp):
TTTTTTTTGTTTTCTTCTCTTCGTT
Found at i:23601278 original size:3 final size:3
Alignment explanation
Indices: 23601272--23601309 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
23601262 ATAATAATAA
23601272 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
23601310 CTACTACTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:23605804 original size:17 final size:18
Alignment explanation
Indices: 23605766--23605805 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
23605756 AAGAAAAGAA
* *
23605766 GAAAAAAAAATCTAGATG
1 GAAAAAAAAATCAAAATG
23605784 GAAAAAAAAATCAAAAT-
1 GAAAAAAAAATCAAAATG
23605801 GAAAA
1 GAAAA
23605806 CCCGCAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.12
Consensus pattern (18 bp):
GAAAAAAAAATCAAAATG
Found at i:23608194 original size:175 final size:175
Alignment explanation
Indices: 23607900--23608621 Score: 1182
Period size: 175 Copynumber: 4.1 Consensus size: 175
23607890 AAGATGGTGA
* * * * * * *
23607900 ATCTTATCTCCCTGAGATTACAGTGGAGCAAAATGAAGCCAGTAATCCTATTTTCCTGATATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* ** *
23607965 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTGGAGTAGATCGCATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAAAGTAGATCACATCAGG
23608030 TCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
131 TCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
*
23608075 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* * *
23608140 AGTGGAGCGGGTTAAAATAAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCACATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAAAGTAGATCACATCAGG
23608205 TCTTATCTCAC-TGAGATTACAGTGGAATAGACCGAAGAATTTCAG
131 TCTTATCTC-CTTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
23608250 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* *
23608315 AGCGGAGCGGGTTAAAATAAAGGATCTTATCTCTC-GAAGTTACAGTAAAGTAGATCACATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAAAGTAGATCACATCAGG
23608379 TCTTATCTTCCTT-AGATTACAGTGGAATAGACCGAAGAATTTCAG
131 TCTTATC-TCCTTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
* * *
23608424 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATTTTCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
*
23608489 A-TCGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAAAGTAGATCGCATCAG
66 AGT-GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAAAGTAGATCACATCAG
* *
23608553 GTCTTATCTCCTTGAGATTACAGTGGAATAGATCGAAGAATTTTAG
130 GTCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
23608599 ATCTTATCTCCCTGAGATTACAG
1 ATCTTATCTCCCTGAGATTACAG
23608622 TGGAATAGAC
Statistics
Matches: 516, Mismatches: 25, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
174 166 0.32
175 349 0.68
176 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (175 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAAAGTAGATCACATCAGG
TCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
Found at i:23608346 original size:44 final size:44
Alignment explanation
Indices: 23608074--23608621 Score: 154
Period size: 44 Copynumber: 12.5 Consensus size: 44
23608064 AAGAATTTCA
**
23608074 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGT
* * * * * *
23608118 AATCCTATCTCCCTAAGATTACAGTGGAGCGGGTT-AAAATAAAG-
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAAT--AGT
* *** * * *
23608162 GATCTTATCTCTCTGA-AGTTACAATAGAGTAGA-T-CACATCAG-
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAAAT-AGT
* * ** ** *
23608204 G-TCTTATCTCACTGAGATTACAGTGGAATAGACCGAAGAAT-TT
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAA-AATAGT
**
23608247 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 --GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGT
* * * *
23608293 AATCCTATCTCCCTGAGATTACAGCGGAGCGGGTT-AAAATAAAG-
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAAT--AGT
* *** * * *
23608337 GATCTTATCTCTC-GA-AGTTACAGTAAAGTAGA-T-CACATCAG-
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAAAT-AGT
* * * ** ** *
23608378 G-TCTTATCTTCCTTAGATTACAGTGGAATAGACCGAAGAAT-TT
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAA-AATAGT
* **
23608421 CAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGT
1 --GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGT
* * * * * *
23608467 AATCCTATTTTCCTGAGATTACATCGGAGCGGATT-AAAATAAAG-
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAAT--AGT
* *** * * *
23608511 GATCTTATCTCTCTGA-AGTTACAGTAAAGTAGATCG--CATCAG-
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAAAT-AGT
* * ** * **
23608553 G-TCTTATCTCCTTGAGATTACAGTGGAATAGATCGAAGAATTTT
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAA-AATAGT
23608597 AGATCTTATCTCCCTGAGATTACAG
1 -GATCTTATCTCCCTGAGATTACAG
23608622 TGGAATAGAC
Statistics
Matches: 362, Mismatches: 106, Indels: 70
0.67 0.20 0.13
Matches are distributed among these distances:
40 9 0.02
41 68 0.19
42 14 0.04
43 30 0.08
44 147 0.41
45 11 0.03
46 83 0.23
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGT
Found at i:23608544 original size:349 final size:350
Alignment explanation
Indices: 23607900--23608621 Score: 1182
Period size: 349 Copynumber: 2.1 Consensus size: 350
23607890 AAGATGGTGA
* * * *
23607900 ATCTTATCTCCCTGAGATTACAGTGGAGCAAAATGAAGCCAGTAATCCTATTTTCCTGATATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAAAATGAAGCCAGTAATCCTATCTCCCTGAGATTAC
* ** *
23607965 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTGGAGTAGATCGCATCAGG
66 AGCGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAAAGTAGATCACATCAGG
23608030 TCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
131 TCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
*
23608095 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGTGGAGCGGGTTAAAATAA
196 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAA
*
23608160 AGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCACATCAGGTCTTATCTCAC-TGAGATTA
261 AGGATCTTATCTCTCTGAAGTTACAATAAAGTAGATCACATCAGGTCTTATCTC-CTTGAGATTA
23608224 CAGTGGAATAGACCGAAGAATTTCAG
325 CAGTGGAATAGACCGAAGAATTTCAG
* * *
23608250 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAAAATGAAGCCAGTAATCCTATCTCCCTGAGATTAC
* *
23608315 AGCGGAGCGGGTTAAAATAAAGGATCTTATCTCTC-GAAGTTACAGTAAAGTAGATCACATCAGG
66 AGCGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAAAGTAGATCACATCAGG
23608379 TCTTATCTTCCTT-AGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
131 TCTTATC-TCCTTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
* * * *
23608443 ACAGCGGAGTAGATTGAAGCTAGTAATCCTATTTTCCTGAGATTACA-TCGGAGCGGATTAAAAT
195 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGT-GGAGCGGATTAAAAT
* *
23608507 AAAGGATCTTATCTCTCTGAAGTTACAGTAAAGTAGATCGCATCAGGTCTTATCTCCTTGAGATT
259 AAAGGATCTTATCTCTCTGAAGTTACAATAAAGTAGATCACATCAGGTCTTATCTCCTTGAGATT
* *
23608572 ACAGTGGAATAGATCGAAGAATTTTAG
324 ACAGTGGAATAGACCGAAGAATTTCAG
23608599 ATCTTATCTCCCTGAGATTACAG
1 ATCTTATCTCCCTGAGATTACAG
23608622 TGGAATAGAC
Statistics
Matches: 346, Mismatches: 23, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
348 2 0.01
349 248 0.72
350 96 0.28
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (350 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAAAATGAAGCCAGTAATCCTATCTCCCTGAGATTAC
AGCGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAAAGTAGATCACATCAGG
TCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAA
AGGATCTTATCTCTCTGAAGTTACAATAAAGTAGATCACATCAGGTCTTATCTCCTTGAGATTAC
AGTGGAATAGACCGAAGAATTTCAG
Found at i:23608671 original size:46 final size:46
Alignment explanation
Indices: 23608549--23608659 Score: 134
Period size: 46 Copynumber: 2.4 Consensus size: 46
23608539 GTAGATCGCA
* ** * *
23608549 TCAGGTCTTATCTCCTTGAGATTACAGTGGAATAGATCGAAGAATT
1 TCAGATCTTATCTCCCAGAGAATACAGTGGAATAGACCGAAGAATT
* * *
23608595 TTAGATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
1 TCAGATCTTATCTCCCAGAGAATACAGTGGAATAGACCGAAGAATT
23608641 TCAGA-CATTATCTCCCAGA
1 TCAGATC-TTATCTCCCAGA
23608660 TAATGTAGTG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 1 0.02
46 57 0.98
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (46 bp):
TCAGATCTTATCTCCCAGAGAATACAGTGGAATAGACCGAAGAATT
Found at i:23608749 original size:50 final size:50
Alignment explanation
Indices: 23608674--23609152 Score: 334
Period size: 50 Copynumber: 9.6 Consensus size: 50
23608664 GTAGTGGAGC
* ** *
23608674 AGATTAAAGCCACAACGGCGAATCTTGTTTCCCTGACATTGCAGTTAGAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAGAA
* * ** * *
23608724 AGATTAAAGCTACAGCAGCGAATCTTAC-TCCCTAAGCGA-TGCAG-TGGATT
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGA-C-ATTGCAGTTAGA-A
* * * * * *
23608774 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAGAA
* * * * * *
23608824 AGATTAAAGCTATAACGGCGAATCTTAC-TCCCCAGGCAGTGCAG-TGGAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCC-GACATTGCAGTTAGAA
* * * *
23608873 CAGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
1 -AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAGAA
* * * *
23608924 ATATTAAAGCTACAACAGCGAATCTTAC-TCCCCAGGCGA-TGCAG-CAGAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCC-GAC-ATTGCAGTTAGAA
* * * * *
23608973 CAGATTAAAGCCACATCAGTGAATCATGCTTCCCCGACATTGCAGTTAAAA
1 -AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAGAA
* * * **
23609024 AGATTAAAGCTACAACAGTGAATCTTAC-TCCCCAGGCGA-TGCAG-CGGAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCC-GAC-ATTGCAGTTAGAA
* * * * * * *
23609073 CATATT-AAGCCACATCGGTGAATCATGCTTCCCCGACATTGCAGTTAAAA
1 -AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAGAA
**
23609123 AGATTAAAGCCACAATGGCGAATCTTACTT
1 AGATTAAAGCCACAACAGCGAATCTTACTT
23609153 TCCAAAGGTT
Statistics
Matches: 328, Mismatches: 78, Indels: 46
0.73 0.17 0.10
Matches are distributed among these distances:
48 1 0.00
49 62 0.19
50 239 0.73
51 26 0.08
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAGAA
Found at i:23608784 original size:100 final size:100
Alignment explanation
Indices: 23608673--23609151 Score: 701
Period size: 100 Copynumber: 4.8 Consensus size: 100
23608663 TGTAGTGGAG
* * * * *
23608673 CAGATTAAAGCCACAACGGCGAATCTTGTTTCCCTGACATTGCAGTTAGAAAGATTAAAGCTACA
1 CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
* * * * *
23608738 GCAGCGAATCTTACTCCCTAAGCGATGCAGTGGAT
66 ACAGCGAATCTTACTCCCCAGGCGATGCAGCGGAA
* * *
23608773 TAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCGGTTAAAAAGATTAAAGCTATA
1 CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
* *
23608838 ACGGCGAATCTTACTCCCCAGGC-AGTGCAGTGGAA
66 ACAGCGAATCTTACTCCCCAGGCGA-TGCAGCGGAA
* *
23608873 CAGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAAATATTAAAGCTACA
1 CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
*
23608938 ACAGCGAATCTTACTCCCCAGGCGATGCAGCAGAA
66 ACAGCGAATCTTACTCCCCAGGCGATGCAGCGGAA
* *
23608973 CAGATTAAAGCCACATCAGTGAATCATGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
1 CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
*
23609038 ACAGTGAATCTTACTCCCCAGGCGATGCAGCGGAA
66 ACAGCGAATCTTACTCCCCAGGCGATGCAGCGGAA
* * *
23609073 CATATT-AAGCCACATCGGTGAATCATGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCCACA
1 CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
**
23609137 ATGGCGAATCTTACT
66 ACAGCGAATCTTACT
23609152 TTCCAAAGGT
Statistics
Matches: 344, Mismatches: 33, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
99 69 0.20
100 274 0.80
101 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (100 bp):
CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
ACAGCGAATCTTACTCCCCAGGCGATGCAGCGGAA
Found at i:23610779 original size:27 final size:27
Alignment explanation
Indices: 23610718--23610784 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 27
23610708 CCTATTTTTC
23610718 ACTACT-TTTTAATTTTAATTTATAAT
1 ACTACTATTTTAATTTTAATTTATAAT
* * * * * *
23610744 AATAATATTTTTATTTTTATTTTTATT
1 ACTACTATTTTAATTTTAATTTATAAT
23610771 ACTACTATTATTAA
1 ACTACTATT-TTAA
23610785 CATTACTTGA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
26 4 0.13
27 23 0.77
28 3 0.10
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (27 bp):
ACTACTATTTTAATTTTAATTTATAAT
Found at i:23614800 original size:27 final size:27
Alignment explanation
Indices: 23614718--23614800 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 27
23614708 GTGTACTCTA
* *
23614718 AAAGGAATGCCTTTGTGCCATATTTTG
1 AAAGGAATGCCTTTGTGGCATATCTTG
* * * **
23614745 AAAAGAATGTCTTTGTAGTGTA-CTTTG
1 AAAGGAATGCCTTTGTGGCATATC-TTG
*
23614772 AAAGGAATGCCTTTGTGGCATATCCTG
1 AAAGGAATGCCTTTGTGGCATATCTTG
23614799 AA
1 AA
23614801 TGGATTGCTT
Statistics
Matches: 41, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (27 bp):
AAAGGAATGCCTTTGTGGCATATCTTG
Found at i:23615074 original size:26 final size:26
Alignment explanation
Indices: 23615043--23615095 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
23615033 GTTTTCACTG
*
23615043 TGTAGGTGTTCGCCTATGAATTGTGA
1 TGTAGGTGTTCACCTATGAATTGTGA
*
23615069 TGTAGGTGTTCACCTATGAATTTTGA
1 TGTAGGTGTTCACCTATGAATTGTGA
23615095 T
1 T
23615096 TGTGTACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.42
Consensus pattern (26 bp):
TGTAGGTGTTCACCTATGAATTGTGA
Found at i:23618250 original size:58 final size:58
Alignment explanation
Indices: 23618160--23618276 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
23618150 AGTGATTCTT
*
23618160 TCTTGGTTAATATGACCAAGTCTCAAATGTTAAAAGTACGCCTTATTAGAGTGAGAAG
1 TCTTGGTTAACATGACCAAGTCTCAAATGTTAAAAGTACGCCTTATTAGAGTGAGAAG
* *
23618218 TCTTGGTTAACATGACCAAGTCTGAAATGTTAAAGGTACGCCTTATTAGAGTGAGAAG
1 TCTTGGTTAACATGACCAAGTCTCAAATGTTAAAAGTACGCCTTATTAGAGTGAGAAG
23618276 T
1 T
23618277 TTTAAGTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (58 bp):
TCTTGGTTAACATGACCAAGTCTCAAATGTTAAAAGTACGCCTTATTAGAGTGAGAAG
Found at i:23624483 original size:16 final size:17
Alignment explanation
Indices: 23624457--23624488 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
23624447 TTTAATTAGA
23624457 TAAATTAATTTTCTAAT
1 TAAATTAATTTTCTAAT
23624474 TAAA-TAATTTTCTAA
1 TAAATTAATTTTCTAA
23624489 ACCAAATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATTAATTTTCTAAT
Found at i:23637534 original size:4 final size:4
Alignment explanation
Indices: 23637509--23637563 Score: 76
Period size: 4 Copynumber: 13.8 Consensus size: 4
23637499 TTAAGTTCAC
* *
23637509 CTCT CTCC CTCT AC-CT CCCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
1 CTCT CTCT CTCT -CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
23637557 CTCT CTC
1 CTCT CTC
23637564 ATAAGTGAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
3 1 0.02
4 44 0.96
5 1 0.02
ACGTcount: A:0.02, C:0.55, G:0.00, T:0.44
Consensus pattern (4 bp):
CTCT
Found at i:23637536 original size:6 final size:6
Alignment explanation
Indices: 23637509--23637563 Score: 76
Period size: 6 Copynumber: 9.2 Consensus size: 6
23637499 TTAAGTTCAC
* *
23637509 CTCTCT CCCTCT AC-CTCC CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
1 CTCTCT CTCTCT -CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
23637557 CTCTCT C
1 CTCTCT C
23637564 ATAAGTGAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
5 1 0.02
6 42 0.95
7 1 0.02
ACGTcount: A:0.02, C:0.55, G:0.00, T:0.44
Consensus pattern (6 bp):
CTCTCT
Found at i:23637540 original size:10 final size:10
Alignment explanation
Indices: 23637509--23637563 Score: 76
Period size: 10 Copynumber: 5.5 Consensus size: 10
23637499 TTAAGTTCAC
*
23637509 CTCTCTCCCT
1 CTCTCTCTCT
*
23637519 CTAC-CTCCCT
1 CT-CTCTCTCT
23637529 CTCTCTCTCT
1 CTCTCTCTCT
23637539 CTCTCTCTCT
1 CTCTCTCTCT
23637549 CTCTCTCTCT
1 CTCTCTCTCT
23637559 CTCTC
1 CTCTC
23637564 ATAAGTGAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
9 1 0.02
10 40 0.95
11 1 0.02
ACGTcount: A:0.02, C:0.55, G:0.00, T:0.44
Consensus pattern (10 bp):
CTCTCTCTCT
Found at i:23639699 original size:25 final size:25
Alignment explanation
Indices: 23639670--23639739 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
23639660 GCACTCTCTC
23639670 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
*
23639695 GAGCCATATAACAAGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
*
23639720 GAGCCATGTAACAGGAAGCT
1 GAGCCATATAACAGGAAGCT
23639740 TATCCGGTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATGT
Found at i:23639867 original size:25 final size:25
Alignment explanation
Indices: 23639813--23639871 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
23639803 GCAACCCCGA
*
23639813 AGAGCTAT-TATTAGGAAGCTTCGG
1 AGAGCCATATATTAGGAAGCTTCGG
*
23639837 ATAGCCATATATTAGGAAG-TTCAGG
1 AGAGCCATATATTAGGAAGCTTC-GG
*
23639862 CGAGCCATAT
1 AGAGCCATAT
23639872 CAGGAAGCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (25 bp):
AGAGCCATATATTAGGAAGCTTCGG
Found at i:23652264 original size:20 final size:20
Alignment explanation
Indices: 23652221--23652260 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
23652211 TATTATATAG
23652221 TTAATTAAGGTTTTAATTAA
1 TTAATTAAGGTTTTAATTAA
23652241 TTAATTAA-GTTTT-ATTAA
1 TTAATTAAGGTTTTAATTAA
23652259 TT
1 TT
23652261 TTAAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.35
19 5 0.25
20 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TTAATTAAGGTTTTAATTAA
Found at i:23653786 original size:21 final size:21
Alignment explanation
Indices: 23653762--23653802 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23653752 TTAAAACTTT
* *
23653762 TCTTCATAATAAATCTAAATA
1 TCTTCAAAATAAATATAAATA
*
23653783 TCTTTAAAATAAATATAAAT
1 TCTTCAAAATAAATATAAAT
23653803 TTTAAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (21 bp):
TCTTCAAAATAAATATAAATA
Found at i:23653946 original size:60 final size:59
Alignment explanation
Indices: 23653837--23653960 Score: 142
Period size: 60 Copynumber: 2.1 Consensus size: 59
23653827 AATCATGTTA
* *
23653837 AAAAATGCAACAAATTTAGACCTCAATGTTTACAAAATTTTCAATTTTAGTTCTAATACT
1 AAAAATGCAACAAATTTAGACCTCAATATTTACAAAATTTTCAATTTTAGTCCTAAT-CT
* * * * * * *
23653897 AAAAATTCAATAAATTTGGCCCTCATTATTTACAAAATTTTTTAA-TTTAGTCCTAGTCT
1 AAAAATGCAACAAATTTAGACCTCAATATTTACAAAA-TTTTCAATTTTAGTCCTAATCT
23653956 AAAAA
1 AAAAA
23653961 GAGCTCTAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
59 7 0.13
60 41 0.76
61 6 0.11
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.38
Consensus pattern (59 bp):
AAAAATGCAACAAATTTAGACCTCAATATTTACAAAATTTTCAATTTTAGTCCTAATCT
Found at i:23659338 original size:39 final size:39
Alignment explanation
Indices: 23659284--23659363 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
23659274 TAGGGATCCT
23659284 AAGGATTAAAAATATAAATAATAGAGCATGTAAAACGTG
1 AAGGATTAAAAATATAAATAATAGAGCATGTAAAACGTG
*
23659323 AAGGATTAAGAATATAAATAATAGAGCATGTAAAACGTG
1 AAGGATTAAAAATATAAATAATAGAGCATGTAAAACGTG
23659362 AA
1 AA
23659364 ATCTATCTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.54, C:0.05, G:0.19, T:0.23
Consensus pattern (39 bp):
AAGGATTAAAAATATAAATAATAGAGCATGTAAAACGTG
Found at i:23661730 original size:269 final size:269
Alignment explanation
Indices: 23661248--23661785 Score: 920
Period size: 269 Copynumber: 2.0 Consensus size: 269
23661238 TCCAAACTTC
* *
23661248 AGCTGCTAAGAGATCAACCCCTTTCAATCTCAAAAATTCAATCGCACTATTTCTTCGTAATTCCT
1 AGCTGCTAAGAGATCAACCCCTTTCAATCTCAAAAATTCAATCGCACCATTTCTCCGTAATTCCT
* *
23661313 TTATTAGATCCTGTCGAACAGTAGGTGCCGATACTGTAGCAAAAGTAATTTTCGCAACACACTAA
66 TTATTAGAGCCCGTCGAACAGTAGGTGCCGATACTGTAGCAAAAGTAATTTTCGCAACACACTAA
*
23661378 AGAGCATCAGCGATAGCTCAAAGTAAATTTGAATCACCTACTCCCTCATTATTACTTTGCTCAAC
131 AGAGCATCAGCGATAGCTCAAAGTAAATTTGAATCACCTACTCCCTCATTATTACTTCGCTCAAC
* *
23661443 ATTAGGTTGTTGAGCACTAGCTGGGTTAAAATTCAGCGTTACTGATTCAGTTTCCTCACAATCCT
196 ATTAGGTTGTTAAGCACTAGCTAGGTTAAAATTCAGCGTTACTGATTCAGTTTCCTCACAATCCT
23661508 CAGTATAAT
261 CAGTATAAT
*
23661517 AGCTGCTAAGAGATCAACCCCTTTCAATCTCAAAAATTCAATCGCACCATTTCTCCGTAATTTCT
1 AGCTGCTAAGAGATCAACCCCTTTCAATCTCAAAAATTCAATCGCACCATTTCTCCGTAATTCCT
*
23661582 TTATTAGAGCCCGTCGAACAGTAGGTGTCCG-TACTGTAGCAGAAGTAA-TTTCTGCAACACACT
66 TTATTAGAGCCCGTCGAACAGTAGGTG-CCGATACTGTAGCAAAAGTAATTTTC-GCAACACACT
*
23661645 AAAGAGCATCAGCGATAGCTCGAAGTAAATTTGAATCACCTACTCCCTCATTATTAGC-TCGCTC
129 AAAGAGCATCAGCGATAGCTCAAAGTAAATTTGAATCACCTACTCCCTCATTATTA-CTTCGCTC
* *
23661709 AACATTAGGTTGTTAAGCACTAGCTAGGTTAACATTCAGCGTTACTGATTCAGTTTCCTTACAAT
193 AACATTAGGTTGTTAAGCACTAGCTAGGTTAAAATTCAGCGTTACTGATTCAGTTTCCTCACAAT
23661774 CCTCAGTATAAT
258 CCTCAGTATAAT
23661786 CATCGCTAGA
Statistics
Matches: 254, Mismatches: 12, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
268 4 0.02
269 246 0.97
270 4 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (269 bp):
AGCTGCTAAGAGATCAACCCCTTTCAATCTCAAAAATTCAATCGCACCATTTCTCCGTAATTCCT
TTATTAGAGCCCGTCGAACAGTAGGTGCCGATACTGTAGCAAAAGTAATTTTCGCAACACACTAA
AGAGCATCAGCGATAGCTCAAAGTAAATTTGAATCACCTACTCCCTCATTATTACTTCGCTCAAC
ATTAGGTTGTTAAGCACTAGCTAGGTTAAAATTCAGCGTTACTGATTCAGTTTCCTCACAATCCT
CAGTATAAT
Found at i:23664669 original size:27 final size:27
Alignment explanation
Indices: 23664615--23664669 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
23664605 ATATATGAAT
*
23664615 TCATTTCAATATCCATATCACATTTCA
1 TCATTTCAATATCCATATCACATCTCA
* *
23664642 TCATTTC-ATATTCCATTTCCCATCTCA
1 TCATTTCAATA-TCCATATCACATCTCA
23664669 T
1 T
23664670 ATTCATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (27 bp):
TCATTTCAATATCCATATCACATCTCA
Found at i:23664678 original size:18 final size:19
Alignment explanation
Indices: 23664647--23664683 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23664637 TTTCATCATT
23664647 TCATATTCCATTTCCCATC
1 TCATATTCCATTTCCCATC
*
23664666 TCATATT-CATTTCTCATC
1 TCATATTCCATTTCCCATC
23664684 ATTGTCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.22, C:0.32, G:0.00, T:0.46
Consensus pattern (19 bp):
TCATATTCCATTTCCCATC
Found at i:23666373 original size:20 final size:20
Alignment explanation
Indices: 23666348--23666387 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23666338 CGTAAAATGA
*
23666348 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
23666368 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
23666388 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:23666377 original size:34 final size:35
Alignment explanation
Indices: 23666333--23666399 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
23666323 CAGTAAAATA
*
23666333 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
23666367 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
23666400 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:23666403 original size:14 final size:15
Alignment explanation
Indices: 23666327--23666403 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
23666317 GATTGCCAGT
* *
23666327 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
23666341 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
23666355 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
23666375 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
23666390 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
23666404 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:23666519 original size:17 final size:18
Alignment explanation
Indices: 23666493--23666534 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
23666483 CATATATTAA
23666493 TATATATT-AATAATTTT
1 TATATATTAAATAATTTT
* *
23666510 TATATTTTAAATTATTTT
1 TATATATTAAATAATTTT
*
23666528 TACATAT
1 TATATAT
23666535 ATTGCAATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATATTAAATAATTTT
Found at i:23668793 original size:17 final size:19
Alignment explanation
Indices: 23668768--23668803 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23668758 TTTTTTTAAA
23668768 ATAATAAATTTTA-AATTT
1 ATAATAAATTTTATAATTT
23668786 ATAA-AAATTTTATAATTT
1 ATAATAAATTTTATAATTT
23668804 TTTTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATAATAAATTTTATAATTT
Found at i:23669866 original size:137 final size:137
Alignment explanation
Indices: 23669620--23669883 Score: 474
Period size: 137 Copynumber: 1.9 Consensus size: 137
23669610 CCTGGCCCGA
23669620 CCCAGGCCAAAAAGTGGTGCCCGAGGCCCGACCCGTTTTCTAAACGGGCCTCGTTTTTTTACCCA
1 CCCAGGCCAAAAAGTGGTGCCCGAGGCCCGACCCGTTTTCTAAACGGGCCTCGTTTTTTTACCCA
23669685 AACCCATATTTAGAGCCTATATTTTTACCCGAACCCTCCCATATTTCGGGCGGACCGTCGGGTAG
66 AACCCATATTTAGAGCCTATATTTTTACCCGAACCCTCCCATATTTCGGGCGGACCGTCGGGTAG
23669750 GGCTGGG
131 GGCTGGG
* * * *
23669757 CCCAGGCCAAAAAGTGGTGCCCGATGCCCGGCCCGTTTTCTAAACGGGCGTCGTTTTTTTGCCCA
1 CCCAGGCCAAAAAGTGGTGCCCGAGGCCCGACCCGTTTTCTAAACGGGCCTCGTTTTTTTACCCA
* *
23669822 AACCCATATTTCGAGCCTATATTTTTACCCGAACCCTCCCATATTTCGGGCGGGCCGTCGGG
66 AACCCATATTTAGAGCCTATATTTTTACCCGAACCCTCCCATATTTCGGGCGGACCGTCGGG
23669884 CCGGGCCGCC
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 121 1.00
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.25
Consensus pattern (137 bp):
CCCAGGCCAAAAAGTGGTGCCCGAGGCCCGACCCGTTTTCTAAACGGGCCTCGTTTTTTTACCCA
AACCCATATTTAGAGCCTATATTTTTACCCGAACCCTCCCATATTTCGGGCGGACCGTCGGGTAG
GGCTGGG
Found at i:23670397 original size:30 final size:31
Alignment explanation
Indices: 23670363--23670422 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
23670353 AAACCTTTTA
*
23670363 TTTTCTCCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTC-CCCTAAAACTTTTACTCCCTTCCCAC
*
23670393 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
23670423 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 18 0.69
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:23673014 original size:24 final size:24
Alignment explanation
Indices: 23672987--23673043 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
23672977 TGCTTCGTTC
*
23672987 TGTTCTGTTCTGTT-TGAATTGCAT
1 TGTTCTGCTCTGTTCTG-ATTGCAT
* * *
23673011 TGTTTTGCTCTGTTCTGTTTGCCT
1 TGTTCTGCTCTGTTCTGATTGCAT
23673035 TGTTCTGCT
1 TGTTCTGCT
23673044 GTACTACCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.05, C:0.18, G:0.21, T:0.56
Consensus pattern (24 bp):
TGTTCTGCTCTGTTCTGATTGCAT
Found at i:23675654 original size:15 final size:15
Alignment explanation
Indices: 23675629--23675663 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
23675619 GACTCTATTT
*
23675629 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
23675643 TAATTAATATTAAGA
1 TAATTAATATTAAGA
23675658 TAATTA
1 TAATTA
23675664 TTAATGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:23677877 original size:424 final size:424
Alignment explanation
Indices: 23677089--23677937 Score: 1680
Period size: 424 Copynumber: 2.0 Consensus size: 424
23677079 AGCCACATTT
23677089 AACCTTTGGTGCCGCCACACCCTTTCACTTTTTTTTCAGCAGTCACTCAACATGATAAATTTGCA
1 AACCTTTGGTGCCGCCACACCCTTTCACTTTTTTTTCAGCAGTCACTCAACATGATAAATTTGCA
23677154 TATCAGGTCCCTGAATACTTTAGATCATTACATTTCAGTCTGGTGCCGCCCGTCAAATTGGCAGG
66 TATCAGGTCCCTGAATACTTTAGATCATTACATTTCAGTCTGGTGCCGCCCGTCAAATTGGCAGG
23677219 CGGCACCAATAAAACTATACCATTTTGGTAAATAATCTAATGGGCATACCATTTCAATTATTAAT
131 CGGCACCAATAAAACTATACCATTTTGGTAAATAATCTAATGGGCATACCATTTCAATTATTAAT
23677284 TTTATTTTTTGTATTATTTAAGTAAAAAAACCATAATTTTATCATATATATAAATTTATAATTTA
196 TTTATTTTTTGTATTATTTAAGTAAAAAAACCATAATTTTATCATATATATAAATTTATAATTTA
23677349 ATAATTTTAAACGAGTTAAACTACATTTTTCTATCTTTAAGGGCATGTCCCGCATTCGCTTGGCA
261 ATAATTTTAAACGAGTTAAACTACATTTTTCTATCTTTAAGGGCATGTCCCGCATTCGCTTGGCA
23677414 AGTCACTATACATTTACAACACGTTTGGTTGGCATGAATAGCCAAACTATTCCTGGATGATTCGA
326 AGTCACTATACATTTACAACACGTTTGGTTGGCATGAATAGCCAAACTATTCCTGGATGATTCGA
23677479 TGATAAGAAGCTATTCATTAGTTTGGTTCACTGA
391 TGATAAGAAGCTATTCATTAGTTTGGTTCACTGA
23677513 AACCTTTGGTGCCGCCACACCCTTTCACTTTTTTTTCAGCAGTCACTCAACATGATAAATTTGCA
1 AACCTTTGGTGCCGCCACACCCTTTCACTTTTTTTTCAGCAGTCACTCAACATGATAAATTTGCA
*
23677578 TATCAGGTCCCTGAATACTTTAGATCATTACATTTCAGTCTGGTGCCGCCCGTCAAATTGGCGGG
66 TATCAGGTCCCTGAATACTTTAGATCATTACATTTCAGTCTGGTGCCGCCCGTCAAATTGGCAGG
23677643 CGGCACCAATAAAACTATACCATTTTGGTAAATAATCTAATGGGCATACCATTTCAATTATTAAT
131 CGGCACCAATAAAACTATACCATTTTGGTAAATAATCTAATGGGCATACCATTTCAATTATTAAT
*
23677708 TTTATTTTTTGTATTATTTAAGTAAAAAAACTATAATTTTATCATATATATAAATTTATAATTTA
196 TTTATTTTTTGTATTATTTAAGTAAAAAAACCATAATTTTATCATATATATAAATTTATAATTTA
23677773 ATAATTTTAAACGAGTTAAACTACATTTTTCTATCTTTAAGGGCATGTCCCGCATTCGCTTGGCA
261 ATAATTTTAAACGAGTTAAACTACATTTTTCTATCTTTAAGGGCATGTCCCGCATTCGCTTGGCA
23677838 AGTCACTATACATTTACAACACGTTTGGTTGGCATGAATAGCCAAACTATTCCTGGATGATTCGA
326 AGTCACTATACATTTACAACACGTTTGGTTGGCATGAATAGCCAAACTATTCCTGGATGATTCGA
23677903 TGATAAGAAGCTATTCATTAGTTTGGTTCACTGA
391 TGATAAGAAGCTATTCATTAGTTTGGTTCACTGA
23677937 A
1 A
23677938 TCCTCCATTC
Statistics
Matches: 423, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
424 423 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (424 bp):
AACCTTTGGTGCCGCCACACCCTTTCACTTTTTTTTCAGCAGTCACTCAACATGATAAATTTGCA
TATCAGGTCCCTGAATACTTTAGATCATTACATTTCAGTCTGGTGCCGCCCGTCAAATTGGCAGG
CGGCACCAATAAAACTATACCATTTTGGTAAATAATCTAATGGGCATACCATTTCAATTATTAAT
TTTATTTTTTGTATTATTTAAGTAAAAAAACCATAATTTTATCATATATATAAATTTATAATTTA
ATAATTTTAAACGAGTTAAACTACATTTTTCTATCTTTAAGGGCATGTCCCGCATTCGCTTGGCA
AGTCACTATACATTTACAACACGTTTGGTTGGCATGAATAGCCAAACTATTCCTGGATGATTCGA
TGATAAGAAGCTATTCATTAGTTTGGTTCACTGA
Found at i:23681210 original size:16 final size:16
Alignment explanation
Indices: 23681189--23681260 Score: 83
Period size: 16 Copynumber: 4.5 Consensus size: 16
23681179 TTGAATTACT
*
23681189 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
23681205 ATTACA-CTTCTATTCC
1 ATTACAGC-TCTATTCC
* *
23681221 ATTAGAGCTCTATTCA
1 ATTACAGCTCTATTCC
* *
23681237 ATTATAACTCTATTCC
1 ATTACAGCTCTATTCC
23681253 ATTACAGC
1 ATTACAGC
23681261 GAACCAAACG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
16 45 0.98
17 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:23681558 original size:31 final size:32
Alignment explanation
Indices: 23681493--23681558 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 32
23681483 GTTAACTAAA
23681493 ATTGTTTAAATAATAATTTAAAAGTTAAAAAT
1 ATTGTTTAAATAATAATTTAAAAGTTAAAAAT
*
23681525 ATTG-TTAAAT-AT-ATTTAACAATTTAAAACAT
1 ATTGTTTAAATAATAATTTAA-AAGTTAAAA-AT
23681556 ATT
1 ATT
23681559 TAAAATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 6 0.19
30 10 0.32
31 11 0.35
32 4 0.13
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (32 bp):
ATTGTTTAAATAATAATTTAAAAGTTAAAAAT
Found at i:23684538 original size:6 final size:7
Alignment explanation
Indices: 23684521--23684546 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23684511 TTATTTTTAA
23684521 AAAAATT
1 AAAAATT
23684528 AAAAATT
1 AAAAATT
23684535 AAAAATT
1 AAAAATT
23684542 AAAAA
1 AAAAA
23684547 AATATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:23686334 original size:199 final size:201
Alignment explanation
Indices: 23685987--23686387 Score: 743
Period size: 199 Copynumber: 2.0 Consensus size: 201
23685977 TTTAAATGGT
23685987 GTTATACAGTCAATGCCACAATACACATACATGATACAATTATATGAGAGCACACACTTAAAACA
1 GTTATACAGTCAATGCCACAATACACATACATGATACAATTATATGAGAGCACACACTTAAAACA
*
23686052 CACTAGATTTTGGCGCGCCCAAGATGTCGGTGAAAAACAAACTTTGATTGAAATAGTAAAATGAA
66 CACTAGATTTTGGCGCGCCCAAGATGTCGGTGAAAAACAAACTTTGATTGAAATAATAAAATGAA
23686117 AACTATAATGTGTTAAGTTCAAACCAATGTGT-A-TTTTTTTTTATAAAGAAGATATAAAAAGAT
131 AACTATAATGTGTTAAGTTCAAACCAATGTGTAACTTTTTTTTTATAAAGAAGATATAAAAAGAT
23686180 GAACTC
196 GAACTC
*
23686186 GTTATACAGTCAATGCCACAATACACATACATGATACAATTATATGAGAGCACACACTTAAAATA
1 GTTATACAGTCAATGCCACAATACACATACATGATACAATTATATGAGAGCACACACTTAAAACA
23686251 CACTAGATTTTGGCGCGCCCAAGATGTCGGTGAAAAACAAACTTTGATTGAAATAATAAAATGAA
66 CACTAGATTTTGGCGCGCCCAAGATGTCGGTGAAAAACAAACTTTGATTGAAATAATAAAATGAA
* *
23686316 AACTATAATGTTTTAAGTTCAAATCAATGTGTAACTTTTTTTTTTATAAAGAAGATATAAAAAGA
131 AACTATAATGTGTTAAGTTCAAACCAATGTGTAAC-TTTTTTTTTATAAAGAAGATATAAAAAGA
23686381 TGAACTC
195 TGAACTC
23686388 TCTAAAATAA
Statistics
Matches: 195, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
199 158 0.81
200 1 0.01
202 36 0.18
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (201 bp):
GTTATACAGTCAATGCCACAATACACATACATGATACAATTATATGAGAGCACACACTTAAAACA
CACTAGATTTTGGCGCGCCCAAGATGTCGGTGAAAAACAAACTTTGATTGAAATAATAAAATGAA
AACTATAATGTGTTAAGTTCAAACCAATGTGTAACTTTTTTTTTATAAAGAAGATATAAAAAGAT
GAACTC
Found at i:23686709 original size:26 final size:27
Alignment explanation
Indices: 23686668--23686720 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
23686658 TGAAAATAGA
* *
23686668 AAAAATACAATTGGAAAAA-TAGGAAG
1 AAAAATAAAATAGGAAAAAGTAGGAAG
23686694 AAAAATAAAATAGGAAAAAGTAGGAAG
1 AAAAATAAAATAGGAAAAAGTAGGAAG
23686721 TTATATGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.64, C:0.02, G:0.21, T:0.13
Consensus pattern (27 bp):
AAAAATAAAATAGGAAAAAGTAGGAAG
Found at i:23688529 original size:62 final size:62
Alignment explanation
Indices: 23688432--23688549 Score: 209
Period size: 62 Copynumber: 1.9 Consensus size: 62
23688422 AATTTCCTAG
**
23688432 AATTCTTAACGATTAGAAGATATTTGCGTATGGTGTACCAATTAATAAGCTTAATGTGTTAT
1 AATTCTTAACGATTAGAAGATATTTGCACATGGTGTACCAATTAATAAGCTTAATGTGTTAT
*
23688494 AATTCTTAACGATTAGAAGATATTTGCACATGGTGTACCAATTAATGAGCTTAATG
1 AATTCTTAACGATTAGAAGATATTTGCACATGGTGTACCAATTAATAAGCTTAATG
23688550 AGTGTTATGT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (62 bp):
AATTCTTAACGATTAGAAGATATTTGCACATGGTGTACCAATTAATAAGCTTAATGTGTTAT
Found at i:23690914 original size:23 final size:23
Alignment explanation
Indices: 23690883--23690928 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
23690873 TTATTAACAT
* *
23690883 TGTTCGTGAACATGTTCGTTTAA
1 TGTTCGTGAACATATTCGATTAA
*
23690906 TGTTTGTGAACATATTCGATTAA
1 TGTTCGTGAACATATTCGATTAA
23690929 GTTAAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (23 bp):
TGTTCGTGAACATATTCGATTAA
Found at i:23691121 original size:48 final size:49
Alignment explanation
Indices: 23691061--23691156 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 49
23691051 AACTGAATAT
* * *
23691061 GAATAAGTTTAAAAATAAACAAGTGAACA-TGAATAGAAGTTTATTCAC
1 GAATAAGCTTAAAAATAAAAAAATGAACAGTGAATAGAAGTTTATTCAC
* *
23691109 GAATAAGCTTAAAAATAAAAAAATGAACAGTGAATAGAGGTTTGTTCA
1 GAATAAGCTTAAAAATAAAAAAATGAACAGTGAATAGAAGTTTATTCA
23691157 TTCAAATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 26 0.62
49 16 0.38
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.26
Consensus pattern (49 bp):
GAATAAGCTTAAAAATAAAAAAATGAACAGTGAATAGAAGTTTATTCAC
Found at i:23693165 original size:37 final size:37
Alignment explanation
Indices: 23693124--23693241 Score: 141
Period size: 36 Copynumber: 3.2 Consensus size: 37
23693114 CTACCTTCAT
** *
23693124 CCGATTTGCTTCCTTGTTTCTTTGCTTTTCTTTTCTG
1 CCGATTTGCTTCCCAGTTTCTTTTCTTTTCTTTTCTG
*
23693161 CCGATTTGC-TCCCAGTTTATTTTCTTTTCTTTTCTG
1 CCGATTTGCTTCCCAGTTTCTTTTCTTTTCTTTTCTG
* * *
23693197 CCGATTTGCTCCCCCCGTTTCTTTTC-TTTCTTTTTCGG
1 CCGATTTGCT-TCCCAGTTTCTTTTCTTTTC-TTTTCTG
23693235 CCGATTT
1 CCGATTT
23693242 ACTCAATTTC
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
36 32 0.46
37 13 0.19
38 25 0.36
ACGTcount: A:0.05, C:0.28, G:0.13, T:0.54
Consensus pattern (37 bp):
CCGATTTGCTTCCCAGTTTCTTTTCTTTTCTTTTCTG
Found at i:23694350 original size:69 final size:69
Alignment explanation
Indices: 23694266--23694404 Score: 199
Period size: 69 Copynumber: 2.0 Consensus size: 69
23694256 TTTGTTGGTT
*
23694266 TGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAAATGTTATT-AGTTTGTTAGTGAGTAGAAGAT
1 TGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAAATGTTATTGA-TTTGTTAGTCAGTAGAAGAT
23694330 GAAAC
65 GAAAC
* * * * * *
23694335 TGTTCTGGCAGTTGTTTTGATTGTCTGCTGGAAATTGTTCTTGATTTGTTAGTCAGTAGAATATG
1 TGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAAATGTTATTGATTTGTTAGTCAGTAGAAGATG
23694400 AAAC
66 AAAC
23694404 T
1 T
23694405 AGAACTTGAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
69 61 0.98
70 1 0.02
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.42
Consensus pattern (69 bp):
TGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAAATGTTATTGATTTGTTAGTCAGTAGAAGATG
AAAC
Found at i:23695633 original size:37 final size:37
Alignment explanation
Indices: 23695590--23695678 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
23695580 ATCATAAATA
*
23695590 AATAAACTAATCAATGTTCAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
23695627 ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
23695664 AATGAACTAATCAAT
1 AATAAACTAATCAAT
23695679 ATATTTATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.35
Consensus pattern (37 bp):
AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
Found at i:23695761 original size:33 final size:33
Alignment explanation
Indices: 23695724--23695796 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
23695714 AAACTTGTAG
* *
23695724 TATACATATACCAACAATTAATTTTAGGTCAAT
1 TATACATACACCAACAATTAATTTTACGTCAAT
23695757 TATACATACACCAACAATTAATTTTACGTCAAT
1 TATACATACACCAACAATTAATTTTACGTCAAT
23695790 TATACAT
1 TATACAT
23695797 GCTTTAATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (33 bp):
TATACATACACCAACAATTAATTTTACGTCAAT
Found at i:23695814 original size:138 final size:138
Alignment explanation
Indices: 23695655--23695940 Score: 538
Period size: 138 Copynumber: 2.1 Consensus size: 138
23695645 AAAACTTTGA
23695655 ACATGCTTTAATGAACTAATCAATATATTTATACGAAATTAAATGTTATAAAAGTTTTAAAACTT
1 ACATGCTTTAATGAACTAATCAATATATTTATACGAAATTAAATGTTATAAAAGTTTTAAAACTT
*
23695720 GTAGT-ATACATATACCAACAATTAATTTTAGGTCAATTATACATACACCAACAATTAATTTTAC
66 G-AATCATACATATACCAACAATTAATTTTAGGTCAATTATACATACACCAACAATTAATTTTAC
23695784 GTCAATTAT
130 GTCAATTAT
23695793 ACATGCTTTAATGAACTAATCAATATATTTATACGAAATTAAATGTTATAAAAGTTTTAAAACTT
1 ACATGCTTTAATGAACTAATCAATATATTTATACGAAATTAAATGTTATAAAAGTTTTAAAACTT
*
23695858 GAATCATACATATACCAACAATTAATTTTAGGTCAATTATACATACACCAACAATTAATTTTAGG
66 GAATCATACATATACCAACAATTAATTTTAGGTCAATTATACATACACCAACAATTAATTTTACG
23695923 TCAATTAT
131 TCAATTAT
23695931 ACATGCTTTA
1 ACATGCTTTA
23695941 TAATTTCTTT
Statistics
Matches: 145, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
137 2 0.01
138 143 0.99
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (138 bp):
ACATGCTTTAATGAACTAATCAATATATTTATACGAAATTAAATGTTATAAAAGTTTTAAAACTT
GAATCATACATATACCAACAATTAATTTTAGGTCAATTATACATACACCAACAATTAATTTTACG
TCAATTAT
Found at i:23695900 original size:33 final size:33
Alignment explanation
Indices: 23695863--23695934 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
23695853 AACTTGAATC
*
23695863 ATACATATACCAACAATTAATTTTAGGTCAATT
1 ATACATACACCAACAATTAATTTTAGGTCAATT
23695896 ATACATACACCAACAATTAATTTTAGGTCAATT
1 ATACATACACCAACAATTAATTTTAGGTCAATT
23695929 ATACAT
1 ATACAT
23695935 GCTTTATAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.35
Consensus pattern (33 bp):
ATACATACACCAACAATTAATTTTAGGTCAATT
Found at i:23699149 original size:25 final size:23
Alignment explanation
Indices: 23699121--23699175 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
23699111 TATTATCAAT
* *
23699121 AATTTTATGAAATTATATATTATTA
1 AATTATATGAAATAAT-TATT-TTA
*
23699146 AATTATATGTAATAATTATTTTA
1 AATTATATGAAATAATTATTTTA
23699169 AATTATA
1 AATTATA
23699176 CAAATTCATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 10 0.37
24 4 0.15
25 13 0.48
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
AATTATATGAAATAATTATTTTA
Found at i:23699183 original size:85 final size:91
Alignment explanation
Indices: 23699000--23699200 Score: 270
Period size: 85 Copynumber: 2.3 Consensus size: 91
23698990 TGATTTTAGT
* *
23699000 AAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 AAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
* * *
23699065 TTTAATATTAATTATTTTAAATTGTAT
65 TGTAATATTAATTATTTTAAATTATAC
* *
23699092 AAATTCATATAAGAAAAATTATTATCAATAATTTTATGAAA-T-TATAT-ATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
23699154 GT-A-A-TAATTATTTTAAATTATAC
66 GTAATATTAATTATTTTAAATTATAC
* *
23699177 AAATTCATGTAAGATAATTTATTA
1 AAATTCATATAAGAAAATTTATTA
23699201 GTTATAATTA
Statistics
Matches: 99, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
85 38 0.38
86 1 0.01
87 1 0.01
88 16 0.16
89 5 0.05
90 1 0.01
91 22 0.22
92 15 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
AAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
GTAATATTAATTATTTTAAATTATAC
Found at i:23699242 original size:47 final size:47
Alignment explanation
Indices: 23699121--23699242 Score: 113
Period size: 47 Copynumber: 2.6 Consensus size: 47
23699111 TATTATCAAT
* * *
23699121 AATTTTATGAAATTATATATTATTAAATTATATGTAATAATTATTTTA
1 AATTTTATCAAATCATATATT-TTAATTTATATGTAATAATTATTTTA
* * *** *
23699169 AATTATA-CAAATTCATGTAAGATAATTTAT-TAGTTATAATTATTTTA
1 AATTTTATCAAA-TCATATATTTTAATTTATAT-GTAATAATTATTTTA
*
23699216 AATTTTATTAAATCATATATTTTAATT
1 AATTTTATCAAATCATATATTTTAATT
23699243 AAAATATATT
Statistics
Matches: 56, Mismatches: 15, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
46 1 0.02
47 41 0.73
48 14 0.25
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (47 bp):
AATTTTATCAAATCATATATTTTAATTTATATGTAATAATTATTTTA
Found at i:23699381 original size:25 final size:26
Alignment explanation
Indices: 23699349--23699403 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
23699339 TTATTAAATT
*
23699349 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
23699374 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
23699399 A-ATAT
1 ATATAT
23699404 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:23699623 original size:45 final size:44
Alignment explanation
Indices: 23699525--23699634 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
23699515 TTTTCCATTA
23699525 TGCTATTACACCTCTATTCC--T---TTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
23699564 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
23699609 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
23699635 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 18 0.31
41 1 0.02
44 14 0.24
45 25 0.43
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:23699634 original size:16 final size:16
Alignment explanation
Indices: 23699615--23699666 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
23699605 GATTTGCTAT
* *
23699615 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
23699631 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
23699647 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
23699663 TACA
1 TACA
23699667 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:23700217 original size:21 final size:21
Alignment explanation
Indices: 23700183--23700236 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
23700173 AATTAATATT
*
23700183 TAAAATTA-TAAAAAAAATCA
1 TAAAAATATTAAAAAAAATCA
* * **
23700203 TAAAAGTATTAAAAAATATTT
1 TAAAAATATTAAAAAAAATCA
23700224 TAAAAATATTAAA
1 TAAAAATATTAAA
23700237 CATATTTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAAAATATTAAAAAAAATCA
Found at i:23700235 original size:9 final size:10
Alignment explanation
Indices: 23700203--23700249 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
23700193 AAAAAAATCA
*
23700203 TAAAAGTATT
1 TAAAAATATT
*
23700213 AAAAAATATTT
1 TAAAAATA-TT
23700224 TAAAAATA-T
1 TAAAAATATT
*
23700233 TAAACATATT
1 TAAAAATATT
23700243 TAAAAAT
1 TAAAAAT
23700250 TATCAAAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
9 8 0.27
10 13 0.43
11 9 0.30
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
TAAAAATATT
Found at i:23701576 original size:22 final size:20
Alignment explanation
Indices: 23701529--23701582 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
23701519 TATTAAATCA
23701529 TTATAATATTTTACATTTTT
1 TTATAATATTTTACATTTTT
*
23701549 TAATAAT-TGTTTACAATTTTTT
1 TTATAATAT-TTTAC-A-TTTTT
23701571 TTATAA-ATTTTA
1 TTATAATATTTTA
23701583 TAGCTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
19 1 0.04
20 11 0.39
21 5 0.18
22 11 0.39
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (20 bp):
TTATAATATTTTACATTTTT
Found at i:23721307 original size:27 final size:27
Alignment explanation
Indices: 23721276--23721330 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
23721266 AATATAATAT
* *
23721276 AATTA-TAAAATAATTAAATTTTACTTA
1 AATTATTAAAAT-ATCAAATTTTAATTA
*
23721303 AATTATTAACATATCAAATTTTAATTA
1 AATTATTAAAATATCAAATTTTAATTA
23721330 A
1 A
23721331 TTTTATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (27 bp):
AATTATTAAAATATCAAATTTTAATTA
Found at i:23724455 original size:35 final size:35
Alignment explanation
Indices: 23724389--23724476 Score: 108
Period size: 35 Copynumber: 2.5 Consensus size: 35
23724379 GTACACGGTT
* *
23724389 AACCATCCAGCACACCAG-ATGCTCAAGTGAGCCA
1 AACCAACCAACACACCAGAATGCTCAAGTGAGCCA
* * *
23724423 GACCAATCAACACACCAGAATGCTCGTA-TGAGCCA
1 AACCAACCAACACACCAGAATGCTC-AAGTGAGCCA
23724458 AACCAACCAACACACCAGA
1 AACCAACCAACACACCAGA
23724477 GTACACTATA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
34 14 0.31
35 30 0.67
36 1 0.02
ACGTcount: A:0.40, C:0.35, G:0.15, T:0.10
Consensus pattern (35 bp):
AACCAACCAACACACCAGAATGCTCAAGTGAGCCA
Found at i:23727858 original size:10 final size:10
Alignment explanation
Indices: 23727843--23727873 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
23727833 TAATGTGATT
23727843 TGAATTGAAA
1 TGAATTGAAA
23727853 TGAATTGAAA
1 TGAATTGAAA
23727863 TGAATTGAAA
1 TGAATTGAAA
23727873 T
1 T
23727874 AGACAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.32
Consensus pattern (10 bp):
TGAATTGAAA
Found at i:23728087 original size:13 final size:13
Alignment explanation
Indices: 23728069--23728094 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23728059 CCCATGTGAA
23728069 CTTAGTAAAAGGT
1 CTTAGTAAAAGGT
23728082 CTTAGTAAAAGGT
1 CTTAGTAAAAGGT
23728095 TAGAGTACGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
CTTAGTAAAAGGT
Found at i:23731525 original size:31 final size:32
Alignment explanation
Indices: 23731469--23731532 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
23731459 TTTTTTAAAA
*
23731469 TTTAAATATATATTTTATATTTTTAAAATTTT
1 TTTAAATATATATTTTATATTTTTAAAAATTT
*
23731501 TTTAGAATATCTA-TTTA-ATTTTTAAAAATTT
1 TTTA-AATATATATTTTATATTTTTAAAAATTT
23731532 T
1 T
23731533 AACATTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 8 0.28
33 7 0.24
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (32 bp):
TTTAAATATATATTTTATATTTTTAAAAATTT
Found at i:23735062 original size:22 final size:22
Alignment explanation
Indices: 23735034--23735089 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
23735024 CTGGAGTTCG
23735034 CAGAGAATGTCAATACTAGGGA
1 CAGAGAATGTCAATACTAGGGA
* * *
23735056 CAGAGAATGTCAGTACTGGGGG
1 CAGAGAATGTCAATACTAGGGA
*
23735078 CAGCGAA-GTCAA
1 CAGAGAATGTCAA
23735090 GAAAAAATAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 4 0.14
22 25 0.86
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (22 bp):
CAGAGAATGTCAATACTAGGGA
Found at i:23738045 original size:23 final size:23
Alignment explanation
Indices: 23738015--23738129 Score: 140
Period size: 23 Copynumber: 4.9 Consensus size: 23
23738005 CGTCATTGGA
23738015 AAAGGATGAATTGACGGAAATGT
1 AAAGGATGAATTGACGGAAATGT
**
23738038 AAAGGATGAATTGACAAAAAATGT
1 AAAGGATGAATTGAC-GGAAATGT
* * * *
23738062 AAAGGAGGAACTAACGAAAATGT
1 AAAGGATGAATTGACGGAAATGT
*
23738085 AAAGGATGAATTGACGGTAATGT
1 AAAGGATGAATTGACGGAAATGT
*
23738108 AAAGGATGAATTGGCGGCAAAT
1 AAAGGATGAATTGACGG-AAAT
23738130 TATCTGAGTA
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
23 56 0.73
24 21 0.27
ACGTcount: A:0.46, C:0.06, G:0.28, T:0.20
Consensus pattern (23 bp):
AAAGGATGAATTGACGGAAATGT
Found at i:23745621 original size:23 final size:23
Alignment explanation
Indices: 23745563--23745626 Score: 101
Period size: 23 Copynumber: 2.7 Consensus size: 23
23745553 ATTGGGAAAT
*
23745563 GATGAATTGACGAAAATGTAAAG
1 GATGAATTGACGGAAATGTAAAG
*
23745586 GATGAATTGACGGTAATGTAAAG
1 GATGAATTGACGGAAATGTAAAG
23745609 GATGAATTGACGGCAAAT
1 GATGAATTGACGG-AAAT
23745627 TTTCTAAGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
23 34 0.92
24 3 0.08
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.23
Consensus pattern (23 bp):
GATGAATTGACGGAAATGTAAAG
Found at i:23747060 original size:29 final size:29
Alignment explanation
Indices: 23747018--23747076 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
23747008 GGGTTATGGG
*
23747018 TGTAAAGTCTGGTAATGCTTCGTAAAGTC
1 TGTAAAGTCTGGTAATGCTTCATAAAGTC
23747047 TGTAAAGTCTGGTAATGCTTCATAAAGTC
1 TGTAAAGTCTGGTAATGCTTCATAAAGTC
23747076 T
1 T
23747077 ATAATAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (29 bp):
TGTAAAGTCTGGTAATGCTTCATAAAGTC
Found at i:23755838 original size:23 final size:25
Alignment explanation
Indices: 23755810--23755856 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
23755800 TTTCTAATCT
*
23755810 CTTCTT-TACTTGA-AATTTTACAC
1 CTTCTTCTACTAGATAATTTTACAC
23755833 CTTCTTGCTACTAGATAATTTTAC
1 CTTCTT-CTACTAGATAATTTTAC
23755857 TTTTCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
25 6 0.30
26 8 0.40
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (25 bp):
CTTCTTCTACTAGATAATTTTACAC
Found at i:23760309 original size:25 final size:25
Alignment explanation
Indices: 23760278--23760435 Score: 101
Period size: 25 Copynumber: 6.4 Consensus size: 25
23760268 GCTGTCTCTC
*
23760278 GAGCCATATAACAGGAAGCTCATAT
1 GAGCCATATAACAGGAAGCTCATAA
* * **
23760303 GAGCCATGTAACAGGAAGCTTATCC
1 GAGCCATATAACAGGAAGCTCATAA
* ** **
23760328 GGGCTGTATAATGGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATAA
* **
23760353 GAGCCATA-ATCAGGAAGCTCATGG
1 GAGCCATATAACAGGAAGCTCATAA
*
23760377 GAGCCA-ATAACAGGTAGCTC-TGAA
1 GAGCCATATAACAGGAAGCTCAT-AA
* *
23760401 GAGTCAT-TAATTAGGAAGCTTCA-AA
1 GAGCCATATAA-CAGGAAGC-TCATAA
*
23760426 TAGCCATATA
1 GAGCCATATA
23760436 CCGGGAAGTT
Statistics
Matches: 96, Mismatches: 30, Indels: 13
0.69 0.22 0.09
Matches are distributed among these distances:
23 2 0.02
24 35 0.36
25 55 0.57
26 4 0.04
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATAA
Found at i:23760371 original size:24 final size:24
Alignment explanation
Indices: 23760341--23760433 Score: 75
Period size: 24 Copynumber: 3.8 Consensus size: 24
23760331 CTGTATAATG
23760341 GGAAGCTCATAAGAGCCATAATCA
1 GGAAGCTCATAAGAGCCATAATCA
**
23760365 GGAAGCTCATGGGAGCCAATAA-CA
1 GGAAGCTCATAAGAGCC-ATAATCA
* * *
23760389 GGTAGCTC-TGAAGAGTCATTAATTA
1 GGAAGCTCAT-AAGAGCCA-TAATCA
*
23760414 GGAAGCTTCA-AATAGCCATA
1 GGAAGC-TCATAAGAGCCATA
23760434 TACCGGGAAG
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
23 2 0.04
24 33 0.62
25 16 0.30
26 2 0.04
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCA
Found at i:23760538 original size:26 final size:27
Alignment explanation
Indices: 23760458--23760541 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 27
23760448 AGCGAGCCAT
* *
23760458 ATCGGGAAACTT-CGGAGAGCCAT-TA
1 ATCGGGAAGCTTACGAAGAGCCATATA
* * * * *
23760483 ATCTGGAAGCTCACAAAGGGCC-TTTA
1 ATCGGGAAGCTTACGAAGAGCCATATA
23760509 ATCGGGAAGCTTACGAAGAGCCATAT-
1 ATCGGGAAGCTTACGAAGAGCCATATA
23760535 ATCGGGA
1 ATCGGGA
23760542 CACTCATAAG
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
25 10 0.22
26 33 0.73
27 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (27 bp):
ATCGGGAAGCTTACGAAGAGCCATATA
Found at i:23768310 original size:26 final size:26
Alignment explanation
Indices: 23768199--23768319 Score: 90
Period size: 26 Copynumber: 4.8 Consensus size: 26
23768189 AACTCCGGAT
* **
23768199 AGCCATATATCGGGAAGTTCA-AGCG
1 AGCCATATATCGGGAAGCTCACAAAG
*
23768224 AGCC--ATATCGGGAAGCTC-CGAAG
1 AGCCATATATCGGGAAGCTCACAAAG
* * * * *
23768247 AGGCATAAATCAGTAAGCTCAGAAAG
1 AGCCATATATCGGGAAGCTCACAAAG
* *
23768273 AGCC-TTTAATCGAGAAGCTCACAAAG
1 AGCCATAT-ATCGGGAAGCTCACAAAG
*
23768299 AGCCATATATCGGGACGCTCA
1 AGCCATATATCGGGAAGCTCA
23768320 TAAGAGTTGC
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
23 17 0.24
25 16 0.23
26 35 0.50
27 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (26 bp):
AGCCATATATCGGGAAGCTCACAAAG
Found at i:23769361 original size:16 final size:13
Alignment explanation
Indices: 23769327--23769354 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23769317 TTTTATTTTA
23769327 TTATTTATCATCT
1 TTATTTATCATCT
23769340 TTATTTATCATCT
1 TTATTTATCATCT
23769353 TT
1 TT
23769355 CCAATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:23771810 original size:54 final size:53
Alignment explanation
Indices: 23771752--23771857 Score: 149
Period size: 54 Copynumber: 2.0 Consensus size: 53
23771742 AGTCCGGTCT
* *
23771752 CAGCCCCTGTCCTCACCCATGTAACTCTCTAAGTAGAGTTATACGGCCGTGTCC
1 CAGCCCATGTCCTCACCCATGTAACTCTCTAAGTAGAGTTATA-GGCCATGTCC
* * * *
23771806 CAGCCCATGTCCTCACCCGTGTAACTCTTTGAGTAGGGTTATAGGCCATGTC
1 CAGCCCATGTCCTCACCCATGTAACTCTCTAAGTAGAGTTATAGGCCATGTC
23771858 ACACACCCGA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 8 0.17
54 38 0.83
ACGTcount: A:0.20, C:0.32, G:0.21, T:0.27
Consensus pattern (53 bp):
CAGCCCATGTCCTCACCCATGTAACTCTCTAAGTAGAGTTATAGGCCATGTCC
Found at i:23776375 original size:25 final size:26
Alignment explanation
Indices: 23776325--23776385 Score: 115
Period size: 25 Copynumber: 2.4 Consensus size: 26
23776315 ATAAAAAATA
23776325 ACCAAAATATTATAATTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTATTT
23776351 ACCAAAATATTATAA-TTTTTTATTT
1 ACCAAAATATTATAATTTTTTTATTT
23776376 ACCAAAATAT
1 ACCAAAATAT
23776386 ACCAAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 20 0.57
26 15 0.43
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (26 bp):
ACCAAAATATTATAATTTTTTTATTT
Found at i:23776554 original size:18 final size:19
Alignment explanation
Indices: 23776526--23776578 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 19
23776516 AAGGAGAGGG
*
23776526 AAAGAAAGAAAGAAAAGAA
1 AAAGAAGGAAAGAAAAGAA
**
23776545 GGAG-AGGAAAG-AAAGAA
1 AAAGAAGGAAAGAAAAGAA
23776562 AAAGAAGGAAAGAAAAG
1 AAAGAAGGAAAGAAAAG
23776579 GAAATGAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 8 0.30
18 13 0.48
19 6 0.22
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAGAAGGAAAGAAAAGAA
Found at i:23780679 original size:3 final size:3
Alignment explanation
Indices: 23780671--23780726 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
23780661 TCTTAATACT
23780671 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
*
23780719 AAT AAC AA
1 AAC AAC AA
23780727 TAATAATAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.68, C:0.30, G:0.00, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:23781011 original size:27 final size:26
Alignment explanation
Indices: 23780973--23781074 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
23780963 AACACGAGTA
*
23780973 GTGCCGCCAATCAGTATGGCACCATTG
1 GTGCCGCCAATCACT-TGGCACCATTG
* * *
23781000 GTGCCACCAATCTCCTTGGCACCATCG
1 GTGCCGCCAATC-ACTTGGCACCATTG
*
23781027 GTGCCGCCAATCACTTTGGCACCTTTG
1 GTGCCGCCAATCAC-TTGGCACCATTG
23781054 GTGCCGCCAATCATCTTGGCA
1 GTGCCGCCAATCA-CTTGGCA
23781075 TGACCAGGGT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 61 0.95
28 2 0.03
ACGTcount: A:0.19, C:0.34, G:0.23, T:0.25
Consensus pattern (26 bp):
GTGCCGCCAATCACTTGGCACCATTG
Found at i:23781155 original size:26 final size:27
Alignment explanation
Indices: 23781126--23781188 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
23781116 TTTTTTTGGT
23781126 ATATTTTGGTAAATAAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
*
23781152 ATATTTGGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
23781179 ATATTTTGGT
1 ATATTTTGGT
23781189 TATTTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 20 0.59
27 14 0.41
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.40
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:23784789 original size:44 final size:44
Alignment explanation
Indices: 23784739--23784828 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
23784729 TGATAGTTAA
23784739 ATCCATCTTTAGTTCTATAGTACAATGACAAATATAAATTGCAT
1 ATCCATCTTTAGTTCTATAGTACAATGACAAATATAAATTGCAT
23784783 ATCCATCTTTAGTTCTATAGTACAATGACAAATATAAATTGCAT
1 ATCCATCTTTAGTTCTATAGTACAATGACAAATATAAATTGCAT
23784827 AT
1 AT
23784829 TAGCCCATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (44 bp):
ATCCATCTTTAGTTCTATAGTACAATGACAAATATAAATTGCAT
Found at i:23785444 original size:16 final size:16
Alignment explanation
Indices: 23785423--23785453 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23785413 ATCAATAATT
*
23785423 TTAAATAATGTTTTAG
1 TTAAATAATGATTTAG
23785439 TTAAATAATGATTTA
1 TTAAATAATGATTTA
23785454 AAAAAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (16 bp):
TTAAATAATGATTTAG
Found at i:23787366 original size:26 final size:26
Alignment explanation
Indices: 23787337--23787392 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
23787327 TAATGAAAGG
* *
23787337 AAAAGAAAAAAAGAAGAAAAAAACAT
1 AAAAGAAAAAAAGAACAAAAAAACAA
* *
23787363 AAAAGAAAAGAAGAACAAAACAACAA
1 AAAAGAAAAAAAGAACAAAAAAACAA
23787389 AAAA
1 AAAA
23787393 ATGTTAAACG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.80, C:0.07, G:0.11, T:0.02
Consensus pattern (26 bp):
AAAAGAAAAAAAGAACAAAAAAACAA
Found at i:23788121 original size:38 final size:38
Alignment explanation
Indices: 23788070--23788145 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
23788060 AATGCGTTAG
23788070 GACACAACGTATCAAATTCTCGATAATGAGCTTTTTAT
1 GACACAACGTATCAAATTCTCGATAATGAGCTTTTTAT
23788108 GACACAACGTATCAAATTCTCGATAATGAGCTTTTTAT
1 GACACAACGTATCAAATTCTCGATAATGAGCTTTTTAT
23788146 TTATGTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (38 bp):
GACACAACGTATCAAATTCTCGATAATGAGCTTTTTAT
Found at i:23788458 original size:4 final size:4
Alignment explanation
Indices: 23788449--23788477 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
23788439 TAATGGACAT
23788449 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
23788478 CATCAAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:23788828 original size:48 final size:43
Alignment explanation
Indices: 23788728--23788842 Score: 117
Period size: 46 Copynumber: 2.6 Consensus size: 43
23788718 GAATATGTAT
*
23788728 ATTATAAAATAAAACAATGTAAGTATGTACATATATATATATGC
1 ATTATAAAATAAAA-AATGTAAGTATGTACATATATATATATGA
* *
23788772 A-TAT-AAATAAAAATATGAATATGTATGTAGATTTATATATATATGA
1 ATTATAAAATAAAAA-ATG--TAAGTATGTACA--TATATATATATGA
*
23788818 ATTATAAAATATAAAAATGTGAGTA
1 ATTATAAAATA-AAAAATGTAAGTA
23788843 ATTATATAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
41 1 0.02
42 11 0.19
43 3 0.05
44 11 0.19
46 17 0.29
47 3 0.05
48 8 0.14
49 4 0.07
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (43 bp):
ATTATAAAATAAAAAATGTAAGTATGTACATATATATATATGA
Found at i:23790519 original size:16 final size:16
Alignment explanation
Indices: 23790498--23790528 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23790488 CACCTAAAAC
23790498 ACACCTCAACCTTATA
1 ACACCTCAACCTTATA
*
23790514 ACACCTCAATCTTAT
1 ACACCTCAACCTTAT
23790529 CTGGATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
ACACCTCAACCTTATA
Found at i:23793314 original size:12 final size:12
Alignment explanation
Indices: 23793297--23793321 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23793287 CTTTGATTCG
23793297 TTCTAAATCATT
1 TTCTAAATCATT
23793309 TTCTAAATCATT
1 TTCTAAATCATT
23793321 T
1 T
23793322 GATTGAAAAT
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:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TTCTAAATCATT
Found at i:23793803 original size:17 final size:21
Alignment explanation
Indices: 23793763--23793808 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
23793753 ATTATTTTAA
23793763 AATTATTTTTCGATCTAAATT
1 AATTATTTTTCGATCTAAATT
23793784 AATTATTTTTC-A-CT-AA-T
1 AATTATTTTTCGATCTAAATT
23793801 AATTATTT
1 AATTATTT
23793809 AATTACTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.36
18 2 0.08
19 2 0.08
20 1 0.04
21 11 0.44
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (21 bp):
AATTATTTTTCGATCTAAATT
Found at i:23798223 original size:139 final size:139
Alignment explanation
Indices: 23798022--23798297 Score: 428
Period size: 139 Copynumber: 2.0 Consensus size: 139
23798012 GGAGAACAAT
* * * * *
23798022 AGGCTATAAGTGGATTTTTAAGCTAAAAAAGAATGGTGATGGGACTATACCCAGATATAAGGCCA
1 AGGCTAGAAGTGGATTTTTAAGCTAAAAAAGAATGATGATGGAAATATACCCAGATACAAGGCCA
23798087 AACT-AGTGGTCAAAGGGTATCTCCAAGAAACTGGTATTGATTTCCAAGAAACTTTTAGCCCTCT
66 AACTGA-TGGTCAAAGGGTATCTCCAAGAAACTGGTATTGATTTCCAAGAAACTTTTAGCCCTCT
23798151 GGTCAAACGA
130 GGTCAAACGA
* * * *
23798161 AGGCTAGAAGTGGATTTTTAATCTAAAAAAGAATGATGATGGAAATATAGCTATATACAAGGCCA
1 AGGCTAGAAGTGGATTTTTAAGCTAAAAAAGAATGATGATGGAAATATACCCAGATACAAGGCCA
* * *
23798226 AACTGATGGTCAAAGGGTATCTCCAAGAAGCTGGTATTGATTTTCAAGAAACTTTTAGTCCTCTG
66 AACTGATGGTCAAAGGGTATCTCCAAGAAACTGGTATTGATTTCCAAGAAACTTTTAGCCCTCTG
23798291 GTCAAAC
131 GTCAAAC
23798298 CAGCTACTAT
Statistics
Matches: 124, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
139 123 0.99
140 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (139 bp):
AGGCTAGAAGTGGATTTTTAAGCTAAAAAAGAATGATGATGGAAATATACCCAGATACAAGGCCA
AACTGATGGTCAAAGGGTATCTCCAAGAAACTGGTATTGATTTCCAAGAAACTTTTAGCCCTCTG
GTCAAACGA
Found at i:23799531 original size:3 final size:3
Alignment explanation
Indices: 23799525--23799631 Score: 142
Period size: 3 Copynumber: 35.7 Consensus size: 3
23799515 AGCAAGTATG
* * * * * * * *
23799525 AAC AAC AAC AAT AGC AAC AAC AAC AAC AGC AGC AGC AGC AGC AGC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
23799573 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
23799621 AAC AAC AAC AA
1 AAC AAC AAC AA
23799632 TAAGAAGTCA
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 98 1.00
ACGTcount: A:0.61, C:0.32, G:0.07, T:0.01
Consensus pattern (3 bp):
AAC
Found at i:23800244 original size:33 final size:35
Alignment explanation
Indices: 23800207--23800303 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
23800197 ATGGTTATAT
23800207 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
23800240 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
23800275 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
23800304 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:23806843 original size:45 final size:45
Alignment explanation
Indices: 23806775--23806865 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
23806765 CTGTCTCGAG
**
23806775 TTTCCAAGATATCTTCCTTCTTATTCTTCTTTTTTTGCTTGTTTA
1 TTTCCAAGATATCTTCCACCTTATTCTTCTTTTTTTGCTTGTTTA
23806820 TTTCCAAGATAT-TTACCACCTTATTCTTCTTTTTTTGCTTGTTTA
1 TTTCCAAGATATCTT-CCACCTTATTCTTCTTTTTTTGCTTGTTTA
23806865 T
1 T
23806866 AATTGTTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 2 0.05
45 41 0.95
ACGTcount: A:0.15, C:0.20, G:0.07, T:0.58
Consensus pattern (45 bp):
TTTCCAAGATATCTTCCACCTTATTCTTCTTTTTTTGCTTGTTTA
Found at i:23818483 original size:16 final size:18
Alignment explanation
Indices: 23818449--23818485 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
23818439 TTATAATATA
*
23818449 ATATATTATATTATCTTT
1 ATATATTATATTATATTT
23818467 ATATATTATA-TA-ATTT
1 ATATATTATATTATATTT
23818483 ATA
1 ATA
23818486 ACACATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 2 0.11
18 10 0.56
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATATTATATTATATTT
Found at i:23821652 original size:16 final size:17
Alignment explanation
Indices: 23821627--23821660 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
23821617 ATCATTTTCT
*
23821627 TTTAATTATAT-AATTA
1 TTTAAATATATCAATTA
23821643 TTTAAATATATCAATTA
1 TTTAAATATATCAATTA
23821660 T
1 T
23821661 AAATTAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAATATATCAATTA
Found at i:23825568 original size:28 final size:28
Alignment explanation
Indices: 23825536--23825593 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
23825526 AATTCTGTCA
23825536 TTTGATTTTTATTTTACGCAATAAATAC
1 TTTGATTTTTATTTTACGCAATAAATAC
23825564 TTTGATTTTTATTTTACGCAATAAATAC
1 TTTGATTTTTATTTTACGCAATAAATAC
23825592 TT
1 TT
23825594 AGTTTCTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (28 bp):
TTTGATTTTTATTTTACGCAATAAATAC
Found at i:23825603 original size:28 final size:28
Alignment explanation
Indices: 23825539--23825604 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
23825529 TCTGTCATTT
*
23825539 GATTTTTATTTTACGCAATAAATACTTT
1 GATTTTTATTTTACGCAATAAATACTTA
23825567 GATTTTTATTTTACGCAATAAATACTTA
1 GATTTTTATTTTACGCAATAAATACTTA
23825595 G-TTTCTTATT
1 GATTT-TTATT
23825605 CTCAATTATG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 3 0.08
28 33 0.92
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.52
Consensus pattern (28 bp):
GATTTTTATTTTACGCAATAAATACTTA
Found at i:23835683 original size:25 final size:25
Alignment explanation
Indices: 23835655--23835750 Score: 124
Period size: 25 Copynumber: 3.8 Consensus size: 25
23835645 TGTGCAACAT
23835655 AAAGGCTTTCTTTACATTTTGCCAC
1 AAAGGCTTTCTTTACATTTTGCCAC
*
23835680 AAAGGCTTTCTTTACATTTCGCCAC
1 AAAGGCTTTCTTTACATTTTGCCAC
*
23835705 AAAGGCTTTCTTTTCATAGATTT-CCAC
1 AAAGGCTTTCTTTACAT---TTTGCCAC
23835732 AAAGG-TTCTCTTTACATTT
1 AAAGGCTT-TCTTTACATTT
23835751 CACAACAATG
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
24 2 0.03
25 40 0.63
26 2 0.03
27 17 0.27
28 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (25 bp):
AAAGGCTTTCTTTACATTTTGCCAC
Found at i:23835744 original size:52 final size:50
Alignment explanation
Indices: 23835655--23835770 Score: 137
Period size: 52 Copynumber: 2.3 Consensus size: 50
23835645 TGTGCAACAT
* * *
23835655 AAAGGCTTTCTTTACATTTTGCCACAAAGGCTTTCTTTACATTTCGCCAC
1 AAAGGCTTTCTTTTCATTTTGCCACAAAGGCTTTCTTTACATTTCACAAC
23835705 AAAGGCTTTCTTTTCATAGATTT-CCACAAAGG-TTCTCTTTACATTTCACAAC
1 AAAGGCTTTCTTTTCAT---TTTGCCACAAAGGCTT-TCTTTACATTTCACAAC
* *
23835757 AATGACTTTCTTTT
1 AAAGGCTTTCTTTT
23835771 TTTTATTTGT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
50 16 0.28
51 2 0.04
52 36 0.63
53 3 0.05
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (50 bp):
AAAGGCTTTCTTTTCATTTTGCCACAAAGGCTTTCTTTACATTTCACAAC
Found at i:23858764 original size:30 final size:29
Alignment explanation
Indices: 23858715--23858777 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 29
23858705 AAATTATTAA
* *
23858715 TTTTTACTTTTCTTTGTTTAATTTTTGTATT
1 TTTTTACCTTTCTTAGTTT-ATTTTT-TATT
23858746 TTTTTACCTTT-TTAGTTTATTTTTTATT
1 TTTTTACCTTTCTTAGTTTATTTTTTATT
23858774 TTTT
1 TTTT
23858778 CCAAATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 8 0.27
29 6 0.20
30 6 0.20
31 10 0.33
ACGTcount: A:0.13, C:0.06, G:0.05, T:0.76
Consensus pattern (29 bp):
TTTTTACCTTTCTTAGTTTATTTTTTATT
Found at i:23859191 original size:15 final size:17
Alignment explanation
Indices: 23859161--23859192 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
23859151 AAATATTTAT
23859161 ACAATTATTATATAATA
1 ACAATTATTATATAATA
23859178 ACAA-TATT-TATAATA
1 ACAATTATTATATAATA
23859193 TATTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
ACAATTATTATATAATA
Found at i:23864897 original size:20 final size:20
Alignment explanation
Indices: 23864869--23864920 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
23864859 AGATGTTAAT
*
23864869 ATTTCTAATGCAAAACCAAA
1 ATTTCTAATGCAAAACAAAA
* **
23864889 ATTTTTAAT-CAGTACAAAA
1 ATTTCTAATGCAAAACAAAA
23864908 ATTTCTAATGCAA
1 ATTTCTAATGCAA
23864921 TATCAAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (20 bp):
ATTTCTAATGCAAAACAAAA
Found at i:23864968 original size:39 final size:40
Alignment explanation
Indices: 23864905--23864990 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 40
23864895 AATCAGTACA
* * * *
23864905 AAAATTTCTAATGCAATATCAAAATATC-AATGCTATATC
1 AAAATTTCTAATACAATATAAAAATATCTAATGCAATACC
** *
23864944 AAAATTTCTAATATGATATAAAAATCTCTAATGCAATACC
1 AAAATTTCTAATACAATATAAAAATATCTAATGCAATACC
23864984 AAAATTT
1 AAAATTT
23864991 TTAAGAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 23 0.59
40 16 0.41
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.34
Consensus pattern (40 bp):
AAAATTTCTAATACAATATAAAAATATCTAATGCAATACC
Found at i:23864987 original size:20 final size:20
Alignment explanation
Indices: 23864869--23864990 Score: 104
Period size: 20 Copynumber: 6.2 Consensus size: 20
23864859 AGATGTTAAT
*
23864869 ATTTCTAATGCAAAACCAAA
1 ATTTCTAATGCAATACCAAA
* * *
23864889 ATTTTTAAT-CAGTACAAAA
1 ATTTCTAATGCAATACCAAA
*
23864908 ATTTCTAATGCAATATCAAA
1 ATTTCTAATGCAATACCAAA
* * *
23864928 ATATC-AATGCTATATCAAA
1 ATTTCTAATGCAATACCAAA
*** **
23864947 ATTTCTAATATGATATAAAA
1 ATTTCTAATGCAATACCAAA
*
23864967 ATCTCTAATGCAATACCAAA
1 ATTTCTAATGCAATACCAAA
23864987 ATTT
1 ATTT
23864991 TTAAGAATAT
Statistics
Matches: 78, Mismatches: 22, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
19 32 0.41
20 46 0.59
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.34
Consensus pattern (20 bp):
ATTTCTAATGCAATACCAAA
Found at i:23866227 original size:27 final size:27
Alignment explanation
Indices: 23866189--23866248 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
23866179 GAATCTACGT
*
23866189 CACATGAACTGGCTCACATGTGCTTGG
1 CACATTAACTGGCTCACATGTGCTTGG
23866216 CACATTAACTGGCTCACATGTGCTTGG
1 CACATTAACTGGCTCACATGTGCTTGG
23866243 CACATT
1 CACATT
23866249 CTCTTTAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (27 bp):
CACATTAACTGGCTCACATGTGCTTGG
Found at i:23867221 original size:19 final size:18
Alignment explanation
Indices: 23867195--23867230 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
23867185 GAAAAATCAT
*
23867195 TTTAAAAAATTCAAAATA
1 TTTAAAAAATCCAAAATA
23867213 TTTATAAAAATCCAAAAT
1 TTTA-AAAAATCCAAAAT
23867231 TTATATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
TTTAAAAAATCCAAAATA
Found at i:23870842 original size:25 final size:25
Alignment explanation
Indices: 23870782--23870844 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
23870772 TCCCGATCAC
23870782 AGCTCTTATGAGCTTCCCGTTATAT
1 AGCTCTTATGAGCTTCCCGTTATAT
**
23870807 AGCTCGAATGAGCTTCCCGTT-TAT
1 AGCTCTTATGAGCTTCCCGTTATAT
*
23870831 GTGCTCTTATGAGC
1 -AGCTCTTATGAGC
23870845 ATTCTCGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 3 0.09
25 29 0.91
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.37
Consensus pattern (25 bp):
AGCTCTTATGAGCTTCCCGTTATAT
Found at i:23878601 original size:25 final size:24
Alignment explanation
Indices: 23878573--23878637 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
23878563 CCAATATATA
23878573 GCTCTTCGAAGCTTCCCGA-TAACTG
1 GCTCTTCG-AGCTTCCCGATTAA-TG
* *
23878598 GCTCTTATGGGCTTCCCGATTAATG
1 GCTCTT-CGAGCTTCCCGATTAATG
*
23878623 GCTCTCCGGAGCTTC
1 GCTCTTC-GAGCTTC
23878638 TAGATATTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
25 28 0.88
26 4 0.12
ACGTcount: A:0.15, C:0.31, G:0.23, T:0.31
Consensus pattern (24 bp):
GCTCTTCGAGCTTCCCGATTAATG
Found at i:23882115 original size:60 final size:60
Alignment explanation
Indices: 23882022--23882143 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
23882012 GGGATCAAAA
23882022 TCACATACCATGCATCAAGAACCAACTTGGTCTAATGCTTTCTACTCAAAAATGAAGTTT
1 TCACATACCATGCATCAAGAACCAACTTGGTCTAATGCTTTCTACTCAAAAATGAAGTTT
*
23882082 TCACATACCATGCATCAAGAATCAACTTGGTCTAATGCTTTCTACTCAAAAATGAAGTTT
1 TCACATACCATGCATCAAGAACCAACTTGGTCTAATGCTTTCTACTCAAAAATGAAGTTT
23882142 TC
1 TC
23882144 TTCCTAGTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.31
Consensus pattern (60 bp):
TCACATACCATGCATCAAGAACCAACTTGGTCTAATGCTTTCTACTCAAAAATGAAGTTT
Found at i:23882948 original size:14 final size:15
Alignment explanation
Indices: 23882931--23882960 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23882921 TCTTTCCATT
23882931 TCTTTCT-TCTTCCC
1 TCTTTCTCTCTTCCC
23882945 TCTTTCTCTCTTCCC
1 TCTTTCTCTCTTCCC
23882960 T
1 T
23882961 TTTATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (15 bp):
TCTTTCTCTCTTCCC
Found at i:23895347 original size:28 final size:28
Alignment explanation
Indices: 23895301--23895354 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
23895291 TCTTAGGACT
* ** *
23895301 TTTCTTTATTTCTTGTTGTTTCGATTTA
1 TTTCTTTATTCCTACTTGTGTCGATTTA
23895329 TTTCTTTATTCCTACTTGTGTCGATT
1 TTTCTTTATTCCTACTTGTGTCGATT
23895355 CATTATCTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.11, C:0.15, G:0.11, T:0.63
Consensus pattern (28 bp):
TTTCTTTATTCCTACTTGTGTCGATTTA
Found at i:23903362 original size:21 final size:21
Alignment explanation
Indices: 23903336--23903377 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23903326 GATGCCAAGC
*
23903336 CCATCTACTTAGATTTTCCCT
1 CCATCTACTTAGAATTTCCCT
*
23903357 CCATCTACTTATAATTTCCCT
1 CCATCTACTTAGAATTTCCCT
23903378 TACTACACGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.33, G:0.02, T:0.43
Consensus pattern (21 bp):
CCATCTACTTAGAATTTCCCT
Found at i:23905781 original size:61 final size:63
Alignment explanation
Indices: 23905710--23905857 Score: 160
Period size: 61 Copynumber: 2.4 Consensus size: 63
23905700 CGTGACCCGA
* * *
23905710 TTGA-AACACGAGA-TTTTTTAAAAAAAAACACGAGAATTTT-GTAACACGATAATAAT-TTTT
1 TTGAGAACACGAAAGTTTTTT-AAAAAAAACACGAGAATTTTAGAAACACGAAAATAATCTTTT
**** *
23905770 TTGAGAACACGAAAGTTTTTTTTTGAAAATACGAGAATTTTAGAAACACGAAAATAATCTTTT
1 TTGAGAACACGAAAGTTTTTTAAAAAAAACACGAGAATTTTAGAAACACGAAAATAATCTTTT
* * *
23905833 TTGAGAACACAAAAATTTTTGAAAA
1 TTGAGAACACGAAAGTTTTTTAAAA
23905858 CGCGGAAAGT
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
60 4 0.06
61 23 0.33
62 20 0.29
63 22 0.32
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (63 bp):
TTGAGAACACGAAAGTTTTTTAAAAAAAACACGAGAATTTTAGAAACACGAAAATAATCTTTT
Found at i:23905833 original size:62 final size:62
Alignment explanation
Indices: 23905734--23905852 Score: 177
Period size: 63 Copynumber: 1.9 Consensus size: 62
23905724 TTTTTAAAAA
* * * *
23905734 AAAACACGAGAATTTTGTAACACGATAATAAT-TTTTTTGAGAACACGAAAGTTTTTTTTTG
1 AAAACACGAGAATTTTGAAACACGAAAATAATCTTTTTTGAGAACACAAAAATTTTTTTTTG
*
23905795 AAAATACGAGAATTTTAGAAACACGAAAATAATCTTTTTTGAGAACACAAAAATTTTT
1 AAAACACGAGAATTTT-GAAACACGAAAATAATCTTTTTTGAGAACACAAAAATTTTT
23905853 GAAAACGCGG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
61 15 0.29
62 14 0.27
63 22 0.43
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (62 bp):
AAAACACGAGAATTTTGAAACACGAAAATAATCTTTTTTGAGAACACAAAAATTTTTTTTTG
Found at i:23905913 original size:17 final size:18
Alignment explanation
Indices: 23905869--23905918 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
23905859 GCGGAAAGTC
23905869 GAAAACTTTT-AAAACACGA
1 GAAAA-TTTTGAAAACAC-A
23905888 GAAAATTTTGAAAACAC-
1 GAAAATTTTGAAAACACA
*
23905905 GAAATTTTTGAAAA
1 GAAAATTTTGAAAA
23905919 AGTGAAAGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 13 0.45
18 4 0.14
19 12 0.41
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.26
Consensus pattern (18 bp):
GAAAATTTTGAAAACACA
Found at i:23906022 original size:20 final size:20
Alignment explanation
Indices: 23905993--23906086 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 20
23905983 AAAATTATTT
23905993 TTTTTAAAAAACATGAATATA
1 TTTTT-AAAAACATGAATATA
* *
23906014 TTTTTAAAAACACG-ACA-A
1 TTTTTAAAAACATGAATATA
* * * * *
23906032 TTCTT-GAAACACGAATTTT
1 TTTTTAAAAACATGAATATA
* * *
23906051 TTTTTTAAAACATGAATTTT
1 TTTTTAAAAACATGAATATA
23906071 TTTTTAAAAACATGAA
1 TTTTTAAAAACATGAA
23906087 CATTTGTGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
17 7 0.12
18 6 0.10
19 6 0.10
20 35 0.59
21 5 0.08
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (20 bp):
TTTTTAAAAACATGAATATA
Done.