Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003836.1 Hibiscus syriacus cultivar Beakdansim tig00008222_pilon, whole genome shotgun sequence
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: 532632
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:1208 original size:183 final size:183
Alignment explanation
Indices: 894--1417 Score: 867
Period size: 183 Copynumber: 2.9 Consensus size: 183
884 CACTTTCAAC
** * * * *
894 ATTATAATAAAATAGGTAAATTTGCAATATAACC-GTAT-AATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGT-TTATGAGCGAATA
* * * * *
957 GGTCTACAACCTATATCGACACTTTTTAATAGTGTGTCGGTACTTTATGTACATATTGGAAGAAA
65 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCACATTGGAATAAA
1022 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGCAACCCATA
130 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGCAACCCATA
1076 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTATGAGCGAATAG
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTATGAGCGAATAG
*
1141 GTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAATAAAA
66 GTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCACATTGGAATAAAA
1206 ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGCAACCCATA
131 ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGCAACCCATA
1259 ATTATAATGTAATAGATAATTTTGTAAT-TAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGG-TTTATGAGCGAATA
*
1323 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTAC-TTATGTCCCCCATTGGAATAA
65 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGT-CCACATTGGAATAA
*
1387 AAATGTGTCGATACCATTTAAAAAAGTGTCG
129 AAATGTGTCGATACGATTTAAAAAAGTGTCG
1418 GTAATTTGAA
Statistics
Matches: 324, Mismatches: 14, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
182 56 0.17
183 257 0.79
184 11 0.03
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (183 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTATGAGCGAATAG
GTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCACATTGGAATAAAA
ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGCAACCCATA
Found at i:4019 original size:23 final size:23
Alignment explanation
Indices: 3988--4051 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
3978 ATAGGTAAAC
*
3988 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
4011 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
4034 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
4052 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:4058 original size:23 final size:23
Alignment explanation
Indices: 3988--4060 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
3978 ATAGGTAAAC
* **
3988 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
4011 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
4034 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
4057 ATAT
1 ATAT
4061 TGTAAAGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:4448 original size:21 final size:23
Alignment explanation
Indices: 4417--4478 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 23
4407 ATAGGTAAAC
*
4417 ATATGATGTAATAGGTAGC-CCT
1 ATATAATGTAATAGGTAGCGCCT
* **
4439 -TATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCCT
4461 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
4479 TGGTTATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 16 0.48
22 1 0.03
23 16 0.48
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCCT
Found at i:4485 original size:23 final size:23
Alignment explanation
Indices: 4439--4487 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
4429 AGGTAGCCCT
*
4439 TATAATGTAATAGGTATCGTTTA
1 TATAATGTAATAGGTATCGGTTA
4462 TATAATGTAATAGGTAGT-GGTTA
1 TATAATGTAATAGGTA-TCGGTTA
4485 TAT
1 TAT
4488 TGTAAAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.43
Consensus pattern (23 bp):
TATAATGTAATAGGTATCGGTTA
Found at i:4491 original size:21 final size:21
Alignment explanation
Indices: 4423--4492 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
4413 AAACATATGA
** *
4423 TGTAATAGGTAGCCCTTATAA
1 TGTAATAGGTAGTGCTTATAT
*
4444 TGTAATAGGTA-TCGTTTATAT
1 TGTAATAGGTAGT-GCTTATAT
*
4465 AATGTAATAGGTAGTGGTTATAT
1 --TGTAATAGGTAGTGCTTATAT
4488 TGTAA
1 TGTAA
4493 AGTTTCTATC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
21 21 0.52
23 18 0.45
24 1 0.03
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (21 bp):
TGTAATAGGTAGTGCTTATAT
Found at i:4880 original size:23 final size:23
Alignment explanation
Indices: 4845--4908 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
4835 ATAGGTAAAC
*
4845 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* * * **
4868 ATATAATGAAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
4891 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
4909 TGGTTATATT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:4915 original size:23 final size:23
Alignment explanation
Indices: 4845--4917 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
4835 ATAGGTAAAC
* **
4845 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
* * *
4868 ATATAATGAAATATGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
4891 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
4914 ATAT
1 ATAT
4918 TGTAAAGTGT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
23 38 0.97
24 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:5023 original size:430 final size:430
Alignment explanation
Indices: 3890--5578 Score: 3135
Period size: 430 Copynumber: 3.9 Consensus size: 430
3880 AATTCGCAGT
*
3890 ACACTGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCATTTTTATAA
1 ACACTGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAA
3955 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
66 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
*
4020 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTTTCTATCCTTTTTATA
131 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
*
4085 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAATATTAATTTTTGAGTGAGTTTTA
196 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATTAATTTTTGAGTGAGTTTTA
4150 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
261 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
4215 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCAA
326 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCAA
4280 ATGAAATTATTAAATC-ATATTGTAGGTGGAAAACATGAA
391 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
4319 ACACTGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAA
1 ACACTGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAA
4384 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCC-T-TATAATGT
66 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
*
4447 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTTTCTATCCTTTTTATA
131 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
*
4512 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAATATTAATTTTTGAGTGAGTTTTA
196 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATTAATTTTTGAGTGAGTTTTA
4577 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
261 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
4642 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCAA
326 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCAA
4707 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
4747 ACACTGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAA
1 ACACTGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAA
*
4812 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGA
66 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
*
4877 AATATGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
131 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
* *
4942 AAAGTGTCCATACTTTTTTCAATGTGGAAAACATTAATTTAAGGTT-ATCTTTTGAGTGAGTTTT
196 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATTAAT-TTTTGAGTGAGTTTT
5006 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
260 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
*
5071 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
325 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCA
5136 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
390 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
*
5177 ACAATGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTT-AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
5242 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATAT-ATG
65 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
5306 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCC-TTTTAT
130 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
*
5370 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT-ATCTTTTGAGTGAGTTT
195 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATTAAT-TTTTGAGTGAGTTT
* *
5434 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTGCGATATATATTAT
259 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTAT
* * *
5499 TATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATC-AATAA-TTTTTGTGC
324 TATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGC
5562 AAATGAAATTATTAAAT
389 AAATGAAATTATTAAAT
5579 TAAATAATTC
Statistics
Matches: 1239, Mismatches: 16, Indels: 12
0.98 0.01 0.01
Matches are distributed among these distances:
427 310 0.25
428 148 0.12
429 300 0.24
430 364 0.29
431 117 0.09
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (430 bp):
ACACTGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAA
AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGATTAATTTTTGAGTGAGTTTTA
AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCAA
ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:5309 original size:22 final size:23
Alignment explanation
Indices: 5276--5338 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
5266 ATAGGTAAAC
*
5276 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
5299 ATAT-ATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
5321 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
5339 TGGTTATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 19 0.54
23 16 0.46
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:5345 original size:23 final size:22
Alignment explanation
Indices: 5276--5352 Score: 77
Period size: 23 Copynumber: 3.5 Consensus size: 22
5266 ATAGGTAAAC
**
5276 ATATGATGTAATAGGTAGCCCTT
1 ATAT-ATGTAATAGGTAGTGCTT
*
5299 ATATATGTAATAGGTA-TCGTTT
1 ATATATGTAATAGGTAGT-GCTT
*
5321 ATATAATGTAATAGGTAGTGGTT
1 ATAT-ATGTAATAGGTAGTGCTT
5344 ATAT-TGTAA
1 ATATATGTAA
5353 AGTGTCTATC
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
21 5 0.11
22 18 0.38
23 23 0.49
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (22 bp):
ATATATGTAATAGGTAGTGCTT
Found at i:5565 original size:857 final size:857
Alignment explanation
Indices: 3890--5578 Score: 3145
Period size: 857 Copynumber: 2.0 Consensus size: 857
3880 AATTCGCAGT
3890 ACACTGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCATTTTTATAA
1 ACACTGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCATTTTTATAA
*
3955 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
66 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGA
*
4020 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTTTCTATCCTTTTTATA
131 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
* *
4085 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAATATTAATTTTTGAGTGAGTTTTA
196 AAAGTGTCCATACTTTTTTCAATGTGGAAAACATTAATTTAAGATTAATTTTTGAGTGAGTTTTA
4150 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
261 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
4215 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCAA
326 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCAA
*
4280 ATGAAATTATTAAATCATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAATTGAAACATAAA
391 ATGAAATTATTAAATCATATTGTAGGTGGAAAACATGAAACAATGTTAAAAAATTGAAACATAAA
4345 TTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
456 TTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
4410 GGTAAACATATGATGTAATAGGTAGCCCTTATAATGTAATAGGTATCGTTTATATAATGTAATAG
521 GGTAAACATATGATGTAATAGGTAGCCCTTATAATGTAATAGGTATCGTTTATATAATGTAATAG
*
4475 GTAGTGGTTATATTGTAAAGTTTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGA
586 GTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGA
*
4540 AAACATTAATTTAATATTAATTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTC
651 AAACATTAATTTAAGATTAATTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTC
*
4605 TAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATATTTT
716 TAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTT
4670 ATAAAATATAAAAACAATCAAATAATTTTTTCTGCAAATGAAATTATTAAATCAATATTGTAGGT
781 ATAAAATATAAAAACAATCAAATAATTTTTTCTGCAAATGAAATTATTAAATCAATATTGTAGGT
4735 GGAAAACATGAA
846 GGAAAACATGAA
*
4747 ACACTGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAA
1 ACACTGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCATTTTTATAA
4812 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGA
66 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGA
*
4877 AATATGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
131 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
*
4942 AAAGTGTCCATACTTTTTTCAATGTGGAAAACATTAATTTAAGGTT-ATCTTTTGAGTGAGTTTT
196 AAAGTGTCCATACTTTTTTCAATGTGGAAAACATTAATTTAAGATTAAT-TTTTGAGTGAGTTTT
5006 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
260 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
*
5071 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
325 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCA
5136 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACAATGTTAAAAAAATTGAAACAT
390 AATGAAATTATTAAATC-ATATTGTAGGTGGAAAACATGAAACAATGTT-AAAAAATTGAAACAT
5201 AAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA
453 AAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA
5266 ATAGGTAAACATATGATGTAATAGGTAGCCCTTATATATGTAATAGGTATCGTTTATATAATGTA
518 ATAGGTAAACATATGATGTAATAGGTAGCCCTTATA-ATGTAATAGGTATCGTTTATATAATGTA
5331 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCC-TTTTATAAAAGTGTCCATACTTTTTTCACTG
582 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
5395 TGGAAAACATTAATTTAAGGTT-ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
647 TGGAAAACATTAATTTAAGATTAAT-TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
* *
5459 GCGTCTAATGATTTATTTTTTACGTTGCGATATATATTATTATTAAATTAAAAATTCTAAATATT
711 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAAT
* *
5524 ATTTTATAAAATATCAAAACAATC-AATAA-TTTTTGTGCAAATGAAATTATTAAAT
776 ATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCAAATGAAATTATTAAAT
5579 TAAATAATTC
Statistics
Matches: 810, Mismatches: 17, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
856 2 0.00
857 420 0.52
858 37 0.05
859 291 0.36
860 60 0.07
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (857 bp):
ACACTGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCATTTTTATAA
AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGA
AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
AAAGTGTCCATACTTTTTTCAATGTGGAAAACATTAATTTAAGATTAATTTTTGAGTGAGTTTTA
AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTCTGCAA
ATGAAATTATTAAATCATATTGTAGGTGGAAAACATGAAACAATGTTAAAAAATTGAAACATAAA
TTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
GGTAAACATATGATGTAATAGGTAGCCCTTATAATGTAATAGGTATCGTTTATATAATGTAATAG
GTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGA
AAACATTAATTTAAGATTAATTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTC
TAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTT
ATAAAATATAAAAACAATCAAATAATTTTTTCTGCAAATGAAATTATTAAATCAATATTGTAGGT
GGAAAACATGAA
Found at i:5647 original size:25 final size:25
Alignment explanation
Indices: 5613--5663 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
5603 ACAACAAATC
*
5613 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
5638 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
5663 A
1 A
5664 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:5933 original size:18 final size:18
Alignment explanation
Indices: 5912--5948 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
5902 GTAATTGGAG
5912 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
5930 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
5948 T
1 T
5949 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:5956 original size:24 final size:24
Alignment explanation
Indices: 5904--5950 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
5894 TTTCATATGT
* *
5904 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
5928 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
5951 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:6250 original size:39 final size:39
Alignment explanation
Indices: 6207--6293 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
6197 TCCGATGCTC
*
6207 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
6246 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
6285 ATCAAAATC
1 ATCAAAATC
6294 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:6650 original size:23 final size:23
Alignment explanation
Indices: 6619--6682 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
6609 ATAGGTAAAC
*
6619 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
6642 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
6665 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
6683 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:6689 original size:23 final size:23
Alignment explanation
Indices: 6619--6691 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
6609 ATAGGTAAAC
* **
6619 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
6642 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
6665 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
6688 ATAT
1 ATAT
6692 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:14353 original size:40 final size:40
Alignment explanation
Indices: 14298--14374 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
14288 TACAACTTAC
*
14298 AAGTTCACTTCACCTCAAGCTCGTGTGTGTGTGTGTGTGT
1 AAGTTCACTTCACCTCAAGCACGTGTGTGTGTGTGTGTGT
14338 AAGTTCACTTCACCTCAAGCACGTGTGTGTGTGTGTG
1 AAGTTCACTTCACCTCAAGCACGTGTGTGTGTGTGTG
14375 AAAGATCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.17, C:0.21, G:0.27, T:0.35
Consensus pattern (40 bp):
AAGTTCACTTCACCTCAAGCACGTGTGTGTGTGTGTGTGT
Found at i:24786 original size:3 final size:3
Alignment explanation
Indices: 24766--24840 Score: 57
Period size: 3 Copynumber: 25.7 Consensus size: 3
24756 TTTTCATTTT
* * *
24766 TTA TT- TTA TT- TATA TTA TTA TTA TTA TAA TTA TTA TAA TTA TAA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
24810 TTA TAA TAA TAA TTA TTA TTA ATA -TA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24841 TAATATTACA
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
2 5 0.08
3 53 0.90
4 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:24806 original size:15 final size:15
Alignment explanation
Indices: 24775--24830 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
24765 TTTATTTTAT
*
24775 TTAT-ATTATTATTA
1 TTATAATTATTATAA
24789 TTATAATTATTATAA
1 TTATAATTATTATAA
*
24804 TTATAATTATAATAA
1 TTATAATTATTATAA
* *
24819 TAATTATTATTA
1 TTATAATTATTA
24831 ATATATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 4 0.11
15 32 0.89
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATAATTATTATAA
Found at i:25244 original size:6 final size:6
Alignment explanation
Indices: 25233--25289 Score: 54
Period size: 6 Copynumber: 10.5 Consensus size: 6
25223 CGAGCAAGGA
*
25233 AGACAG AGACAG AGACAG AGACA- A-A-AA AGACAG AGACA- A-A-AG
1 AGACAG AGACAG AGACAG AGACAG AGACAG AGACAG AGACAG AGACAG
*
25275 AGACAA AGACAG AGA
1 AGACAG AGACAG AGA
25290 GAAAAGAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
3 2 0.05
4 4 0.10
5 4 0.10
6 32 0.76
ACGTcount: A:0.60, C:0.14, G:0.26, T:0.00
Consensus pattern (6 bp):
AGACAG
Found at i:25265 original size:15 final size:15
Alignment explanation
Indices: 25245--25285 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
25235 ACAGAGACAG
25245 AGACAGAGACAAAAA
1 AGACAGAGACAAAAA
*
25260 AGACAGAGACAAAAG
1 AGACAGAGACAAAAA
*
25275 AGACAAAGACA
1 AGACAGAGACA
25286 GAGAGAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.63, C:0.15, G:0.22, T:0.00
Consensus pattern (15 bp):
AGACAGAGACAAAAA
Found at i:25270 original size:27 final size:24
Alignment explanation
Indices: 25232--25298 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 24
25222 GCGAGCAAGG
25232 AAGACAGAGACAGAGACAGAGACAAAA
1 AAGACAGAGACA-A-A-AGAGACAAAA
25259 AAGACAGAGACAAAAGAGAC---A
1 AAGACAGAGACAAAAGAGACAAAA
*
25280 AAGACAGAGAGAAAAGAGA
1 AAGACAGAGACAAAAGAGA
25299 GAGACAGAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
21 19 0.49
24 6 0.15
25 1 0.03
26 1 0.03
27 12 0.31
ACGTcount: A:0.61, C:0.12, G:0.27, T:0.00
Consensus pattern (24 bp):
AAGACAGAGACAAAAGAGACAAAA
Found at i:26283 original size:13 final size:13
Alignment explanation
Indices: 26267--26313 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
26257 ATATAATAAA
26267 TAAATATTTATTT
1 TAAATATTTATTT
*
26280 TAAATAAATTATTT
1 TAAAT-ATTTATTT
26294 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
26307 TCAATAT
1 TAAATAT
26314 CAAAGAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:37994 original size:16 final size:16
Alignment explanation
Indices: 37968--38012 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
37958 TTTGAATACA
*
37968 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
37985 -TTCAATTTATTTAAG
1 ATTCAATTTATTTAAG
38000 ATTCAATTTATTT
1 ATTCAATTTATTT
38013 TTGAAAATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 3 0.12
16 23 0.88
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:38900 original size:83 final size:83
Alignment explanation
Indices: 38761--39603 Score: 1560
Period size: 83 Copynumber: 10.2 Consensus size: 83
38751 GAATAACTGC
*
38761 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAATCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
38826 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
*
38844 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAATCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
38909 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
*
38927 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAATCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
38992 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
39010 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
*
39075 CATTGAATTTAGAAGATG
66 CATTGAATTTGGAAGATG
*
39093 AATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
39158 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
*
39176 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGACAGAACCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
*
39241 CATTGAATTTGAAAGATG
66 CATTGAATTTGGAAGATG
*
39259 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGACAGAACCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
39324 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
*
39342 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
* *
39407 CATTGAATTTGAAAGATA
66 CATTGAATTTGGAAGATG
* *
39425 AATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
39490 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
*
39508 AATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
39573 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
39591 AATTTGCTCATAG
1 AATTTGCTCATAG
39604 TAGAAATAAA
Statistics
Matches: 743, Mismatches: 17, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 743 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (83 bp):
AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
CATTGAATTTGGAAGATG
Found at i:40583 original size:113 final size:113
Alignment explanation
Indices: 40385--40837 Score: 714
Period size: 113 Copynumber: 4.0 Consensus size: 113
40375 TAGCAAAGAT
*
40385 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
40450 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
40498 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
40563 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * * * *
40611 TCAGATCCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATC
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTAGAGTTCATAATGAGAAGAA--C-TCATC
* *
40676 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTCTTCAACCTTTTGC
63 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
40727 TCAAATCTATCACTTGA-GGAGCAGCTTTTCCAG--AGAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTAG-AGTTCATAATGAGAAGAACTCATCTG
* * *
40789 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
40838 ATAATTCTAT
Statistics
Matches: 315, Mismatches: 21, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
111 51 0.16
112 1 0.00
113 164 0.52
114 18 0.06
115 13 0.04
116 68 0.22
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (113 bp):
TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:41144 original size:3 final size:3
Alignment explanation
Indices: 41124--41201 Score: 90
Period size: 3 Copynumber: 26.7 Consensus size: 3
41114 TTTTCATTTT
* *
41124 TTA TT- TTA TT- TATA TTA TTA TTA TTA TAA TTA TTA TTA TTA TAA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
41168 TTA TTA TTA TAA TTA TTA TTA TTA ATA -TA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
41202 TAATATTACA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
2 5 0.08
3 58 0.91
4 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:41155 original size:12 final size:12
Alignment explanation
Indices: 41136--41209 Score: 89
Period size: 12 Copynumber: 6.2 Consensus size: 12
41126 ATTTTATTTA
*
41136 TATTATTATTAT
1 TATTATAATTAT
* *
41148 TATAATTATTAT
1 TATTATAATTAT
41160 TATTATAATTAT
1 TATTATAATTAT
41172 TATTATAATTAT
1 TATTATAATTAT
41184 TATTATTAATATAT
1 TATTA-TAAT-TAT
41198 TATT-TAA-TAT
1 TATTATAATTAT
41208 TA
1 TA
41210 CAAGCCCAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
10 5 0.09
12 41 0.72
13 4 0.07
14 7 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATAATTAT
Found at i:41625 original size:21 final size:23
Alignment explanation
Indices: 41600--41689 Score: 98
Period size: 21 Copynumber: 4.0 Consensus size: 23
41590 AGGAAGACAG
41600 AGACAGAGACAGAGACA-A-AAA
1 AGACAGAGACAGAGACAGAGAAA
*
41621 AGACAGAGACAGAGACAGAGACA
1 AGACAGAGACAGAGACAGAGAAA
41644 A-A-AGAGACAGAGACAGAGAGAAA
1 AGACAGAGACAGAGAC--AGAGAAA
* * *
41667 AGAGAGAGACAGAGCCGGAGAAA
1 AGACAGAGACAGAGACAGAGAAA
41690 GAAAAAACAG
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
21 29 0.49
22 2 0.03
23 16 0.27
24 1 0.02
25 11 0.19
ACGTcount: A:0.56, C:0.13, G:0.31, T:0.00
Consensus pattern (23 bp):
AGACAGAGACAGAGACAGAGAAA
Found at i:41631 original size:27 final size:27
Alignment explanation
Indices: 41593--41662 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
41583 GCGAGCAAGG
41593 AAGACAGAGACAGAGACAGAGACAAAA
1 AAGACAGAGACAGAGACAGAGACAAAA
41620 AAGACAGAGACAGAGACAGAGACAAAA
1 AAGACAGAGACAGAGACAGAGACAAAA
*
41647 GAGACAGAGACAGAGA
1 AAGACAGAGACAGAGA
41663 GAAAAGAGAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.57, C:0.14, G:0.29, T:0.00
Consensus pattern (27 bp):
AAGACAGAGACAGAGACAGAGACAAAA
Found at i:41680 original size:6 final size:6
Alignment explanation
Indices: 41594--41662 Score: 87
Period size: 6 Copynumber: 12.5 Consensus size: 6
41584 CGAGCAAGGA
*
41594 AGACAG AGACAG AGACAG AGACA- A-A-AA AGACAG AGACAG AGACAG
1 AGACAG AGACAG AGACAG AGACAG AGACAG AGACAG AGACAG AGACAG
41639 AGACA- A-A-AG AGACAG AGACAG AGA
1 AGACAG AGACAG AGACAG AGACAG AGA
41663 GAAAAGAGAG
Statistics
Matches: 56, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
3 2 0.04
4 4 0.07
5 4 0.07
6 46 0.82
ACGTcount: A:0.57, C:0.14, G:0.29, T:0.00
Consensus pattern (6 bp):
AGACAG
Found at i:41687 original size:25 final size:23
Alignment explanation
Indices: 41604--41702 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 23
41594 AGACAGAGAC
41604 AGAGACAGAGAC-A-A-AAAAGA
1 AGAGACAGAGACGAGAGAAAAGA
*
41624 CAGAGACAGAGAC-AGAGACAA-A
1 -AGAGACAGAGACGAGAGAAAAGA
41646 AGAGACAGAGACAGAGAGAAAAGA
1 AGAGACAGAGAC-GAGAGAAAAGA
*
41670 GAGAGACAGAGCCG-GAG-AAAGA
1 -AGAGACAGAGACGAGAGAAAAGA
* *
41692 AAAAACAGAGA
1 AGAGACAGAGA
41703 AACAATATAA
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
21 33 0.50
22 7 0.11
23 13 0.20
24 2 0.03
25 11 0.17
ACGTcount: A:0.58, C:0.12, G:0.30, T:0.00
Consensus pattern (23 bp):
AGAGACAGAGACGAGAGAAAAGA
Found at i:42658 original size:13 final size:13
Alignment explanation
Indices: 42642--42688 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
42632 ATATAATAAA
42642 TAAATATTTATTT
1 TAAATATTTATTT
*
42655 TAAATAAATTATTT
1 TAAAT-ATTTATTT
42669 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
42682 TCAATAT
1 TAAATAT
42689 CAAAGAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:45793 original size:20 final size:20
Alignment explanation
Indices: 45770--45824 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
45760 TTAATTTTAT
*
45770 AAATATAAAAAAATCAGAAA
1 AAATAAAAAAAAATCAGAAA
*
45790 AAATACAAAAAAAATCCGAAA
1 AAATA-AAAAAAAATCAGAAA
*
45811 AATTACAAAAAAAA
1 AAATA-AAAAAAAA
45825 ATTAGTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.75, C:0.09, G:0.04, T:0.13
Consensus pattern (20 bp):
AAATAAAAAAAAATCAGAAA
Found at i:45837 original size:22 final size:21
Alignment explanation
Indices: 45776--45824 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
45766 TTATAAATAT
*
45776 AAAAAAATCAGAAAAAATACA
1 AAAAAAATCAGAAAAATTACA
*
45797 AAAAAAATCCGAAAAATTACA
1 AAAAAAATCAGAAAAATTACA
45818 AAAAAAA
1 AAAAAAA
45825 ATTAGTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.76, C:0.10, G:0.04, T:0.10
Consensus pattern (21 bp):
AAAAAAATCAGAAAAATTACA
Found at i:54157 original size:2 final size:2
Alignment explanation
Indices: 54150--54200 Score: 61
Period size: 2 Copynumber: 26.5 Consensus size: 2
54140 CACAATAAAC
* * *
54150 AT AT AT AT AT AT AT AT TT AT AT AT -T AT GT AT AT AT -T AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54190 AT AT AT AT AT A
1 AT AT AT AT AT A
54201 AGTATTATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:55409 original size:28 final size:27
Alignment explanation
Indices: 55378--55466 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 27
55368 TTGTTTTTCT
55378 TATTATTTTTGTTATATATATATATATA
1 TATTATTTTTGTTAT-TATATATATATA
*
55406 TATTATGTTTTGTTCATTTTAT-TATATA
1 TATTAT-TTTTGTT-ATTATATATATATA
* *
55434 TTTTATTATTAG-TATTAT-TATATATA
1 TATTATT-TTTGTTATTATATATATATA
55460 TAATTAT
1 T-ATTAT
55467 ATTTCCTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
25 1 0.02
26 11 0.22
27 6 0.12
28 20 0.39
29 11 0.22
30 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (27 bp):
TATTATTTTTGTTATTATATATATATA
Found at i:55438 original size:12 final size:12
Alignment explanation
Indices: 55424--55468 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
55414 TTTGTTCATT
*
55424 TTATTATATATT
1 TTATTATATATA
55436 TTATTAT-TAGTA
1 TTATTATATA-TA
55448 TTATTATATATA
1 TTATTATATATA
*
55460 TAATTATAT
1 TTATTATAT
55469 TTCCTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 2 0.07
12 25 0.86
13 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (12 bp):
TTATTATATATA
Found at i:61259 original size:36 final size:36
Alignment explanation
Indices: 61182--61261 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 36
61172 TAATTTACTC
**
61182 AAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTT
1 AAAACAAATTTCATCTCCCTTGAGACAGTTTCCCTT
** * **
61218 AAAACAAATTTTGTCTCTCTTGAGATGGTTTCCCTT
1 AAAACAAATTTCATCTCCCTTGAGACAGTTTCCCTT
*
61254 GAAACAAA
1 AAAACAAA
61262 ATCTTTGAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (36 bp):
AAAACAAATTTCATCTCCCTTGAGACAGTTTCCCTT
Found at i:61374 original size:138 final size:138
Alignment explanation
Indices: 61182--61618 Score: 693
Period size: 138 Copynumber: 3.2 Consensus size: 138
61172 TAATTTACTC
** * * * *
61182 AAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGATGGT
1 AAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAAGGT
*
61247 TTCCCTTGAAACAAAATCTTTGAATCTATTTTCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
66 TTCCCTTGAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
61312 TTTCTCTT
131 TTTCTCTT
61320 AAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAAGGT
1 AAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAAGGT
* *
61385 TTCCCTTGAAACAAAAGCTTTGAATTTGTTTTCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
66 TTCCCTTGAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
61450 TTTCTCTT
131 TTTCTCTT
* *
61458 AAAACAAA--TTGTCTCTCTTGAGACATTTTCTCTTAGAACAAATTTTGTCTCTCTTAAGACA-G
1 AAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGA-AGG
* ** *
61520 TTTCCCTTGAAACAAAATCTTTGAATCTGTTTTCCTTAAAACAAA-TTTCATCTCCCTTGAGACA
65 TTTCCCTTGAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
*
61584 GTTTCTTTT
130 GTTTCTCTT
61593 AAAACAAATTTTGTCTCTCTTGAGAC
1 AAAACAAATTTTGTCTCTCTTGAGAC
61619 TGTTTCCCTT
Statistics
Matches: 278, Mismatches: 18, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
135 32 0.12
136 92 0.33
137 17 0.06
138 137 0.49
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.40
Consensus pattern (138 bp):
AAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAAGGT
TTCCCTTGAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
TTTCTCTT
Found at i:61476 original size:19 final size:19
Alignment explanation
Indices: 61452--61514 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
61442 TGAGACAGTT
61452 TCTCTTAAAACAAATTGTC
1 TCTCTTAAAACAAATTGTC
* *
61471 TCTCTTGAGAC--ATT-T-
1 TCTCTTAAAACAAATTGTC
*
61486 TCTCTTAGAACAAATTTTGTC
1 TCTCTTAAAACAAA--TTGTC
61507 TCTCTTAA
1 TCTCTTAA
61515 GACAGTTTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
15 8 0.25
16 1 0.03
17 4 0.12
19 11 0.34
20 1 0.03
21 7 0.22
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.43
Consensus pattern (19 bp):
TCTCTTAAAACAAATTGTC
Found at i:61502 original size:17 final size:17
Alignment explanation
Indices: 61450--61503 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
61440 CTTGAGACAG
*
61450 TTTCTCTTAAAACAAAT
1 TTTCTCTTAGAACAAAT
61467 TGTCTCTCTT-GAGAC--AT
1 T-T-TCTCTTAGA-ACAAAT
61484 TTTCTCTTAGAACAAAT
1 TTTCTCTTAGAACAAAT
61501 TTT
1 TTT
61504 GTCTCTCTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
15 8 0.27
16 3 0.10
17 9 0.30
18 2 0.07
19 8 0.27
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (17 bp):
TTTCTCTTAGAACAAAT
Found at i:61518 original size:36 final size:36
Alignment explanation
Indices: 61276--61399 Score: 180
Period size: 36 Copynumber: 3.4 Consensus size: 36
61266 TTGAATCTAT
*
61276 TTTC-CTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTAAAACAAA-TTTTGTCTCTCTTGAGACAG
*
61312 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAT
1 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
61348 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGA-AGG
1 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACA-G
* *
61384 TTTCCCTTGAAACAAA
1 TTTCTCTTAAAACAAA
61400 AGCTTTGAAT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
35 1 0.01
36 70 0.86
37 10 0.12
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (36 bp):
TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:61586 original size:65 final size:66
Alignment explanation
Indices: 61347--61588 Score: 269
Period size: 65 Copynumber: 3.6 Consensus size: 66
61337 TCTTGAGACA
* *
61347 TTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGA-AGGTTTCCCTTGAAACAAAAGCTTTGAATT
1 TTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAAATCTTTGAATC
61411 TG
65 TG
* * * *
61413 TTTTC-CTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTGTCTCTCTT
1 TTTTCTCTTAAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA----ATCT-TT
*
61477 GAGA-C-A
60 GA-ATCTG
* *
61483 TTTTCTCTTAGAACAAATTTTGTCTCTCTTAAGACAGTTTCCCTTGAAACAAAATCTTTGAATCT
1 TTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCT
61548 G
66 G
** *
61549 TTTTC-CTTAAAACAAATTTCATCTCCCTTGAGACAGTTTC
1 TTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTC
61589 TTTTAAAACA
Statistics
Matches: 146, Mismatches: 19, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
64 1 0.01
65 45 0.31
66 45 0.31
67 1 0.01
70 40 0.27
71 13 0.09
72 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (66 bp):
TTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCT
G
Found at i:61602 original size:101 final size:99
Alignment explanation
Indices: 61450--61700 Score: 342
Period size: 101 Copynumber: 2.5 Consensus size: 99
61440 CTTGAGACAG
* *
61450 TTTCTCTTAAAACAAATTGTCTCT-CTTGAGACATTTTCTCTTAGAACAAATTTTGTCTCTCTTA
1 TTTC-CTTAAAACAAATT-TCTCTCCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTA
*
61514 AGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGT
64 AGACAGTTTCCCTTGAAACAAAATCTTTGAATATGT
* *
61550 TTTCCTTAAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTAAAACAAATTTTGTCTCTCTTG
1 TTTCCTTAAAACAAATTTC-TCT-CCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTA
* * *
61615 AGACTGTTTCCCTTGAATCAAATTCTTTGAATATGT
64 AGACAGTTTCCCTTGAAACAAAATCTTTGAATATGT
* *
61651 TTTCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACA
1 TTTCCTTAAAACAAA--TTTCTCTC-CTTGAGACAGTTTCTCTTAAAACA
61701 CCAATCTTTG
Statistics
Matches: 134, Mismatches: 11, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
98 2 0.01
99 16 0.12
100 4 0.03
101 83 0.62
102 26 0.19
103 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.41
Consensus pattern (99 bp):
TTTCCTTAAAACAAATTTCTCTCCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTAAG
ACAGTTTCCCTTGAAACAAAATCTTTGAATATGT
Found at i:61637 original size:36 final size:36
Alignment explanation
Indices: 61546--61638 Score: 105
Period size: 36 Copynumber: 2.6 Consensus size: 36
61536 ATCTTTGAAT
*
61546 CTGTTTTCCTTAAAACAAATTTCATCTCCCTTGAGA
1 CTGTTTCCCTTAAAACAAATTTCATCTCCCTTGAGA
* ** ** *
61582 CAGTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGA
1 CTGTTTCCCTTAAAACAAATTTCATCTCCCTTGAGA
* *
61618 CTGTTTCCCTTGAATCAAATT
1 CTGTTTCCCTTAAAACAAATT
61639 CTTTGAATAT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.42
Consensus pattern (36 bp):
CTGTTTCCCTTAAAACAAATTTCATCTCCCTTGAGA
Found at i:61679 original size:66 final size:65
Alignment explanation
Indices: 61585--61730 Score: 179
Period size: 66 Copynumber: 2.2 Consensus size: 65
61575 CTTGAGACAG
* * * * *
61585 TTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACTGTTTCCCTTGAATCA-AATTCTTTGAATAT
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACACAA-TCTTTGAA-AT
61649 GT
64 GT
*
61651 TTTC-CTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACACCAATCTTTGAAAT
1 TTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACA-CAATCTTTGAAAT
*
61715 TT
64 GT
61717 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
61731 CAAAAATACA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
65 9 0.13
66 41 0.59
67 17 0.25
68 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.44
Consensus pattern (65 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACACAATCTTTGAAATGT
Found at i:62394 original size:17 final size:17
Alignment explanation
Indices: 62350--62397 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
62340 ACCACAATAA
*
62350 ACATATATATAT-TTTT
1 ACATATATATATATATT
* *
62366 ATAT-TATGTATATATT
1 ACATATATATATATATT
62382 ACATATATATATATAT
1 ACATATATATATATAT
62398 AAGTATTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 6 0.24
16 9 0.36
17 10 0.40
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (17 bp):
ACATATATATATATATT
Found at i:62396 original size:19 final size:19
Alignment explanation
Indices: 62352--62398 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
62342 CACAATAAAC
**
62352 ATATATATAT-TTTTATAT
1 ATATATATATATTACATAT
*
62370 -TATGTATATATTACATAT
1 ATATATATATATTACATAT
62388 ATATATATATA
1 ATATATATATA
62399 AGTATTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 8 0.35
18 6 0.26
19 9 0.39
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
ATATATATATATTACATAT
Found at i:62530 original size:15 final size:16
Alignment explanation
Indices: 62501--62531 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62491 TTTCTACCAC
62501 ACACATGCGAGCCCAA
1 ACACATGCGAGCCCAA
62517 ACACATGC-AGCCCAA
1 ACACATGCGAGCCCAA
62532 CAACCACGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.39, G:0.16, T:0.06
Consensus pattern (16 bp):
ACACATGCGAGCCCAA
Found at i:63788 original size:2 final size:2
Alignment explanation
Indices: 63729--63768 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
63719 TATTTTGCTG
63729 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63769 TACTTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63946 original size:4 final size:4
Alignment explanation
Indices: 63932--64044 Score: 59
Period size: 4 Copynumber: 26.2 Consensus size: 4
63922 TTCTTCATTC
* * *
63932 TATT TATTT TATT TATT CTATT CATT T-TT ACATT TACTT TTTT TATCTT
1 TATT TA-TT TATT TATT -TATT TATT TATT -TATT TA-TT TATT TA--TT
* ** *
63981 TATT TTTT TA-T TACTT TCCT TATT TCATT CTTTT TACTT TATT TATT
1 TATT TATT TATT TA-TT TATT TATT T-ATT -TATT TA-TT TATT TATT
64028 TATT TATT TATT TATT T
1 TATT TATT TATT TATT T
64045 TAACACATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 24
0.69 0.12 0.20
Matches are distributed among these distances:
3 5 0.06
4 49 0.59
5 24 0.29
6 5 0.06
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:64043 original size:39 final size:39
Alignment explanation
Indices: 63916--64044 Score: 104
Period size: 39 Copynumber: 3.3 Consensus size: 39
63906 ATTAGTATCA
* * * *
63916 TTATTTTTCTTCATTCTATTTATTTTATTTATTCTATTCAT
1 TTATTTAT-TTCATTCTTTTTACTTTATTTATT-TATTTAT
* *
63957 TT-TTACATTT-ACTT-TTTTTATCTTTATTTTTTTA-TTACT
1 TTATT-TATTTCA-TTCTTTTTA-CTTTATTTATTTATTTA-T
**
63996 TTCCTTATTTCATTCTTTTTACTTTATTTATTTATTTAT
1 TTATTTATTTCATTCTTTTTACTTTATTTATTTATTTAT
64035 TTATTTATTT
1 TTATTTATTT
64045 TAACACATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
38 2 0.03
39 38 0.55
40 26 0.38
41 3 0.04
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.71
Consensus pattern (39 bp):
TTATTTATTTCATTCTTTTTACTTTATTTATTTATTTAT
Found at i:67941 original size:24 final size:22
Alignment explanation
Indices: 67904--67954 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
67894 AAAAATGACA
*
67904 TAAAAAATGATAAAGATAAATCT
1 TAAAAAATGATAAA-ATAAATCC
* *
67927 TAAAAAATGTTTAAATTAAATCC
1 TAAAAAATG-ATAAAATAAATCC
67950 TAAAA
1 TAAAA
67955 GTAAATGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (22 bp):
TAAAAAATGATAAAATAAATCC
Found at i:75623 original size:30 final size:31
Alignment explanation
Indices: 75589--75658 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
75579 AATATAATAG
*
75589 TTGATCCCTTTTATTTT-ATTTAATTAAGAT
1 TTGATCACTTTTATTTTAATTTAATTAAGAT
* *
75619 TTGATCACTTTTGTTTTAATTTAATTAATAT
1 TTGATCACTTTTATTTTAATTTAATTAAGAT
*
75650 TTGGTCACT
1 TTGATCACT
75659 GAGGGTTAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 15 0.43
31 20 0.57
ACGTcount: A:0.26, C:0.10, G:0.09, T:0.56
Consensus pattern (31 bp):
TTGATCACTTTTATTTTAATTTAATTAAGAT
Found at i:75956 original size:2 final size:2
Alignment explanation
Indices: 75949--75985 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
75939 TTGAAATTTA
75949 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
75986 AAAGCTGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:84248 original size:80 final size:80
Alignment explanation
Indices: 84112--84268 Score: 251
Period size: 80 Copynumber: 2.0 Consensus size: 80
84102 TATAAGATTT
* *
84112 AAATAAAAGCGCAATGTATAAATCATGAGAGTAAATGATGCACGAGGTGGACTTGTAGAAACCAT
1 AAATAAAAGCCCAATGTATAAAACATGAGAGTAAATGATGCACGAGGTGGACTTGTAGAAACCAT
84177 TTTTGGGTGGTTCGA
66 TTTTGGGTGGTTCGA
** * * *
84192 AAATAAAAGCCCTGTGTATAAAACATGAGAGTAAATGATGTACGAGGTGGAGTTGTAGAAACTAT
1 AAATAAAAGCCCAATGTATAAAACATGAGAGTAAATGATGCACGAGGTGGACTTGTAGAAACCAT
84257 TTTTGGGTGGTT
66 TTTTGGGTGGTT
84269 AAAAAAATAG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.28
Consensus pattern (80 bp):
AAATAAAAGCCCAATGTATAAAACATGAGAGTAAATGATGCACGAGGTGGACTTGTAGAAACCAT
TTTTGGGTGGTTCGA
Found at i:90502 original size:65 final size:66
Alignment explanation
Indices: 90275--90520 Score: 296
Period size: 66 Copynumber: 3.7 Consensus size: 66
90265 ATACTGCACA
* * * * * *
90275 GATCACTCAATGAGATTTGTGTACCTTTGCGGTGTATTAGGTTGACTGATAATTGAATATTGTAC
1 GATCACTCAATGAGACTTGTGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATATTGTAC
*
90340 A
66 T
* * * ** * * * *
90341 AATCACTCAATGAGACCTGTATATGTTTATGGGGCATGAGATGGAGTGATAATTGAATATTGTAT
1 GATCACTCAATGAGACTTGTGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATATTGTAC
90406 T
66 T
*
90407 GATCACTCAATGAGACTTGTGTATCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATA-TGTAC
1 GATCACTCAATGAGACTTGTGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATATTGTAC
90471 T
66 T
* * * *
90472 GACCACTCAATGAGGCTTGTGTACCTTTGTGGAGCATAAGGTGGAGTGA
1 GATCACTCAATGAGACTTGTGTACCTTTGTGGTGCATGAGGTGGAGTGA
90521 CTATATGATA
Statistics
Matches: 151, Mismatches: 29, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
65 49 0.32
66 102 0.68
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (66 bp):
GATCACTCAATGAGACTTGTGTACCTTTGTGGTGCATGAGGTGGAGTGATAATTGAATATTGTAC
T
Found at i:91220 original size:15 final size:16
Alignment explanation
Indices: 91202--91233 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
91192 TAGTTAGTTA
91202 AATTTTAAATT-TGAT
1 AATTTTAAATTATGAT
91217 AATTTTAAATTATGAT
1 AATTTTAAATTATGAT
91233 A
1 A
91234 TGAAATAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
AATTTTAAATTATGAT
Found at i:92662 original size:31 final size:32
Alignment explanation
Indices: 92614--92705 Score: 145
Period size: 31 Copynumber: 3.0 Consensus size: 32
92604 ATAACCATAT
**
92614 GTCT-ATATGTCTTGAAGAACATAGGTAAACA
1 GTCTCATATGTCCCGAAGAACATAGGTAAACA
92645 GTC-CATATGTCCCGAAGAACATAGGTAAACA
1 GTCTCATATGTCCCGAAGAACATAGGTAAACA
92676 GTCTC-TATGTCCCGAAGAACATAGGTAAAC
1 GTCTCATATGTCCCGAAGAACATAGGTAAAC
92706 CCTCGACTCT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
31 56 0.98
32 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (32 bp):
GTCTCATATGTCCCGAAGAACATAGGTAAACA
Found at i:95862 original size:2 final size:2
Alignment explanation
Indices: 95849--95914 Score: 102
Period size: 2 Copynumber: 34.5 Consensus size: 2
95839 TTTTAAGAAA
95849 AT AT AT -T A- AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
95888 AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
95915 AATAAGATAT
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
1 3 0.05
2 56 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96188 original size:24 final size:22
Alignment explanation
Indices: 96141--96189 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
96131 ATTAAAAAAT
96141 AAATAAATATTATTATTTAAAC
1 AAATAAATATTATTATTTAAAC
* *
96163 AAATATATATGTATATATTTATAC
1 AAATAAATAT-TAT-TATTTAAAC
96187 AAA
1 AAA
96190 ATAATAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 9 0.39
23 3 0.13
24 11 0.48
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (22 bp):
AAATAAATATTATTATTTAAAC
Found at i:97101 original size:19 final size:20
Alignment explanation
Indices: 97077--97114 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
97067 CGGTTTTCAG
97077 CTCTCTGTCTCG-TGTCTTA
1 CTCTCTGTCTCGCTGTCTTA
*
97096 CTCTCTGTGTCGCTGTCTT
1 CTCTCTGTCTCGCTGTCTT
97115 TTCCTCTCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.03, C:0.32, G:0.18, T:0.47
Consensus pattern (20 bp):
CTCTCTGTCTCGCTGTCTTA
Found at i:97621 original size:3 final size:3
Alignment explanation
Indices: 97613--97692 Score: 67
Period size: 3 Copynumber: 26.7 Consensus size: 3
97603 CCTGTTTGTA
* * *
97613 AAT AAT AAT ATT ATT AAT AAT AAAT AAT AAA AAT ATAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A-AT AAT AAT AAT
* *
97660 -AT AAT AAT AAT AGT -AT AAAT AA- AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AA
97693 ATGGATAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
2 5 0.08
3 50 0.79
4 8 0.13
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:97640 original size:19 final size:18
Alignment explanation
Indices: 97616--97692 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 18
97606 GTTTGTAAAT
*
97616 AATAATATTATTAATAATA
1 AATAATA-TAATAATAATA
*
97635 AATAATAAAAATATATAAT-
1 AATAAT-ATAATA-ATAATA
97654 AATAATATAATAATAATA
1 AATAATATAATAATAATA
*
97672 GTATAA-ATAA-AATAA-A
1 -AATAATATAATAATAATA
97688 AATAA
1 AATAA
97693 ATGGATAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
15 4 0.08
16 1 0.02
17 10 0.20
18 9 0.18
19 19 0.39
20 6 0.12
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (18 bp):
AATAATATAATAATAATA
Found at i:97654 original size:20 final size:19
Alignment explanation
Indices: 97627--97692 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 19
97617 ATAATATTAT
97627 TAATAATAAATAATAAAAA
1 TAATAATAAATAATAAAAA
97646 TATATAAT-AATAATATAATAA
1 TA-ATAATAAATAATA-AA-AA
97667 TAATAGTATAAATAAAATAAAAA
1 TAATA--ATAAAT--AATAAAAA
97690 TAA
1 TAA
97693 ATGGATAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
19 9 0.23
20 10 0.26
21 4 0.10
22 2 0.05
23 8 0.21
24 2 0.05
25 4 0.10
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
TAATAATAAATAATAAAAA
Found at i:97663 original size:11 final size:11
Alignment explanation
Indices: 97614--97671 Score: 64
Period size: 11 Copynumber: 5.1 Consensus size: 11
97604 CTGTTTGTAA
*
97614 ATAATAATATT
1 ATAATAATAAT
97625 ATTAATAATAA-
1 A-TAATAATAAT
*
97636 ATAATAAAAATAT
1 ATAAT-AATA-AT
97649 ATAATAATAAT
1 ATAATAATAAT
97660 ATAATAATAAT
1 ATAATAATAAT
97671 A
1 A
97672 GTATAAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 4 0.10
11 19 0.47
12 12 0.30
13 5 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:98342 original size:36 final size:36
Alignment explanation
Indices: 98210--98343 Score: 124
Period size: 36 Copynumber: 3.7 Consensus size: 36
98200 GTTTCTAGTG
* * *
98210 AAACTATCTCAAGCGAGACGAATCTTGTTTTAAGAA
1 AAACAATCTCAAGCGAGACAAATTTTGTTTTAAGAA
* * ** **
98246 AAACAATCTCAAGTGAGATAAATTGTTGTTTCGAGTG
1 AAACAATCTCAAGCGAGACAAATT-TTGTTTTAAGAA
****
98283 AAGTTGTCTCAAGCGAGACAAATTTTGTTTTAAGAA
1 AAACAATCTCAAGCGAGACAAATTTTGTTTTAAGAA
* *
98319 AAACAATCTCAAGTGAGATAAATTT
1 AAACAATCTCAAGCGAGACAAATTT
98344 GGGAAATAGT
Statistics
Matches: 72, Mismatches: 25, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
36 46 0.64
37 26 0.36
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.31
Consensus pattern (36 bp):
AAACAATCTCAAGCGAGACAAATTTTGTTTTAAGAA
Found at i:99059 original size:22 final size:22
Alignment explanation
Indices: 99003--99059 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
98993 ATAAAGATTT
* *
99003 CATCTTTGAAAAGAGAATCTAT
1 CATCTTTGAAGAGAGAATCTAA
*
99025 CATCTTTGGAGAGAGAATCTAA
1 CATCTTTGAAGAGAGAATCTAA
99047 CATCTTTGAAGAG
1 CATCTTTGAAGAG
99060 TGTAGATGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (22 bp):
CATCTTTGAAGAGAGAATCTAA
Found at i:103652 original size:72 final size:71
Alignment explanation
Indices: 103531--103666 Score: 227
Period size: 72 Copynumber: 1.9 Consensus size: 71
103521 AGTATAAAAA
*
103531 ATTAGCTGAATATTACCATAAAGCCAGGGCTATTAACCAATTGCTTTAGGGGGATAACTCAAGCA
1 ATTAACTGAATATTACCATAAAGCCAGGGCTATTAACCAATTGCTTTAGGGGGATAACTCAAGCA
103596 TAACAG
66 TAACAG
* * *
103602 ATTAACTGAATATTATCCATAAAGTCGGGGTTATTAACCAATTGCTTTAGGGGGATAACTCAAGC
1 ATTAACTGAATATTA-CCATAAAGCCAGGGCTATTAACCAATTGCTTTAGGGGGATAACTCAAGC
103667 TTTATTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
71 14 0.23
72 46 0.77
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (71 bp):
ATTAACTGAATATTACCATAAAGCCAGGGCTATTAACCAATTGCTTTAGGGGGATAACTCAAGCA
TAACAG
Found at i:108348 original size:147 final size:146
Alignment explanation
Indices: 108148--108415 Score: 398
Period size: 147 Copynumber: 1.8 Consensus size: 146
108138 TAATTTTAAG
* *
108148 AAAATATATTAATATATATATTTATAAATAAGATATTTATTTACTTAGAAATATCAAAAAATGAC
1 AAAATAAATTAAAATATATATTTATAAATAAGATATTTATTTACTTAGAAATATCAAAAAATGAC
108213 TTCTAGGTGCTTTAAGACA-CCCATTTC-TTAATATAAAAAAATAAAAAAATATTAATAAAACAT
66 TTCTAGGTGCTTTAAGACATCCCATTTCTTTAATATAAAAAAATAAAAAAATATTAATAAAACAT
108276 TTCTATAAAAATAATT
131 TTCTATAAAAATAATT
* * *
108292 AAAATAAATTAAAATATATAATTTATAAAAATAGGATATTTATTTATTTA-AGAATATCAGAAAA
1 AAAATAAATTAAAATATAT-ATTTAT--AAATAAGATATTTATTTACTTAGA-AATATCAAAAAA
* * * *
108356 TGACTTCTAGGTGTTTTAAGTCATCCCATTTCTTTAATATTAAAAAATAAATAAATATTA
62 TGACTTCTAGGTGCTTTAAGACATCCCATTTCTTTAATATAAAAAAATAAAAAAATATTA
108416 TTATTTAAAC
Statistics
Matches: 109, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
144 17 0.16
145 6 0.06
146 1 0.01
147 52 0.48
148 8 0.07
149 25 0.23
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.37
Consensus pattern (146 bp):
AAAATAAATTAAAATATATATTTATAAATAAGATATTTATTTACTTAGAAATATCAAAAAATGAC
TTCTAGGTGCTTTAAGACATCCCATTTCTTTAATATAAAAAAATAAAAAAATATTAATAAAACAT
TTCTATAAAAATAATT
Found at i:109353 original size:19 final size:20
Alignment explanation
Indices: 109329--109366 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
109319 CGGTTTTCTA
109329 CTCTCTGTCTCG-TGTCTTG
1 CTCTCTGTCTCGCTGTCTTG
*
109348 CTCTCTGTGTCGCTGTCTT
1 CTCTCTGTCTCGCTGTCTT
109367 TTCCTCTCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.00, C:0.32, G:0.21, T:0.47
Consensus pattern (20 bp):
CTCTCTGTCTCGCTGTCTTG
Found at i:109831 original size:12 final size:12
Alignment explanation
Indices: 109816--109857 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
109806 TATTATTAAT
109816 AATAAATAATAA
1 AATAAATAATAA
*
109828 AATATATAATAA
1 AATAAATAATAA
*
109840 TAATATA-AATAA
1 -AATAAATAATAA
109852 AATAAA
1 AATAAA
109858 AACAAATGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 5 0.19
12 16 0.59
13 6 0.22
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAAATAATAA
Found at i:109837 original size:22 final size:23
Alignment explanation
Indices: 109795--109855 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
109785 GGGTCTGTTT
**
109795 ATAAATAATATTAT-TATTAATA
1 ATAAATAATAAAATATATTAATA
109817 ATAAATAATAAAATATA-TAATA
1 ATAAATAATAAAATATATTAATA
109839 ATAATATAAATAAAATA
1 ATAA-AT-AATAAAATA
109856 AAAACAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 21 0.62
23 4 0.12
24 9 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
ATAAATAATAAAATATATTAATA
Found at i:111527 original size:31 final size:31
Alignment explanation
Indices: 111489--111582 Score: 136
Period size: 31 Copynumber: 3.0 Consensus size: 31
111479 CCCGAAGGAC
* * *
111489 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
111520 CAGTCCATATGTCCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
111551 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
111582 C
1 C
111583 CCTTGACCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 56 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:113455 original size:2 final size:2
Alignment explanation
Indices: 113448--113480 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
113438 TCCTCATGTC
113448 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
113481 ATAGGTAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:121183 original size:26 final size:26
Alignment explanation
Indices: 121154--121207 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
121144 TTGATTCTAG
*
121154 TAGCTG-GTTCGACCAACTGATTTGAT
1 TAGCTGAGTTCGA-AAACTGATTTGAT
* *
121180 TAGCTGATTTGGAAAACTGATTTGAT
1 TAGCTGAGTTCGAAAACTGATTTGAT
121206 TA
1 TA
121208 ATTGTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (26 bp):
TAGCTGAGTTCGAAAACTGATTTGAT
Found at i:122824 original size:2 final size:2
Alignment explanation
Indices: 122817--122885 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
122807 AACTAAAGTA
122817 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
122859 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
122886 GCTTGATATT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:123543 original size:15 final size:17
Alignment explanation
Indices: 123523--123556 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
123513 CGGGACATTC
123523 TTCTCATT-TCT-TCTA
1 TTCTCATTCTCTCTCTA
123538 TTCTCATTCTCTCTCTA
1 TTCTCATTCTCTCTCTA
123555 TT
1 TT
123557 TAAGAGAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 3 0.18
17 6 0.35
ACGTcount: A:0.12, C:0.29, G:0.00, T:0.59
Consensus pattern (17 bp):
TTCTCATTCTCTCTCTA
Found at i:124346 original size:3 final size:3
Alignment explanation
Indices: 124338--124416 Score: 79
Period size: 3 Copynumber: 25.0 Consensus size: 3
124328 TGTAATAGTT
* * *
124338 TAA TAA TAA TAT TAA TAA TAA TAAA TAA TAA TAT TAT TAA TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA T-AA
124385 TAA TAAA TAA TAA TAAA TAA TAAA TAA -AA TAA
1 TAA T-AA TAA TAA T-AA TAA T-AA TAA TAA TAA
124417 ATAGAGAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
2 2 0.03
3 49 0.74
4 15 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:124353 original size:6 final size:6
Alignment explanation
Indices: 124338--124416 Score: 79
Period size: 7 Copynumber: 12.5 Consensus size: 6
124328 TGTAATAGTT
* * *
124338 TAATAA TAATAT TAATAA TAATAAA TAATAA TATTAT TAATAA TAAATAA
1 TAATAA TAATAA TAATAA TAAT-AA TAATAA TAATAA TAATAA T-AATAA
124388 TAAATAA TAATAAA TAATAAA TAA-AA TAA
1 T-AATAA TAAT-AA TAAT-AA TAATAA TAA
124417 ATAGAGAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
5 5 0.08
6 28 0.44
7 31 0.48
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
TAATAA
Found at i:124365 original size:22 final size:22
Alignment explanation
Indices: 124339--124415 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
124329 GTAATAGTTT
124339 AATAATAATATTAATAATAATA
1 AATAATAATATTAATAATAATA
*
124361 AATAATAATATTATTAATAATA
1 AATAATAATATTAATAATAATA
*
124383 AATAATAAATAATAATAAATAATA
1 AATAAT-AATATTAAT-AATAATA
124407 AATAA-AATA
1 AATAATAATA
124416 AATAGAGAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
22 31 0.62
23 7 0.14
24 12 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AATAATAATATTAATAATAATA
Found at i:124429 original size:16 final size:16
Alignment explanation
Indices: 124379--124430 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
124369 TATTATTAAT
*
124379 AATAAATAATAAATAA
1 AATAAATAAGAAATAA
*
124395 TAATAAATAATAAATAA
1 -AATAAATAAGAAATAA
124412 AATAAATAGAGAAA-AA
1 AATAAATA-AGAAATAA
124428 AAT
1 AAT
124431 GATGTCTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 13 0.39
17 20 0.61
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (16 bp):
AATAAATAAGAAATAA
Found at i:124936 original size:128 final size:137
Alignment explanation
Indices: 124659--124993 Score: 422
Period size: 128 Copynumber: 2.5 Consensus size: 137
124649 AATCTAGCAA
* * *
124659 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTTAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTAATTAT
* * * *
124724 GAATTCCTTCTTGAAATGCTGATCCTCAAAAGAGGTGTCATTGATTCGACTTCATATGTGATGAA
66 GAACTCCTTCTTGAAATACTGATCCTCAAAAGAGGTGTCATTCATTCGACTTCATATCTGATGAA
*
124789 TTAAGGC
131 TCAAGGC
* *
124796 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTCTTCAGATGAGTTCTTCTTATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTAATTAT
* ** * *
124861 GAACT-C-TC-TGAAAATATTGATCCTCAAGGGAGGT-TC-TTCTTTC-A-TTCA-A-CT-CTGA
66 GAACTCCTTCTTG-AAATACTGATCCTCAAAAGAGGTGTCATTCATTCGACTTCATATCTGATGA
124916 ATCAA-GC
130 ATCAAGGC
* *
124923 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTCTTCAGATAAGTTCTTCTAATTA
1 -AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTAATTA
124988 TGAACT
65 TGAACT
124994 TTATCTGGAA
Statistics
Matches: 178, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
127 2 0.01
128 73 0.41
129 1 0.01
130 1 0.01
131 4 0.02
132 1 0.01
133 5 0.03
134 4 0.02
135 21 0.12
136 1 0.01
137 65 0.37
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (137 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTAATTAT
GAACTCCTTCTTGAAATACTGATCCTCAAAAGAGGTGTCATTCATTCGACTTCATATCTGATGAA
TCAAGGC
Found at i:125090 original size:123 final size:122
Alignment explanation
Indices: 124924--125376 Score: 746
Period size: 123 Copynumber: 3.7 Consensus size: 122
124914 GAATCAAGCT
* * *
124924 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTCTTCAGATAAGTTCTTCTAATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
** * * *
124989 GAACTTTATCTGGAAATGTTGGTGCTGATCTATCTCCTTCTGTGATAGAGTCAAGCAA
66 GAACTTCCTCTGGAAATGTTGGTGTTGATCTATCTCCTTCTG-GATAGAATCGAGCAA
* *
125047 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTGCTCTTCAGATGAGTTATTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
125112 GAACTTCCTCTGGAAATGTTGGTGTTGATCTATCTCATTCTGGGATAGAATCGAGAAA
66 GAACTTCCTCTGGAAATGTTGGTGTTGATCTATCTCCTTCT-GGATAGAATCGAGCAA
125170 AAGGTTGAACAAGTTCTTCTCATTATGGAA-TTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTAT-GAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTA
*
125234 TGAACTTCCTCTGGAAATGTTGGTGTTGATTTATCTCCTTCTGGATAGAATCGAGCAA
65 TGAACTTCCTCTGGAAATGTTGGTGTTGATCTATCTCCTTCTGGATAGAATCGAGCAA
*
125292 AAGGTTGAACAAGTTCTTCTCATTATGAACTTGTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
125357 GAACTTCCTCTGGAAATGTT
66 GAACTTCCTCTGGAAATGTT
125377 CATCAATCGA
Statistics
Matches: 309, Mismatches: 18, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
121 3 0.01
122 95 0.31
123 207 0.67
124 4 0.01
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (122 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTTCCTCTGGAAATGTTGGTGTTGATCTATCTCCTTCTGGATAGAATCGAGCAA
Found at i:125789 original size:22 final size:22
Alignment explanation
Indices: 125764--125845 Score: 139
Period size: 22 Copynumber: 3.7 Consensus size: 22
125754 AATAAAGCTT
*
125764 TCATCTTTGAA-AAGAGAATCTA
1 TCATCTTTGAAGAA-TGAATCTA
125786 TCATCTTTGAAGAATGAATCTA
1 TCATCTTTGAAGAATGAATCTA
125808 TCATCTTTGAAGAATGAATCTA
1 TCATCTTTGAAGAATGAATCTA
125830 TCATCTTTGAAGAATG
1 TCATCTTTGAAGAATG
125846 TAGATGTAGA
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
22 56 0.97
23 2 0.03
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAGAATGAATCTA
Found at i:126276 original size:54 final size:53
Alignment explanation
Indices: 126208--126423 Score: 279
Period size: 54 Copynumber: 4.0 Consensus size: 53
126198 ACCATAACTG
* * * * **
126208 GTTCGTAAACCATTTGATAACACATTCATCATTTCATGTGGTTTTTGCATAGAT
1 GTTCGTAAAACATTTGACAACACATTCATC-TTTCATGTGGCTTCTGCCCAGAT
*
126262 GTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGCTTCTGCCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATC-TTTCATGTGGCTTCTGCCCAGAT
* * * *
126316 GTTTGTAAAATATTTGACAACATATTCATTCTTTCCTGTGGCTTCTGCCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCA-TCTTTCATGTGGCTTCTGCCCAGAT
* *
126370 GTTCGTAAAATATTTGACAACACATTCATCTTTGCATGTGGCTTCTTCCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCTTT-CATGTGGCTTCTGCCCAGAT
126424 TTCTCAATCA
Statistics
Matches: 146, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
53 5 0.03
54 139 0.95
55 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (53 bp):
GTTCGTAAAACATTTGACAACACATTCATCTTTCATGTGGCTTCTGCCCAGAT
Found at i:129637 original size:1 final size:1
Alignment explanation
Indices: 129631--129745 Score: 95
Period size: 1 Copynumber: 115.0 Consensus size: 1
129621 ATTCAATTTC
* * * * * * * *
129631 TTTTTTTCTCTTTTTGTTTTTTTTGTTTTTTTTGTTTTTTTTGTTTTTTTTTTGTTTTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* ** * * * *
129696 TTTTTTGTTTTTTTTTGGTTTTTGTTTTTTTGTTTTTTGTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
129746 CGGATGAATG
Statistics
Matches: 86, Mismatches: 28, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 86 1.00
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (1 bp):
T
Found at i:129653 original size:17 final size:15
Alignment explanation
Indices: 129631--129745 Score: 117
Period size: 15 Copynumber: 7.3 Consensus size: 15
129621 ATTCAATTTC
* *
129631 TTTTTTTCTCTTTTT
1 TTTTTTTTTGTTTTT
*
129646 GTTTTTTTTGTTTTT
1 TTTTTTTTTGTTTTT
129661 TTTGTTTTTT-TTGTTT
1 TTT-TTTTTTGTT-TTT
129677 TTTTTTTGTT-TTTTT
1 TTTTTTT-TTGTTTTT
129692 TTTGTTTTTTGTTTTT
1 TTT-TTTTTTGTTTTT
129708 TTTTGGTTTTTGTTTTT
1 TTTT--TTTTTGTTTTT
*
129725 TTGTTTTTTGTTTTT
1 TTTTTTTTTGTTTTT
129740 TCTTTT
1 T-TTTT
129746 CGGATGAATG
Statistics
Matches: 86, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
15 41 0.48
16 31 0.36
17 14 0.16
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (15 bp):
TTTTTTTTTGTTTTT
Found at i:129654 original size:18 final size:17
Alignment explanation
Indices: 129631--129745 Score: 117
Period size: 18 Copynumber: 6.5 Consensus size: 17
129621 ATTCAATTTC
* *
129631 TTTTTTTCTCTTTTTGT
1 TTTTTTTTTTTTTTTGT
129648 TTTTTTTGTTTTTTTTGTTT
1 TTTTTTT-TTTTTTTTG--T
129668 TTTTTGTTTTTTTTTTGT
1 TTTTT-TTTTTTTTTTGT
129686 TTTTTTTTTGTTTTTTGT
1 TTTTTTTTT-TTTTTTGT
**
129704 TTTTTTTTGGTTTTTG-
1 TTTTTTTTTTTTTTTGT
*
129720 -TTTTTTTGTTTTTTGT
1 TTTTTTTTTTTTTTTGT
129736 TTTTTCTTTT
1 TTTTT-TTTT
129746 CGGATGAATG
Statistics
Matches: 84, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
15 14 0.17
17 21 0.25
18 32 0.38
20 15 0.18
21 2 0.02
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTGT
Found at i:129680 original size:29 final size:29
Alignment explanation
Indices: 129631--129745 Score: 137
Period size: 29 Copynumber: 3.9 Consensus size: 29
129621 ATTCAATTTC
*
129631 TTTTTTTCTCTTTTTG--TTTTTTTTGTTT
1 TTTTTTTGT-TTTTTGTTTTTTTTTTGTTT
129659 TTTTTGTT-TTTTTTGTTTTTTTTTTGTTT
1 TTTTT-TTGTTTTTTGTTTTTTTTTTGTTT
*
129688 TTTTTTTGTTTTTTGTTTTTTTTTGGTTTTT
1 TTTTTTTGTTTTTTGTTTTTTTTT--TGTTT
129719 GTTTTTTTGTTTTTTGTTTTTTCTTTT
1 -TTTTTTTGTTTTTTGTTTTTT-TTTT
129746 CGGATGAATG
Statistics
Matches: 78, Mismatches: 1, Indels: 13
0.85 0.01 0.14
Matches are distributed among these distances:
27 6 0.08
28 8 0.10
29 35 0.45
31 5 0.06
32 21 0.27
33 3 0.04
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (29 bp):
TTTTTTTGTTTTTTGTTTTTTTTTTGTTT
Found at i:129740 original size:9 final size:9
Alignment explanation
Indices: 129641--129733 Score: 120
Period size: 9 Copynumber: 10.3 Consensus size: 9
129631 TTTTTTTCTC
129641 TTTTTGTTT
1 TTTTTGTTT
129650 TTTTTGTTT
1 TTTTTGTTT
129659 TTTTTGTTT
1 TTTTTGTTT
129668 TTTTTGTTTTT
1 TTTTTG--TTT
129679 TTTTTGTTT
1 TTTTTGTTT
129688 TTTTT-TTGT
1 TTTTTGTT-T
129697 TTTTTGTTT
1 TTTTTGTTT
**
129706 TTTTT-TGG
1 TTTTTGTTT
129714 TTTTTG-TT
1 TTTTTGTTT
129722 TTTTTGTTT
1 TTTTTGTTT
129731 TTT
1 TTT
129734 GTTTTTTCTT
Statistics
Matches: 74, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
8 14 0.19
9 49 0.66
10 2 0.03
11 9 0.12
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:132347 original size:48 final size:46
Alignment explanation
Indices: 132295--132410 Score: 108
Period size: 48 Copynumber: 2.4 Consensus size: 46
132285 AAATATAATT
* *
132295 ATGCAAAGATGAAAATGCAAAAATGAAATGGTAAATA-CAAACGTAAAA
1 ATGCAAA-ATGAAAATGCAAAAATGAAAT-GCAAA-AGCAAAAGTAAAA
** *** *
132343 ATGCAAAAATGTGAATGCAAGTTGTGCAATGCAAAAGCAAAAGTAAAA
1 ATGC-AAAATGAAAATGCAA-AAATGAAATGCAAAAGCAAAAGTAAAA
132391 ATGCAAAATGAAAATGCAAA
1 ATGCAAAATGAAAATGCAAA
132411 GATGCAAAGA
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
47 14 0.26
48 32 0.59
49 8 0.15
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.17
Consensus pattern (46 bp):
ATGCAAAATGAAAATGCAAAAATGAAATGCAAAAGCAAAAGTAAAA
Found at i:132404 original size:20 final size:21
Alignment explanation
Indices: 132370--132418 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
132360 CAAGTTGTGC
*
132370 AATGCAAAAGCAAAA-GTAAA
1 AATGCAAAAGCAAAATGCAAA
132390 AATGCAAAATG-AAAATGCAAA
1 AATGCAAAA-GCAAAATGCAAA
*
132411 GATGCAAA
1 AATGCAAA
132419 GATACAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.61, C:0.10, G:0.16, T:0.12
Consensus pattern (21 bp):
AATGCAAAAGCAAAATGCAAA
Found at i:132421 original size:8 final size:7
Alignment explanation
Indices: 132370--132418 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
132360 CAAGTTGTGC
132370 AATGCAA
1 AATGCAA
132377 AA-GCAA
1 AATGCAA
*
132383 AA-GTAAA
1 AATG-CAA
132390 AATGCAA
1 AATGCAA
132397 AATG-AA
1 AATGCAA
132403 AATGCAA
1 AATGCAA
132410 AGATGCAA
1 A-ATGCAA
132418 A
1 A
132419 GATACAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
6 13 0.36
7 15 0.42
8 8 0.22
ACGTcount: A:0.61, C:0.10, G:0.16, T:0.12
Consensus pattern (7 bp):
AATGCAA
Found at i:134640 original size:2 final size:2
Alignment explanation
Indices: 134633--134678 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
134623 AACTAAAGTA
134633 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
134675 AT AT
1 AT AT
134679 TTAAGCATGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:147179 original size:27 final size:28
Alignment explanation
Indices: 147149--147214 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
147139 GTACAATTAT
* *
147149 AGTTATAGAGCACTAAATG-TGTCATGC
1 AGTTACAGAGCACTAAATGATGTCATAC
** *
147176 AGTTACATTGCACTAAATGATGTTATAC
1 AGTTACAGAGCACTAAATGATGTCATAC
147204 AGTTACA-AGCA
1 AGTTACAGAGCA
147215 GTCACAACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 19 0.59
28 13 0.41
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (28 bp):
AGTTACAGAGCACTAAATGATGTCATAC
Found at i:150364 original size:20 final size:21
Alignment explanation
Indices: 150334--150373 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
150324 AGCCGTTGGG
150334 GCCTGATGGTATCGATACTAT
1 GCCTGATGGTATCGATACTAT
150355 GCCT-ATGGTATCGATACTA
1 GCCTGATGGTATCGATACTA
150374 CTATGTAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (21 bp):
GCCTGATGGTATCGATACTAT
Found at i:154430 original size:55 final size:55
Alignment explanation
Indices: 154353--154456 Score: 165
Period size: 55 Copynumber: 1.9 Consensus size: 55
154343 TTTCAGAAAA
*
154353 CGTGTCCGCTCTCTATTTTTTCAGAGAGTATAAGACTTGAACAATCTTCGACCCG
1 CGTGTCCGCTCTCTATTCTTTCAGAGAGTATAAGACTTGAACAATCTTCGACCCG
* *
154408 CGTGTCTGCTC-CTTATTCTTTCAGAGAGTATAGGACTTGAACAATCTTC
1 CGTGTCCGCTCTC-TATTCTTTCAGAGAGTATAAGACTTGAACAATCTTC
154457 AACAAATGGG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
54 1 0.02
55 44 0.98
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (55 bp):
CGTGTCCGCTCTCTATTCTTTCAGAGAGTATAAGACTTGAACAATCTTCGACCCG
Found at i:154474 original size:55 final size:54
Alignment explanation
Indices: 154372--155514 Score: 648
Period size: 55 Copynumber: 20.9 Consensus size: 54
154362 TCTCTATTTT
* * * ** * *
154372 TTCAGAGAGTATAAGACTTGAACAATCTTCGAC--CCGCGTGTCTGCTCCTTATTC
1 TTCAGAGAGTATAGGACTCGAACAATCTTCAACAAATGGGT-TC-GCTCCCTATTC
*
154426 TTTCAGAGAGTATAGGACTTGAACAATCTTCAACAAATGGGTTCGCTCCCTATTAC
1 -TTCAGAGAGTATAGGACTCGAACAATCTTCAACAAATGGGTTCGCTCCCTATT-C
* * * * * *
154482 TTTAGGGAGTATAGAACTCTAACAATCTTCTGA-AAACGGGTTCGCTCCCTATTC
1 TTCAGAGAGTATAGGACTCGAACAATCTTC-AACAAATGGGTTCGCTCCCTATTC
* * * * * *
154536 TTCATG-GAGTATAGAACTCTAACAATCTTCTGA-AAACGGGTTCACTCCCTATTGA
1 TTCA-GAGAGTATAGGACTCGAACAATCTTC-AACAAATGGGTTCGCTCCCTATT-C
* * * ** * *
154591 TTCAGGGAGTATAGAACTCGAATAATCTTCTGCCAACGGGTTCGCTCCCTATTGC
1 TTCAGAGAGTATAGGACTCGAACAATCTTCAACAAATGGGTTCGCTCCCTATT-C
* * * * * * *
154646 TTCAGGGAGTATAGAACTCGAACAATCTTCTGA-AAACGGATTCGTTCCCTATTGA
1 TTCAGAGAGTATAGGACTCGAACAATCTTC-AACAAATGGGTTCGCTCCCTATT-C
* * * * * *
154701 TTCAGGGAGTATAGAACTCGAACAATCTTCTGA-AAACGAG-TCTGCTCCCTCTTTC
1 TTCAGAGAGTATAGGACTCGAACAATCTTC-AACAAATGGGTTC-GCTCCCT-ATTC
* * * *
154756 TTCAGGGAGTATAGAACTCGAACAACCTTCAGA-AAATGGGTTCGCTCTCTATTGC
1 TTCAGAGAGTATAGGACTCGAACAATCTTCA-ACAAATGGGTTCGCTCCCTATT-C
* * * * *** * *
154811 TTCAGGGAGTATAGAACTCAAATAATCTTTTGCCAACGGGTTCGCTCCCTATTGC
1 TTCAGAGAGTATAGGACTCGAACAATCTTCAACAAATGGGTTCGCTCCCTATT-C
* * ** * * * *
154866 TTCAGGGAGTAT-GGAACTCGAATAATCTTTTGA-AAACGAGTTCACTCCCTCTTTC
1 TTCAGAGAGTATAGG-ACTCGAACAATC-TTCAACAAATGGGTTCGCTCCCT-ATTC
* * ** * *
154921 TTCA-AGGAGTATAGAACTAGAA-AATCTTCTGCAAATGGGTTCGCTCTCTATTGT
1 TTCAGA-GAGTATAGGACTCGAACAATCTTCAACAAATGGGTTCGCTCCCTATT-C
* * * * ** * *
154975 TTCAGGGAGTATAGAACTCAAATAATCTTCTGCTAATGGGTTCGCTCCATATTGC
1 TTCAGAGAGTATAGGACTCGAACAATCTTCAACAAATGGGTTCGCTCCCTATT-C
* ** * ** * *
155030 TTCAGGGAGTAT-GGAACTCGAACAATCTTTTGA-AAACGAATTCTCTCCCTCTTTC
1 TTCAGAGAGTATAGG-ACTCGAACAATC-TTCAACAAATGGGTTCGCTCCCT-ATTC
* * * * * *
155085 TTCAGGGAGTATAGAACTAGAA-AATCTTCTACAAATGGGTTCACTCCCTCTTTC
1 TTCAGAGAGTATAGGACTCGAACAATCTTCAACAAATGGGTTCGCTCCCT-ATTC
* * *
155139 TTCAGAGAGTATA-GATCTCGAACAATCTTCAAC-AATCGTGTCCGCTCCCTATAC
1 TTCAGAGAGTATAGGA-CTCGAACAATCTTCAACAAAT-GGGTTCGCTCCCTATTC
* * * * *
155193 TTTCAGAGAGTATAAGACTCGAACAATCTTCAA-TAATCGTGTCCGTTCCCTATTCC
1 -TTCAGAGAGTATAGGACTCGAACAATCTTCAACAAAT-GGGTTCGCTCCCTATT-C
* *
155249 TTCAGAGAGTATAAGACTCGAACAACCTTCAACAATCAT--G-TCTGCTCCCTATTCC
1 TTCAGAGAGTATAGGACTCGAACAATCTTCAACAA--ATGGGTTC-GCTCCCTATT-C
* ** * *
155304 TTCAGAGAGTATAAGACTTAAACAACCTTCAACAATCAT--GTCCGCTCCCTATTTC
1 TTCAGAGAGTATAGGACTCGAACAATCTTCAACAA--ATGGGTTCGCTCCCTA-TTC
* * * *
155359 TTCAGAGAGTCTAAGACTCGAACAATCTTCAA-TAATCGTGTTCGCTCCCTATTCC
1 TTCAGAGAGTATAGGACTCGAACAATCTTCAACAAAT-GGGTTCGCTCCCTATT-C
* * * * *
155414 TTCAGAGAGTATAAGACTCGAATAATCTTCAA-TAATCGTGTCCGCTCCCTATTCC
1 TTCAGAGAGTATAGGACTCGAACAATCTTCAACAAAT-GGGTTCGCTCCCTATT-C
* * ** *
155469 TTCAAAGAGTATAAGACTCGAAC-ATCTTCTTCAAACGGGTTCGCTC
1 TTCAGAGAGTATAGGACTCGAACAATCTTCAACAAATGGGTTCGCTC
155515 TTTCTTTCTT
Statistics
Matches: 908, Mismatches: 133, Indels: 95
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.00
53 8 0.01
54 154 0.17
55 713 0.79
56 26 0.03
57 3 0.00
58 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (54 bp):
TTCAGAGAGTATAGGACTCGAACAATCTTCAACAAATGGGTTCGCTCCCTATTC
Found at i:154535 original size:110 final size:109
Alignment explanation
Indices: 154415--155599 Score: 867
Period size: 110 Copynumber: 10.8 Consensus size: 109
154405 CCGCGTGTCT
* * * *
154415 GCTCCTTATTCTTTCAGAGAGTATAGGACTTGAACAATCTTCAACAAATGGGTTCGCTCCCTATT
1 GCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTCAA-AAATGGGTTCGCTCCCTATT
* *
154480 ACTTTAGGGAGTATAGAACTCTAACAATCTTCTGAAAACGGGTTC
65 ACTTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
* * * * *
154525 GCTCCCTATTC-TTCATGGAGTATAGAACTCTAACAATCTTCTGAAAACGGGTTCACTCCCTATT
1 GCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTC-AAAAATGGGTTCGCTCCCTATT
* **
154589 GA-TTCAGGGAGTATAGAACTCGAATAATCTTCTGCCAACGGGTTC
65 -ACTTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
* * * *
154634 GCTCCCTATTGC-TTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGATTCGTTCCCTAT
1 GCTCCCTATT-CTTTCAGGGAGTATAGAACTCGAACAATCTTC-AAAAATGGGTTCGCTCCCTAT
*
154698 TGA-TTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGAG-TC
64 T-ACTTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
* * *
154743 TGCTCCCTCTT-TCTTCAGGGAGTATAGAACTCGAACAACCTTCAGAAAATGGGTTCGCTCTCTA
1 -GCTCCCTATTCT-TTCAGGGAGTATAGAACTCGAACAATCTTCA-AAAATGGGTTCGCTCCCTA
* * * * **
154807 TTGCTTCAGGGAGTATAGAACTCAAATAATCTTTTGCCAACGGGTTC
63 TTACTTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
* * ** * * * *
154854 GCTCCCTATTGC-TTCAGGGAGTATGGAACTCGAATAATCTTTTGAAAACGAGTTCACTCCCTCT
1 GCTCCCTATT-CTTTCAGGGAGTATAGAACTCGAACAATC-TTCAAAAATGGGTTCGCTCCCTAT
* * * * *
154918 TTCTTCAAGGAGTATAGAACTAGAA-AATCTTCTGCAAATGGGTTC
64 TACTTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
* * * * *** *
154963 GCTCTCTATTGTTTCAGGGAGTATAGAACTCAAATAATCTTCTGCTAATGGGTTCGCTCCATATT
1 GCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTC-AAAAATGGGTTCGCTCCCTATT
* * * **
155028 GCTTCAGGGAGTATGGAACTCGAACAATCTTTTGAAAACGAATTC
65 ACTTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
* * * * * *
155073 TCTCCCTCTT-TCTTCAGGGAGTATAGAACTAGAA-AATCTTCTACAAATGGGTTCACTCCCTCT
1 GCTCCCTATTCT-TTCAGGGAGTATAGAACTCGAACAATCTTC-AAAAATGGGTTCGCTCCCTAT
* * * * *
155136 TTCTTCAGAGAGTATAGATCTCGAACAATCTTC--AACAATCGTGTCC
64 TACTTCAGGGAGTATAGAACTCGAACAATCTTCTGAA-AA-CGGGTTC
* * * * * *
155182 GCTCCCTATACTTTCAGAGAGTATA-AGACTCGAACAATCTTCAATAATCGTGTCCGTTCCCTAT
1 GCTCCCTATTCTTTCAGGGAGTATAGA-ACTCGAACAATCTTCAAAAAT-GGGTTCGCTCCCTAT
* * * **
155246 TCCTTCAGAGAGTATA-AGACTCGAACAACCTTC--AACAATCATG-TC
64 TACTTCAGGGAGTATAGA-ACTCGAACAATCTTCTGAA-AA-CGGGTTC
* * ** * * ** *
155291 TGCTCCCTATTCCTTCAGAGAGTATA-AGACTTAAACAACCTTCAACAATCATGTCCGCTCCCTA
1 -GCTCCCTATTCTTTCAGGGAGTATAGA-ACTCGAACAATCTTCAAAAAT-GGGTTCGCTCCCTA
* * * *
155355 TTTCTTCAGAGAGTCTA-AGACTCGAACAATCTTC--AATAATCGTGTTC
63 TTACTTCAGGGAGTATAGA-ACTCGAACAATCTTCTGAA-AA-CGGGTTC
* * * * * *
155402 GCTCCCTATTCCTTCAGAGAGTATA-AGACTCGAATAATCTTCAATAATCGTGTCCGCTCCCTAT
1 GCTCCCTATTCTTTCAGGGAGTATAGA-ACTCGAACAATCTTCAAAAAT-GGGTTCGCTCCCTAT
* ** **
155466 TCCTTCAAAGAGTATA-AGACTCGAAC-ATCTTCTTCAAACGGGTTC
64 TACTTCAGGGAGTATAGA-ACTCGAACAATCTTCTGAAAACGGGTTC
* * * ** * * *
155511 GCTCTTTCT-TTCTTT-AAGGAGTAT-GTAACTCAAACAATCTTCTGCAAACGGTTTCGTTCCCT
1 GCTC--CCTATTCTTTCAGGGAGTATAG-AACTCGAACAATCTTC-AAAAATGGGTTCGCTCCCT
* ** *
155573 CTTTTTTTAGGGAGTATAGAACTCGAA
62 ATTACTTCAGGGAGTATAGAACTCGAA
155600 TATCTTCATT
Statistics
Matches: 887, Mismatches: 155, Indels: 67
0.80 0.14 0.06
Matches are distributed among these distances:
107 2 0.00
108 5 0.01
109 331 0.37
110 540 0.61
111 9 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (109 bp):
GCTCCCTATTCTTTCAGGGAGTATAGAACTCGAACAATCTTCAAAAATGGGTTCGCTCCCTATTA
CTTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
Found at i:155559 original size:55 final size:54
Alignment explanation
Indices: 155484--155606 Score: 131
Period size: 55 Copynumber: 2.3 Consensus size: 54
155474 AGAGTATAAG
* * **
155484 ACTCGAACATCTTCTTCAAACGGGTTCGCTCTTTCTTTCTTTAAGGAGTATGTA
1 ACTCAAACATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATGTA
* * * *
155538 ACTCAAACAATCTTCTGCAAACGGTTTCGTTCCCTCTTTTTTTAGGGAGTATAG-A
1 ACTCAAAC-ATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTAAGGAGTAT-GTA
* *
155593 ACTCGAATATCTTC
1 ACTCAAACATCTTC
155607 ATTTGCTTCA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
54 13 0.23
55 43 0.75
56 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.37
Consensus pattern (54 bp):
ACTCAAACATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATGTA
Found at i:155776 original size:37 final size:37
Alignment explanation
Indices: 155700--155813 Score: 165
Period size: 37 Copynumber: 3.0 Consensus size: 37
155690 AAGGTGGTGT
* * *
155700 TTCACTACTCTTCGGTGAAGGCTTACAAATTGATTTGC
1 TTCACTCCTTTTCGGTGAAGGCTTA-AGATTGATTTGC
* *
155738 TTCCCTCCTTTTTGGTGAAGGCTTAAGATTGATTTGC
1 TTCACTCCTTTTCGGTGAAGGCTTAAGATTGATTTGC
155775 TTCACTCCTTTTCGGTGAAGGCTTAAGATTGACTTTGC
1 TTCACTCCTTTTCGGTGAAGGCTTAAGATTGA-TTTGC
155813 T
1 T
155814 CCAATATCAT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
37 41 0.60
38 27 0.40
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.40
Consensus pattern (37 bp):
TTCACTCCTTTTCGGTGAAGGCTTAAGATTGATTTGC
Found at i:161774 original size:11 final size:11
Alignment explanation
Indices: 161743--161775 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
161733 GACAAATAAG
161743 ATAACAAAATA
1 ATAACAAAATA
*
161754 A-AAAAAAATA
1 ATAACAAAATA
161764 ATAACAAAATA
1 ATAACAAAATA
161775 A
1 A
161776 ATAAATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (11 bp):
ATAACAAAATA
Found at i:167364 original size:19 final size:20
Alignment explanation
Indices: 167328--167375 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
167318 TCTAAATCCT
* *
167328 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATTCCATTTTAG
167348 TTTTCAAAA-TCCATTTTAG
1 TTTTCAAAATTCCATTTTAG
*
167367 CTTTCAAAA
1 TTTTCAAAA
167376 GAAAATCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTAG
Found at i:170191 original size:19 final size:20
Alignment explanation
Indices: 170155--170202 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
170145 TAAATCTTTT
* *
170155 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATTCCATTTTAG
170175 TTTTCAAAA-TCCATTTTAG
1 TTTTCAAAATTCCATTTTAG
*
170194 CTTTCAAAA
1 TTTTCAAAA
170203 GAAAATCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTAG
Found at i:173069 original size:19 final size:20
Alignment explanation
Indices: 173033--173080 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
173023 TCTAAATCCT
* *
173033 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATTCCATTTTAG
173053 TTTTCAAAA-TCCATTTTAG
1 TTTTCAAAATTCCATTTTAG
*
173072 CTTTCAAAA
1 TTTTCAAAA
173081 GAAAATCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTAG
Found at i:176008 original size:13 final size:13
Alignment explanation
Indices: 175990--176014 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
175980 TGACCGGTCA
175990 TGACCCGACCCGT
1 TGACCCGACCCGT
176003 TGACCCGACCCG
1 TGACCCGACCCG
176015 ACCGTTGACC
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:0.16, C:0.48, G:0.24, T:0.12
Consensus pattern (13 bp):
TGACCCGACCCGT
Found at i:176021 original size:17 final size:18
Alignment explanation
Indices: 175991--176024 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
175981 GACCGGTCAT
175991 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
176009 GACCCGA-CCGTTGACC
1 GACCCGACCCGTTGACC
176025 GGTGCTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.12
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:176183 original size:84 final size:85
Alignment explanation
Indices: 176036--176195 Score: 241
Period size: 84 Copynumber: 1.9 Consensus size: 85
176026 GTGCTATTCA
** * * * *
176036 GGGAATTAATTCAGTTTTGGTGTTATTCTGGGAATTAATTTGAAATGGGTGCTATTTTTGTAATT
1 GGGAATTAATTCAGAATTGGTGCTATTCTGGGAATTAATTCGAAAAGGGTGCTATTTTGGTAATT
* *
176101 TTTTTGAAAAGTGATATTTT
66 ATTTTAAAAAGTGATATTTT
176121 GGGAATTAATTCA-AATTGGTGCTATTCTGGGAATTAATTCGAAAAGGGTGCTATTTTGGTAATT
1 GGGAATTAATTCAGAATTGGTGCTATTCTGGGAATTAATTCGAAAAGGGTGCTATTTTGGTAATT
176185 ATTTTAAAAAG
66 ATTTTAAAAAG
176196 AGTGCCATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 54 0.81
85 13 0.19
ACGTcount: A:0.29, C:0.05, G:0.23, T:0.43
Consensus pattern (85 bp):
GGGAATTAATTCAGAATTGGTGCTATTCTGGGAATTAATTCGAAAAGGGTGCTATTTTGGTAATT
ATTTTAAAAAGTGATATTTT
Found at i:176194 original size:29 final size:29
Alignment explanation
Indices: 176054--176205 Score: 121
Period size: 29 Copynumber: 5.3 Consensus size: 29
176044 ATTCAGTTTT
* * *
176054 GGTGTTATTCTGGGAATTAATTTGAAATG
1 GGTGCTATTTTGGGAATTAATTTGAAAAG
* * **
176083 GGTGCTATTTTTGTAATTTTTTTGAAAA-
1 GGTGCTATTTTGGGAATTAATTTGAAAAG
* * **
176111 -GTGATATTTTGGGAATTAA-TTCAAATT
1 GGTGCTATTTTGGGAATTAATTTGAAAAG
* *
176138 GGTGCTATTCTGGGAATTAATTCGAAAAG
1 GGTGCTATTTTGGGAATTAATTTGAAAAG
* * *
176167 GGTGCTATTTTGGTAATTATTTTAAAAAG
1 GGTGCTATTTTGGGAATTAATTTGAAAAG
* *
176196 AGTGCCATTT
1 GGTGCTATTT
176206 GTGTAAAATG
Statistics
Matches: 93, Mismatches: 27, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
26 5 0.05
27 14 0.15
28 17 0.18
29 57 0.61
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (29 bp):
GGTGCTATTTTGGGAATTAATTTGAAAAG
Found at i:183108 original size:12 final size:13
Alignment explanation
Indices: 183082--183111 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
183072 TGACCGGTCA
183082 TGACCCGACCCGT
1 TGACCCGACCCGT
183095 TGACCCGA-CCGT
1 TGACCCGACCCGT
183107 TGACC
1 TGACC
183112 GGTGCTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (13 bp):
TGACCCGACCCGT
Found at i:183173 original size:29 final size:28
Alignment explanation
Indices: 183141--183295 Score: 109
Period size: 29 Copynumber: 5.4 Consensus size: 28
183131 ATTCAGTTTT
*
183141 GGTGCTATTCTTGGAATTAATTCGAAATG
1 GGTGCTATT-TTGGAATTAATTCGAAAAG
* ** *
183170 GGTGTTATTTTGGTAATTTTTTTCGAAAAA
1 GGTGCTATTTTGG-AA-TTAATTCGAAAAG
**
183200 GGTAG-T-TTTCTGGGAATT-ATTCGAAATT
1 GGT-GCTATTT-T-GGAATTAATTCGAAAAG
*
183228 GGTACTATTTTGAGAATTAATTCGAAAAG
1 GGTGCTATTTTG-GAATTAATTCGAAAAG
* **
183257 GGTGCTATTTTGGTAATTATTTTAAAAAG
1 GGTGCTATTTTGG-AATTAATTCGAAAAG
*
183286 AGTGCTATTT
1 GGTGCTATTT
183296 GTGTAAAATG
Statistics
Matches: 100, Mismatches: 16, Indels: 20
0.74 0.12 0.15
Matches are distributed among these distances:
27 1 0.01
28 22 0.22
29 58 0.58
30 16 0.16
31 3 0.03
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (28 bp):
GGTGCTATTTTGGAATTAATTCGAAAAG
Found at i:190730 original size:30 final size:28
Alignment explanation
Indices: 190694--190772 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 28
190684 TGAATTTGAA
190694 ATAAAATACTAATTTGACCTTAAAGTTTAG
1 ATAAAATA-TAATTTGACCTT-AAGTTTAG
* *
190724 ATAAAATATCAATTTAACCCCTTAATTTTAG
1 ATAAAATAT-AATTTGA--CCTTAAGTTTAG
*
190755 ATATAATATTAATTTGAC
1 ATAAAATA-TAATTTGAC
190773 GTCGGTTCAC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
29 2 0.05
30 14 0.34
31 20 0.49
32 5 0.12
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.39
Consensus pattern (28 bp):
ATAAAATATAATTTGACCTTAAGTTTAG
Found at i:191610 original size:11 final size:11
Alignment explanation
Indices: 191579--191617 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
191569 CAAACAATAA
*
191579 AATTTTAAAAT
1 AATTTTAAATT
*
191590 AATTTAAAATT
1 AATTTTAAATT
*
191601 ACTTTTAAATT
1 AATTTTAAATT
191612 AATTTT
1 AATTTT
191618 TAACCTAACT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
AATTTTAAATT
Found at i:192545 original size:28 final size:27
Alignment explanation
Indices: 192511--192590 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 27
192501 TCGTTTAGGT
*
192511 TGGTTCGTTTACGTTTGTTTATTTGTA
1 TGGTTCGTTTACGTTCGTTTATTTGTA
*
192538 TATGTTCGTTTACGTTCGTTTA-TT-T-
1 T-GGTTCGTTTACGTTCGTTTATTTGTA
*
192563 TGGTTCGTTTACGTTCGTTCATTTGTA
1 TGGTTCGTTTACGTTCGTTTATTTGTA
192590 T
1 T
192591 TCGTTTATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
24 18 0.40
25 3 0.07
26 2 0.04
27 4 0.09
28 18 0.40
ACGTcount: A:0.11, C:0.11, G:0.20, T:0.57
Consensus pattern (27 bp):
TGGTTCGTTTACGTTCGTTTATTTGTA
Found at i:192578 original size:24 final size:24
Alignment explanation
Indices: 192498--192586 Score: 97
Period size: 24 Copynumber: 3.5 Consensus size: 24
192488 ATTTTATATC
**
192498 CGTTCGTTTAGGTTGGTTCGTTTA
1 CGTTCGTTTATTTTGGTTCGTTTA
* *
192522 CGTTTGTTTATTTGTATATGTTCGTTTA
1 CGTTCGTTTA-TT-T-T-GGTTCGTTTA
192550 CGTTCGTTTATTTTGGTTCGTTTA
1 CGTTCGTTTATTTTGGTTCGTTTA
*
192574 CGTTCGTTCATTT
1 CGTTCGTTTATTT
192587 GTATTCGTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
24 30 0.56
25 1 0.02
26 2 0.04
27 3 0.06
28 18 0.33
ACGTcount: A:0.10, C:0.12, G:0.21, T:0.56
Consensus pattern (24 bp):
CGTTCGTTTATTTTGGTTCGTTTA
Found at i:192903 original size:13 final size:15
Alignment explanation
Indices: 192869--192911 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
192859 AATTTAAACT
*
192869 ATAATAAAAATATAA
1 ATAATATAAATATAA
192884 ATAATATAAATA-AA
1 ATAATATAAATATAA
*
192898 AT-ATATAATTATAA
1 ATAATATAAATATAA
192912 TAAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.32
14 6 0.24
15 11 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATATAAATATAA
Done.