Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007697.1 Hibiscus syriacus cultivar Beakdansim tig00109906_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: 338196
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:382 original size:184 final size:182
Alignment explanation
Indices: 1--404 Score: 745
Period size: 184 Copynumber: 2.2 Consensus size: 182
1 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACAATT
1 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACAATT
66 TAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTGTAATAT
66 TAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTGTAATAT
*
131 AACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACCTATATC
131 AACCGGTATAAATATACCGGTCTTATGAGCGAATAGGTCTACAACCTATATC
*
183 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATT
1 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACAATT
248 TAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAAT
66 T-AAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAATAGATAA-TTTGTAAT
*
313 ATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
129 ATAACCGGTATAAATATACCGGTCTTATGAGCGAATAGGTCTACAACCTATATC
* *
367 GACACTTTATAATATTGTGTCGGTATTTTATGTCCATA
1 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
405 CCATTTAAAA
Statistics
Matches: 215, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
182 65 0.30
183 54 0.25
184 96 0.45
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (182 bp):
GACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACAATT
TAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTGTAATAT
AACCGGTATAAATATACCGGTCTTATGAGCGAATAGGTCTACAACCTATATC
Found at i:2975 original size:23 final size:23
Alignment explanation
Indices: 2944--3006 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2934 ATAGGTAAAC
*
2944 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2967 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2990 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
3007 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:3014 original size:23 final size:23
Alignment explanation
Indices: 2944--3016 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
2934 ATAGGTAAAC
* * **
2944 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
2967 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
2990 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
3013 ATAT
1 ATAT
3017 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:3045 original size:20 final size:20
Alignment explanation
Indices: 3020--3057 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3010 GTTATATTGT
* *
3020 AAAGTGTCTATCCTTTTTAA
1 AAAGTGTCCATACTTTTTAA
3040 AAAGTGTCCATACTTTTT
1 AAAGTGTCCATACTTTTT
3058 TCACTGTGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.45
Consensus pattern (20 bp):
AAAGTGTCCATACTTTTTAA
Found at i:3402 original size:23 final size:23
Alignment explanation
Indices: 3371--3433 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
3361 ATAGGTAAAC
*
3371 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
3394 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
3417 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
3434 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:3441 original size:23 final size:23
Alignment explanation
Indices: 3371--3443 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
3361 ATAGGTAAAC
* * **
3371 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
3394 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
3417 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
3440 ATAT
1 ATAT
3444 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:3471 original size:20 final size:20
Alignment explanation
Indices: 3446--3484 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3436 GGTTATATTG
* *
3446 TAAAGTGTCTATCCTTTTTA
1 TAAAGTGTCCATACTTTTTA
3466 TAAAGTGTCCATACTTTTT
1 TAAAGTGTCCATACTTTTT
3485 TCACTGTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (20 bp):
TAAAGTGTCCATACTTTTTA
Found at i:3713 original size:427 final size:427
Alignment explanation
Indices: 2848--5116 Score: 4153
Period size: 420 Copynumber: 5.4 Consensus size: 427
2838 AATTCGCAGT
2848 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAGTATCGATCC-TTTTATAA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAGTATCGATCCTTTTTAT-A
2912 AAAGTAT-GACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
65 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
2976 AATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTA-A
130 AATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTATA
3040 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
195 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
3105 AGATATTAA-TTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
260 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTA-TA
3169 TTAAATTAAAAATTCTAAATAATATTTTAT-AAATATAAAAACAATCAAATAATTTTTTGTGCAA
324 TTAAATTAAAAATTCTAAAT-ATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
3233 ATGAAATTATTAAATCAATA-TGTAGGTGGAAAACATGAA
388 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
3272 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAGTATCGATCCTTTTTAT-
3337 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
64 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
3402 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
129 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
*
3467 -AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTAAGTGAGTTTT
194 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
*
3531 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGATATATATTATA
259 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATA
3595 TTAAATTAAAAATTCTAAATATATTTTATAAAATATAAAAACAATCAAATAA-TTTTTGTGCAAA
324 TTAAATTAAAAATTCTAAATATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAA
3659 TGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
389 TGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
3698 ACACTGTTAAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTAT
1 ACACTGTT-AAAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAGTATCGATCCTTTTTAT
3763 AAAAGTATGGACAC-TTC-A-ATAATAGGTAAACATATGATGTAATA-GTAGCCCTTATAT-ATG
64 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
3823 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
129 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
3888 AAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
194 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
3952 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATA-T-TA
259 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATA
*
4015 TTAAATTAAAAATTCTAAATAAATTTTAT-AAATAT-AAAACAATCAAATAATTTTTTGTGCAAA
324 TTAAATTAAAAATTCTAAATATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAA
4078 TGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
389 TGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
4117 ACACTGTT-AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAGTATCGATCC-TTTTATAA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAGTATCGATCCTTTTTATAA
4180 AAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTA
66 AAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTA
4245 ATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTATAA
131 ATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTATAA
4310 AAGTGTCCATACTTTTTTCACTGTGG-AAA-ATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
196 AAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
4373 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTAT
261 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTA-TAT
4438 TAAATTAAAAATTCTAAATA-ATATTTATAAAATAT-AAAACAATCAAATAATTTTTTGTGCAAA
325 TAAATTAAAAATTCTAAATATAT-TTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAA
4501 TGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
389 TGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
4540 ACACTGTTAAAAAAATTGAAAC--AAATTACAT-AGTTTTAAAAAAGTATCGATCCTTTTTATAA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAGTATCGATCCTTTTTATAA
4602 AAGTATGGACACTTTCAATATAATAGGTAAAC--ATGATGTAATAGGTAGCCCTTATAT-ATGTA
66 AAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTA
4664 ATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTATAA
131 ATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTATAA
4729 AAGTGTCCATACTTTTTTCACTGTGGAAAACATTAA-TTAAGGTTATCTTTTGAGTGAGTTTTAA
196 AAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
4793 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATA-T-TATT
261 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATATT
4856 AAATT-AAAATTCTAAATAATATTTTATAAAATATAAAAACAATC-AATAATTTTTTGTGCAAAT
326 AAATTAAAAATTCTAAAT-ATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAAT
4919 GAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
390 GAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
4957 ACACTGTT-AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAGTATCGATCCTTTTTATA
5021 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
65 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
5086 AATAGGTATCGTTTATATAATGTAATAGGTA
130 AATAGGTATCGTTTATATAATGTAATAGGTA
5117 TCTATCTCGC
Statistics
Matches: 1804, Mismatches: 5, Indels: 73
0.96 0.00 0.04
Matches are distributed among these distances:
415 20 0.01
416 44 0.02
417 119 0.07
418 61 0.03
419 273 0.15
420 287 0.16
421 199 0.11
422 147 0.08
423 142 0.08
424 54 0.03
425 59 0.03
426 100 0.06
427 271 0.15
428 28 0.02
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (427 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAGTATCGATCCTTTTTATAA
AAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTA
ATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTATAA
AAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATATT
AAATTAAAAATTCTAAATATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATG
AAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:3825 original size:21 final size:22
Alignment explanation
Indices: 3794--3851 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
3784 ATAGGTAAAC
*
3794 ATATGATGTAATAGTAGCCCTT
1 ATATAATGTAATAGTAGCCCTT
* **
3816 ATAT-ATGTAATAGGTATCGTTT
1 ATATAATGTAATA-GTAGCCCTT
3838 ATATAATGTAATAG
1 ATATAATGTAATAG
3852 GTAATGGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 8 0.26
22 15 0.48
23 8 0.26
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (22 bp):
ATATAATGTAATAGTAGCCCTT
Found at i:3862 original size:23 final size:22
Alignment explanation
Indices: 3814--3869 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
3804 ATAGTAGCCC
*
3814 TTATATATGTAATAGGTATCGT
1 TTATATATGTAATAGGTATCGG
3836 TTATATAATGTAATAGGTAAT-GG
1 TTATAT-ATGTAATAGGT-ATCGG
3859 TTATAT-TGTAA
1 TTATATATGTAA
3870 AGTGTCTATC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 5 0.16
22 6 0.19
23 18 0.58
24 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.45
Consensus pattern (22 bp):
TTATATATGTAATAGGTATCGG
Found at i:4243 original size:23 final size:23
Alignment explanation
Indices: 4212--4274 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
4202 ATAGGTAAAC
*
4212 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
4235 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
4258 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
4275 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:4282 original size:23 final size:23
Alignment explanation
Indices: 4212--4284 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
4202 ATAGGTAAAC
* * **
4212 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
4235 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
4258 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
4281 ATAT
1 ATAT
4285 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:4662 original size:22 final size:23
Alignment explanation
Indices: 4637--4693 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
4627 GGTAAACATG
4637 ATGTAATAGGTAGCCCTTATAT-
1 ATGTAATAGGTAGCCCTTATATA
* **
4659 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCCCTTATATA
4682 ATGTAATAGGTA
1 ATGTAATAGGTA
4694 ATGGTTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
22 19 0.61
23 12 0.39
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.39
Consensus pattern (23 bp):
ATGTAATAGGTAGCCCTTATATA
Found at i:4701 original size:23 final size:22
Alignment explanation
Indices: 4637--4708 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
4627 GGTAAACATG
* **
4637 ATGTAATAGGTAGCCCTTATAT
1 ATGTAATAGGTATCGGTTATAT
*
4659 ATGTAATAGGTATCGTTTATAT
1 ATGTAATAGGTATCGGTTATAT
4681 AATGTAATAGGTAAT-GGTTATAT
1 -ATGTAATAGGT-ATCGGTTATAT
4704 -TGTAA
1 ATGTAA
4709 AGTGTCTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
21 5 0.11
22 19 0.43
23 18 0.41
24 2 0.05
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (22 bp):
ATGTAATAGGTATCGGTTATAT
Found at i:5117 original size:23 final size:23
Alignment explanation
Indices: 5054--5118 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
5044 ATAGGTAAAC
* *
5054 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
5077 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
5100 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
5119 TATCTCGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:5343 original size:18 final size:18
Alignment explanation
Indices: 5322--5358 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
5312 GTAATTGGAG
5322 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
5340 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
5358 T
1 T
5359 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:5366 original size:24 final size:24
Alignment explanation
Indices: 5314--5360 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
5304 TTTCATATGT
* *
5314 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
5338 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
5361 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:7717 original size:60 final size:61
Alignment explanation
Indices: 7653--7783 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 61
7643 TTAAATGTTA
* * *
7653 TAATTTCATCCCTAAACTATGA-CTATCATTCTAGATTAGTCCT-CAGAC-TTTTGAACATTT
1 TAATTTCATCCCCAAACTATGACCT-TCATTCTAAATTAG-CCTCCAAACTTTTTGAACATTT
* *
7713 TAATTTCATCCCCAAACTATGACCTTCATTTTAAATTAGGCTCCAAACTTTTTGAACATTT
1 TAATTTCATCCCCAAACTATGACCTTCATTCTAAATTAGCCTCCAAACTTTTTGAACATTT
* *
7774 CAGTTTCATC
1 TAATTTCATC
7784 TCAATCTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
59 2 0.03
60 37 0.61
61 22 0.36
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (61 bp):
TAATTTCATCCCCAAACTATGACCTTCATTCTAAATTAGCCTCCAAACTTTTTGAACATTT
Found at i:9698 original size:21 final size:20
Alignment explanation
Indices: 9671--9768 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
9661 AATCAGTGTC
9671 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
9692 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
9712 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
9732 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
9753 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
9769 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.51
21 30 0.49
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:9721 original size:41 final size:41
Alignment explanation
Indices: 9612--9768 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
9602 AAATGACCAA
* **
9612 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
9651 CAGAATCGCAAATC-AGTGTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
9692 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
9733 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
9769 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:9778 original size:20 final size:20
Alignment explanation
Indices: 9755--9925 Score: 107
Period size: 20 Copynumber: 8.6 Consensus size: 20
9745 GCGAATATGA
9755 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
9775 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
9795 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
** *
9815 AAATCGCAACGCGTTTCCGT
1 AAATCGCAACGCGTAACCAT
* * *
9835 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
9855 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
* **
9875 AAATCGCAACGAG-AATCTGT
1 AAATCGCAACGCGTAA-CCAT
* *
9895 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
9915 AAATCGCAACG
1 AAATCGCAACG
9926 AGAATCTGTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 127 0.97
21 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:9820 original size:60 final size:58
Alignment explanation
Indices: 9735--9944 Score: 208
Period size: 60 Copynumber: 3.5 Consensus size: 58
9725 CGATTTTCCA
* ** * *
9735 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCGAAC-CGTAAATCGCAA-GCGTATCCGT
* ** *
9795 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTTTCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCG-AACCGTAAATCGCAA-GCGTATCCGT
* *
9855 AAATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTGTAAATCGCAA-CGATAATCCGT
1 AAATCGCAACG-TGAATCCGTAAATCGCAACGCGAA-CCGTAAATCGCAAGCG-T-ATCCGT
* * *
9915 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGTGAATCCGTAAATCGCAAC
9945 ACTGAAATTT
Statistics
Matches: 125, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
58 2 0.02
59 1 0.01
60 120 0.96
61 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (58 bp):
AAATCGCAACGTGAATCCGTAAATCGCAACGCGAACCGTAAATCGCAAGCGTATCCGT
Found at i:9926 original size:20 final size:20
Alignment explanation
Indices: 9789--9944 Score: 174
Period size: 20 Copynumber: 7.8 Consensus size: 20
9779 CGCAATGCGT
*
9789 ATCCGTAAATCGCAACG-TGT
1 ATCCGTAAATCGCAACGAT-A
*
9809 ATCCGTAAATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
* * *
9829 TTCCGTATATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
9849 ATCCGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
9869 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
*
9889 ATCTGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
9909 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
* *
9929 ATCTGTAAATCACAAC
1 ATCCGTAAATCGCAAC
9945 ACTGAAATTT
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
19 1 0.01
20 119 0.98
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (20 bp):
ATCCGTAAATCGCAACGATA
Found at i:9926 original size:40 final size:40
Alignment explanation
Indices: 9755--9944 Score: 208
Period size: 40 Copynumber: 4.8 Consensus size: 40
9745 GCGAATATGA
* *
9755 AAATCGCAACGCGAA-CACATAAATCGCAATGCG-T-ATCCGT
1 AAATCGCAACGAGAATC-CGTAAATCGCAA--CGATAATCCGT
* * * *
9795 AAATCGCAACGTGTATCCGTAAATCGCAACGCGT-TTCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACG-ATAATCCGT
* * *
9835 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
*
9875 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
9915 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCCGTAAATCGCAAC
9945 ACTGAAATTT
Statistics
Matches: 133, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 129 0.97
41 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (40 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:10882 original size:19 final size:19
Alignment explanation
Indices: 10860--11133 Score: 363
Period size: 19 Copynumber: 15.4 Consensus size: 19
10850 CGGAAATTAC
*
10860 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
10879 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
10893 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
10913 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
10927 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
10946 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
10965 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
10979 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
10998 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
11017 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
11036 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
11055 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
11074 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
11093 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
11107 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
11126 AATCGCAA
1 AATCGCAA
11134 CGAGAGAATC
Statistics
Matches: 228, Mismatches: 6, Indels: 42
0.83 0.02 0.15
Matches are distributed among these distances:
14 40 0.18
15 2 0.01
16 11 0.05
17 10 0.04
18 3 0.01
19 149 0.65
20 13 0.06
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:10947 original size:33 final size:34
Alignment explanation
Indices: 10860--11155 Score: 315
Period size: 33 Copynumber: 8.5 Consensus size: 34
10850 CGGAAATTAC
* *
10860 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
10893 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
10927 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
10965 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
10998 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
11036 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
11074 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
11106 GAATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 -AATCGCAATGCGAAATGAAAATCGCAACGATGAA
11140 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
11156 TATAACGCAT
Statistics
Matches: 242, Mismatches: 7, Indels: 28
0.87 0.03 0.10
Matches are distributed among these distances:
32 2 0.01
33 101 0.42
34 32 0.13
35 5 0.02
36 4 0.02
37 2 0.01
38 96 0.40
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:10975 original size:52 final size:52
Alignment explanation
Indices: 10888--11155 Score: 384
Period size: 52 Copynumber: 5.0 Consensus size: 52
10878 AAATCCCAAC
10888 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
10941 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
10993 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
*
11050 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
11105 A-G--AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
11154 AT
1 AT
11156 TATAACGCAT
Statistics
Matches: 205, Mismatches: 2, Indels: 19
0.91 0.01 0.08
Matches are distributed among these distances:
47 10 0.05
48 1 0.00
49 5 0.02
50 2 0.01
52 95 0.46
53 16 0.08
54 3 0.01
55 5 0.02
56 1 0.00
57 67 0.33
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:11112 original size:14 final size:14
Alignment explanation
Indices: 11093--11147 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
11083 GCGAAATGAA
11093 AATCGCAACGAAAG
1 AATCGCAACGAAAG
11107 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
11124 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
11140 AATCGCAA
1 AATCGCAA
11148 TGCGAAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 5 0.14
19 8 0.23
ACGTcount: A:0.47, C:0.20, G:0.22, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:11270 original size:19 final size:19
Alignment explanation
Indices: 11161--11262 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
11151 GAAATTATAA
11161 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
11180 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
11200 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
11216 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
11233 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
11252 CGCATTGCGAT
1 CGCATTGCGAT
11263 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:11387 original size:14 final size:14
Alignment explanation
Indices: 11368--11404 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
11358 CATCAATTAC
11368 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
11382 ACAAATCATCTTTT
1 ACAAATCAACTTTT
11396 ACAAATCAA
1 ACAAATCAA
11405 TTAAATAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:14681 original size:14 final size:14
Alignment explanation
Indices: 14662--14751 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
14652 TTGAAATGAA
14662 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
14676 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
14695 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
14709 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
14728 AATCGCAACGAGAG
1 AATCGCAACGAGAG
14742 AATCGCAACG
1 AATCGCAACG
14752 CGAAATAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:14699 original size:33 final size:33
Alignment explanation
Indices: 14654--14768 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
14644 TCTTTTGGTT
14654 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
14687 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
14720 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
14753 GAAATAAAAATCGCAA
1 GAAATGAAAATCGCAA
14769 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.47, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:14700 original size:19 final size:19
Alignment explanation
Indices: 14676--14773 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
14666 GCAACGAGAG
*
14676 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
14695 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
14709 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
14728 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
14742 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
*
14761 AATCGCAATGCGA
1 AATCGCAACGCGA
14774 TTTTGGTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.49
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:14823 original size:19 final size:19
Alignment explanation
Indices: 14799--14873 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
14789 GCGATTCTCT
14799 CGTTGCGATTGTCATTTCG
1 CGTTGCGATTGTCATTTCG
14818 CGTTGCGATTGTCATTTCG
1 CGTTGCGATTGTCATTTCG
** *
14837 CGTTGCGACAGTCATTCTCT
1 CGTTGCGATTGTCATT-TCG
*
14857 CGTTGCGATTTTCATTT
1 CGTTGCGATTGTCATTT
14874 ATCTCGTTGC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
19 34 0.69
20 15 0.31
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.43
Consensus pattern (19 bp):
CGTTGCGATTGTCATTTCG
Found at i:14872 original size:39 final size:38
Alignment explanation
Indices: 14799--14873 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
14789 GCGATTCTCT
**
14799 CGTTGCGATTGTCATTTCGCGTTGCGATTGTCATTTCG
1 CGTTGCGACAGTCATTTCGCGTTGCGATTGTCATTTCG
* *
14837 CGTTGCGACAGTCATTCTCTCGTTGCGATTTTCATTT
1 CGTTGCGACAGTCATT-TCGCGTTGCGATTGTCATTT
14874 ATCTCGTTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 14 0.44
39 18 0.56
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.43
Consensus pattern (38 bp):
CGTTGCGACAGTCATTTCGCGTTGCGATTGTCATTTCG
Found at i:15007 original size:33 final size:33
Alignment explanation
Indices: 14965--15035 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
14955 AATACTAACT
14965 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
14998 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
15031 TGAAA
1 TGAAA
15036 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:15269 original size:22 final size:22
Alignment explanation
Indices: 15217--15271 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
15207 TGGTTGTGAG
**
15217 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
15239 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
15261 GGATTTCTTCG
1 GGATTTCTTCG
15272 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:15443 original size:20 final size:20
Alignment explanation
Indices: 15418--15611 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
15408 CTTTAAATAT
15418 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
15438 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
* *
15460 -TCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATA
*
15479 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
15499 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
15519 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
15539 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
15559 CGCATTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
15579 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
15599 CGCGTTGCGATTT
1 CGCGTTGCGATTT
15612 TGGAAAATCG
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:15583 original size:60 final size:60
Alignment explanation
Indices: 15420--15591 Score: 236
Period size: 60 Copynumber: 2.9 Consensus size: 60
15410 TTAAATATCG
* ** *
15420 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGATACG
1 CGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTACCGATACA
* *** * *
15481 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACCGATACA
*
15541 CGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTT
15592 TCATATTCGC
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 69 0.73
61 26 0.27
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACCGATACA
Found at i:15605 original size:60 final size:60
Alignment explanation
Indices: 15417--15732 Score: 232
Period size: 60 Copynumber: 5.2 Consensus size: 60
15407 GCTTTAAATA
* ** * *
15417 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTTCAGAT
* * *** * * *
15478 ACGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * *
15538 ACACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * * * *
15598 TCGCGTTGCGATTT-TGGAAAATCGCAATGCGAATT-TG-ACTATCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTACGG-ATA-CGCATTGCGATTTATGTA-T-TCGCGTTGCGATTTTC-AGAT
* * ** * * *
15660 TCGCGTTGCGATTT-TGGAAACTG-ATTTGCGATTCTGGGGA-TCGCGTTGCGATTTTTA-TT
1 TCGCGTTGCGATTTACGGATAC-GCA-TTGCGATT-TATGTATTCGCGTTGCGATTTTCAGAT
15719 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
15733 TGTTGGTCAT
Statistics
Matches: 208, Mismatches: 37, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
59 16 0.08
60 92 0.44
61 78 0.38
62 20 0.10
63 1 0.00
64 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
Found at i:15628 original size:21 final size:20
Alignment explanation
Indices: 15578--15675 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
15568 ATTTATGTGT
* * * *
15578 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
15598 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
15619 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
15639 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
15660 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
15676 GAAACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:15651 original size:61 final size:60
Alignment explanation
Indices: 15578--15734 Score: 176
Period size: 61 Copynumber: 2.6 Consensus size: 60
15568 ATTTATGTGT
*
15578 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCA-ATGCGAATT-TGACTA
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAAT-G-ATATGCG-ATTCTGACGA
* * * * * **
15639 TCGCATTGCGATTTTCAAGAATCGCGTTGCGATTTTGGAAACTGATTTGCGATTCTGGGGA
1 TCGCGTTGCGATTTTC-ATATTCGCGTTGCGATTTTGGAAAATGATATGCGATTCTGACGA
*
15700 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTG
15735 TTGGTCATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
59 16 0.20
60 5 0.06
61 37 0.46
62 23 0.28
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (60 bp):
TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATGATATGCGATTCTGACGA
Found at i:15670 original size:41 final size:41
Alignment explanation
Indices: 15578--15734 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
15568 ATTTATGTGT
* * *
15578 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
15619 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
15660 TCGCGTTGCGATTTTGGAAACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
15700 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
15735 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:28313 original size:21 final size:23
Alignment explanation
Indices: 28272--28319 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
28262 ATTAAATAGG
*
28272 AAAATGATCTAATTGATAAAATT
1 AAAATGATCTAATTGATAAAAAT
28295 AAAA-GATC-AATTG-TCAAAAAT
1 AAAATGATCTAATTGAT-AAAAAT
28316 AAAA
1 AAAA
28320 AGTGATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 1 0.04
21 14 0.61
22 4 0.17
23 4 0.17
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.27
Consensus pattern (23 bp):
AAAATGATCTAATTGATAAAAAT
Found at i:47927 original size:21 final size:19
Alignment explanation
Indices: 47891--47935 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
47881 CGATTCTTGA
* *
47891 ATTTTTTATATTATTTTTG
1 ATTTTTTAGATTATTTATG
47910 ATTTTTTAGACTTAATTTATG
1 ATTTTTTAGA-TT-ATTTATG
47931 ATTTT
1 ATTTT
47936 ATGACATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
20 2 0.09
21 11 0.50
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (19 bp):
ATTTTTTAGATTATTTATG
Found at i:53227 original size:102 final size:102
Alignment explanation
Indices: 53051--53254 Score: 390
Period size: 102 Copynumber: 2.0 Consensus size: 102
53041 TCTTGAGGCA
53051 TTTTAACCTGTTAACCAAATGGAATCAGGAAACCCATTGTAAAATGCTGAGTAGACAGCTTAGGA
1 TTTTAACCTGTTAACCAAATGGAATCAGGAAACCCATTGTAAAATGCTGAGTAGACAGCTTAGGA
53116 CTTTAAATGGGCATAGTGACCAGGCAAACATAACTAG
66 CTTTAAATGGGCATAGTGACCAGGCAAACATAACTAG
*
53153 TTTTAACCTGTTAACCAAATGGAATCAGGAAACCCATTGTAAAATGCTGAGTATACAGCTTAGGA
1 TTTTAACCTGTTAACCAAATGGAATCAGGAAACCCATTGTAAAATGCTGAGTAGACAGCTTAGGA
*
53218 CTTTAAATGGGCATGGTGACCAGGCAAACATAACTAG
66 CTTTAAATGGGCATAGTGACCAGGCAAACATAACTAG
53255 CAAATTGTAA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (102 bp):
TTTTAACCTGTTAACCAAATGGAATCAGGAAACCCATTGTAAAATGCTGAGTAGACAGCTTAGGA
CTTTAAATGGGCATAGTGACCAGGCAAACATAACTAG
Found at i:62378 original size:16 final size:16
Alignment explanation
Indices: 62355--62393 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
62345 GAAACTCATG
62355 ACACATAATTAGCACA
1 ACACATAATTAGCACA
* *
62371 ATACATAATTAGTACA
1 ACACATAATTAGCACA
62387 ACACATA
1 ACACATA
62394 CAGAACATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.51, C:0.21, G:0.05, T:0.23
Consensus pattern (16 bp):
ACACATAATTAGCACA
Found at i:62888 original size:2 final size:2
Alignment explanation
Indices: 62881--62905 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
62871 AATACACAAC
62881 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 A
62906 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:64212 original size:25 final size:23
Alignment explanation
Indices: 64183--64254 Score: 56
Period size: 25 Copynumber: 2.9 Consensus size: 23
64173 TTATCTCACC
64183 ATAATATTTTAATCTCAAATTACAA
1 ATAAT-TTTTAATCTCAAATTA-AA
* *
64208 CTAATTTATATAATC-CAACTTAAA
1 ATAATTT-T-TAATCTCAAATTAAA
*
64232 ATATTTCTTTTAATCTCAAATTA
1 ATA-AT-TTTTAATCTCAAATTA
64255 TTTTAAACTT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
24 11 0.30
25 19 0.51
26 7 0.19
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (23 bp):
ATAATTTTTAATCTCAAATTAAA
Found at i:71591 original size:37 final size:37
Alignment explanation
Indices: 71549--71653 Score: 98
Period size: 37 Copynumber: 3.0 Consensus size: 37
71539 CATTAAATCT
71549 TTTTATATTTTTAATTTTGTAAAAAAATATATATAAA
1 TTTTATATTTTTAATTTTGTAAAAAAATATATATAAA
* * *
71586 TTTTATGA-ATTTAATTTTTTTAAAGAAA-ATATATAAA
1 TTTTAT-ATTTTTAA-TTTTGTAAAAAAATATATATAAA
* *
71623 ---TAT-TTTTCAA-TTTGTTAAAAAATATATATAA
1 TTTTATATTTTTAATTTTGTAAAAAAATATATATAA
71654 TAAGGATAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
31 9 0.16
32 8 0.14
33 4 0.07
34 3 0.05
37 20 0.36
38 12 0.21
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.50
Consensus pattern (37 bp):
TTTTATATTTTTAATTTTGTAAAAAAATATATATAAA
Found at i:77997 original size:20 final size:21
Alignment explanation
Indices: 77972--78023 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
77962 TTTTCCCAAT
*
77972 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
77992 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
78013 TCGCAATGCGA
1 TCGCAATGCGA
78024 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:78037 original size:20 final size:20
Alignment explanation
Indices: 78012--78125 Score: 131
Period size: 20 Copynumber: 5.7 Consensus size: 20
78002 AATTGGGAAA
78012 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
78032 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
78052 ATCGCAATGCGATACTTATT
1 ATCGCAATGCGATACTGACT
* *
78072 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
78093 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
78113 TTCGCAACGCGAT
1 ATCGCAATGCGAT
78126 TTACATAGCG
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 1 0.01
20 64 0.80
21 13 0.16
22 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:78724 original size:19 final size:19
Alignment explanation
Indices: 78677--78718 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
78667 ACGAGAGAAT
*
78677 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
*
78696 CGCAACGCGAAACAAAAAT
1 CGCAACGCGAAACAAAAAA
78715 CGCA
1 CGCA
78719 TTGCGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.52, C:0.26, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:78760 original size:20 final size:19
Alignment explanation
Indices: 78714--78784 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
78704 GAAACAAAAA
*
78714 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
78733 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
78752 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
78772 TTGCGTTGCGATT
1 TCGCGTTGCGATT
78785 GTCTGGTCGC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
19 30 0.64
20 17 0.36
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:78795 original size:39 final size:39
Alignment explanation
Indices: 78719--78795 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
78709 AAAAATCGCA
* **
78719 TTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
*
78758 TTGCGATTTTCATTTTGCGTTGCGATTGTCT-GGTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATT-TCTAGGTCGCG
78796 ATAGTCATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 31 0.94
40 2 0.06
ACGTcount: A:0.09, C:0.18, G:0.26, T:0.47
Consensus pattern (39 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
Found at i:78797 original size:33 final size:33
Alignment explanation
Indices: 78760--78831 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
78750 TTTCGCGGTT
* * * *
78760 GCGATTTTCATTTTGCGTTGCGATTGTCTGGTC
1 GCGATTGTCATTTCGCGTTGCGATTCTCTCGTC
* *
78793 GCGATAGTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTGTCATTTCGCGTTGCGATTCTCTCGTC
78826 GCGATT
1 GCGATT
78832 CTATCATTGC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.11, C:0.21, G:0.26, T:0.42
Consensus pattern (33 bp):
GCGATTGTCATTTCGCGTTGCGATTCTCTCGTC
Found at i:78825 original size:14 final size:14
Alignment explanation
Indices: 78808--78844 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
78798 AGTCATTTCG
*
78808 CGTTGCGATTCTCT
1 CGTTGCGATTCTAT
78822 CGTTGCGATTCTAT
1 CGTTGCGATTCTAT
*
78836 CATTGCGAT
1 CGTTGCGAT
78845 AGTCATTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTAT
Found at i:78870 original size:20 final size:20
Alignment explanation
Indices: 78847--78893 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
78837 ATTGCGATAG
78847 TCATTTCCGCGTTGCGATTC
1 TCATTTCCGCGTTGCGATTC
* *
78867 TCATTAT-CTCGTTGCGATTT
1 TCATT-TCCGCGTTGCGATTC
78887 TCATTTC
1 TCATTTC
78894 AACCAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.13, C:0.26, G:0.15, T:0.47
Consensus pattern (20 bp):
TCATTTCCGCGTTGCGATTC
Found at i:80974 original size:21 final size:21
Alignment explanation
Indices: 80950--81016 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
80940 TCATTCCTCG
80950 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
80971 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
80992 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
81013 AGAG
1 AGAG
81017 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:80974 original size:42 final size:42
Alignment explanation
Indices: 80898--81016 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
80888 GACTCTTCTG
* * * * * * *
80898 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
80940 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
80982 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
81017 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:82393 original size:14 final size:14
Alignment explanation
Indices: 82374--82409 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
82364 ATTGTTTAAT
82374 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
82388 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
82402 TGATTTGT
1 TGATTTGT
82410 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:82552 original size:20 final size:20
Alignment explanation
Indices: 82516--82686 Score: 303
Period size: 20 Copynumber: 8.7 Consensus size: 20
82506 AAAAAGTACT
*
82516 ATCGCAATGCG-AAATGAAA
1 ATCGCAACGCGAAAATGAAA
82535 ATCGCAACGCGAAAATGAAA
1 ATCGCAACGCGAAAATGAAA
82555 ATCGCAACGCGAAAATGAAA
1 ATCGCAACGCGAAAATGAAA
82575 ATCGCAACGCGAAAATGAAA
1 ATCGCAACGCGAAAATGAAA
82595 ATCGCAACGCGAAAATGAAA
1 ATCGCAACGCGAAAATGAAA
82615 ATCGCAACGCGAAAATGAAA
1 ATCGCAACGCGAAAATGAAA
*
82635 ACCGCAACGCGAAAATGAAA
1 ATCGCAACGCGAAAATGAAA
82655 ATCGCAACGCGAAAATG-AA
1 ATCGCAACGCGAAAATGAAA
82674 ATCGC-ACGCGAAA
1 ATCGCAACGCGAAA
82687 TTAAATTCGC
Statistics
Matches: 148, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
18 8 0.05
19 17 0.11
20 123 0.83
ACGTcount: A:0.49, C:0.21, G:0.20, T:0.10
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGAAA
Found at i:82746 original size:32 final size:33
Alignment explanation
Indices: 82689--82787 Score: 148
Period size: 33 Copynumber: 3.0 Consensus size: 33
82679 ACGCGAAATT
82689 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
*
82722 AAATTAGCGTTGCGA-TTTCATTTCGCATTGCG
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
* *
82754 -ATTCTCTCGTTGCGATTTTCATTTCGCATTGCG
1 AAAT-TCGCGTTGCGATTTTCATTTCGCATTGCG
82787 A
1 A
82788 TAGTAATTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
31 2 0.03
32 26 0.44
33 31 0.53
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.40
Consensus pattern (33 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
Found at i:84713 original size:12 final size:12
Alignment explanation
Indices: 84696--84720 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84686 TCTTCGGGGA
84696 CTTTTTCTTCTT
1 CTTTTTCTTCTT
84708 CTTTTTCTTCTT
1 CTTTTTCTTCTT
84720 C
1 C
84721 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:85424 original size:33 final size:33
Alignment explanation
Indices: 85387--85449 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
85377 TCCCATGACC
***
85387 CTCGTTGCGATTTTCATTTCGCATTGCGATTTT
1 CTCGTTGCGATAGCCATTTCGCATTGCGATTTT
*
85420 CTCGTTGCGATAGCCATTTCGCGTTGCGAT
1 CTCGTTGCGATAGCCATTTCGCATTGCGAT
85450 AGTCTGTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.41
Consensus pattern (33 bp):
CTCGTTGCGATAGCCATTTCGCATTGCGATTTT
Found at i:87284 original size:75 final size:76
Alignment explanation
Indices: 87098--87306 Score: 262
Period size: 74 Copynumber: 2.8 Consensus size: 76
87088 CAAAGCCAAA
* * * * **
87098 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCTCCCTAAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGA-TCCCCCCCATAGGA-GAACCGATTCCCCCCTAAACAG
87163 TTTTGGCCCCGAG
64 TTTTGGCCCCGAG
* *
87176 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGA-AACCGATTCCCCCCTAAACAGTT
1 AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGAACCGATTCCCCCCTAAACAGTT
*
87240 TT-GCTCCGAG
66 TTGGCCCCGAG
* * *
87250 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATA-GGAGAACCGATTCCCCCCT
87307 TGTACAACGG
Statistics
Matches: 115, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
73 1 0.01
74 42 0.37
75 36 0.31
77 13 0.11
78 23 0.20
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.21
Consensus pattern (76 bp):
AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGAACCGATTCCCCCCTAAACAGTT
TTGGCCCCGAG
Found at i:89312 original size:31 final size:31
Alignment explanation
Indices: 89277--89338 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
89267 AGAAGAGTTT
89277 GAAAAGAAAAATTTAGATTTGCAAAATTTAC
1 GAAAAGAAAAATTTAGATTTGCAAAATTTAC
89308 GAAAAGAAAAATTTAGATTTGCAAAATTTAC
1 GAAAAGAAAAATTTAGATTTGCAAAATTTAC
89339 TTTCAAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (31 bp):
GAAAAGAAAAATTTAGATTTGCAAAATTTAC
Found at i:89318 original size:16 final size:15
Alignment explanation
Indices: 89277--89324 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
89267 AGAAGAGTTT
89277 GAAAAGAAAAATTTA
1 GAAAAGAAAAATTTA
*** *
89292 GATTTGCAAAATTTA
1 GAAAAGAAAAATTTA
89307 CGAAAAGAAAAATTTA
1 -GAAAAGAAAAATTTA
89323 GA
1 GA
89325 TTTGCAAAAT
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.56, C:0.04, G:0.15, T:0.25
Consensus pattern (15 bp):
GAAAAGAAAAATTTA
Found at i:89333 original size:16 final size:15
Alignment explanation
Indices: 89284--89337 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
89274 TTTGAAAAGA
89284 AAAATTTAGATTTGC
1 AAAATTTAGATTTGC
*** *
89299 AAAATTTACGAAAAGA
1 AAAATTTA-GATTTGC
89315 AAAATTTAGATTTGC
1 AAAATTTAGATTTGC
89330 AAAATTTA
1 AAAATTTA
89338 CTTTCAAAGA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (15 bp):
AAAATTTAGATTTGC
Found at i:90899 original size:22 final size:22
Alignment explanation
Indices: 90873--90916 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
90863 GATGGAGATA
90873 GACGGATTTCGCCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
* *
90895 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
90917 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:91127 original size:20 final size:20
Alignment explanation
Indices: 91101--91214 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
91091 GATTATGTAT
91101 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
91121 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
91141 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
91161 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
91182 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
91202 TATCGCATTGCGA
1 TATCGCGTTGCGA
91215 TTTTCCCAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 3 0.04
20 63 0.79
21 12 0.15
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:91218 original size:41 final size:41
Alignment explanation
Indices: 91081--91216 Score: 159
Period size: 41 Copynumber: 3.3 Consensus size: 41
91071 CGCTTTGAAA
*
91081 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* * * *
91122 ATCGCGTTGCGA--AAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * * * *
91162 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
91203 ATCGCATTGCGATT
1 ATCGCATTGCGATT
91217 TTCCCAATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.04
40 31 0.40
41 42 0.54
42 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:91234 original size:41 final size:41
Alignment explanation
Indices: 91143--91277 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
91133 AAAGTCAGTA
* * * ** *
91143 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAAT
* * *
91183 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAAT
* **
91225 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCAAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCAAAT
91266 TCGCGTTGCGAT
1 TCGCGTTGCGAT
91278 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAAT
Found at i:91248 original size:20 final size:20
Alignment explanation
Indices: 91204--91296 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
91194 ATAGTCAGTA
* **
91204 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
91225 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
91245 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACTTAT
*
91266 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
91286 TCGCATTGCGA
1 TCGCATTGCGA
91297 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:91278 original size:41 final size:41
Alignment explanation
Indices: 91204--91296 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
91194 ATAGTCAGTA
*
91204 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCAAATTCGCGTTGCGATTTACTTAT
91245 TCGCATTGCGATTTTCCAAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCAAATTCGCGTTGCGATTTACTTAT
91286 TCGCATTGCGA
1 TCGCATTGCGA
91297 ATTGGGAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCAAATTCGCGTTGCGATTTACTTAT
Found at i:93319 original size:3 final size:3
Alignment explanation
Indices: 93313--93338 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
93303 CCCTTCAAAG
93313 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
93339 TAAATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:93344 original size:9 final size:9
Alignment explanation
Indices: 93314--93361 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
93304 CCTTCAAAGT
93314 AATAATA-A
1 AATAATATA
93322 TAATAATA-A
1 -AATAATATA
93331 TAATAATATA
1 -AATAATATA
93341 AATAA-ATA
1 AATAATATA
93349 AATAA-ATA
1 AATAATATA
93357 AATAA
1 AATAA
93362 AAAGGTGCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
8 16 0.42
9 21 0.55
10 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AATAATATA
Found at i:93344 original size:12 final size:12
Alignment explanation
Indices: 93317--93357 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
93307 TCAAAGTAAT
93317 AATAATAATA-A
1 AATAATAATATA
93328 TAATAATAATATA
1 -AATAATAATATA
93341 AATAAATAA-ATA
1 AAT-AATAATATA
93353 AATAA
1 AATAA
93358 ATAAAAAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.07
12 19 0.70
13 6 0.22
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAATAATATA
Found at i:93347 original size:4 final size:4
Alignment explanation
Indices: 93332--93362 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
93322 TAATAATAAT
93332 AATA ATATA AATA AATA AATA AATA AATA AA
1 AATA A-ATA AATA AATA AATA AATA AATA AA
93363 AAGGTGCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:96544 original size:25 final size:25
Alignment explanation
Indices: 96512--96562 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
96502 ATCAACTGAA
* * *
96512 AACTTATAACGACTTGCTCTAGATG
1 AACTTATAACCAATTACTCTAGATG
96537 AACTTATAACCAATTACTCTAGATG
1 AACTTATAACCAATTACTCTAGATG
96562 A
1 A
96563 CTTGTCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (25 bp):
AACTTATAACCAATTACTCTAGATG
Found at i:104925 original size:24 final size:23
Alignment explanation
Indices: 104881--104926 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
104871 TATAAAATTA
** *
104881 AAAAAATAAAATTATATATTTTT
1 AAAAAATAAAAACATAAATTTTT
104904 AAAAAATAAAACACATAAATTTT
1 AAAAAATAAAA-ACATAAATTTT
104927 GAAATAACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAAAATAAAAACATAAATTTTT
Found at i:105258 original size:18 final size:18
Alignment explanation
Indices: 105235--105269 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
105225 AGTGTTAGGA
105235 TTTGAGGATTTTATGTAT
1 TTTGAGGATTTTATGTAT
* *
105253 TTTGAGGCTTTTTTGTA
1 TTTGAGGATTTTATGTA
105270 CTTTAAAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.03, G:0.23, T:0.57
Consensus pattern (18 bp):
TTTGAGGATTTTATGTAT
Found at i:105444 original size:29 final size:30
Alignment explanation
Indices: 105401--105458 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
105391 TTTGAGTAAC
* *
105401 GAAATGAAACGTTAGGTACCAAACTAGAAT
1 GAAATGAAACATTAGGCACCAAACTAGAAT
*
105431 GAAAT-AAACATTAGGCACTAAACTAGAA
1 GAAATGAAACATTAGGCACCAAACTAGAA
105459 AAATGAGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (30 bp):
GAAATGAAACATTAGGCACCAAACTAGAAT
Found at i:105665 original size:21 final size:19
Alignment explanation
Indices: 105635--105677 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
105625 AATTAAAAAT
105635 TATTTAAAATGTTAAGATTTA
1 TATTTAAAAT-TTAAG-TTTA
* *
105656 TATTTTAAATTTTAGTTTA
1 TATTTAAAATTTAAGTTTA
105675 TAT
1 TAT
105678 AAATTCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (19 bp):
TATTTAAAATTTAAGTTTA
Found at i:109614 original size:21 final size:21
Alignment explanation
Indices: 109590--109678 Score: 126
Period size: 21 Copynumber: 4.3 Consensus size: 21
109580 CAAAATCGCA
*
109590 TTGCGATAGCATTGTTCATCG
1 TTGCGATAGCACTGTTCATCG
*
109611 TTGCGATAGCACTGCTCATCG
1 TTGCGATAGCACTGTTCATCG
* *
109632 TTGCGATAGTACTGTTCACCG
1 TTGCGATAGCACTGTTCATCG
*
109653 TTGCGATAGCACTGTTCA-CA
1 TTGCGATAGCACTGTTCATCG
109673 TTGCGA
1 TTGCGA
109679 ATTTACGATA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
20 7 0.11
21 54 0.89
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (21 bp):
TTGCGATAGCACTGTTCATCG
Found at i:110376 original size:21 final size:21
Alignment explanation
Indices: 110346--110501 Score: 222
Period size: 21 Copynumber: 7.4 Consensus size: 21
110336 ATTTTGATCA
*
110346 CTATCGCAATGGTGAACAGTG
1 CTATCGCAACGGTGAACAGTG
** * *
110367 CTATTACAATGGTGAACAGTA
1 CTATCGCAACGGTGAACAGTG
110388 CTATCGCAACGGTGAACAGTG
1 CTATCGCAACGGTGAACAGTG
* * *
110409 TTATCGTAACGGTGAACAATG
1 CTATCGCAACGGTGAACAGTG
110430 CTATCGCAACGGTGAACAGTG
1 CTATCGCAACGGTGAACAGTG
*
110451 CTATCGCAACGGTGACCAGTG
1 CTATCGCAACGGTGAACAGTG
*
110472 CTATCGCAACGGTGAACAGTA
1 CTATCGCAACGGTGAACAGTG
110493 CTATCGCAA
1 CTATCGCAA
110502 TGCGATTTTG
Statistics
Matches: 119, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 119 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (21 bp):
CTATCGCAACGGTGAACAGTG
Found at i:110516 original size:21 final size:21
Alignment explanation
Indices: 110492--110545 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
110482 GGTGAACAGT
*
110492 ACTATCGCAATGCGATTTTGG
1 ACTATCGCAATGCGAATTTGG
*
110513 ACTATCGCATTGCGAATTTGG
1 ACTATCGCAATGCGAATTTGG
**
110534 AAAATCGCAATG
1 ACTATCGCAATG
110546 TAATAGTCAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (21 bp):
ACTATCGCAATGCGAATTTGG
Found at i:114909 original size:37 final size:37
Alignment explanation
Indices: 114778--115048 Score: 290
Period size: 37 Copynumber: 7.3 Consensus size: 37
114768 TCGGTTTTCA
*
114778 AAAATATATATAATATATAG-TTTTGAAAATA-TTTG
1 AAAATATATATAATATATAGTTTTTGAAAACATTTTG
* *
114813 AAATATATATATATAATATATAGTTTTTTAAAATGATTTTTG
1 -AA-A-ATATATATAATATATAGTTTTTGAAAA-CA-TTTTG
* *
114855 AAAATATGTATATTATATAGTTTTTGAAAACATTTTG
1 AAAATATATATAATATATAGTTTTTGAAAACATTTTG
* * *
114892 AAAACT-TATATAATATAT-GATTTTTAAAAATATTTTA
1 AAAA-TATATATAATATATAG-TTTTTGAAAACATTTTG
*
114929 AAAATATATATAATATAT-GATTTTTAAAAAACATTTTG
1 AAAATATATATAATATATAG-TTTTT-GAAAACATTTTG
114967 -AAATATATATAATATATAGTTTTT-AAAACATTTTG
1 AAAATATATATAATATATAGTTTTTGAAAACATTTTG
* *
115002 AAAAT-TATATAATATATA-ATTTTGAAAACATTTTT
1 AAAATATATATAATATATAGTTTTTGAAAACATTTTG
*
115037 AAAAAATATATA
1 AAAATATATATA
115049 GAGAGAGTTT
Statistics
Matches: 205, Mismatches: 16, Indels: 28
0.82 0.06 0.11
Matches are distributed among these distances:
34 4 0.02
35 38 0.19
36 14 0.07
37 79 0.39
38 30 0.15
39 32 0.16
40 2 0.01
41 2 0.01
42 4 0.02
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.45
Consensus pattern (37 bp):
AAAATATATATAATATATAGTTTTTGAAAACATTTTG
Found at i:115133 original size:3 final size:3
Alignment explanation
Indices: 115125--115182 Score: 63
Period size: 3 Copynumber: 20.7 Consensus size: 3
115115 TTTGAAAATA
*
115125 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T T-T TAT TA- TAT GTTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
115168 TAT T-T TAT T-T TAT TA
1 TAT TAT TAT TAT TAT TA
115183 ATCCTATTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 10 0.21
3 36 0.75
4 2 0.04
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:115525 original size:19 final size:19
Alignment explanation
Indices: 115503--115546 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
115493 AGTCGGAAAA
115503 ACAACAAGTAACCGGAACC
1 ACAACAAGTAACCGGAACC
* * *
115522 ACAATAAGTAACTGGTACC
1 ACAACAAGTAACCGGAACC
115541 ACAACA
1 ACAACA
115547 TCCAAATACC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.48, C:0.27, G:0.14, T:0.11
Consensus pattern (19 bp):
ACAACAAGTAACCGGAACC
Found at i:116177 original size:11 final size:11
Alignment explanation
Indices: 116161--116185 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
116151 TTTAGTATTT
116161 TTTATTTTTTA
1 TTTATTTTTTA
116172 TTTATTTTTTA
1 TTTATTTTTTA
116183 TTT
1 TTT
116186 TTCTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:117495 original size:20 final size:20
Alignment explanation
Indices: 117472--117535 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 20
117462 TAGTATTTAA
117472 ATAAAT-TTATTAATAATTTT
1 ATAAATATT-TTAATAATTTT
* *
117492 AT-AATCTTTTAATAAATTTA
1 ATAAATATTTTAAT-AATTTT
*
117512 ATAAGTATTTT-ATAATTTT
1 ATAAATATTTTAATAATTTT
*
117531 TTAAA
1 ATAAA
117536 CTTTATTGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
19 16 0.46
20 13 0.37
21 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAATAATTTT
Found at i:117505 original size:19 final size:20
Alignment explanation
Indices: 117481--117530 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
117471 AATAAATTTA
*
117481 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTATT
*
117500 TTAATAAATTTAATAAGTATT
1 TTAAT-AATTTTATAAGTATT
117521 TT-ATAATTTT
1 TTAATAATTTT
117531 TTAAACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTATT
Found at i:117533 original size:31 final size:30
Alignment explanation
Indices: 117448--117534 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 30
117438 TTCGATAATA
* *
117448 TAATAATTATTTTATAGTATTTAAATAAATT
1 TAATAA-TATTTTATAATATTTTAATAAATT
* *
117479 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAAT-ATTTTATAATATTTTAATAAATT
*
117510 TAATAAGTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATATTTTAA
117535 ACTTTATTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.02
31 46 0.96
32 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (30 bp):
TAATAATATTTTATAATATTTTAATAAATT
Found at i:118296 original size:31 final size:30
Alignment explanation
Indices: 118254--118340 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
118244 TCAATAAAAT
118254 TTAAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAAATTATAAAATA-TTATTAAATTTA
* *
118285 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAAATTATAAAA-TATTATTAAATTTA
* *
118316 TCT-AAATACTATAAAATAATTATTA
1 T-TAAAAAATTATAAAAT-ATTATTA
118341 TATTATCGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
30 1 0.02
31 44 0.92
32 3 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (30 bp):
TTAAAAAATTATAAAATATTATTAAATTTA
Found at i:124073 original size:35 final size:33
Alignment explanation
Indices: 123989--124074 Score: 86
Period size: 35 Copynumber: 2.5 Consensus size: 33
123979 CAAATATTTT
123989 TAATACAA-AAAACTTACAATAAGTATTAAATGG
1 TAATACAACAAAA-TTACAATAAGTATTAAATGG
* *
124022 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 T-AAT-ACAACAAAATTACAATAA--G-TATTAAATGG
124060 TAATA-AACAAAATTA
1 TAATACAACAAAATTA
124075 ACTGAAATAC
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
33 1 0.02
34 3 0.07
35 21 0.48
36 4 0.09
37 4 0.09
38 11 0.25
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.28
Consensus pattern (33 bp):
TAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:127839 original size:23 final size:23
Alignment explanation
Indices: 127813--127870 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
127803 TTACATTTAT
*
127813 ATTTA-AATTTAAAATTTTAATTA
1 ATTTATAATTTAAAAGTTTAA-TA
*
127836 ATTTATAA-TTATAAGTTTAATA
1 ATTTATAATTTAAAAGTTTAATA
*
127858 CTTTATAATTTAA
1 ATTTATAATTTAA
127871 CGTTTTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 9 0.31
23 18 0.62
24 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTATAATTTAAAAGTTTAATA
Found at i:127840 original size:17 final size:17
Alignment explanation
Indices: 127791--127845 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
127781 TAAATATTAT
*
127791 ATTTTAATTAATTT-AC
1 ATTTTAATTAATTTAAA
*
127807 ATTTATATTTAAATTTAAA
1 ATTT-TAATT-AATTTAAA
*
127826 ATTTTAATTAATTTATA
1 ATTTTAATTAATTTAAA
127843 ATT
1 ATT
127846 ATAAGTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 4 0.12
17 14 0.44
18 9 0.28
19 5 0.16
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAATTTAAA
Found at i:127864 original size:22 final size:23
Alignment explanation
Indices: 127828--127875 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
127818 AATTTAAAAT
127828 TTTAATTAATTTATAATTATAA-G
1 TTTAATTAATTTATAATT-TAACG
*
127851 TTTAA-TACTTTATAATTTAACG
1 TTTAATTAATTTATAATTTAACG
127873 TTT
1 TTT
127876 TATAAATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTAATTAATTTATAATTTAACG
Found at i:127877 original size:23 final size:23
Alignment explanation
Indices: 127813--127877 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
127803 TTACATTTAT
*
127813 ATTTA-AATTTAAAATTTTAATTA
1 ATTTATAATTT-AAGTTTTAATTA
127836 ATTTATAATTATAAG-TTTAA-TA
1 ATTTATAATT-TAAGTTTTAATTA
*
127858 CTTTATAATTTAACGTTTTA
1 ATTTATAATTTAA-GTTTTA
127878 TAAATCAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
21 3 0.08
22 12 0.33
23 14 0.39
24 6 0.17
25 1 0.03
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (23 bp):
ATTTATAATTTAAGTTTTAATTA
Found at i:137417 original size:17 final size:17
Alignment explanation
Indices: 137397--137429 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
137387 CTCACTAACC
*
137397 CTTTTATTTTTTGTTCT
1 CTTTTATTTTGTGTTCT
137414 CTTTTATTTTGTGTTC
1 CTTTTATTTTGTGTTC
137430 ATCGTTTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.73
Consensus pattern (17 bp):
CTTTTATTTTGTGTTCT
Found at i:138061 original size:18 final size:19
Alignment explanation
Indices: 138040--138084 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
138030 ATTTAGACAT
138040 TTTGCATTTT-TTATTTTC
1 TTTGCATTTTGTTATTTTC
138058 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTGTTATTTTC
*
138077 ATTGCATT
1 TTTGCATT
138085 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTGTTATTTTC
Found at i:141652 original size:84 final size:82
Alignment explanation
Indices: 141486--142342 Score: 755
Period size: 84 Copynumber: 10.4 Consensus size: 82
141476 TAAAAGATAG
* * * * * ** *
141486 CATTTGCAGCATAACTCAAGGCTATAAGGGTTATCTGCCAGTAAAGACCTTCGAGTTCGACCACG
1 CATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTG-CAACAAAGACCTTCGAGTTCGACTACG
141551 CTCAGCTCCAAGGCACAT
65 CTCAGCTCCAAGGCACAT
* * * * *
141569 CATTTGCAATATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTTTGAGTTCGACTAT
1 CATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTG-CAAC-AAAGACCTTCGAGTTCGACTAC
* *
141634 GCTCAACT-CAACGACACAT
64 GCTCAGCTCCAA-GGCACAT
* * * ** * *
141653 CATTTGTAGTATAGCTTAAGTCGAGAAGGGCTATCTGC--CAAAGACCCCCGAGTTCGATTACAC
1 CATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTGCAACAAAGACCTTCGAGTTCGACTACGC
*
141716 TCAGCTTCAAGGGCACAT
66 TCAGCTCCAA-GGCACAT
* * * * * *
141734 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACG
1 CATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTGCAA-CAAAGACCTTCGAGTTCGACTACG
141799 CTCAGCTCCAAGGCACAT
65 CTCAGCTCCAAGGCACAT
* * * * *
141817 CATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATATGC--CAAAGACCCTCGAGTTCGACTATGC
1 CATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTGCAACAAAGACCTTCGAGTTCGACTACGC
* *
141880 TCAGCTTCGAGGGCACAT
66 TCAGC-TCCAAGGCACAT
* * * * *
141898 CATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTG-CAAC-AAAGACCTTCGAGTTCGACTAC
141963 GCTCAGCTCCAAGGCACAT
64 GCTCAGCTCCAAGGCACAT
* * * ** * *
141982 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC--CAAAGACCCCCGAGTTCGATTACAC
1 CATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTGCAACAAAGACCTTCGAGTTCGACTACGC
* * * *
142045 TTAGCTTCGAGGGCATAT
66 TCAGC-TCCAAGGCACAT
* * * * * * * *
142063 CATTTACAGCATAACTCAAGGCTATAAGGGTTATATGTCACCAAAGACCTTCGAGTTCGACTACG
1 CATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTG-CAACAAAGACCTTCGAGTTCGACTACG
* *
142128 CTCAGCTCCAAGGTATAT
65 CTCAGCTCCAAGGCACAT
* * * * * * * * * *
142146 CATTTGCGGCACAACTTAAGTCTAGAAGGGTTGTCTACCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCT-GCAA-CAAAGACCTTCGAGTTCGACTAC
142211 GCTCAGCTCCAAGGCACAT
64 GCTCAGCTCCAAGGCACAT
* * * * * *
142230 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG--TCAAAGACCTTCGAGTTCGATTACAC
1 CATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTGCAACAAAGACCTTCGAGTTCGACTACGC
* *
142293 TCAACTCAAAGGCACCAT
66 TCAGCTCCAAGGCA-CAT
* ** *
142311 CATTTACAACATAG--CAAGGCAAGAAGGGCTAT
1 CATTTGCAGTATAGCTCAAGGCGAGAAGGGCTAT
142343 TTGTCAATAA
Statistics
Matches: 629, Mismatches: 127, Indels: 40
0.79 0.16 0.05
Matches are distributed among these distances:
79 15 0.02
80 110 0.17
81 133 0.21
82 2 0.00
83 113 0.18
84 229 0.36
85 27 0.04
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (82 bp):
CATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTGCAACAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACAT
Found at i:141818 original size:164 final size:164
Alignment explanation
Indices: 141486--142342 Score: 956
Period size: 164 Copynumber: 5.2 Consensus size: 164
141476 TAAAAGATAG
* * * * * * * *
141486 CATTTGCAGCATAACTCAAGGCTATAAGGGTTATCTGCCAGTAAAGACCTTCGAGTTCGACCACG
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC---AAAGACCCTCGAGTTCGACTACG
* * ** * * * * * *
141551 CTCAGCTCCAA-GGCACATCATTTGCAATATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAA
63 CTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TAACCAAA
* * * *
141615 GACCTTTGAGTTCGACTATGCTCAACT-CAACGACACAT
127 GACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACAT
* * * * *
141653 CATTTGTAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGCTC
141718 AGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACC
66 AGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACC
141783 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
131 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * *
141817 CATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCTCGAGTTCGACTATGCTC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGCTC
* * *
141882 AGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGAC
66 AGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACC-AAAGAC
141947 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
130 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * *
141982 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTT
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGCTC
* * * * *
142047 AGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTATAAGGGTTATATGTCACCAAAGACC
66 AGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACC
* *
142112 TTCGAGTTCGACTACGCTCAGCTCCAAGGTATAT
131 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * * * ** *
142146 CATTTGCGGCACAACTTAAGTCTAGAAGGGTTGTCTACCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAA-GG--G-CTATCTGCCAAAGACCCTCGAGTTCGACTAC
* * * * * * *
142211 GCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGT---CAAA
62 GCTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAA
* * * *
142272 GACCTTCGAGTTCGATTACACTCAACTCAAAGGCACCAT
127 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CAT
* * * *
142311 CATTTACAACATAGC--AAGGCAAGAAGGGCTAT
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
142343 TTGTCAATAA
Statistics
Matches: 596, Mismatches: 86, Indels: 24
0.84 0.12 0.03
Matches are distributed among these distances:
159 3 0.01
160 1 0.00
162 2 0.00
163 8 0.01
164 274 0.46
165 207 0.35
167 68 0.11
168 33 0.06
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (164 bp):
CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGCTC
AGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACC
TTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
Found at i:141981 original size:248 final size:244
Alignment explanation
Indices: 141486--142342 Score: 893
Period size: 248 Copynumber: 3.5 Consensus size: 244
141476 TAAAAGATAG
* * * *
141486 CATTTGCAGCATAACTCAAGGCTATAAGGGTTATCTG-CCAGTAAAGACCTTCGAGTTCGACCAC
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTGTCC---AAAGACCTTCGAGTTCGACTAC
* * *
141550 GCTCAGCTCCAAGGCACATCATTTGCAATATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAA
63 ACTCAGCTCCAAGGCACATCATTTGCAGTATAGCTCAAGGCAAGAAGGGCTATATGCC--C-AAA
* * * * * * *
141615 GACCTTTGAGTTCGACTATGCTCAACTCAACGACACATCATTTGTAGTATAGCTTAAGTCGAGAA
125 GACCTTCGAGTTCGACTATGCTCAGCTCAAAGGCACATCATTTGCAGTATAACTTAAGTCTAGAA
* ** * * *
141680 GGGCTATCTG--CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCAAGGGCACAT
190 GGGTTATCTGCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACAT
* * * *
141734 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACG
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTGT--CCAAAGACCTTCGAGTTCGACTACA
* * *
141799 CTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATATG-CCAAAGACC
64 CTCAGCTCCAAGGCACATCATTTGCAGTATAGCTCAAGGCAAGAAGGGCTATATGCCCAAAGACC
* * * * * *
141863 CTCGAGTTCGACTATGCTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGG
129 TTCGAGTTCGACTATGCTCAGC-TCAAAGGCACATCATTTGCAGTATAACTTAAGTCTAGAAGGG
141928 TTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
193 TTATCTG-CACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * ** *
141982 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCCCGAGTTCGATTACACT
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTGTCCAAAGACCTTCGAGTTCGACTACACT
* * * * * * * * * *
142046 TAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTATAAGGGTTATATGTCACCAAAGAC
66 CAGC-TCCAAGGCACATCATTTGCAGTATAGCTCAAGGCAAGAAGGGCTATATG-C-CCAAAGAC
* * * * * * *
142111 CTTCGAGTTCGACTACGCTCAGCTCCAAGGTATATCATTTGCGGCACAACTTAAGTCTAGAAGGG
128 CTTCGAGTTCGACTATGCTCAGCTCAAAGGCACATCATTTGCAGTATAACTTAAGTCTAGAAGGG
* *
142176 TTGTCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
193 TTATCT-GC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * *
142230 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGT-CAAAGACCTTCGAGTTCGATTACACT
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTGTCCAAAGACCTTCGAGTTCGACTACACT
* * * **
142294 CAACTCAAAGGCACCATCATTTACAACATAG--CAAGGCAAGAAGGGCTAT
66 CAGCTCCAAGGCA-CATCATTTGCAGTATAGCTCAAGGCAAGAAGGGCTAT
142343 TTGTCAATAA
Statistics
Matches: 519, Mismatches: 74, Indels: 34
0.83 0.12 0.05
Matches are distributed among these distances:
244 26 0.05
245 66 0.13
246 53 0.10
247 8 0.02
248 303 0.58
249 61 0.12
251 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (244 bp):
CATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTGTCCAAAGACCTTCGAGTTCGACTACACT
CAGCTCCAAGGCACATCATTTGCAGTATAGCTCAAGGCAAGAAGGGCTATATGCCCAAAGACCTT
CGAGTTCGACTATGCTCAGCTCAAAGGCACATCATTTGCAGTATAACTTAAGTCTAGAAGGGTTA
TCTGCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
Found at i:142166 original size:329 final size:330
Alignment explanation
Indices: 141528--142342 Score: 1101
Period size: 329 Copynumber: 2.5 Consensus size: 330
141518 ATCTGCCAGT
* *
141528 AAAGACCTTCGAGTTCGACCACGCTCAGCTCCAAGGCACATCATTTGCAATATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTCAAGGCAA
* * * * *
141593 GAAGGGCTATTTGCCAACAAAAGACCTTTGAGTTCGACTATGCTCAACT-CAACGACACATCATT
66 GAAGGGCTATCTGTC-ACAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAA-GGCACATCATT
* *
141657 TGTAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCT
129 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCT
*
141722 TCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTCG
194 TCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTAACCAAAGACCTTCG
* * *
141787 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAA-GG-G-CT
259 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTAAGTCGAGAAGGGTGTCT
* *
141849 A-TATGCC
324 ACCA-ACC
* * * * * * *
141856 AAAGACCCTCGAGTTCGACTATGCTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGTATAGCTCAAGGCA
* *
141921 AGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
65 AGAAGGGCTATCTGTCA-CAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATT
*
141986 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTTAGCT
129 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCT
* * * *
142051 TCGAGGGCATATCATTTACAGCATAACTCAAGGCTATAAGGGTTATATGTCACCAAAGACCTTCG
194 TCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTAACCAAAGACCTTCG
* * * *
142116 AGTTCGACTACGCTCAGCTCCAAGGTATATCATTTGCGGCACAACTTAAGTCTAGAAGGGTTGTC
259 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTAAGTCGAGAAGGG-TGTC
142181 TACCAACC
323 TACCAACC
* * * *
142189 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTCAAGGCAA
* * *
142254 GAAGGGCTATCTGT--C-AAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACCATCATTT
66 GAAGGGCTATCTGTCACAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCA-CATCATTT
* * * *
142316 ACAACATAGC--AAGGCAAGAAGGGCTAT
130 GCAGCATAGCTTAAGTCGAGAAGGGCTAT
142343 TTGTCAATAA
Statistics
Matches: 426, Mismatches: 52, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
327 15 0.04
328 61 0.14
329 270 0.63
330 5 0.01
332 42 0.10
333 32 0.08
334 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (330 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTCAAGGCAA
GAAGGGCTATCTGTCACAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTG
CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTC
AAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTAACCAAAGACCTTCGAG
TTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTAAGTCGAGAAGGGTGTCTAC
CAACC
Found at i:146831 original size:29 final size:29
Alignment explanation
Indices: 146805--146912 Score: 94
Period size: 29 Copynumber: 3.7 Consensus size: 29
146795 GATGATAAAG
*
146805 ATAAAATATATTTTTAAATTAAAATAAAA
1 ATAAAATATATTTTTAAATTAAAACAAAA
* * ** *
146834 ACAACATATATTAAATAAATTAAGACAAAA
1 ATAAAATATATT-TTTAAATTAAAACAAAA
* *
146864 ATAAAA-ATATTTAATAAGTTAAAACAAAA
1 ATAAAATATATTT-TTAAATTAAAACAAAA
*
146893 ATAAAGATA-ATTTTAAAATT
1 ATAAA-ATATATTTTTAAATT
146913 TAAGATATAT
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
29 38 0.62
30 22 0.36
31 1 0.02
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (29 bp):
ATAAAATATATTTTTAAATTAAAACAAAA
Found at i:149537 original size:42 final size:42
Alignment explanation
Indices: 149491--149581 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
149481 TTGGTTAATT
*
149491 ACTTATTAGTTATACTCTGTTTTTTGGAGTGAATTTTGGTGA
1 ACTTATTAGTTATACTCTGTTTCTTGGAGTGAATTTTGGTGA
*
149533 ACTTATTAGTTGTACTCTGTTTCTTGGAGTGAATTTTGGTGA
1 ACTTATTAGTTATACTCTGTTTCTTGGAGTGAATTTTGGTGA
149575 ACTTATT
1 ACTTATT
149582 CGTTCTACAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.21, C:0.09, G:0.21, T:0.49
Consensus pattern (42 bp):
ACTTATTAGTTATACTCTGTTTCTTGGAGTGAATTTTGGTGA
Found at i:151937 original size:2 final size:2
Alignment explanation
Indices: 151930--151962 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
151920 GTTATACAGG
151930 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
151963 GGAGTTATAA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:155252 original size:17 final size:18
Alignment explanation
Indices: 155217--155253 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
155207 GGATTAATAA
155217 ATCTGAAAAGACATATTG
1 ATCTGAAAAGACATATTG
155235 ATCTGATAAA-AC-TATTG
1 ATCTGA-AAAGACATATTG
155252 AT
1 AT
155254 GTGCATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 8 0.44
19 3 0.17
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (18 bp):
ATCTGAAAAGACATATTG
Found at i:156881 original size:12 final size:12
Alignment explanation
Indices: 156863--156924 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
156853 ACCTGAATTA
156863 TGTTCTGATTTC
1 TGTTCTGATTTC
*
156875 TGATCTGGA-TTC
1 TGTTCT-GATTTC
* *
156887 TGTTATGATATC
1 TGTTCTGATTTC
* *
156899 TCTTCTGAATTC
1 TGTTCTGATTTC
*
156911 TGTTTTGATTTC
1 TGTTCTGATTTC
156923 TG
1 TG
156925 ATATCTCCGT
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
11 2 0.05
12 33 0.89
13 2 0.05
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.53
Consensus pattern (12 bp):
TGTTCTGATTTC
Found at i:156895 original size:24 final size:24
Alignment explanation
Indices: 156820--156926 Score: 92
Period size: 24 Copynumber: 4.5 Consensus size: 24
156810 ATATTTTATC
156820 TGATTTCTGA-CTTGAATTCTGTTA
1 TGATTTCTGATC-TGAATTCTGTTA
* * * * *
156844 TTA-TACATGACCTGAATTATGTTC
1 TGATTTC-TGATCTGAATTCTGTTA
*
156868 TGATTTCTGATCTGGATTCTGTTA
1 TGATTTCTGATCTGAATTCTGTTA
* ** *
156892 TGATATCTCTTCTGAATTCTGTTT
1 TGATTTCTGATCTGAATTCTGTTA
156916 TGATTTCTGAT
1 TGATTTCTGAT
156927 ATCTCCGTTT
Statistics
Matches: 62, Mismatches: 18, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
23 2 0.03
24 57 0.92
25 3 0.05
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.50
Consensus pattern (24 bp):
TGATTTCTGATCTGAATTCTGTTA
Found at i:160586 original size:17 final size:18
Alignment explanation
Indices: 160564--160597 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
160554 TTAAGAGACA
160564 TATTGATCTG-ATAAAAC
1 TATTGATCTGCATAAAAC
*
160581 TATTGATGTGCATAAAA
1 TATTGATCTGCATAAAA
160598 AATATTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (18 bp):
TATTGATCTGCATAAAAC
Found at i:162212 original size:12 final size:12
Alignment explanation
Indices: 162174--162266 Score: 57
Period size: 12 Copynumber: 7.8 Consensus size: 12
162164 ATTTCTGACT
162174 TGAATTCTGTTC
1 TGAATTCTGTTC
* **
162186 TG-ATACATGACC
1 TGAATTC-TGTTC
162198 TGAATTCTGTTC
1 TGAATTCTGTTC
*
162210 TGATTTCT-TATC
1 TGAATTCTGT-TC
* *
162222 TGGATTCTGTTA
1 TGAATTCTGTTC
*
162234 TG-ATATCTCTTC
1 TGAAT-TCTGTTC
*
162246 TGAATTCTGTTT
1 TGAATTCTGTTC
*
162258 TGATTTCTG
1 TGAATTCTG
162267 ATATCTCCGT
Statistics
Matches: 60, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
11 6 0.10
12 48 0.80
13 6 0.10
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.49
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:162216 original size:48 final size:48
Alignment explanation
Indices: 162160--162268 Score: 123
Period size: 48 Copynumber: 2.3 Consensus size: 48
162150 AAATATTTTA
* *
162160 TCTGATTTCTGA-CTTGAATTCTGTTCTGATA-CATGACCTGAATTCTGT
1 TCTGATTTCTGATC-TGAATTCTGTTATGATATC-TCACCTGAATTCTGT
* * **
162208 TCTGATTTCTTATCTGGATTCTGTTATGATATCTCTTCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTCTGTTATGATATCTCACCTGAATTCTGT
*
162256 TTTGATTTCTGAT
1 TCTGATTTCTGAT
162269 ATCTCCGTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
48 49 0.96
49 2 0.04
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.50
Consensus pattern (48 bp):
TCTGATTTCTGATCTGAATTCTGTTATGATATCTCACCTGAATTCTGT
Found at i:162228 original size:24 final size:24
Alignment explanation
Indices: 162197--162265 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
162187 GATACATGAC
*
162197 CTGAATTCTGTTCTGATTTCT-TAT
1 CTGAATTCTGTTATGATTTCTCT-T
* *
162221 CTGGATTCTGTTATGATATCTCTT
1 CTGAATTCTGTTATGATTTCTCTT
*
162245 CTGAATTCTGTTTTGATTTCT
1 CTGAATTCTGTTATGATTTCT
162266 GATATCTCCG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 37 0.97
25 1 0.03
ACGTcount: A:0.16, C:0.16, G:0.14, T:0.54
Consensus pattern (24 bp):
CTGAATTCTGTTATGATTTCTCTT
Found at i:166787 original size:20 final size:20
Alignment explanation
Indices: 166758--166795 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
166748 TCTTGTTTCT
* *
166758 ATTATTATTATTATTATTCA
1 ATTATAATTAATATTATTCA
166778 ATTATAATTAATATTATT
1 ATTATAATTAATATTATT
166796 ATAATAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTATAATTAATATTATTCA
Found at i:170272 original size:3 final size:3
Alignment explanation
Indices: 170264--170311 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
170254 ACTAAATTTG
170264 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
170312 GTAACTACTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:178941 original size:45 final size:47
Alignment explanation
Indices: 178877--178982 Score: 157
Period size: 46 Copynumber: 2.3 Consensus size: 47
178867 GCAGAGTAGT
*
178877 TAAA-CTATATAAGCCCAAGTTC-AGCATGATGATACCTTCCTATA-
1 TAAACCTATATAAGCACAAGTTCAAGCATGATGATACCTTCCTATAC
* *
178921 TAAACCTATATAAGCACAAGTTCAAGCATGATGGTGCCTTCCTATAC
1 TAAACCTATATAAGCACAAGTTCAAGCATGATGATACCTTCCTATAC
178968 T-AACCTATATAAGCA
1 TAAACCTATATAAGCA
178983 AGTGCATCAT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
44 4 0.07
45 17 0.30
46 34 0.61
47 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (47 bp):
TAAACCTATATAAGCACAAGTTCAAGCATGATGATACCTTCCTATAC
Found at i:180643 original size:508 final size:504
Alignment explanation
Indices: 179688--180702 Score: 1894
Period size: 508 Copynumber: 2.0 Consensus size: 504
179678 AATCATGATA
179688 TCTTTATCAACTTATCACAAGCTTAGAATTTCAGTCTTCGGCACTTACCAAAGGCTTTCCCGTAA
1 TCTTTATCAACTTATCACAAGCTTAGAATTTCAGTCTTCGGCACTTACCAAAGGCTTTCCCGTAA
179753 CAACGCCGGAGTGTCCGTGAAACTTAGAGTATCGTCCAAAATCCATGCCATAGTCTACACAAGAC
66 CAACGCCGGAGTGTCCGTGAAACTTAGAGTATCGTCCAAAATCCATGCCATAGTCTACACAAGAC
179818 TATTCTTAACATGCATATAAACTTATGGAAGTAAAACTGAACTAAAACAAGGAAGTTAATGAAAA
131 TATTCTTAACATGCATATAAACTTATGGAAGT-AAACTGAACTAAAACAAGGAAGTTAATGAAAA
179883 ACAGAACATTATAACCTGTGCATTAGTTCCCATGTCTGGGCCAGGAACATCCATGTATACCAATG
195 ACAGAACATTATAACC-GTGCATTAGTTCCCATGTCTGGGCCAGGAACATCCATGTATACCAATG
179948 AGATCATGGATCTTTTGAGTGAAGACACGAGTTAGACGTTCCAATTCGCTCTTAGATAATTCCCT
259 AGATCATGGATCTTTTGAGTGAAGACACGAGTTAGACGTTCCAATTCGCTCTTAGATAATTCCCT
180013 AGGAGAGCATCCTATGCCGCCTTTTGCACCGCCGTACGGAATGTCAGCTACCGCAGTCTTCCAGT
324 AGGAGAGCATCCTATGCCGCCTTTTGCACCGCCGTACGGAATGTCAGCTACCGCAGTCTTCCAGT
180078 CATTAGTTGAGCCAGTGCATTCACTTCATCAGGGTCACCTTTAAACAAAATTTACAAACATCGGT
389 CATTAGTTGAGCCAGTGCATTCACTTCATCAGGGTCACCTTTAAACAAAATTTACAAACATCGGT
180143 TGTGATGTAAGATCAAAACAATATATGAAGAGTGAAAAACTACACCTCGAAAT
454 TGTGATGTAAGATCAAAAC-A-ATATGAAGAGTGAAAAACTACACCTCGAAAT
180196 TCTTTATCAACTTATCACAAGCTTAGAATTTCAGTCTTCGGCACTTACCAAAGGCTTTCCCGTAA
1 TCTTTATCAACTTATCACAAGCTTAGAATTTCAGTCTTCGGCACTTACCAAAGGCTTTCCCGTAA
*
180261 CAACGCGGCGAGTGTCCGTGAAACTTAGAGTATTCGTCCAAAATCCATGCCATAGTCTACACAAG
66 CAACGCCG-GAGTGTCCGTGAAACTTAGAGTA-TCGTCCAAAATCCATGCCATAGTCTACACAAG
180326 ACTATTCTTAACATGCATATAAACTTATGGAAGT-AACTTGAACTAAAACAAGGAAGTTAATGAA
129 ACTATTCTTAACATGCATATAAACTTATGGAAGTAAAC-TGAACTAAAACAAGGAAGTTAATGAA
*
180390 AAACAGAACATTATAACC-TGCATTAGTTCCCATGTCTGGGGCAGGAACATCCATATGTATACCA
193 AAACAGAACATTATAACCGTGCATTAGTTCCCATGTCTGGGCCAGGAACATCC--ATGTATACCA
180454 A-GAGATCATGGATCTTTTGAGTGAAGACACGAGTTAGACGTTCCAATTCGCTCTTAGATAATTC
256 ATGAGATCATGGATCTTTTGAGTGAAGACACGAGTTAGACGTTCCAATTCGCTCTTAGATAATTC
180518 CCTAGGAGAGCATCCTATGCCGCCTTTTGCACCGCCGTACGGAATGTCAGCTACCGCAGTCTTCC
321 CCTAGGAGAGCATCCTATGCCGCCTTTTGCACCGCCGTACGGAATGTCAGCTACCGCAGTCTTCC
180583 -GTCATTAGTTGAGCCAGTGCATTCACTTCATCAGGGTCAACCTTTAAACAAAATTTACAAACAT
386 AGTCATTAGTTGAGCCAGTGCATTCACTTCATCAGGGTC-ACCTTTAAACAAAATTTACAAACAT
180647 CGGTTGTGATGTAAGATCAAAACAATATGAAGAGTGAAAAACTACACCTCGAAAT
450 CGGTTGTGATGTAAGATCAAAACAATATGAAGAGTGAAAAACTACACCTCGAAAT
180702 T
1 T
180703 TTAATTACGG
Statistics
Matches: 499, Mismatches: 2, Indels: 14
0.97 0.00 0.03
Matches are distributed among these distances:
506 32 0.06
507 72 0.14
508 251 0.50
509 78 0.16
510 66 0.13
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (504 bp):
TCTTTATCAACTTATCACAAGCTTAGAATTTCAGTCTTCGGCACTTACCAAAGGCTTTCCCGTAA
CAACGCCGGAGTGTCCGTGAAACTTAGAGTATCGTCCAAAATCCATGCCATAGTCTACACAAGAC
TATTCTTAACATGCATATAAACTTATGGAAGTAAACTGAACTAAAACAAGGAAGTTAATGAAAAA
CAGAACATTATAACCGTGCATTAGTTCCCATGTCTGGGCCAGGAACATCCATGTATACCAATGAG
ATCATGGATCTTTTGAGTGAAGACACGAGTTAGACGTTCCAATTCGCTCTTAGATAATTCCCTAG
GAGAGCATCCTATGCCGCCTTTTGCACCGCCGTACGGAATGTCAGCTACCGCAGTCTTCCAGTCA
TTAGTTGAGCCAGTGCATTCACTTCATCAGGGTCACCTTTAAACAAAATTTACAAACATCGGTTG
TGATGTAAGATCAAAACAATATGAAGAGTGAAAAACTACACCTCGAAAT
Done.