Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold342
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: 288538
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1209 original size:21 final size:20
Alignment explanation
Indices: 1163--1215 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
1153 GTAGCCAAAC
**
1163 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
1183 -TGTATCGATACACAAAAAAA
1 TTGTATCGATACAC-AAAAAA
1203 TTGTATCGATACA
1 TTGTATCGATACA
1216 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:3448 original size:21 final size:21
Alignment explanation
Indices: 3415--3464 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
3405 TTGCAAGTTG
*
3415 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
3437 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
3458 AAATAAA
1 AAATAAA
3465 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:5281 original size:15 final size:15
Alignment explanation
Indices: 5261--5291 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5251 TAAAAATGTC
*
5261 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
5276 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
5291 C
1 C
5292 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:7377 original size:20 final size:20
Alignment explanation
Indices: 7306--7383 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 20
7296 AATGTCCAAA
7306 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACAT-TTTTCT
* *
7326 GTGTATCGATACATTTGGAAATTCA
1 ATGTATCGATACATTT-----TTCT
7351 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
7371 TTGTATCGATACA
1 ATGTATCGATACA
7384 ATGTATCGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
19 2 0.04
20 28 0.60
24 2 0.04
25 15 0.32
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:7390 original size:13 final size:13
Alignment explanation
Indices: 7372--7409 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
7362 CATTTTTCTT
7372 TGTATCGATACAA
1 TGTATCGATACAA
*
7385 TGTATCGATACAC
1 TGTATCGATACAA
7398 TGTATCGATACA
1 TGTATCGATACA
7410 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:9070 original size:23 final size:21
Alignment explanation
Indices: 9028--9070 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
9018 GTTTAATGTT
**
9028 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
9049 TTTGCATTGTACTTTGAATTTT
1 TTTGC-TTG-ACTTTGAATTTT
9071 TAATCTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.60
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:9989 original size:21 final size:20
Alignment explanation
Indices: 9943--9995 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
9933 GTAGCCAAAC
**
9943 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
9963 -TGTATCGATACACAAAAAAA
1 TTGTATCGATACAC-AAAAAA
9983 TTGTATCGATACA
1 TTGTATCGATACA
9996 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:10845 original size:13 final size:13
Alignment explanation
Indices: 10827--10857 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10817 TGATACATGG
*
10827 TACATTGTATCCA
1 TACATTGTATCAA
10840 TACATTGTATCAA
1 TACATTGTATCAA
10853 TACAT
1 TACAT
10858 AGTGAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (13 bp):
TACATTGTATCAA
Found at i:16976 original size:30 final size:30
Alignment explanation
Indices: 16940--17000 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
16930 TCTGGAAAAC
*
16940 CCAGATGTATCAATATAATGTTCTATGTAT
1 CCAGATGTATCAATATAATGTTCTAAGTAT
*
16970 CCAGATGTATCGATATAATGTTCTAAGTAT
1 CCAGATGTATCAATATAATGTTCTAAGTAT
17000 C
1 C
17001 TGAAAGCTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (30 bp):
CCAGATGTATCAATATAATGTTCTAAGTAT
Found at i:17775 original size:20 final size:19
Alignment explanation
Indices: 17733--17783 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
17723 GTTACAAGCT
17733 ATGTATCGATACATTTCTTC
1 ATGTATCGATACATTTC-TC
17753 ATGTATCGATACATTGTAC-C
1 ATGTATCGATACATT-T-CTC
17773 ATGTATCGATA
1 ATGTATCGATA
17784 GAAATAGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 27 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (19 bp):
ATGTATCGATACATTTCTC
Found at i:17874 original size:13 final size:13
Alignment explanation
Indices: 17856--17882 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17846 TACAACGAAC
17856 ATGTATCGATACA
1 ATGTATCGATACA
17869 ATGTATCGATACA
1 ATGTATCGATACA
17882 A
1 A
17883 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:17897 original size:33 final size:32
Alignment explanation
Indices: 17837--17901 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
17827 CAATTTGTCC
*
17837 ATGTATCAATACAACGAACATGTATCGATACA
1 ATGTATCAATACAAAGAACATGTATCGATACA
* *
17869 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCAATACAAAG-AACATGTATCGATACA
17902 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (32 bp):
ATGTATCAATACAAAGAACATGTATCGATACA
Found at i:21982 original size:51 final size:51
Alignment explanation
Indices: 21854--22540 Score: 385
Period size: 51 Copynumber: 13.4 Consensus size: 51
21844 AAACTTGTCC
* * *
21854 GAATCCAAGTCCACACTAGTTGGCACCTATATA-AGGAGGTCAAGCCCTATA
1 GAATCCAAGTCCACATTAGCTAGCACCTATATAGA-GAGGTCAAGCCCTATA
* * ** * * * *
21905 -AGACCCAAGTCCATATTAATTGGCACTTGTATAGAGAGGTCAAACCCTATA
1 GA-ATCCAAGTCCACATTAGCTAGCACCTATATAGAGAGGTCAAGCCCTATA
* * * **
21956 GAATCCAAGTCCACACTAGCTAGCA-CTAGTATATAAAGGTTTAGCCCTATA
1 GAATCCAAGTCCACATTAGCTAGCACCTA-TATAGAGAGGTCAAGCCCTATA
* * * * * * * *
22007 AAACCCGAACTCCACATTAGCTAGCACTTGTATAGGGAGGTCTAGCCTTATA
1 GAATCC-AAGTCCACATTAGCTAGCACCTATATAGAGAGGTCAAGCCCTATA
** * * * ** * * * *
22059 GAATTTAAGGCCATACTAGCCGGCACCTATATAGGGAGGTTAAGTCTTATA
1 GAATCCAAGTCCACATTAGCTAGCACCTATATAGAGAGGTCAAGCCCTATA
* ** ** * * *
22110 -AAACCTAAAGTTTACACGAGCTAACA-ATACATAGAGAGGTCAAG-CCTATA
1 GAATCC--AAGTCCACATTAGCTAGCACCTATATAGAGAGGTCAAGCCCTATA
* * * * * *
22160 AAACCCAAAGTCTACATTAGTTAACACCTATATA-AGGAGGTCAAGCCTTATA
1 GAATCC-AAGTCCACATTAGCTAGCACCTATATAGA-GAGGTCAAGCCCTATA
* * * *
22212 GAAACCAAAGTCCACATTAGCTGGCACTTGTATATG-GAGGTCAAGCCCTATA
1 GAATCC-AAGTCCACATTAGCTAGCACCTATATA-GAGAGGTCAAGCCCTATA
* * * *
22264 AAATCTAAGTTCACACTAGCTAGACACCTATATAGAGAGGTCAAGCCCTATA
1 GAATCCAAGTCCACATTAGCTAG-CACCTATATAGAGAGGTCAAGCCCTATA
** * * *
22316 GAA-CCTAAAGTCCACATTAGCTAGCATTTGTATAGGGAGGTCAAGACCTATA
1 GAATCC--AAGTCCACATTAGCTAGCACCTATATAGAGAGGTCAAGCCCTATA
* * * * * *
22368 GAACCCCATGT-CACATTAGCTGGCACCTGTATAGGGAGGTCAAG-GCTGATA
1 GAA-TCCAAGTCCACATTAGCTAGCACCTATATAGAGAGGTCAAGCCCT-ATA
* * * * *
22419 GAATCCAAGTTCACACTAGCTAGCACCTATATA-AGAAGGTTAAACCTTATA
1 GAATCCAAGTCCACATTAGCTAGCACCTATATAGAG-AGGTCAAGCCCTATA
** * * *
22470 GAATATAAAGTCCATATTAGCT-GACACTTATATAAAGAGGTCAAGCCCTATA
1 GAAT-CCAAGTCCACATTAGCTAG-CACCTATATAGAGAGGTCAAGCCCTATA
*
22522 -AATAGCAAAGTCCACATTA
1 GAAT--CCAAGTCCACATTA
22541 ATTGGCACTT
Statistics
Matches: 485, Mismatches: 123, Indels: 55
0.73 0.19 0.08
Matches are distributed among these distances:
50 34 0.07
51 232 0.48
52 199 0.41
53 18 0.04
54 2 0.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (51 bp):
GAATCCAAGTCCACATTAGCTAGCACCTATATAGAGAGGTCAAGCCCTATA
Found at i:22185 original size:50 final size:52
Alignment explanation
Indices: 22093--22338 Score: 164
Period size: 52 Copynumber: 4.8 Consensus size: 52
22083 ACCTATATAG
* * * * **
22093 GGAGGTTAAGTCTTATAAAACCTAAAGTTTACACGAGCTAACA-ATACAT-A
1 GGAGGTCAAGCCTTATAAAACCCAAAGTCTACATTAGCTAACACATACATAA
* * *
22143 GAGAGGTCAAGCC-TATAAAACCCAAAGTCTACATTAGTTAACACCTATATAA
1 G-GAGGTCAAGCCTTATAAAACCCAAAGTCTACATTAGCTAACACATACATAA
* ** * ** *
22195 GGAGGTCAAGCCTTATAGAAA-CCAAAGTCCACATTAGCTGGCACTTGTATAT
1 GGAGGTCAAGCCTTATA-AAACCCAAAGTCTACATTAGCTAACACATACATAA
* * * * * *
22247 GGAGGTCAAGCCCTATAAAA-TCTAAGT-TCACACTAGCTAGACACCTATAT-A
1 GGAGGTCAAGCCTTATAAAACCCAAAGTCT-ACATTAGCTA-ACACATACATAA
* * * *
22298 GAGAGGTCAAGCCCTATAGAACCTAAAGTCCACATTAGCTA
1 G-GAGGTCAAGCCTTATAAAACCCAAAGTCTACATTAGCTA
22339 GCATTTGTAT
Statistics
Matches: 154, Mismatches: 32, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
50 26 0.17
51 41 0.27
52 71 0.46
53 16 0.10
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (52 bp):
GGAGGTCAAGCCTTATAAAACCCAAAGTCTACATTAGCTAACACATACATAA
Found at i:27844 original size:281 final size:281
Alignment explanation
Indices: 27341--27903 Score: 1108
Period size: 281 Copynumber: 2.0 Consensus size: 281
27331 GTTTACCATC
27341 TGAAAAACTTGACTTGTCCTTCAATAAGCCATTAATTTTCACGAAAATGACCTTTGCCTTTTGCA
1 TGAAAAACTTGACTTGTCCTTCAATAAGCCATTAATTTTCACGAAAATGACCTTTGCCTTTTGCA
27406 AATTAGGCTTTGAAACTTGTTTAAATCTAATTACGAGTCCAAAGATGAAACCTAGTATGATTTTT
66 AATTAGGCTTTGAAACTTGTTTAAATCTAATTACGAGTCCAAAGATGAAACCTAGTATGATTTTT
*
27471 GATGATTCTTAATGTAAAACATATGTTTAAATTGGTTTTTGAATGGATATTGTGAAGGCTGAAAG
131 GATGATTCTTAATGCAAAACATATGTTTAAATTGGTTTTTGAATGGATATTGTGAAGGCTGAAAG
27536 GTGGCTCAAAATAGTCAAAATAACTTGCATGTATCGATACATAACATATTATATTAACACATCTA
196 GTGGCTCAAAATAGTCAAAATAACTTGCATGTATCGATACATAACATATTATATTAACACATCTA
27601 AGCACAAAAACCAAGAATATA
261 AGCACAAAAACCAAGAATATA
27622 TGAAAAACTTGACTTGTCCTTCAATAAGCCATTAATTTTCACGAAAATGACCTTTGCCTTTTGCA
1 TGAAAAACTTGACTTGTCCTTCAATAAGCCATTAATTTTCACGAAAATGACCTTTGCCTTTTGCA
*
27687 AATTGGGCTTTGAAACTTGTTTAAATCTAATTACGAGTCCAAAGATGAAACCTAGTATGATTTTT
66 AATTAGGCTTTGAAACTTGTTTAAATCTAATTACGAGTCCAAAGATGAAACCTAGTATGATTTTT
27752 GATGATTCTTAATGCAAAACATATGTTTAAATTGGTTTTTGAATGGATATTGTGAAGGCTGAAAG
131 GATGATTCTTAATGCAAAACATATGTTTAAATTGGTTTTTGAATGGATATTGTGAAGGCTGAAAG
27817 GTGGCTCAAAATAGTCAAAATAACTTGCATGTATCGATACATAACATATTATATTAACACATCTA
196 GTGGCTCAAAATAGTCAAAATAACTTGCATGTATCGATACATAACATATTATATTAACACATCTA
27882 AGCACAAAAACCAAGAATATA
261 AGCACAAAAACCAAGAATATA
27903 T
1 T
27904 CGATACATTA
Statistics
Matches: 280, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
281 280 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.33
Consensus pattern (281 bp):
TGAAAAACTTGACTTGTCCTTCAATAAGCCATTAATTTTCACGAAAATGACCTTTGCCTTTTGCA
AATTAGGCTTTGAAACTTGTTTAAATCTAATTACGAGTCCAAAGATGAAACCTAGTATGATTTTT
GATGATTCTTAATGCAAAACATATGTTTAAATTGGTTTTTGAATGGATATTGTGAAGGCTGAAAG
GTGGCTCAAAATAGTCAAAATAACTTGCATGTATCGATACATAACATATTATATTAACACATCTA
AGCACAAAAACCAAGAATATA
Found at i:30768 original size:20 final size:20
Alignment explanation
Indices: 30716--30769 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
30706 AAGAAAATGC
** *
30716 ATCGATACATTTATTGTTTGT
1 ATCGATACATTT-TTCATCGT
* *
30737 ATCAATATATTTTTCATCGT
1 ATCGATACATTTTTCATCGT
30757 ATCGATACATTTT
1 ATCGATACATTTT
30770 GGGTTTTTAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.50
Consensus pattern (20 bp):
ATCGATACATTTTTCATCGT
Found at i:32495 original size:79 final size:79
Alignment explanation
Indices: 32317--33311 Score: 923
Period size: 79 Copynumber: 12.7 Consensus size: 79
32307 CCATTTAATG
* ** *
32317 TTTTATTACTAAAACATTGATTTTTCACCTTCGGGGATACT-CAACCCCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
* * *
32381 TATTTCAA-C-AG-
66 TACTCCAACCTCGA
*
32392 TTTTATTTCTAAAACATCAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
*
32457 TACTCCAACCTCAA
66 TACTCCAACCTCGA
* * * * *
32471 TTTTATTTCTAAAACATCAATTTTCCACCATCGGGGACACTCCAATCCTGTTATTGTT-GAGGGA
1 TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATT-TTCGAGGGG
* ** *
32535 AAACTCTGACC-CCA
65 ATACTCCAACCTCGA
* * * * ** * * *
32549 GTTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTTCAACCCTATTATTTTTGAAGGT
1 -TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
*
32614 ATACTCCAACCGT-GG
65 ATACTCCAACC-TCGA
* * * * *
32629 TTTTATTTCTAAAACA-CTGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCCAAGGAG
1 TTTTATTTCTAAAACATC-AATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
* * *
32693 ACACTCTAACCTTGA
65 ATACTCCAACCTCGA
* * * * * *
32708 TTTTATTTCTAAAATATCGATTTTCCACCATCGGGGATACTCCAATCCTGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
*
32773 TACTCTAACGC-CGA
66 TACTCCAAC-CTCGA
* * * ** *
32787 TTTTATTTATAAAACA-CTAATTTTTCACCATCGAGGATCCTCCAACCTTGTTATTTTTGAGGGG
1 TTTTATTTCTAAAACATC-AATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
32851 ATACTCCAACCTCGA
65 ATACTCCAACCTCGA
* ** *
32866 TTTTATTTCTAAAACATCAATTTTTCACCAACGGGGATACTCCAACCTTGTTA-TTTCTGAGAGG
1 TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGG
* ** *
32930 ACACTTTAACC-CTGG
65 ATACTCCAACCTC-GA
* * *** * **
32945 TTTTATTTCTAAAACA-CTAATTTTCCAGCATTAAGGATATTCCAACCCCGTTATTTTTTAGGGG
1 TTTTATTTCTAAAACATC-AATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
* * *
33009 ATATTTCAACCCCGA
65 ATACTCCAACCTCGA
* * * * *
33024 TTTTATGTCTAAAATATCTATTTTTCACCATCGGGGATAATCCAACCTCG--ATTTTCTGAGGGG
1 TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGG
* *
33087 ATACTCCAACCCCGG
65 ATACTCCAACCTCGA
*
33102 TTTTATTTCTAAAACAT-AATTTTTCACCATCGGGGATACTCCAACCCCATTA-TTTCTGAGGGG
1 TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGG
* * *
33165 ACACTCCAA-TTCCGG
65 ATACTCCAACCT-CGA
* * ** * *
33180 TTTTATTTCTAAAATATCAATTTTTTACCATCTAGGAT-CTCCAACCTCATTATTTTCGAGGGGA
1 TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
33244 TACTCCAACCCTC-A
66 TACTCCAA-CCTCGA
* * * * *
33258 TTTTATTTCTCAAACACCGATTTTTCACCATCGAGGATATTCCAACCCCGTTAT
1 TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTAT
33312 CTCCGACGGA
Statistics
Matches: 760, Mismatches: 129, Indels: 58
0.80 0.14 0.06
Matches are distributed among these distances:
75 36 0.05
76 29 0.04
77 34 0.04
78 142 0.19
79 508 0.67
80 11 0.01
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.35
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
TACTCCAACCTCGA
Found at i:40513 original size:21 final size:20
Alignment explanation
Indices: 40468--40523 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
40458 GTTAGGCTCA
* *
40468 ATGTATCGATACAAATACCT
1 ATGTATCGATACAATTAACT
*
40488 ATGTATCGATACAATTCAAGT
1 ATGTATCGATACAATT-AACT
*
40509 ATGTATCCATACAAT
1 ATGTATCGATACAAT
40524 GTATCGATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATTAACT
Found at i:44426 original size:20 final size:21
Alignment explanation
Indices: 44401--44455 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
44391 GTTGGGTTCA
*
44401 ATGTATCAATACAAAT-ATCT
1 ATGTATCAATACAAATCAACT
* * *
44421 ATGTATCGATACAATTCAAGT
1 ATGTATCAATACAAATCAACT
44442 ATGTATCAATACAA
1 ATGTATCAATACAA
44456 TGTATTGATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.33
Consensus pattern (21 bp):
ATGTATCAATACAAATCAACT
Found at i:44552 original size:13 final size:13
Alignment explanation
Indices: 44534--44558 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44524 TACCAAAAAC
44534 ATGTATCGATACA
1 ATGTATCGATACA
44547 ATGTATCGATAC
1 ATGTATCGATAC
44559 TAAGTAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:44710 original size:22 final size:22
Alignment explanation
Indices: 44678--44720 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
44668 ACTTTGGATT
44678 ATTTTTACTTG-AAAACATTTG
1 ATTTTTACTTGAAAAACATTTG
44699 ATTTATTACTTGAAAAACATTT
1 ATTT-TTACTTGAAAAACATTT
44721 ATTCTTAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
23 9 0.45
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (22 bp):
ATTTTTACTTGAAAAACATTTG
Found at i:44719 original size:23 final size:21
Alignment explanation
Indices: 44678--44739 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
44668 ACTTTGGATT
44678 ATTTTTACTTGAAAACATTTG
1 ATTTTTACTTGAAAACATTTG
44699 ATTTATTACTTGAAAAACATTT-
1 ATTT-TTACTTG-AAAACATTTG
* *
44721 ATTCTTAACTTTAAAACAT
1 ATT-TTTACTTGAAAACAT
44740 CTTTGATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
21 11 0.31
22 15 0.42
23 10 0.28
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (21 bp):
ATTTTTACTTGAAAACATTTG
Found at i:46290 original size:7 final size:7
Alignment explanation
Indices: 46280--46336 Score: 53
Period size: 7 Copynumber: 7.9 Consensus size: 7
46270 TTTCATTTGA
46280 TTTTTAT
1 TTTTTAT
46287 TTTTTAT
1 TTTTTAT
*
46294 TATTTTTT
1 T-TTTTAT
*
46302 TTTTTTT
1 TTTTTAT
*
46309 TTTTGTGT
1 TTTT-TAT
46317 TTTTTAT
1 TTTTTAT
46324 TTTTGT-T
1 TTTT-TAT
46331 TTTTTA
1 TTTTTA
46337 CACTATCTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
6 1 0.02
7 29 0.67
8 13 0.30
ACGTcount: A:0.09, C:0.00, G:0.05, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:46298 original size:10 final size:9
Alignment explanation
Indices: 46280--46327 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
46270 TTTCATTTGA
46280 TTTTTATTT
1 TTTTTATTT
46289 TTTATTATTT
1 TTT-TTATTT
*
46299 TTTTTTTTT
1 TTTTTATTT
* *
46308 TTTTTGTGT
1 TTTTTATTT
46317 TTTTTATTT
1 TTTTTATTT
46326 TT
1 TT
46328 GTTTTTTTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
9 24 0.73
10 9 0.27
ACGTcount: A:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (9 bp):
TTTTTATTT
Found at i:47205 original size:114 final size:114
Alignment explanation
Indices: 47005--47231 Score: 400
Period size: 114 Copynumber: 2.0 Consensus size: 114
46995 AACTTATGGA
47005 CCACAACCTTGTATCTATGCCCAACATATCTTGATAGGACCATGCAAATACATCTCAAAACTCCT
1 CCACAACCTTGTATCTATGCCCAACATATCTTGATAGGACCATGCAAATACATCTCAAAACTCCT
* *
47070 GAAGCAAACTTATCATTTCTTTTGAAGTAGCAGGAATGAAAGCAATCCC
66 GAAGCAAACTTATCAATTCTTTTGAAGTAGCAGGAATAAAAGCAATCCC
* *
47119 CCACAACCTTGTATCTATGCCTAACATATCTTGATAGGACCATGCAAATACATCTCAAAACTCTT
1 CCACAACCTTGTATCTATGCCCAACATATCTTGATAGGACCATGCAAATACATCTCAAAACTCCT
* *
47184 GAAGCAAACTTATCAATTCTTTTGATGTAGCAGGCATAAAAGCAATCC
66 GAAGCAAACTTATCAATTCTTTTGAAGTAGCAGGAATAAAAGCAATCC
47232 TCGCTCTGAC
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 107 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (114 bp):
CCACAACCTTGTATCTATGCCCAACATATCTTGATAGGACCATGCAAATACATCTCAAAACTCCT
GAAGCAAACTTATCAATTCTTTTGAAGTAGCAGGAATAAAAGCAATCCC
Found at i:49795 original size:4 final size:4
Alignment explanation
Indices: 49786--49828 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
49776 TAGTTATGTA
* *
49786 TATG TATG TATT TATG TATG TATG TATG TATA TAATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG T-ATG TATG TA
49829 AGCATGGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 31 0.91
5 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:55522 original size:24 final size:24
Alignment explanation
Indices: 55493--55543 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
55483 AAAAATAAAG
55493 TAAAATAAAATT-AAAACCCAAAAT
1 TAAAATAAAATTGAAAA-CCAAAAT
*
55517 TAAAATAAAATTGAAAACTAAAAT
1 TAAAATAAAATTGAAAACCAAAAT
55541 TAA
1 TAA
55544 TAATCATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.24
Consensus pattern (24 bp):
TAAAATAAAATTGAAAACCAAAAT
Found at i:55538 original size:13 final size:11
Alignment explanation
Indices: 55484--55543 Score: 59
Period size: 13 Copynumber: 5.2 Consensus size: 11
55474 AACTAGTTTA
*
55484 AAAAT-AAAGT
1 AAAATAAAATT
55494 AAAATAAAATT
1 AAAATAAAATT
*
55505 AAAACCCAAAATT
1 AAAA--TAAAATT
55518 AAAATAAAATT
1 AAAATAAAATT
55529 GAAAACTAAAATT
1 -AAAA-TAAAATT
55542 AA
1 AA
55544 TAATCATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
10 5 0.12
11 14 0.33
12 6 0.14
13 17 0.40
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.22
Consensus pattern (11 bp):
AAAATAAAATT
Found at i:58762 original size:33 final size:33
Alignment explanation
Indices: 58720--58782 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
58710 TACCATTGTT
*
58720 TGTATCGATACATGGT-ACATTGTATCGATATAA
1 TGTATCGATACATGATGA-ATTGTATCGATATAA
58753 TGTATCGATACATGATGAATTGTATCGATA
1 TGTATCGATACATGATGAATTGTATCGATA
58783 CATTGCTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCGATATAA
Found at i:63150 original size:16 final size:17
Alignment explanation
Indices: 63124--63161 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
63114 TTTTAATTTT
63124 TTTCATAACCAACCATC
1 TTTCATAACCAACCATC
*
63141 TTTC-TAACCAACGATC
1 TTTCATAACCAACCATC
63157 TTTCA
1 TTTCA
63162 ATAATACATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.34
Consensus pattern (17 bp):
TTTCATAACCAACCATC
Found at i:75259 original size:28 final size:28
Alignment explanation
Indices: 75168--75268 Score: 114
Period size: 28 Copynumber: 3.6 Consensus size: 28
75158 GGAAGTTCGG
* * *
75168 TATTATAGTTGACTTTTAATTTTTTTCAT
1 TATTTTAGTTGACTTTTAA-ATTTTTCAC
***
75197 TATTTTAGTTGACTTTT-AATTTTTTTG
1 TATTTTAGTTGACTTTTAAATTTTTCAC
* *
75224 TATCTTAGTTTACTTTTAAATTTTTCAC
1 TATTTTAGTTGACTTTTAAATTTTTCAC
75252 TATTTTAGTTGACTTTT
1 TATTTTAGTTGACTTTT
75269 CATTCCTTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
27 20 0.34
28 23 0.39
29 16 0.27
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.62
Consensus pattern (28 bp):
TATTTTAGTTGACTTTTAAATTTTTCAC
Found at i:75262 original size:55 final size:57
Alignment explanation
Indices: 75173--75300 Score: 179
Period size: 55 Copynumber: 2.3 Consensus size: 57
75163 TTCGGTATTA
* *
75173 TAGTTGACTTTTAATTTTTTTCATTATTTTAGTTGACTTTTAATT-TTTTTGTATCT
1 TAGTTGACTTTTAATATTTTTCACTATTTTAGTTGACTTTTAATTCTTTTTGTATCT
* * * *
75229 TAGTTTACTTTTAA-ATTTTTCACTATTTTAGTTGACTTTTCATTCCTTTTTGTGTTT
1 TAGTTGACTTTTAATATTTTTCACTATTTTAGTTGACTTTTAATT-CTTTTTGTATCT
75286 TAGTTGACTTTTAAT
1 TAGTTGACTTTTAAT
75301 TCCTTAACTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
55 27 0.44
56 13 0.21
57 22 0.35
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (57 bp):
TAGTTGACTTTTAATATTTTTCACTATTTTAGTTGACTTTTAATTCTTTTTGTATCT
Found at i:75305 original size:29 final size:27
Alignment explanation
Indices: 75167--75301 Score: 144
Period size: 29 Copynumber: 4.8 Consensus size: 27
75157 AGGAAGTTCG
*
75167 GTATTATAGTTGACTTTTAATTTTTTT
1 GTATTTTAGTTGACTTTTAATTTTTTT
*
75194 CATTATTTTAGTTGACTTTTAATTTTTTT
1 --GTATTTTAGTTGACTTTTAATTTTTTT
* * **
75223 GTATCTTAGTTTACTTTTAAATTTTTCA
1 GTATTTTAGTTGACTTTT-AATTTTTTT
* *
75251 CTATTTTAGTTGACTTTTCATTCCTTTTT
1 GTATTTTAGTTGACTTTTAATT--TTTTT
*
75280 GTGTTTTAGTTGACTTTTAATT
1 GTATTTTAGTTGACTTTTAATT
75302 CCTTAACTTT
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
27 18 0.21
28 22 0.25
29 47 0.54
ACGTcount: A:0.20, C:0.09, G:0.10, T:0.61
Consensus pattern (27 bp):
GTATTTTAGTTGACTTTTAATTTTTTT
Found at i:79117 original size:79 final size:79
Alignment explanation
Indices: 78974--79119 Score: 195
Period size: 79 Copynumber: 1.8 Consensus size: 79
78964 AATAAAACTG
** * *
78974 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGTCAGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCAGAGTTGGAATATCC
79039 CCTCAGAAATAATA
66 CCTCAGAAATAATA
*** * *
79053 GGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTT-GAAGATAAAACCAGAGTTTGAATATC
1 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAA-ATAAAACCAGAGTTGGAATATC
79117 CCC
65 CCC
79120 GATTGTGGAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 3 0.05
79 54 0.95
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCAGAGTTGGAATATCC
CCTCAGAAATAATA
Found at i:79160 original size:130 final size:130
Alignment explanation
Indices: 78923--79221 Score: 365
Period size: 130 Copynumber: 2.3 Consensus size: 130
78913 AAAAAATCAA
* * * ** * *
78923 GATTGGAGTATCCCTGATTAT-AGAAAATTGGTATTTTTAAAAATAAAACTGGGGTTGGAGTATC
1 GATTGGAGTATCCCCGATTGTGAG-AAATTGGTA-TTTTGAAAATAAAACCAGAGTTGGAATATC
78987 CCCGATTGTGAGAAATCAATATTTTAGAAATAAAGTCAGGGTTGGAGTATCCCCTCAGAAATAAT
64 CCCGATTGTGAGAAATCAATATTTTAGAAATAAAGTCAGGGTTGGAGTATCCCCTCAGAAATAA-
79052 AGG
128 AGG
* * *
79055 G-TTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGAAGATAAAACCAGAGTTTGAATATCCC
1 GATTGGAGTATCCCCGATTGTGAGAAATTGGTATTTTGAAAATAAAACCAGAGTTGGAATATCCC
***
79119 CGATTGTG-GAAAATTGGTATTTTAGAAAT-AAGATC-GAGGTTGGAGTATCCCCTCAGAAATAA
66 CGATTGTGAG-AAATCAATATTTTAGAAATAAAG-TCAG-GGTTGGAGTATCCCCTCAGAAATAA
*
79181 CGG
128 AGG
* *
79184 GATTGGAGTATCCCCGATTGTGAAAAACTGGTATTTTG
1 GATTGGAGTATCCCCGATTGTGAGAAATTGGTATTTTG
79222 GGAAAAAAAT
Statistics
Matches: 145, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
129 8 0.06
130 109 0.75
131 25 0.17
132 3 0.02
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (130 bp):
GATTGGAGTATCCCCGATTGTGAGAAATTGGTATTTTGAAAATAAAACCAGAGTTGGAATATCCC
CGATTGTGAGAAATCAATATTTTAGAAATAAAGTCAGGGTTGGAGTATCCCCTCAGAAATAAAGG
Found at i:79168 original size:51 final size:50
Alignment explanation
Indices: 79054--79170 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 50
79044 GAAATAATAG
*
79054 GGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGAAGATAAAACCA
1 GGTTGGAGTATCCCCGATTGTGAGAAATTGGTATTTTGAAGATAAAACCA
* * * *
79104 GAGTTTGAATATCCCCGATTGTG-GAAAATTGGTATTTTAGAA-ATAAGATCGA
1 G-GTTGGAGTATCCCCGATTGTGAG-AAATTGGTATTTT-GAAGATAA-AACCA
79156 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
79171 TCAGAAATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
50 2 0.04
51 47 0.84
52 7 0.12
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTGTGAGAAATTGGTATTTTGAAGATAAAACCA
Found at i:79244 original size:79 final size:79
Alignment explanation
Indices: 79113--79279 Score: 239
Period size: 79 Copynumber: 2.1 Consensus size: 79
79103 AGAGTTTGAA
* * * *
79113 TATCCCCGATTGTGGAAAATTGGTATTTTAGAAATAAGATCGAGGTTGGAGTATCCCCTC-AGAA
1 TATCCCCGATTGTGAAAAACTGGTATTTTAGAAATAAAATCGAGGTTAGAGTATCCCCTCGA-AA
79177 ATAACGGGATTGGAG
65 ATAACGGGATTGGAG
* *
79192 TATCCCCGATTGTGAAAAACTGGTATTTTGGGAAA-AAAATCGGGGTTAGAGTATCCCCTCGAAA
1 TATCCCCGATTGTGAAAAACTGGTATTTT-AGAAATAAAATCGAGGTTAGAGTATCCCCTCGAAA
*
79256 ATAATGGGATTGGAG
65 ATAACGGGATTGGAG
79271 TATCCCCGA
1 TATCCCCGA
79280 GATGAAAAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 74 0.94
80 5 0.06
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (79 bp):
TATCCCCGATTGTGAAAAACTGGTATTTTAGAAATAAAATCGAGGTTAGAGTATCCCCTCGAAAA
TAACGGGATTGGAG
Found at i:81600 original size:20 final size:18
Alignment explanation
Indices: 81575--81683 Score: 86
Period size: 20 Copynumber: 5.9 Consensus size: 18
81565 AAAAATGCCT
81575 AAATGTATCGATACATTGTA
1 AAATGTATCGATACA-TG-A
81595 AAATGTATCGATACAAT-A
1 AAATGTATCGATAC-ATGA
81613 AGCAATGTATCGATAC----
1 A--AATGTATCGATACATGA
81629 -AATGTATCGATACAATGA
1 AAATGTATCGATAC-ATGA
*
81647 GCAATGTATCGATACAATGCA
1 -AAATGTATCGATAC-ATG-A
81668 AAATGTATCGATACAT
1 AAATGTATCGATACAT
81684 CTGGGTAAAC
Statistics
Matches: 77, Mismatches: 1, Indels: 23
0.76 0.01 0.23
Matches are distributed among these distances:
13 13 0.17
18 2 0.03
19 2 0.03
20 58 0.75
21 2 0.03
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (18 bp):
AAATGTATCGATACATGA
Found at i:81638 original size:33 final size:33
Alignment explanation
Indices: 81596--81665 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
81586 TACATTGTAA
81596 AATGTATCGATACAATAAGCAATGTATCGATAC
1 AATGTATCGATACAATAAGCAATGTATCGATAC
*
81629 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATAAGCAATGTATCGATAC
81662 AATG
1 AATG
81666 CAAAATGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAATAAGCAATGTATCGATAC
Found at i:81638 original size:53 final size:52
Alignment explanation
Indices: 81576--81682 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 52
81566 AAAATGCCTA
*
81576 AATGTATCGATACATTGTA-AAATGTATCGATACAATAAGC-AATGTATCGATAC
1 AATGTATCGATACAATG-AGAAATGTATCGATACAAT--GCAAATGTATCGATAC
*
81629 AATGTATCGATACAATGAGCAATGTATCGATACAATGCAAAATGTATCGATAC
1 AATGTATCGATACAATGAGAAATGTATCGATACAATGC-AAATGTATCGATAC
81682 A
1 A
81683 TCTGGGTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
51 2 0.04
52 1 0.02
53 46 0.94
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (52 bp):
AATGTATCGATACAATGAGAAATGTATCGATACAATGCAAATGTATCGATAC
Found at i:81664 original size:13 final size:13
Alignment explanation
Indices: 81615--81645 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
81605 ATACAATAAG
81615 CAATGTATCGATA
1 CAATGTATCGATA
81628 CAATGTATCGATA
1 CAATGTATCGATA
81641 CAATG
1 CAATG
81646 AGCAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:82658 original size:61 final size:62
Alignment explanation
Indices: 82567--82745 Score: 238
Period size: 61 Copynumber: 2.9 Consensus size: 62
82557 AAAATAAAGT
* * * **
82567 GCATCCTGCTCTTTGAAGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGA-AAG
1 GCATCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAGAAG
** * *
82628 GTGTCCTACTCTTTCAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAGAAG
1 GCATCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAGAAG
*
82689 GCATCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGAGCTTT-AAAAGG
1 GCATCCTACTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGG
82746 CATACTGCTC
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
60 6 0.06
61 65 0.64
62 30 0.30
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (62 bp):
GCATCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAGAAG
Found at i:82764 original size:56 final size:58
Alignment explanation
Indices: 82575--82766 Score: 158
Period size: 61 Copynumber: 3.2 Consensus size: 58
82565 GTGCATCCTG
* ** * * ** *
82575 CTCTTTGAA-GACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGTGTCCTA
1 CTCTTT-AAGGACTAGAAAGTGCCACCAACTTGTGTGAGCTTT-AAGA-G-AAGGCATACTA
* * * *
82636 CTCTTTCAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCATCCTA
1 CTCTTTAAGGACTAGAAAGTGCCACCAACTTGTGTGAGCTTT--AA-GAGAAGGCATACTA
* *
82697 CTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGAGCTTT-A-A-AAGGCATACTG
1 CTCTTTAAGGACTAG-AAAGTGCCACCAACTTGTGTGAGCTTTAAGAGAAGGCATACTA
82753 CTCTTTAAGGACTA
1 CTCTTTAAGGACTA
82767 AAGGGTGAAA
Statistics
Matches: 112, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
56 22 0.20
57 1 0.01
59 1 0.01
60 1 0.01
61 58 0.52
62 28 0.25
63 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (58 bp):
CTCTTTAAGGACTAGAAAGTGCCACCAACTTGTGTGAGCTTTAAGAGAAGGCATACTA
Found at i:82915 original size:93 final size:94
Alignment explanation
Indices: 82677--82955 Score: 400
Period size: 93 Copynumber: 3.0 Consensus size: 94
82667 GTGTGGGCTT
* * * ** *
82677 TGAAAGGAGA-AGGCATCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGAGCTTTA
1 TGAAAGGAGAGA-GCGTCCTGCTCTTTGAGGA-TTGGGAAGTGCCACCAACTTGTGTGGGCTTTA
* *
82741 AAAGGCATACTGCTCTTTAAGGACTAAAGGG
64 AAAGGCATCCTGCTCTTTGAGGACTAAAGGG
* *
82772 TGAAAGGAGAGAGCGTCTTGCTCTTTGAGGATTTGGAAGTGCCACCAACTTGTGTGGGCTTTAAA
1 TGAAAGGAGAGAGCGTCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAA
**
82837 AGGTGTCCTGCTCTTTGAGGACTAAA-GG
66 AGGCATCCTGCTCTTTGAGGACTAAAGGG
**
82865 TGAAAGGAGAGAGCGTCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTCGAA
1 TGAAAGGAGAGAGCGTCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAA
82930 AGGCATCCTGCTCTTTGAGGACTAAA
66 AGGCATCCTGCTCTTTGAGGACTAAA
82956 AAATGCCACC
Statistics
Matches: 165, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
93 87 0.53
94 51 0.31
95 26 0.16
96 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (94 bp):
TGAAAGGAGAGAGCGTCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAA
AGGCATCCTGCTCTTTGAGGACTAAAGGG
Found at i:82964 original size:55 final size:53
Alignment explanation
Indices: 82877--83062 Score: 212
Period size: 55 Copynumber: 3.5 Consensus size: 53
82867 AAAGGAGAGA
* ***
82877 GCGTCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTCGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTT-TGTGGGCTT-GAAAG
* *
82932 GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTATGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTT-TGTGGGC-TTGAAAG
* ** * *
82987 GCGTCCTGCTCTTTGAGGACTGAAGGGTGCCACTAAC-TTGTGGGCTTTAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTTGTGGGCTTGAAAG
* *
83039 GCGTCCTGCTCTTTAAAGACTAAA
1 GCGTCCTGCTCTTTGAGGACTAAA
83063 GGGCAAAAGG
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
52 27 0.24
53 7 0.06
54 1 0.01
55 76 0.67
56 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (53 bp):
GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTTGTGGGCTTGAAAG
Found at i:83218 original size:55 final size:55
Alignment explanation
Indices: 83142--83336 Score: 250
Period size: 55 Copynumber: 3.4 Consensus size: 55
83132 AAAGAAAGCA
* *
83142 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTATGTAGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
83197 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCA
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
*
83252 TCTTGCTCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAG-AAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* *
83313 TCTTGCTTTTTGAGGACTAGAAAA
1 TCCTGCTCTTTGAGGACTAGAAAA
83337 GTGAAAGGGG
Statistics
Matches: 124, Mismatches: 6, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
54 3 0.02
55 93 0.75
61 25 0.20
62 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:83304 original size:110 final size:112
Alignment explanation
Indices: 83078--83304 Score: 307
Period size: 110 Copynumber: 2.0 Consensus size: 112
83068 AAAGGAGAGA
* * *
83078 GCGTCATGCTCTTTGAGGACTAGGAAGTGCTACCAACTTGTGTGGGCTTTAAAAAAAGAAAGCAT
1 GCGTCATGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT----AAAGAAAGCAT
*
83143 CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTATGTAGGCTTTGAAAG
62 CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTATGTAGGCTTTAAAAG
* * *
83194 GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAG-AGGCATCTTG
1 GCGTCATGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAGCATCCTG
* *
83257 CTCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
66 CTCTTTGAGGACTAG-AAAATGCCACCAACTTATGTAGGCTTTAAAAG
83304 G
1 G
83305 AAAAGGCGTC
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
109 1 0.01
110 51 0.50
111 3 0.03
116 46 0.46
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (112 bp):
GCGTCATGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAGCATCCTG
CTCTTTGAGGACTAGAAAATGCCACCAACTTATGTAGGCTTTAAAAG
Found at i:83310 original size:116 final size:112
Alignment explanation
Indices: 83078--83336 Score: 308
Period size: 116 Copynumber: 2.2 Consensus size: 112
83068 AAAGGAGAGA
* * *
83078 GCGTCATGCTCTTTGAGGACTAGGAAGTGCTACCAACTTGTGTGGGCTTTAAAAAAAGAAAGCAT
1 GCGTCATGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT----AAAGAAAGCAT
83143 CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTATGTAGGCTTTGAAAG
62 CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTATGTAGGCTTTGAAAG
* * *
83194 GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAG-AGGCATCTTG
1 GCGTCATGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAGCATCCTG
* *
83257 CTCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
66 CTCTTTGAGGACTAG-AAAATGCCACCAACTTATGTAGGCTTT-----G-AAAG
* *
83310 GCGTCTTGCTTTTTGAGGACTAGAAAA
1 GCGTCATGCTCTTTGAGGACTAGAAAA
83337 GTGAAAGGGG
Statistics
Matches: 126, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
109 1 0.01
110 46 0.37
111 3 0.02
115 1 0.01
116 75 0.60
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (112 bp):
GCGTCATGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAGCATCCTG
CTCTTTGAGGACTAGAAAATGCCACCAACTTATGTAGGCTTTGAAAG
Found at i:84347 original size:8 final size:8
Alignment explanation
Indices: 84331--84365 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
84321 TTTTTCTTAG
84331 TTTTGTTT
1 TTTTGTTT
84339 TTTT-TTT
1 TTTTGTTT
84346 TTGTTGTTT
1 TT-TTGTTT
84355 TTTTGTTT
1 TTTTGTTT
84363 TTT
1 TTT
84366 GAAAAAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 5 0.20
8 15 0.60
9 5 0.20
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (8 bp):
TTTTGTTT
Found at i:96843 original size:51 final size:51
Alignment explanation
Indices: 96788--96905 Score: 150
Period size: 51 Copynumber: 2.3 Consensus size: 51
96778 GAAAATAATA
** * *
96788 GGGTTGGAGTATCCCTGATTAT-AGAAAATTAGTATTTT-GAAAATAAAATCG
1 GGGTTGGAGTATCCCCAATTATGAG-AAATCAATATTTTAG-AAATAAAATCG
* *
96839 GGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAATAAAGTCG
1 GGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAATCG
96890 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
96906 TAAAAAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
51 56 0.95
52 3 0.05
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.31
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAATCG
Found at i:96927 original size:130 final size:129
Alignment explanation
Indices: 96756--97114 Score: 436
Period size: 130 Copynumber: 2.8 Consensus size: 129
96746 AATAAAAAAA
* ** * * *
96756 ATCGGGATTGGAGTATCCCCTTGAAAATAATAGGGTTGGAGTATCCCTGATTATAGAAAATTAGT
1 ATCGGGGTTGGAGTATCCCCTAAAAAATAATAGGGTTGGAGTATCCCCGATTGT-GAAAATTGGT
*
96821 ATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCAATTGT-GAGAAATCAATATTTTAGAAATAA
65 GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCAATTGTGGA-AAATCAATATTTTAGAAATAA
96885 -
129 G
96885 AGTCGGGGTTGGAGTATCCCCTAAAAAATAATAGGGTTGGAGTATCCCCGATTGTGAGAAATTGG
1 A-TCGGGGTTGGAGTATCCCCTAAAAAATAATAGGGTTGGAGTATCCCCGATTGTGA-AAATTGG
* * * * * * ***
96950 TGTTTTGAAGATAAAATTGGAGTTGGAATATCCTCGATTGTGGAAAATTGGTATTTTAGAAATAA
64 TGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCAATTGTGGAAAATCAATATTTTAGAAATAA
97015 G
129 G
* * * * *
97016 ATCGGGGTTGGAGTATCCCCTCAGAAATAA-CGAGATTGGAGTATCCCCGATTGTGAAAAACTGG
1 ATCGGGGTTGGAGTATCCCCTAAAAAATAATAG-GGTTGGAGTATCCCCGATTGTG-AAAATTGG
**
97080 TGTTTTGGGAATAAAATCGGGGTTGGAGTATCCCC
64 TGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCC
97115 TCAGAAATAA
Statistics
Matches: 196, Mismatches: 28, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
129 4 0.02
130 188 0.96
131 4 0.02
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (129 bp):
ATCGGGGTTGGAGTATCCCCTAAAAAATAATAGGGTTGGAGTATCCCCGATTGTGAAAATTGGTG
TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCAATTGTGGAAAATCAATATTTTAGAAATAAG
Found at i:96988 original size:51 final size:51
Alignment explanation
Indices: 96920--97035 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
96910 AAATAATAGG
* *
96920 GTTGGAGTATCCCCGATTGT-GAGAAATTGGTGTTTT-GAAGATAAAATTGGA
1 GTTGGAGTATCCCCGATTGTGGA-AAATTGGTATTTTAGAA-ATAAAATCGGA
* * * *
96971 GTTGGAATATCCTCGATTGTGGAAAATTGGTATTTTAGAAATAAGATCGGG
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGA
97022 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
97036 TCAGAAATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
51 50 0.91
52 5 0.09
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGA
Found at i:97067 original size:79 final size:79
Alignment explanation
Indices: 96972--97140 Score: 257
Period size: 79 Copynumber: 2.1 Consensus size: 79
96962 AAAATTGGAG
* * * * *
96972 TTGGAATATCCTCGATTGTGGAAAATTGGTATTTTAGAAATAAGATCGGGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATTGTGAAAAACTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
97037 CAGAAATAACGAGA
66 CAGAAATAACGAGA
* * *
97051 TTGGAGTATCCCCGATTGTGAAAAACTGGTGTTTTGGGAATAAAATCGGGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATTGTGAAAAACTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
*
97116 CAGAAATAACGGGA
66 CAGAAATAACGAGA
97130 TTGGAGTATCC
1 TTGGAGTATCC
97141 TCAAGATGAA
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.28
Consensus pattern (79 bp):
TTGGAGTATCCCCGATTGTGAAAAACTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
CAGAAATAACGAGA
Found at i:99480 original size:20 final size:20
Alignment explanation
Indices: 99457--99526 Score: 73
Period size: 20 Copynumber: 3.9 Consensus size: 20
99447 TACATTGTAA
99457 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
*
99477 AATGTA-C----CGAT-A-C
1 AATGTATCGATACAATGAGC
99490 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
*
99510 AATGTATTGATACAATG
1 AATGTATCGATACAATG
99527 CAAAATGAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
13 7 0.17
14 2 0.05
15 3 0.08
18 3 0.08
19 2 0.05
20 23 0.57
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:99492 original size:13 final size:13
Alignment explanation
Indices: 99476--99506 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
99466 ATACAATGAG
99476 CAATGTACCGATA
1 CAATGTACCGATA
*
99489 CAATGTATCGATA
1 CAATGTACCGATA
99502 CAATG
1 CAATG
99507 AGCAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (13 bp):
CAATGTACCGATA
Found at i:99499 original size:33 final size:33
Alignment explanation
Indices: 99457--99526 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
99447 TACATTGTAA
99457 AATGTATCGATACAATGAGCAATGTACCGATAC
1 AATGTATCGATACAATGAGCAATGTACCGATAC
**
99490 AATGTATCGATACAATGAGCAATGTATTGATAC
1 AATGTATCGATACAATGAGCAATGTACCGATAC
99523 AATG
1 AATG
99527 CAAAATGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTACCGATAC
Found at i:99533 original size:20 final size:20
Alignment explanation
Indices: 99437--99543 Score: 70
Period size: 20 Copynumber: 5.7 Consensus size: 20
99427 AAAATGCCTG
* *
99437 AATGTATTGATACATTGTA-A
1 AATGTATCGATACAATG-AGA
*
99457 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGA
*
99477 AATGTACCGATAC-------
1 AATGTATCGATACAATGAGA
*
99490 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGA
*
99510 AATGTATTGATACAATGCA-A
1 AATGTATCGATACAATG-AGA
*
99530 AATGAATCGATACA
1 AATGTATCGATACA
99544 TCTGGGTAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
13 12 0.17
19 1 0.01
20 55 0.80
21 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:99577 original size:13 final size:13
Alignment explanation
Indices: 99559--99585 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
99549 GTAAACCCAG
99559 AATGTATCGATAT
1 AATGTATCGATAT
99572 AATGTATCGATAT
1 AATGTATCGATAT
99585 A
1 A
99586 GTGAACAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:99597 original size:20 final size:20
Alignment explanation
Indices: 99572--99623 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
99562 GTATCGATAT
* *
99572 AATGTATCGATATAGTGAAC
1 AATGTATCGATAGAATGAAC
99592 AATGTATCGATAGAATGAAC
1 AATGTATCGATAGAATGAAC
99612 AATGTATCGATA
1 AATGTATCGATA
99624 CAAATTGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (20 bp):
AATGTATCGATAGAATGAAC
Found at i:103090 original size:21 final size:20
Alignment explanation
Indices: 103038--103092 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
103028 ACATTTCAGA
*
103038 TATGTACTGATACATGCACT
1 TATGTATTGATACATGCACT
*
103058 TATGTATCGATACATTGC-CT
1 TATGTATTGATACA-TGCACT
103078 TATTGTATTGATACA
1 TA-TGTATTGATACA
103093 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (20 bp):
TATGTATTGATACATGCACT
Found at i:105122 original size:23 final size:23
Alignment explanation
Indices: 105079--105122 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
105069 CTTCTCAATC
*
105079 TCTTCAAGAATTCTACTCTAAAT
1 TCTTCAAGAATTCTACACTAAAT
*
105102 TCTT-AAGAGATTGTACACTAA
1 TCTTCAAGA-ATTCTACACTAA
105123 GGTTAAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
TCTTCAAGAATTCTACACTAAAT
Found at i:105808 original size:20 final size:22
Alignment explanation
Indices: 105783--105827 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
105773 GATACTTTGG
105783 ATTATTTTT-TACTTG-AAAAC
1 ATTATTTTTATACTTGAAAAAC
*
105803 ATTATTTTTATGCTTGAAAAAC
1 ATTATTTTTATACTTGAAAAAC
105825 ATT
1 ATT
105828 TATACTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 5 0.23
22 8 0.36
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTATTTTTATACTTGAAAAAC
Found at i:106133 original size:73 final size:73
Alignment explanation
Indices: 106037--106262 Score: 425
Period size: 73 Copynumber: 3.1 Consensus size: 73
106027 TACTCACTGT
* *
106037 CAATTATATAAATTTCAACATATTTATTTTTGGAAAGTGTTTATAAGCTTATCGATTATGTCAAG
1 CAATCATATAAATTTCAACATATTTATTTTTGGAAAGTGTTTATAAGCTTATCGATTATTTCAAG
106102 CTTATGTG
66 CTTATGTG
106110 CAATCATATAAATTTCAACATATTTATTTTTGGAAAGTGTTTATAAGCTTATCGATTATTTCAAG
1 CAATCATATAAATTTCAACATATTTATTTTTGGAAAGTGTTTATAAGCTTATCGATTATTTCAAG
106175 CTTATGTG
66 CTTATGTG
*
106183 CAATCATATAAATTTCAACATATTTATTTTTGGAAAGTGTTTATAACCTTATCGATTATTTCAAG
1 CAATCATATAAATTTCAACATATTTATTTTTGGAAAGTGTTTATAAGCTTATCGATTATTTCAAG
106248 CTTATGTG
66 CTTATGTG
106256 CAATCAT
1 CAATCAT
106263 TCTCTTCATA
Statistics
Matches: 150, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 150 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (73 bp):
CAATCATATAAATTTCAACATATTTATTTTTGGAAAGTGTTTATAAGCTTATCGATTATTTCAAG
CTTATGTG
Found at i:108520 original size:13 final size:13
Alignment explanation
Indices: 108498--108528 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
108488 AAATAGTACC
*
108498 ATGTATTGATACA
1 ATGTACTGATACA
108511 ATGTACTGATACA
1 ATGTACTGATACA
108524 ATGTA
1 ATGTA
108529 TCAATACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTACTGATACA
Found at i:111686 original size:241 final size:241
Alignment explanation
Indices: 111263--111724 Score: 771
Period size: 241 Copynumber: 1.9 Consensus size: 241
111253 TTTCATTTTA
** * *
111263 AACAATTTTCCAAAAAGTGATGAATTTTTCTAAAGCTTCATCCTTGGTGCTTAAAAATAAAACTC
1 AACAATTTTAAAAAAAGTGATGAATTTTTCTAAAACTTCATCCTTGGTGCTTAAAAATAAAACCC
* * * **
111328 AAGTATATCTTGAATAATCATCCACAAGTACAAAATCGTATTGTTTACCAACTAGACTTTGTGTC
66 AAGTATATCTTGAATAATCATCCACAAGTACAAAACCGTATCGATTACCAACTAGACTTTGCATC
**
111393 CTAGTCGGACCAAATAAATCAATATGAACTAATTGCAAAGTTCTAGTGGTTGTGACAATATTTAA
131 CTAGTCAAACCAAATAAATCAATATGAACTAATTGCAAAGTTCTAGTGGTTGTGACAATATTTAA
*
111458 AGGCTTAAAAGAAGTTCTTCTATGTTTGCAAAGTACTAAAGGCTTG
196 AGGCTTAAAAAAAGTTCTTCTATGTTTGCAAAGTACTAAAGGCTTG
*
111504 AACAATTTTAAAAAAAGTGATGAATTTTTCTAAAATTTCATCCTTGGTGCTTAAAAATAAAACCC
1 AACAATTTTAAAAAAAGTGATGAATTTTTCTAAAACTTCATCCTTGGTGCTTAAAAATAAAACCC
* *
111569 AAGTATATCTTGATTAATCATCTACAAGTACAAAACCGTATCGATTACCAACTAGACTTTGCATC
66 AAGTATATCTTGAATAATCATCCACAAGTACAAAACCGTATCGATTACCAACTAGACTTTGCATC
* *
111634 CTAGTTAAACCAAATAAATCAATATGAACTAATTGCAAAGTTCTAGTGGTTGTGATAATATTTAA
131 CTAGTCAAACCAAATAAATCAATATGAACTAATTGCAAAGTTCTAGTGGTTGTGACAATATTTAA
111699 AGGCTTAAAAAAAGTTCTTCTATGTT
196 AGGCTTAAAAAAAGTTCTTCTATGTT
111725 AGCCTTTAAT
Statistics
Matches: 204, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
241 204 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (241 bp):
AACAATTTTAAAAAAAGTGATGAATTTTTCTAAAACTTCATCCTTGGTGCTTAAAAATAAAACCC
AAGTATATCTTGAATAATCATCCACAAGTACAAAACCGTATCGATTACCAACTAGACTTTGCATC
CTAGTCAAACCAAATAAATCAATATGAACTAATTGCAAAGTTCTAGTGGTTGTGACAATATTTAA
AGGCTTAAAAAAAGTTCTTCTATGTTTGCAAAGTACTAAAGGCTTG
Found at i:115112 original size:20 final size:22
Alignment explanation
Indices: 115087--115131 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
115077 GATACTTTGG
*
115087 ATTATTTTT-TTCTTG-AAAAC
1 ATTATTTTTATGCTTGAAAAAC
115107 ATTATTTTTATGCTTGAAAAAC
1 ATTATTTTTATGCTTGAAAAAC
115129 ATT
1 ATT
115132 TATACTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 5 0.23
22 8 0.36
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (22 bp):
ATTATTTTTATGCTTGAAAAAC
Found at i:116435 original size:29 final size:29
Alignment explanation
Indices: 116394--116591 Score: 252
Period size: 29 Copynumber: 6.8 Consensus size: 29
116384 AGATGTTCTG
* * **
116394 GTGTTTTAATTGACTTTTCATTTCTTTCA
1 GTGTTTTAGTTGACTTTTAATTTCTTTTT
* * *
116423 GTGTTGTGGTTGACTTTTTAATTACTTTTT
1 GTGTTTTAGTTGAC-TTTTAATTTCTTTTT
* * *
116453 GTGTTTTAGTTGGCTTTTAATTCCTTTTA
1 GTGTTTTAGTTGACTTTTAATTTCTTTTT
* *
116482 GTGTTTTAGTTTACTTTTAATTTATTTTT
1 GTGTTTTAGTTGACTTTTAATTTCTTTTT
*
116511 GTGTTTTAGTTCACTTTTAATTTCTTTTT
1 GTGTTTTAGTTGACTTTTAATTTCTTTTT
116540 GTGTTTTAGTTGACCTTTTAATTTCTTTTT
1 GTGTTTTAGTTGA-CTTTTAATTTCTTTTT
*
116570 GTGTTTTAGTTGACCTTTAATT
1 GTGTTTTAGTTGACTTTTAATT
116592 CGTTAGCTTT
Statistics
Matches: 146, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
29 95 0.65
30 51 0.35
ACGTcount: A:0.15, C:0.09, G:0.14, T:0.62
Consensus pattern (29 bp):
GTGTTTTAGTTGACTTTTAATTTCTTTTT
Found at i:116486 original size:59 final size:58
Alignment explanation
Indices: 116394--116592 Score: 247
Period size: 59 Copynumber: 3.4 Consensus size: 58
116384 AGATGTTCTG
* * * * * *
116394 GTGTTTTAATTGACTTTTCATTTCTTTCAGTGTTGTGGTTGACTTTTTAATTACTTTTT
1 GTGTTTTAGTTGACTTTTAATTCCTTTTAGTGTTTTAGTTGAC-TTTTAATTACTTTTT
* *
116453 GTGTTTTAGTTGGCTTTTAATTCCTTTTAGTGTTTTAGTTTACTTTTAATTTA-TTTTT
1 GTGTTTTAGTTGACTTTTAATTCCTTTTAGTGTTTTAGTTGACTTTTAA-TTACTTTTT
* * * *
116511 GTGTTTTAGTTCACTTTTAATTTCTTTTTGTGTTTTAGTTGACCTTTTAATTTCTTTTT
1 GTGTTTTAGTTGACTTTTAATTCCTTTTAGTGTTTTAGTTGA-CTTTTAATTACTTTTT
*
116570 GTGTTTTAGTTGACCTTTAATTC
1 GTGTTTTAGTTGACTTTTAATTC
116593 GTTAGCTTTA
Statistics
Matches: 120, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
58 50 0.42
59 70 0.58
ACGTcount: A:0.15, C:0.10, G:0.14, T:0.61
Consensus pattern (58 bp):
GTGTTTTAGTTGACTTTTAATTCCTTTTAGTGTTTTAGTTGACTTTTAATTACTTTTT
Found at i:121579 original size:18 final size:19
Alignment explanation
Indices: 121543--121579 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
121533 GAAATGTATC
121543 GATACAATCACTTCTATGTT
1 GATACAATCAC-TCTATGTT
121563 GATACAATCAC-CTATGT
1 GATACAATCACTCTATGT
121580 ATCATTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (19 bp):
GATACAATCACTCTATGTT
Found at i:121588 original size:20 final size:20
Alignment explanation
Indices: 121536--121584 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
121526 TAAATAGGAA
121536 ATGTATCGATACAATCACTTCT
1 ATGTATC-ATACAATCAC-TCT
*
121558 ATGT-TGATACAATCAC-CT
1 ATGTATCATACAATCACTCT
121576 ATGTATCAT
1 ATGTATCAT
121585 TACATTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 6 0.25
19 3 0.12
20 10 0.42
21 1 0.04
22 4 0.17
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
ATGTATCATACAATCACTCT
Found at i:123070 original size:32 final size:33
Alignment explanation
Indices: 123030--123120 Score: 96
Period size: 34 Copynumber: 2.7 Consensus size: 33
123020 GTTTTTGTAA
123030 TATAAACATAATTTTAATATTTTTA-AA-TTAT
1 TATAAACATAATTTTAATATTTTTATAATTTAT
* * * *
123061 TATTTAACATAAATATAATTTTATTTATAATTTAT
1 TA-TAAACATAATTTTAATATT-TTTATAATTTAT
*
123096 TATAAATATAATTTTAATAATTTTT
1 TATAAACATAATTTTAAT-ATTTTT
123121 CTTTTATTAT
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
31 2 0.04
32 15 0.33
33 4 0.09
34 17 0.37
35 8 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (33 bp):
TATAAACATAATTTTAATATTTTTATAATTTAT
Found at i:123093 original size:28 final size:28
Alignment explanation
Indices: 123057--123111 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
123047 TATTTTTAAA
*
123057 TTATTATTTAACATAAATATAATTTTAT
1 TTATAATTTAACATAAATATAATTTTAT
**
123085 TTATAATTTATTATAAATATAATTTTA
1 TTATAATTTAACATAAATATAATTTTA
123112 ATAATTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (28 bp):
TTATAATTTAACATAAATATAATTTTAT
Found at i:123399 original size:65 final size:65
Alignment explanation
Indices: 123323--123453 Score: 174
Period size: 65 Copynumber: 2.0 Consensus size: 65
123313 TTTTAACCTC
* * *
123323 ACTACTATAATATTAAATCTTACCATTACAATAATTAATCTT-ATTATCATTGTTGTTTTTATCT
1 ACTACTATAATATTAAATCTTACCATTACAATAATTAAT-TTCATTATCATCGTTGCTTTCATCT
123387 T
65 T
* ** * *
123388 ACTACTATAATATTCAATCTTATTATTATAATAATTAATTTCATTATTATCGTTGCTTTCATCTT
1 ACTACTATAATATTAAATCTTACCATTACAATAATTAATTTCATTATCATCGTTGCTTTCATCTT
123453 A
1 A
123454 ATAAAATCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 2 0.04
65 55 0.96
ACGTcount: A:0.34, C:0.14, G:0.03, T:0.50
Consensus pattern (65 bp):
ACTACTATAATATTAAATCTTACCATTACAATAATTAATTTCATTATCATCGTTGCTTTCATCTT
Found at i:123433 original size:21 final size:21
Alignment explanation
Indices: 123383--123437 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
123373 TGTTGTTTTT
* *
123383 ATCTTACTACTATAATATTCA
1 ATCTTATTATTATAATATTCA
123404 ATCTTATTATTATAATAATT-A
1 ATCTTATTATTATAAT-ATTCA
123425 AT-TTCATTATTAT
1 ATCTT-ATTATTAT
123438 CGTTGCTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 2 0.07
21 25 0.83
22 3 0.10
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (21 bp):
ATCTTATTATTATAATATTCA
Found at i:124607 original size:2 final size:2
Alignment explanation
Indices: 124600--124637 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
124590 TATACATGCA
*
124600 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124638 GATAATGGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125942 original size:2 final size:2
Alignment explanation
Indices: 125935--125982 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
125925 CTAGTAGTGA
125935 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125977 AT AT AT
1 AT AT AT
125983 CATGCAAGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:126738 original size:10 final size:10
Alignment explanation
Indices: 126725--126775 Score: 53
Period size: 9 Copynumber: 5.8 Consensus size: 10
126715 CATTTATTTA
126725 AATTTAAAAT
1 AATTTAAAAT
126735 AATTT-AAAT
1 AATTTAAAAT
126744 --TTTAAAA-
1 AATTTAAAAT
126751 AATTTAAAAT
1 AATTTAAAAT
126761 --TTTAAAA-
1 AATTTAAAAT
126768 AATTTAAA
1 AATTTAAA
126776 TCAAAATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
7 3 0.09
8 10 0.29
9 17 0.49
10 5 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AATTTAAAAT
Found at i:126749 original size:17 final size:16
Alignment explanation
Indices: 126720--126776 Score: 89
Period size: 17 Copynumber: 3.5 Consensus size: 16
126710 TAACTCATTT
126720 ATTTAAA-TTTAAAATA
1 ATTTAAATTTTAAAA-A
126736 ATTTAAATTTTAAAAA
1 ATTTAAATTTTAAAAA
126752 ATTTAAAATTTTAAAAA
1 ATTT-AAATTTTAAAAA
126769 ATTTAAAT
1 ATTTAAAT
126777 CAAAATTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.41
17 23 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTAAATTTTAAAAA
Found at i:131399 original size:51 final size:48
Alignment explanation
Indices: 131337--131449 Score: 181
Period size: 51 Copynumber: 2.3 Consensus size: 48
131327 AATTAACTAG
*
131337 ATGTATTGATACATTGAAAAATGTATCGATACATCTAGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAA-A-A-A
*
131388 ATGTATCGATACATTGAAAAATGTATCGATACATCTTGGTAAAAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAAAAA
131436 ATGTATCGATACAT
1 ATGTATCGATACAT
131450 GTACTATTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
48 15 0.25
49 1 0.02
50 1 0.02
51 43 0.72
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (48 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAAAAA
Found at i:131929 original size:16 final size:18
Alignment explanation
Indices: 131908--131940 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
131898 GTTGCACCCC
131908 TTCTTT-TTT-CTTTTTT
1 TTCTTTCTTTGCTTTTTT
131924 TTCTTTCTTTGCTTTTT
1 TTCTTTCTTTGCTTTTT
131941 CAAATAAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (18 bp):
TTCTTTCTTTGCTTTTTT
Found at i:134117 original size:28 final size:29
Alignment explanation
Indices: 133551--134118 Score: 618
Period size: 28 Copynumber: 20.1 Consensus size: 29
133541 CTTGTGTGGG
*
133551 AAAGGATGCCACTAACTTGTGGGCTTTG-
1 AAAGGATGCCACTGACTTGTGGGCTTTGA
* *
133579 AAAGGATGCCACTGACTTGTAGACTTTGA
1 AAAGGATGCCACTGACTTGTGGGCTTTGA
* *
133608 GAAGG-TGCCACTAACTTGTGGGCTTT--
1 AAAGGATGCCACTGACTTGTGGGCTTTGA
*
133634 AAAGAAGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGA-TGCCACTGACTTGTGGGCTTTGA
* *
133664 GAAGG-TGCCATTGACTTGTGGGCTTTGA
1 AAAGGATGCCACTGACTTGTGGGCTTTGA
*
133692 AAATG-TGCCACTGACTTGTGGGCTTTGA
1 AAAGGATGCCACTGACTTGTGGGCTTTGA
* *
133720 AAA-GAAGCCACTGACTTGTGGGCTCT-A
1 AAAGGATGCCACTGACTTGTGGGCTTTGA
* *
133747 AAAGGATGCCGCTAACTTGTGGGCTTTG-
1 AAAGGATGCCACTGACTTGTGGGCTTTGA
* *
133775 AAAGGATGCCACTAACTTATGGGCTTTGA
1 AAAGGATGCCACTGACTTGTGGGCTTTGA
*
133804 AAA-G-TGCCACTGACTTATGGGCTTTGA
1 AAAGGATGCCACTGACTTGTGGGCTTTGA
* * *
133831 GAAA-G-TTCCATTGACTTGCGGGCTTTGA
1 -AAAGGATGCCACTGACTTGTGGGCTTTGA
*
133859 AAAGG-TGCCACTGACTAGTGGGCTTTG-
1 AAAGGATGCCACTGACTTGTGGGCTTTGA
*
133886 AAAGGAAGCCACTGACTTGTGGGCTTT-A
1 AAAGGATGCCACTGACTTGTGGGCTTTGA
* * * *
133914 AAAGGATGCCATTGACTTGTAGGCTGTAA
1 AAAGGATGCCACTGACTTGTGGGCTTTGA
* *
133943 AAAGG-TGCCACTAACTTGTGGCCTTTG-
1 AAAGGATGCCACTGACTTGTGGGCTTTGA
* * *
133970 AAAGGATGCCACTAACTTATAGGCTTTGA
1 AAAGGATGCCACTGACTTGTGGGCTTTGA
* * * *
133999 AAAGGGCTGCAACTAACTTGCGGGCTTTG-
1 AAA-GGATGCCACTGACTTGTGGGCTTTGA
* *
134028 AAAGGATGCCGCTAACTTGTGGGCTTTGA
1 AAAGGATGCCACTGACTTGTGGGCTTTGA
* *
134057 AAAGGGTTGCCACTGACTTGTAGGCTTTGA
1 AAA-GGATGCCACTGACTTGTGGGCTTTGA
134087 AAAGG-TGCCACTGACTTGTGGGCTTTGA
1 AAAGGATGCCACTGACTTGTGGGCTTTGA
134115 AAAG
1 AAAG
134119 AGGTCGTATT
Statistics
Matches: 459, Mismatches: 62, Indels: 38
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.01
27 40 0.09
28 344 0.75
29 24 0.05
30 48 0.10
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (29 bp):
AAAGGATGCCACTGACTTGTGGGCTTTGA
Found at i:134159 original size:26 final size:26
Alignment explanation
Indices: 134130--134199 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
134120 GGTCGTATTG
134130 ACAAAACTTTCTTGACAAAGTT-TCTA
1 ACAAAACTTTCTTGACAAAGTTCT-TA
* *
134156 AC-AAACATTCTCGACAAAAGTTCTTA
1 ACAAAACTTTCTTGAC-AAAGTTCTTA
*
134182 ACGATAA-TTTCTTGACAA
1 AC-AAAACTTTCTTGACAA
134200 CCATTTCTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
25 11 0.31
26 14 0.40
27 8 0.23
28 2 0.06
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (26 bp):
ACAAAACTTTCTTGACAAAGTTCTTA
Found at i:135489 original size:19 final size:21
Alignment explanation
Indices: 135434--135490 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 21
135424 CCCCTCCCTT
*
135434 TTTTGTGTTGTTTTTCTTTTTGA
1 TTTT-TGTTGTTTTT-TTCTTGA
135457 TTTTTGTT-TTTTTTTCTTG-
1 TTTTTGTTGTTTTTTTCTTGA
135476 TTTTT-TTGTTTTTTT
1 TTTTTGTTGTTTTTTT
135491 AAAAAGGATG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.06
19 12 0.38
20 5 0.16
21 5 0.16
22 4 0.12
23 4 0.12
ACGTcount: A:0.02, C:0.04, G:0.12, T:0.82
Consensus pattern (21 bp):
TTTTTGTTGTTTTTTTCTTGA
Found at i:143670 original size:30 final size:29
Alignment explanation
Indices: 143629--143985 Score: 212
Period size: 30 Copynumber: 12.0 Consensus size: 29
143619 CTTAAAGATG
* *
143629 GAAAA-GGTGCCACCGACTTGTGGGCTTCG
1 GAAAAGGGTGCCACTGACTTGTGGGCTT-T
*
143658 GAAAAGGGTGCCACTGATTTGTGGGCTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTT
*
143687 G--AAGGTTGCCACTGACTTGTGGGCTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTT
* *
143714 -TAAAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGACTTGTGGGC-TTT
**
143743 GAAGAA-TATGCCACTGACTTGTGGGCTTTT
1 GAA-AAGGGTGCCACTGACTTGTGGGC-TTT
* * **
143773 GAAAAGGGTGCCATTAACTTGTGGGCTGAAAAA
1 GAAAAGGGTGCCACTGACTTGTGGGCT----TT
* * * * *
143806 GAAAAAGAGTGCTA-TAGAGTTGTGAGCTTACAAAA
1 G-AAAAGGGTGCCACT-GACTTGTGGGCTT-----T
* * * *
143841 GAAAAAGAGTGCCACGGAGTTGTGGACTTT
1 G-AAAAGGGTGCCACTGACTTGTGGGCTTT
* *
143871 GGAAAA-GATGCCA-TCGACTTGTGGGCTTCA
1 -GAAAAGGGTGCCACT-GACTTGTGGGCTT-T
*
143901 GAAAAGGGTGCCACTGATTTGTGGGCTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTT
*
143930 G--AAGGTTGCCACTGACTTGTGGGCTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTT
*** *
143957 GAAAAATATGCCACTGACTTGTGGACTTT
1 GAAAAGGGTGCCACTGACTTGTGGGCTTT
143986 TGAAGGGTGA
Statistics
Matches: 262, Mismatches: 40, Indels: 52
0.74 0.11 0.15
Matches are distributed among these distances:
27 49 0.19
28 23 0.09
29 56 0.21
30 84 0.32
31 4 0.02
33 2 0.01
34 19 0.07
35 25 0.10
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
GAAAAGGGTGCCACTGACTTGTGGGCTTT
Found at i:143732 original size:85 final size:86
Alignment explanation
Indices: 143631--143799 Score: 209
Period size: 85 Copynumber: 2.0 Consensus size: 86
143621 TAAAGATGGA
* * *
143631 AAAGGTGCCACCGACTTGTGGGCTTCGGAA-AAGGGTGCCACTGATTTGTGGGC-TTTG-AAGGT
1 AAAGGTGCCACCGACTTGTGGGCTTCGGAAGAA-GATGCCACTGACTTGTGGGCTTTTGAAAGGG
*
143693 TGCCACTGACTTGTGGGCTTTT
65 TGCCACTAACTTGTGGGCTTTT
* ** *
143715 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAGAATATGCCACTGACTTGTGGGCTTTTGAAAAGG
1 AAAGG-TGCCACCGACTTGTGGGCTTCGGAAGAAGATGCCACTGACTTGTGGGCTTTTG-AAAGG
*
143780 GTGCCATTAACTTGTGGGCT
64 GTGCCACTAACTTGTGGGCT
143800 GAAAAAGAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
84 5 0.07
85 39 0.55
86 6 0.08
88 21 0.30
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (86 bp):
AAAGGTGCCACCGACTTGTGGGCTTCGGAAGAAGATGCCACTGACTTGTGGGCTTTTGAAAGGGT
GCCACTAACTTGTGGGCTTTT
Found at i:143892 original size:29 final size:29
Alignment explanation
Indices: 143843--143985 Score: 130
Period size: 29 Copynumber: 4.9 Consensus size: 29
143833 TTACAAAAGA
* * *
143843 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
**
143873 AAAAGATGCCA-TCGACTTGTGGGCTTCAG
1 AAAAGATGCCACT-GACTTGTGGGCTTTGG
* *
143902 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * *
143931 -AAGGTTGCCACTGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
143959 AAAATATGCCACTGACTTGTGGACTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
143986 TGAAGGGTGA
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
27 21 0.23
28 2 0.02
29 44 0.48
30 24 0.26
31 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:143942 original size:27 final size:27
Alignment explanation
Indices: 143886--143991 Score: 104
Period size: 27 Copynumber: 3.7 Consensus size: 27
143876 AGATGCCATC
* *
143886 GACTTGTGGGCTTCAGAAAAGGGTGCCACT
1 GACTTGTGGGCTT-TG--AAGGTTGCCACT
*
143916 GATTTGTGGGCTTTGAAGGTTGCCACT
1 GACTTGTGGGCTTTGAAGGTTGCCACT
**
143943 GACTTGTGGGCTTTGAAAAATATGCCACT
1 GACTTGTGGGCTTTG-AAGGT-TGCCACT
*
143972 GACTTGTGGACTTTTGAAGG
1 GACTTGTGGGC-TTTGAAGG
143992 GTGATGAATG
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
27 25 0.39
28 3 0.05
29 20 0.31
30 16 0.25
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (27 bp):
GACTTGTGGGCTTTGAAGGTTGCCACT
Found at i:145441 original size:6 final size:6
Alignment explanation
Indices: 145430--145481 Score: 63
Period size: 6 Copynumber: 8.5 Consensus size: 6
145420 GACCCCCTTT
145430 TTTTTG TTTTTG TTTGCTT- TTTTTG TTTTTG TTTTTGG TTTTT- TTTTTG
1 TTTTTG TTTTTG TTT--TTG TTTTTG TTTTTG TTTTT-G TTTTTG TTTTTG
145479 TTT
1 TTT
145482 GTTTTTTGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
5 7 0.17
6 23 0.56
7 9 0.22
8 2 0.05
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:145450 original size:19 final size:18
Alignment explanation
Indices: 145428--145488 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 18
145418 CGGACCCCCT
145428 TTTTTTTGTTTTTGTTTG
1 TTTTTTTGTTTTTGTTTG
145446 CTTTTTTTGTTTTTGTTT-
1 -TTTTTTTGTTTTTGTTTG
145464 TTGGTTTTT-TTTTTGTTTG
1 TT--TTTTTGTTTTTGTTTG
145483 TTTTTT
1 TTTTTT
145489 GGAGGACGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
17 6 0.15
18 9 0.23
19 24 0.62
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.84
Consensus pattern (18 bp):
TTTTTTTGTTTTTGTTTG
Found at i:145486 original size:12 final size:11
Alignment explanation
Indices: 145430--145489 Score: 66
Period size: 13 Copynumber: 5.0 Consensus size: 11
145420 GACCCCCTTT
145430 TTTTTGTTTTTG
1 TTTTT-TTTTTG
145442 TTTGCTTTTTTTG
1 TTT--TTTTTTTG
145455 TTTTTGTTTTTGG
1 TTTTT-TTTTT-G
145468 TTTTTTTTTTG
1 TTTTTTTTTTG
*
145479 TTTGTTTTTTG
1 TTTTTTTTTTG
145490 GAGGACGCCG
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
11 13 0.30
12 13 0.30
13 15 0.35
14 2 0.05
ACGTcount: A:0.00, C:0.02, G:0.17, T:0.82
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:155128 original size:10 final size:10
Alignment explanation
Indices: 155113--155139 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
155103 ATGTATCAAG
155113 CAAAAACAAA
1 CAAAAACAAA
155123 CAAAAACAAA
1 CAAAAACAAA
155133 CAAAAAC
1 CAAAAAC
155140 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:159405 original size:52 final size:51
Alignment explanation
Indices: 159264--159412 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 51
159254 CGAAATATGA
*
159264 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* * *
159316 AAATTTTCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
159368 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
159413 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:159419 original size:13 final size:13
Alignment explanation
Indices: 159401--159425 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
159391 CAAAGATCAG
159401 TGTATCGATACAA
1 TGTATCGATACAA
159414 TGTATCGATACA
1 TGTATCGATACA
159426 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:159503 original size:33 final size:33
Alignment explanation
Indices: 159466--159532 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
159456 AGTAGCTTAA
159466 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
159499 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
159532 A
1 A
159533 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:159506 original size:13 final size:13
Alignment explanation
Indices: 159488--159512 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
159478 CAAAAAAATA
159488 TGTATCGATACAT
1 TGTATCGATACAT
159501 TGTATCGATACA
1 TGTATCGATACA
159513 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:163251 original size:13 final size:13
Alignment explanation
Indices: 163233--163258 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
163223 GCAATTCTTC
163233 ATGTATCGATACA
1 ATGTATCGATACA
163246 ATGTATCGATACA
1 ATGTATCGATACA
163259 TTGTCCCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:165459 original size:20 final size:20
Alignment explanation
Indices: 165421--165461 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
165411 GTTGCGACTG
165421 GGATGTGCCGATCGCGACCT
1 GGATGTGCCGATCGCGACCT
* *
165441 GGATGTGCCGGTCGTGACCT
1 GGATGTGCCGATCGCGACCT
165461 G
1 G
165462 AGGGGCTGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.27, G:0.39, T:0.22
Consensus pattern (20 bp):
GGATGTGCCGATCGCGACCT
Found at i:172073 original size:33 final size:33
Alignment explanation
Indices: 172014--172079 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
172004 GTTGGGCATG
*
172014 ATGTATCGATACAATTCTTCAGGTATCGATACA
1 ATGTATCGATACAATTCTCCAGGTATCGATACA
* *
172047 ATGTATCGATAC-ATTGTCCCATGTATCGATACA
1 ATGTATCGATACAATTCT-CCAGGTATCGATACA
172080 TTTCACTCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.14
33 25 0.86
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAATTCTCCAGGTATCGATACA
Found at i:177384 original size:1 final size:1
Alignment explanation
Indices: 177373--177415 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
177363 GTACCCCTTC
* * * *
177373 TTTTTTCTTTTTTTTCTTTTTTTTCTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
177416 CAAATAAGTC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:177387 original size:9 final size:9
Alignment explanation
Indices: 177373--177414 Score: 84
Period size: 9 Copynumber: 4.7 Consensus size: 9
177363 GTACCCCTTC
177373 TTTTTTCTT
1 TTTTTTCTT
177382 TTTTTTCTT
1 TTTTTTCTT
177391 TTTTTTCTT
1 TTTTTTCTT
177400 TTTTTTCTT
1 TTTTTTCTT
177409 TTTTTT
1 TTTTTT
177415 TCAAATAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:183692 original size:109 final size:107
Alignment explanation
Indices: 183555--183774 Score: 257
Period size: 109 Copynumber: 2.0 Consensus size: 107
183545 AAAATTTGAG
** * *
183555 TTTTTTATATAGAACGAGGTTGGAGTATCTTCT-TGAAGTAGTGGGGTTGGAGTTACCCTAAAAT
1 TTTTTTATATAGAACGAGGTTGGAGTATCCCCTCAG-AGTAGTGGAGTTGGAGTTACCC-AAAAT
* *
183619 CGAAGATTATGAAAATATTTAGGAACAAAAAGTAAATTTAAGATTT
64 CAAAGATTATG-AAATATTTAAGAACAAAAAGTAAATTTAAG-TTT
* *** *
183665 TTTTTTTTA-AGAAC-AGAGTTGGAGTATCCCCTCAGAGTAGTGGAGTTGGAGTTTTTCAAAGTC
1 TTTTTTATATAGAACGAG-GTTGGAGTATCCCCTCAGAGTAGTGGAGTTGGAGTTACCCAAAATC
* *
183728 AAAGATTATGAAATATTTAAGAACAAAGAGTAAATTTGAGTTT
65 AAAGATTATGAAATATTTAAGAACAAAAAGTAAATTTAAGTTT
183771 TTTT
1 TTTT
183775 AAAAGAACGA
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
106 7 0.07
107 27 0.28
108 16 0.17
109 36 0.38
110 9 0.09
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (107 bp):
TTTTTTATATAGAACGAGGTTGGAGTATCCCCTCAGAGTAGTGGAGTTGGAGTTACCCAAAATCA
AAGATTATGAAATATTTAAGAACAAAAAGTAAATTTAAGTTT
Found at i:184272 original size:90 final size:91
Alignment explanation
Indices: 184141--184323 Score: 359
Period size: 90 Copynumber: 2.0 Consensus size: 91
184131 TGTTTTAAAA
184141 GAAAAAGTTCTTTTTTTAAAAAAAAAATAGATTTTGAAAATATGAAATTGAAGATTTGTACAAGA
1 GAAAAAGTTCTTTTTTTAAAAAAAAAATAGATTTTGAAAATATGAAATTGAAGATTTGTACAAGA
184206 TATATTTTTGTCGTTGGCCTTATTGT
66 TATATTTTTGTCGTTGGCCTTATTGT
184232 GAAAAAGTTCTTTTTTT-AAAAAAAAATAGATTTTGAAAATATGAAATTGAAGATTTGTACAAGA
1 GAAAAAGTTCTTTTTTTAAAAAAAAAATAGATTTTGAAAATATGAAATTGAAGATTTGTACAAGA
184296 TATATTTTTGTCGTTGGCCTTATTGT
66 TATATTTTTGTCGTTGGCCTTATTGT
184322 GA
1 GA
184324 GTCTAAGAGG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 75 0.82
91 17 0.18
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.40
Consensus pattern (91 bp):
GAAAAAGTTCTTTTTTTAAAAAAAAAATAGATTTTGAAAATATGAAATTGAAGATTTGTACAAGA
TATATTTTTGTCGTTGGCCTTATTGT
Found at i:191075 original size:28 final size:28
Alignment explanation
Indices: 191036--191099 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
191026 TCAAGAAAGT
* *
191036 GAAATCAACAAGAAATATGAAAGGAAAC
1 GAAATCAACAAGAAATATCAAAGGAAAA
*
191064 GAAAT-AAGCAAGAAATTTCAAAGGAAAA
1 GAAATCAA-CAAGAAATATCAAAGGAAAA
191092 GAAATCAA
1 GAAATCAA
191100 TAAAGAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 2 0.06
28 27 0.87
29 2 0.06
ACGTcount: A:0.61, C:0.09, G:0.17, T:0.12
Consensus pattern (28 bp):
GAAATCAACAAGAAATATCAAAGGAAAA
Found at i:191170 original size:11 final size:10
Alignment explanation
Indices: 191154--191199 Score: 58
Period size: 10 Copynumber: 4.4 Consensus size: 10
191144 CTAATAACTA
191154 TTTTTTCTCTT
1 TTTTTTCT-TT
191165 TTTTTTCTTT
1 TTTTTTCTTT
191175 TTTTTTCTTT
1 TTTTTTCTTT
191185 TTGTTGTT-TTT
1 TT-TT-TTCTTT
191196 TTTT
1 TTTT
191200 ATGATAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
10 16 0.48
11 15 0.45
12 2 0.06
ACGTcount: A:0.00, C:0.09, G:0.04, T:0.87
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:191178 original size:9 final size:9
Alignment explanation
Indices: 191154--191198 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
191144 CTAATAACTA
*
191154 TTTTTTCTC
1 TTTTTTTTC
191163 TTTTTTTTC
1 TTTTTTTTC
191172 TTTTTTTTTC
1 -TTTTTTTTC
* *
191182 TTTTTGTTG
1 TTTTTTTTC
191191 TTTTTTTT
1 TTTTTTTT
191199 TATGATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 22 0.71
10 9 0.29
ACGTcount: A:0.00, C:0.09, G:0.04, T:0.87
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:191198 original size:19 final size:19
Alignment explanation
Indices: 191154--191199 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
191144 CTAATAACTA
* *
191154 TTTTTTCTCTTTTTTTTCT
1 TTTTTTTTCTTTTTGTTCT
*
191173 TTTTTTTTCTTTTTGTTGT
1 TTTTTTTTCTTTTTGTTCT
191192 TTTTTTTT
1 TTTTTTTT
191200 ATGATAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.00, C:0.09, G:0.04, T:0.87
Consensus pattern (19 bp):
TTTTTTTTCTTTTTGTTCT
Found at i:191977 original size:58 final size:59
Alignment explanation
Indices: 191879--191993 Score: 142
Period size: 58 Copynumber: 2.0 Consensus size: 59
191869 ATCCTAAATA
* **
191879 ATAAGCCCATAAATATATGCAAATTGGGCTCCACTATTCTTAGACATGTGAATTGGGCT
1 ATAAGCCCATAAATATATGCAAATTAGGCTCCACTATTCTTAGACATACGAATTGGGCT
* * ** * *
191938 ATAAG-CCATGAATATATGCAACTTAGGCTTTACTCTTCTTGGACATACGAATTGGG
1 ATAAGCCCATAAATATATGCAAATTAGGCTCCACTATTCTTAGACATACGAATTGGG
191994 TGGCTCTAAG
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
58 42 0.89
59 5 0.11
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (59 bp):
ATAAGCCCATAAATATATGCAAATTAGGCTCCACTATTCTTAGACATACGAATTGGGCT
Found at i:192689 original size:34 final size:35
Alignment explanation
Indices: 192637--192708 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 35
192627 TATACTTATA
* *
192637 TGAATGACTCCGATGACACCATGAAAAATGG-CTT
1 TGAATAACTCCGACGACACCATGAAAAATGGCCTT
*
192671 TGAATAACTTCGACGACACCATGAAAAATGGCCTT
1 TGAATAACTCCGACGACACCATGAAAAATGGCCTT
192706 TGA
1 TGA
192709 TGACTTTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 28 0.82
35 6 0.18
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (35 bp):
TGAATAACTCCGACGACACCATGAAAAATGGCCTT
Found at i:194504 original size:19 final size:19
Alignment explanation
Indices: 194459--194506 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
194449 CACACCCAGA
194459 TGTATCGATACATATTGCCT
1 TGTATCGATACATATT-CCT
*
194479 TGTATCGATACATGTT-CT
1 TGTATCGATACATATTCCT
194497 TGGTATCGAT
1 T-GTATCGAT
194507 GCACACTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 3 0.12
19 8 0.31
20 15 0.58
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATATTCCT
Found at i:197246 original size:13 final size:13
Alignment explanation
Indices: 197228--197254 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
197218 ATATATTGCC
197228 TTGTATCGATACA
1 TTGTATCGATACA
197241 TTGTATCGATACA
1 TTGTATCGATACA
197254 T
1 T
197255 GTTCTTGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:200410 original size:20 final size:19
Alignment explanation
Indices: 200361--200420 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 19
200351 ATTTAATGAG
200361 AAATGTATCGATACAATTGTA
1 AAATGTATCGATAC-ATT-TA
*
200382 AACATGTATCAATACATTTA
1 AA-ATGTATCGATACATTTA
200402 ATAATGTATCGATACATTT
1 A-AATGTATCGATACATTT
200421 CCTTAGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 18 0.51
21 6 0.17
22 11 0.31
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.37
Consensus pattern (19 bp):
AAATGTATCGATACATTTA
Found at i:202177 original size:13 final size:13
Alignment explanation
Indices: 202159--202183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
202149 CTGCCAGTTT
202159 ATGTATCGATACA
1 ATGTATCGATACA
202172 ATGTATCGATAC
1 ATGTATCGATAC
202184 TAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:204522 original size:12 final size:11
Alignment explanation
Indices: 204487--204525 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
204477 GGGAAGTTTT
204487 GAAATTTAAAA
1 GAAATTTAAAA
204498 GAAATTTAAAA
1 GAAATTTAAAA
204509 GAAATTTAAAAA
1 GAAATTT-AAAA
204521 GAAAT
1 GAAAT
204526 AGGAATGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (11 bp):
GAAATTTAAAA
Found at i:204747 original size:80 final size:78
Alignment explanation
Indices: 204652--204904 Score: 290
Period size: 80 Copynumber: 3.2 Consensus size: 78
204642 TGAAAATCGA
* * *
204652 GGTTGGAGTATCCCTTTAGAGATGGTAGGGTTGGGGTATCCCCAAAAATGAAAAATTTTATATTA
1 GGTTGGAGTATCCCTTTAGAGATGGT-GGGTTGGAGTATCCCCAAAAATG-AAAATTTTATGTTT
204717 TGGAAGTAAAAATAG
64 TGGAAGTAAAAATAG
** * * *
204732 GGTTGGAGTATCCCTTTAGAGATGGTGGGGTTGGAGTATCCTTAGAGATGAAAATTTCAATGTTT
1 GGTTGGAGTATCCCTTTAGAGATGGT-GGGTTGGAGTATCCCCAAAAATGAAAATTT-TATGTTT
*
204797 TAGAAGTAAAAATAG
64 TGGAAGTAAAAATAG
* * * * * *
204812 GGTTGGAGTACCCCCTCAGAGATGGTGGGATTAGAGTATCTCCAAAAATGAAAAGTTTAGTGTTT
1 GGTTGGAGTATCCCTTTAGAGATGGTGGG-TTGGAGTATCCCCAAAAATGAAAATTTTA-TGTTT
* * *
204877 TGAAAATAAAAACAG
64 TGGAAGTAAAAATAG
204892 GGTTGGAGTATCC
1 GGTTGGAGTATCC
204905 TCTCGAAAAT
Statistics
Matches: 144, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
79 11 0.08
80 133 0.92
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (78 bp):
GGTTGGAGTATCCCTTTAGAGATGGTGGGTTGGAGTATCCCCAAAAATGAAAATTTTATGTTTTG
GAAGTAAAAATAG
Found at i:204917 original size:80 final size:78
Alignment explanation
Indices: 204687--205034 Score: 213
Period size: 80 Copynumber: 4.4 Consensus size: 78
204677 TAGGGTTGGG
* * * * * * * *
204687 GTATCCCCAAAAATGAAAAATTTTA-TATTATGGAAGTAAAAATAGGGTTGGAGTATCCCTTTAG
1 GTATCTCCAAAAATGAAAAA-TTTAGTGTTTTGAAAATAAAAACAGGGTTGGAGTA-CCCCTCA-
* * *
204751 AGATGGTGGGGTTGGA
63 AAATGGTGGGATTAGA
* * * * * *
204767 GTATC-CTTAGAGATG-AAAATTTCAATGTTTT-AGAAGTAAAAATAGGGTTGGAGTACCCCCTC
1 GTATCTC-CAAAAATGAAAAATTT-AGTGTTTTGA-AAATAAAAACAGGGTTGGAGTA-CCCCTC
*
204829 AGAGATGGTGGGATTAGA
62 A-AAATGGTGGGATTAGA
* *
204847 GTATCTCCAAAAATGAAAAGTTTAGTGTTTTGAAAATAAAAACAGGGTTGGAGTATCCTCTCGAA
1 GTATCTCCAAAAATGAAAAATTTAGTGTTTTGAAAATAAAAACAGGGTTGGAGTA-CCCCTC-AA
* *
204912 AATGGTGAGATTACA
64 AATGGTGGGATTAGA
* * * * * * ** * * **
204927 GTATCT-GAGAGATGAAAAAATCATTGTTGGGGAAATAAAAACATGGTTAAAGTACCCCTCAAAA
1 GTATCTCCAAAAATGAAAAATTTAGTGTTTTGAAAATAAAAACAGGGTTGGAGTACCCCTC-AAA
*
204991 ATGG-GGGGTTAGA
65 ATGGTGGGATTAGA
* * *
205004 GTATCCCCTAAAATGAAAATTTTAGTGTTTT
1 GTATCTCCAAAAATGAAAAATTTAGTGTTTT
205035 AGAAGTAAAA
Statistics
Matches: 207, Mismatches: 52, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
77 11 0.05
78 29 0.14
79 41 0.20
80 117 0.57
81 9 0.04
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (78 bp):
GTATCTCCAAAAATGAAAAATTTAGTGTTTTGAAAATAAAAACAGGGTTGGAGTACCCCTCAAAA
TGGTGGGATTAGA
Found at i:205087 original size:157 final size:155
Alignment explanation
Indices: 204687--205088 Score: 387
Period size: 157 Copynumber: 2.5 Consensus size: 155
204677 TAGGGTTGGG
* * *
204687 GTATCCCCAAAAATGAAAAATTTTA-TATTATGGAAGTAAAAATAGGGTTGGAGTATCCCTTTAG
1 GTATCCCCAAAAATG-AAAATTTTAGTGTT-TTGAAGTAAAAAT-GGGTTGGAGTATCCCCTTAG
* * ** ** * *
204751 AGATGGTGGGGTTGGAGTATCCTTAGAGATGAAAATTTCAATGTTTTAGAAGTAAAAATAGGGTT
63 A-ATGGT-GGGTTAGAGTAT-CTGAGAGATGAAAAAATCAATGTTGGAGAAATAAAAACAGGGTT
** * *
204816 GGAGTACCCCCTCAGAGATGGTGGGATTAGA
125 AAAGTACCCCCTCAAAAATGGTGGGATTAGA
* * * * * * *
204847 GTATCTCCAAAAATGAAAAGTTTAGTGTTTTGAAAATAAAAACAGGGTTGGAGTATCCTCTCGAA
1 GTATCCCCAAAAATGAAAATTTTAGTGTTTTG-AAGTAAAAA-TGGGTTGGAGTATCCCCT-TAG
* * * * *
204912 AATGGTGAGATTACAGTATCTGAGAGATGAAAAAATCATTGTTGGGGAAATAAAAACATGGTTAA
63 AATGGTG-GGTTAGAGTATCTGAGAGATGAAAAAATCAATGTTGGAGAAATAAAAACAGGGTTAA
*
204977 AGTA-CCCCTCAAAAATGG-GGGGTTAGA
127 AGTACCCCCTCAAAAATGGTGGGATTAGA
* *
205004 GTATCCCCTAAAATGAAAATTTTAGTGTTTTAGAAGTAAAAATGGGATTGAAGTATCCCCTTAGA
1 GTATCCCCAAAAATGAAAATTTTAGTGTTTT-GAAGTAAAAATGGG-TTGGAGTATCCCCTTAGA
205069 ATTGGTAGGGTTAGAGTATC
64 A-TGGT-GGGTTAGAGTATC
205089 CCCCCGAAAA
Statistics
Matches: 194, Mismatches: 39, Indels: 21
0.76 0.15 0.08
Matches are distributed among these distances:
156 6 0.03
157 70 0.36
158 14 0.07
159 49 0.25
160 53 0.27
161 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.29
Consensus pattern (155 bp):
GTATCCCCAAAAATGAAAATTTTAGTGTTTTGAAGTAAAAATGGGTTGGAGTATCCCCTTAGAAT
GGTGGGTTAGAGTATCTGAGAGATGAAAAAATCAATGTTGGAGAAATAAAAACAGGGTTAAAGTA
CCCCCTCAAAAATGGTGGGATTAGA
Found at i:207472 original size:13 final size:13
Alignment explanation
Indices: 207454--207478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
207444 ATAATATATC
207454 GATACAATGTATT
1 GATACAATGTATT
207467 GATACAATGTAT
1 GATACAATGTAT
207479 CGAATTGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
GATACAATGTATT
Found at i:208397 original size:29 final size:28
Alignment explanation
Indices: 208337--208398 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
208327 AACATCTTTT
* * *
208337 TTCTCCCCTTTTCTAATTAGGCTCTCTT
1 TTCTCCCCCTTTCTAATTAGGCTATCTA
208365 TTCTCCCCCTTTCT-ATTAGGCTAAATCTA
1 TTCTCCCCCTTTCTAATTAGGCT--ATCTA
208394 TTCTC
1 TTCTC
208399 TCCATTTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 8 0.28
28 13 0.45
29 8 0.28
ACGTcount: A:0.15, C:0.32, G:0.06, T:0.47
Consensus pattern (28 bp):
TTCTCCCCCTTTCTAATTAGGCTATCTA
Found at i:210719 original size:20 final size:20
Alignment explanation
Indices: 210694--210732 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
210684 TTTTCTCCAT
*
210694 TAATTCATTTATTTTCTTTC
1 TAATTCATTTAATTTCTTTC
210714 TAATTCATTTAATTTCTTT
1 TAATTCATTTAATTTCTTT
210733 TCAAGAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (20 bp):
TAATTCATTTAATTTCTTTC
Found at i:212352 original size:32 final size:33
Alignment explanation
Indices: 212301--212398 Score: 105
Period size: 36 Copynumber: 3.0 Consensus size: 33
212291 CCTTACAACA
212301 CTATC-TTTCAAGGCTAAGATAGAA-AC-CTCC
1 CTATCTTTTCAAGGCTAAGATAGAACACTCTCC
* *
212331 CTATCTTTTCACGAGCTAAGATAGAATCTCTCTCC
1 CTATCTTTTCAAG-GCTAAGATAGAA-CACTCTCC
*
212366 CTATCTTTTTCAAAGGCTGAGATAGAAC-CTCTC
1 CTATC-TTTTC-AAGGCTAAGATAGAACACTCTC
212399 AATCACTTAG
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
30 5 0.09
31 6 0.11
32 12 0.21
34 6 0.11
35 10 0.18
36 16 0.28
37 2 0.04
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (33 bp):
CTATCTTTTCAAGGCTAAGATAGAACACTCTCC
Done.