Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 185 of 427
Found at i:51025718 original size:43 final size:43
Alignment explanation
Indices: 51025637--51025720 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
51025627 AAATCGTACA
* *
51025637 ATGCCAACGTCCCAGACGTGGTCTTACATGTAACCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATATAAACACATATCG
51025680 ATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCATAAACACATAT
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-ATAAACACATAT
51025721 TGGAATCACA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
42 3 0.08
43 32 0.89
44 1 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATATAAACACATATCG
Found at i:51054625 original size:40 final size:40
Alignment explanation
Indices: 51054543--51054794 Score: 298
Period size: 40 Copynumber: 6.3 Consensus size: 40
51054533 GATAATCGGA
* * * * *
51054543 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAACCAGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
* * *
51054583 CTATGTCCCGAAGGCATTTATG-GTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCG-AGTTG-TTATATCCGGG
* *
51054623 CTAAGACCCGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGG
* * *
51054663 CTAAGACGCGAAGGCATTTGTGAGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
* *
51054703 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCTGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
51054743 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
51054782 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
51054795 ATACTTGGGT
Statistics
Matches: 186, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 16 0.09
40 167 0.90
41 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
Found at i:51057164 original size:22 final size:22
Alignment explanation
Indices: 51057125--51057183 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
51057115 GTTTTAAGAA
*
51057125 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
51057146 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
51057168 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
51057184 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:51057200 original size:26 final size:24
Alignment explanation
Indices: 51057154--51057212 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
51057144 ATTTGTTTTA
*
51057154 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
51057178 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
*
51057204 -TTTTTATTT
1 ATATTTATTT
51057213 AATGAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 10 0.32
25 8 0.26
26 13 0.42
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:51062282 original size:40 final size:40
Alignment explanation
Indices: 51062226--51062482 Score: 331
Period size: 40 Copynumber: 6.5 Consensus size: 40
51062216 CGGATGATAA
* * * *
51062226 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * *
51062266 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
* * * **
51062306 CCGGGCTAAGACCCGAAGGCATTTATGCTAGATATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
51062346 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
51062386 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
51062426 CCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
51062466 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
51062483 ATACTTGGGT
Statistics
Matches: 195, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
38 1 0.01
39 15 0.08
40 178 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:51072372 original size:46 final size:45
Alignment explanation
Indices: 51072316--51072488 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 45
51072306 TGGTTGAGCA
*
51072316 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAACG
* * * * *
51072362 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAA--A--CG
*
51072409 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAACG
* * *
51072455 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
51072489 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAAACG
Found at i:51072472 original size:93 final size:93
Alignment explanation
Indices: 51072313--51072483 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
51072303 GGATGGTTGA
* * * *
51072313 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCAAACGCCCGAACTCATTGAGT
51072378 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
51072406 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCAAACGCCCGAACTCATTGAGT
51072471 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
51072484 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:51074388 original size:9 final size:9
Alignment explanation
Indices: 51074374--51074407 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
51074364 AACCATTCAA
51074374 TCATTCATT
1 TCATTCATT
51074383 TCATTCATT
1 TCATTCATT
51074392 TCATTCATT
1 TCATTCATT
51074401 TCATTCA
1 TCATTCA
51074408 ATATAATCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.53
Consensus pattern (9 bp):
TCATTCATT
Found at i:51077468 original size:6 final size:6
Alignment explanation
Indices: 51077454--51077670 Score: 180
Period size: 6 Copynumber: 35.8 Consensus size: 6
51077444 AACCAAAATG
* *
51077454 AGAATC AGAACC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
51077502 AGTAA-C AGAATC AGAATC AAAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
51077551 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* * * *
51077599 AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AAAATC AGAATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
*
51077647 AG-GTGAC AGAATC AGAATC AGAAT
1 AGAAT--C AGAATC AGAATC AGAAT
51077671 GTGAATGCAA
Statistics
Matches: 169, Mismatches: 24, Indels: 36
0.74 0.10 0.16
Matches are distributed among these distances:
5 13 0.08
6 142 0.84
7 11 0.07
8 3 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:51077488 original size:30 final size:30
Alignment explanation
Indices: 51077454--51077670 Score: 286
Period size: 30 Copynumber: 7.4 Consensus size: 30
51077444 AACCAAAATG
* *
51077454 AGAATCAGAACCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
51077484 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
51077514 AGAATCAAAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
51077539 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
51077569 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
51077599 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* *
51077629 AGAATCAAAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
51077660 AGAATCAGAAT
1 AGAATCAGAAT
51077671 GTGAATGCAA
Statistics
Matches: 166, Mismatches: 11, Indels: 19
0.85 0.06 0.10
Matches are distributed among these distances:
24 2 0.01
25 18 0.11
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.01
30 118 0.71
31 23 0.14
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:51077576 original size:115 final size:115
Alignment explanation
Indices: 51077454--51077670 Score: 398
Period size: 115 Copynumber: 1.9 Consensus size: 115
51077444 AACCAAAATG
51077454 AGAATCAGAACCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAACCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
51077519 CAAAATCAGAATTAGGTGACAGAATCAGAATCAGAATCAGTAACAGAATC
66 CAAAATCAGAATTAGGTGACAGAATCAGAATCAGAATCAGTAACAGAATC
* * * *
51077569 AGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAACCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
51077634 CAAAATCAGAATTAGGTGACAGAATCAGAATCAGAAT
66 CAAAATCAGAATTAGGTGACAGAATCAGAATCAGAAT
51077671 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 98 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (115 bp):
AGAATCAGAACCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAAAATCAGAATTAGGTGACAGAATCAGAATCAGAATCAGTAACAGAATC
Found at i:51077836 original size:27 final size:28
Alignment explanation
Indices: 51077793--51077859 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
51077783 GGCTGCCAGA
* * *
51077793 ACAGATATCGTGACAGAGTCACCA-AAT
1 ACAGATATTGTGGCAGAGCCACCAGAAT
51077820 ACAGATATTGTGGCAGAGCCACCAGAAT
1 ACAGATATTGTGGCAGAGCCACCAGAAT
51077848 -CAGA-A-TGTGGCA
1 ACAGATATTGTGGCA
51077860 AACCCACCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 7 0.19
26 1 0.03
27 25 0.69
28 3 0.08
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (28 bp):
ACAGATATTGTGGCAGAGCCACCAGAAT
Found at i:51078072 original size:22 final size:22
Alignment explanation
Indices: 51078024--51078082 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
51078014 GTAAATACGT
*
51078024 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
51078046 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
51078068 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
51078083 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:51078234 original size:26 final size:26
Alignment explanation
Indices: 51078173--51078251 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
51078163 ATCGGTCAAT
* *
51078173 AGATATTGTGACAGAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
51078200 AGATATTGTGGCAGAGCCA-CAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
51078225 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAC
51078252 GCTTCCTCCG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
25 7 0.15
26 17 0.36
27 23 0.49
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:51078480 original size:27 final size:27
Alignment explanation
Indices: 51078450--51078645 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
51078440 GGGGCAAAAT
* * * *
51078450 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
51078477 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
51078504 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
51078531 GATAATTCTACCCTACATGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
51078558 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
51078585 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
51078612 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
51078639 AGTAATT
1 GGTAATT
51078646 TCACAATCAA
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:51078497 original size:54 final size:54
Alignment explanation
Indices: 51078439--51078547 Score: 123
Period size: 54 Copynumber: 2.0 Consensus size: 54
51078429 TTAACACCCT
*
51078439 AGGGGCAAAAT-GGTAATTT-TACCCCACAAAGGTATCTCGGTAATTCTACCCTAC
1 AGGGG-AAAATCGGT-ATTTCTACCCCACAAAGGTATCTCGATAATTCTACCCTAC
* ** * * *
51078493 AGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTAC
1 AGGGGAAAATCGGTATTTCTACCCCACAAAGGTATCTCGATAATTCTACCCTAC
51078547 A
1 A
51078548 TGGGTATTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
53 6 0.13
54 40 0.87
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (54 bp):
AGGGGAAAATCGGTATTTCTACCCCACAAAGGTATCTCGATAATTCTACCCTAC
Found at i:51078680 original size:27 final size:27
Alignment explanation
Indices: 51078650--51079020 Score: 475
Period size: 27 Copynumber: 13.7 Consensus size: 27
51078640 GTAATTTCAC
*
51078650 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
51078677 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
51078704 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
51078731 AATCAAGGATAAAACGGTAATT-T-TA
1 AATCGAGGGTAAAACGGTAATTCTGTA
51078756 CAATTCGAGGGTAAAACGGTAATTCTGTA
1 -AA-TCGAGGGTAAAACGGTAATTCTGTA
*
51078785 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
51078812 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
51078839 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
51078866 AA-CTGAGGGTAGAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
51078893 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
51078920 AATCGAGTGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
51078947 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
51078974 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
51079001 AATCGAGGGTAAAACGGTAA
1 AATCGAGGGTAAAACGGTAA
51079021 GGGTAAAACA
Statistics
Matches: 300, Mismatches: 32, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
25 2 0.01
26 7 0.02
27 282 0.94
28 7 0.02
29 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:51079017 original size:54 final size:54
Alignment explanation
Indices: 51078650--51079287 Score: 548
Period size: 54 Copynumber: 12.1 Consensus size: 54
51078640 GTAATTTCAC
* * * * *
51078650 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTA
* * * * * *
51078704 AA-CTGAGGGTAAACCAGTAATTCTGTAAATCAAGGATAAAACGGTAATT-T-TA
1 AATC-GAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTA
* * *
51078756 CAATTCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
1 -AA-TCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTA
* * **
51078812 AA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTA
* * *
51078866 AA-CTGAGGGTAGAACGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTA
* * * * *
51078920 AATCGAGTGTAAAACAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATAAATC-GAGGGTAAAACGGTAATTCTGTA
* **
51078974 AATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAA--GGGTA
1 AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTA
* ** * * *** *
51079026 AAAC-A--GTAATTCTGTAA----ACT-GA--G-GTAAAA--CGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTA-TAAATCGAGGGTAAAACGGTAATTCTGTA
* * * *
51079068 AATTGAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTA
* * * * *
51079122 AATCAAGGGTAAAACAGTAATTTTGTAAA-CTGAAGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTATAAATC-GAGGGTAAAACGGTAATTCTGTA
* * * *
51079176 AATCGAGGGTAAAACGATAATTCTGTAAA-CTGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTATAAATC-GAGGGTAAAACGGTAATTCTGTA
* * *
51079230 AATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTA
51079284 AATC
1 AATC
51079288 AGGAGTACTT
Statistics
Matches: 480, Mismatches: 76, Indels: 56
0.78 0.12 0.09
Matches are distributed among these distances:
40 5 0.01
42 8 0.02
43 2 0.00
45 10 0.02
49 11 0.02
51 2 0.00
52 11 0.02
53 7 0.01
54 415 0.86
55 7 0.01
56 2 0.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTA
Found at i:51079077 original size:94 final size:95
Alignment explanation
Indices: 51078928--51079218 Score: 338
Period size: 94 Copynumber: 2.9 Consensus size: 95
51078918 TAAATCGAGT
* *
51078928 GTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTA
1 GTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTA
51078993 ATTTTACAAATCGAGGGTAAAACGGTAAGG
66 ATTTTACAAATCGAGGGTAAAACGGTAAGG
* *
51079023 GTAAAACAGTAATTCTGTAAACTGA-GGTAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTA
1 GTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTA
51079087 ATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGG
66 ATTTTACAAATCGAGGGTAAAACGG------------T-AAGG
* * *
51079130 GTAAAACAGTAATTTTGTAAACTGAAGGTAAAAC-AGTAATTCTGTAAATCGAGGGTAAAACGAT
1 GTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAACGGT
*
51079194 AATTCTGTA-AACT-GAGGGTAAAACG
65 AATT-T-TACAAATCGAGGGTAAAACG
51079219 ATAATTCTGT
Statistics
Matches: 170, Mismatches: 9, Indels: 21
0.85 0.05 0.10
Matches are distributed among these distances:
94 60 0.35
95 25 0.15
106 1 0.01
107 29 0.17
108 49 0.29
109 4 0.02
110 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (95 bp):
GTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTA
ATTTTACAAATCGAGGGTAAAACGGTAAGG
Found at i:51079079 original size:67 final size:68
Alignment explanation
Indices: 51078952--51079087 Score: 177
Period size: 67 Copynumber: 2.0 Consensus size: 68
51078942 CTGTAAACTG
* * * *
51078952 AGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTACAAATCGAGGGTAAAACG
51079017 GTA
66 GTA
** * *
51079020 AGGGTAAAACAGTAATTCTGTAAA-CTGA-GGTAAAACGATAATTCTGTAAATTGAGGGTAAAAT
1 AGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAACGATAATTCTACAAATCGAGGGTAAAAC
51079083 GGTA
65 GGTA
51079087 A
1 A
51079088 TTTTACAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
67 35 0.59
68 24 0.41
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.26
Consensus pattern (68 bp):
AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTACAAATCGAGGGTAAAACG
GTA
Found at i:51079088 original size:27 final size:27
Alignment explanation
Indices: 51079020--51079287 Score: 325
Period size: 27 Copynumber: 10.0 Consensus size: 27
51079010 TAAAACGGTA
51079020 AGGGTAAAACAGTAATTCTGTAAA-CTG
1 AGGGTAAAACAGTAATTCTGTAAATC-G
*
51079047 A-GGTAAAAC-GATAATTCTGTAAATTG
1 AGGGTAAAACAG-TAATTCTGTAAATCG
** * **
51079073 AGGGTAAAATGGTAATTTTACAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
51079100 AGGGTAAAACGGTAATTCTATAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
*
51079127 AGGGTAAAACAGTAATTTTGTAAA-CTG
1 AGGGTAAAACAGTAATTCTGTAAATC-G
*
51079154 AAGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
51079181 AGGGTAAAAC-GATAATTCTGTAAA-CTG
1 AGGGTAAAACAG-TAATTCTGTAAATC-G
51079208 AGGGTAAAAC-GATAATTCTGTAAATCG
1 AGGGTAAAACAG-TAATTCTGTAAATCG
*
51079235 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
51079262 AGGGTAAAACAGTAATTCTGTAAATC
1 AGGGTAAAACAGTAATTCTGTAAATC
51079288 AGGAGTACTT
Statistics
Matches: 212, Mismatches: 19, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.00
26 25 0.12
27 182 0.86
28 4 0.02
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AGGGTAAAACAGTAATTCTGTAAATCG
Found at i:51084738 original size:40 final size:40
Alignment explanation
Indices: 51084680--51084873 Score: 180
Period size: 40 Copynumber: 4.8 Consensus size: 40
51084670 GGATATAGCG
* * * *
51084680 ACTCGCTCGATTGTCTTCGGGACATAGCCCGG-TTATAGTG
1 ACTCGCACGAATGCCTTCGGGACATAGCCCGGATT-TAGTA
*
51084720 ATTCGCAC-AATTGCCTTCGGGA-ATTAGCCCGGATTTAGTA
1 ACTCGCACGAA-TGCCTTCGGGACA-TAGCCCGGATTTAGTA
* * * *
51084760 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTA
1 ACTCGCACGAATGCCTTCGGGACATAGCCCGGATTTAGTA
* *
51084800 ACTCGCACGAATGCCTTCGGGA-ATTGACCCGGATTTAGTC
1 ACTCGCACGAATGCCTTCGGGACATAG-CCCGGATTTAGTA
* * * *
51084840 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACGAATGCCTTCGGGACATAGCCCGGA
51084874 CACCATTCGA
Statistics
Matches: 125, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
39 3 0.02
40 93 0.74
41 27 0.22
42 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACATAGCCCGGATTTAGTA
Found at i:51084792 original size:80 final size:80
Alignment explanation
Indices: 51084654--51084872 Score: 228
Period size: 80 Copynumber: 2.7 Consensus size: 80
51084644 GAATCACGTA
* * * ** * * * *
51084654 CCTTC-GGAATTTAACCGGATATAGCGACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAG
1 CCTTCGGGAATTGACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAG
* *
51084718 TGATTCGCAC-AATTG
66 TAACTCGCACGAA-TG
* * *
51084733 CCTTCGGGAATT-AGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTG
1 CCTTCGGGAATTGA-CCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATA
51084797 GTAACTCGCACGAATG
65 GTAACTCGCACGAATG
* * * *
51084813 CCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGAATTGACCCGGATTTAGTAAC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
51084873 ACACCATTCG
Statistics
Matches: 117, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
79 6 0.05
80 82 0.70
81 29 0.25
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (80 bp):
CCTTCGGGAATTGACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACGAATG
Found at i:51089032 original size:40 final size:39
Alignment explanation
Indices: 51088905--51089071 Score: 133
Period size: 40 Copynumber: 4.2 Consensus size: 39
51088895 CGGAATATAA
*
51088905 CCGGATATAATC-ACGT-GCACAAATGCCATCGGGTCTTAGC
1 CCGGATATAA-CAAC-TAGCAC-AATGCCTTCGGGTCTTAGC
* * * *
51088945 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAACAACTAGCAC-AATGCCTTCGGGTCTTAGC
* * *
51088985 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
*** * * *
51089025 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
51089064 CCGGATAT
1 CCGGATAT
51089072 CATTCAATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
39 16 0.15
40 88 0.85
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACAACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:51092533 original size:46 final size:48
Alignment explanation
Indices: 51092415--51092541 Score: 163
Period size: 48 Copynumber: 2.7 Consensus size: 48
51092405 TGACATGTGT
* *
51092415 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACATACAA
* * *
51092463 G-TCAGTGTAAGACATGTCTGGGACATACATC-GACATTGAGACA-A-GA
1 GCT-AGTGTAAGACATGTCTGGGACATGCATCAG-CATCGAGACATACAA
51092509 GCTAGTGTAAGACATGTCTGGGACATGCATCAG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG
51092542 TGTAACACCC
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
46 29 0.42
47 5 0.07
48 35 0.51
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACATACAA
Found at i:51094064 original size:46 final size:47
Alignment explanation
Indices: 51093910--51094081 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 47
51093900 TGGGTAAGGT
* *
51093910 GCCGATGCCATGTCCCAGAAATGGTCTTACACTGGCTATCATCTTTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-CATC-TCGAG
* * * *
51093959 GTCAATGCCACGTCCCAAACATGGTCTTACACTGG-TACATCTCGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTCG-AG
* * *
51094005 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCCCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACATCTCGAG
51094051 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
51094082 AGCACTCGTC
Statistics
Matches: 107, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
44 12 0.11
45 13 0.12
46 45 0.42
47 5 0.05
48 2 0.02
49 30 0.28
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTCGAG
Found at i:51095516 original size:49 final size:49
Alignment explanation
Indices: 51095459--51095620 Score: 130
Period size: 41 Copynumber: 3.5 Consensus size: 49
51095449 TATTGTGTGT
*
51095459 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CAATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGAAAGC
* * *
51095508 CAGTGTAAGACCTGT-T------T-GCATCGACCTTAATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGC
* * ** **
51095549 CAGTGTAAGACCTATCTGGGACATGGCATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGC
*
51095596 CAGTGTAAGACCATGTCTAGGACAT
1 CAGTGTAAGACC-TGTCTGGGACAT
51095621 AATGTTGGCA
Statistics
Matches: 90, Mismatches: 13, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
40 1 0.01
41 32 0.36
42 2 0.02
47 16 0.18
48 12 0.13
49 27 0.30
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGC
Found at i:51097434 original size:27 final size:27
Alignment explanation
Indices: 51097399--51097658 Score: 301
Period size: 27 Copynumber: 9.7 Consensus size: 27
51097389 CCAAAGTACT
51097399 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
51097426 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* *
51097453 CTCGATTTATAGAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * *
51097480 C-CTAATTTACATAATTACCATTTTACC
1 CTC-GATTTACAGAATTACCGTTTTACC
* *
51097507 C-CGATTTACATAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * *
51097533 TTCGATTTATAGAATTACCGTTTCACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
51097560 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
51097587 CTCGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * *
51097614 CTTGATTTACAAAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
51097641 CTTGATTTACAAAATTAC
1 CTCGATTTACAGAATTAC
51097659 TAAAATACCC
Statistics
Matches: 200, Mismatches: 29, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
26 23 0.12
27 176 0.88
28 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:51097591 original size:134 final size:135
Alignment explanation
Indices: 51097400--51097657 Score: 387
Period size: 134 Copynumber: 1.9 Consensus size: 135
51097390 CAAAGTACTC
* *
51097400 TCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTATAG
1 TCGATTTACAGAATTACCGTTTCACCCTCAGTTTACAGAATTACCATTTTACCCTCGATTTATAG
* *
51097465 AATTA-TCGTTTTACCCCTAATTTACATAATTACCATTTTACCC-CGATTTACATAATTATCGTT
66 AATTACT-GTTTTACCCCTAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTATCGTT
51097528 TTACCT
130 TTACCT
*
51097534 TCGATTTATAGAATTACCGTTTCACCCTC-GATTTACAGAATTACCATTTTACCCTCGATTTATA
1 TCGATTTACAGAATTACCGTTTCACCCTCAG-TTTACAGAATTACCATTTTACCCTCGATTTATA
* * ** *
51097598 GAATTACTGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTTGATTTACAAAATTA
65 GAATTACTGTTTTACCCCTAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTA
51097658 CTAAAATACC
Statistics
Matches: 111, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
133 1 0.01
134 96 0.86
135 14 0.13
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.41
Consensus pattern (135 bp):
TCGATTTACAGAATTACCGTTTCACCCTCAGTTTACAGAATTACCATTTTACCCTCGATTTATAG
AATTACTGTTTTACCCCTAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTATCGTTT
TACCT
Found at i:51097667 original size:27 final size:27
Alignment explanation
Indices: 51097610--51097671 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
51097600 ATTACTGTTT
****
51097610 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
51097637 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
51097664 TACCCTTG
1 TACCCTTG
51097672 GTTTGTGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:51098917 original size:25 final size:25
Alignment explanation
Indices: 51098889--51098936 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
51098879 TTATACCATG
* * *
51098889 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
51098914 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
51098937 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:51099020 original size:11 final size:11
Alignment explanation
Indices: 51098984--51099039 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
51098974 TATGGTATGT
51098984 ATGATATGCAC
1 ATGATATGCAC
* *
51098995 ATGAAATG--T
1 ATGATATGCAC
51099004 ATGATATGCAC
1 ATGATATGCAC
*
51099015 ATGATATG--T
1 ATGATATGCAC
51099024 ATGATATGCAC
1 ATGATATGCAC
51099035 ATGAT
1 ATGAT
51099040 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:51099039 original size:20 final size:20
Alignment explanation
Indices: 51098979--51099039 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
51098969 ATAAATATGG
51098979 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
*
51098999 AATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
51099019 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
51099039 T
1 T
51099040 GTAATCATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:51099115 original size:24 final size:24
Alignment explanation
Indices: 51099089--51099254 Score: 239
Period size: 24 Copynumber: 7.0 Consensus size: 24
51099079 GAGGAAGTGA
51099089 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
51099112 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
51099136 GAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
51099160 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
51099183 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
51099207 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
51099231 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
51099255 ATGATAAAGC
Statistics
Matches: 132, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
23 36 0.27
24 85 0.64
25 11 0.08
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:51099188 original size:47 final size:47
Alignment explanation
Indices: 51099089--51099254 Score: 237
Period size: 47 Copynumber: 3.5 Consensus size: 47
51099079 GAGGAAGTGA
51099089 AAAAGGGCTTATG-CCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
*
51099135 CGAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
** *
51099183 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
*
51099231 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
51099255 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
47 54 0.50
48 44 0.40
49 11 0.10
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:51099205 original size:71 final size:71
Alignment explanation
Indices: 51099089--51099255 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
51099079 GAGGAAGTGA
51099089 AAAAGGGCTTATG-CCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTATGCCCC
51099153 AGTTATC
65 AGTTATC
* *
51099160 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTATGCCCCA
*
51099225 GTTATT
66 GTTATC
*
51099231 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
51099256 TGATAAAGCA
Statistics
Matches: 89, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
71 68 0.76
72 21 0.24
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTATGCCCCA
GTTATC
Found at i:51099506 original size:30 final size:31
Alignment explanation
Indices: 51099446--51099508 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
51099436 CGTTTACAGT
51099446 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
51099477 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
51099507 AA
1 AA
51099509 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:51104948 original size:22 final size:22
Alignment explanation
Indices: 51104922--51104963 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
51104912 GCAAGAAGGC
51104922 AAAGTGAGCCTATGCTTCGAGG
1 AAAGTGAGCCTATGCTTCGAGG
51104944 AAAGTGAGCCTATGCTTCGA
1 AAAGTGAGCCTATGCTTCGA
51104964 TGCAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (22 bp):
AAAGTGAGCCTATGCTTCGAGG
Found at i:51109251 original size:42 final size:42
Alignment explanation
Indices: 51109133--51109251 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
51109123 AGTTATCATT
* * * * * *
51109133 TAAGACCATATCCGAGATATGGCGTTGATACGAGATTTCGTG
1 TAAGACCATATCTGAGATATGGCATTGATATGAGAATTAGTA
* * * * *
51109175 TAAGACCACT-TTTGGGACATGGCATCGAAATGAGAATTAGTA
1 TAAGACCA-TATCTGAGATATGGCATTGATATGAGAATTAGTA
*
51109217 TAAGACCATATCTGAGATATGGCATTGATGTGAGA
1 TAAGACCATATCTGAGATATGGCATTGATATGAGA
51109252 TCCCATGTAA
Statistics
Matches: 58, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
41 1 0.02
42 56 0.97
43 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (42 bp):
TAAGACCATATCTGAGATATGGCATTGATATGAGAATTAGTA
Found at i:51111387 original size:9 final size:9
Alignment explanation
Indices: 51111373--51111400 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
51111363 ATTAAACATG
51111373 AAAAATTTT
1 AAAAATTTT
51111382 AAAAATTTT
1 AAAAATTTT
51111391 AAAAATTTT
1 AAAAATTTT
51111400 A
1 A
51111401 TTAAGTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AAAAATTTT
Found at i:51112985 original size:47 final size:46
Alignment explanation
Indices: 51112909--51113083 Score: 235
Period size: 47 Copynumber: 3.7 Consensus size: 46
51112899 ATTTGTGAGA
51112909 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACGAGG
*
51112957 GCTAGTGTAAGACATTTCTGGGACATGGCATCGGCATTGAGACGAGG
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCATTGAGACGAGG
* * * * **
51113004 GCTAGTGTAAGACATTTCTGGGACATGCATCGACCTCGAGAC-ATAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGA-GG
*
51113050 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
51113084 TACGAGATGA
Statistics
Matches: 117, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
45 1 0.01
46 44 0.38
47 60 0.51
48 12 0.10
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGG
Found at i:51113070 original size:93 final size:94
Alignment explanation
Indices: 51112905--51113175 Score: 293
Period size: 93 Copynumber: 2.9 Consensus size: 94
51112895 GGTTATTTGT
* * * *
51112905 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA-GGGCTAGTGTAAGA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGAGAC-ATGAGCCAGTGTAAGA
* *
51112969 CATTTCTGGGACATGGCATCGGC-ATTGAGAC
65 CATGTCTGGGACAT-GCATCGGCTA-CGAGAC
* * * *
51113000 GAGGGCTAGTGTAAGA-CATTTCTGGGACAT-GCATCGACCTCGAGACATAAGCCAGTGTAAGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGAGACATGAGCCAGTGTAAGAC
*
51113063 ATGTCTGGGACATGCATCGGCTACGAGAT
66 ATGTCTGGGACATGCATCGGCTACGAGAC
* * * *
51113092 GATAG-TCAGTGTAAGACCATGTCTAGGACATGGCATCGA-CTTGAGATATGAGTCAGTGTAAGA
1 GAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGAGACATGAGCCAGTGTAAGA
* *
51113155 CCGTGTCTAGGACATAGCATC
65 -CATGTCTGGGACAT-GCATC
51113176 AGCACCTTAC
Statistics
Matches: 148, Mismatches: 21, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
91 1 0.01
92 25 0.17
93 70 0.47
94 32 0.22
95 20 0.14
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (94 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGAGACATGAGCCAGTGTAAGAC
ATGTCTGGGACATGCATCGGCTACGAGAC
Found at i:51113138 original size:47 final size:46
Alignment explanation
Indices: 51112912--51113175 Score: 234
Period size: 47 Copynumber: 5.6 Consensus size: 46
51112902 TGTGAGAGCT
*
51112912 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA-GGGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC-TTGAGACGATAGGC
* *
51112959 TAGTGTAAGACATTTCTGGGACATGGCATCGGCATTGAGACGA-GGGC
1 -AGTGTAAGACATGTCTGGGACATGGCATCGGC-TTGAGACGATAGGC
* * * *
51113006 TAGTGTAAGACATTTCTGGGACAT-GCATCGACCTCGAGAC-ATAAGCC
1 -AGTGTAAGACATGTCTGGGACATGGCATCG-GCTTGAGACGAT-AGGC
* * *
51113053 AGTGTAAGACATGTCTGGGACAT-GCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCT-TGAGACGATAGGC
* * * *
51113099 AGTGTAAGACCATGTCTAGGACATGGCATCGACTTGAGA-TATGAGTC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCTTGAGACGAT-AGGC
* * *
51113146 AGTGTAAGACCGTGTCTAGGACATAGCATC
1 AGTGTAAGA-CATGTCTGGGACATGGCATC
51113176 AGCACCTTAC
Statistics
Matches: 193, Mismatches: 15, Indels: 17
0.86 0.07 0.08
Matches are distributed among these distances:
45 3 0.02
46 59 0.31
47 114 0.59
48 17 0.09
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCTTGAGACGATAGGC
Found at i:51116639 original size:71 final size:71
Alignment explanation
Indices: 51116551--51116714 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
51116541 GAGATGTATC
51116551 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
51116616 AGGACA
66 AGGACA
* *
51116622 CCATGTAGACAAGAGAGCTATGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTGCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
51116687 AGGACA
66 AGGACA
51116693 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
51116715 AGACAAATCG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:51119261 original size:22 final size:22
Alignment explanation
Indices: 51119231--51119274 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
51119221 TAGTCATATG
51119231 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
51119253 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
51119275 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:51119285 original size:20 final size:22
Alignment explanation
Indices: 51119245--51119286 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
51119235 ATTATTAATA
*
51119245 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
51119267 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
51119287 CAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:51119334 original size:16 final size:17
Alignment explanation
Indices: 51119298--51119334 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
51119288 AATTTTATTT
51119298 TAATAATAAATCTTAAA
1 TAATAATAAATCTTAAA
*
51119315 -AATAAT-AATTTTAAA
1 TAATAATAAATCTTAAA
51119330 TAATA
1 TAATA
51119335 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATCTTAAA
Found at i:51119387 original size:15 final size:15
Alignment explanation
Indices: 51119353--51119423 Score: 65
Period size: 15 Copynumber: 4.6 Consensus size: 15
51119343 ATATTATTGA
51119353 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
51119366 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
51119381 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
*
51119400 AAATATATTAATAAT
1 AAATATTTTAATAAT
51119415 AAATATTTT
1 AAATATTTT
51119424 TTAATTTTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 19 0.41
16 2 0.04
17 4 0.09
18 1 0.02
19 10 0.22
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:51123034 original size:49 final size:49
Alignment explanation
Indices: 51122962--51123060 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
51122952 AGTAAAAAAA
*
51122962 AGGTTCAAGTCAGTGTGTAAACTTTGACAAATCAATTATCTTTTTTAGT
1 AGGTTCAAGTCAGTGTGTAAACTTTGACAAATCAACTATCTTTTTTAGT
*
51123011 AGGTTCGAGTCAGTGTGTAAACTTTGACAAATCAACTATCTTTTTTAGT
1 AGGTTCAAGTCAGTGTGTAAACTTTGACAAATCAACTATCTTTTTTAGT
51123060 A
1 A
51123061 AAAATACATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (49 bp):
AGGTTCAAGTCAGTGTGTAAACTTTGACAAATCAACTATCTTTTTTAGT
Found at i:51126241 original size:25 final size:25
Alignment explanation
Indices: 51126208--51126257 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
51126198 AAAGAAAACC
51126208 AAAATGACTAGTAATGAAAAGAGGT
1 AAAATGACTAGTAATGAAAAGAGGT
*
51126233 AAAATGACTAGTAATTAAAAGAGGT
1 AAAATGACTAGTAATGAAAAGAGGT
51126258 TTTCAACCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.52, C:0.04, G:0.22, T:0.22
Consensus pattern (25 bp):
AAAATGACTAGTAATGAAAAGAGGT
Found at i:51131131 original size:16 final size:16
Alignment explanation
Indices: 51131107--51131141 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
51131097 AAGATGTTGT
*
51131107 GTTAGTTGCTTGTATG
1 GTTAATTGCTTGTATG
51131123 GTTAATTGCTTGTATG
1 GTTAATTGCTTGTATG
51131139 GTT
1 GTT
51131142 GACTTGCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.06, G:0.29, T:0.51
Consensus pattern (16 bp):
GTTAATTGCTTGTATG
Found at i:51135322 original size:131 final size:131
Alignment explanation
Indices: 51134806--51135323 Score: 526
Period size: 131 Copynumber: 3.9 Consensus size: 131
51134796 TTCACAATTA
* *
51134806 TTAAGAATTCTTTAAAACGAAGGCGATATTCGAT-TCTTGGCAATTCGTGGAATCGTGCCCTAAC
1 TTAAAAATCCTTTAAAACGAAGGCGATATTCGATGT-TTGGCAATTCG-GGAATCGTGCCCTAAC
* * * * * *
51134870 GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTGATCGAAGGTCCCTTTAGAATTTCACCCATGT
64 GTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAAGATCCCTTCAGAATTTCACTCATGT
51134935 CTT
129 CTT
* * * * *
51134938 TTAAAAATCCCTT-AAACGAAGGCGATATGCGATATTTGGTAATTCGCGGAATCGTGCTCTAACG
1 TTAAAAATCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCG-GGAATCGTGCCCTAACG
* * * * *
51135002 TGCTGGGTTGCAATTTCCCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCACTCATGTC
65 TGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAAGATCCCTTCAGAATTTCACTCATGTC
51135067 TT
130 TT
* * * * ** * *
51135069 CTAAAAATCCTTTAAAACGAAGGCAATATT-TAGTGTTTGACAATTCGGGAATTATGCCCTATCC
1 TTAAAAATCCTTTAAAACGAAGGCGATATTCGA-TGTTTGGCAATTCGGGAATCGTGCCCTAACG
** * * * * * *
51135133 TGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATTGAATATTCCTTTAGATTTTCACTCATGT-
65 TGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAAGATCCCTTCAGAATTTCACTCATGTC
51135197 TT
130 TT
* * * * * *
51135199 ATTAAAAA-CCTTTCAAAATGAAGGCGATGTTCGATGTTTGGCGATTTGAGAATCGTGCCCTATC
1 -TTAAAAATCCTTT-AAAACGAAGGCGATATTCGATGTTTGGCAATTCGGGAATCGTGCCCTAAC
** * * *
51135263 GTGCTGGGTTGCGCTTTTTCATTTG-TCCAAAATAATCGAAGATCCCTTCGGAATTTCACTC
64 GTGCTGGGTTGCAATTTCTCGTTTGCT-CAAAATAATCGAAGATCCCTTCAGAATTTCACTC
51135324 GTATTTTCTA
Statistics
Matches: 314, Mismatches: 65, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
130 8 0.03
131 269 0.86
132 37 0.12
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (131 bp):
TTAAAAATCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGGGAATCGTGCCCTAACGT
GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAAGATCCCTTCAGAATTTCACTCATGTCT
T
Found at i:51137555 original size:93 final size:92
Alignment explanation
Indices: 51137397--51137566 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 92
51137387 GGATGGTTGA
* * *
51137397 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCAAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGTT
51137462 GAGTCCGAGTTCGAGAGATGTAACTAG
66 GAGTCCGAGTTCGAGAGATGTAACTAG
* *
51137489 GCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATG-AGAACG-CCTGAGCTCATTGA
1 GCATCCGAACTCGTTGAGTTGAGT-CAAGTTCACTTATGGATGCA-AACGTCC-GAACTCATTGA
51137552 GTTGAGTCCGAGTTC
63 GTTGAGTCCGAGTTC
51137567 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
92 26 0.37
93 44 0.63
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCAAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGTT
GAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:51140497 original size:15 final size:15
Alignment explanation
Indices: 51140477--51140545 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
51140467 ATATCTTGGG
51140477 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
51140492 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
51140507 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
51140522 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
51140537 TTTCTTTAT
1 TTTCTTTAT
51140546 TCTGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:51140546 original size:30 final size:30
Alignment explanation
Indices: 51140468--51140549 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 30
51140458 CATAGTATCA
* * *
51140468 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* *
51140498 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
51140528 TATCTTGGATTTCTTTATTCTG
1 TATCTTGGATTTCTTTATTCTG
51140550 TTTTCTTGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 1 0.02
30 43 0.96
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:51147839 original size:28 final size:28
Alignment explanation
Indices: 51147793--51147861 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
51147783 TTTAAAACCC
*
51147793 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
51147820 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
51147848 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
51147862 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:51149511 original size:20 final size:20
Alignment explanation
Indices: 51149488--51149525 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51149478 CACATCCAAA
*
51149488 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
51149508 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
51149526 GCGAATAAAC
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:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:51155821 original size:28 final size:28
Alignment explanation
Indices: 51155775--51155843 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
51155765 TTTAAAACCC
*
51155775 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
51155802 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
51155830 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
51155844 TGATCTACAC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:51157346 original size:13 final size:13
Alignment explanation
Indices: 51157330--51157354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51157320 AAAAAGTATG
51157330 AGAAAAAAAAAAA
1 AGAAAAAAAAAAA
51157343 AGAAAAAAAAAA
1 AGAAAAAAAAAA
51157355 TGTTCATCCT
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAAA
Found at i:51157435 original size:56 final size:53
Alignment explanation
Indices: 51157341--51157449 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 53
51157331 GAAAAAAAAA
51157341 AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGCTTGGCCGAAAT-TACTAAGG
* **
51157394 AAAGAAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAGAAAA-AAAAA-ATGTTCATCCTTCTC-CAT-AGCTTGGCCGAAATTACTAAGG
51157450 GAAAAGGGGA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
53 8 0.17
54 7 0.15
55 14 0.29
56 16 0.33
57 3 0.06
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (53 bp):
AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGCTTGGCCGAAATTACTAAGG
Found at i:51158709 original size:40 final size:40
Alignment explanation
Indices: 51158643--51158809 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
51158633 AAATTGAATG
* * *
51158643 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
51158682 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
51158722 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
51158762 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
51158802 ATATCCGG
1 ATATCCGG
51158810 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:51165439 original size:56 final size:53
Alignment explanation
Indices: 51165346--51165454 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 53
51165336 GAAAAAAAAA
51165346 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGG
***
51165399 AAAGAAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAGAAAA-AAAAA--TGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
51165455 GAAAAGGGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
53 8 0.17
54 5 0.10
55 2 0.04
56 30 0.62
57 3 0.06
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (53 bp):
AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGG
Found at i:51166711 original size:40 final size:40
Alignment explanation
Indices: 51166645--51166811 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
51166635 AAATTGAATG
* * *
51166645 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
51166684 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
51166724 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
51166764 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
51166804 ATATCCGG
1 ATATCCGG
51166812 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:51168843 original size:42 final size:41
Alignment explanation
Indices: 51168726--51168843 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 41
51168716 GTCTGAGACA
* *
51168726 TCGTGTAAGACCATGTCTGGGACACAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATC-ATTCAGATT
* * * *
51168768 TATGTATAAGACCATGTCTGGGACATC-GACATCATATCTGATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCAT-TCAGATT
*
51168811 TCGTGTAAGAACC-TGTCTGGGACAGAGGCATCA
1 TCGTGTAAG-ACCATGTCTGGGACACAGGCATCA
51168844 ATATTGAATT
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
42 26 0.43
43 34 0.56
44 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCATTCAGATT
Found at i:51175720 original size:8 final size:8
Alignment explanation
Indices: 51175707--51175735 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
51175697 TTGAATGAAA
51175707 TGAATGGT
1 TGAATGGT
51175715 TGAATGGT
1 TGAATGGT
51175723 TGAATGGT
1 TGAATGGT
51175731 TGAAT
1 TGAAT
51175736 TTGTATTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (8 bp):
TGAATGGT
Found at i:51180084 original size:66 final size:68
Alignment explanation
Indices: 51180008--51180194 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
51179998 TAGTACCACT
*
51180008 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
51180070 CACG
65 CACG
51180074 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
51180139 ATCACG
63 ATCACG
51180145 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
51180195 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:51180119 original size:71 final size:71
Alignment explanation
Indices: 51180031--51180194 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
51180021 CGATTTGTCT
51180031 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
51180096 CTTTCA
66 CTTTCA
51180102 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
51180167 CTTTCA
66 CTTTCA
51180173 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
51180195 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:51180232 original size:71 final size:70
Alignment explanation
Indices: 51180031--51180228 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
51180021 CGATTTGTCT
* * *
51180031 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
51180096 CTTTCA
65 CTTTCA
* * *
51180102 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
51180167 CTTTCA
65 CTTTCA
* *
51180173 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
51180229 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:51187653 original size:66 final size:68
Alignment explanation
Indices: 51187577--51187763 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
51187567 TAGTACCACT
*
51187577 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
51187639 CACG
65 CACG
51187643 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
51187708 ATCACG
63 ATCACG
51187714 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
51187764 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:51187688 original size:71 final size:71
Alignment explanation
Indices: 51187600--51187763 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
51187590 CGATTTGTCT
51187600 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
51187665 CTTTCA
66 CTTTCA
51187671 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
51187736 CTTTCA
66 CTTTCA
51187742 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
51187764 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:51187801 original size:71 final size:70
Alignment explanation
Indices: 51187600--51187797 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
51187590 CGATTTGTCT
* * *
51187600 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
51187665 CTTTCA
65 CTTTCA
* * *
51187671 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
51187736 CTTTCA
65 CTTTCA
* *
51187742 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
51187798 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:51198296 original size:44 final size:44
Alignment explanation
Indices: 51198248--51198332 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
51198238 TTGATATCTC
* * *
51198248 AAAGTCCATGGTT-GTACCATGTCAATTAAGGAAGAATTGACAGA
1 AAAGTCCAT-GTTCATAACATGGCAATTAAGGAAGAATTGACAGA
* * *
51198292 AAAGTCTATGTTCATAACATGGCATTTAAGGAGGAATTGAC
1 AAAGTCCATGTTCATAACATGGCAATTAAGGAAGAATTGAC
51198333 GATTAAGGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 3 0.09
44 31 0.91
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (44 bp):
AAAGTCCATGTTCATAACATGGCAATTAAGGAAGAATTGACAGA
Found at i:51199225 original size:209 final size:209
Alignment explanation
Indices: 51198344--51199459 Score: 1899
Period size: 209 Copynumber: 5.3 Consensus size: 209
51198334 ATTAAGGATA
* * * *
51198344 CCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAGACAAGGATGCCATGTAAGACC
1 CCATGTAAGACCATGCCAAGGCATGGCATTAGTGAGTTCATAAGACAAGGATACCATGTAAGACC
* * * *
51198409 ATGTTTGAAACACGGCATTTAGTAAGATAAGGATATCATGTAAAACCATGCCAAGGCATGGCATT
66 ATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATT
* * * *
51198474 CATAAGTTTTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACT
131 GATAAGCTCTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACT
51198539 ATAAGGCAAAGGTC
196 ATAAGGCAAAGGTC
51198553 CCATGTAAGACCATGCCAAGGCATGGCATTAGTGAGTTCATAAGACAAGGATACCATGTAAGACC
1 CCATGTAAGACCATGCCAAGGCATGGCATTAGTGAGTTCATAAGACAAGGATACCATGTAAGACC
*
51198618 ATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGCCATT
66 ATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATT
51198683 GATAAGCTCTATAAGGCAAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTAC
131 GATAAGCTCTATAAGGC-AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTAC
51198748 TATAAGGCAAAGGTC
195 TATAAGGCAAAGGTC
51198763 CCATGTAAGACCATGCCAAGGCATGGCATTAGTGAGTTCATAAGACAAGGATACCATGTAAGACC
1 CCATGTAAGACCATGCCAAGGCATGGCATTAGTGAGTTCATAAGACAAGGATACCATGTAAGACC
* *
51198828 ATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGGCAAGGCATGCCATT
66 ATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATT
* *
51198893 GATAAGCTCTATAAGGTAAAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTAC
131 GATAAGCTCTATAAGG-CAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTAC
51198958 TATAAGGCAAAGGTC
195 TATAAGGCAAAGGTC
* * *
51198973 CCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAGACAAGGATACCATGTAAGACC
1 CCATGTAAGACCATGCCAAGGCATGGCATTAGTGAGTTCATAAGACAAGGATACCATGTAAGACC
* * *
51199038 ATGTTTGGAACATGACATTTGGTAAGATAAGAATATCATGTAAGGCCATGCCAAGGCATGGCATT
66 ATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATT
* * *
51199103 GATAAGCTTTATAAGACAAGGAAATCATGTAAGACCATGTCAAGACATGCCATTGATGAGTTACT
131 GATAAGCTCTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACT
51199168 ATAAGGCAAAGGTC
196 ATAAGGCAAAGGTC
* *
51199182 CCATGTAAGACCATGCCAAGGCATGGCATTAGTGAGTTCATAAGACAAAGATACCATATAAGACC
1 CCATGTAAGACCATGCCAAGGCATGGCATTAGTGAGTTCATAAGACAAGGATACCATGTAAGACC
* *
51199247 ATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAAACCATGCCAAGGCATGGCTTT
66 ATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATT
* * *
51199312 GATAAGCTCTATAAGGTAAGGAAATCATGTAAGACCATGTCAAAACATGGCATTAATGAGTTACT
131 GATAAGCTCTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACT
51199377 ATAAGGCAAAGGTC
196 ATAAGGCAAAGGTC
* *
51199391 CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGACAAGGATACCACGTAAGACC
1 CCATGTAAGACCATGCCAAGGCATGGCATTAGTGAGTTCATAAGACAAGGATACCATGTAAGACC
51199456 ATGT
66 ATGT
51199460 CAAGATATGG
Statistics
Matches: 856, Mismatches: 49, Indels: 4
0.94 0.05 0.00
Matches are distributed among these distances:
209 453 0.53
210 403 0.47
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (209 bp):
CCATGTAAGACCATGCCAAGGCATGGCATTAGTGAGTTCATAAGACAAGGATACCATGTAAGACC
ATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATT
GATAAGCTCTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACT
ATAAGGCAAAGGTC
Found at i:51202868 original size:40 final size:39
Alignment explanation
Indices: 51202823--51202970 Score: 163
Period size: 40 Copynumber: 3.7 Consensus size: 39
51202813 ATAACCACAA
* * *** *
51202823 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTC
51202863 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
51202903 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* *
51202943 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCA-CAATGCCTTCGGGTCTTAGCCCGG
51202971 GTATCATTCA
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
40 92 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:51215913 original size:39 final size:39
Alignment explanation
Indices: 51215859--51216002 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
51215849 GAATGTTCGA
51215859 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
51215898 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
51215937 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
51215976 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
51216003 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:51215949 original size:78 final size:79
Alignment explanation
Indices: 51215860--51216042 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
51215850 AATGTTCGAG
51215860 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
51215924 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* *
51215938 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
** *
51216003 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
51216017 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
51216043 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:51220272 original size:16 final size:17
Alignment explanation
Indices: 51220253--51220289 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
51220243 ACTAAAAGGT
51220253 TAAACATG-TAAAATAA
1 TAAACATGTTAAAATAA
*
51220269 TAAACATGTTAATATAA
1 TAAACATGTTAAAATAA
51220286 TAAA
1 TAAA
51220290 ACATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (17 bp):
TAAACATGTTAAAATAA
Found at i:51224080 original size:36 final size:36
Alignment explanation
Indices: 51224033--51224104 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
51224023 ATCGAATGAG
*
51224033 GCTGATGTGTTTTAAAAACTTCAAAACTCATACCTT
1 GCTGATATGTTTTAAAAACTTCAAAACTCATACCTT
51224069 GCTGATATGTTTTAAAAACTTCAAAACTCATACCTT
1 GCTGATATGTTTTAAAAACTTCAAAACTCATACCTT
51224105 ACTTACCTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (36 bp):
GCTGATATGTTTTAAAAACTTCAAAACTCATACCTT
Found at i:51224318 original size:13 final size:13
Alignment explanation
Indices: 51224300--51224324 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51224290 TGTTCTCTTG
51224300 CATTTCTTTTTCT
1 CATTTCTTTTTCT
51224313 CATTTCTTTTTC
1 CATTTCTTTTTC
51224325 ATCGACAACA
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:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (13 bp):
CATTTCTTTTTCT
Found at i:51224440 original size:6 final size:6
Alignment explanation
Indices: 51224431--51224494 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
51224421 GATCTCGATC
* * * ** **
51224431 TCTTTT TCTTTT TCCTTC TCTTTT TGTTTT TCACTT TCTTTT TCAATT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
51224479 TCATTTT TCTTTT TCT
1 TC-TTTT TCTTTT TCT
51224495 CATTCTCTTT
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
6 39 0.91
7 4 0.09
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.72
Consensus pattern (6 bp):
TCTTTT
Found at i:51224452 original size:18 final size:19
Alignment explanation
Indices: 51224429--51224494 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 19
51224419 TCGATCTCGA
51224429 TCTCTTTTTCTTTTTC-CT
1 TCTCTTTTTCTTTTTCACT
*
51224447 TCTCTTTTTGTTTTTCACT
1 TCTCTTTTTCTTTTTCACT
** *
51224466 T-TCTTTTTCAATTTCATT
1 TCTCTTTTTCTTTTTCACT
*
51224484 TTTCTTTTTCT
1 TCTCTTTTTCT
51224495 CATTCTCTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
18 29 0.73
19 11 0.28
ACGTcount: A:0.06, C:0.21, G:0.02, T:0.71
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTCACT
Found at i:51231388 original size:30 final size:31
Alignment explanation
Indices: 51231330--51231389 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
51231320 AATGGAAAAG
* * *
51231330 AAACGAGCTGGAAAGAAGCTAAATTGAGCTC
1 AAACGAGCTGAAAACAAGCTAAAGTGAGCTC
*
51231361 AAACGAGCT-AAAACAAGCTCAAGTGAGCT
1 AAACGAGCTGAAAACAAGCTAAAGTGAGCT
51231390 GATTGGAGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.15
Consensus pattern (31 bp):
AAACGAGCTGAAAACAAGCTAAAGTGAGCTC
Found at i:51233222 original size:27 final size:27
Alignment explanation
Indices: 51233182--51233697 Score: 501
Period size: 27 Copynumber: 19.2 Consensus size: 27
51233172 TGGATGAAAT
* *
51233182 AATGATCGAAATACCCCTATAAGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
* *
51233209 AATAACCAAAATACCCCCAT-AGGATAA
1 AATGACCGAAATACCCCCATAAGG-TAA
* *
51233236 AATGACCAAAACACCCCCAT-AGGATAA
1 AATGACCGAAATACCCCCATAAGG-TAA
*
51233263 AATGACC-AAA-ACACCCCATAGGGTAA
1 AATGACCGAAATAC-CCCCATAAGGTAA
*
51233289 AATGACCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
* *
51233316 AATGAACGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
* ** *
51233343 AATGACCGAAACACCCTTATAGGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
* *
51233370 AATGACCGAAACACCCTCAT-AGGATAA
1 AATGACCGAAATACCCCCATAAGG-TAA
*
51233397 AATGATCGAAATACCCCCATAAGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
* *
51233424 AATGATCGAAACACCCCCAT-AGGATAA
1 AATGACCGAAATACCCCCATAAGG-TAA
* **
51233451 AATGACCAAAATACCCTTATAAGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
* *
51233478 AATGACCGAAACACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
* * *
51233505 AATGACTGAAACACCCCTAT-AGGATAA
1 AATGACCGAAATACCCCCATAAGG-TAA
*
51233532 AATGACTGAAATACCCCCAT-AGGATAA
1 AATGACCGAAATACCCCCATAAGG-TAA
* *
51233559 AATGACCAAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
** *
51233586 AATGACTAAAATACCCCTATAAGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
* * *
51233613 AATGACTGAAATACCCCAATAGGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
* * ** *
51233640 AATGACTGTAATACCCCTGTAGGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
* * **
51233667 AATGACTGTAATA-CCCTGTAAGGTAA
1 AATGACCGAAATACCCCCATAAGGTAA
51233693 AATGA
1 AATGA
51233698 TTGTTTTGCC
Statistics
Matches: 432, Mismatches: 46, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
25 2 0.00
26 46 0.11
27 374 0.87
28 10 0.02
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.18
Consensus pattern (27 bp):
AATGACCGAAATACCCCCATAAGGTAA
Found at i:51233265 original size:54 final size:54
Alignment explanation
Indices: 51233182--51233682 Score: 556
Period size: 54 Copynumber: 9.3 Consensus size: 54
51233172 TGGATGAAAT
* * * * * *
51233182 AATGATCGAAATACCCCTATAAGGTAAAATAACCAAAATACCCCCATAGGATAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAACACCCCCATAGGATAA
* * * * *
51233236 AATGACCAAAACACCCCCATAGGATAAAATGACCAAAACA-CCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAACACCCCCATAGGATAA
* * *
51233289 AATGACCGAAATACCCCCATAGGGTAAAATGAACGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAACACCCCCATAGGATAA
* ** *
51233343 AATGACCGAAACACCCTTATAGGGTAAAATGACCGAAACACCCTCATAGGATAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAACACCCCCATAGGATAA
* * *
51233397 AATGATCGAAATACCCCCATAAGGTAAAATGATCGAAACACCCCCATAGGATAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAACACCCCCATAGGATAA
* ** * *
51233451 AATGACCAAAATACCCTTATAAGGTAAAATGACCGAAACACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAACACCCCCATAGGATAA
* * * * * *
51233505 AATGACTGAAACACCCCTATAGGATAAAATGACTGAAATACCCCCATAGGATAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAACACCCCCATAGGATAA
* ** * *
51233559 AATGACCAAAATACCCCCATAGGGTAAAATGACTAAAATACCCCTATAAGG-TAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAACACCCCCAT-AGGATAA
* * * * * ** *
51233613 AATGACTGAAATACCCCAATAGGGTAAAATGACTGTAATACCCCTGTAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAACACCCCCATAGGATAA
* *
51233667 AATGACTGTAATACCC
1 AATGACCGAAATACCC
51233683 TGTAAGGTAA
Statistics
Matches: 386, Mismatches: 58, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
53 49 0.13
54 334 0.87
55 3 0.01
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.17
Consensus pattern (54 bp):
AATGACCGAAATACCCCCATAGGGTAAAATGACCGAAACACCCCCATAGGATAA
Found at i:51233400 original size:81 final size:81
Alignment explanation
Indices: 51233182--51233672 Score: 617
Period size: 81 Copynumber: 6.1 Consensus size: 81
51233172 TGGATGAAAT
* * * * * *
51233182 AATGATCGAAATACCCCTATAAGGTAAAATAACCAAAATACCCCCATAGGATAAAATGACCAAAA
1 AATGACCGAAACACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGACCGAAA
* *
51233247 CACCCCCATAGGATAA
66 TACCCCCATAGGGTAA
* * *
51233263 AATGACCAAAACACCCC-ATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAACGAAA
1 AATGACCGAAACACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGACCGAAA
51233327 TACCCCCATAGGGTAA
66 TACCCCCATAGGGTAA
* * * *
51233343 AATGACCGAAACACCCTTATAGGGTAAAATGACCGAAACACCCTCATAGGATAAAATGATCGAAA
1 AATGACCGAAACACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGACCGAAA
*
51233408 TACCCCCATAAGGTAA
66 TACCCCCATAGGGTAA
* * * * **
51233424 AATGATCGAAACACCCCCATAGGATAAAATGACCAAAATACCCTTATAAGG-TAAAATGACCGAA
1 AATGACCGAAACACCCCTATAGGGTAAAATGACCGAAATACCCCCAT-AGGATAAAATGACCGAA
*
51233488 ACACCCCCATAGGGTAA
65 ATACCCCCATAGGGTAA
* * * *
51233505 AATGACTGAAACACCCCTATAGGATAAAATGACTGAAATACCCCCATAGGATAAAATGACCAAAA
1 AATGACCGAAACACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGACCGAAA
51233570 TACCCCCATAGGGTAA
66 TACCCCCATAGGGTAA
** * * * * * * *
51233586 AATGACTAAAATACCCCTATAAGGTAAAATGACTGAAATACCCCAATAGGGTAAAATGACTGTAA
1 AATGACCGAAACACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGACCGAAA
**
51233651 TACCCCTGTAGGGTAA
66 TACCCCCATAGGGTAA
51233667 AATGAC
1 AATGAC
51233673 TGTAATACCC
Statistics
Matches: 359, Mismatches: 48, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
80 73 0.20
81 283 0.79
82 3 0.01
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.17
Consensus pattern (81 bp):
AATGACCGAAACACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGACCGAAA
TACCCCCATAGGGTAA
Found at i:51233723 original size:27 final size:27
Alignment explanation
Indices: 51233688--51233823 Score: 157
Period size: 27 Copynumber: 5.0 Consensus size: 27
51233678 TACCCTGTAA
*
51233688 GGTAAAATGATTGTTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* * ** *
51233715 GTTAGAATGACAATTTTGCCCTTATAT
1 GGTAAAATGACTGTTTTGCCCTTATGT
*
51233742 GGTAAAATGAC-GATTTTGCCCTTATGA
1 GGTAAAATGACTG-TTTTGCCCTTATGT
*
51233769 GGTAAAATGACTATTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
** *
51233796 GGTAGGATGACTGTTTTGCCCCTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
51233823 G
1 G
51233824 ATGTATGTTT
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (27 bp):
GGTAAAATGACTGTTTTGCCCTTATGT
Found at i:51234149 original size:18 final size:18
Alignment explanation
Indices: 51234123--51234195 Score: 83
Period size: 18 Copynumber: 4.1 Consensus size: 18
51234113 GGACTTGCAA
* *
51234123 ACTGCTTACTGTTATTGC
1 ACTGTTTACTGTTACTGC
*
51234141 ACTGTTTACTATTACTGC
1 ACTGTTTACTGTTACTGC
** * *
51234159 ACTAATTACCGTTACTGT
1 ACTGTTTACTGTTACTGC
51234177 ACTGTTTACTGTTACTGC
1 ACTGTTTACTGTTACTGC
51234195 A
1 A
51234196 ATGGGCCAAG
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (18 bp):
ACTGTTTACTGTTACTGC
Found at i:51236280 original size:13 final size:13
Alignment explanation
Indices: 51236262--51236286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51236252 GAATGACGAA
51236262 ATGTTTGGCTATG
1 ATGTTTGGCTATG
51236275 ATGTTTGGCTAT
1 ATGTTTGGCTAT
51236287 CTATGTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.28, T:0.48
Consensus pattern (13 bp):
ATGTTTGGCTATG
Found at i:51236658 original size:7 final size:7
Alignment explanation
Indices: 51236642--51236698 Score: 78
Period size: 7 Copynumber: 8.0 Consensus size: 7
51236632 TAATTACACG
*
51236642 AAACCAT
1 AAACCCT
51236649 AAACCCT
1 AAACCCT
*
51236656 AAAACCT
1 AAACCCT
51236663 AAACCCT
1 AAACCCT
*
51236670 AAAATCCT
1 -AAACCCT
51236678 AAACCCT
1 AAACCCT
51236685 AAACCCT
1 AAACCCT
51236692 AAACCCT
1 AAACCCT
51236699 TTAAGTGATC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:51236667 original size:14 final size:14
Alignment explanation
Indices: 51236642--51236698 Score: 87
Period size: 14 Copynumber: 3.9 Consensus size: 14
51236632 TAATTACACG
51236642 AAACCATAAACCCTA
1 AAACC-TAAACCCTA
51236657 AAACCTAAACCCTA
1 AAACCTAAACCCTA
51236671 AAATCCTAAACCCTA
1 AAA-CCTAAACCCTA
*
51236686 AACCCTAAACCCT
1 AAACCTAAACCCT
51236699 TTAAGTGATC
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
14 22 0.55
15 18 0.45
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCTAAACCCTA
Found at i:51236685 original size:22 final size:22
Alignment explanation
Indices: 51236653--51236694 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
51236643 AACCATAAAC
51236653 CCTAAAACCTAAACCCTAAAAT
1 CCTAAAACCTAAACCCTAAAAT
*
51236675 CCTAAACCCTAAACCCTAAA
1 CCTAAAACCTAAACCCTAAA
51236695 CCCTTTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.17
Consensus pattern (22 bp):
CCTAAAACCTAAACCCTAAAAT
Found at i:51237391 original size:48 final size:48
Alignment explanation
Indices: 51237326--51237634 Score: 240
Period size: 48 Copynumber: 6.5 Consensus size: 48
51237316 GGGTGTTACA
51237326 ATGTCTGGGACATGGCATCGGCCACATAATGGGAGCCAGTGTAAGACC
1 ATGTCTGGGACATGGCATCGGCCACATAATGGGAGCCAGTGTAAGACC
* * * ** * *
51237374 ATGTTTGGAACATGGCATCGGCGATGTTATGGGAGCCAGAGTAAGACC
1 ATGTCTGGGACATGGCATCGGCCACATAATGGGAGCCAGTGTAAGACC
* * *
51237422 ATGTCTGGGACATGGCATC-G--ACATTGAGAAGAGAGCTAGTGTAAGACC
1 ATGTCTGGGACATGGCATCGGCCACA-T-A-ATGGGAGCCAGTGTAAGACC
* * * *
51237470 ATGTCTAGGACATGGAATCAGCCTCGACGT-AT--GAGCCAGTGTAAGA-C
1 ATGTCTGGGACATGGCATC-GGC-C-ACATAATGGGAGCCAGTGTAAGACC
* * ** * *
51237517 ATGTCTGGGACATGGCATCGGCCTCGA-CATCTGAGCTAGTGTAAGACT
1 ATGTCTGGGACATGGCATCGGCCAC-ATAATGGGAGCCAGTGTAAGACC
* * * *
51237565 ATGTCTGGGACATGGCATCGACCTCGA-CATGTGAGCCAGTGTAAGACC
1 ATGTCTGGGACATGGCATCGGCCAC-ATAATGGGAGCCAGTGTAAGACC
* * *
51237613 AAGTCTAGGACATGGCCTCGGC
1 ATGTCTGGGACATGGCATCGGC
51237635 AATTTACCCT
Statistics
Matches: 210, Mismatches: 37, Indels: 28
0.76 0.13 0.10
Matches are distributed among these distances:
44 1 0.00
45 4 0.02
46 3 0.01
47 32 0.15
48 166 0.79
50 1 0.00
53 1 0.00
54 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.21
Consensus pattern (48 bp):
ATGTCTGGGACATGGCATCGGCCACATAATGGGAGCCAGTGTAAGACC
Found at i:51237562 original size:95 final size:96
Alignment explanation
Indices: 51237406--51237635 Score: 293
Period size: 95 Copynumber: 2.4 Consensus size: 96
51237396 GATGTTATGG
* * * * *
51237406 GAGCCAGAGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAAGAGAGCTAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGACAACAGAGCTAGTGTAAGACCA
*
51237471 TGTCTAGGACATGGAATC-AGCCTCGACGTAT
66 TGTCTAGGACATGGAATCGA-CCTCGACATAT
* * * *
51237502 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGACATCTGAGCTAGTGTAAGACTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGACAACAGAGCTAGTGTAAGACCA
* * *
51237566 TGTCTGGGACATGGCATCGACCTCGACATGT
66 TGTCTAGGACATGGAATCGACCTCGACATAT
* * *
51237597 GAGCCAGTGTAAGACCAAGTCTAGGACATGGCCTCGGCA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
51237636 ATTTACCCTC
Statistics
Matches: 115, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
95 81 0.70
96 34 0.30
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (96 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGACAACAGAGCTAGTGTAAGACCA
TGTCTAGGACATGGAATCGACCTCGACATAT
Found at i:51237585 original size:143 final size:144
Alignment explanation
Indices: 51237358--51237627 Score: 364
Period size: 143 Copynumber: 1.9 Consensus size: 144
51237348 CACATAATGG
* ** *
51237358 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCGATGTTATGGGAGCCAGAGTAAGACCA
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCGATGACATCGGAGCCAGAGTAAGACCA
* * * *
51237423 TGTCTGGGACATGGCATCGACATTGAGAAGAGAGCTAGTGTAAGACCATGTCTAGGACATGGAAT
66 TGTCTGGGACATGGCATCGACATCGACAAGAGAGCCAGTGTAAGACCAAGTCTAGGACATGGAAT
51237488 CAGCCTCGACGTAT
131 CAGCCTCGACGTAT
* * * * * *
51237502 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC-CTCGACATCTGAGCTAGTGTAAGACT
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCGAT-GACATCGGAGCCAGAGTAAGACC
* * *
51237565 ATGTCTGGGACATGGCATCGACCTCGACATGTGAGCCAGTGTAAGACCAAGTCTAGGACATGG
65 ATGTCTGGGACATGGCATCGACATCGACAAGAGAGCCAGTGTAAGACCAAGTCTAGGACATGG
51237628 CCTCGGCAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
142 1 0.01
143 93 0.86
144 14 0.13
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.21
Consensus pattern (144 bp):
GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCGATGACATCGGAGCCAGAGTAAGACCA
TGTCTGGGACATGGCATCGACATCGACAAGAGAGCCAGTGTAAGACCAAGTCTAGGACATGGAAT
CAGCCTCGACGTAT
Found at i:51243986 original size:10 final size:11
Alignment explanation
Indices: 51243961--51243990 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
51243951 TTTGAAAAAA
51243961 AAATAAATATT
1 AAATAAATATT
51243972 AAATAAATA-T
1 AAATAAATATT
51243982 AAATAAATA
1 AAATAAATA
51243991 ATAACAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAATAAATATT
Found at i:51243994 original size:11 final size:11
Alignment explanation
Indices: 51243961--51243994 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
51243951 TTTGAAAAAA
*
51243961 AAATAAATATT
1 AAATAAATAAT
51243972 AAATAAAT-AT
1 AAATAAATAAT
51243982 AAATAAATAAT
1 AAATAAATAAT
51243993 AA
1 AA
51243995 CAGTGAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:51244867 original size:21 final size:19
Alignment explanation
Indices: 51244841--51244887 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
51244831 TTACAAAAAG
*
51244841 TATCGATAAGCATATGATTTT
1 TATCGATAACCATAT--TTTT
51244862 TATCGAT-ACCATATTTTT
1 TATCGATAACCATATTTTT
51244880 TATCGATA
1 TATCGATA
51244888 CCAAAGTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 11 0.46
20 6 0.25
21 7 0.29
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (19 bp):
TATCGATAACCATATTTTT
Found at i:51247006 original size:29 final size:29
Alignment explanation
Indices: 51246973--51247034 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
51246963 TGAGATTATG
51246973 TGTAAATTCCTTTCGAGATGGTACAGGTA
1 TGTAAATTCCTTTCGAGATGGTACAGGTA
*
51247002 TGTAAATTCCTTTTGAGATGGTACAGGTA
1 TGTAAATTCCTTTCGAGATGGTACAGGTA
51247031 TGTA
1 TGTA
51247035 CTTGAAGCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.37
Consensus pattern (29 bp):
TGTAAATTCCTTTCGAGATGGTACAGGTA
Found at i:51250873 original size:34 final size:34
Alignment explanation
Indices: 51250830--51250897 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
51250820 ATTTGAAAAG
*
51250830 TAAGTTTGTGGAATACCGAGTCTTCCATGTTGGT
1 TAAGTTTGTGGAATACCGAGTCTCCCATGTTGGT
** *
51250864 TAAGTTTGTGGAATATTGAGTCTCCCGTGTTGGT
1 TAAGTTTGTGGAATACCGAGTCTCCCATGTTGGT
51250898 CTTGTAAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (34 bp):
TAAGTTTGTGGAATACCGAGTCTCCCATGTTGGT
Found at i:51250936 original size:16 final size:17
Alignment explanation
Indices: 51250903--51250937 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
51250893 TTGGTCTTGT
51250903 AAGTACTTCTAATTTAG
1 AAGTACTTCTAATTTAG
*
51250920 AAGTACTT-TAGTTTAG
1 AAGTACTTCTAATTTAG
51250936 AA
1 AA
51250938 AAATCTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (17 bp):
AAGTACTTCTAATTTAG
Found at i:51256522 original size:11 final size:11
Alignment explanation
Indices: 51256506--51256533 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
51256496 TCAAGATGTG
51256506 GAATACATCAT
1 GAATACATCAT
51256517 GAATACATCAT
1 GAATACATCAT
51256528 GAATAC
1 GAATAC
51256534 GATCCAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (11 bp):
GAATACATCAT
Found at i:51259742 original size:29 final size:29
Alignment explanation
Indices: 51259709--51259773 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
51259699 GTGACGAGAT
*
51259709 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
51259738 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
51259767 CGGCACT
1 TGGCACT
51259774 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:51267185 original size:17 final size:18
Alignment explanation
Indices: 51267160--51267194 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
51267150 TTGCTATTCA
*
51267160 CTTTTTTTCTTTT-TTTC
1 CTTTCTTTCTTTTGTTTC
51267177 CTTTCTTTCTTTTGTTTC
1 CTTTCTTTCTTTTGTTTC
51267195 TTTTGTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (18 bp):
CTTTCTTTCTTTTGTTTC
Found at i:51267201 original size:9 final size:8
Alignment explanation
Indices: 51267160--51267198 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
51267150 TTGCTATTCA
51267160 CTTTTTTT
1 CTTTTTTT
51267168 CTTTTTTT
1 CTTTTTTT
*
51267176 CCTTTCTTT
1 -CTTTTTTT
51267185 CTTTTGTTT
1 CTTTT-TTT
51267194 CTTTT
1 CTTTT
51267199 GTTCATCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 12 0.44
9 15 0.56
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (8 bp):
CTTTTTTT
Found at i:51268500 original size:9 final size:9
Alignment explanation
Indices: 51268486--51268514 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
51268476 AACTTTGAAT
51268486 TTATTTTAA
1 TTATTTTAA
51268495 TTATTTTAA
1 TTATTTTAA
51268504 TTATTTTAA
1 TTATTTTAA
51268513 TT
1 TT
51268515 TAGGCTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTATTTTAA
Found at i:51269126 original size:18 final size:18
Alignment explanation
Indices: 51269103--51269143 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
51269093 AAAATTTTAA
* * *
51269103 AATTGTCTATCTATGTAT
1 AATTGTATATCCATATAT
51269121 AATTGTATATCCATATAT
1 AATTGTATATCCATATAT
51269139 AATTG
1 AATTG
51269144 ATTTGATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (18 bp):
AATTGTATATCCATATAT
Found at i:51269692 original size:43 final size:43
Alignment explanation
Indices: 51269644--51269750 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
51269634 GAAAACGCTG
* * * * *
51269644 CTAAAGAACATGATCTTTAGCTG-CGTTTTTAGTAAAAGTGTCA
1 CTAAAGATCATGTTCTTTAGC-GACATTTGTAGTAAAAGCGTCA
* *
51269687 CTAAAGATCATGTTCTATGGCGACATTTGTAGTAAAAGCGTCA
1 CTAAAGATCATGTTCTTTAGCGACATTTGTAGTAAAAGCGTCA
51269730 CTAAAGATCATGTTCTTTAGC
1 CTAAAGATCATGTTCTTTAGC
51269751 AGTGTTTGCG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.02
43 53 0.98
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (43 bp):
CTAAAGATCATGTTCTTTAGCGACATTTGTAGTAAAAGCGTCA
Found at i:51269765 original size:43 final size:43
Alignment explanation
Indices: 51269674--51269791 Score: 123
Period size: 43 Copynumber: 2.7 Consensus size: 43
51269664 CTGCGTTTTT
* * *
51269674 AGTAAAAGTGTCACTAAAGATCATGTTCTATGGCGACATTTGT
1 AGTAAAAGCGTCACTAAAGATCATGTTCTATAGCGACATTTGC
* **
51269717 AGTAAAAGCGTCACTAAAGATCATGTTCTTTAGC-AGTGTTTGC
1 AGTAAAAGCGTCACTAAAGATCATGTTCTATAGCGA-CATTTGC
* * *
51269760 GGTAAAAGCG-CTACTAAAGGTGATGTTCTATA
1 AGTAAAAGCGTC-ACTAAAGATCATGTTCTATA
51269792 ATGGCGTTTG
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 2 0.03
43 61 0.97
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31
Consensus pattern (43 bp):
AGTAAAAGCGTCACTAAAGATCATGTTCTATAGCGACATTTGC
Found at i:51270217 original size:66 final size:66
Alignment explanation
Indices: 51270098--51270221 Score: 151
Period size: 66 Copynumber: 1.9 Consensus size: 66
51270088 AAGCTATAGC
* * ** * *
51270098 TGGAGTTCGTCATATTTTCTTGTTGCCTCTACTTCCCTCGCTGTTGCCGCCGCTTTAAATTGTAG
1 TGGAGTTCATCATATTTTCTTGTAGCCTCTACTTCCCTCAATGCTACCGCCGCTTTAAATTGTAG
51270163 T
66 T
* * *
51270164 TGGAGTTCATCATATTTTCTT-TGAGTCTCTACTTCTCTCAATGCTACCTCCGCTTTAA
1 TGGAGTTCATCATATTTTCTTGT-AGCCTCTACTTCCCTCAATGCTACCGCCGCTTTAA
51270222 GTTGAGCAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
65 1 0.02
66 47 0.98
ACGTcount: A:0.15, C:0.26, G:0.16, T:0.43
Consensus pattern (66 bp):
TGGAGTTCATCATATTTTCTTGTAGCCTCTACTTCCCTCAATGCTACCGCCGCTTTAAATTGTAG
T
Found at i:51273678 original size:40 final size:40
Alignment explanation
Indices: 51273629--51273812 Score: 155
Period size: 40 Copynumber: 4.6 Consensus size: 40
51273619 GACTAGCTCG
* * *
51273629 ATTGTCTTCGGGACATT-GCCCGGTTATAGTGATTCGCACA
1 ATTGCCTTCGGGACATTAGCCCGGTT-TAGTAACTCGCACA
*
51273669 ATTGCCTTCGGGA-ATTAGCCCGAATTTAGTAACTCGCACGA
1 ATTGCCTTCGGGACATTAGCCCG-GTTTAGTAACTCGCAC-A
* *
51273710 A-TGCCTTCGGGAC-TTAACCCGGTTTTGGTAACTCGCACA
1 ATTGCCTTCGGGACATTAGCCCGG-TTTAGTAACTCGCACA
* * * *
51273749 AATGCCTTCGGGAC-TTAACCCGGTTTTAGTCACTTAGCACA
1 ATTGCCTTCGGGACATTAGCCCGG-TTTAGTAAC-TCGCACA
** *
51273790 AAAGCCTTTGGGAC-TTAGCCCGG
1 ATTGCCTTCGGGACATTAGCCCGG
51273813 ATACCATTCG
Statistics
Matches: 124, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
39 5 0.04
40 89 0.72
41 30 0.24
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
ATTGCCTTCGGGACATTAGCCCGGTTTAGTAACTCGCACA
Found at i:51273732 original size:80 final size:81
Alignment explanation
Indices: 51273634--51273812 Score: 200
Period size: 80 Copynumber: 2.2 Consensus size: 81
51273624 GCTCGATTGT
* * * *
51273634 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGAATTTAG
1 CTTCGGGAC-TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGAATTTAG
* * *
51273698 TAAC-TCGCACGAATGC
65 TAACTTAGCACAAAAGC
* * * * **
51273714 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGAATTTAGT
*
51273779 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
*
51273795 CTTTGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
51273813 ATACCATTCG
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 2 0.02
80 54 0.67
81 25 0.31
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGAATTTAGT
AACTTAGCACAAAAGC
Found at i:51273803 original size:41 final size:40
Alignment explanation
Indices: 51273672--51273812 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 40
51273662 TCGCACAATT
* * ** * * *
51273672 GCCTTCGGGAATTAGCCCGAATTTAGTAACTCGCACGAAT
1 GCCTTCGGGACTTAACCCGGTTTTAGTAACTAGCACAAAA
* * *
51273712 GCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAAT
1 GCCTTCGGGACTTAACCCGGTTTTAGTAACTAGCACAAAA
*
51273752 GCCTTCGGGACTTAACCCGGTTTTAGTCACTTAGCACAAAA
1 GCCTTCGGGACTTAACCCGGTTTTAGTAAC-TAGCACAAAA
* *
51273793 GCCTTTGGGACTTAGCCCGG
1 GCCTTCGGGACTTAACCCGG
51273813 ATACCATTCG
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 62 0.70
41 26 0.30
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGTTTTAGTAACTAGCACAAAA
Found at i:51274523 original size:2 final size:2
Alignment explanation
Indices: 51274516--51274543 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
51274506 ATGTGCAAAC
51274516 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
51274544 GCTAGAGCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51277507 original size:42 final size:43
Alignment explanation
Indices: 51277412--51277507 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 43
51277402 AATGAACTCA
* * * * *
51277412 GACCACTCAACGAGCTCGGATGCTCTCATCTATAATGAACTCG
1 GACCACTCAACGAGCTCAGATGCTCACATATATAACGAACCCG
* * * *
51277455 GACCTCTCAACGAGCTCAGATTC-CACATATCTCACGAACCCG
1 GACCACTCAACGAGCTCAGATGCTCACATATATAACGAACCCG
51277497 GACCACTCAAC
1 GACCACTCAAC
51277508 AAGTTCGTAT
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
42 23 0.53
43 20 0.47
ACGTcount: A:0.29, C:0.35, G:0.16, T:0.20
Consensus pattern (43 bp):
GACCACTCAACGAGCTCAGATGCTCACATATATAACGAACCCG
Found at i:51282304 original size:23 final size:23
Alignment explanation
Indices: 51282230--51282304 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 23
51282220 AAATTGACAA
*
51282230 TAAATTACGGTTACTTAAGTGTTC
1 TAAA-TACGATTACTTAAGTGTTC
* ** *
51282254 TAAATA-GATTTAATGCA-TATT-
1 TAAATACGA-TTACTTAAGTGTTC
51282275 TATAATACGATTACTTAAGTGTTC
1 TA-AATACGATTACTTAAGTGTTC
51282299 TAAATA
1 TAAATA
51282305 GATATAAGTC
Statistics
Matches: 37, Mismatches: 9, Indels: 11
0.65 0.16 0.19
Matches are distributed among these distances:
21 2 0.05
22 13 0.35
23 16 0.43
24 6 0.16
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.41
Consensus pattern (23 bp):
TAAATACGATTACTTAAGTGTTC
Found at i:51282321 original size:45 final size:45
Alignment explanation
Indices: 51282235--51282321 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
51282225 GACAATAAAT
* * *
51282235 TACGGTTACTTAAGTGTTCTAAATAGATTTAATGCATATTTATAA
1 TACGATTACTTAAGTGTTCTAAATAGATATAATGCAAATTTATAA
51282280 TACGATTACTTAAGTGTTCTAAATAGATATAA-GTCAAATTTA
1 TACGATTACTTAAGTGTTCTAAATAGATATAATG-CAAATTTA
51282322 AGGCTGTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 1 0.03
45 37 0.97
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (45 bp):
TACGATTACTTAAGTGTTCTAAATAGATATAATGCAAATTTATAA
Found at i:51283531 original size:17 final size:17
Alignment explanation
Indices: 51283509--51283544 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
51283499 TTTTAGACAA
51283509 AATTTGATAAAAATACT
1 AATTTGATAAAAATACT
*
51283526 AATTTGATAGAAATACT
1 AATTTGATAAAAATACT
51283543 AA
1 AA
51283545 ATTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (17 bp):
AATTTGATAAAAATACT
Found at i:51284601 original size:21 final size:21
Alignment explanation
Indices: 51284577--51284616 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
51284567 ATAAACTTTT
*
51284577 CAATTCATTGTATAAAACAAA
1 CAATACATTGTATAAAACAAA
**
51284598 CAATAGGTTGTATAAAACA
1 CAATACATTGTATAAAACA
51284617 GTATACTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (21 bp):
CAATACATTGTATAAAACAAA
Found at i:51289430 original size:19 final size:19
Alignment explanation
Indices: 51289408--51289447 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
51289398 AGTTAAATTT
51289408 AATTAAAAAATAAATATTA
1 AATTAAAAAATAAATATTA
51289427 AATTAAAAAATAAATATTA
1 AATTAAAAAATAAATATTA
51289446 AA
1 AA
51289448 AACTAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTAAAAAATAAATATTA
Found at i:51292940 original size:17 final size:17
Alignment explanation
Indices: 51292910--51292943 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51292900 AATACAAAAT
51292910 CAAATATTCAAAGATTA
1 CAAATATTCAAAGATTA
* *
51292927 CAAATTTTCTAAGATTA
1 CAAATATTCAAAGATTA
51292944 GTTTTCATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (17 bp):
CAAATATTCAAAGATTA
Done.