Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001470.1 Hibiscus syriacus cultivar Beakdansim tig00002847_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1178067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:405640 original size:33 final size:32
Alignment explanation
Indices: 405603--405696 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 32
405593 TTTATTTTCG
* * * *
405603 CGTTGTGATTTTAGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTA-TTTCGCATTGCGATTCTCT
405636 CGTTGCGATTTTAATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTT-ATTTCGCATTGCGATTCTCT
*
405669 TGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTT-ATTTCGCATTGCGAT
405697 AGTCATTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 53 0.98
34 1 0.02
ACGTcount: A:0.13, C:0.17, G:0.22, T:0.48
Consensus pattern (32 bp):
CGTTGCGATTTTATTTCGCATTGCGATTCTCT
Found at i:405695 original size:19 final size:19
Alignment explanation
Indices: 405638--405696 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
405628 GATTTTGTCG
*
405638 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
405657 TTGCGATTCTC--TT-G--
1 TTGCGATTTTCATTTCGCA
405671 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
405690 TTGCGAT
1 TTGCGAT
405697 AGTCATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 10 0.31
16 3 0.09
17 3 0.09
19 16 0.50
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:405822 original size:14 final size:14
Alignment explanation
Indices: 405803--405839 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
405793 CATCAATTAA
405803 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
405817 ACAAATCATCTTTT
1 ACAAATCAACTTTT
405831 ACAAATCAA
1 ACAAATCAA
405840 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:407248 original size:42 final size:42
Alignment explanation
Indices: 407202--407298 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
407192 TTGAATGATG
* * *
407202 GGAGGGACCTCTTCAACG-ATGATAGTGGCCTCTTGAACGGTA
1 GGAGGGA-CTCTTCAACGAATGATAGGGGCCTCTTCAACGATA
* *
407244 GGAGGGGACTC-TCGAGGAATGATAGGGGCCTCTTCAACGATA
1 GGA-GGGACTCTTCAACGAATGATAGGGGCCTCTTCAACGATA
407286 GGAGTGGACTCTT
1 GGAG-GGACTCTT
407299 GAGGGATGAC
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
41 5 0.11
42 36 0.78
43 5 0.11
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.23
Consensus pattern (42 bp):
GGAGGGACTCTTCAACGAATGATAGGGGCCTCTTCAACGATA
Found at i:409302 original size:20 final size:20
Alignment explanation
Indices: 409277--409368 Score: 74
Period size: 20 Copynumber: 5.0 Consensus size: 20
409267 GGTTGAAATA
*
409277 AAAATCGAAACGAGAGAATG
1 AAAATCGCAACGAGAGAATG
*
409297 AAAATCGCAACGCG-GAAATG
1 AAAATCGCAACGAGAG-AATG
**
409317 ATTATCGCAAC--GAG-A-G
1 AAAATCGCAACGAGAGAATG
*
409333 --AATCGCAACGCGA-AATG
1 AAAATCGCAACGAGAGAATG
409350 AAAATCGCAACGAGAGAAT
1 AAAATCGCAACGAGAGAAT
409369 CGCAACGTGA
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
14 8 0.14
16 4 0.07
17 2 0.04
18 1 0.02
19 14 0.25
20 28 0.49
ACGTcount: A:0.47, C:0.17, G:0.24, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACGAGAGAATG
Found at i:409339 original size:14 final size:14
Alignment explanation
Indices: 409320--409375 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
409310 GGAAATGATT
409320 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
409334 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
409353 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
409367 ATCGCAACG
1 ATCGCAACG
409376 TGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:409357 original size:33 final size:33
Alignment explanation
Indices: 409299--409392 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
409289 AGAGAATGAA
**
409299 AATCGCAACGCGGAAATGATTATCGCAACGAGAG
1 AATCGCAACGC-GAAATGAAAATCGCAACGAGAG
409333 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
*
409366 AATCGCAACGTGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
409393 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 46 0.81
34 11 0.19
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:409417 original size:19 final size:19
Alignment explanation
Indices: 409393--409500 Score: 72
Period size: 20 Copynumber: 5.5 Consensus size: 19
409383 AAAATCGCAA
* *
409393 TGCGATTTTGGTTTCTCGT
1 TGCGATTTTCGTTTCGCGT
*
409412 TGCGATTTTCTTTTCGCGT
1 TGCGATTTTCGTTTCGCGT
* *
409431 TGCGATTTTCATTTCTCGAGT
1 TGCGATTTTC-GTT-TCGCGT
** * *
409452 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTC-GTTTCGCGT
* **
409472 TGCGATTTTCATTTTCATGT
1 TGCGATTTTC-GTTTCGCGT
409492 TGCGATTTT
1 TGCGATTTT
409501 AAGTTTAGAA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
19 26 0.34
20 34 0.44
21 17 0.22
ACGTcount: A:0.11, C:0.17, G:0.21, T:0.51
Consensus pattern (19 bp):
TGCGATTTTCGTTTCGCGT
Found at i:409475 original size:20 final size:20
Alignment explanation
Indices: 409410--409500 Score: 121
Period size: 20 Copynumber: 4.5 Consensus size: 20
409400 TTGGTTTCTC
*
409410 GTTGCGATTTTC-TTTTCGC
1 GTTGCGATTTTCATTTTCGT
*
409429 GTTGCGATTTTCATTTCTCGA
1 GTTGCGATTTTCATTT-TCGT
**
409450 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
*
409470 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCGT
409490 GTTGCGATTTT
1 GTTGCGATTTT
409501 AAGTTTAGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
19 12 0.19
20 34 0.54
21 17 0.27
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:410087 original size:20 final size:20
Alignment explanation
Indices: 410062--410233 Score: 156
Period size: 20 Copynumber: 8.5 Consensus size: 20
410052 TTTAAAAATC
*
410062 GCGTTGTGATTTACGGATAT
1 GCGTTGCGATTTACGGATAT
*
410082 GCGTTGCGATTTTACGTAT-T
1 GCGTTGCGA-TTTACGGATAT
*
410102 GTCGTTGCGATTTACGGATAC
1 G-CGTTGCGATTTACGGATAT
* *
410123 GCATTGCGATTTACGTAT-T
1 GCGTTGCGATTTACGGATAT
* * *
410142 CTCGTTGCGATTTACAGATAC
1 -GCGTTGCGATTTACGGATAT
410163 GCGTTGCGATTTAC--ATATT
1 GCGTTGCGATTTACGGATA-T
* *
410182 CTCGTTGCGATTTACGGATAC
1 -GCGTTGCGATTTACGGATAT
410203 GCGTTGCGATTTTACGGATACT
1 GCGTTGCGA-TTTACGGATA-T
410225 -CGTTGCGAT
1 GCGTTGCGAT
410234 AGTCAGAATC
Statistics
Matches: 123, Mismatches: 18, Indels: 22
0.75 0.11 0.13
Matches are distributed among these distances:
18 3 0.02
20 82 0.67
21 35 0.28
22 3 0.02
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GCGTTGCGATTTACGGATAT
Found at i:410147 original size:40 final size:41
Alignment explanation
Indices: 410063--410233 Score: 256
Period size: 40 Copynumber: 4.2 Consensus size: 41
410053 TTAAAAATCG
* * *
410063 CGTTGTGATTTACGGATATGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
410104 CGTTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
410144 CGTTGCGATTTACAGATACGCGTTGCGA-TTTACATATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
410184 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
410225 CGTTGCGAT
1 CGTTGCGAT
410234 AGTCAGAATC
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 75 0.64
41 43 0.36
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:410373 original size:20 final size:19
Alignment explanation
Indices: 410324--410377 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
410314 ATTCTTCATA
410324 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
410343 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
410364 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
410378 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:418649 original size:24 final size:26
Alignment explanation
Indices: 418607--418665 Score: 95
Period size: 24 Copynumber: 2.3 Consensus size: 26
418597 AAACAGTATG
418607 AAATTATTACAAAATAATATATATTTA
1 AAATTATTAC-AAATAATATATATTTA
418634 AAATTATTAC-AA-AATATATATTTA
1 AAATTATTACAAATAATATATATTTA
418658 AAATTATT
1 AAATTATT
418666 TTTAGTCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 20 0.62
25 2 0.06
27 10 0.31
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.42
Consensus pattern (26 bp):
AAATTATTACAAATAATATATATTTA
Found at i:421312 original size:18 final size:18
Alignment explanation
Indices: 421289--421323 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
421279 AGATCGTGAC
*
421289 CGTGATCGTGATAGGGAA
1 CGTGATCGGGATAGGGAA
421307 CGTGATCGGGATAGGGA
1 CGTGATCGGGATAGGGA
421324 TAGATATAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.43, T:0.20
Consensus pattern (18 bp):
CGTGATCGGGATAGGGAA
Found at i:422254 original size:15 final size:15
Alignment explanation
Indices: 422234--422270 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
422224 TGACACCTTA
*
422234 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
422249 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
422264 CCCGCCC
1 CCCGCCC
422271 AGTTAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.08, C:0.70, G:0.16, T:0.05
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:432390 original size:18 final size:18
Alignment explanation
Indices: 432368--432405 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
432358 AAAAAAGGAG
*
432368 GAAAAATGA-AAGAAAAT
1 GAAAAATGAGAAAAAAAT
432385 GAAAAATGAGAAAAAAAT
1 GAAAAATGAGAAAAAAAT
432403 GAA
1 GAA
432406 TGAAAAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.11
Consensus pattern (18 bp):
GAAAAATGAGAAAAAAAT
Found at i:432475 original size:14 final size:14
Alignment explanation
Indices: 432436--432475 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
432426 AGAAAATGAA
432436 AGAAAAATG-AAAG
1 AGAAAAATGAAAAG
**
432449 AGAAAAACAAAAAG
1 AGAAAAATGAAAAG
432463 AGAAAAATGAAAA
1 AGAAAAATGAAAA
432476 AAAGAGAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (14 bp):
AGAAAAATGAAAAG
Found at i:432475 original size:15 final size:15
Alignment explanation
Indices: 432436--432489 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 15
432426 AGAAAATGAA
432436 AGAAAAATG--AAAG
1 AGAAAAATGAAAAAG
*
432449 AGAAAAA-CAAAAAG
1 AGAAAAATGAAAAAG
*
432463 AGAAAAATGAAAAAA
1 AGAAAAATGAAAAAG
*
432478 AGAGAAAT-AAAA
1 AGAAAAATGAAAA
432490 GGAGGGTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
13 7 0.21
14 15 0.44
15 12 0.35
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.06
Consensus pattern (15 bp):
AGAAAAATGAAAAAG
Found at i:434260 original size:55 final size:55
Alignment explanation
Indices: 433812--434250 Score: 577
Period size: 55 Copynumber: 8.0 Consensus size: 55
433802 TTTATGAAGA
* * *
433812 TCGAG-TCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
1 TCGAGTTC-TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* *
433867 TCGATTTCTATGCTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
433922 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* *
433977 TCGAGTTCTATACTCTCTGAAGGAATAAAGAGCGGACTCGTTT-TATGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGT-TGAAGATTGT
* *
434032 TCAAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGGTTGTTGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
434087 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTT-TTAGGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTT--GAAGATTGT
* * * * ** *
434143 TCGAG-TCTTATACTCCCTGAACGAATAGGGAGCAGATACGTTTGTTGAAGATTTT
1 TCGAGTTC-TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* * * *
434198 TCGAG-TCTTATACTC-CTTAAAAGAATAGGGAGCAGACCCGTTAT-TTGAAGATT
1 TCGAGTTC-TATACTCTC-TGAAGGAATAGAGAGCGGACCCGTT-TGTTGAAGATT
434251 TTTCAAGTCT
Statistics
Matches: 349, Mismatches: 26, Indels: 18
0.89 0.07 0.05
Matches are distributed among these distances:
54 4 0.01
55 296 0.85
56 47 0.13
57 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (55 bp):
TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
Found at i:440970 original size:17 final size:16
Alignment explanation
Indices: 440931--440970 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
440921 ATCTGTAGAA
*
440931 AAAATTTAATAACATT
1 AAAATTTAATAACAAT
440947 AATAATTTAATAACACAT
1 AA-AATTTAATAACA-AT
440965 AAAATT
1 AAAATT
440971 GTTGCTGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 16 0.76
18 3 0.14
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATTTAATAACAAT
Found at i:441124 original size:32 final size:32
Alignment explanation
Indices: 441083--441175 Score: 114
Period size: 37 Copynumber: 2.8 Consensus size: 32
441073 ATTATTATCC
*
441083 ACTAAGTAACAAATTCAATTTAAAAATAATCT
1 ACTAAGTAACAAATTTAATTTAAAAATAATCT
*
441115 ACTAAGTAACTAATTTAATTTAATCTAAAAATAATCT
1 ACTAAGTAAC--A---AATTTAATTTAAAAATAATCT
*
441152 ACTAAGTAACTAATTTAATTTAAA
1 ACTAAGTAACAAATTTAATTTAAA
441176 CAAGTAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
32 22 0.42
34 1 0.02
37 29 0.56
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.35
Consensus pattern (32 bp):
ACTAAGTAACAAATTTAATTTAAAAATAATCT
Found at i:441144 original size:37 final size:37
Alignment explanation
Indices: 441094--441174 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
441084 CTAAGTAACA
* *
441094 AATTCAATTTAAAAATAATCTACTAAGTAACTAATTT
1 AATTTAATCTAAAAATAATCTACTAAGTAACTAATTT
441131 AATTTAATCTAAAAATAATCTACTAAGTAACTAATTT
1 AATTTAATCTAAAAATAATCTACTAAGTAACTAATTT
441168 AATTTAA
1 AATTTAA
441175 ACAAGTAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.38
Consensus pattern (37 bp):
AATTTAATCTAAAAATAATCTACTAAGTAACTAATTT
Found at i:441507 original size:16 final size:16
Alignment explanation
Indices: 441474--441532 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 16
441464 TTAACTTTCG
441474 TCTCTTCTTATTCTTTCTT
1 TCTCTT-TT-TTC-TTCTT
441493 TCTCTTTTTTCTTCTT
1 TCTCTTTTTTCTTCTT
441509 TCTTCCTCTTTTCTCTTCTT
1 TC-T-CT-TTTT-TCTTCTT
441529 TCTC
1 TCTC
441533 CCCTTCTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.19
17 4 0.11
18 5 0.14
19 11 0.31
20 9 0.25
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.68
Consensus pattern (16 bp):
TCTCTTTTTTCTTCTT
Found at i:441509 original size:20 final size:20
Alignment explanation
Indices: 441484--441531 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
441474 TCTCTTCTTA
* *
441484 TTCTTTCTTTCTCTTTTTTC
1 TTCTTTCTTCCTCTTTTCTC
441504 TTCTTTCTTCCTCTTTTCTC
1 TTCTTTCTTCCTCTTTTCTC
441524 TTCTTTCT
1 TTCTTTCT
441532 CCCCTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (20 bp):
TTCTTTCTTCCTCTTTTCTC
Found at i:448001 original size:22 final size:22
Alignment explanation
Indices: 447945--448001 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
447935 AACGAAGTAG
447945 AATCATTATTAGTTAAACAACAA
1 AATCATTATTA-TTAAACAACAA
* * **
447968 AATCA-GATTTATTATATTACAA
1 AATCATTA-TTATTAAACAACAA
447990 AATCATTATTAT
1 AATCATTATTAT
448002 GCAAACTCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.39
Consensus pattern (22 bp):
AATCATTATTATTAAACAACAA
Found at i:451291 original size:23 final size:23
Alignment explanation
Indices: 451263--451308 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
451253 GTTTATGAAC
*
451263 TGTTCACT-ACATAGTCGTTTAAA
1 TGTTCA-TAACATACTCGTTTAAA
451286 TGTTCATAAACATACTCGTTTAA
1 TGTTCAT-AACATACTCGTTTAA
451309 CATTTGTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 6 0.30
24 13 0.65
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (23 bp):
TGTTCATAACATACTCGTTTAAA
Found at i:451362 original size:19 final size:19
Alignment explanation
Indices: 451334--451370 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
451324 TTCATTTATA
*
451334 TTCGCGAACATGTTCATTG
1 TTCGCAAACATGTTCATTG
*
451353 TTCGCAAACATTTTCATT
1 TTCGCAAACATGTTCATT
451371 TGCATACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (19 bp):
TTCGCAAACATGTTCATTG
Found at i:453160 original size:17 final size:17
Alignment explanation
Indices: 453140--453184 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
453130 TTTCAAAATT
*
453140 TTCAAATTGAAACTCTA
1 TTCAAATTGAAACTCGA
*
453157 TTCAAACTTGAAATTCGA
1 TTCAAA-TTGAAACTCGA
*
453175 ATCAAATTGA
1 TTCAAATTGA
453185 GTTTTGCTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (17 bp):
TTCAAATTGAAACTCGA
Found at i:462348 original size:26 final size:28
Alignment explanation
Indices: 462319--462382 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 28
462309 AAATTTAGGG
462319 TGTGTTTGATAACAGG-AAA-ATGTTCC
1 TGTGTTTGATAACAGGAAAATATGTTCC
* *** *
462345 TGTGTTCGATAGTTGGAAAATATTTTCC
1 TGTGTTTGATAACAGGAAAATATGTTCC
462373 TGTGTTTGAT
1 TGTGTTTGAT
462383 GGTTGTAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 12 0.40
27 3 0.10
28 15 0.50
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.42
Consensus pattern (28 bp):
TGTGTTTGATAACAGGAAAATATGTTCC
Found at i:462409 original size:18 final size:18
Alignment explanation
Indices: 462386--462422 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
462376 GTTTGATGGT
462386 TGTAATTGGCTCTCCTAA
1 TGTAATTGGCTCTCCTAA
* *
462404 TGTAATTGGTTTTCCTAA
1 TGTAATTGGCTCTCCTAA
462422 T
1 T
462423 TCCTTTGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (18 bp):
TGTAATTGGCTCTCCTAA
Found at i:462785 original size:19 final size:19
Alignment explanation
Indices: 462747--462792 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
462737 TAATAATGAA
*
462747 TAATATTAATTTATATATT
1 TAATATTAATTAATATATT
462766 TAATATTAATATAATA-ATT
1 TAATATTAAT-TAATATATT
*
462785 TAGTATTA
1 TAATATTA
462793 TGTTAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATATTAATTAATATATT
Found at i:462799 original size:30 final size:27
Alignment explanation
Indices: 462753--462814 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 27
462743 TGAATAATAT
*
462753 TAATTTATATATTTAATATTAATA-TAA
1 TAATTTATATATTTAATA-AAATATTAA
462780 TAATTTAGTATTATGTTAATAAAATATTAA
1 TAATTTA-TA-TAT-TTAATAAAATATTAA
462810 TAATT
1 TAATT
462815 AAAATTAGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 7 0.23
28 2 0.07
29 7 0.23
30 14 0.47
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (27 bp):
TAATTTATATATTTAATAAAATATTAA
Found at i:462810 original size:27 final size:25
Alignment explanation
Indices: 462748--462810 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
462738 AATAATGAAT
462748 AATATTAATTTATATATTTAATATTA
1 AATATTAATTTATATATTTAATA-TA
*
462774 ATATAATAATTTAGTATTATGTTAATA-A
1 A-ATATTAATTTA-TA-TAT-TTAATATA
462802 AATATTAAT
1 AATATTAAT
462811 AATTAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
26 1 0.03
27 17 0.55
28 4 0.13
29 3 0.10
30 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
AATATTAATTTATATATTTAATATA
Found at i:463141 original size:30 final size:30
Alignment explanation
Indices: 463077--463176 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 30
463067 TCCAGAAAAT
* *
463077 GTAATTTA-TTTACGTAAAATAGTTTT-AG
1 GTAATTCATTTTACGTAAAACAGTTTTCAG
*
463105 GTAATTCATTTTACGTAAAACAGTTTTCAT
1 GTAATTCATTTTACGTAAAACAGTTTTCAG
* *
463135 GTAATTCGTTTTACATAAAACAGTTTTCAG
1 GTAATTCATTTTACGTAAAACAGTTTTCAG
*
463165 GTAATCCATTTT
1 GTAATTCATTTT
463177 CTGTAAATTA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
28 7 0.11
29 17 0.27
30 38 0.61
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (30 bp):
GTAATTCATTTTACGTAAAACAGTTTTCAG
Found at i:466858 original size:33 final size:33
Alignment explanation
Indices: 466816--466939 Score: 140
Period size: 33 Copynumber: 3.8 Consensus size: 33
466806 TGGAGGAGCA
*
466816 CCACGCATAGGAGGTGGGGGCGGTGCAGGCGTT
1 CCACGCATAGGAGGTGGGGGCGGTGCAGGCGCT
* ** *
466849 CCACGCATAGGAGGTGGAGGCGGTGTTGGCACT
1 CCACGCATAGGAGGTGGGGGCGGTGCAGGCGCT
* * *
466882 CCACGCATGGGAGGTGGGGGTGGTGCAAGCGCT
1 CCACGCATAGGAGGTGGGGGCGGTGCAGGCGCT
** * *
466915 CCTTGCACAGGAGGTGGGGGTGGTG
1 CCACGCATAGGAGGTGGGGGCGGTG
466940 GTGCTCGATG
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.15, C:0.20, G:0.48, T:0.17
Consensus pattern (33 bp):
CCACGCATAGGAGGTGGGGGCGGTGCAGGCGCT
Found at i:467183 original size:30 final size:30
Alignment explanation
Indices: 467149--467207 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
467139 TGGAGATGGT
* *
467149 GGAGGTATGACACCAGACATCAATGTGGGA
1 GGAGGTAGGACACCAAACATCAATGTGGGA
* *
467179 GGAGGTGGGGCACCAAACATCAATGTGGG
1 GGAGGTAGGACACCAAACATCAATGTGGG
467208 TGGTGGAGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.37, T:0.15
Consensus pattern (30 bp):
GGAGGTAGGACACCAAACATCAATGTGGGA
Found at i:467233 original size:72 final size:72
Alignment explanation
Indices: 467107--467245 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 72
467097 GGTAAGAGTT
* * *
467107 GGAGGAGGGGCACCAGACATCAATGTGGGTGGTGGAGATGGTGGAGGTATGACACCAGACATCAA
1 GGAGGAGGGGCACCAAACATCAATGTGGGTGGTGGAGATGGAGAAGGTATGACACCAGACATCAA
467172 TGTGGGA
66 TGTGGGA
* * * *
467179 GGAGGTGGGGCACCAAACATCAATGTGGGTGGTGGAGGTGGAGAAGGTGA-GACACTAGACTTCA
1 GGAGGAGGGGCACCAAACATCAATGTGGGTGGTGGAGATGGAGAAGGT-ATGACACCAGACATCA
467243 ATG
65 ATG
467246 GAGGTGGTGG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
72 58 0.98
73 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.41, T:0.17
Consensus pattern (72 bp):
GGAGGAGGGGCACCAAACATCAATGTGGGTGGTGGAGATGGAGAAGGTATGACACCAGACATCAA
TGTGGGA
Found at i:471919 original size:60 final size:60
Alignment explanation
Indices: 471797--471919 Score: 149
Period size: 60 Copynumber: 2.0 Consensus size: 60
471787 AACATATTAA
* * * * *
471797 ATAGTCGAGTGACAATTTTGTAACTTTTGATAGTCGAATGACTCAACAAAGTAACACTCT
1 ATAGTCAAGAGACAATTTTGTAACTTTTAATAGTCGAATGACTCAACAAAATAACACCCT
* * * *
471857 ATAGTCAAGAGACCATTTTGTAACTTTTAATAGTTGAGA-GACTTAACAAAATAATACCCT
1 ATAGTCAAGAGACAATTTTGTAACTTTTAATAGTCGA-ATGACTCAACAAAATAACACCCT
471917 ATA
1 ATA
471920 TTTAGGAGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 52 0.98
61 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (60 bp):
ATAGTCAAGAGACAATTTTGTAACTTTTAATAGTCGAATGACTCAACAAAATAACACCCT
Found at i:472287 original size:23 final size:23
Alignment explanation
Indices: 472261--472305 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
472251 TATTAGACTT
*
472261 AACTCGATT-AAAGCTCAAACTCG
1 AACTCAATTCAAA-CTCAAACTCG
472284 AACTCAATTCAAACTCAAACTC
1 AACTCAATTCAAACTCAAACTC
472306 TGATTTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.42, C:0.29, G:0.07, T:0.22
Consensus pattern (23 bp):
AACTCAATTCAAACTCAAACTCG
Found at i:477102 original size:26 final size:26
Alignment explanation
Indices: 477073--477124 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
477063 TTGCTCCATA
*
477073 CAGTAGGCACACTAATTATTTAATCT
1 CAGTAGGCACACTAACTATTTAATCT
477099 CAGTAGGCACACTAACTATTTAATCT
1 CAGTAGGCACACTAACTATTTAATCT
477125 AATACAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (26 bp):
CAGTAGGCACACTAACTATTTAATCT
Found at i:477833 original size:4 final size:4
Alignment explanation
Indices: 477826--477877 Score: 95
Period size: 4 Copynumber: 13.0 Consensus size: 4
477816 ATGTGTGTGT
*
477826 GTGC GTGC GTGC GTGC GTGA GTGC GTGC GTGC GTGC GTGC GTGC GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
477874 GTGC
1 GTGC
477878 CAACTCAACC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.02, C:0.23, G:0.50, T:0.25
Consensus pattern (4 bp):
GTGC
Found at i:478326 original size:8 final size:8
Alignment explanation
Indices: 478313--478395 Score: 121
Period size: 8 Copynumber: 9.9 Consensus size: 8
478303 CATCCCTATA
478313 TGTATGTG
1 TGTATGTG
478321 TGTATGTG
1 TGTATGTG
478329 TGTATGTG
1 TGTATGTG
478337 TGTATGTATATG
1 TGTATG----TG
478349 TGTATGTG
1 TGTATGTG
478357 TGTATGTG
1 TGTATGTG
478365 TGTATGTG
1 TGTATGTG
478373 TGTATGTG
1 TGTATGTG
*
478381 TGTATGTA
1 TGTATGTG
478389 TGTATGT
1 TGTATGT
478396 ATAGCTTAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
8 62 0.89
12 8 0.11
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.51
Consensus pattern (8 bp):
TGTATGTG
Found at i:478351 original size:28 final size:28
Alignment explanation
Indices: 478311--478398 Score: 130
Period size: 28 Copynumber: 3.3 Consensus size: 28
478301 GCCATCCCTA
*
478311 TATGTATGTGTGTATGTGTGTATGTGTG
1 TATGTATATGTGTATGTGTGTATGTGTG
478339 TATGTATATGTGTATGTGTGTATGTGTG
1 TATGTATATGTGTATGTGTGTATGTGTG
*
478367 TATG----TGTGTATGTGTGTATGTATG
1 TATGTATATGTGTATGTGTGTATGTGTG
478391 TATGTATA
1 TATGTATA
478399 GCTTAAAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
24 23 0.43
28 31 0.57
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (28 bp):
TATGTATATGTGTATGTGTGTATGTGTG
Found at i:478355 original size:36 final size:36
Alignment explanation
Indices: 478309--478397 Score: 142
Period size: 36 Copynumber: 2.5 Consensus size: 36
478299 TTGCCATCCC
478309 TATATGTATGTGTGTATGTGTGTATGTGTGTATGTA
1 TATATGTATGTGTGTATGTGTGTATGTGTGTATGTA
* *
478345 TATGTGTATGTGTGTATGTGTGTATGTGTGTATGTG
1 TATATGTATGTGTGTATGTGTGTATGTGTGTATGTA
* *
478381 TGTATGTATGTATGTAT
1 TATATGTATGTGTGTAT
478398 AGCTTAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (36 bp):
TATATGTATGTGTGTATGTGTGTATGTGTGTATGTA
Found at i:481805 original size:16 final size:16
Alignment explanation
Indices: 481786--481816 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
481776 TTTATTAGTG
481786 TTTTATAAATTATTAA
1 TTTTATAAATTATTAA
*
481802 TTTTCTAAATTATTA
1 TTTTATAAATTATTA
481817 TTATTTTGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTATAAATTATTAA
Found at i:484296 original size:3 final size:3
Alignment explanation
Indices: 484288--484321 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
484278 AAATTGTATA
484288 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
484322 CAATTGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:489219 original size:38 final size:38
Alignment explanation
Indices: 489177--489301 Score: 187
Period size: 38 Copynumber: 3.3 Consensus size: 38
489167 TTTTGCATCT
* * *
489177 CTGAATGATTCAGTGCTTACTGATTCAACAAAACAATG
1 CTGAATGATTCAGTGCTGACTGATTCAGCAAAACAGTG
489215 CTGAATGATTCAGTGCTGACTGATTCAGCAAAACAGTG
1 CTGAATGATTCAGTGCTGACTGATTCAGCAAAACAGTG
* * *
489253 CTGACTGATTCAATGCTGACTGATTCAGCAAAGCAGTG
1 CTGAATGATTCAGTGCTGACTGATTCAGCAAAACAGTG
*
489291 CTGGATGATTC
1 CTGAATGATTC
489302 GACACAAAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 79 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (38 bp):
CTGAATGATTCAGTGCTGACTGATTCAGCAAAACAGTG
Found at i:489233 original size:15 final size:15
Alignment explanation
Indices: 489213--489242 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
489203 AACAAAACAA
489213 TGCTGAATGATTCAG
1 TGCTGAATGATTCAG
*
489228 TGCTGACTGATTCAG
1 TGCTGAATGATTCAG
489243 CAAAACAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (15 bp):
TGCTGAATGATTCAG
Found at i:489271 original size:15 final size:15
Alignment explanation
Indices: 489251--489279 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
489241 AGCAAAACAG
489251 TGCTGACTGATTCAA
1 TGCTGACTGATTCAA
489266 TGCTGACTGATTCA
1 TGCTGACTGATTCA
489280 GCAAAGCAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (15 bp):
TGCTGACTGATTCAA
Found at i:496581 original size:38 final size:38
Alignment explanation
Indices: 496530--496629 Score: 191
Period size: 38 Copynumber: 2.6 Consensus size: 38
496520 AGAGAATTCT
496530 GTTAAAGACTGATATTAGAGGTCTAGGTTATGAACTTA
1 GTTAAAGACTGATATTAGAGGTCTAGGTTATGAACTTA
496568 GTTAAAGACTGATATTAGAGGTCTAGGTTATGAACTTA
1 GTTAAAGACTGATATTAGAGGTCTAGGTTATGAACTTA
*
496606 GTTAAAGACTGGTATTAGAGGTCT
1 GTTAAAGACTGATATTAGAGGTCT
496630 TGATTTTGAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (38 bp):
GTTAAAGACTGATATTAGAGGTCTAGGTTATGAACTTA
Found at i:504672 original size:28 final size:26
Alignment explanation
Indices: 504640--504694 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
504630 TGAAAATATT
*
504640 TAAAATTAATTACTAAATTATAATCTAA
1 TAAAATTAAATACTAAATT-TAAT-TAA
*
504668 TAAAATTAAATACTTAATTTAATTAA
1 TAAAATTAAATACTAAATTTAATTAA
504694 T
1 T
504695 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 4 0.16
28 17 0.68
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAAATTAAATACTAAATTTAATTAA
Found at i:505219 original size:20 final size:20
Alignment explanation
Indices: 505175--505220 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
505165 GCTGACCACC
*
505175 GGCCGGCAACCATGATCCGT
1 GGCCGGCAACCATGAACCGT
* * *
505195 CGCCGGCCACCATGAACGGT
1 GGCCGGCAACCATGAACCGT
505215 GGCCGG
1 GGCCGG
505221 AATTTACAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.37, G:0.35, T:0.11
Consensus pattern (20 bp):
GGCCGGCAACCATGAACCGT
Found at i:506004 original size:3 final size:3
Alignment explanation
Indices: 505994--506050 Score: 84
Period size: 3 Copynumber: 20.0 Consensus size: 3
505984 ATTTATTATT
*
505994 TAA T-A TAA TAA T-A TCA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
506040 T-A TAA TAA TAA
1 TAA TAA TAA TAA
506051 ATGAGAGAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
2 6 0.12
3 44 0.88
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:506454 original size:124 final size:124
Alignment explanation
Indices: 506241--507307 Score: 1672
Period size: 124 Copynumber: 8.8 Consensus size: 124
506231 ATAATTTCTT
* * * * * *
506241 CTTCTGTGAT-GTATT-TGGAAAAGGTTGAACAAGTTCTTCTCATTATAAAATTCTTCTTCCTTC
1 CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTC
* * * *
506304 TTCAGATGAGTTCTTCTTATTATGAACTTTC-CTTGGAAAAGTTGATGTTGACCTATTTC
66 TTCAGATGAGTTCTTCTCATTATGAACTTTCTC-TGGAAAAGTTGATGCTGATCTATCTC
* * * * * *
506363 CTTCTGTGATAGAGTCATTCAAAAGGTTGAATAAACTCTTCTCATTATGAACTTCTTCTTCCTTC
1 CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTC
*
506428 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATTGATGCTGATCTATCTC
66 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTC
506487 CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC-TTTTCTT-C--C
1 CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTC
*
506548 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGATGATCTATCTC
66 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTC
506607 CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTC
1 CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTC
*
506672 TCCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTC
66 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTC
506731 CTTCTGTGATAGAATTATGCAAAA-GTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTC
1 CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTC
506795 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTC
66 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTC
*
506854 CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTCC
1 CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTC
*
506919 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATTGATGCTGATCTATCTC
66 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTC
*
506978 CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTCC
1 CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTC
507043 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTC
66 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTC
*
507102 CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTCC
1 CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTC
*
507167 TTCAAATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGAT-C----C-A----
66 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTC
**** * * * *
507216 -TAGAATGAT-TAATTCAAGCGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
1 CTTCTGTGATAGAATT-ATGC-AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCT
507278 TCTTCAGATGAGTTCTTCTCATTATGAACT
64 TCTTCAGATGAGTTCTTCTCATTATGAACT
507308 CGACCTGGTA
Statistics
Matches: 895, Mismatches: 40, Indels: 29
0.93 0.04 0.03
Matches are distributed among these distances:
112 4 0.00
113 72 0.08
114 4 0.00
118 1 0.00
119 1 0.00
120 110 0.12
121 7 0.01
122 12 0.01
123 131 0.15
124 552 0.62
125 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (124 bp):
CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTC
TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTC
Found at i:507326 original size:113 final size:114
Alignment explanation
Indices: 507122--507337 Score: 319
Period size: 113 Copynumber: 1.9 Consensus size: 114
507112 AGAATTATGC
*
507122 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTCCTTCAAATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAAATGAGTTCTTCTCAT
** *
507187 TATGAACTTTCTCTGGAAAAGTTGATCCATAGAATGATTAATTCAAGCG
66 TATGAACTGACTCTGGAAAAGCTGATCCATAGAATGATTAATTCAAGCG
* * *
507236 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAAATGAGTTCTTCTCAT
* * *
507300 TATGAACTCGAC-CTGGTAATGCTGATCCATTGAATGAT
66 TATGAACT-GACTCTGGAAAAGCTGATCCATAGAATGAT
507338 GGATTTGAAC
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
113 86 0.95
114 5 0.05
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (114 bp):
AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAAATGAGTTCTTCTCAT
TATGAACTGACTCTGGAAAAGCTGATCCATAGAATGATTAATTCAAGCG
Found at i:507787 original size:22 final size:22
Alignment explanation
Indices: 507740--507794 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
507730 CGATAAAGCT
* *
507740 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTAAAAAGAGAATCTA
* *
507762 TCATCTTTAAAAAGGGAATTTA
1 TCATCTTTAAAAAGAGAATCTA
*
507784 TCATTTTTAAA
1 TCATCTTTAAA
507795 GAGTAGATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:510264 original size:114 final size:115
Alignment explanation
Indices: 510097--510326 Score: 394
Period size: 115 Copynumber: 2.0 Consensus size: 115
510087 GATCATGCAG
* * *
510097 TTCATCTTTTAATTCCAATGATTGGTTCTGTGGTTCCTACCGAACCAGATCAGATAACTC-AAGA
1 TTCATCTTTAAATTCCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGA
510161 ACACTTCCAGAAGATGCTATTGGGTCTTCTTA-TTTCTACTATGATCACA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTTCTACTATGATCACA
510210 TTCATCTTTCAAATT-CAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAA
1 TTCATCTTT-AAATTCCAATGATTGGTTCTGTGG-TTCATACCAAACCAGATCAGATAACTCAAA
510274 GAACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTTCTACTATGATCACA
64 GAACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTTCTACTATGATCACA
510326 T
1 T
510327 GAAACTTGCT
Statistics
Matches: 110, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
113 27 0.25
114 29 0.26
115 36 0.33
116 18 0.16
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (115 bp):
TTCATCTTTAAATTCCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTTCTACTATGATCACA
Found at i:511053 original size:28 final size:26
Alignment explanation
Indices: 511021--511075 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
511011 TGAAAATATT
*
511021 TAAAATTAATTACTAAATTATAATCTAA
1 TAAAATTAAATACTAAATT-TAAT-TAA
*
511049 TAAAATTAAATACTTAATTTAATTAA
1 TAAAATTAAATACTAAATTTAATTAA
511075 T
1 T
511076 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 4 0.16
28 17 0.68
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAAATTAAATACTAAATTTAATTAA
Found at i:512385 original size:3 final size:3
Alignment explanation
Indices: 512379--512442 Score: 119
Period size: 3 Copynumber: 21.0 Consensus size: 3
512369 ATTTATTATT
512379 TAA TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
512425 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
512443 AATGAGAGAA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 57 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:515624 original size:20 final size:21
Alignment explanation
Indices: 515592--515630 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
515582 AAGTATTTTG
515592 ACAAGAGGTTTCGAAACTTCT
1 ACAAGAGGTTTCGAAACTTCT
515613 ACAAGA-GTTTCGAAACTT
1 ACAAGAGGTTTCGAAACTT
515631 TCCAAGACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (21 bp):
ACAAGAGGTTTCGAAACTTCT
Found at i:520480 original size:16 final size:16
Alignment explanation
Indices: 520441--520482 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
520431 ATATAATTTT
520441 TATAATTTAATTTAAA
1 TATAATTTAATTTAAA
*
520457 TATTATTTAA-TTAAA
1 TATAATTTAATTTAAA
520472 TAATAATTTAA
1 T-ATAATTTAA
520483 AATTTAAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATAATTTAATTTAAA
Found at i:522388 original size:3 final size:3
Alignment explanation
Indices: 522380--522405 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
522370 TCCCCCAGAA
522380 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
522406 CATAATATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:525960 original size:23 final size:24
Alignment explanation
Indices: 525934--525978 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
525924 CAGCATTATG
525934 ATCAAGGAT-ATC-AGATTTCACAT
1 ATCAA-GATGATCAAGATTTCACAT
*
525957 ATCAATATGATCAAGATTTCAC
1 ATCAAGATGATCAAGATTTCAC
525979 CATAATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 8 0.42
24 9 0.47
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (24 bp):
ATCAAGATGATCAAGATTTCACAT
Found at i:538385 original size:15 final size:15
Alignment explanation
Indices: 538365--538394 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
538355 GATTAGTATA
538365 TTTCCTAACTTAGAG
1 TTTCCTAACTTAGAG
*
538380 TTTCCTAATTTAGAG
1 TTTCCTAACTTAGAG
538395 ATATAATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (15 bp):
TTTCCTAACTTAGAG
Found at i:538931 original size:60 final size:60
Alignment explanation
Indices: 538818--538931 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
538808 TCAGGTAACT
*
538818 ATTTTGTAACTTTTAATAGTCAAGGGACTTAACAAAGCAACATTCCATAGTCAGATGATC
1 ATTTTGTAACTTTTAATAGTCAAGGGACTTAACAAAGCAACAATCCATAGTCAGATGATC
** * * * *
538878 ATTTTGTAACTTTTAATAGTTGAGGGACTTAATAAAGCAATAATCTATTGTCAG
1 ATTTTGTAACTTTTAATAGTCAAGGGACTTAACAAAGCAACAATCCATAGTCAG
538932 GGGACTATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (60 bp):
ATTTTGTAACTTTTAATAGTCAAGGGACTTAACAAAGCAACAATCCATAGTCAGATGATC
Found at i:539776 original size:17 final size:18
Alignment explanation
Indices: 539736--539776 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
539726 TTTTTATTCA
539736 ATAAAAATAAAAATTTAAT
1 ATAAAAATAAAAA-TTAAT
539755 -T-AAAATAAAAA-TAAT
1 ATAAAAATAAAAATTAAT
539770 ATAAAAA
1 ATAAAAA
539777 AATATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
15 4 0.20
16 1 0.05
17 14 0.70
18 1 0.05
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
ATAAAAATAAAAATTAAT
Found at i:541568 original size:21 final size:20
Alignment explanation
Indices: 541544--541591 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
541534 TAAAAATATT
* *
541544 TATTTTAGATAATGAAATTAA
1 TATTTTAGATAA-AAAAATAA
*
541565 TATTTTTGATAAAAAAATAA
1 TATTTTAGATAAAAAAATAA
541585 TATTTTA
1 TATTTTA
541592 AATATCATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (20 bp):
TATTTTAGATAAAAAAATAA
Found at i:543255 original size:3 final size:3
Alignment explanation
Indices: 543247--543272 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
543237 TCCAATTAAT
543247 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
543273 GGATCGTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:551890 original size:24 final size:23
Alignment explanation
Indices: 551858--551905 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 23
551848 TCCTCCAACT
551858 TCTTTTTCCTATTCC-TCTCCTCC
1 TCTTTTTCCT-TTCCATCTCCTCC
551881 TCTTTCTTCCTTTCCATCTCCTCC
1 TCTTT-TTCCTTTCCATCTCCTCC
551905 T
1 T
551906 TCCTCTTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.04, C:0.44, G:0.00, T:0.52
Consensus pattern (23 bp):
TCTTTTTCCTTTCCATCTCCTCC
Found at i:551912 original size:24 final size:24
Alignment explanation
Indices: 551863--551913 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
551853 CAACTTCTTT
*
551863 TTCCTATTCCTCTCCTCCTCTTTC
1 TTCCTATTCCTCTCCTCCTCTCTC
551887 TTCCT-TTCCATCTCCTCCT-TCCTC
1 TTCCTATTCC-TCTCCTCCTCT-CTC
551911 TTC
1 TTC
551914 ACACCCATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.04, C:0.47, G:0.00, T:0.49
Consensus pattern (24 bp):
TTCCTATTCCTCTCCTCCTCTCTC
Found at i:554715 original size:3 final size:3
Alignment explanation
Indices: 554707--554810 Score: 145
Period size: 3 Copynumber: 34.7 Consensus size: 3
554697 TTAATATATT
* * *
554707 TAA TAA TAA AAA TAG TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
554755 TAT TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
554803 TGA TAA TA
1 TAA TAA TA
554811 TGGATAAAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 87 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:555421 original size:114 final size:114
Alignment explanation
Indices: 555057--556187 Score: 1903
Period size: 114 Copynumber: 9.9 Consensus size: 114
555047 GCTCTTGATG
* *
555057 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTT-CT
* *** *
555121 CTGGTAATGTTGATCCATCAA-ATGATGAATTCAAGCAAAAGGTTGAACA
65 CTGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
* *
555170 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTGTGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CT
*
555235 TCCTCTGGAAACGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
62 T-CTCTGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
*
555289 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
*
555354 TGGAAACAATGATCCATCAATTTGATGAATTCAAGAAAAAGGTTGAACA
66 TGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
555403 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
555468 TGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
66 TGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
555517 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
*
555582 TGGAAAAGAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
66 TGG-AAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
555632 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
555697 TGGAAA-AGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
66 TGGAAACA-ATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
555746 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
555811 TGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
66 TGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
555860 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
* * * *
555925 TGGAAAAGAATGATCCATCAA-GTGATGAATTTAAACAAAAGGTTGAACA
66 TGG-AAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
555974 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
* *** *
556039 TGGCAATGTTGATCCATCAA-ATGATGAATTCAAGCAAAAGGTTGAACA
66 TGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
*
556087 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
* *
556152 TGGAAAAGAATGATCCATCAAGTCTGATGAATTCAA
66 TGG-AAACAATGATCCATCAA-TTTGATGAATTCAA
556188 ATCTTTGCTA
Statistics
Matches: 973, Mismatches: 32, Indels: 23
0.95 0.03 0.02
Matches are distributed among these distances:
113 143 0.15
114 560 0.58
115 133 0.14
116 50 0.05
117 3 0.00
118 18 0.02
119 66 0.07
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (114 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
TGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
Found at i:555686 original size:343 final size:342
Alignment explanation
Indices: 555057--556187 Score: 1930
Period size: 343 Copynumber: 3.3 Consensus size: 342
555047 GCTCTTGATG
* *
555057 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTT-CT
* *** * *
555121 CTGGTAATGTTGATCCATCAA-ATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTAT
65 CTGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTAT
* *
555185 GAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTGTGAACTCTTCCTCTGGAAACG-A
130 GAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTT-CTCTGGAAAAGAA
*
555249 TGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC
190 TGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
555314 TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAACAATGATCCATCAATTTGA
255 TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAA-AATGATCCATCAATTTGA
*
555379 TGAATTCAAGAAAAAGGTTGAACA
319 TGAATTCAAGCAAAAGGTTGAACA
555403 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
555468 TGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATG
66 TGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATG
555533 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGAATGATCC
131 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGAATGATCC
555598 ATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
196 ATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
555663 CTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCAATTTGATGAATT
261 CTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAA-ATGATCCATCAATTTGATGAATT
555728 CAAGCAAAAGGTTGAACA
325 CAAGCAAAAGGTTGAACA
555746 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
555811 TGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATG
66 TGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATG
555876 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGAATGATCC
131 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGAATGATCC
* * *
555941 ATCAA-GTGATGAATTTAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
196 ATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
*** *
556005 CTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCCATCAA-ATGATGAATT
261 CTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG-AAAAATGATCCATCAATTTGATGAATT
556069 CAAGCAAAAGGTTGAACA
325 CAAGCAAAAGGTTGAACA
*
556087 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
* *
556152 TGGAAAAGAATGATCCATCAAGTCTGATGAATTCAA
66 TGG-AAACAATGATCCATCAA-TTTGATGAATTCAA
556188 ATCTTTGCTA
Statistics
Matches: 756, Mismatches: 22, Indels: 17
0.95 0.03 0.02
Matches are distributed among these distances:
341 94 0.12
342 131 0.17
343 369 0.49
344 19 0.03
345 1 0.00
346 77 0.10
347 65 0.09
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (342 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
TGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATG
AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGAATGATCC
ATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
CTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAATGATCCATCAATTTGATGAATTC
AAGCAAAAGGTTGAACA
Found at i:555914 original size:457 final size:455
Alignment explanation
Indices: 555057--556187 Score: 1996
Period size: 457 Copynumber: 2.5 Consensus size: 455
555047 GCTCTTGATG
* *
555057 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTT-CT
*
555121 CTGGTAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATG
65 CTGGAAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATG
* *
555186 AACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTGTGAACTCTTCCTCTGGAAACGATG
130 AACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTT-CTCTGGAAAAGATG
555251 ATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT
190 ATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT
555316 CCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAACAATGATCCATCAATTTGATG
255 CCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAACAATGATCCATCAATTTGATG
555381 AATTCAAGAAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
320 AATTCAAGAAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
* *
555446 TCTTCTCATTATGAACCTTCTCTGG-AAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGG
385 TCTTCTCATTATGAACCTTCTCTGGAAAACAATGATCCATCAA-GTGATGAATTCAAACAAAAGG
555510 TTGAACA
449 TTGAACA
555517 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
* * * *
555582 TGGAAAAGAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTAT
66 TGGAAATG-TTGATCCATCAA-ATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTAT
555647 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCC
129 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCC
*
555712 ATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
194 ATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTT
555777 CTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAACAATGATCCATCAATTTGATGAATT
259 CTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAACAATGATCCATCAATTTGATGAATT
*
555842 CAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
324 CAAGAAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
* *
555907 CTCATTATGAACCTTCTCTGGAAAAGAATGATCCATCAAGTGATGAATTTAAACAAAAGGTTGAA
389 CTCATTATGAACCTTCTCTGGAAAACAATGATCCATCAAGTGATGAATTCAAACAAAAGGTTGAA
555972 CA
454 CA
555974 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
*
556039 TGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
66 TGGAAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
556104 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGAATGATCCA
131 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAG-ATGATCCA
*
556169 TCAAGTCTGATGAATTCAA
195 TCAA-TTTGATGAATTCAA
556188 ATCTTTGCTA
Statistics
Matches: 644, Mismatches: 21, Indels: 15
0.95 0.03 0.02
Matches are distributed among these distances:
455 99 0.15
456 23 0.04
457 340 0.53
458 19 0.03
459 20 0.03
460 67 0.10
461 11 0.02
462 65 0.10
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (455 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
TGGAAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCAT
CAATTTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCT
TCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAACAATGATCCATCAATTTGATGAATTCA
AGAAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
CATTATGAACCTTCTCTGGAAAACAATGATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACA
Found at i:556825 original size:52 final size:52
Alignment explanation
Indices: 556743--557142 Score: 728
Period size: 52 Copynumber: 7.7 Consensus size: 52
556733 CACTTCTTCG
* * * *
556743 GATCAAATAACTCAAAGAACACTTCTAGAAGATGCTATTTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCA
*
556795 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCA
*
556847 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCA
*
556899 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTTTAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCA
*
556951 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCA
557003 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCA
557055 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCA
557107 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
557143 TGAGCATATT
Statistics
Matches: 338, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 338 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (52 bp):
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCA
Found at i:558302 original size:6 final size:6
Alignment explanation
Indices: 558287--558364 Score: 67
Period size: 6 Copynumber: 13.0 Consensus size: 6
558277 ACCTTGACCC
558287 CTTTTT -TTTTT CTTTTT CTTTTT CTTCTTTT CCTTTTT -TTTCTT -TTCTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT C-T-TTTT -CTTTTT CTTT-TT CTT-TTT
*
558337 C-TCTT CTTTTT C-TTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
558365 TTTCTTCAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 18
0.75 0.02 0.22
Matches are distributed among these distances:
5 16 0.26
6 33 0.54
7 6 0.10
8 5 0.08
9 1 0.02
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:558314 original size:9 final size:9
Alignment explanation
Indices: 558302--558371 Score: 68
Period size: 9 Copynumber: 7.3 Consensus size: 9
558292 TTTTTTCTTT
558302 TTCTTTTTC
1 TTCTTTTTC
*
558311 TTCTTTTCC
1 TTCTTTTTC
*
558320 TTTTTTTTC
1 TTCTTTTTC
*
558329 TTTTCTTTCTC
1 --TTCTTTTTC
558340 TTCTTTTTC
1 TTCTTTTTC
558349 TTTTCTTTTTC
1 --TTCTTTTTC
*
558360 TTTTTTTTC
1 TTCTTTTTC
558369 TTC
1 TTC
558372 AAGCATAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
9 33 0.67
11 16 0.33
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:558323 original size:20 final size:19
Alignment explanation
Indices: 558289--558370 Score: 94
Period size: 20 Copynumber: 4.1 Consensus size: 19
558279 CTTGACCCCT
*
558289 TTTTTTTTTCTTTTTCTTT-
1 TTTTCTTTTCTTTTT-TTTC
558308 TTCTTCTTTTCCTTTTTTTTC
1 TT-TTCTTTT-CTTTTTTTTC
*
558329 TTTTCTTTCTCTTCTTTTTC
1 TTTTCTTT-TCTTTTTTTTC
558349 TTTTCTTTTTCTTTTTTTTC
1 TTTTC-TTTTCTTTTTTTTC
558369 TT
1 TT
558371 CAAGCATAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
19 2 0.04
20 41 0.75
21 12 0.22
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTCTTTTCTTTTTTTTC
Found at i:558334 original size:35 final size:33
Alignment explanation
Indices: 558288--558366 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 33
558278 CCTTGACCCC
*
558288 TTTTTTTTTTCTTTTTCTT-TTTCTTCTTTTCCTT
1 TTTTTTTTTTCTTTCTCTTCTTT-TTCTTTT-CTT
558322 TTTTTTCTTTTCTTTCTCTTCTTTTTCTTTTCTT
1 TTTTTT-TTTTCTTTCTCTTCTTTTTCTTTTCTT
558356 TTTCTTTTTTT
1 TTT-TTTTTTT
558367 TCTTCAAGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
34 16 0.39
35 22 0.54
36 3 0.07
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (33 bp):
TTTTTTTTTTCTTTCTCTTCTTTTTCTTTTCTT
Found at i:566231 original size:12 final size:13
Alignment explanation
Indices: 566207--566232 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
566197 TAAGAATTAA
566207 ACTCGGAATTTTT
1 ACTCGGAATTTTT
566220 ACTCGGAATTTTT
1 ACTCGGAATTTTT
566233 CAAGATCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
ACTCGGAATTTTT
Found at i:566347 original size:149 final size:149
Alignment explanation
Indices: 566077--566368 Score: 584
Period size: 149 Copynumber: 2.0 Consensus size: 149
566067 ATTGTGCAGA
566077 AATTTTTCAAGATCTCTAATGCGTCTTCGCAGTGAAGCATTTTCCTCATTACTTTCTTTGAGATC
1 AATTTTTCAAGATCTCTAATGCGTCTTCGCAGTGAAGCATTTTCCTCATTACTTTCTTTGAGATC
566142 ATTAGGTCCTAGACGAACCTTTTCTTGAAACAATGATTCTTCAAGTTGCAAAATGTAAGAATTAA
66 ATTAGGTCCTAGACGAACCTTTTCTTGAAACAATGATTCTTCAAGTTGCAAAATGTAAGAATTAA
566207 ACTCGGAATTTTTACTCGG
131 ACTCGGAATTTTTACTCGG
566226 AATTTTTCAAGATCTCTAATGCGTCTTCGCAGTGAAGCATTTTCCTCATTACTTTCTTTGAGATC
1 AATTTTTCAAGATCTCTAATGCGTCTTCGCAGTGAAGCATTTTCCTCATTACTTTCTTTGAGATC
566291 ATTAGGTCCTAGACGAACCTTTTCTTGAAACAATGATTCTTCAAGTTGCAAAATGTAAGAATTAA
66 ATTAGGTCCTAGACGAACCTTTTCTTGAAACAATGATTCTTCAAGTTGCAAAATGTAAGAATTAA
566356 ACTCGGAATTTTT
131 ACTCGGAATTTTT
566369 GTTTCTAGAC
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 143 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.37
Consensus pattern (149 bp):
AATTTTTCAAGATCTCTAATGCGTCTTCGCAGTGAAGCATTTTCCTCATTACTTTCTTTGAGATC
ATTAGGTCCTAGACGAACCTTTTCTTGAAACAATGATTCTTCAAGTTGCAAAATGTAAGAATTAA
ACTCGGAATTTTTACTCGG
Found at i:571309 original size:6 final size:6
Alignment explanation
Indices: 571290--571396 Score: 142
Period size: 6 Copynumber: 17.8 Consensus size: 6
571280 TTAATATATT
* * *
571290 TAATAA TAAAAA TAGTAA TAATAA TAATAA AAATAA TAATAA TAATAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
* * * *
571338 TATTAA TAATGA TAATAA TAATAT TAATAA TAATAA TAATAA TATTAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
*
571386 TAATGA TAATA
1 TAATAA TAATA
571397 TGGATAAAAA
Statistics
Matches: 85, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 85 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (6 bp):
TAATAA
Found at i:571316 original size:21 final size:21
Alignment explanation
Indices: 571290--571396 Score: 133
Period size: 21 Copynumber: 5.1 Consensus size: 21
571280 TTAATATATT
*
571290 TAATAATAAAAATAGTAATAA
1 TAATAATAAAAATAATAATAA
571311 TAATAATAAAAATAATAATAA
1 TAATAATAAAAATAATAATAA
** *
571332 TAATAATATTAATAATGATAA
1 TAATAATAAAAATAATAATAA
**
571353 TAATAATATTAATAATAATAA
1 TAATAATAAAAATAATAATAA
** *
571374 TAATAATATTAATAATGATAA
1 TAATAATAAAAATAATAATAA
571395 TA
1 TA
571397 TGGATAAAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 80 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
TAATAATAAAAATAATAATAA
Found at i:571395 original size:9 final size:9
Alignment explanation
Indices: 571290--571396 Score: 142
Period size: 9 Copynumber: 11.9 Consensus size: 9
571280 TTAATATATT
571290 TAATAATAA
1 TAATAATAA
* *
571299 AAATAGTAA
1 TAATAATAA
571308 TAATAATAA
1 TAATAATAA
*
571317 TAAAAATAA
1 TAATAATAA
571326 TAATAATAA
1 TAATAATAA
*
571335 TAATATTAA
1 TAATAATAA
*
571344 TAATGATAA
1 TAATAATAA
*
571353 TAATAATAT
1 TAATAATAA
571362 TAATAATAA
1 TAATAATAA
571371 TAATAATAA
1 TAATAATAA
*
571380 TATTAATAA
1 TAATAATAA
*
571389 TGATAATA
1 TAATAATA
571397 TGGATAAAAA
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 83 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (9 bp):
TAATAATAA
Found at i:571403 original size:15 final size:15
Alignment explanation
Indices: 571291--571389 Score: 77
Period size: 15 Copynumber: 6.8 Consensus size: 15
571281 TAATATATTT
*
571291 AATAATAAAAATA-G
1 AATAATAATAATATG
571305 TAATAATAATAATA--
1 -AATAATAATAATATG
571319 AA-AATAATAATAAT-
1 AATAATAATAAT-ATG
*
571333 AATAATATTAATAATG
1 AATAATAATAAT-ATG
*
571349 -ATAATAATAATATT
1 AATAATAATAATATG
571363 AATAATAATAATAAT-
1 AATAATAATAAT-ATG
*
571378 AATATTAATAAT
1 AATAATAATAAT
571390 GATAATATGG
Statistics
Matches: 73, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
12 9 0.12
13 3 0.04
14 4 0.05
15 55 0.75
16 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
AATAATAATAATATG
Found at i:571797 original size:17 final size:17
Alignment explanation
Indices: 571775--571825 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
571765 CCTAATTATA
571775 ATACAAATCTATACACT
1 ATACAAATCTATACACT
571792 ATAC-AAT-TAT--A--
1 ATACAAATCTATACACT
571803 ATACAAATCTATACACT
1 ATACAAATCTATACACT
571820 ATACAA
1 ATACAA
571826 TAAGGTGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
11 4 0.14
12 3 0.11
13 4 0.14
15 4 0.14
16 3 0.11
17 10 0.36
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (17 bp):
ATACAAATCTATACACT
Found at i:571800 original size:28 final size:28
Alignment explanation
Indices: 571768--571826 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
571758 CAAATCTCCT
571768 AATTATAATACAAATCTATACACTATAC
1 AATTATAATACAAATCTATACACTATAC
571796 AATTATAATACAAATCTATACACTATAC
1 AATTATAATACAAATCTATACACTATAC
571824 AAT
1 AAT
571827 AAGGTGGAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (28 bp):
AATTATAATACAAATCTATACACTATAC
Found at i:572067 original size:30 final size:31
Alignment explanation
Indices: 572033--572090 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
572023 ATTCATAAAA
*
572033 TCTTAATTCTAAT-TAAATATATTTATAGTT
1 TCTTAATTCTAATATAAATATATATATAGTT
* *
572063 TCTTAATTTTAATATAACTATATATATA
1 TCTTAATTCTAATATAAATATATATATA
572091 TAAATAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.52
Consensus pattern (31 bp):
TCTTAATTCTAATATAAATATATATATAGTT
Found at i:572290 original size:16 final size:17
Alignment explanation
Indices: 572260--572292 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
572250 ATGAAAGTAC
*
572260 TATCTATTTATTAAATA
1 TATCTATTTAATAAATA
572277 TATCT-TTTAATAAATA
1 TATCTATTTAATAAATA
572293 GATAGTATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
TATCTATTTAATAAATA
Found at i:574717 original size:7 final size:7
Alignment explanation
Indices: 574705--574733 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
574695 TCAATTGCTT
574705 TAAAACA
1 TAAAACA
574712 TAAAACA
1 TAAAACA
574719 TAAAACA
1 TAAAACA
574726 TAAAACA
1 TAAAACA
574733 T
1 T
574734 GAAAGCATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAAACA
Found at i:577003 original size:39 final size:38
Alignment explanation
Indices: 576952--577050 Score: 137
Period size: 39 Copynumber: 2.6 Consensus size: 38
576942 TCTCAAATTA
* *
576952 TTTCACTTTAACATTCTAAATTCTAAATTTCTTAAATT
1 TTTCACATTAACATTCTAAATTCTAAATTTCTTAAAAT
* *
576990 TTATCACCA-TAACATTTTAAATTCTTAATTTCTTAAAAT
1 TT-TCA-CATTAACATTCTAAATTCTAAATTTCTTAAAAT
577029 TTTCACATTAACATTCTAAATT
1 TTTCACATTAACATTCTAAATT
577051 ATTTTTAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
37 2 0.04
38 18 0.34
39 32 0.60
40 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.47
Consensus pattern (38 bp):
TTTCACATTAACATTCTAAATTCTAAATTTCTTAAAAT
Found at i:579273 original size:3 final size:3
Alignment explanation
Indices: 579267--579361 Score: 145
Period size: 3 Copynumber: 31.7 Consensus size: 3
579257 TTTTTATCCA
* ** *
579267 TAT TAT TAT TAT TAA TAT TAT TAT TAT CCT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
579315 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
579362 ATTTATATTA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:579863 original size:14 final size:14
Alignment explanation
Indices: 579846--579876 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
579836 AAAAAAGAAA
*
579846 AGAGAGAAAAACAG
1 AGAGAAAAAAACAG
579860 AGAGAAAAAAACAG
1 AGAGAAAAAAACAG
579874 AGA
1 AGA
579877 ACGGAAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.26, T:0.00
Consensus pattern (14 bp):
AGAGAAAAAAACAG
Found at i:579875 original size:12 final size:12
Alignment explanation
Indices: 579843--579877 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
579833 AAAAAAAAAG
579843 AAAAGAGAGAAA
1 AAAAGAGAGAAA
*
579855 AACAGAGAGAAA
1 AAAAGAGAGAAA
*
579867 AAAACAGAGAA
1 AAAAGAGAGAA
579878 CGGAAAAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.71, C:0.06, G:0.23, T:0.00
Consensus pattern (12 bp):
AAAAGAGAGAAA
Found at i:584413 original size:13 final size:13
Alignment explanation
Indices: 584395--584420 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
584385 AGAGATCTTG
584395 AAAAATTCCGAGT
1 AAAAATTCCGAGT
584408 AAAAATTCCGAGT
1 AAAAATTCCGAGT
584421 TTAATTCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
AAAAATTCCGAGT
Found at i:584529 original size:149 final size:149
Alignment explanation
Indices: 584259--584550 Score: 584
Period size: 149 Copynumber: 2.0 Consensus size: 149
584249 GTCTAGAAAC
584259 AAAAATTCCGAGTTTAATTCTTACATTTTGCAACTTGAAGAATCATTGTTTCAAGAAAAGGTTCG
1 AAAAATTCCGAGTTTAATTCTTACATTTTGCAACTTGAAGAATCATTGTTTCAAGAAAAGGTTCG
584324 TCTAGGACCTAATGATCTCAAAGAAAGTAATGAGGAAAATGCTTCACTGCGAAGACGCATTAGAG
66 TCTAGGACCTAATGATCTCAAAGAAAGTAATGAGGAAAATGCTTCACTGCGAAGACGCATTAGAG
584389 ATCTTGAAAAATTCCGAGT
131 ATCTTGAAAAATTCCGAGT
584408 AAAAATTCCGAGTTTAATTCTTACATTTTGCAACTTGAAGAATCATTGTTTCAAGAAAAGGTTCG
1 AAAAATTCCGAGTTTAATTCTTACATTTTGCAACTTGAAGAATCATTGTTTCAAGAAAAGGTTCG
584473 TCTAGGACCTAATGATCTCAAAGAAAGTAATGAGGAAAATGCTTCACTGCGAAGACGCATTAGAG
66 TCTAGGACCTAATGATCTCAAAGAAAGTAATGAGGAAAATGCTTCACTGCGAAGACGCATTAGAG
584538 ATCTTGAAAAATT
131 ATCTTGAAAAATT
584551 TCTGCACAAT
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 143 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.29
Consensus pattern (149 bp):
AAAAATTCCGAGTTTAATTCTTACATTTTGCAACTTGAAGAATCATTGTTTCAAGAAAAGGTTCG
TCTAGGACCTAATGATCTCAAAGAAAGTAATGAGGAAAATGCTTCACTGCGAAGACGCATTAGAG
ATCTTGAAAAATTCCGAGT
Found at i:592284 original size:5 final size:5
Alignment explanation
Indices: 592274--592355 Score: 60
Period size: 5 Copynumber: 15.6 Consensus size: 5
592264 GCTTGAAGAA
*
592274 AAAAG AAAAG AAAAAG AAAAG -AAAG AAAAG AAAAAAG AAAAG AAAAAA
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG --AAAAG AAAAG -AAAAG
* * *
592322 AAATAG AAAAT AGAA- AAAAG AGAAG AAAAAG AAA
1 AAA-AG AAAAG AAAAG AAAAG AAAAG -AAAAG AAA
592356 GGGGGTCAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
4 7 0.11
5 33 0.53
6 17 0.27
7 5 0.08
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:592286 original size:12 final size:12
Alignment explanation
Indices: 592269--592338 Score: 87
Period size: 12 Copynumber: 6.2 Consensus size: 12
592259 ATTATGCTTG
592269 AAGAAAAAAGAA
1 AAGAAAAAAGAA
592281 AAG-AAAAAGAA
1 AAGAAAAAAGAA
592292 AAG---AAAGAA
1 AAGAAAAAAGAA
592301 AAGAAAAAAGAA
1 AAGAAAAAAGAA
592313 AAGAAAAAA-AA
1 AAGAAAAAAGAA
*
592324 ATAGAAAATAGAA
1 A-AGAAAAAAGAA
592337 AA
1 AA
592339 AAGAGAAGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
9 9 0.17
11 14 0.27
12 26 0.50
13 3 0.06
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (12 bp):
AAGAAAAAAGAA
Found at i:592306 original size:32 final size:32
Alignment explanation
Indices: 592269--592355 Score: 124
Period size: 31 Copynumber: 2.8 Consensus size: 32
592259 ATTATGCTTG
592269 AAGAAAAAAGAAAAGAAAAAGAAAAGA-AAGAA
1 AAGAAAAAAGAAAAGAAAAAGAAAAGAGAA-AA
*
592301 AAGAAAAAAGAAAAGAAAAA-AAAATAGAAAA
1 AAGAAAAAAGAAAAGAAAAAGAAAAGAGAAAA
* *
592332 TAGAAAAAAGAGAAGAAAAAGAAA
1 AAGAAAAAAGAAAAGAAAAAGAAA
592356 GGGGGTCAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
31 25 0.50
32 25 0.50
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (32 bp):
AAGAAAAAAGAAAAGAAAAAGAAAAGAGAAAA
Found at i:592310 original size:21 final size:20
Alignment explanation
Indices: 592275--592355 Score: 85
Period size: 20 Copynumber: 3.9 Consensus size: 20
592265 CTTGAAGAAA
592275 AAAGAAAAGAAAAAGAAAAG
1 AAAGAAAAGAAAAAGAAAAG
592295 AAAGAAAAGAAAAAAGAAAAG
1 AAAGAAAAG-AAAAAGAAAAG
*
592316 AAAAAAAAATAGAAAATAG-AAA-
1 --AAAGAAA-AGAAAA-AGAAAAG
*
592338 AAAGAGAAGAAAAAGAAA
1 AAAGAAAAGAAAAAGAAA
592356 GGGGGTCAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
18 2 0.04
19 8 0.15
20 14 0.27
21 11 0.21
23 13 0.25
24 4 0.08
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (20 bp):
AAAGAAAAGAAAAAGAAAAG
Found at i:593692 original size:83 final size:83
Alignment explanation
Indices: 593465--593825 Score: 586
Period size: 83 Copynumber: 4.4 Consensus size: 83
593455 GATATCCCAG
593465 ACCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 ACCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
593530 CTGACCTGGTTTAGCAGA
66 CTGACCTGGTTTAGCAGA
**
593548 A-CATTCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 ACCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
593612 CTGACCTGGTTTAGCAGA
66 CTGACCTGGTTTAGCAGA
593630 ACCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 ACCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
* * * *
593695 TTGATCTGATTATA-TAGA
66 CTGACCTGGTT-TAGCAGA
593713 ACCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 ACCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
* * *
593778 CTGATCTGG-TTGGATAGA
66 CTGACCTGGTTTAG-CAGA
*
593796 A-CAATCATTGAATTTGGAAGATGAATTTGC
1 ACCAAGCATTGAATTTGGAAGATGAATTTGC
593826 TCATAGTAAA
Statistics
Matches: 262, Mismatches: 12, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
81 1 0.00
82 109 0.42
83 150 0.57
84 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (83 bp):
ACCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
CTGACCTGGTTTAGCAGA
Found at i:594541 original size:113 final size:113
Alignment explanation
Indices: 594343--595569 Score: 1931
Period size: 113 Copynumber: 10.8 Consensus size: 113
594333 TAGCAAAGAT
* *
594343 TTGAATCCATCATTTGATGGAACAACTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
594408 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
* * *
594456 TTGAATCCATCATTTGATGGAACAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
594521 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
* *
594569 TTGAATCCGTCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * **
594634 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
* * * * *
594682 TTAAATTCATCATTTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
594747 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
* *
594795 TTGAATCCATCACTTGATGGATCATTCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TTGAATCCATCATTTGATGGATCA-ACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* * **
594860 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
* * * * *
594909 TTAAATTCATCATTTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
594974 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTAC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
* * * *
595022 CTGAATCCATCATTTGGTGAATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
595087 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
*
595135 TTGAATCCGTCATTTGATGGAT-AAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TTGAATCCATCATTTGATGGATCAA-CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* * **
595199 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
* * * * *
595248 TTAAATTCATCATTTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
595313 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTAC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
* * *
595361 CTGAATCCATCATTTGGTGAAT-AATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TTGAATCCATCATTTGATGGATCAA-CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
*
595425 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
* * *
595474 TTGAATTCATCATTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTG
1 TTGAATCCATCATTTGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTG
595538 AAGAAGGAAG-AGAAAGTTCATAATGAGAAGAA
65 AAGAAGGAAGAAG-AAGTTCATAATGAGAAGAA
595570 CTCATCAAGA
Statistics
Matches: 1019, Mismatches: 88, Indels: 14
0.91 0.08 0.01
Matches are distributed among these distances:
112 6 0.01
113 907 0.89
114 106 0.10
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
TTGAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
Found at i:595826 original size:3 final size:3
Alignment explanation
Indices: 595820--595902 Score: 121
Period size: 3 Copynumber: 27.7 Consensus size: 3
595810 TTTTTATCCA
* ** *
595820 TAT TAT TAT TAT TAA TAT TAT TAT TAT CCT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
595868 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
595903 ATTTATATTA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:596404 original size:14 final size:14
Alignment explanation
Indices: 596387--596417 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
596377 AAAAAAGAAA
*
596387 AGAGAGAAAAACAG
1 AGAGAAAAAAACAG
596401 AGAGAAAAAAACAG
1 AGAGAAAAAAACAG
596415 AGA
1 AGA
596418 ACGGAAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.26, T:0.00
Consensus pattern (14 bp):
AGAGAAAAAAACAG
Found at i:596416 original size:12 final size:12
Alignment explanation
Indices: 596384--596418 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
596374 AAAAAAAAAG
596384 AAAAGAGAGAAA
1 AAAAGAGAGAAA
*
596396 AACAGAGAGAAA
1 AAAAGAGAGAAA
*
596408 AAAACAGAGAA
1 AAAAGAGAGAA
596419 CGGAAAAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.71, C:0.06, G:0.23, T:0.00
Consensus pattern (12 bp):
AAAAGAGAGAAA
Found at i:601774 original size:23 final size:23
Alignment explanation
Indices: 601744--601789 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
601734 TATTAATTTC
601744 GGTTCTATTATTGGATGAACTAA
1 GGTTCTATTATTGGATGAACTAA
601767 GGTTCTATTATTGGATGAACTAA
1 GGTTCTATTATTGGATGAACTAA
601790 ACGTTTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (23 bp):
GGTTCTATTATTGGATGAACTAA
Found at i:603182 original size:83 final size:82
Alignment explanation
Indices: 603078--603273 Score: 225
Period size: 83 Copynumber: 2.3 Consensus size: 82
603068 GGTTAAACAA
* **
603078 TAGCGGCATTTATAGTAAAAACGCCGTAATATA-GTAGACATGTAGCGGCGTTTATAGTAAAAAC
1 TAGCGGCGTTT-TAGT-AAAACGCCGTAATATATGTA-ACATGTAGCGGCGTTTATACCAAAAAC
* *
603142 GCCGCAATATAGTAG-ACAT
63 GCCGCAATAGAGTAGTAAAT
* * *
603161 GTAGCGGCGTTTTAGCTAAAACGCCGCAATATATTTAACATTTAGCGGCGTTTATACCAAAAACG
1 -TAGCGGCGTTTTAG-TAAAACGCCGTAATATATGTAACATGTAGCGGCGTTTATACCAAAAACG
*
603226 CCGCAATAGAGTGGTAAAT
64 CCGCAATAGAGTAGTAAAT
*
603245 TAGCGGCGTTTTTTGTATAAACGCCGTAA
1 TAGCGGCG-TTTTAGTA-AAACGCCGTAA
603274 AAAACATGTG
Statistics
Matches: 96, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
83 65 0.68
84 31 0.32
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (82 bp):
TAGCGGCGTTTTAGTAAAACGCCGTAATATATGTAACATGTAGCGGCGTTTATACCAAAAACGCC
GCAATAGAGTAGTAAAT
Found at i:603207 original size:41 final size:42
Alignment explanation
Indices: 603078--603270 Score: 223
Period size: 42 Copynumber: 4.6 Consensus size: 42
603068 GGTTAAACAA
* *
603078 TAGCGGCATTTATAGTAAAAACGCCGTAATATAGTAGACATG
1 TAGCGGCGTTTATAGTAAAAACGCCGCAATATAGTAGACATG
603120 TAGCGGCGTTTATAGTAAAAACGCCGCAATATAGTAGACATG
1 TAGCGGCGTTTATAGTAAAAACGCCGCAATATAGTAGACATG
* *
603162 TAGCGGCGTTT-TAGCT-AAAACGCCGCAATATATTTA-ACATT
1 TAGCGGCGTTTATAG-TAAAAACGCCGCAATATA-GTAGACATG
** * * *
603203 TAGCGGCGTTTATACCAAAAACGCCGCAATAGAGTGGTAAAT-
1 TAGCGGCGTTTATAGTAAAAACGCCGCAATATAGTAG-ACATG
* * *
603245 TAGCGGCGTTTTTTGTATAAACGCCG
1 TAGCGGCGTTTATAGTAAAAACGCCG
603271 TAAAAAACAT
Statistics
Matches: 130, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
41 35 0.27
42 92 0.71
43 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (42 bp):
TAGCGGCGTTTATAGTAAAAACGCCGCAATATAGTAGACATG
Found at i:604400 original size:52 final size:52
Alignment explanation
Indices: 604330--604488 Score: 291
Period size: 52 Copynumber: 3.1 Consensus size: 52
604320 TACTGAACAA
604330 TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
1 TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
* * *
604382 TATGTTGAAGACTATTTATGCATAAGTACTTTAATGTTTCCAAATTATAATG
1 TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
604434 TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
1 TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
604486 TAT
1 TAT
604489 TTTGTTGTTA
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 101 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (52 bp):
TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
Found at i:607931 original size:21 final size:21
Alignment explanation
Indices: 607893--607932 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
607883 TTCATTTTTC
* *
607893 TTGTTATGGATTTTAAGTTAG
1 TTGTTATGGATGTCAAGTTAG
607914 TTGTTATGGATGTCAAGTT
1 TTGTTATGGATGTCAAGTT
607933 TATTGGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (21 bp):
TTGTTATGGATGTCAAGTTAG
Found at i:608150 original size:44 final size:44
Alignment explanation
Indices: 608061--608150 Score: 101
Period size: 44 Copynumber: 2.0 Consensus size: 44
608051 TTTATATCTT
* * *
608061 AAAACGCCGCTATAGATATGACCTTTTGCGGCGTTTGTTATAAA
1 AAAACGCCGCTATAGACATGACCTTTTGCGGCGTTTGTGAGAAA
* * * *
608105 AAAACGCCGCTATATACCA-GATCTTTTGCGGTGTTTGTGGGAAA
1 AAAACGCCGCTATAGA-CATGACCTTTTGCGGCGTTTGTGAGAAA
608149 AA
1 AA
608151 TGCTGCTAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 37 0.97
45 1 0.03
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
AAAACGCCGCTATAGACATGACCTTTTGCGGCGTTTGTGAGAAA
Found at i:608186 original size:43 final size:43
Alignment explanation
Indices: 608130--608287 Score: 199
Period size: 43 Copynumber: 3.7 Consensus size: 43
608120 ACCAGATCTT
* * *
608130 TTGCGGTGTTTGTGGGAAAAATGCTGCTAAATCTCAAGACCTA
1 TTGCGGCGTTTGTGGGAAAAATGCCGCTAAATCTCAACACCTA
* * ** *
608173 TTACGGCATTTGTGAAAAAAATGCCGTTAAATCTCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAATGCCGCTAAATCTCAACACCTA
* *
608216 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAATGCCGCTAAATCTCAACACCTA
* * *
608259 TTGCGGCGTTTGTTGGACAAACGCCGCTA
1 TTGCGGCGTTTGTGGGAAAAATGCCGCTA
608288 TATATCGTTA
Statistics
Matches: 99, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 99 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (43 bp):
TTGCGGCGTTTGTGGGAAAAATGCCGCTAAATCTCAACACCTA
Found at i:608301 original size:43 final size:43
Alignment explanation
Indices: 608130--608330 Score: 161
Period size: 43 Copynumber: 4.6 Consensus size: 43
608120 ACCAGATCTT
* * * * * * *
608130 TTGCGGTGTTTGTGGGAAAAATGCTGCTAAATCTCAAGACCTA
1 TTGCGGCGTTTGTTGGACAAACGCCGCTAAATATCAACACCTA
* * * * * * *
608173 TTACGGCATTTG-TGAAAAAAATGCCGTTAAATCTCAACACCTA
1 TTGCGGCGTTTGTTG-GACAAACGCCGCTAAATATCAACACCTA
* *
608216 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTTGGACAAACGCCGCTAAATATCAACACCTA
* ***
608259 TTGCGGCGTTTGTTGGACAAACGCCGCTATATATCGTTACCTA
1 TTGCGGCGTTTGTTGGACAAACGCCGCTAAATATCAACACCTA
* * *
608302 TTGCGACGTTTTTTGTTACCAAACGCCGC
1 TTGCGGCGTTTGTTG-GA-CAAACGCCGC
608331 GAACTTTAGC
Statistics
Matches: 132, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 118 0.89
44 3 0.02
45 10 0.08
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
TTGCGGCGTTTGTTGGACAAACGCCGCTAAATATCAACACCTA
Found at i:608301 original size:86 final size:86
Alignment explanation
Indices: 608102--608312 Score: 201
Period size: 86 Copynumber: 2.5 Consensus size: 86
608092 CGTTTGTTAT
* * * * * * * *
608102 AAAAAAACGCCGCTATATA-CCAGATCTTTTGCGGTGTTTGTGGGAAAAATGCTGCTAAATCTCA
1 AAAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCA
*
608166 AGACCTATTACGGCATTTGTG
66 ACACCTATTACGGCATTTGTG
* * * *
608187 AAAAAAATGCCGTTAAATCTCAACACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATCTCA
1 AAAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCA
* *
608252 ACACCTATTGCGGCGTTTGTTG
66 ACACCTATTACGGCATTTG-TG
* * * *** *
608274 -GACAAACGCCGCTATATATCGTTACCTATTGCGACGTTT
1 AAAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTT
608313 TTTGTTACCA
Statistics
Matches: 99, Mismatches: 25, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
85 15 0.15
86 82 0.83
87 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (86 bp):
AAAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCA
ACACCTATTACGGCATTTGTG
Found at i:610196 original size:19 final size:19
Alignment explanation
Indices: 610172--610208 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
610162 ATGACCAACA
* *
610172 AAATCGTAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
610191 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
610209 CATTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:610258 original size:21 final size:19
Alignment explanation
Indices: 610233--610306 Score: 58
Period size: 21 Copynumber: 3.6 Consensus size: 19
610223 AGTTCCAAAT
610233 TCGCAACGCGATTTTCGAAA
1 TCGCAACGCGATTTT-GAAA
**
610253 TCCGCATTGCGATTTTAGATAA
1 T-CGCAACGCGATTTT-GA-AA
* * *
610275 TCGCAATGCGAATATGTAAA
1 TCGCAACGCGATTTTG-AAA
610295 TCGCAACGCGAT
1 TCGCAACGCGAT
610307 AACACGTGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
20 14 0.33
21 26 0.60
22 3 0.07
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (19 bp):
TCGCAACGCGATTTTGAAA
Found at i:610340 original size:20 final size:20
Alignment explanation
Indices: 610315--610359 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
610305 ATAACACGTG
*
610315 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTATGACT
610335 ATCGCAACGCGATTATGACT
1 ATCGCAACGCGATTATGACT
*
610355 TTCGC
1 ATCGC
610360 GTTGCGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGATTATGACT
Found at i:610547 original size:22 final size:22
Alignment explanation
Indices: 610522--610594 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
610512 CTACGGTGAC
610522 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
*
610544 ATCCGTCCCCATTTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* *
610566 ATCCATCCCCATCTCCGACAAA
1 ATCCGTCCCCATCTCCGACGAA
610588 ATCCGTC
1 ATCCGTC
610595 TATCTCCATC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.25, C:0.44, G:0.11, T:0.21
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:611056 original size:20 final size:20
Alignment explanation
Indices: 611013--611080 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
611003 CGATTATCTC
* ** *
611013 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAATCATTTTCGT
*
611033 GTTGCGATAATCATTTTCTT
1 GTTGCGATAATCATTTTCGT
**
611053 GTTGCGATTTTCATTTTCGT
1 GTTGCGATAATCATTTTCGT
611073 GTTGCGAT
1 GTTGCGAT
611081 TTTAAGTTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.44
Consensus pattern (20 bp):
GTTGCGATAATCATTTTCGT
Found at i:611081 original size:20 final size:20
Alignment explanation
Indices: 611028--611083 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
611018 GATAGTCAAA
* **
611028 TTCGCGTTGCGATAATCATT
1 TTCGTGTTGCGATTTTCATT
*
611048 TTCTTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
611068 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
611084 AAGTTTCAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.12, C:0.16, G:0.20, T:0.52
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Done.