Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009633.1 Hibiscus syriacus cultivar Beakdansim tig00117032_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: 2608659
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 13
Found at i:349921 original size:20 final size:20
Alignment explanation
Indices: 349898--350052 Score: 175
Period size: 20 Copynumber: 7.7 Consensus size: 20
349888 CGATAGTAAG
*
349898 ATTCACATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
349918 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
*
349938 AATTCGCATTGCGATTTACTT
1 -ATTCGCATTGCGATTTACGT
* *
349959 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
349979 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
*
349999 AATTCGCATTGCGATTTACTT
1 -ATTCGCATTGCGATTTACGT
* * *
350020 AATCGCGTTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
350040 ATTCACATTGCGA
1 ATTCGCATTGCGA
350053 ATTATGAAAA
Statistics
Matches: 111, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
20 75 0.68
21 36 0.32
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:349951 original size:41 final size:41
Alignment explanation
Indices: 349898--350052 Score: 179
Period size: 41 Copynumber: 3.8 Consensus size: 41
349888 CGATAGTAAG
* *
349898 ATTCACATTGCGATTTACGTATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACCTA
* * * *
349939 ATTCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGT-
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACCTA
* * *
349979 ATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTTA
1 ATTCGCATTGCGATTTACGT-ATTCGCATTGCGATTTACCTA
* * *
350021 A-TCGCGTTACGATTTACGTATTCACATTGCGA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGA
350053 ATTATGAAAA
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 30 0.31
41 65 0.68
42 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (41 bp):
ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACCTA
Found at i:349979 original size:61 final size:61
Alignment explanation
Indices: 349905--350052 Score: 278
Period size: 61 Copynumber: 2.4 Consensus size: 61
349895 AAGATTCACA
349905 TTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTTAATCGCG
1 TTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTTAATCGCG
349966 TTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTTAATCGCG
1 TTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTTAATCGCG
* *
350027 TTACGATTTACGTATTCACATTGCGA
1 TTGCGATTTACGTATTCGCATTGCGA
350053 ATTATGAAAA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 85 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.41
Consensus pattern (61 bp):
TTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTTAATCGCG
Found at i:350075 original size:21 final size:21
Alignment explanation
Indices: 350049--350108 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
350039 TATTCACATT
*
350049 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* * *
350070 GCGAA-TACGTAAATTGCAAT
1 GCGAATTACGAAAATCGCAAC
*
350090 GCGAATTAGGAAAATCGCA
1 GCGAATTACGAAAATCGCA
350109 TTGCGATAGT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:350113 original size:21 final size:21
Alignment explanation
Indices: 350048--350114 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
350038 GTATTCACAT
*
350048 TGCGAATTATGAAAATCGCAA
1 TGCGAATTACGAAAATCGCAA
* * *
350069 CGCGAA-TACGTAAATTGCAA
1 TGCGAATTACGAAAATCGCAA
* *
350089 TGCGAATTAGGAAAATCGCAT
1 TGCGAATTACGAAAATCGCAA
350110 TGCGA
1 TGCGA
350115 TAGTCATAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (21 bp):
TGCGAATTACGAAAATCGCAA
Found at i:351298 original size:44 final size:40
Alignment explanation
Indices: 351248--351351 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
351238 GCGACCTTCC
*
351248 AGGCATCCGAGGCCATCCGAGGCCATCCGACTGGGCCATGACCG
1 AGGCATCCGAGG-CATCCGAGGCCATCCGAC-GAGCCAT-A-CG
* *
351292 AGGCATCCGAGAGCATCCGA-GTCATCCGACGAGCTATACG
1 AGGCATCCGAG-GCATCCGAGGCCATCCGACGAGCCATACG
351332 AGGCATCCGAGGGCA-CCGAG
1 AGGCATCCGA-GGCATCCGAG
351352 CGAGCTATCG
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
39 4 0.07
40 15 0.28
41 2 0.04
42 5 0.09
43 9 0.17
44 18 0.33
45 1 0.02
ACGTcount: A:0.24, C:0.33, G:0.32, T:0.12
Consensus pattern (40 bp):
AGGCATCCGAGGCATCCGAGGCCATCCGACGAGCCATACG
Found at i:351317 original size:9 final size:9
Alignment explanation
Indices: 351248--351343 Score: 66
Period size: 10 Copynumber: 9.3 Consensus size: 9
351238 GCGACCTTCC
351248 AGGCATCCG
1 AGGCATCCG
351257 AGGCCATCCG
1 AGG-CATCCG
351267 AGGCCATCCG
1 AGG-CATCCG
351277 ACTGGGCCATGACCG
1 A---GG-CAT--CCG
351292 AGGCATCCG
1 AGGCATCCG
351301 AGAGCATCCG
1 AG-GCATCCG
*
351311 AGTCATCCG
1 AGGCATCCG
*
351320 ACGAGCTATACG
1 A-G-GC-ATCCG
351332 AGGCATCCG
1 AGGCATCCG
351341 AGG
1 AGG
351344 GCACCGAGCG
Statistics
Matches: 73, Mismatches: 4, Indels: 20
0.75 0.04 0.21
Matches are distributed among these distances:
9 22 0.30
10 29 0.40
11 5 0.07
12 7 0.10
13 6 0.08
15 4 0.05
ACGTcount: A:0.24, C:0.32, G:0.31, T:0.12
Consensus pattern (9 bp):
AGGCATCCG
Found at i:351338 original size:21 final size:19
Alignment explanation
Indices: 351290--351342 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 19
351280 GGGCCATGAC
*
351290 CGAGGCATCCGAGAGCATC
1 CGAGGCATCCGAGAGCATA
*
351309 CGAGTCATCCGACGAGCTATA
1 CGAGGCATCCGA-GAGC-ATA
351330 CGAGGCATCCGAG
1 CGAGGCATCCGAG
351343 GGCACCGAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 11 0.38
20 5 0.17
21 13 0.45
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.13
Consensus pattern (19 bp):
CGAGGCATCCGAGAGCATA
Found at i:351359 original size:31 final size:30
Alignment explanation
Indices: 351299--351387 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 30
351289 CCGAGGCATC
*
351299 CGAGAGCATCCGA-GTCATCCGA-CGAGCTAT
1 CGAG-GCATCCGAGGGCA-CCGAGCGAGCTAT
351329 ACGAGGCATCCGAGGGCACCGAGCGAGCTAT
1 -CGAGGCATCCGAGGGCACCGAGCGAGCTAT
*
351360 CGAGGGAATCCGAGGGCAACCGAGCGAG
1 CGA-GGCATCCGAGGGC-ACCGAGCGAG
351388 GTAGGTCGCC
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
30 15 0.29
31 27 0.52
32 10 0.19
ACGTcount: A:0.27, C:0.28, G:0.35, T:0.10
Consensus pattern (30 bp):
CGAGGCATCCGAGGGCACCGAGCGAGCTAT
Found at i:351475 original size:10 final size:10
Alignment explanation
Indices: 351455--351543 Score: 54
Period size: 10 Copynumber: 8.5 Consensus size: 10
351445 GCATAGCTCG
351455 CTCGG-TGCC
1 CTCGGATGCC
351464 CTCGGATGCC
1 CTCGGATGCC
*
351474 CTCGCATAGCTC
1 CTCGGAT-GC-C
*
351486 GTCGGATGGCC
1 CTCGGAT-GCC
*
351497 TCGTCGGATGGC
1 -C-TCGGATGCC
* *
351509 CTCAGATGCT
1 CTCGGATGCC
*
351519 CTCGGATGCT
1 CTCGGATGCC
* *
351529 TTCGGATGGC
1 CTCGGATGCC
351539 CTCGG
1 CTCGG
351544 TCGGATAAAC
Statistics
Matches: 61, Mismatches: 14, Indels: 9
0.73 0.17 0.11
Matches are distributed among these distances:
9 5 0.08
10 36 0.59
11 4 0.07
12 10 0.16
13 6 0.10
ACGTcount: A:0.10, C:0.33, G:0.33, T:0.25
Consensus pattern (10 bp):
CTCGGATGCC
Found at i:351477 original size:32 final size:31
Alignment explanation
Indices: 351420--351499 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 31
351410 CGACCTACCG
* *
351420 TCGCTCGTTTGCCCTCGGATTCCTCGCATAGC
1 TCGCTCG-GTGCCCTCGGATCCCTCGCATAGC
351452 TCGCTCGGTGCCCTCGGATGCCCTCGCATAGC
1 TCGCTCGGTGCCCTCGGAT-CCCTCGCATAGC
*
351484 TCG-TCGGATGGCCTCG
1 TCGCTCGG-TGCCCTCG
351500 TCGGATGGCC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
31 15 0.35
32 28 0.65
ACGTcount: A:0.09, C:0.38, G:0.28, T:0.26
Consensus pattern (31 bp):
TCGCTCGGTGCCCTCGGATCCCTCGCATAGC
Found at i:351501 original size:13 final size:13
Alignment explanation
Indices: 351483--351511 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
351473 CCTCGCATAG
351483 CTCGTCGGATGGC
1 CTCGTCGGATGGC
351496 CTCGTCGGATGGC
1 CTCGTCGGATGGC
351509 CTC
1 CTC
351512 AGATGCTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.34, G:0.34, T:0.24
Consensus pattern (13 bp):
CTCGTCGGATGGC
Found at i:363598 original size:68 final size:70
Alignment explanation
Indices: 363473--363610 Score: 253
Period size: 68 Copynumber: 2.0 Consensus size: 70
363463 AGGCGTGGAT
363473 GCTTATATTTGATGTGATACTGTGTATAGTTAATAAAGCTGTTGCCTTTGAATTGGCTTCTAAGA
1 GCTTATATTTGATGTGATAC-GTGTATAGTTAATAAAGCTGTTGCCTTTGAATTGGCTTCTAAGA
363538 TGCATG
65 TGCATG
363544 GCTTATATTTGATGTGATAC-TGTATAGTTAAT-AAGCTGTTGCCTTTGAATTGGCTTCTAAGAT
1 GCTTATATTTGATGTGATACGTGTATAGTTAATAAAGCTGTTGCCTTTGAATTGGCTTCTAAGAT
363607 GCAT
66 GCAT
363611 CCGTTTTATT
Statistics
Matches: 67, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
68 35 0.52
69 12 0.18
71 20 0.30
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (70 bp):
GCTTATATTTGATGTGATACGTGTATAGTTAATAAAGCTGTTGCCTTTGAATTGGCTTCTAAGAT
GCATG
Found at i:378000 original size:13 final size:13
Alignment explanation
Indices: 377982--378006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
377972 ATTATATATG
377982 TTAAATTTAATAA
1 TTAAATTTAATAA
377995 TTAAATTTAATA
1 TTAAATTTAATA
378007 GTTTTAAACC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAATTTAATAA
Found at i:379301 original size:258 final size:260
Alignment explanation
Indices: 378970--379488 Score: 915
Period size: 260 Copynumber: 2.0 Consensus size: 260
378960 TAATCAAATA
378970 AAATTAAAATTGATATATGAATTCTTGATGAAAGGGTGAAAAAGATATAAAAAATAAAAATAAAT
1 AAATTAAAATTGATATATGAATTCTTGATGAAAGGGTGAAAAAGATATAAAAAATAAAAATAAAT
379035 CAAACATCATTAATTAAAATGAAAGTATCGTAATTTTA-GGCGTTTTTCCCG-AAAATC-CCGGT
66 CAAACATCATTAATTAAAATGAAAGTATCGTAATTTTAGGGCGTTTTT-CCGAAAAATCACCGGT
*
379097 GACGGGTATATTTACCGATTTAACACTGATCAGATTATATTTCCCGATCTAACACCCGTAGCAGT
130 GACGGGTATATTTACCGATTTAACACTGATCAGATTATATTTCCCGATCTAACA-CAGTAGCAGT
*
379162 AAAGCGCGCT-ATGCCCGTGCTATATGCTGATTTGGCGCCACGTGGGGTATAGCTCGCCCC-TGT
194 AAAGCGCGCTCATGCCC-CGCTATATGCTGATTTGGCGCCACGTGGGGTATAGCTCGCCCCATGT
379225 ACC
258 ACC
379228 AAATTAAAATTGATATATGAATTCTTGATGAAAAGGGTGAAAAAGATATAAAAAATAAAAATAAA
1 AAATTAAAATTGATATATGAATTCTTGATG-AAAGGGTGAAAAAGATATAAAAAATAAAAATAAA
*
379293 TC-AACATCATTAATTAAAATGAAAGTATCGTAATTTTAGGGCGTTTTTCCGAAAAATCATCGGT
65 TCAAACATCATTAATTAAAATGAAAGTATCGTAATTTTAGGGCGTTTTTCCGAAAAATCACCGGT
*
379357 GACGGGTATATTTACCGATTTAACATTGATCAGATTATATTTCCCGATCTAACACAGTAGCAGTA
130 GACGGGTATATTTACCGATTTAACACTGATCAGATTATATTTCCCGATCTAACACAGTAGCAGTA
379422 AAGCGCGCTCCATGCCCCGCTATATGCTGATTTGGCGCCACGTGGGGTATAGCTCGCCCCATGTA
195 AAGCGCGCT-CATGCCCCGCTATATGCTGATTTGGCGCCACGTGGGGTATAGCTCGCCCCATGTA
379487 CC
259 CC
379489 GCGCTATGCG
Statistics
Matches: 250, Mismatches: 4, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
258 69 0.28
259 70 0.28
260 99 0.40
261 12 0.05
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (260 bp):
AAATTAAAATTGATATATGAATTCTTGATGAAAGGGTGAAAAAGATATAAAAAATAAAAATAAAT
CAAACATCATTAATTAAAATGAAAGTATCGTAATTTTAGGGCGTTTTTCCGAAAAATCACCGGTG
ACGGGTATATTTACCGATTTAACACTGATCAGATTATATTTCCCGATCTAACACAGTAGCAGTAA
AGCGCGCTCATGCCCCGCTATATGCTGATTTGGCGCCACGTGGGGTATAGCTCGCCCCATGTACC
Found at i:379814 original size:12 final size:13
Alignment explanation
Indices: 379794--379822 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
379784 TTCGTGTGAT
379794 TTTTCGTTATAAA
1 TTTTCGTTATAAA
379807 TTTT-GTTATAAA
1 TTTTCGTTATAAA
379819 TTTT
1 TTTT
379823 TTTTATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (13 bp):
TTTTCGTTATAAA
Found at i:383913 original size:17 final size:16
Alignment explanation
Indices: 383882--383915 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
383872 AAATTATATT
383882 AGTAAAATATTAAATA
1 AGTAAAATATTAAATA
*
383898 AGTAAAATGCTTAAATA
1 AGTAAAAT-ATTAAATA
383915 A
1 A
383916 ATTAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (16 bp):
AGTAAAATATTAAATA
Found at i:383978 original size:10 final size:10
Alignment explanation
Indices: 383959--383996 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
383949 CTTAAATAGA
*
383959 GAGAGTATTT
1 GAGAGAATTT
383969 GAGAGAATTT
1 GAGAGAATTT
*
383979 GAGAAAATTT
1 GAGAGAATTT
383989 GAGAGAAT
1 GAGAGAAT
383997 ATGGTGTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:389258 original size:29 final size:29
Alignment explanation
Indices: 389169--389258 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 29
389159 TAATCTAATG
*
389169 ATAATTTAATAAATTTAA-AGATAATTTATA
1 ATAATTTAATAAATTTAATA-ATTA-TTATA
* * * * *
389199 ATAGTTTGATAAGTTTTAATAAAT-TTGTA
1 ATAATTTAATAA-ATTTAATAATTATTATA
*
389228 ATAATATAATAAATTTAATAATTATTATA
1 ATAATTTAATAAATTTAATAATTATTATA
389257 AT
1 AT
389259 TAAAAAATTT
Statistics
Matches: 45, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
28 9 0.20
29 19 0.42
30 10 0.22
31 6 0.13
32 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (29 bp):
ATAATTTAATAAATTTAATAATTATTATA
Found at i:389259 original size:17 final size:17
Alignment explanation
Indices: 389215--389249 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
389205 TGATAAGTTT
389215 TAATAAATTTGTAATAATA
1 TAATAAA-TT-TAATAATA
389234 TAATAAATTTAATAAT
1 TAATAAATTTAATAAT
389250 TATTATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
TAATAAATTTAATAATA
Found at i:390746 original size:21 final size:21
Alignment explanation
Indices: 390673--390750 Score: 99
Period size: 20 Copynumber: 3.9 Consensus size: 21
390663 CATATGAAAT
*
390673 TTGT-CCGAAGGACCA-TGTA
1 TTGTCCCGAATGACCACTGTA
390692 TTGTCCCGAATGACCACTGTA
1 TTGTCCCGAATGACCACTGTA
* *
390713 -TGTCTCAAATGACCACTGTA
1 TTGTCCCGAATGACCACTGTA
*
390733 TTATCCCGAATGACCACT
1 TTGTCCCGAATGACCACT
390751 ATAACCCTCG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.08
20 28 0.56
21 18 0.36
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (21 bp):
TTGTCCCGAATGACCACTGTA
Found at i:392196 original size:64 final size:63
Alignment explanation
Indices: 392059--392219 Score: 207
Period size: 64 Copynumber: 2.5 Consensus size: 63
392049 AATTATTCAG
* * *
392059 TGTGTATCGATGCACAGGAAGTGCATCGATGCACCCTTAAAAATGGAAACATCGAATGCAATT
1 TGTGTATCGATGCATAGGAAGTGCATCGATGCACCCTTAAAAATGAAAACATCGAAGGCAATT
* * * * *
392122 GGTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCTTTAAGATGAAAACATCGAAGGTAATT
1 TGTGTATCGATGCAT-AGGAAGTGCATCGATGCA-CCCTTAAAAATGAAAACATCGAAGGCAATT
* *
392186 TGTGTATCGATGCATGGGTAGTGCATCGATGCAC
1 TGTGTATCGATGCATAGGAAGTGCATCGATGCAC
392220 ATGTTAAAGA
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
63 29 0.35
64 55 0.65
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (63 bp):
TGTGTATCGATGCATAGGAAGTGCATCGATGCACCCTTAAAAATGAAAACATCGAAGGCAATT
Found at i:392252 original size:20 final size:22
Alignment explanation
Indices: 392207--392264 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
392197 GCATGGGTAG
392207 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
392231 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
392251 TGCATCGATGCACT
1 TGCATCGATGCACT
392265 TCAATGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:394845 original size:16 final size:17
Alignment explanation
Indices: 394810--394847 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
394800 ATAATTGATA
*
394810 TTGATTTTTCAAGAACT
1 TTGATTTTGCAAGAACT
*
394827 TTGATTTTGCAA-AATT
1 TTGATTTTGCAAGAACT
394843 TTGAT
1 TTGAT
394848 CTGAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (17 bp):
TTGATTTTGCAAGAACT
Found at i:398102 original size:23 final size:21
Alignment explanation
Indices: 398047--398108 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
398037 TTTTGGTGTA
*
398047 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
398067 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
398088 GAAGGGAAACCGATTCCCCCC
1 G-AGGG-AACCGATTCCCCCC
398109 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 4 0.11
23 13 0.36
ACGTcount: A:0.23, C:0.35, G:0.24, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:402795 original size:23 final size:23
Alignment explanation
Indices: 402758--402811 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
402748 TTTATATGGT
*
402758 ACTTC-GTGTAATTCTACGCGGC
1 ACTTCGGTGCAATTCTACGCGGC
** *
402780 ACTTCGGTGCAATTCTTTGTGGC
1 ACTTCGGTGCAATTCTACGCGGC
402803 ACTTCGGTG
1 ACTTCGGTG
402812 TATTTATACG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (23 bp):
ACTTCGGTGCAATTCTACGCGGC
Found at i:405672 original size:23 final size:23
Alignment explanation
Indices: 405646--405736 Score: 128
Period size: 23 Copynumber: 4.0 Consensus size: 23
405636 GACATTATAT
*
405646 GGCACTACGGTGCATTTTTACGC
1 GGCACTACGGTGCATTTCTACGC
* * *
405669 GGCACTTCGGTGCAATTCTACGT
1 GGCACTACGGTGCATTTCTACGC
405692 GGCACTACGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTCTACGC
* *
405715 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCATTTCTACG
405737 AGCTGTGGTG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTACGC
Found at i:411919 original size:6 final size:6
Alignment explanation
Indices: 411908--411968 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
411898 AGAGATATTC
* * * * * * *
411908 TCTTCA TCTTCA TATTCA TCATCA TCATCA TCATCT TCTTCT TCTTCT
1 TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA
*
411956 TCTTCT TCTTCA T
1 TCTTCA TCTTCA T
411969 GTACGAGAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.16, C:0.31, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTTCA
Found at i:411947 original size:3 final size:3
Alignment explanation
Indices: 411941--411966 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
411931 ATCATCATCA
411941 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
411967 ATGTACGAGA
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:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:413373 original size:31 final size:31
Alignment explanation
Indices: 413309--413400 Score: 136
Period size: 30 Copynumber: 3.0 Consensus size: 31
413299 AAGGTCGAGG
413309 GTTTACCTATGTTCTTCGGGACATAT-GACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
413339 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
413370 GTTTACATAGGTTCTTC-GGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
413400 G
1 G
413401 GTCCTTCAGG
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
30 38 0.66
31 20 0.34
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:416971 original size:64 final size:63
Alignment explanation
Indices: 416857--417012 Score: 197
Period size: 64 Copynumber: 2.5 Consensus size: 63
416847 TTCAGTGTGT
* *
416857 ATCGATGCACAGGAAGTGCATCGATGCACCCTTAAAAATGAAAACATCGAATGCAATTGGTGC
1 ATCGATGCATAGGAAGTGCATCGATGCACCCTTAAAAATGAAAACATCGAAGGCAATTGGTGC
* * * * * *
416920 ATCGATGCATAAGG-AGTACATCGATGCATCCCTTTAAGATGAAAACATCGAAGGTAATTTGTGT
1 ATCGATGCAT-AGGAAGTGCATCGATGCA-CCCTTAAAAATGAAAACATCGAAGGCAATTGGTGC
* *
416984 ATCGATGCATGGGTAGTGCATCGATGCAC
1 ATCGATGCATAGGAAGTGCATCGATGCAC
417013 ATGTTAAAGA
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
63 25 0.31
64 55 0.69
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (63 bp):
ATCGATGCATAGGAAGTGCATCGATGCACCCTTAAAAATGAAAACATCGAAGGCAATTGGTGC
Found at i:418523 original size:23 final size:23
Alignment explanation
Indices: 418459--418515 Score: 107
Period size: 22 Copynumber: 2.5 Consensus size: 23
418449 TTTTATATGT
418459 CACTTCGGTGCAATTCTACGTGG
1 CACTTCGGTGCAATTCTACGTGG
418482 CACTTC-GTGCAATTCTACGTGG
1 CACTTCGGTGCAATTCTACGTGG
418504 CACTTCGGTGCA
1 CACTTCGGTGCA
418516 TTTATACGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.67
23 11 0.33
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.30
Consensus pattern (23 bp):
CACTTCGGTGCAATTCTACGTGG
Found at i:421263 original size:18 final size:18
Alignment explanation
Indices: 421240--421274 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
421230 AGGGATTATC
*
421240 AGTGGTCCTTCGGGACAT
1 AGTGGTCATTCGGGACAT
421258 AGTGGTCATTCGGGACA
1 AGTGGTCATTCGGGACA
421275 AATTCATATG
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:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:421566 original size:6 final size:6
Alignment explanation
Indices: 421555--423427 Score: 2694
Period size: 6 Copynumber: 323.8 Consensus size: 6
421545 GTGATGTGTG
421555 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
421603 ATGTAT ATGTTAT ATG--T -TGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATG-TAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
421649 ATGTA- A-GTAT ATGTAT ATGTAT ATGTAAT ATGTAT ATGTGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGT-AT ATGTAT A--TGTAT ATGTAT
421698 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTATGT ATGTAT A--T-T
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTA--T ATGTAT ATGTAT
*
421745 ATGTAT ATGTAG ATG-AT A--TAT ATGTAT A-GTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
* *
421789 ATGTAT ATGT-T ATGTAT ATGTAT ATGTAT GTATAT ATGTAT ATG--T
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
421834 ATGTAT ATGTAT ATGTAT -TGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
* *
421881 ATG-AT ATGTAT ATGTAT ATGTAT ATTTAGT AATGTCT ATGTAT ATG--T
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTA-T -ATGTAT ATGTAT ATGTAT
*
421928 ATGTAT ATGTAT CTGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
421976 ATGTAT ATGTAT ATGTAT ATG--T ATGTAT ATGTAT ATG--T ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
*
422020 ATGTAT ATGTAT ATGTCT ATGTAT ATG--T ATGTAT ATGTAT ATG-AT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
*
422065 AT-TAG ATGTAT ATGTAT ATGTAT A-GTAT ATGTA- ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
422110 ATGTAT -TGTAT ATGTAT ATGTAT ATG-AT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
422156 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
422204 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
422252 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG--T ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
422298 A-GTAT ATGTATAT ATGTAT ATG--T ATGT-T ATGTAT ATG--T ATGTAT
1 ATGTAT ATG--TAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
422342 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGT-T ATGTAT ATGTATAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG--TAT
* *
422391 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT GTATAT GATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT -ATGTAT
*
422440 ATGTAT A-GTAT ATGTAT ATGTAG A-GTAT ATGTAT ATGTAT ATG-AT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
422485 ATGTAT ATGTTAT GATGTAT ATGTAT ATGTGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATG-TAT -ATGTAT ATGTAT A--TGTAT ATGTAT ATGTAT ATGTAT
422537 ATG--T ATG-AT ATGTAT ATGTAT ATGTAT ATGTATGT ATGTAT A-G-AT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTA--T ATGTAT ATGTAT
*
422582 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG--T ATGTAG ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
422628 ATG--T -TGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG--T
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
422671 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
422719 ATGTAT ATGTAT ATG--T ATGTAT ATGTAT ATG--T ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
422763 ATGTAT ATGT-T ATGT-T ATGTA- ATGTAT ATGTA- ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
* *
422807 ATGTAT ATTTGT ATGTAT ATGTAT A-GTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
422854 ATGTAT ATGTAT ATG--T ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
422900 A-GTAT ATGTAT ATGTAT A---AT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
422944 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG--T
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
422990 ATGTAT ATGTAT ATGTAT A-GTAT AT-TAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
*
423036 ATGTCT ATGTAT ATGTAT ATG--T ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
423082 ATG--T ATGTAT ATGTAT ATGTAT ATGTAT ATGT-T ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
423127 ATGTAT ATGTAT ATGTAT ATGTAT AGATGTAT ATG--T ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT --ATGTAT ATGTAT ATGTAT ATGTAT
423175 ATG-AT ATGTAT ATGTAT ATGTAT ATGTAT A-GTAT ATGTAT A-G--T
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
423218 ATGTAT ATGTAT -TGTATGT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTA--T ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
*
423267 ATGTAT ATGTAT ATGTAT AGGTAT ATGTAT ATG--- ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
* *
423312 ATGTAT ATGTAGT ATATGT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTA-T ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
423361 ATG--T ATGTAT ATGTAT ATGTAT ATGGTAT ATGTAT -TGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT AT-GTAT ATGTAT ATGTAT ATGTAT
423407 ATGTAT ATG--T ATGTAT ATGTA
1 ATGTAT ATGTAT ATGTAT ATGTA
423428 AATACCTTAC
Statistics
Matches: 1714, Mismatches: 36, Indels: 234
0.86 0.02 0.12
Matches are distributed among these distances:
3 14 0.01
4 93 0.05
5 154 0.09
6 1366 0.80
7 35 0.02
8 52 0.03
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (6 bp):
ATGTAT
Found at i:428634 original size:21 final size:22
Alignment explanation
Indices: 428610--428653 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
428600 AATTCCATTA
428610 AGGAAATTGTA-GTACCCAACT
1 AGGAAATTGTAGGTACCCAACT
428631 AGGAAATTGTAGGTACCCAACT
1 AGGAAATTGTAGGTACCCAACT
428653 A
1 A
428654 AGAGGGATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (22 bp):
AGGAAATTGTAGGTACCCAACT
Found at i:431237 original size:21 final size:21
Alignment explanation
Indices: 431208--431247 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
431198 CTGTGACATT
* *
431208 TGAATTTTTCATATGTTTAGC
1 TGAAGTTTTCACATGTTTAGC
*
431229 TGAAGTTTTTACATGTTTA
1 TGAAGTTTTCACATGTTTA
431248 TGTTACCTTT
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:0.25, C:0.07, G:0.15, T:0.53
Consensus pattern (21 bp):
TGAAGTTTTCACATGTTTAGC
Found at i:437531 original size:3 final size:3
Alignment explanation
Indices: 437523--437565 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
437513 TCTAATTGTA
437523 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
437566 GCTTATTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:444868 original size:105 final size:102
Alignment explanation
Indices: 444739--444977 Score: 297
Period size: 105 Copynumber: 2.3 Consensus size: 102
444729 TGAGAATTTT
* * *
444739 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
*
444803 TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TT-AAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
444844 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* *
444909 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
444946 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
444978 TCTAAAAACA
Statistics
Matches: 119, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 4 0.03
105 78 0.66
106 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:444968 original size:36 final size:34
Alignment explanation
Indices: 444923--445041 Score: 114
Period size: 36 Copynumber: 3.4 Consensus size: 34
444913 ACAAAGTTGA
*
444923 TCTCACTTGAGATCGTTTTCTCAAAAACAAACTTTG
1 TCTCACTTGAGA-C-TTTTCTCAAAAACAAATTTTG
* *
444959 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGAC-TTTTCTC-AAAAACAAATTTTG
* * * *
444995 TCTCATTTGAGACTATATCT-TAAAGCAAATTTTG
1 TCTCACTTGAGACT-TTTCTCAAAAACAAATTTTG
*
445029 TCTCGCTTGAGAC
1 TCTCACTTGAGAC
445042 ATCATTTTCT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
34 23 0.33
35 7 0.10
36 39 0.57
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (34 bp):
TCTCACTTGAGACTTTTCTCAAAAACAAATTTTG
Found at i:445029 original size:34 final size:36
Alignment explanation
Indices: 444941--445042 Score: 129
Period size: 36 Copynumber: 2.9 Consensus size: 36
444931 GAGATCGTTT
* *
444941 TCTC-AAAAACAAACTTTGTCTCGCTTGAGACAATT
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
** *
444976 TCTCTAAAAACAAATTTTGTCTCATTTGAGACTATA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
*
445012 TCT-T-AAAGCAAATTTTGTCTCGCTTGAGACA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
445043 TCATTTTCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 23 0.40
35 5 0.09
36 29 0.51
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (36 bp):
TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
Found at i:445372 original size:28 final size:29
Alignment explanation
Indices: 445302--445409 Score: 166
Period size: 29 Copynumber: 3.8 Consensus size: 29
445292 AAAAAAAATC
*
445302 TCTTTGAGTTTGTTCATTTTGAATAAAAA
1 TCTTTGAGTTTGTTCCTTTTGAATAAAAA
445331 TCTTTGAGTTTGTTCCTTTTGAATAAAAA
1 TCTTTGAGTTTGTTCCTTTTGAATAAAAA
*
445360 TCTTTGAG-TTGTTTCTTTTGAA-AAAAA
1 TCTTTGAGTTTGTTCCTTTTGAATAAAAA
* *
445387 TCTTTGAGTTTATTTCTTTTGAA
1 TCTTTGAGTTTGTTCCTTTTGAA
445410 ACAAAGTTTT
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
27 13 0.17
28 26 0.35
29 36 0.48
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (29 bp):
TCTTTGAGTTTGTTCCTTTTGAATAAAAA
Found at i:445389 original size:56 final size:58
Alignment explanation
Indices: 445302--445409 Score: 168
Period size: 56 Copynumber: 1.9 Consensus size: 58
445292 AAAAAAAATC
*
445302 TCTTTGAGTTTGTTCATTTTGAATAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAA
1 TCTTTGAGTTTGTTCATTTTGAATAAAAATCTTTGAGTTTATTCCTTTTGAATAAAAA
*
445360 TCTTTGAG-TTGTTTC-TTTTGAA-AAAAATCTTTGAGTTTATTTCTTTTGAA
1 TCTTTGAGTTTG-TTCATTTTGAATAAAAATCTTTGAGTTTATTCCTTTTGAA
445410 ACAAAGTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
56 26 0.55
57 10 0.21
58 11 0.23
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (58 bp):
TCTTTGAGTTTGTTCATTTTGAATAAAAATCTTTGAGTTTATTCCTTTTGAATAAAAA
Found at i:445565 original size:29 final size:30
Alignment explanation
Indices: 445501--445564 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
445491 TGTGAAAAAA
*
445501 AAAAATCTTTGAAATTGTTTCTTTTGAAAC
1 AAAAATCTTTGAAATTGTTTCTTTGGAAAC
*
445531 AAAAATCTTTG-AGTCTGTTTCTTTGGAAAC
1 AAAAATCTTTGAAAT-TGTTTCTTTGGAAAC
445561 AAAA
1 AAAA
445565 TTTTGTCTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (30 bp):
AAAAATCTTTGAAATTGTTTCTTTGGAAAC
Found at i:445630 original size:67 final size:67
Alignment explanation
Indices: 445522--445717 Score: 274
Period size: 67 Copynumber: 2.9 Consensus size: 67
445512 AAATTGTTTC
*
445522 TTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATT
1 TTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGACAATT
445587 TA
66 TA
* *
445589 TTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAATTTTTGTCTCTCTTGAGACAATT
1 TTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGACAATT
*
445654 TC
66 TA
* * *
445656 TTTTGAGGA-AAAAATCTTTGAGTCTGTTTCTCTT--AAA-ATGAATTTTGTCTCTCTTAAAACA
1 TTTTGA-AACAAAAATCTTTGAGTCTGTTTCT-TTGGAAACA-AAATTTTGTCTCTCTTAAGACA
445717 A
63 A
445718 ATTTTTGAGT
Statistics
Matches: 117, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
65 1 0.01
66 22 0.19
67 91 0.78
68 3 0.03
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (67 bp):
TTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGACAATT
TA
Found at i:446162 original size:15 final size:15
Alignment explanation
Indices: 446139--446182 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
446129 TTTTGAGTCG
*
446139 TTTCACTTGAAACAT
1 TTTCTCTTGAAACAT
446154 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
*
446169 TTTCTCTTAAAACA
1 TTTCTCTTGAAACA
446183 AGATCATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (15 bp):
TTTCTCTTGAAACAT
Found at i:446653 original size:28 final size:28
Alignment explanation
Indices: 446582--446663 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
446572 GAAACACATT
** *
446582 ATCTTTGAGCTTGTTTTTCTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
** *
446610 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
446638 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAATTT-GTTTCTCTTGAAAC
446664 CATAACTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 3 0.07
28 43 0.93
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (28 bp):
ATCTTTGAATTTGTTTCTCTTGAAACAA
Found at i:446744 original size:40 final size:40
Alignment explanation
Indices: 446689--447010 Score: 209
Period size: 40 Copynumber: 7.6 Consensus size: 40
446679 TGGCCAGCCG
*
446689 TCCTCATCATGTAGGAACCGTGTCATCCCCAGACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGATC
* * ** *
446729 TCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAG---ACCAGATC
* * *
446771 GT-CTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAACCGTGTCATC-CC--CAGA---CCAGATC
* * * *
446817 TCTTCATCACGTATGAGCCGTGTCATTCCCAGACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGATC
* * * * *
446857 TCCTCATCACGTAGGAGCCGTGTCAACCACAGATAACTAG-CC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAG---ACCAGATC
* * *
446899 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAACCGTGTCATC-CC--CAGA---CCAGATC
* * * *
446946 TCTTCATCACGTATGAGCCGTGTCATTCCCAGACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGATC
*
446986 TCCTCATCACGTAGGAACCATGTCA
1 TCCTCATCACGTAGGAACCGTGTCA
447011 CCCTTAGACG
Statistics
Matches: 216, Mismatches: 43, Indels: 46
0.71 0.14 0.15
Matches are distributed among these distances:
40 87 0.40
42 25 0.12
43 42 0.19
44 1 0.00
45 12 0.06
46 48 0.22
47 1 0.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (40 bp):
TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGATC
Found at i:446828 original size:46 final size:45
Alignment explanation
Indices: 446676--447052 Score: 205
Period size: 40 Copynumber: 8.8 Consensus size: 45
446666 TAACTCCTAA
* * * *
446676 AGATGGCCAG-CCGTCCTCATCATGTAGGAACCGTGTCATC-CC-C
1 AGATGGCCAGAAC-TCCTCATCACGTAGGAGCCGTGTCATCACCTT
* *
446719 AGA---CCAGATCTCCTCATCACGTAGGAGCCGTGTCA--ACCAT
1 AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTCATCACCTT
** * * *
446759 AGATAACCAG-CCGT-CTCATCACGTAGGAACCGTGTTATCACCTTT
1 AGATGGCCAGAAC-TCCTCATCACGTAGGAGCCGTGTCATCACC-TT
* *
446804 AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTC-CC--
1 AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTCA-TCACCTT
* **
446847 AGA---CCAGATCTCCTCATCACGTAGGAGCCGTGTCA--ACCAC
1 AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTCATCACCTT
** * * * *
446887 AGATAACTAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTT
1 AGATGGCCAGAAC-TCCTCATCACGTAGGAGCCGTGTCATCACC-TT
* *
446933 AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTC-CC--
1 AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTCA-TCACCTT
* * *
446976 AGA---CCAGATCTCCTCATCACGTAGGAACCATGTCA-C-CCTT
1 AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTCATCACCTT
* * * * * *
447016 AGACGACCCGAACTCTTCATCACGTATGAGCAGTGTC
1 AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTC
447053 GTCCCCAACA
Statistics
Matches: 260, Mismatches: 44, Indels: 60
0.71 0.12 0.16
Matches are distributed among these distances:
38 5 0.02
39 2 0.01
40 92 0.35
41 1 0.00
42 23 0.09
43 64 0.25
44 3 0.01
45 13 0.05
46 52 0.20
47 5 0.02
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (45 bp):
AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTCATCACCTT
Found at i:446835 original size:88 final size:83
Alignment explanation
Indices: 446682--447010 Score: 215
Period size: 86 Copynumber: 3.9 Consensus size: 83
446672 CTAAAGATGG
* *
446682 CCAGCCGTCCTCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGC
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCCTCATCACGTAGGAGC
446747 CGTGTCAACCATAGATAA
66 CGTGTCAACCATAGATAA
* * *
446765 CCAGCCGT-CTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATC-CC--CAGA---CCAGAACTCCTCATCACGT
* * *
446829 ATGAGCCGTGTCATTCC-CAG---A
60 AGGAGCCGTGTCA-ACCATAGATAA
* * * * * *
446850 CCAGATC-TCCTCATCACGTAGGAGCCGTGTCAACCACAGATAACTAG-CCGTCCTCATCACGTA
1 CCAG-CCGTCCTCATCACGTAGGAACCGTGTCATCCCCAG---ACCAGAAC-TCCTCATCACGTA
* * * **
446913 GGAACCGTGTTATCACCTTTAGATGG
61 GGAGCCGTGTCA--ACC-ATAGATAA
* * * * * * *
446939 CCAGAAC-TCTTCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTCATCACGTAGGAA
1 CCAG-CCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCCTCATCACGTAGGAG
*
447003 CCATGTCA
65 CCGTGTCA
447011 CCCTTAGACG
Statistics
Matches: 192, Mismatches: 34, Indels: 37
0.73 0.13 0.14
Matches are distributed among these distances:
82 24 0.12
83 36 0.19
84 2 0.01
85 10 0.05
86 53 0.28
87 1 0.01
88 31 0.16
89 35 0.18
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (83 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCCTCATCACGTAGGAGC
CGTGTCAACCATAGATAA
Found at i:447041 original size:129 final size:128
Alignment explanation
Indices: 446692--447010 Score: 557
Period size: 129 Copynumber: 2.5 Consensus size: 128
446682 CCAGCCGTCC
* * * *
446692 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
446757 ATAGATAACCAGCCGTCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
66 ATAGATAACCAGCCGTCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
446820 TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
* *
446885 ACAGATAACTAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
66 ATAGATAACCAGCCGT-CTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
* *
446949 TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTCATCACGTAGGAACCATGTCA
1 TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
447011 CCCTTAGACG
Statistics
Matches: 182, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
128 75 0.41
129 107 0.59
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (128 bp):
TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
ATAGATAACCAGCCGTCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:454548 original size:104 final size:102
Alignment explanation
Indices: 454419--454656 Score: 297
Period size: 104 Copynumber: 2.3 Consensus size: 102
454409 TGAGAATTTT
* *
454419 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTT-GAATTTGATTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
*
454482 TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TT-AAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
454523 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* *
454588 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
454625 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
454657 TCTAAAAACA
Statistics
Matches: 119, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 50 0.42
105 32 0.27
106 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:454647 original size:36 final size:34
Alignment explanation
Indices: 454602--454720 Score: 114
Period size: 36 Copynumber: 3.4 Consensus size: 34
454592 ACAAAGTTGA
*
454602 TCTCACTTGAGATCGTTTTCTCAAAAACAAACTTTG
1 TCTCACTTGAGA-C-TTTTCTCAAAAACAAATTTTG
* *
454638 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGAC-TTTTCTC-AAAAACAAATTTTG
* * * *
454674 TCTCATTTGAGACTATATCT-TAAAGCAAATTTTG
1 TCTCACTTGAGACT-TTTCTCAAAAACAAATTTTG
*
454708 TCTCGCTTGAGAC
1 TCTCACTTGAGAC
454721 ATCATTTTCT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
34 23 0.33
35 7 0.10
36 39 0.57
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (34 bp):
TCTCACTTGAGACTTTTCTCAAAAACAAATTTTG
Found at i:454708 original size:34 final size:36
Alignment explanation
Indices: 454620--454721 Score: 129
Period size: 36 Copynumber: 2.9 Consensus size: 36
454610 GAGATCGTTT
* *
454620 TCTC-AAAAACAAACTTTGTCTCGCTTGAGACAATT
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
** *
454655 TCTCTAAAAACAAATTTTGTCTCATTTGAGACTATA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
*
454691 TCT-T-AAAGCAAATTTTGTCTCGCTTGAGACA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
454722 TCATTTTCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 23 0.40
35 5 0.09
36 29 0.51
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (36 bp):
TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
Found at i:455050 original size:28 final size:29
Alignment explanation
Indices: 454980--455087 Score: 166
Period size: 29 Copynumber: 3.8 Consensus size: 29
454970 AAAAAAAATC
*
454980 TCTTTGAGTTTGTTCATTTTGAATAAAAA
1 TCTTTGAGTTTGTTCCTTTTGAATAAAAA
455009 TCTTTGAGTTTGTTCCTTTTGAATAAAAA
1 TCTTTGAGTTTGTTCCTTTTGAATAAAAA
*
455038 TCTTTGAG-TTGTTTCTTTTGAA-AAAAA
1 TCTTTGAGTTTGTTCCTTTTGAATAAAAA
* *
455065 TCTTTGAGTTTATTTCTTTTGAA
1 TCTTTGAGTTTGTTCCTTTTGAA
455088 ACAAAGTTTT
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
27 13 0.17
28 26 0.35
29 36 0.48
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (29 bp):
TCTTTGAGTTTGTTCCTTTTGAATAAAAA
Found at i:455071 original size:56 final size:58
Alignment explanation
Indices: 454980--455087 Score: 168
Period size: 56 Copynumber: 1.9 Consensus size: 58
454970 AAAAAAAATC
*
454980 TCTTTGAGTTTGTTCATTTTGAATAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAA
1 TCTTTGAGTTTGTTCATTTTGAATAAAAATCTTTGAGTTTATTCCTTTTGAATAAAAA
*
455038 TCTTTGAG-TTGTTTC-TTTTGAA-AAAAATCTTTGAGTTTATTTCTTTTGAA
1 TCTTTGAGTTTG-TTCATTTTGAATAAAAATCTTTGAGTTTATTCCTTTTGAA
455088 ACAAAGTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
56 26 0.55
57 10 0.21
58 11 0.23
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (58 bp):
TCTTTGAGTTTGTTCATTTTGAATAAAAATCTTTGAGTTTATTCCTTTTGAATAAAAA
Found at i:455098 original size:28 final size:28
Alignment explanation
Indices: 454961--455088 Score: 161
Period size: 29 Copynumber: 4.5 Consensus size: 28
454951 TCTTGAGACA
* *
454961 GTTTCTCTTAAAAAAAATCTCTTTGAGTTT
1 GTTTCTTTTGAAAAAAA--TCTTTGAGTTT
454991 G-TTCATTTTGAATAAAAATCTTTGAGTTT
1 GTTTC-TTTTGAA-AAAAATCTTTGAGTTT
*
455020 GTTCCTTTTGAATAAAAATCTTTGAG-TT
1 GTTTCTTTTGAA-AAAAATCTTTGAGTTT
455048 GTTTCTTTTGAAAAAAATCTTTGAGTTT
1 GTTTCTTTTGAAAAAAATCTTTGAGTTT
*
455076 ATTTCTTTTGAAA
1 GTTTCTTTTGAAA
455089 CAAAGTTTTG
Statistics
Matches: 89, Mismatches: 5, Indels: 10
0.86 0.05 0.10
Matches are distributed among these distances:
27 13 0.15
28 27 0.30
29 36 0.40
30 8 0.09
31 5 0.06
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.48
Consensus pattern (28 bp):
GTTTCTTTTGAAAAAAATCTTTGAGTTT
Found at i:455220 original size:30 final size:30
Alignment explanation
Indices: 455179--455242 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
455169 TGTGAAAAAA
* *
455179 AAAAATCTTTGAAAT-TGTTTCTTTTGAAAC
1 AAAAATATTTG-AATCTGTTTCTTTGGAAAC
*
455209 AAAAATATTTGAGTCTGTTTCTTTGGAAAC
1 AAAAATATTTGAATCTGTTTCTTTGGAAAC
455239 AAAA
1 AAAA
455243 TTTTGTCTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (30 bp):
AAAAATATTTGAATCTGTTTCTTTGGAAAC
Found at i:455308 original size:67 final size:67
Alignment explanation
Indices: 455200--455395 Score: 265
Period size: 67 Copynumber: 2.9 Consensus size: 67
455190 AAATTGTTTC
* *
455200 TTTTGAAACAAAAATATTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATT
1 TTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGACAATT
455265 TA
66 TA
* *
455267 TTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAATTTTTGTCTCTCTTGAGACAATT
1 TTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGACAATT
*
455332 TC
66 TA
* * *
455334 TTTTGAGGA-AAAAATCTTTGAGTCTGTTTCTCTT--AAA-ATGAATTTTGTCTCTCTTAAAACA
1 TTTTGA-AACAAAAATCTTTGAGTCTGTTTCT-TTGGAAACA-AAATTTTGTCTCTCTTAAGACA
455395 A
63 A
455396 ATTTTTGAGT
Statistics
Matches: 116, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 22 0.19
67 90 0.78
68 3 0.03
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (67 bp):
TTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGACAATT
TA
Found at i:455840 original size:15 final size:15
Alignment explanation
Indices: 455817--455860 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
455807 TTTTGAGTCG
*
455817 TTTCACTTGAAACAT
1 TTTCTCTTGAAACAT
455832 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
*
455847 TTTCTCTTAAAACA
1 TTTCTCTTGAAACA
455861 AGATCATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (15 bp):
TTTCTCTTGAAACAT
Found at i:456333 original size:28 final size:28
Alignment explanation
Indices: 456262--456343 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
456252 GAAACACATT
** *
456262 ATCTTTGAGCTTGTTTTTCTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
** *
456290 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
456318 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAATTT-GTTTCTCTTGAAAC
456344 CATAACTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 3 0.07
28 43 0.93
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (28 bp):
ATCTTTGAATTTGTTTCTCTTGAAACAA
Found at i:456424 original size:40 final size:40
Alignment explanation
Indices: 456369--456691 Score: 218
Period size: 40 Copynumber: 7.6 Consensus size: 40
456359 TGGCCAGCCG
*
456369 TCCTCATCATGTAGGAACCGTGTCATCCCCAGACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGATC
* * ** *
456409 TCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAG---ACCAGATC
* * *
456451 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAACCGTGTCATC-CC--CAGA---CCAGATC
* * * *
456498 TCTTCATCACGTATGAGCCGTGTCATTCCCAGACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGATC
* * * *
456538 TCCTCATCACGTAGGAGCCGTGTCAACCACAGATAACCAG-CC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAG---ACCAGATC
* * * *
456580 GTCCTCATCACGTAAGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAACCGTGTCATC-CC--CAGA---CCAGATC
* * * *
456627 TCTTCATCACGTATGAGCCGTGTCATTCCCAGACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGATC
*
456667 TCCTCATCACGTAGGAACCATGTCA
1 TCCTCATCACGTAGGAACCGTGTCA
456692 CCCTTAGACG
Statistics
Matches: 219, Mismatches: 42, Indels: 44
0.72 0.14 0.14
Matches are distributed among these distances:
40 87 0.40
42 2 0.01
43 65 0.30
44 2 0.01
45 4 0.02
46 57 0.26
47 2 0.01
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (40 bp):
TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGATC
Found at i:456508 original size:46 final size:45
Alignment explanation
Indices: 456356--456733 Score: 214
Period size: 40 Copynumber: 8.8 Consensus size: 45
456346 TAACTCCTAA
* * * *
456356 AGATGGCCAG-CCGTCCTCATCATGTAGGAACCGTGTCATC-CC-C
1 AGATGGCCAGAAC-TCCTCATCACGTAGGAGCCGTGTCATCACCTT
* *
456399 AGA---CCAGATCTCCTCATCACGTAGGAGCCGTGTCA--ACCAT
1 AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTCATCACCTT
** * * *
456439 AGATAACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTT
1 AGATGGCCAGAAC-TCCTCATCACGTAGGAGCCGTGTCATCACC-TT
* *
456485 AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTC-CC--
1 AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTCA-TCACCTT
* **
456528 AGA---CCAGATCTCCTCATCACGTAGGAGCCGTGTCA--ACCAC
1 AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTCATCACCTT
** * * * *
456568 AGATAACCAG-CCGTCCTCATCACGTAAGAACCGTGTTATCACCTTT
1 AGATGGCCAGAAC-TCCTCATCACGTAGGAGCCGTGTCATCACC-TT
* *
456614 AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTC-CC--
1 AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTCA-TCACCTT
* * *
456657 AGA---CCAGATCTCCTCATCACGTAGGAACCATGTCA-C-CCTT
1 AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTCATCACCTT
* * * * * *
456697 AGACGACCCGAACTCTTCATCACGTATGAGCAGTGTC
1 AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTC
456734 GTCCCCAACA
Statistics
Matches: 263, Mismatches: 43, Indels: 58
0.72 0.12 0.16
Matches are distributed among these distances:
38 5 0.02
39 2 0.01
40 92 0.35
41 1 0.00
42 2 0.01
43 86 0.33
45 6 0.02
46 63 0.24
47 6 0.02
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (45 bp):
AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTCATCACCTT
Found at i:456722 original size:129 final size:129
Alignment explanation
Indices: 456372--456691 Score: 568
Period size: 129 Copynumber: 2.5 Consensus size: 129
456362 CCAGCCGTCC
* * * *
456372 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
*
456437 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
66 ATAGATAACCAGCCGTCCTCATCACGTAAGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
456501 TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
*
456566 ACAGATAACCAGCCGTCCTCATCACGTAAGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
66 ATAGATAACCAGCCGTCCTCATCACGTAAGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
* *
456630 TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTCATCACGTAGGAACCATGTCA
1 TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
456692 CCCTTAGACG
Statistics
Matches: 183, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 183 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (129 bp):
TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
ATAGATAACCAGCCGTCCTCATCACGTAAGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:472117 original size:21 final size:22
Alignment explanation
Indices: 472080--472123 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
472070 GAACTTTTAC
*
472080 AAATAACTTAACCTTTT-TTTT
1 AAATAACTTAACATTTTGTTTT
*
472101 AAATAACTTAATATTTTGTTTT
1 AAATAACTTAACATTTTGTTTT
472123 A
1 A
472124 TATTTACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.52
Consensus pattern (22 bp):
AAATAACTTAACATTTTGTTTT
Found at i:475720 original size:5 final size:5
Alignment explanation
Indices: 475701--475737 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
475691 ACCAGACCAG
* *
475701 TCCAG TCCAA TCCAA TCCAA TCAAA TCCAA TCCAA TC
1 TCCAA TCCAA TCCAA TCCAA TCCAA TCCAA TCCAA TC
475738 ATGTTAGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.38, C:0.38, G:0.03, T:0.22
Consensus pattern (5 bp):
TCCAA
Found at i:507008 original size:30 final size:30
Alignment explanation
Indices: 506972--507029 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
506962 CGTTGGTCAC
*
506972 TAATAAATAACATAGTAAATCATAAAGGCA
1 TAATAAATAACACAGTAAATCATAAAGGCA
**
507002 TAATAAATGGCACAGTAAATCATAAAGG
1 TAATAAATAACACAGTAAATCATAAAGG
507030 TAGATTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.22
Consensus pattern (30 bp):
TAATAAATAACACAGTAAATCATAAAGGCA
Found at i:507083 original size:2 final size:2
Alignment explanation
Indices: 507076--507102 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
507066 TATTAATTGA
507076 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
507103 ATCATTAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:510205 original size:23 final size:23
Alignment explanation
Indices: 510168--510231 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
510158 CAGCTCGTAT
510168 AAATGCACCGAAGTGCCACATAG
1 AAATGCACCGAAGTGCCACATAG
* * * *
510191 AATTGCACCGTAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACATAG
510214 AAATGCACCGAAGTGCCA
1 AAATGCACCGAAGTGCCA
510232 TATAAGGTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.33, C:0.27, G:0.25, T:0.16
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACATAG
Found at i:510707 original size:2 final size:2
Alignment explanation
Indices: 510696--510761 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
510686 TTCATCTTCC
510696 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
510737 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
510762 CATTTTTCCT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:516160 original size:19 final size:19
Alignment explanation
Indices: 516136--516172 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
516126 ATGACCAACA
*
516136 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
516155 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
516173 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:516483 original size:83 final size:83
Alignment explanation
Indices: 516366--516690 Score: 344
Period size: 83 Copynumber: 3.9 Consensus size: 83
516356 ACCATAAAAA
*
516366 TGGTAGCTTTAGCGGCGTTTCTT-TACAAACGCCGCAATAGGTTCATCTATAGTGGCGTTTTTTT
1 TGGTA-CTTTAGCGGCGTTT-TTATACAAACGCCGCAATAGGTTCACCTATAGTGGCGTTTTTTT
* * *
516430 TAAAAAACTCCGTAACAG-T
64 CAATAAACTCCGTAATAGAT
* * *
516449 GTGGTACTTTAGCGGCGTTTTTATATAAATGCCGCAATAGG-TCTATCTATAGTGGCG--TTTTT
1 -TGGTACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGGTTC-ACCTATAGTGGCGTTTTTTT
*
516511 CAATAAA-TGCCGCAATAGAT
64 CAATAAACT-CCGTAATAGAT
* * * *
516531 TAGTACTTTAGCGGCGTTTTTATACAAACGCCGTAATAGGGTTCACCGATAGTGGC-ATTTTTTC
1 TGGTACTTTAGCGGCGTTTTTATACAAACGCCGCAATA-GGTTCACCTATAGTGGCGTTTTTTTC
* *
516595 AATAAACGCTGTAATAGAT
65 AATAAACTCCGTAATAGAT
* * * *
516614 T-ATAACTTTGGCGGCGTTTTTATACAAACGCCGCAATAGTATTTACCTATAGTGGCG-TTTTTT
1 TGGT-ACTTTAGCGGCGTTTTTATACAAACGCCGCAATAG-GTTCACCTATAGTGGCGTTTTTTT
*
516677 CAATAAACGCCGTA
64 CAATAAACTCCGTA
516691 GTTGTTTGAA
Statistics
Matches: 207, Mismatches: 22, Indels: 25
0.81 0.09 0.10
Matches are distributed among these distances:
80 1 0.00
81 51 0.25
82 19 0.09
83 131 0.63
84 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (83 bp):
TGGTACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGGTTCACCTATAGTGGCGTTTTTTTCA
ATAAACTCCGTAATAGAT
Found at i:516569 original size:41 final size:40
Alignment explanation
Indices: 516372--516652 Score: 160
Period size: 41 Copynumber: 6.8 Consensus size: 40
516362 AAAATGGTAG
516372 CTTTAGCGGCGTTTCTT-TACAAACGCCGCAATAGGTTCAT-
1 CTTTAGCGGCGTTT-TTATACAAACGCCGCAATAGGTT-ATA
* * * * * * * **
516412 CTATAGTGGCGTTTTTTTTAAAAAACTCCGTAACAGTGTGGTA
1 CTTTAGCGGCG-TTTTTAT-ACAAACGCCGCAATAG-GTTATA
* *
516455 CTTTAGCGGCGTTTTTATATAAATGCCGCAATAGGTCTAT-
1 CTTTAGCGGCGTTTTTATACAAACGCCGCAATAGGT-TATA
* * * * *
516495 CTATAGTGGCGTTTTTCA-ATAAATGCCGCAATAGATTAGTA
1 CTTTAGCGGCGTTTTT-ATACAAACGCCGCAATAGGTTA-TA
* *
516536 CTTTAGCGGCGTTTTTATACAAACGCCGTAATAGGGTTCA-C
1 CTTTAGCGGCGTTTTTATACAAACGCCGCAATA-GGTT-ATA
** * * * * * *
516577 CGATAGTGGCATTTTT-TCAATAAACGCTGTAATAGATTATAA
1 CTTTAGCGGCGTTTTTAT--ACAAACGCCGCAATAGGTTAT-A
*
516619 CTTTGGCGGCGTTTTTATACAAACGCCGCAATAG
1 CTTTAGCGGCGTTTTTATACAAACGCCGCAATAG
516653 TATTTACCTA
Statistics
Matches: 180, Mismatches: 44, Indels: 33
0.70 0.17 0.13
Matches are distributed among these distances:
39 2 0.01
40 48 0.27
41 71 0.39
42 46 0.26
43 13 0.07
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTATACAAACGCCGCAATAGGTTATA
Found at i:516630 original size:164 final size:166
Alignment explanation
Indices: 516372--516688 Score: 403
Period size: 164 Copynumber: 1.9 Consensus size: 166
516362 AAAATGGTAG
* * * *
516372 CTTTAGCGGCGTTTCTTTACAAACGCCGCAATAGGTTCATCTATAGTGGCGTTTTTTTTAAAAAA
1 CTTTAGCGGCGTTTCTTTACAAACGCCGCAATAGGTTCACCGATAGTGGCGATTTTTTCAAAAAA
* * * * * *
516437 CTCCGTAACAGTGTGGTACTTTAGCGGCGTTTTTATATAAATGCCGCAATAG-GTCTATCTATAG
66 CGCCGTAACAGTGTGATACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGTATCTACCTATAG
*
516501 TGGCG-TTTTTCAATAAATGCCGCAATAGATTAGTA
131 TGGCGTTTTTTCAATAAACGCCGCAATAGATTAGTA
* *
516536 CTTTAGCGGCGTTT-TTATACAAACGCCGTAATAGGGTTCACCGATAGTGGC-ATTTTTTCAATA
1 CTTTAGCGGCGTTTCTT-TACAAACGCCGCAATA-GGTTCACCGATAGTGGCGATTTTTTCAAAA
* * * *
516599 AACGCTGTAATAGAT-T-ATAACTTTGGCGGCGTTTTTATACAAACGCCGCAATAGTATTTACCT
64 AACGCCGTAACAG-TGTGAT-ACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGTATCTACCT
516662 ATAGTGGCGTTTTTTCAATAAACGCCG
127 ATAGTGGCGTTTTTTCAATAAACGCCG
516689 TAGTTGTTTG
Statistics
Matches: 130, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
163 3 0.02
164 81 0.62
165 30 0.23
166 16 0.12
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (166 bp):
CTTTAGCGGCGTTTCTTTACAAACGCCGCAATAGGTTCACCGATAGTGGCGATTTTTTCAAAAAA
CGCCGTAACAGTGTGATACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGTATCTACCTATAG
TGGCGTTTTTTCAATAAACGCCGCAATAGATTAGTA
Found at i:520674 original size:43 final size:43
Alignment explanation
Indices: 520575--520712 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 43
520565 TCTCAACGCT
* ** **
520575 TATTGCGGCGCTTGTTTGAAAAATGCCGCTAAACAACAACACC
1 TATTGCGGCGTTTGTAAGAAAAACACCGCTAAACAACAACACC
* **
520618 TATTGCGACGTTTGTGGGAAAAACACCGCTAAACAACAACACC
1 TATTGCGGCGTTTGTAAGAAAAACACCGCTAAACAACAACACC
* * * * * *
520661 TATTGCGGTGTTTGTAAGCAAAACGCCGCTAAATATCAATACC
1 TATTGCGGCGTTTGTAAGAAAAACACCGCTAAACAACAACACC
*
520704 TACTGCGGC
1 TATTGCGGC
520713 ATTTTTTCAA
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 78 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (43 bp):
TATTGCGGCGTTTGTAAGAAAAACACCGCTAAACAACAACACC
Found at i:520935 original size:20 final size:20
Alignment explanation
Indices: 520910--520957 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
520900 TGCTGTAGTG
* *
520910 ATCGCAACGTAATTCTGACT
1 ATCGCAACGCAATACTGACT
*
520930 ATCGCAACGCGATACTGACT
1 ATCGCAACGCAATACTGACT
*
520950 GTCGCAAC
1 ATCGCAAC
520958 ACGATTTTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCAATACTGACT
Found at i:520962 original size:20 final size:20
Alignment explanation
Indices: 520924--520979 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
520914 CAACGTAATT
* *
520924 CTGACTATCGCAACGCGATA
1 CTGACTGTCGCAACACGATA
*
520944 CTGACTGTCGCAACACGATT
1 CTGACTGTCGCAACACGATA
*
520964 TTGACTGTCGCAACAC
1 CTGACTGTCGCAACAC
520980 TGAATTTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (20 bp):
CTGACTGTCGCAACACGATA
Found at i:521827 original size:24 final size:24
Alignment explanation
Indices: 521799--521852 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
521789 TATTCGAAAA
521799 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
521823 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
521847 TTTGAT
1 TTTGAT
521853 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:522071 original size:14 final size:14
Alignment explanation
Indices: 522042--522079 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
522032 AGAAAAAGAA
522042 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
522057 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
522071 GAA-AAAAAT
1 GAAGAAAAAT
522080 GCCACGGGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 5 0.24
14 10 0.48
15 6 0.29
ACGTcount: A:0.53, C:0.21, G:0.18, T:0.08
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:524138 original size:18 final size:18
Alignment explanation
Indices: 524115--524149 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
524105 AGAAAAAGGC
*
524115 AATCAAAATCTCAATCAA
1 AATCAAAATCCCAATCAA
524133 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
524150 CAACCGGCTT
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:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:524461 original size:140 final size:140
Alignment explanation
Indices: 524209--524478 Score: 495
Period size: 140 Copynumber: 1.9 Consensus size: 140
524199 AAACGTTGTA
*
524209 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGTTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
* * *
524274 TGATCTGTTCAGCTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAACTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTAACTAT
524339 TATGTGTATT
131 TATGTGTATT
524349 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
*
524414 TGATATGTTCAATTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTAACTAT
66 TGATATGTTCAACTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTAACTAT
524479 CGCAACGCGA
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 125 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
TGATATGTTCAACTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTAACTAT
TATGTGTATT
Found at i:524479 original size:20 final size:20
Alignment explanation
Indices: 524449--524707 Score: 212
Period size: 20 Copynumber: 13.8 Consensus size: 20
524439 TTACACATTC
*
524449 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
524469 ATTTAACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
524489 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
* * *
524508 A----A-AATCACAACACGA
1 ATTTGACTATCGCAACGCGA
*
524523 ATTTGACTATCGTAACGC-A
1 ATTTGACTATCGCAACGCGA
* *
524542 A----A-AATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
524557 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
524577 ATTTGACTATTGCAACACGA
1 ATTTGACTATCGCAACGCGA
* * *
524597 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
524617 ATTTGACTATCGCAA-G-G-
1 ATTTGACTATCGCAACGCGA
**
524634 A---GAAAATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
524651 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
524671 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
524691 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
524708 AGAAAATTAT
Statistics
Matches: 188, Mismatches: 33, Indels: 36
0.73 0.13 0.14
Matches are distributed among these distances:
14 25 0.13
15 7 0.04
16 1 0.01
17 2 0.01
18 1 0.01
19 7 0.04
20 145 0.77
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:524534 original size:34 final size:34
Alignment explanation
Indices: 524481--524574 Score: 134
Period size: 34 Copynumber: 2.8 Consensus size: 34
524471 TTAACTATCG
* *
524481 CAACGCGAATTTGATTATCGCAACTCAAAAATCA
1 CAACGCGAATTTGACTATCGCAACGCAAAAATCA
* * *
524515 CAACACGAATTTGACTATCGTAACGCAAAAATCG
1 CAACGCGAATTTGACTATCGCAACGCAAAAATCA
*
524549 CAACGTGAATTTGACTATCGCAACGC
1 CAACGCGAATTTGACTATCGCAACGC
524575 GAATTTGACT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.22
Consensus pattern (34 bp):
CAACGCGAATTTGACTATCGCAACGCAAAAATCA
Found at i:524643 original size:74 final size:74
Alignment explanation
Indices: 524565--524747 Score: 276
Period size: 74 Copynumber: 2.5 Consensus size: 74
524555 GAATTTGACT
*
524565 ATCGCAACGCGAATTTGACTATTGCAACACGAATTTGATTATCGCAACGGGTATTTGACTATCGC
1 ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGATTATCGCAACGGGTATTTGACTATCGC
*
524630 AAGGAGAAA
66 AACGAGAAA
*
524639 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGC
1 ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGATTATCGCAACGGGTATTTGACTATCGC
524704 AACGAGAAA
66 AACGAGAAA
*** * * * *
524713 ATTATAAAGCGTATTAGACTATCGCAACGCGAATT
1 ATCGCAACGCGAATTTGACTATCGCAACACGAATT
524748 GACTTTCGCG
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 100 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (74 bp):
ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGATTATCGCAACGGGTATTTGACTATCGC
AACGAGAAA
Found at i:524686 original size:94 final size:93
Alignment explanation
Indices: 524457--524707 Score: 298
Period size: 94 Copynumber: 2.7 Consensus size: 93
524447 TCATTTGAAT
* * * *
524457 ATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGATTATCGCAACTC-AA----AAATCACA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACACGAATTTGATATCGCA
* *
524517 ACACGAATTTGACTATCGTAACGCAAAA
66 ACGCGAATTTGACTATCGCAACGCAAAA
* * *
524545 ATCGCAACGTGAATTTGACTATCGCAACGCGAATTTGACTATTGCAACACGAATTTGATTATCGC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACACGAATTTGA-TATCGC
* * *
524610 AACGGGTATTTGACTATCGCAA-GGAGAAA
65 AACGCGAATTTGACTATCGCAACGCA-AAA
** *
524639 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACACGAATTTGA-TATCGC
524704 AACG
65 AACG
524708 AGAAAATTAT
Statistics
Matches: 137, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
88 45 0.33
89 2 0.01
93 3 0.02
94 87 0.64
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (93 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACACGAATTTGATATCGCA
ACGCGAATTTGACTATCGCAACGCAAAA
Found at i:524727 original size:34 final size:34
Alignment explanation
Indices: 524610--524741 Score: 111
Period size: 34 Copynumber: 3.7 Consensus size: 34
524600 TGATTATCGC
* * ***
524610 AACGGGTATTTGACTATCGCAAGGAGAAAATCGC
1 AACGCGTATTTGACTATCGCAACGAGAAAATTAT
* * *
524644 AACGCGAATTTGACTATCGCAACGCGAATTTGATTAT
1 AACGCGTATTTGACTATCGCAACGAGAA---AATTAT
*
524681 CGCAACGGGTATTTGACTATCGCAACGAGAAAATTAT
1 ---AACGCGTATTTGACTATCGCAACGAGAAAATTAT
* *
524718 AAAGCGTATTAGACTATCGCAACG
1 AACGCGTATTTGACTATCGCAACG
524742 CGAATTGACT
Statistics
Matches: 77, Mismatches: 15, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
34 45 0.58
37 7 0.09
40 25 0.32
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (34 bp):
AACGCGTATTTGACTATCGCAACGAGAAAATTAT
Found at i:524934 original size:15 final size:14
Alignment explanation
Indices: 524914--524969 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
524904 TTATTTACAC
524914 ATCAATGTTAAACAA
1 ATCAAT-TTAAACAA
**
524929 ATCAATTTTTACAA
1 ATCAATTTAAACAA
** *
524943 ATCAATTTTTATAA
1 ATCAATTTAAACAA
524957 ATCAA-TTAAACAA
1 ATCAATTTAAACAA
524970 GCAAAAAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 5 0.14
14 24 0.69
15 6 0.17
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (14 bp):
ATCAATTTAAACAA
Found at i:524944 original size:14 final size:14
Alignment explanation
Indices: 524902--524963 Score: 70
Period size: 14 Copynumber: 4.3 Consensus size: 14
524892 CACAAATAAG
*
524902 AATTATTTACACATC
1 AATT-TTTACAAATC
**
524917 AATGTTAAACAAATC
1 AAT-TTTTACAAATC
524932 AATTTTTACAAATC
1 AATTTTTACAAATC
*
524946 AATTTTTATAAATC
1 AATTTTTACAAATC
524960 AATT
1 AATT
524964 AAACAAGCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
14 26 0.65
15 13 0.32
16 1 0.03
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.40
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:526398 original size:42 final size:42
Alignment explanation
Indices: 526339--526461 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 42
526329 ATGAATCGGG
* * *
526339 CTCTTGAATGGTGGGAGGGACCTCTTCAACGTTGACAGGGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
** *
526381 CTCTTGAACGGTGGGAGGGGA-CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACCTCTTGAACGATGACAGGGGC
* *
526423 CTCTTGAACGATAGGAGAGG-CCTCTTGAACGATGACAGG
1 CTCTTGAACGGTGGGAG-GGACCTCTTGAACGATGACAGG
526462 TGAGTCAGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.01
42 62 0.93
43 4 0.06
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
Found at i:526399 original size:21 final size:21
Alignment explanation
Indices: 526339--526453 Score: 97
Period size: 21 Copynumber: 5.5 Consensus size: 21
526329 ATGAATCGGG
* *
526339 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGGTGGGAGGGGC
* * **
526360 CTCTTCAACGTTGACAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
*
526381 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGC
* **
526402 CTCTTG-AGGGATGATAGGGGC
1 CTCTTGAACGG-TGGGAGGGGC
* * *
526423 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGGTGGGAGGGGC
526444 CTCTTGAACG
1 CTCTTGAACG
526454 ATGACAGGTG
Statistics
Matches: 71, Mismatches: 21, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.04
21 66 0.93
22 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.37, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Found at i:526968 original size:19 final size:20
Alignment explanation
Indices: 526936--526978 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
526926 AATAGTTTCT
526936 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
*
526956 GAAACTT-AAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
526975 GAAA
1 GAAA
526979 ATGACTATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.49, C:0.23, G:0.14, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:526990 original size:20 final size:20
Alignment explanation
Indices: 526965--527013 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
526955 CGAAACTTAA
526965 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
526985 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
527005 ATCGCAACG
1 ATCGCAACG
527014 GGATAATCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:527112 original size:19 final size:20
Alignment explanation
Indices: 527085--527123 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
527075 GCAACGCAAA
*
527085 TTTAGTTTCGCGTTGCGATT
1 TTTAGTTTCGCATTGCGATT
527105 TTTA-TTTCGCATTGCGATT
1 TTTAGTTTCGCATTGCGATT
527124 ATCCCGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.13, C:0.15, G:0.21, T:0.51
Consensus pattern (20 bp):
TTTAGTTTCGCATTGCGATT
Found at i:527153 original size:20 final size:20
Alignment explanation
Indices: 527128--527176 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
527118 GCGATTATCC
527128 CGTTGCGATAGTCAACTTCG
1 CGTTGCGATAGTCAACTTCG
**
527148 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAACTTCG
*
527168 CGATGCGAT
1 CGTTGCGAT
527177 TTAAGTTTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAACTTCG
Found at i:529107 original size:20 final size:20
Alignment explanation
Indices: 529084--529199 Score: 93
Period size: 20 Copynumber: 6.2 Consensus size: 20
529074 GAAACTTAAA
529084 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
529104 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
*
529124 ATCGC-A-ACG-AGAT-A--
1 ATCGCAACACGAAAATGACT
* **
529138 ATCGCAACGCG-AAATGAAA
1 ATCGCAACACGAAAATGACT
529157 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
529177 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
529197 ATC
1 ATC
529200 ATTGTGATTT
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
14 5 0.07
15 1 0.01
16 6 0.08
17 3 0.04
18 2 0.03
19 11 0.14
20 48 0.63
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:529164 original size:53 final size:54
Alignment explanation
Indices: 529083--529185 Score: 145
Period size: 53 Copynumber: 1.9 Consensus size: 54
529073 TGAAACTTAA
** * **
529083 AATCGCAACACGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGAGAT
1 AATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACTATCGCAACGAGAT
*
529137 AATCGCAACGCG-AAATGAAAATCGCAACACGAAAATGACTATCGCAACG
1 AATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACTATCGCAACG
529186 CGAATTTGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 32 0.74
54 11 0.26
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (54 bp):
AATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACTATCGCAACGAGAT
Found at i:529632 original size:22 final size:22
Alignment explanation
Indices: 529575--529632 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
529565 GATGGAGATA
529575 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
* * *
529597 GATGAATTTTGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
*
529619 GACGGATGTCGTCG
1 GACGGATTTCGTCG
529633 TAGAGAGTGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.12, G:0.43, T:0.26
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:529830 original size:41 final size:41
Alignment explanation
Indices: 529776--529877 Score: 159
Period size: 41 Copynumber: 2.5 Consensus size: 41
529766 GAAAATCGCA
* * * *
529776 TTGCAATTTTGTATTATCGTGTTGCGATAGTTAGAATCACG
1 TTGCGATTATGTATTATCGCGTTGCGATAGTCAGAATCACG
*
529817 TTGCGATTATGTATTATCGCGTTGCGATAGTCAGAATCGCG
1 TTGCGATTATGTATTATCGCGTTGCGATAGTCAGAATCACG
529858 TTGCGATTATGTATTATCGC
1 TTGCGATTATGTATTATCGC
529878 ATTGTGATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.39
Consensus pattern (41 bp):
TTGCGATTATGTATTATCGCGTTGCGATAGTCAGAATCACG
Found at i:529841 original size:21 final size:21
Alignment explanation
Indices: 529770--529886 Score: 89
Period size: 21 Copynumber: 5.7 Consensus size: 21
529760 CGCTTTGAAA
* * *
529770 ATCGCATTGCAATTTTGTATT
1 ATCGCGTTGCGATTATGTATT
* **
529791 ATCGTGTTGCGA-TA-GTTAGA
1 ATCGCGTTGCGATTATG-TATT
*
529811 ATCACGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
**
529832 ATCGCGTTGCGA-TA-GTCAGA
1 ATCGCGTTGCGATTATGT-ATT
529852 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
* *
529873 ATCGCATTGTGATT
1 ATCGCGTTGCGATT
529887 TACATATTCG
Statistics
Matches: 73, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
19 3 0.04
20 28 0.38
21 39 0.53
22 3 0.04
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (21 bp):
ATCGCGTTGCGATTATGTATT
Found at i:529917 original size:20 final size:20
Alignment explanation
Indices: 529791--529924 Score: 85
Period size: 20 Copynumber: 6.6 Consensus size: 20
529781 ATTTTGTATT
* * *
529791 ATCGTGTTGCGATAGTTAGA
1 ATCGCGTTGCGATAGTCATA
* *
529811 ATCACGTTGCGATTATGT-ATT
1 ATCGCGTTGCGA-TA-GTCATA
*
529832 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCATA
*
529852 ATCGCGTTGCGATTATGT-ATT
1 ATCGCGTTGCGA-TA-GTCATA
* * *
529873 ATCGCATTGTGAT-TTACATA
1 ATCGCGTTGCGATAGT-CATA
* * *
529893 TTCGCATTGCGATAGTCAAA
1 ATCGCGTTGCGATAGTCATA
529913 ATCGCGTTGCGA
1 ATCGCGTTGCGA
529925 ATCTGAAAAT
Statistics
Matches: 87, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 52 0.60
21 28 0.32
22 4 0.05
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCATA
Found at i:530144 original size:62 final size:62
Alignment explanation
Indices: 530069--530201 Score: 239
Period size: 62 Copynumber: 2.1 Consensus size: 62
530059 TTATTTTCTC
* *
530069 TAATAAAAACCCATAGTGCTATTATTATTAATAAAAAGGTAGAAGCATTATAATTAAAATAA
1 TAATAAAAGCCCATAGTGCTATCATTATTAATAAAAAGGTAGAAGCATTATAATTAAAATAA
*
530131 TAATAAAAGCCCATAGTGCTATCATTATTAATAAAAAGGTAGAAGTATTATAATTAAAATAA
1 TAATAAAAGCCCATAGTGCTATCATTATTAATAAAAAGGTAGAAGCATTATAATTAAAATAA
530193 TAATAAAAG
1 TAATAAAAG
530202 AGAAAATAAC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 68 1.00
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.30
Consensus pattern (62 bp):
TAATAAAAGCCCATAGTGCTATCATTATTAATAAAAAGGTAGAAGCATTATAATTAAAATAA
Found at i:530488 original size:101 final size:101
Alignment explanation
Indices: 530303--530498 Score: 223
Period size: 101 Copynumber: 1.9 Consensus size: 101
530293 TACGATCTCA
* * * * *
530303 AAATCACAACGCGATTTCTAATATTGCAAATCAGTTTCCAGATTCGCAACGCGATTTTGACTATC
1 AAATCACAACGCGATCTCCAATATCGCAAATCAGTTTCCAGATTCGCAACGCGAATTTGACAATC
* ** ** * * *
530368 GTATTGCGATTTTAGAAAATTGCAATGCGAATATGT
66 GCAACGCGATAATACAAAATCGCAACGCGAATATGT
* * * *
530404 AAATCGCAACGCGATCTCCAGTATCGCAAATCAGTTTCCAGATTCGCAATGTGAATTTGTA-AAT
1 AAATCACAACGCGATCTCCAATATCGCAAATCAGTTTCCAGATTCGCAACGCGAATTTG-ACAAT
530468 CGCAACGCGATAATACAAAATCGCAACGCGA
65 CGCAACGCGATAATACAAAATCGCAACGCGA
530499 TAATATAGAA
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
101 76 0.99
102 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (101 bp):
AAATCACAACGCGATCTCCAATATCGCAAATCAGTTTCCAGATTCGCAACGCGAATTTGACAATC
GCAACGCGATAATACAAAATCGCAACGCGAATATGT
Found at i:530579 original size:41 final size:41
Alignment explanation
Indices: 530465--530647 Score: 140
Period size: 41 Copynumber: 4.3 Consensus size: 41
530455 TGAATTTGTA
*
530465 AATCGCAACGCGATAATACAAAATCGCAACGCGATAATAT-AG
1 AATCGCAACGCGATAATACAAAATCGCAACGCG--AATATGAC
**** ** * *
530507 AATCGTGTTTTTGCGATTTTAGAAAATCGCAATGCGAATATGTA-
1 AATC--G-CAACGCGATAATACAAAATCGCAACGCGAATATG-AC
* * *
530551 AATCGCAACGTGATAATACAAAATCGCAACGCGATTCTGAC
1 AATCGCAACGCGATAATACAAAATCGCAACGCGAATATGAC
*
530592 TATCGCAACGCGATAATACAAAATCGCAACGCG-ATAAT-AC
1 AATCGCAACGCGATAATACAAAATCGCAACGCGAAT-ATGAC
530632 ATAATCGCAACGCGAT
1 --AATCGCAACGCGAT
530648 TCATGCTATC
Statistics
Matches: 108, Mismatches: 24, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
40 4 0.04
41 55 0.51
42 18 0.17
43 5 0.05
44 5 0.05
45 21 0.19
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.22
Consensus pattern (41 bp):
AATCGCAACGCGATAATACAAAATCGCAACGCGAATATGAC
Found at i:530628 original size:62 final size:62
Alignment explanation
Indices: 530466--530682 Score: 224
Period size: 62 Copynumber: 3.5 Consensus size: 62
530456 GAATTTGTAA
* * **** * *
530466 ATCGCAACGCGATAATACAAAATCGCAACGCGATAATATAGAATCGTGTTTTTGCGATTTTAGAA
1 ATCGCAACGCGATAATACAAAATCGCAACGCGATAATACAAAATC--G-CAACGCGATTCT-GAC
*
530531 A
62 T
* ** *
530532 ATCGCAATGCG--AATATGTAAATCGCAACGTGATAATACAAAATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATAATA-CAAAATCGCAACGCGATAATACAAAATCGCAACGCGATTCTGACT
*
530593 ATCGCAACGCGATAATACAAAATCGCAACGCGATAATACATAATCGCAACGCGATTCATG-CT
1 ATCGCAACGCGATAATACAAAATCGCAACGCGATAATACAAAATCGCAACGCGATTC-TGACT
*
530655 ATCGCAATGCGATAATACAAAATCGCAA
1 ATCGCAACGCGATAATACAAAATCGCAA
530683 TGCAATTTTC
Statistics
Matches: 128, Mismatches: 19, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
61 12 0.09
62 72 0.56
63 7 0.05
64 4 0.03
65 23 0.18
66 10 0.08
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (62 bp):
ATCGCAACGCGATAATACAAAATCGCAACGCGATAATACAAAATCGCAACGCGATTCTGACT
Found at i:530685 original size:21 final size:21
Alignment explanation
Indices: 530464--530682 Score: 153
Period size: 21 Copynumber: 10.4 Consensus size: 21
530454 GTGAATTTGT
530464 AAATCGCAACGCGATAATACA
1 AAATCGCAACGCGATAATACA
*
530485 AAATCGCAACGCGATAATATA
1 AAATCGCAACGCGATAATACA
* **** ** *
530506 GAATCGTGTTTTTGCGATTTTAGA
1 AAATC--G-CAACGCGATAATACA
* **
530530 AAATCGCAATGCG--AATATGT
1 AAATCGCAACGCGATAATA-CA
*
530550 AAATCGCAACGTGATAATACA
1 AAATCGCAACGCGATAATACA
**
530571 AAATCGCAACGCGATTCTGAC-
1 AAATCGCAACGCGATAAT-ACA
*
530592 -TATCGCAACGCGATAATACA
1 AAATCGCAACGCGATAATACA
530612 AAATCGCAACGCGATAATACA
1 AAATCGCAACGCGATAATACA
* * *
530633 TAATCGCAACGCGATTCATGC-
1 AAATCGCAACGCGA-TAATACA
* *
530654 -TATCGCAATGCGATAATACA
1 AAATCGCAACGCGATAATACA
530674 AAATCGCAA
1 AAATCGCAA
530683 TGCAATTTTC
Statistics
Matches: 151, Mismatches: 35, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
19 8 0.05
20 37 0.25
21 82 0.54
22 11 0.07
23 1 0.01
24 12 0.08
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (21 bp):
AAATCGCAACGCGATAATACA
Found at i:530827 original size:10 final size:11
Alignment explanation
Indices: 530787--530824 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
530777 CGTATGACTA
530787 CGACCACGACC
1 CGACCACGACC
*
530798 ACGACCATGACC
1 -CGACCACGACC
530810 CGACC-CGACC
1 CGACCACGACC
530820 CGACC
1 CGACC
530825 CGAGATGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 5 0.21
12 10 0.42
ACGTcount: A:0.26, C:0.53, G:0.18, T:0.03
Consensus pattern (11 bp):
CGACCACGACC
Found at i:531155 original size:19 final size:20
Alignment explanation
Indices: 531131--531220 Score: 94
Period size: 19 Copynumber: 4.3 Consensus size: 20
531121 TTATTTTGGT
531131 TTTTTCACTATCGCAACAC-
1 TTTTTCACTATCGCAACACA
*
531150 TTTTTCACTATTGTAACAACACA
1 TTTTTCACTATCG---CAACACA
*
531173 TTTTTCAAACTCTCGCAACACA
1 TTTTTC--ACTATCGCAACACA
*
531195 -TTTTAACTATCGCAACACA
1 TTTTTCACTATCGCAACACA
531214 TTTTTCA
1 TTTTTCA
531221 AAATCGCGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
19 25 0.43
20 5 0.09
21 4 0.07
22 13 0.22
23 6 0.10
25 5 0.09
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (20 bp):
TTTTTCACTATCGCAACACA
Found at i:535231 original size:32 final size:34
Alignment explanation
Indices: 535195--535264 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
535185 ACCTTACAAC
*
535195 TCCCTAG-TTTTTC-CGGGATAAACTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
* *
535227 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
535261 TCCC
1 TCCC
535265 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
Found at i:535574 original size:21 final size:21
Alignment explanation
Indices: 535548--535589 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
535538 CCAGAATGGG
*
535548 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
535569 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
535590 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:535798 original size:29 final size:31
Alignment explanation
Indices: 535766--535824 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 31
535756 AAATTTTGAA
*
535766 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
535795 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATTCAAGTCCAAAAACCATTTT
535825 TCCTTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.41
30 10 0.37
31 6 0.22
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:538017 original size:32 final size:34
Alignment explanation
Indices: 537981--538050 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
537971 ACCTTACAAC
*
537981 TCCCTAG-TTTTTC-CGGGATAAACTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
* *
538013 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
538047 TCCC
1 TCCC
538051 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
Found at i:538360 original size:21 final size:21
Alignment explanation
Indices: 538334--538375 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
538324 CCAGAATGGG
*
538334 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
538355 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
538376 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:538617 original size:29 final size:31
Alignment explanation
Indices: 538585--538644 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
538575 AAATTTTGAA
*
538585 TAAATTCAATT-AAGTCCAAATA-CATTTTT
1 TAAATTCAATTCAAGTCCAAAAATCATTTTT
538614 TAAATTCAATTCAAGTCCAAAAATCATTTTT
1 TAAATTCAATTCAAGTCCAAAAATCATTTTT
538645 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAATCATTTTT
Found at i:539058 original size:20 final size:20
Alignment explanation
Indices: 539033--539079 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
539023 TTTGCATACA
*
539033 TGCATTTGTATTCCTATTTC
1 TGCATTTGTATTCCCATTTC
539053 TGCATTTGTATTCCCATTTC
1 TGCATTTGTATTCCCATTTC
539073 TGCATTT
1 TGCATTT
539080 TCACATTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.21, G:0.11, T:0.53
Consensus pattern (20 bp):
TGCATTTGTATTCCCATTTC
Found at i:542674 original size:22 final size:22
Alignment explanation
Indices: 542641--542684 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
542631 TACATCAGAG
542641 GAAAAGAAAAAA-ATAAAAGAAA
1 GAAAAGAAAAAACA-AAAAGAAA
542663 GAAAA-AAGAAAACAAAAAGAAA
1 GAAAAGAA-AAAACAAAAAGAAA
542685 AAAGAGATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.10
22 17 0.85
23 1 0.05
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (22 bp):
GAAAAGAAAAAACAAAAAGAAA
Found at i:542688 original size:18 final size:18
Alignment explanation
Indices: 542642--542689 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
542632 ACATCAGAGG
542642 AAAAGAAAAAA-ATAAAA
1 AAAAGAAAAAAGATAAAA
*
542659 GAAAGAAAAAAGA-AAACA
1 AAAAGAAAAAAGATAAA-A
542677 AAAAGAAAAAAGA
1 AAAAGAAAAAAGA
542690 GATTGAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAAGATAAAA
Found at i:544264 original size:49 final size:51
Alignment explanation
Indices: 544198--544326 Score: 147
Period size: 52 Copynumber: 2.6 Consensus size: 51
544188 ATGTCCATAT
* * ** *
544198 TATCCATGT-GGGTATCTTGAAAGCTCACATCGGCAT-AAAAAGATAGAAG
1 TATCCATGTGGGGCATCTTGAAGGCTCACATCAACATGAAAAAGACAGAAG
* * *
544247 T-TTCATGTGGGGCATCTTGAAGGCCCACATCAACGTGAAAAAGACAGAAG
1 TATCCATGTGGGGCATCTTGAAGGCTCACATCAACATGAAAAAGACAGAAG
*
544297 TAATCCATGTGGGGCATTTTGAAGGCTCAC
1 T-ATCCATGTGGGGCATCTTGAAGGCTCAC
544327 CTTAGTATGA
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
48 6 0.09
49 22 0.34
50 13 0.20
52 24 0.37
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (51 bp):
TATCCATGTGGGGCATCTTGAAGGCTCACATCAACATGAAAAAGACAGAAG
Found at i:544339 original size:52 final size:50
Alignment explanation
Indices: 544200--544322 Score: 133
Period size: 49 Copynumber: 2.5 Consensus size: 50
544190 GTCCATATTA
* * * ** *
544200 TCCATGT-GGGTATCTTGAAAGCTCACATCGGCAT-AAAAAGATAGAAGT
1 TCCATGTGGGGCATCTTGAAGGCCCACATCAACATGAAAAAGACAGAAGT
* *
544248 TTCATGTGGGGCATCTTGAAGGCCCACATCAACGTGAAAAAGACAGAAGT
1 TCCATGTGGGGCATCTTGAAGGCCCACATCAACATGAAAAAGACAGAAGT
*
544298 AATCCATGTGGGGCATTTTGAAGGC
1 --TCCATGTGGGGCATCTTGAAGGC
544323 TCACCTTAGT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
48 6 0.10
49 21 0.34
50 13 0.21
52 21 0.34
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (50 bp):
TCCATGTGGGGCATCTTGAAGGCCCACATCAACATGAAAAAGACAGAAGT
Found at i:545536 original size:20 final size:20
Alignment explanation
Indices: 545508--545546 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
545498 TTTCCCAATG
* *
545508 ATCTGTAAAACCTCTGGGTT
1 ATCTCTAAAACCTCAGGGTT
545528 ATCTCTAAAACCTCAGGGT
1 ATCTCTAAAACCTCAGGGT
545547 AGGATGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (20 bp):
ATCTCTAAAACCTCAGGGTT
Found at i:545684 original size:100 final size:100
Alignment explanation
Indices: 545502--545746 Score: 296
Period size: 100 Copynumber: 2.5 Consensus size: 100
545492 AAATTATTTC
* * * * * *
545502 CCAATGATCTGTAAAACCTCTGGGTTATCTCTAAAACCTCAGGGTAGGATGTTTTCACATGAAAA
1 CCAAAGATATGTAAAACCTCCGGGTAATCTGTAAAACCTCAGGGTAGGATATTTTCACATGAAAA
*
545567 TGAGAAAGCGATTTTCAAAGTTTCTCATTTAATGT
66 TGAGAAAGCAATTTTCAAAGTTTCTCATTTAATGT
* * * *
545602 CCAAAGATTTGTAAAGCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATATTTTCGCATGAAAA
1 CCAAAGATATGTAAAACCTCCGGGTAATCTGTAAAACCTCAGGGTAGGATATTTTCACATGAAAA
* * *
545667 TGAGAAAGTAATTTTCAAAGTTTTTCGTTTAATGT
66 TGAGAAAGCAATTTTCAAAGTTTCTCATTTAATGT
* * * * *
545702 TC-AAGAAAAT-TAAATCCTCCGGGTAATTTGTAAAACCTCTGGGTA
1 CCAAAG-ATATGTAAAACCTCCGGGTAATCTGTAAAACCTCAGGGTA
545747 ATTTATAAAT
Statistics
Matches: 125, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
99 34 0.27
100 91 0.73
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (100 bp):
CCAAAGATATGTAAAACCTCCGGGTAATCTGTAAAACCTCAGGGTAGGATATTTTCACATGAAAA
TGAGAAAGCAATTTTCAAAGTTTCTCATTTAATGT
Found at i:545740 original size:20 final size:20
Alignment explanation
Indices: 545712--545786 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
545702 TCAAGAAAAT
* *
545712 TAAATCCTCCGGGTAATTTG
1 TAAAACCTCTGGGTAATTTG
*
545732 TAAAACCTCTGGGTAATTTA
1 TAAAACCTCTGGGTAATTTG
* * *
545752 TAAATCCTCTGGGTCATCTG
1 TAAAACCTCTGGGTAATTTG
*
545772 TAAAACCTCAGGGTA
1 TAAAACCTCTGGGTA
545787 TGAAGTTTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (20 bp):
TAAAACCTCTGGGTAATTTG
Done.