Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 69 of 250
Found at i:21270179 original size:79 final size:81
Alignment explanation
Indices: 21270070--21270252 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
21270060 TACTCGTTCA
* *
21270070 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
21270133 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
21270150 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
21270213 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
21270229 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
21270253 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:21270252 original size:40 final size:40
Alignment explanation
Indices: 21270049--21270252 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
21270039 CGGAATTTAA
** *
21270049 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21270089 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21270129 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21270168 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
21270208 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21270248 CCGGA
1 CCGGA
21270253 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21273123 original size:46 final size:46
Alignment explanation
Indices: 21273073--21273245 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
21273063 TGGTTGAGCA
*
21273073 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
21273119 TCCGAACTCGTTGAGCTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
**
21273164 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21273212 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
21273246 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.56
47 28 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21273232 original size:93 final size:93
Alignment explanation
Indices: 21273070--21273240 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
21273060 GGATGGTTGA
* *** *
21273070 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAGC
21273135 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
21273163 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAGC
21273228 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
21273241 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAGC
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21279649 original size:38 final size:37
Alignment explanation
Indices: 21279598--21279674 Score: 118
Period size: 38 Copynumber: 2.1 Consensus size: 37
21279588 GCATATAGTA
* *
21279598 GCCTTTTTCTTTCTCACATTACATGAAGAAAAAACATT
1 GCCTTCTTCTTTCTCACATTACACGAAG-AAAAACATT
*
21279636 GCCTTCTTCTTTCTCACATTGCACGAAGAAAAACATT
1 GCCTTCTTCTTTCTCACATTACACGAAGAAAAACATT
21279673 GC
1 GC
21279675 ATAAGTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
37 11 0.31
38 25 0.69
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (37 bp):
GCCTTCTTCTTTCTCACATTACACGAAGAAAAACATT
Found at i:21285543 original size:20 final size:18
Alignment explanation
Indices: 21285503--21285539 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
21285493 AGTTCGTAAA
21285503 ACTAAATTGTGTATTTAT
1 ACTAAATTGTGTATTTAT
21285521 ACTAAATTGTGTATTTAT
1 ACTAAATTGTGTATTTAT
21285539 A
1 A
21285540 TACTTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (18 bp):
ACTAAATTGTGTATTTAT
Found at i:21293784 original size:37 final size:37
Alignment explanation
Indices: 21293735--21293808 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
21293725 TAAAATAATT
21293735 ATCATCAAGACAATATAGATAAACACAACTATCATAC
1 ATCATCAAGACAATATAGATAAACACAACTATCATAC
21293772 ATCATCAAGACAATATAGATAAACACAACTATCATAC
1 ATCATCAAGACAATATAGATAAACACAACTATCATAC
21293809 TTACTTAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.22
Consensus pattern (37 bp):
ATCATCAAGACAATATAGATAAACACAACTATCATAC
Found at i:21323928 original size:17 final size:18
Alignment explanation
Indices: 21323906--21323940 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
21323896 GAGATAGCTC
*
21323906 GAGTTATTAA-AGATTAT
1 GAGTTAGTAATAGATTAT
21323923 GAGTTAGTAATAGATTAT
1 GAGTTAGTAATAGATTAT
21323941 CACTGGGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (18 bp):
GAGTTAGTAATAGATTAT
Found at i:21330465 original size:53 final size:53
Alignment explanation
Indices: 21330285--21330491 Score: 216
Period size: 53 Copynumber: 3.8 Consensus size: 53
21330275 ATTAGGGTTT
* * * * *
21330285 AAGGATACCAAGTAAGACCATGCCAAGACAGGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
21330339 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
21330394 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
** *
21330447 AAGGATACCATGTAAGACCATATCAAGACATGACAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
21330492 TAAAAAGGAA
Statistics
Matches: 123, Mismatches: 28, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
53 45 0.37
54 38 0.31
55 40 0.33
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:21340533 original size:18 final size:18
Alignment explanation
Indices: 21340506--21340552 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
21340496 AACCCAAAAC
21340506 ACAAGCCTAATTCCCTAT
1 ACAAGCCTAATTCCCTAT
*
21340524 ACATGCCTAATTCCCTAT
1 ACAAGCCTAATTCCCTAT
21340542 ACAAGCCTAAT
1 ACAAGCCTAAT
21340553 AATAACAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.34, C:0.32, G:0.06, T:0.28
Consensus pattern (18 bp):
ACAAGCCTAATTCCCTAT
Found at i:21347311 original size:46 final size:45
Alignment explanation
Indices: 21347171--21347388 Score: 162
Period size: 46 Copynumber: 4.7 Consensus size: 45
21347161 GGTAAGGTGT
* *
21347171 CGATGTCATGTCCCAGACTTGGTCTTACACTAACACATC-TT-GTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACATCGTTCG-AGC
* * * *
21347217 TGATGCATGTCCTAGACAAGTCTTACACT-G-ACTTACGTTTCGATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACAT-CG-TTCGA-GC
*
21347263 CGATGCATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTCAACGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACATCGT-TCGA-GC
* * * * *
21347309 CGATGACATGTCCCAAACATGGTCTTACACTGGCTC-TCGTAAT-GTGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACATCGT--TCG-AGC
21347357 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
21347389 TCACACAAGT
Statistics
Matches: 140, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
42 3 0.02
43 1 0.01
44 10 0.07
45 15 0.11
46 57 0.41
47 28 0.20
48 25 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACATCGTTCGAGC
Found at i:21348269 original size:18 final size:18
Alignment explanation
Indices: 21348248--21348530 Score: 151
Period size: 18 Copynumber: 15.3 Consensus size: 18
21348238 GAACAATTAT
21348248 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
21348266 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
21348284 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
21348302 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* * *
21348328 TTGTCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
21348346 TTATTTAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * *
21348363 GTATTCAGTAACAATTAAG
1 TTATTCAGTAAC-AGTCAG
21348382 TTATTCAGTAACAGTCA-
1 TTATTCAGTAACAGTCAG
* *
21348399 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
21348418 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
21348436 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
21348454 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
21348472 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * * *
21348490 TTATCCGGTAACAGTTAA
1 TTATTCAGTAACAGTCAG
* *
21348508 TTATTCATTAATAGTCAG
1 TTATTCAGTAACAGTCAG
21348526 TTATT
1 TTATT
21348531 TTATACCTTT
Statistics
Matches: 198, Mismatches: 51, Indels: 32
0.70 0.18 0.11
Matches are distributed among these distances:
17 16 0.08
18 148 0.75
19 19 0.10
21 2 0.01
22 1 0.01
23 2 0.01
26 10 0.05
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:21348288 original size:36 final size:36
Alignment explanation
Indices: 21348235--21348530 Score: 186
Period size: 36 Copynumber: 8.0 Consensus size: 36
21348225 TTATTAACAA
* *
21348235 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * * **
21348270 TCGGTAACAATCAATTATTCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * *
21348306 TCAGTATCGATCAATTGATCGGTTGTCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATT-A-----T-T-CAGTAACAGTCAGTTAT
* ** * *
21348350 TTAGTAA-AATCAGGTATTCAGTAACAATTAAGTTAT
1 TCAGTAACAATCAATTATTCAGTAAC-AGTCAGTTAT
* * *
21348386 TCAGTAACAGTC-ATTCATTCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATT-ATTCAGTAACAGTCAGTTAT
** * *
21348422 TCAGTAATGATCAATTATTCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * *
21348458 TCAGTAACAGTCTAA-TATCCAGTAACAGTCAATTAT
1 TCAGTAACAATC-AATTATTCAGTAACAGTCAGTTAT
* * * * * *
21348494 CCGGTAACAGTTAATTATTCATTAATAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
21348530 T
1 T
21348531 TTATACCTTT
Statistics
Matches: 195, Mismatches: 51, Indels: 29
0.71 0.19 0.11
Matches are distributed among these distances:
35 12 0.06
36 139 0.71
37 19 0.10
42 2 0.01
43 6 0.03
44 17 0.09
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
Found at i:21351000 original size:35 final size:35
Alignment explanation
Indices: 21350942--21351038 Score: 108
Period size: 36 Copynumber: 2.7 Consensus size: 35
21350932 AGCATAAATT
* *
21350942 TATAAATATTCAATATGATAAAA-TAATTCAATAA
1 TATAAATAGTGAATATGATAAAATTAATTCAATAA
* *
21350976 TATAGATAGTAGAATATG-TGAAAATTAATTTAATAA
1 TATAAATAGT-GAATATGAT-AAAATTAATTCAATAA
*
21351012 TATAAATAGTGAATATAAATAAAATTA
1 TATAAATAGTGAATAT-GATAAAATTA
21351039 TTATTTAGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
34 9 0.17
35 16 0.31
36 26 0.50
37 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (35 bp):
TATAAATAGTGAATATGATAAAATTAATTCAATAA
Found at i:21351261 original size:30 final size:30
Alignment explanation
Indices: 21351221--21351277 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21351211 GGGATAGGAG
21351221 GGGAGCAAAAGTTATGGG-GGTAAAGTGGGA
1 GGGAGCAAAAGTTATGGGAGG-AAAGTGGGA
* *
21351251 GGGAGTAAAAGTTTTGGGAGGAAAGTG
1 GGGAGCAAAAGTTATGGGAGGAAAGTG
21351278 AAGAGGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.46, T:0.19
Consensus pattern (30 bp):
GGGAGCAAAAGTTATGGGAGGAAAGTGGGA
Found at i:21356408 original size:27 final size:26
Alignment explanation
Indices: 21356378--21356484 Score: 87
Period size: 28 Copynumber: 4.0 Consensus size: 26
21356368 GATTCAAAAA
*
21356378 TATATATTAAGTCCGCACACTCAGTGC
1 TATATATTAA-TCCGCACACTTAGTGC
*
21356405 TATATAATCAA-CTCGCACACTTAGTGC
1 TATAT-ATTAATC-CGCACACTTAGTGC
21356432 --TATA-TAATCTCGCACACTTAGTGC
1 TATATATTAATC-CGCACACTTAGTGC
* * *
21356456 TATATAATCAAACTCACACACTTAGTGC
1 TATAT-ATTAATC-CGCACACTTAGTGC
21356484 T
1 T
21356485 GTACAATTTA
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
23 2 0.03
24 17 0.25
25 3 0.04
26 4 0.06
27 19 0.28
28 22 0.33
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (26 bp):
TATATATTAATCCGCACACTTAGTGC
Found at i:21356409 original size:29 final size:27
Alignment explanation
Indices: 21356391--21356484 Score: 122
Period size: 24 Copynumber: 3.6 Consensus size: 27
21356381 ATATTAAGTC
21356391 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
21356418 CGCACACTTAGTGCTATATAAT---CT
1 CGCACACTCAGTGCTATATAATCAACT
*
21356442 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* *
21356470 CACACACTTAGTGCT
1 CGCACACTCAGTGCT
21356485 GTACAATTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
24 24 0.39
27 21 0.34
28 16 0.26
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.29
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:21356507 original size:29 final size:28
Alignment explanation
Indices: 21356390--21356509 Score: 106
Period size: 24 Copynumber: 4.4 Consensus size: 28
21356380 TATATTAAGT
* *
21356390 CCGCACACTCAGTGCTATATAATC-AAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
21356417 TCGCACACTTAGTGCTAT---AT-AATC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
21356441 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * * *
21356469 TCACACACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTATACAA-TCAAAC
21356498 CCGCACACTTAG
1 CCGCACACTTAG
21356510 CGCCAATCTC
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
24 22 0.29
27 18 0.23
28 22 0.29
29 15 0.19
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:21364495 original size:28 final size:28
Alignment explanation
Indices: 21364432--21364557 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
21364422 ATATTAAGTC
*
21364432 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
21364459 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
21364487 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
21364515 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
21364544 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21364558 CAATCTCATG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.24
28 51 0.55
29 19 0.21
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:21367497 original size:47 final size:46
Alignment explanation
Indices: 21367402--21367497 Score: 174
Period size: 46 Copynumber: 2.0 Consensus size: 46
21367392 AATGTTTAAT
21367402 AAACATATATATTATTTTAAATAACTTTAACATATAAAAAAGTAAA
1 AAACATATATATTATTTTAAATAACTTTAACATATAAAAAAGTAAA
21367448 AAACATATATATTATTTTAATATAACTTTAACATATAAAATAAGTAAA
1 AAACATATATATTATTTTAA-ATAACTTTAACATATAAAA-AAGTAAA
21367496 AA
1 AA
21367498 TCAAGCCTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 20 0.42
47 19 0.40
48 9 0.19
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.35
Consensus pattern (46 bp):
AAACATATATATTATTTTAAATAACTTTAACATATAAAAAAGTAAA
Found at i:21367896 original size:14 final size:14
Alignment explanation
Indices: 21367858--21367896 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
21367848 TTCTAGAAAT
21367858 TTTAGTATTTAATA
1 TTTAGTATTTAATA
* * *
21367872 TTTTGTTTTTATTA
1 TTTAGTATTTAATA
21367886 TTTAGTATTTA
1 TTTAGTATTTA
21367897 GGTAGTAAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (14 bp):
TTTAGTATTTAATA
Found at i:21372626 original size:21 final size:20
Alignment explanation
Indices: 21372602--21372640 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
21372592 AAACTTGTAT
21372602 ATCTATCAACAAGCATTCATA
1 ATCTATCAACAAGC-TTCATA
*
21372623 ATCTATCAATAAGCTTCA
1 ATCTATCAACAAGCTTCA
21372641 AAATACATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (20 bp):
ATCTATCAACAAGCTTCATA
Found at i:21374342 original size:16 final size:15
Alignment explanation
Indices: 21374307--21374342 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
21374297 CAAAATTAAT
21374307 ATTTTTACAATATCC
1 ATTTTTACAATATCC
21374322 ATTTTTACAATA-CTC
1 ATTTTTACAATATC-C
21374337 ATTTTT
1 ATTTTT
21374343 CTTTAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 1 0.05
15 19 0.95
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTTACAATATCC
Found at i:21379009 original size:23 final size:23
Alignment explanation
Indices: 21378961--21379013 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
21378951 TATTTCTAAT
* * *
21378961 TTCGAGTTAATTGAATTGAGTTA
1 TTCGAGTCAATTGAATTAAGTAA
21378984 TTCGAGTCAACTTGAA-TAAGTAA
1 TTCGAGTCAA-TTGAATTAAGTAA
21379007 TTCGAGT
1 TTCGAGT
21379014 TTCGAGTTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (23 bp):
TTCGAGTCAATTGAATTAAGTAA
Found at i:21386425 original size:11 final size:11
Alignment explanation
Indices: 21386409--21386434 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21386399 ATAAAGGAGG
21386409 AAAAAGAAAAA
1 AAAAAGAAAAA
21386420 AAAAAGAAAAA
1 AAAAAGAAAAA
21386431 AAAA
1 AAAA
21386435 GAGGATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:21389007 original size:48 final size:47
Alignment explanation
Indices: 21388901--21389468 Score: 246
Period size: 47 Copynumber: 11.8 Consensus size: 47
21388891 GATTACTTAT
* **
21388901 GTGCCAGTGTAAGACATGTCTGGGACATGCAAT-TGCCAC-ATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGC-ATCGGCCACGACGATGA
*
21388947 GTGCCAGTGTAAGACAATGTCTGGGACATGGCATCGGCGTA-GA-GATGA
1 GTGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC-CACGACGATGA
* * * *
21388995 GTGCTAGTGTAAGACGTCTCTGGGACATGTATCGGCCACGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGACGATGA
* **
21389042 -TAGCCCGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGACGATGA
* * * * * * *
21389088 GTGCCAGTGTAAGGCA--TC-GGCCACAT-TATGAGTGCCAATGTAAGGCAT-C
1 GTGCCAGTGTAAGACATGTCTGG-GACATGCAT-CG-GCC-ACG--ACG-ATGA
* * * **
21389137 G-GCATAGAGATAAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GTGC-CAGTG-TAA--GACA-TGT----C-T----GGGACATGCATCGGCCACGACGATGA
* * *
21389196 GTG-CTGTATAAGACCATGTCTGGGACATGGCATCGGCGTA-GA-GATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACGACGATGA
* *
21389243 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATG-
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGACGATGA
* * * * * *
21389289 GTAGCCAATGTAAGACGTGTTTGGGACATGCATCGGCTAAGA-G-T-T
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGACGATGA
* * *
21389334 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACGTA-TATACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACG-ACGAT--GA
* * * * *
21389382 GAGCTAGTATAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAT-A
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGACGATGA
*
21389430 ATAGCCAGTGTAAGATCATGTCTGGGACATGGCATCGGC
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
21389469 AACTTATCCT
Statistics
Matches: 394, Mismatches: 72, Indels: 109
0.69 0.13 0.19
Matches are distributed among these distances:
43 6 0.02
44 36 0.09
45 8 0.02
46 63 0.16
47 129 0.33
48 46 0.12
49 54 0.14
50 13 0.03
51 6 0.02
52 3 0.01
55 5 0.01
56 2 0.01
57 3 0.01
58 3 0.01
59 3 0.01
60 1 0.00
62 1 0.00
63 3 0.01
64 5 0.01
65 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (47 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGACGATGA
Found at i:21389108 original size:31 final size:31
Alignment explanation
Indices: 21389070--21389139 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
21389060 TCTGGGACAT
*
21389070 GCATCGGCCACATTATGAGTGCCAGTGTAAG
1 GCATCGGCCACATTATGAGTGCCAATGTAAG
21389101 GCATCGGCCACATTATGAGTGCCAATGTAAG
1 GCATCGGCCACATTATGAGTGCCAATGTAAG
21389132 GCATCGGC
1 GCATCGGC
21389140 ATAGAGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (31 bp):
GCATCGGCCACATTATGAGTGCCAATGTAAG
Found at i:21389153 original size:31 final size:31
Alignment explanation
Indices: 21389070--21389162 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
21389060 TCTGGGACAT
** *
21389070 GCATCGGCCACATTATGAGTGCCAGTGTAAG
1 GCATCGGCCACAAGATAAGTGCCAGTGTAAG
** * *
21389101 GCATCGGCCACATTATGAGTGCCAATGTAAG
1 GCATCGGCCACAAGATAAGTGCCAGTGTAAG
*
21389132 GCATCGG-CATAGAGATAAGTGCCAGTGTAAG
1 GCATCGGCCACA-AGATAAGTGCCAGTGTAAG
21389163 ACATGTCTGG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
30 3 0.05
31 52 0.95
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (31 bp):
GCATCGGCCACAAGATAAGTGCCAGTGTAAG
Found at i:21389243 original size:155 final size:155
Alignment explanation
Indices: 21388976--21389255 Score: 370
Period size: 155 Copynumber: 1.8 Consensus size: 155
21388966 TCTGGGACAT
* * * * *
21388976 GGCATCGGCGTAGAGATGAGTGCTAGTGTAAGACGTCTCTGGGACATGTATCGGCCACGACGATG
1 GGCATCGGCATAGAGATAAGTGCCAGTGTAAGACATCTCTGGGACATGCATCGGCCACGACGATG
* *
21389041 ATAGCCCGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAGTGTAAGGCATC
66 ATAGCCCGTATAAGACATGTCTGGGACATGCATCGGCCACATGATGAGTGCCAGTGTAAGGCATC
21389106 GGCCACATTATGAGTGCCAATGTAA
131 GGCCACATTATGAGTGCCAATGTAA
* **
21389131 GGCATCGGCATAGAGATAAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATG
1 GGCATCGGCATAGAGATAAGTGCCAGTGTAAGACATCTCTGGGACATGCATCGGCCACGACGATG
* * * *
21389195 AGT-G-CTGTATAAGACCATGTCTGGGACATGGCATCGGCGTAGA-GATGAGTGCTAGTGTAAG
66 A-TAGCCCGTATAAGA-CATGTCTGGGACAT-GCATCGGC-CACATGATGAGTGCCAGTGTAAG
21389256 ACATGTCTGG
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
153 8 0.07
154 20 0.19
155 77 0.72
156 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (155 bp):
GGCATCGGCATAGAGATAAGTGCCAGTGTAAGACATCTCTGGGACATGCATCGGCCACGACGATG
ATAGCCCGTATAAGACATGTCTGGGACATGCATCGGCCACATGATGAGTGCCAGTGTAAGGCATC
GGCCACATTATGAGTGCCAATGTAA
Found at i:21389322 original size:93 final size:92
Alignment explanation
Indices: 21389131--21389468 Score: 314
Period size: 93 Copynumber: 3.6 Consensus size: 92
21389121 GCCAATGTAA
* * **
21389131 GGCATCGGCATAGAGATAAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGA
**
21389196 GTGCTGTATAAGACCATGTCTGGGACAT
65 GTGCAATATAAGACCATGTCTGGGACAT
*
21389224 GGCATCGGCGTAGAGATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATG
1 GGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACGATG
* * *
21389289 -GTAGCCAATGTAAGA-CGTGTTTGGGACAT
64 AGT-G-CAATATAAGACCATGTCTGGGACAT
* * *
21389318 -GCATCGGCTA-AGA-GTTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACGTA-TAT
1 GGCATCGGCTAGAGATG-AGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC--ACGAT
* *
21389378 ACGAGAGCTAGTATAAGACCATGTCTGGGACAT
63 --GAGTGC-AATATAAGACCATGTCTGGGACAT
* * *
21389411 GGCATCGGCCTCGATGAT-AATAGCCAGTGTAAGATCATGTCTGGGACATGGCATCGGC
1 GGCATCGG-CTAGA-GATGAGT-GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
21389469 AACTTATCCT
Statistics
Matches: 200, Mismatches: 26, Indels: 31
0.78 0.10 0.12
Matches are distributed among these distances:
90 5 0.03
91 39 0.19
92 11 0.05
93 77 0.38
94 24 0.12
95 9 0.05
96 2 0.01
97 13 0.06
98 14 0.07
99 6 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (92 bp):
GGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAG
TGCAATATAAGACCATGTCTGGGACAT
Found at i:21389444 original size:49 final size:46
Alignment explanation
Indices: 21389132--21389468 Score: 260
Period size: 47 Copynumber: 7.2 Consensus size: 46
21389122 CCAATGTAAG
* *
21389132 GCATCGGCATAGA-GATAAGTGCCAGTGTAAGACATGTCTGGGACAT
1 GCATCGGCCTCGATGAT-AGTGCCAGTGTAAGACATGTCTGGGACAT
* * * *
21389178 GCATCGGCCAC-ATTATGAGTG-CTGTATAAGACCATGTCTGGGACAT
1 GCATCGGCCTCGATGAT-AGTGCCAGTGTAAGA-CATGTCTGGGACAT
* * *
21389224 GGCATCGGCGTAGA-GATGAGTGCTAGTGTAAGACATGTCTGGGACAT
1 -GCATCGGCCTCGATGAT-AGTGCCAGTGTAAGACATGTCTGGGACAT
* * * * *
21389271 GCATCGGCCTCGACGATGGTAGCCAATGTAAGACGTGTTTGGGACAT
1 GCATCGGCCTCGATGATAGT-GCCAGTGTAAGACATGTCTGGGACAT
* * *
21389318 GCATCGG-CT--AAGAGTTGTGCTAGTGTAAGACATGTCTGGGACAT
1 GCATCGGCCTCGATGA-TAGTGCCAGTGTAAGACATGTCTGGGACAT
* * * * *
21389362 GCATCAG-CACGTAT-ATACGAGAGCTAGTATAAGACCATGTCTGGGACAT
1 GCATCGGCCTCG-ATGAT---AGTGCCAGTGTAAGA-CATGTCTGGGACAT
*
21389411 GGCATCGGCCTCGATGATAATAGCCAGTGTAAGATCATGTCTGGGACAT
1 -GCATCGGCCTCGATGATAGT-GCCAGTGTAAGA-CATGTCTGGGACAT
21389460 GGCATCGGC
1 -GCATCGGC
21389469 AACTTATCCT
Statistics
Matches: 232, Mismatches: 40, Indels: 35
0.76 0.13 0.11
Matches are distributed among these distances:
44 32 0.14
45 13 0.06
46 44 0.19
47 62 0.27
48 21 0.09
49 47 0.20
50 8 0.03
51 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GCATCGGCCTCGATGATAGTGCCAGTGTAAGACATGTCTGGGACAT
Found at i:21390627 original size:270 final size:270
Alignment explanation
Indices: 21390132--21390697 Score: 801
Period size: 270 Copynumber: 2.1 Consensus size: 270
21390122 ATGGGTAGAC
* * *
21390132 ACACGGGCGTGTGTCTAAGCCGTGTATGACACACGGTCAGCCCCATGAGCGTGTGAGAAGGCCGT
1 ACACGGGCTTGTGTCTAAGCCGTGTGTGACACACGATCAGCCCCATGAGCGTGTGAGAAGGCCGT
* *
21390197 GTGTCCCCTGCACCTAGAAATTTCAAGTCAGAATGCATGGTAAGGATCACACAAGTAGAGACACG
66 GTGTCCCCTGCACCTAGAAATTTCAAGTCAAAATGCATGGTAAGGATCACACAAGTAGAGACAAG
* * * *
21390262 ACCGTATGTCTTAGTCATGTGGAGGGCACGTCCTAGTACACAAGCATGTACCATGGACGTGTGAT
131 ACCGTATGTCTCAGCCATGTGAAGGGCACGGCCTAGTACACAAGCATGTACCATGGACGTGTGAT
* * * * *
21390327 GCTGACGTTAGAAACATAATACCCAGGTTTTTGCACATGGGTTGTGTCACGGGCGTGTTGAGACC
196 GCTGACGTTAGAAACAGAATACCCAGGTTTTTGCACACGGGTTGCGCCACAGGCGTGTTGAGACC
21390392 GTGTGAAAGG
261 GTGTGAAAGG
* * *
21390402 ACACGGGCTTGTGTCTAAGCCGTGTGTGACACACGATCAGCCCTATGGGCGTGTGAGAAGGTCGT
1 ACACGGGCTTGTGTCTAAGCCGTGTGTGACACACGATCAGCCCCATGAGCGTGTGAGAAGGCCGT
*
21390467 GTGTCCCCTGCACCTAGAAATTTCAAGTCAAAATGCATGGTAAGGATCACACAGGTAGAGACATA
66 GTGTCCCCTGCACCTAGAAATTTCAAGTCAAAATGCATGGTAAGGATCACACAAGTAGAGACA-A
** * * ** * * *
21390532 G-TTGTGTGTCTCAGCCGTGTGAAGGGCACGGCCTAGTACACGGGCGTGTACCGTGGTCGTGTGA
130 GACCGTATGTCTCAGCCATGTGAAGGGCACGGCCTAGTACACAAGCATGTACCATGGACGTGTGA
* ** * *
21390596 TGCTGACGTTAGAAATAGAATACTTAGGTTTTTGCACACGGGTTGCGCCACAGGCTTGTTGAGGC
195 TGCTGACGTTAGAAACAGAATACCCAGGTTTTTGCACACGGGTTGCGCCACAGGCGTGTTGAGAC
21390661 CGTGTGAAAGG
260 CGTGTGAAAGG
* * *
21390672 ACAGGGGCTTGTGTTTAGGCCGTGTG
1 ACACGGGCTTGTGTCTAAGCCGTGTG
21390698 AAGTCTGCAC
Statistics
Matches: 260, Mismatches: 35, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
270 259 1.00
271 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (270 bp):
ACACGGGCTTGTGTCTAAGCCGTGTGTGACACACGATCAGCCCCATGAGCGTGTGAGAAGGCCGT
GTGTCCCCTGCACCTAGAAATTTCAAGTCAAAATGCATGGTAAGGATCACACAAGTAGAGACAAG
ACCGTATGTCTCAGCCATGTGAAGGGCACGGCCTAGTACACAAGCATGTACCATGGACGTGTGAT
GCTGACGTTAGAAACAGAATACCCAGGTTTTTGCACACGGGTTGCGCCACAGGCGTGTTGAGACC
GTGTGAAAGG
Found at i:21394050 original size:27 final size:26
Alignment explanation
Indices: 21394020--21394103 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 26
21394010 TCCCCATTTA
**
21394020 TACTGTCCTGGTAGACTACATCGTGTT
1 TACTGTCC-GGTAGACTACCCCGTGTT
* * *
21394047 TACTGTTCCAGTAGATTACCCCATGTT
1 TACTG-TCCGGTAGACTACCCCGTGTT
*
21394074 TACTGTCCCGGTAAACTACCCCGTGTT
1 TACTGT-CCGGTAGACTACCCCGTGTT
21394101 TAC
1 TAC
21394104 AGTCTCGATG
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
26 1 0.02
27 42 0.91
28 3 0.07
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TACTGTCCGGTAGACTACCCCGTGTT
Found at i:21394117 original size:27 final size:27
Alignment explanation
Indices: 21394063--21394119 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
21394053 TCCAGTAGAT
* *
21394063 TACCCCATGTTTACTGTCCCGGTAAAC
1 TACCCCATGTTTACAGTCCCGATAAAC
* * *
21394090 TACCCCGTGTTTACAGTCTCGATGAAC
1 TACCCCATGTTTACAGTCCCGATAAAC
21394117 TAC
1 TAC
21394120 TTTATGTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.30
Consensus pattern (27 bp):
TACCCCATGTTTACAGTCCCGATAAAC
Found at i:21396367 original size:33 final size:29
Alignment explanation
Indices: 21396322--21396399 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
21396312 TCAGTACAAT
*
21396322 CTGGGCCAAAGCCCTATTCAGTTTATACATTTA
1 CTGGGCCAAAG-CCT-TTC-GTTTA-ACAGTTA
*
21396355 CTGGGCCGAAGCCTTTCGTTTAACAGTTA
1 CTGGGCCAAAGCCTTTCGTTTAACAGTTA
* *
21396384 CTAGGCCAGAGCCTTT
1 CTGGGCCAAAGCCTTT
21396400 TCATAAATCA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 19 0.47
30 5 0.12
31 3 0.08
32 3 0.08
33 10 0.25
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (29 bp):
CTGGGCCAAAGCCTTTCGTTTAACAGTTA
Found at i:21396679 original size:25 final size:25
Alignment explanation
Indices: 21396651--21396722 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
21396641 CTCTTTTAAT
21396651 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
21396676 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
21396701 AACTGGGGCATAGCCCTTTTTG
1 AACTGGGGCAAAGCCCTTTTTG
21396723 CACTTCCTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:21397596 original size:26 final size:26
Alignment explanation
Indices: 21397530--21397607 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
21397520 GGGCATATTC
21397530 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACC-TACAAGGGTATTACG
* *
21397557 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAAGGG-TATTACG
* *
21397584 GTCTTTTTACCTATTAAGGGTATT
1 GTCATTTTACCTA-CAAGGGTATT
21397608 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
26 5 0.12
27 33 0.80
28 3 0.07
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGTATTACG
Found at i:21397688 original size:27 final size:26
Alignment explanation
Indices: 21397648--21397703 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
21397638 GTAAATCTAC
*
21397648 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGATATTTCAATAATTTT-T
* *
21397675 AAACCAATGATATTTCTATAATTTTT
1 AAACCAAGGATATTTCAATAATTTTT
21397701 AAA
1 AAA
21397704 AAGTTAAGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (26 bp):
AAACCAAGGATATTTCAATAATTTTT
Found at i:21397903 original size:81 final size:81
Alignment explanation
Indices: 21397740--21397929 Score: 192
Period size: 81 Copynumber: 2.4 Consensus size: 81
21397730 TAAATCAGGA
* *
21397740 GTATTTTGGTAATTTT-CAAATTGAGGGTATTTCGGTAATTTCACAAACCAATGGTATTTCTGTA
1 GTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTCTGTA
* *
21397804 ATTTTACAAATTAGGG
66 ATTCTACAAATTAAGG
* * * *
21397820 GTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACTAGGGGTATTT-TGG
1 GTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTCT-G
**
21397883 TAATTCTATCCTA-TAAGG
64 TAATTCTA-CAAATTAAGG
** * *
21397901 GTATTTCAGTAATTTCAC-AATCGAGGGTA
1 GTATTTTGGTAATTTTACAAATAGAGGGTA
21397930 AAATGATAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
79 2 0.02
80 24 0.26
81 61 0.67
82 4 0.04
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (81 bp):
GTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTCTGTA
ATTCTACAAATTAAGG
Found at i:21397906 original size:27 final size:27
Alignment explanation
Indices: 21397740--21397887 Score: 194
Period size: 27 Copynumber: 5.5 Consensus size: 27
21397730 TAAATCAGGA
*
21397740 GTATTTTGGTAATTTT-CAAA-TTGAGG
1 GTATTTTGGTAATTTTACAAACTAG-GG
* * * **
21397766 GTATTTCGGTAATTTCACAAACCAATG
1 GTATTTTGGTAATTTTACAAACTAGGG
*
21397793 GTATTTCT-GTAATTTTACAAATTAGGG
1 GTATTT-TGGTAATTTTACAAACTAGGG
21397820 GTATTTTGGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACTAGGG
21397847 GTATTTTGGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACTAGGG
21397874 GTATTTTGGTAATT
1 GTATTTTGGTAATT
21397888 CTATCCTATA
Statistics
Matches: 105, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
26 15 0.14
27 90 0.86
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACTAGGG
Found at i:21397913 original size:54 final size:54
Alignment explanation
Indices: 21397748--21397920 Score: 174
Period size: 54 Copynumber: 3.2 Consensus size: 54
21397738 GAGTATTTTG
* * * * *
21397748 GTAATTTT-CAAA-TTGAGGGTATTTCGGTAATT-TCACAAACCAATGGTATTTCT
1 GTAATTTTACAAACTAG-GGGTATTTTGGTAATTCT-ACAAACTAAGGGTATTTCA
* * * **
21397801 GTAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAACTAAGGGTATTTCA
**
21397855 GTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTA-TAAGGGTATTTCA
1 GTAATTTTACAAACTAGGGGTATTTTGGTAATTCTA-CAAACTAAGGGTATTTCA
*
21397909 GTAATTTCACAA
1 GTAATTTTACAA
21397921 TCGAGGGTAA
Statistics
Matches: 101, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
53 8 0.08
54 88 0.87
55 5 0.05
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
GTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAACTAAGGGTATTTCA
Found at i:21397955 original size:27 final size:27
Alignment explanation
Indices: 21397919--21398035 Score: 155
Period size: 27 Copynumber: 4.3 Consensus size: 27
21397909 GTAATTTCAC
*
21397919 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
21397946 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
*
21397973 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * * **
21398000 AATCAAAGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTTTGTA
21398027 AATCGAGGG
1 AATCGAGGG
21398036 CATTTCAGTA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 78 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:21399216 original size:35 final size:35
Alignment explanation
Indices: 21399170--21399239 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
21399160 CGAAAGATAT
*
21399170 CGCAAGTTGGTGGCCTTTATTGGAAAATTGGGAAA
1 CGCAAGTTGGTGGCCTTTATTGGAAAAATGGGAAA
21399205 CGCAAGTTGGTGGCCTTTATTGGAAAAATGGGAAA
1 CGCAAGTTGGTGGCCTTTATTGGAAAAATGGGAAA
21399240 ACTGAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.27
Consensus pattern (35 bp):
CGCAAGTTGGTGGCCTTTATTGGAAAAATGGGAAA
Found at i:21411256 original size:19 final size:18
Alignment explanation
Indices: 21411232--21411272 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
21411222 AATTTAAGAC
*
21411232 AAAATTAATTTTTCTTTTA
1 AAAATT-ATTTTTATTTTA
*
21411251 AAAATTCTTTTTATTTTA
1 AAAATTATTTTTATTTTA
21411269 AAAA
1 AAAA
21411273 AAACAGGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
AAAATTATTTTTATTTTA
Found at i:21415096 original size:18 final size:18
Alignment explanation
Indices: 21415042--21415097 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
21415032 TTAGATATAT
* *
21415042 TTTTTGAATTATTATTA-
1 TTTTTAAATTATTTTTAG
*
21415059 TTTTTGAATATT-TTTATAG
1 TTTTT-AA-ATTATTTTTAG
21415078 TTTTTAAATTATTTTTAG
1 TTTTTAAATTATTTTTAG
21415096 TT
1 TT
21415098 AGATATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 8 0.26
18 15 0.48
19 8 0.26
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (18 bp):
TTTTTAAATTATTTTTAG
Found at i:21421646 original size:12 final size:12
Alignment explanation
Indices: 21421629--21421659 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
21421619 GATTTTATCA
21421629 AGAAATTTCAAT
1 AGAAATTTCAAT
21421641 AGAAATTTCAAT
1 AGAAATTTCAAT
21421653 AGAAATT
1 AGAAATT
21421660 AATTTTAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (12 bp):
AGAAATTTCAAT
Found at i:21426220 original size:220 final size:221
Alignment explanation
Indices: 21425803--21426245 Score: 879
Period size: 220 Copynumber: 2.0 Consensus size: 221
21425793 CTGAATTTTC
21425803 ATAACTCTCATACAAGTCTACAGATTTCATTTATTTCATATTTTAGTCCCTCAATTTCTTATTTT
1 ATAACTCTCATACAAGTCTACAGATTTCATTTATTTCATATTTTAGTCCCTCAATTTCTTATTTT
21425868 CACAATTTAGTCCAAATTACTCAAATTCATCAAAAAATCCAAAGACAACATGTAAACCCAACATC
66 CACAATTTAGTCCAAATTACTCAAATTCATCAAAAAATCCAAAGACAACATGTAAACCCAACATC
21425933 AAACTTTCATATTTCAACATATAACATCACAAAACTCATGAATTCATCCATGGCATATTTCAAAA
131 AAACTTTCATATTTCAACATATAACATCACAAAACTCATGAATTCATCCATGGCATATTTCAAAA
21425998 TCATCATCAAAATTTGAAATTGAGGT
196 TCATCATCAAAATTTGAAATTGAGGT
21426024 ATAACTCTCATACAAGTCTACAGATTTCATTTATTTCATATTTTAGTCCCTCAATTTCTTATTTT
1 ATAACTCTCATACAAGTCTACAGATTTCATTTATTTCATATTTTAGTCCCTCAATTTCTTATTTT
21426089 CACAATTTAGTCCAAATTACTCAAATTCATC-AAAAATCCAAAGACAACATGTAAACCCAACATC
66 CACAATTTAGTCCAAATTACTCAAATTCATCAAAAAATCCAAAGACAACATGTAAACCCAACATC
21426153 AAACTTTCATATTTCAACATATAACATCACAAAACTCATGAATTCATCCATGGCATATTTCAAAA
131 AAACTTTCATATTTCAACATATAACATCACAAAACTCATGAATTCATCCATGGCATATTTCAAAA
21426218 TCATCATCAAAATTTGAAATTGAGGT
196 TCATCATCAAAATTTGAAATTGAGGT
21426244 AT
1 AT
21426246 GGGCTTAGTA
Statistics
Matches: 222, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
220 126 0.57
221 96 0.43
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.34
Consensus pattern (221 bp):
ATAACTCTCATACAAGTCTACAGATTTCATTTATTTCATATTTTAGTCCCTCAATTTCTTATTTT
CACAATTTAGTCCAAATTACTCAAATTCATCAAAAAATCCAAAGACAACATGTAAACCCAACATC
AAACTTTCATATTTCAACATATAACATCACAAAACTCATGAATTCATCCATGGCATATTTCAAAA
TCATCATCAAAATTTGAAATTGAGGT
Found at i:21432179 original size:12 final size:12
Alignment explanation
Indices: 21432162--21432192 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
21432152 CAAACCTACA
21432162 AGCAACCAAAAT
1 AGCAACCAAAAT
21432174 AGCAACCAAAAT
1 AGCAACCAAAAT
*
21432186 AACAACC
1 AGCAACC
21432193 TTTCTTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.58, C:0.29, G:0.06, T:0.06
Consensus pattern (12 bp):
AGCAACCAAAAT
Found at i:21436684 original size:48 final size:48
Alignment explanation
Indices: 21436553--21436686 Score: 160
Period size: 48 Copynumber: 2.8 Consensus size: 48
21436543 AACCGAGGTT
* * * * * * * * *
21436553 GATGCCATATCCCACATATGGTCTCACACTGGCACACATATCAATGGC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATCAACGCC
*
21436601 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATCAACGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATCAACGCC
* *
21436649 GATGCCATGTCCCAGACATTGTCTTACACTGGCTCTCA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCA
21436687 TAAATCATAG
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATCAACGCC
Found at i:21444334 original size:42 final size:42
Alignment explanation
Indices: 21444275--21444390 Score: 133
Period size: 42 Copynumber: 2.8 Consensus size: 42
21444265 TTCGGTGCCG
* * **
21444275 ATGCCATGTCCCAGACATAGTCTTATATGGGACCTCATATCA
1 ATGCCATGTCCAAGACATAGTCTTACATGAAACCTCATATCA
* *
21444317 ATGCCATGTCCAAGACATGGTCTTACATGAAATCTCATATCA
1 ATGCCATGTCCAAGACATAGTCTTACATGAAACCTCATATCA
* * * * *
21444359 ATGACATATCCCAGATATGGTCTTACATGAAA
1 ATGCCATGTCCAAGACATAGTCTTACATGAAA
21444391 TCAGATACGG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCATGTCCAAGACATAGTCTTACATGAAACCTCATATCA
Found at i:21444353 original size:90 final size:90
Alignment explanation
Indices: 21444188--21444354 Score: 210
Period size: 90 Copynumber: 1.9 Consensus size: 90
21444178 AATGCCAATT
* * * * * *
21444188 CCATGTCCCTGACATGGTCTTACATGGGTCTACATACCGATGCCATATCCCAGATATGGTCTTAA
1 CCATGTCCCAGACATAGTCTTACATGGGCCTACATACCAATGCCATATCCAAGACATGGTCTTAA
*
21444253 ACGAAGTCTCATTTCGGTGCCGATG
66 ACGAAATCTCATTTCGGTGCCGATG
* * *
21444278 CCATGTCCCAGACATAGTCTTATATGGGACCT-CATATCAATGCCATGTCCAAGACATGGTCTTA
1 CCATGTCCCAGACATAGTCTTACATGGG-CCTACATACCAATGCCATATCCAAGACATGGTCTTA
* *
21444342 CATGAAATCTCAT
65 AACGAAATCTCAT
21444355 ATCAATGACA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
90 62 0.97
91 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (90 bp):
CCATGTCCCAGACATAGTCTTACATGGGCCTACATACCAATGCCATATCCAAGACATGGTCTTAA
ACGAAATCTCATTTCGGTGCCGATG
Found at i:21444391 original size:42 final size:42
Alignment explanation
Indices: 21444308--21444392 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
21444298 TATATGGGAC
* *
21444308 CTCATATCAATGCCATGTCCAAGACATGGTCTTACATGAAAT
1 CTCATATCAATGACATATCCAAGACATGGTCTTACATGAAAT
* *
21444350 CTCATATCAATGACATATCCCAGATATGGTCTTACATGAAAT
1 CTCATATCAATGACATATCCAAGACATGGTCTTACATGAAAT
21444392 C
1 C
21444393 AGATACGGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (42 bp):
CTCATATCAATGACATATCCAAGACATGGTCTTACATGAAAT
Found at i:21444430 original size:132 final size:132
Alignment explanation
Indices: 21444183--21444453 Score: 296
Period size: 132 Copynumber: 2.1 Consensus size: 132
21444173 CATAAAATGC
* ** ** * *
21444183 CAATTCCATGTCCCTGACATGGTCTTACATGGGTCTACATACCGATGCCATATCCCAGATATGGT
1 CAATGCCATGTCCAAGACATGGTCTTACATGAATCTACATACCAATGACATATCCCAGATATGGT
* * * * * * * *
21444248 CTTAAACGAAGTCTCATTTCGGTGCCGATGCCATGTCCCAGACATAGTCTTATA-TGGGACCTCA
66 CTTAAACGAAATCACATTACGGGGCCGATGCCATATCCCAGACATAGTCTTACACTGGCA-CACA
21444312 TAT
130 TAT
*
21444315 CAATGCCATGTCCAAGACATGGTCTTACATGAAATCT-CATATCAATGACATATCCCAGATATGG
1 CAATGCCATGTCCAAGACATGGTCTTACATG-AATCTACATACCAATGACATATCCCAGATATGG
* * * * * *
21444379 TCTTACATGAAATCAGA-TACGGAGGCTGATGCCATATCCCAGATATGGTCTTACACTGGCACAC
65 TCTTAAACGAAATCACATTACGG-GGCCGATGCCATATCCCAGACATAGTCTTACACTGGCACAC
21444443 ATAT
129 ATAT
21444447 CAATGCC
1 CAATGCC
21444454 GATGCCATGT
Statistics
Matches: 114, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
131 4 0.04
132 103 0.90
133 7 0.06
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (132 bp):
CAATGCCATGTCCAAGACATGGTCTTACATGAATCTACATACCAATGACATATCCCAGATATGGT
CTTAAACGAAATCACATTACGGGGCCGATGCCATATCCCAGACATAGTCTTACACTGGCACACAT
AT
Found at i:21444535 original size:48 final size:47
Alignment explanation
Indices: 21444403--21444541 Score: 181
Period size: 48 Copynumber: 2.9 Consensus size: 47
21444393 AGATACGGAG
* * *
21444403 GCTGATGCCATA-TCCCAGATATGGTCTTACACTGGCACACATATCAAT
1 GCTGATGCCA-AGT-CCAGACATGGTCTTACACTGGCTCTCATATCAAT
* * *
21444451 GCCGATGCCATGTCCTAGACATGGTTTTACACTGGCTCTCATATCAAT
1 GCTGATGCCAAGTCC-AGACATGGTCTTACACTGGCTCTCATATCAAT
21444499 GCTGATGCCAAGTCTCAGACATGGTCTTACACTGGCTCTCATA
1 GCTGATGCCAAGTC-CAGACATGGTCTTACACTGGCTCTCATA
21444542 AATCGTGGTG
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
47 2 0.03
48 76 0.96
49 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (47 bp):
GCTGATGCCAAGTCCAGACATGGTCTTACACTGGCTCTCATATCAAT
Found at i:21451151 original size:15 final size:15
Alignment explanation
Indices: 21451121--21451149 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21451111 ACTATCAATA
21451121 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
21451136 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
21451150 TACCATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:21456473 original size:7 final size:7
Alignment explanation
Indices: 21456443--21456479 Score: 53
Period size: 6 Copynumber: 5.7 Consensus size: 7
21456433 CTCAAAAATT
21456443 AAATG-G
1 AAATGAG
21456449 AAATG-G
1 AAATGAG
21456455 AAATGA-
1 AAATGAG
21456461 AAATGAG
1 AAATGAG
21456468 AAATGAG
1 AAATGAG
21456475 AAATG
1 AAATG
21456480 GTTGATTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 17 0.59
7 12 0.41
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.16
Consensus pattern (7 bp):
AAATGAG
Found at i:21460874 original size:27 final size:27
Alignment explanation
Indices: 21460828--21461048 Score: 235
Period size: 27 Copynumber: 8.2 Consensus size: 27
21460818 ATTACTGAAA
* * ***
21460828 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTATAAAATTACCATTT
* *
21460855 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCATTT
*
21460882 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
* * ***
21460909 TACCCTCGATTTACAAATTTATTGTTT
1 TACCCTCGATTTATAAAATTACCATTT
* *
21460936 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
* * *
21460963 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTATAAAATTACCATTT
* * **
21460990 TACCATCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCATTT
*
21461017 TACCCTCGATTTAGAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
21461044 TACCC
1 TACCC
21461049 CTAGGGTGTT
Statistics
Matches: 158, Mismatches: 36, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 158 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCATTT
Found at i:21460947 original size:81 final size:81
Alignment explanation
Indices: 21460855--21461048 Score: 291
Period size: 81 Copynumber: 2.4 Consensus size: 81
21460845 ATTACCAAAG
* * *
21460855 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCATTTTACCATCGATT
*
21460920 TACA-AATTTATTGTTT
66 TACAGAA-TTACTGTTT
* *
21460936 TACCCTTGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACTATTTTACCATCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCATTTTACCATCGATT
*
21461001 TATAGAATTACTGTTT
66 TACAGAATTACTGTTT
* *
21461017 TACCCTCGATTTAGAAAATTACCATTTTACCC
1 TACCCTCGATTTATAGAATTACCATTTTACCC
21461049 CTAGGGTGTT
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 100 0.98
82 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCATTTTACCATCGATT
TACAGAATTACTGTTT
Found at i:21461389 original size:31 final size:32
Alignment explanation
Indices: 21461351--21461412 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
21461341 CTCGCTGCAA
* *
21461351 TCTGGTGGCTTTGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
21461382 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
21461413 GTGACTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:21461588 original size:31 final size:31
Alignment explanation
Indices: 21461552--21461630 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
21461542 TTACATTCAC
* *
21461552 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* *
21461583 ATTCTGATTCTAATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
21461614 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
21461631 AATTCTGATT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:21461591 original size:6 final size:6
Alignment explanation
Indices: 21461552--21461694 Score: 123
Period size: 6 Copynumber: 23.3 Consensus size: 6
21461542 TTACATTCAC
* * *
21461552 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
21461601 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTA ATTCTG ATTCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
21461650 -TCACCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
21461695 AATGTTTCTT
Statistics
Matches: 110, Mismatches: 16, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
5 5 0.05
6 92 0.84
7 10 0.09
8 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:21461640 original size:49 final size:49
Alignment explanation
Indices: 21461555--21461673 Score: 177
Period size: 49 Copynumber: 2.4 Consensus size: 49
21461545 CATTCACATT
* *
21461555 CTGATTTTGATTCTG-TTACCTGATACTGATTCTGATTCTAATTCTGTCAC
1 CTGATTCTGATTCTGATT--CTGATACTAATTCTGATTCTAATTCTGTCAC
* *
21461605 CTGATTCTGATTCTGATTCTGATTCTAATTCTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGATACTAATTCTGATTCTAATTCTGTCAC
21461654 CTGATTCTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCT
21461674 CATTTTGATT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 48 0.75
50 14 0.22
51 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.47
Consensus pattern (49 bp):
CTGATTCTGATTCTGATTCTGATACTAATTCTGATTCTAATTCTGTCAC
Found at i:21461685 original size:49 final size:49
Alignment explanation
Indices: 21461580--21461694 Score: 178
Period size: 49 Copynumber: 2.3 Consensus size: 49
21461570 TTACCTGATA
* *
21461580 CTGATTCTGATTCTAATTCTGTCACCTGATTCTGATTCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTGATTCTCATT
*
21461629 CTAATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTGATTCTCATT
1 CTGATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTGATTCTCATT
*
21461678 TTGATTCT-AGTTCTGAT
1 CTGATTCTGA-TTCTGAT
21461695 AATGTTTCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 1 0.02
49 59 0.98
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (49 bp):
CTGATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTGATTCTCATT
Found at i:21470361 original size:104 final size:107
Alignment explanation
Indices: 21470239--21470469 Score: 310
Period size: 111 Copynumber: 2.1 Consensus size: 107
21470229 AATGGATATC
*
21470239 GCACTTAGCAACCCCTCGGGGGAATCAG-CA-C-A-TAGCAACCCCCTTTCACATTTCAAAGATA
1 GCACTTAGCAACCCCTC-GGGGAATCAGACAGCAACTAGCAACACCCTTTCACATTTCAAAGATA
* *
21470300 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
65 TGGTGGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
21470343 GCACTTAGCAACCCCTCGGGGAATCAGCACAGCAACCCCTAGCAACACCCTTTCACATTTCAAAG
1 GCACTTAGCAACCCCTCGGGGAATCAG-ACAGCAA---CTAGCAACACCCTTTCACATTTCAAAG
* *
21470408 ATATGGTGGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
62 ATATGGTGGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
21470454 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
21470470 TTTATATACA
Statistics
Matches: 111, Mismatches: 7, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
103 10 0.09
104 17 0.15
105 2 0.02
106 1 0.01
107 1 0.01
111 79 0.71
112 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.17
Consensus pattern (107 bp):
GCACTTAGCAACCCCTCGGGGAATCAGACAGCAACTAGCAACACCCTTTCACATTTCAAAGATAT
GGTGGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:21470381 original size:24 final size:25
Alignment explanation
Indices: 21470333--21470382 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
21470323 ACCAATGAAC
21470333 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCAC-TAGCAACCCCT
21470359 CGGGGAATCAGCAC-AGCAACCCCT
1 CGGGGAATCAGCACTAGCAACCCCT
21470383 AGCAACACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 10 0.42
26 14 0.58
ACGTcount: A:0.28, C:0.36, G:0.24, T:0.12
Consensus pattern (25 bp):
CGGGGAATCAGCACTAGCAACCCCT
Found at i:21477457 original size:26 final size:26
Alignment explanation
Indices: 21477427--21477477 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
21477417 ACCAATGAAC
*
21477427 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
21477453 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
21477478 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:21477517 original size:103 final size:104
Alignment explanation
Indices: 21477333--21477555 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
21477323 AATGGATATC
21477333 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
21477398 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
21477437 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
21477501 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
21477540 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
21477556 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 94 0.84
104 18 0.16
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:21482753 original size:22 final size:22
Alignment explanation
Indices: 21482728--21482794 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
21482718 TGAGAATATA
21482728 CAAAACCTTGTAGAAATGGTTC
1 CAAAACCTTGTAGAAATGGTTC
* *
21482750 CAAAACC----A-ACAAT-ATAC
1 CAAAACCTTGTAGA-AATGGTTC
21482767 -AAAACCTTGTAGAAATGGTTC
1 CAAAACCTTGTAGAAATGGTTC
21482788 CAAAACC
1 CAAAACC
21482795 AATTCCTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 16
0.62 0.08 0.30
Matches are distributed among these distances:
16 6 0.18
17 3 0.09
18 4 0.12
20 4 0.12
21 3 0.09
22 13 0.39
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.21
Consensus pattern (22 bp):
CAAAACCTTGTAGAAATGGTTC
Found at i:21482773 original size:38 final size:38
Alignment explanation
Indices: 21482722--21482796 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
21482712 AACTTTTGAG
21482722 AATATACAAAACCTTGTAGAAATGGTTCCAAAACCAAC
1 AATATACAAAACCTTGTAGAAATGGTTCCAAAACCAAC
21482760 AATATACAAAACCTTGTAGAAATGGTTCCAAAACCAA
1 AATATACAAAACCTTGTAGAAATGGTTCCAAAACCAA
21482797 TTCCTAATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.21
Consensus pattern (38 bp):
AATATACAAAACCTTGTAGAAATGGTTCCAAAACCAAC
Found at i:21485293 original size:19 final size:18
Alignment explanation
Indices: 21485271--21485318 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
21485261 GTTCACAACA
21485271 TAATTCACATTTCATTTTC
1 TAATTCACATTTCA-TTTC
* *
21485290 TAATCCACTTTTTCATTTC
1 TAATTCAC-ATTTCATTTC
*
21485309 TAAATCACAT
1 TAATTCACAT
21485319 ACTTTACCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATTCACATTTCATTTC
Found at i:21488959 original size:24 final size:24
Alignment explanation
Indices: 21488932--21488983 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
21488922 CCATAATAGA
* *
21488932 GAAGTTCACAAAGAACCTTATCAG
1 GAAGTTCACAAAAAACCATATCAG
21488956 GAAGTTCACAAAAAACCATATCAG
1 GAAGTTCACAAAAAACCATATCAG
21488980 GAAG
1 GAAG
21488984 CTCCGGATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.17
Consensus pattern (24 bp):
GAAGTTCACAAAAAACCATATCAG
Found at i:21503714 original size:19 final size:19
Alignment explanation
Indices: 21503690--21503727 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
21503680 TACCTGATGT
21503690 TGACACAACATGTCCCAGA
1 TGACACAACATGTCCCAGA
21503709 TGACACAACATGTCCCAGA
1 TGACACAACATGTCCCAGA
21503728 AAACTAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.32, G:0.16, T:0.16
Consensus pattern (19 bp):
TGACACAACATGTCCCAGA
Found at i:21510151 original size:13 final size:13
Alignment explanation
Indices: 21510133--21510162 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21510123 TGAATGAAAA
*
21510133 TTGCATTGCGGTT
1 TTGCATTGCAGTT
21510146 TTGCATTGCAGTT
1 TTGCATTGCAGTT
21510159 TTGC
1 TTGC
21510163 TTTTCAGTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.17, G:0.27, T:0.47
Consensus pattern (13 bp):
TTGCATTGCAGTT
Found at i:21511587 original size:19 final size:19
Alignment explanation
Indices: 21511563--21511606 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
21511553 CTAGAATAAG
*
21511563 AATAAAACTTATCTTCCTA
1 AATAAAACTTATCTACCTA
* *
21511582 AATAAAATTTGTCTACCTA
1 AATAAAACTTATCTACCTA
21511601 AATAAA
1 AATAAA
21511607 TTTAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (19 bp):
AATAAAACTTATCTACCTA
Found at i:21514426 original size:9 final size:9
Alignment explanation
Indices: 21514412--21514437 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21514402 ATGTTTTGCT
21514412 AATTCACAA
1 AATTCACAA
21514421 AATTCACAA
1 AATTCACAA
21514430 AATTCACA
1 AATTCACA
21514438 GTGATATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (9 bp):
AATTCACAA
Found at i:21518019 original size:3 final size:3
Alignment explanation
Indices: 21518011--21518042 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
21518001 AAGAGAATCA
21518011 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
21518043 ATCCACTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21520968 original size:35 final size:35
Alignment explanation
Indices: 21520922--21520991 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
21520912 TTATACTAGG
21520922 ACTCAGATTGCATTTTGCTCTCTCTACTCAAAAAC
1 ACTCAGATTGCATTTTGCTCTCTCTACTCAAAAAC
21520957 ACTCAGATTGCATTTTGCTCTCTCTACTCAAAAAC
1 ACTCAGATTGCATTTTGCTCTCTCTACTCAAAAAC
21520992 TAGTCAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (35 bp):
ACTCAGATTGCATTTTGCTCTCTCTACTCAAAAAC
Found at i:21523038 original size:26 final size:26
Alignment explanation
Indices: 21523008--21523057 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
21522998 ATATTTAAAG
21523008 TAAACTATATCATTAGTCATTAAACA
1 TAAACTATATCATTAGTCATTAAACA
*
21523034 TAAACTATATCATTAGTTATTAAA
1 TAAACTATATCATTAGTCATTAAA
21523058 TTATGAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (26 bp):
TAAACTATATCATTAGTCATTAAACA
Found at i:21523148 original size:31 final size:31
Alignment explanation
Indices: 21523113--21523172 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
21523103 ATTTAGTCGT
*
21523113 TGAATTATTCAAAAAATTTTATTTAAGTTGC
1 TGAATTATTCAAAAAATTTTATGTAAGTTGC
* **
21523144 TGAATTATTGAAAAGTTTTTATGTAAGTT
1 TGAATTATTCAAAAAATTTTATGTAAGTT
21523173 ACTGTGTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (31 bp):
TGAATTATTCAAAAAATTTTATGTAAGTTGC
Found at i:21531564 original size:201 final size:201
Alignment explanation
Indices: 21531216--21531614 Score: 667
Period size: 201 Copynumber: 2.0 Consensus size: 201
21531206 TGCTTCAACT
21531216 CTTTTATAAGCGACTGCATATAAATGCCAATATCATTCTTTAGACCTTTCTCCTCAAGGATTATC
1 CTTTTATAAGCGACTGCATATAAATGCCAATATCATTCTTTAGACCTTTCTCCTCAAGGATTATC
* * *
21531281 ATAGATAAGATAAAAGAAATTGTTTCATGCAAATCAATGGAGGCAAATTGTAAGGAAAAAGCACA
66 ATAGATAAGATAAAAAAAATTGTTTCATGCAAATCAATGGAGGAAAATTGTAAAGAAAAAGCACA
21531346 ACAGGCCAAGCACTATATGAAGGACTCATGATTTTAAAAGGATTAAGGCCATCAGATGCAAGCCC
131 ACAGGCCAAGCACTATATGAAGGACTCATGATTTTAAAAGGATTAAGGCCATCAGATGCAAGCCC
21531411 AAGAAA
196 AAGAAA
* *
21531417 CTTTTATAAGCGATTGCATATAAATGCCAATATCATTCTTTATACCTTTCTCC-CTAAGGATTAT
1 CTTTTATAAGCGACTGCATATAAATGCCAATATCATTCTTTAGACCTTTCTCCTC-AAGGATTAT
* *
21531481 CATAGATAAGATAAAAAAAGATTGTTTCATGCAAATCCATGGAGGAAAATTGTAAAGAACAAGCA
65 CATAGATAAGATAAAAAAA-ATTGTTTCATGCAAATCAATGGAGGAAAATTGTAAAGAAAAAGCA
* * * *
21531546 C-ACAGGCCAAGTACTATATGAATGACTCGTGATTTTAAAAGGATTAAGGCCATCAGATGCACGC
129 CAACAGGCCAAGCACTATATGAAGGACTCATGATTTTAAAAGGATTAAGGCCATCAGATGCAAGC
21531610 CCAAG
194 CCAAG
21531615 CCTCACATTC
Statistics
Matches: 185, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
200 1 0.01
201 142 0.77
202 42 0.23
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.27
Consensus pattern (201 bp):
CTTTTATAAGCGACTGCATATAAATGCCAATATCATTCTTTAGACCTTTCTCCTCAAGGATTATC
ATAGATAAGATAAAAAAAATTGTTTCATGCAAATCAATGGAGGAAAATTGTAAAGAAAAAGCACA
ACAGGCCAAGCACTATATGAAGGACTCATGATTTTAAAAGGATTAAGGCCATCAGATGCAAGCCC
AAGAAA
Found at i:21532564 original size:234 final size:235
Alignment explanation
Indices: 21531901--21532583 Score: 1093
Period size: 235 Copynumber: 2.9 Consensus size: 235
21531891 ATATGTATAG
* *
21531901 AAATGCCAATATAGTTCTTTAGACCTTTCTCCCCAAAGATTATCATAGATAAAATAAAAGAAGAT
1 AAATGCCAATATCGTTCTTTAGACCTTTCTCCCCAAAGATTATCATAGATAAGATAAAAGAAGAT
* * * * * * * *
21531966 TATTTCATGCAAGTTTATGGAGGCATATTGTAAGGATCAAGCATAACAGGCGAAGTACTATATGA
66 TGTTTCATGCAAATTCATGGAGGCAAATTGTAAGGAACAAGCACAACAAGCCAAGTACTATATGA
*
21532031 AGGACTCATGATTTTAAAAGGATTAAGGCCATCAGATGCAAGCCCAAGCCTCACATTCTTAAGAT
131 AGGACTCATGATTTTAAAAGGATTAAGGCCATCAGATGCAAGCCCAAGCCTCACATTCTTAGGAT
*
21532096 TGT-TTGCAAAACTTAGAAACTTTTATAAGCGACTGCATAT
196 T-TCTTGCAAAACTTAGAAAATTTTATAAGCGACTGCATAT
* * ** *
21532136 AAATGCCAATATCATTCTTTAGACCTTTCTCCCTAGGGATTATCATAGATAAGATAAAATAAGAT
1 AAATGCCAATATCGTTCTTTAGACCTTTCTCCCCAAAGATTATCATAGATAAGATAAAAGAAGAT
* * *
21532201 TGTTTCATGCAAATCCATAGAGGCAAATTGTAAGGAACAAGCACAAAAAGCCAAGTACTATATGA
66 TGTTTCATGCAAATTCATGGAGGCAAATTGTAAGGAACAAGCACAACAAGCCAAGTACTATATGA
* *
21532266 AGGACTCATGATTTTAAAAGGATTAAGGCTATCAGATGCAAGCCTAAGCCTCACATTCTTAGGAT
131 AGGACTCATGATTTTAAAAGGATTAAGGCCATCAGATGCAAGCCCAAGCCTCACATTCTTAGGAT
*
21532331 TTCTTGCAAAACTTAGAAAATTTTATAAGTGACTGCATAT
196 TTCTTGCAAAACTTAGAAAATTTTATAAGCGACTGCATAT
*
21532371 AAATGCCAATATCGTTCTTTAGACCTTTCACCCCAAAGATTATCATAGATAAGATAAAAGAA-AT
1 AAATGCCAATATCGTTCTTTAGACCTTTCTCCCCAAAGATTATCATAGATAAGATAAAAGAAGA-
21532435 TTGTTTCATG-AAATTCATGGAGGCAAATTGTAAGGAACAAGCACAACAAGCCAAGTACTATATG
65 TTGTTTCATGCAAATTCATGGAGGCAAATTGTAAGGAACAAGCACAACAAGCCAAGTACTATATG
*
21532499 AAGGACTCATGATTTTAAAAGGATTAAGGCCATCAGATGCAAGCCCAAGCCTCACATTTTTAGGA
130 AAGGACTCATGATTTTAAAAGGATTAAGGCCATCAGATGCAAGCCCAAGCCTCACATTCTTAGGA
*
21532564 TTTCTTGCAAAACTTGGAAA
195 TTTCTTGCAAAACTTAGAAA
21532584 CGTTTTATCA
Statistics
Matches: 410, Mismatches: 36, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
234 134 0.33
235 276 0.67
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (235 bp):
AAATGCCAATATCGTTCTTTAGACCTTTCTCCCCAAAGATTATCATAGATAAGATAAAAGAAGAT
TGTTTCATGCAAATTCATGGAGGCAAATTGTAAGGAACAAGCACAACAAGCCAAGTACTATATGA
AGGACTCATGATTTTAAAAGGATTAAGGCCATCAGATGCAAGCCCAAGCCTCACATTCTTAGGAT
TTCTTGCAAAACTTAGAAAATTTTATAAGCGACTGCATAT
Found at i:21537579 original size:49 final size:48
Alignment explanation
Indices: 21537459--21537583 Score: 169
Period size: 48 Copynumber: 2.6 Consensus size: 48
21537449 CATATCGGTA
*
21537459 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAACG
* * * * *
21537507 CTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTCGAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATC-AACG
* *
21537556 CCGATGCCATGTCTCATACATGGTCTTA
1 CCGATGCCATGTCCCAAACATGGTCTTA
21537584 GACGGGATCT
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
48 39 0.58
49 28 0.42
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAACG
Found at i:21557005 original size:18 final size:17
Alignment explanation
Indices: 21556963--21557007 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
21556953 AAATAAACAT
*
21556963 AAAATAAAAAGAAAAGAG
1 AAAAT-AAAAGAAAAGAA
*
21556981 AAGATAAAAGAAAAGAAA
1 AAAATAAAAGAAAAG-AA
21556999 AAAATAAAA
1 AAAATAAAA
21557008 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (17 bp):
AAAATAAAAGAAAAGAA
Found at i:21563733 original size:25 final size:25
Alignment explanation
Indices: 21563687--21563734 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
21563677 AAGTTCATAC
* *
21563687 GAGCTGAGTATCGGTAAGCTAATAA
1 GAGCTGAGAATCGGTAACCTAATAA
21563712 GAGCTG-GAATCGGTAACCCTAAT
1 GAGCTGAGAATCGGTAA-CCTAAT
21563735 GGCATGTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (25 bp):
GAGCTGAGAATCGGTAACCTAATAA
Found at i:21565110 original size:45 final size:45
Alignment explanation
Indices: 21564993--21565110 Score: 123
Period size: 45 Copynumber: 2.6 Consensus size: 45
21564983 GCTATACGTA
* * *
21564993 AAAAAAAAGTAAGACAATAGC-CGAAAGATGCTATGCAATTAGGAT
1 AAAAAAGAGTAAGACCATAGCTC-AAAGATGCTATGCAATCAGGAT
* ** *
21565038 AAAAAAGAGTAATACCATAATTGAAAGATGCTATGGC-ATCAGGAT
1 AAAAAAGAGTAAGACCATAGCTCAAAGATGCTAT-GCAATCAGGAT
**
21565083 AAAATTGAGTAAGACCATAGCTCAAAGA
1 AAAAAAGAGTAAGACCATAGCTCAAAGA
21565111 CATTATGGCA
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
45 56 0.97
46 2 0.03
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.19
Consensus pattern (45 bp):
AAAAAAGAGTAAGACCATAGCTCAAAGATGCTATGCAATCAGGAT
Found at i:21567238 original size:20 final size:21
Alignment explanation
Indices: 21567201--21567239 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
21567191 TTTGTGTTTG
21567201 GATTGAATTTCTTCTTGATCA
1 GATTGAATTTCTTCTTGATCA
21567222 GATT-AATTCTCTT-TTGAT
1 GATTGAATT-TCTTCTTGAT
21567240 TCTTTTTGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (21 bp):
GATTGAATTTCTTCTTGATCA
Found at i:21568213 original size:23 final size:23
Alignment explanation
Indices: 21568187--21568232 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
21568177 AAAACTAGAG
*
21568187 TTATCATGGTAATTATTGTAAAT
1 TTATCAGGGTAATTATTGTAAAT
21568210 TTATCAGGGTAATTATTGTAAAT
1 TTATCAGGGTAATTATTGTAAAT
21568233 ACTAAAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (23 bp):
TTATCAGGGTAATTATTGTAAAT
Found at i:21583970 original size:28 final size:28
Alignment explanation
Indices: 21583938--21584025 Score: 131
Period size: 28 Copynumber: 3.1 Consensus size: 28
21583928 AGACCATTGA
* * *
21583938 ATACTCAATGTCTCGCATACTAAGTGCC
1 ATACTCGATATCTCGCACACTAAGTGCC
21583966 ATACTCGATATCTCGCACACTAAGTGCC
1 ATACTCGATATCTCGCACACTAAGTGCC
* *
21583994 ACACTCGATATCTCACACACTAAGTGCC
1 ATACTCGATATCTCGCACACTAAGTGCC
21584022 ATAC
1 ATAC
21584026 ATAGTCGAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.31, C:0.32, G:0.12, T:0.25
Consensus pattern (28 bp):
ATACTCGATATCTCGCACACTAAGTGCC
Found at i:21584110 original size:40 final size:41
Alignment explanation
Indices: 21584009--21584110 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 41
21583999 CGATATCTCA
* *
21584009 CACACTAAGTGCCATACATAG-TCGAAGCTATCTCAAATTG
1 CACACTAAGTGCCATAAATAGCTCGAAGCTATCTCAAATCG
* * * *
21584049 CACACTAATTGCCATATATAGCT-GAAGCTATGTCGAATCG
1 CACACTAAGTGCCATAAATAGCTCGAAGCTATCTCAAATCG
* *
21584089 CACACTAGGTGCCACAAATAGC
1 CACACTAAGTGCCATAAATAGC
21584111 CGATTTGTTG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 51 0.98
41 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (41 bp):
CACACTAAGTGCCATAAATAGCTCGAAGCTATCTCAAATCG
Found at i:21590563 original size:99 final size:101
Alignment explanation
Indices: 21590384--21590564 Score: 251
Period size: 99 Copynumber: 1.8 Consensus size: 101
21590374 GTCGCATGTT
* * * *
21590384 TAGTACTAAGTGCAGGCTACTATGCGTACTCAATTACTTCGATCACGTGTGTAGTACTATGTGCA
1 TAGTACTAAGTGCAGGCTACTACGCGTACTCAATTACTTCGATCACATGAGTAGTACTAAGTGCA
*
21590449 GGCTACTACGTGTATCAAATGGTGAGGTCACGTGTG
66 GGCTACTACGCGTATCAAATGGTGAGGTCACGTGTG
* * *
21590485 TAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATT-GTT-GGTCACATGAGTAGTACTAAGTGC
1 TAGTACTAAGTGCAGGCTACTACGCGTACTCA-ATTACTTCGATCACATGAGTAGTACTAAGTGC
*
21590547 AGGCTACTATGCGTATCA
65 AGGCTACTACGCGTATCA
21590565 GATAGCTTCG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
99 36 0.51
100 4 0.06
101 30 0.43
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (101 bp):
TAGTACTAAGTGCAGGCTACTACGCGTACTCAATTACTTCGATCACATGAGTAGTACTAAGTGCA
GGCTACTACGCGTATCAAATGGTGAGGTCACGTGTG
Found at i:21590567 original size:49 final size:49
Alignment explanation
Indices: 21590330--21590567 Score: 219
Period size: 50 Copynumber: 4.8 Consensus size: 49
21590320 GTGAATACAT
** * * * * *
21590330 GTGTGT-GTACTAAGTGCAGGCTACTACATGTACCATACTGTTAAGTCGC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATTGTT-GGTCAC
* * * * *
21590379 ATGTTTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATTACTTCGATCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGCGTA-TCAGATT-GTT-GGTCAC
* * * * *
21590430 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAAATGGTGAGGTCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATTGT-TGGTCAC
* *
21590480 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATTGTTGGTCAC
* * *
21590529 ATGAGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGAT
21590568 AGCTTCGGCT
Statistics
Matches: 153, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
49 44 0.29
50 72 0.47
51 37 0.24
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (49 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATTGTTGGTCAC
Found at i:21603253 original size:6 final size:6
Alignment explanation
Indices: 21603223--21603384 Score: 109
Period size: 6 Copynumber: 26.3 Consensus size: 6
21603213 AAGAAACATT
* * * *
21603223 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
21603272 ATCAGA ATCAGT ATCAGGTA A-CAGA ATTAGA ATCAAA ATCAGA ATCAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
21603321 ATCAGA ATCAGT ATTAG- GTGACAGA ATCAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
21603371 ATCAGA ATCAGA AT
1 ATCAGA ATCAGA AT
21603385 GTGAATGCAA
Statistics
Matches: 122, Mismatches: 20, Indels: 28
0.72 0.12 0.16
Matches are distributed among these distances:
5 7 0.06
6 99 0.81
7 12 0.10
8 4 0.03
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:21603278 original size:25 final size:25
Alignment explanation
Indices: 21603244--21603384 Score: 178
Period size: 25 Copynumber: 5.7 Consensus size: 25
21603234 AATCAAAATG
* *
21603244 AGAATTAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
21603269 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
21603294 AGAATTAGAATCAAAATCA-G-AATC
1 AGAATCAGAATCAGAATCAGGTAA-C
* * *
21603318 AGAATCAGAATCAGTATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
21603343 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
21603368 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
21603385 GTGAATGCAA
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
23 2 0.02
24 17 0.17
25 79 0.80
26 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:21603355 original size:74 final size:74
Alignment explanation
Indices: 21603234--21603380 Score: 240
Period size: 74 Copynumber: 2.0 Consensus size: 74
21603224 TCAGAACTAG
* *
21603234 AATCAAAATGAGAATTAGAATCAGAATCAGGTGACAGAATCAGAATCAGTATCAGGTAACAGAAT
1 AATCAAAATCAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATCAGTATCAGGTAACAGAAT
*
21603299 TAGAATCAA
66 CAGAATCAA
* * *
21603308 AATCAGAATCAGAATCAGAATCAGTATTAGGTGACAGAATCAGAATCAGTATCAGGTAACAGAAT
1 AATCAAAATCAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATCAGTATCAGGTAACAGAAT
21603373 CAGAATCA
66 CAGAATCA
21603381 GAATGTGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (74 bp):
AATCAAAATCAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATCAGTATCAGGTAACAGAAT
CAGAATCAA
Found at i:21603555 original size:27 final size:27
Alignment explanation
Indices: 21603501--21603581 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
21603491 AGAATGGCTT
* * **
21603501 CCAGAAT-AGATATTGTGACAAAATCA
1 CCAGAATCAGATAATGTGGCAAAGCCA
* *
21603527 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAAAGCCA
21603554 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAATCAGATAATGTGGCAAAGCCA
21603581 C
1 C
21603582 TTAATAGAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
25 2 0.04
26 4 0.09
27 38 0.83
28 2 0.04
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAAAGCCA
Found at i:21604419 original size:27 final size:27
Alignment explanation
Indices: 21604227--21604411 Score: 203
Period size: 27 Copynumber: 6.9 Consensus size: 27
21604217 GAAAAATGGA
* * * *
21604227 AATTTTACCCCACAAGGGTATCTC-AGT
1 AATTCTACCCTACAGGGGTATTTCGA-T
* *
21604254 AATTCTACCCTATAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGAT
* * *
21604281 ATTTTTACCCTACAAGGGTATTTCGAT
1 AATTCTACCCTACAGGGGTATTTCGAT
*
21604308 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGAT
* * *
21604335 ATTTTTACCCTACAAGGGTATTTCGAT
1 AATTCTACCCTACAGGGGTATTTCGAT
*
21604362 AATTCTACCCTATAGGGGTATTTC-AGT
1 AATTCTACCCTACAGGGGTATTTCGA-T
*
21604389 AATTCTACCCTATAGGGGTATTT
1 AATTCTACCCTACAGGGGTATTT
21604412 TAATAATTTC
Statistics
Matches: 133, Mismatches: 23, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 132 0.99
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCGAT
Found at i:21604419 original size:54 final size:54
Alignment explanation
Indices: 21604229--21604411 Score: 278
Period size: 54 Copynumber: 3.4 Consensus size: 54
21604219 AAAATGGAAA
* *
21604229 TTTTACCCCACAAGGGTATCTC-AGTAATTCTACCCTATAGGGGTATTTCGGTAT
1 TTTTACCCTACAAGGGTATTTCGA-TAATTCTACCCTATAGGGGTATTTCGGTAT
*
21604283 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAT
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTCGGTAT
* *
21604337 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTCAGTAA
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTCGGTAT
* * *
21604391 TTCTACCCTATAGGGGTATTT
1 TTTTACCCTACAAGGGTATTT
21604412 TAATAATTTC
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
54 118 0.99
55 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (54 bp):
TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTCGGTAT
Found at i:21604434 original size:27 final size:26
Alignment explanation
Indices: 21604404--21604528 Score: 67
Period size: 27 Copynumber: 4.7 Consensus size: 26
21604394 TACCCTATAG
21604404 GGGTATTTTAATAATTTCGTAAATCGA
1 GGGTATTTTAATAATTT-GTAAATCGA
*** * *
21604431 GGGTAAAATGATAATTTTGTAAATCGG
1 GGGTATTTTAATAA-TTTGTAAATCGA
* **
21604458 GGGTACTTTGGTAATTT-TACAAGTCGA
1 GGGTATTTTAATAATTTGTA-AA-TCGA
*
21604485 GGGT-TTTTCAATAATTT-TACAGGTCGA
1 GGGTATTTT-AATAATTTGTA-A-ATCGA
* *
21604512 GGGTATTTCAGTAATTT
1 GGGTATTTTAATAATTT
21604529 CACAAGTCAG
Statistics
Matches: 76, Mismatches: 16, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
25 2 0.03
26 8 0.11
27 60 0.79
28 6 0.08
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (26 bp):
GGGTATTTTAATAATTTGTAAATCGA
Found at i:21604542 original size:27 final size:27
Alignment explanation
Indices: 21604468--21604663 Score: 123
Period size: 27 Copynumber: 7.3 Consensus size: 27
21604458 GGGTACTTTG
*
21604468 GTAATTTTACAAGTCGAGGGTTTTTCA
1 GTAATTTTACAAGTCGAGGGTATTTCA
* *
21604495 ATAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAGTCGAGGGTATTTCA
* **
21604522 GTAATTTCACAAGTC-AGGGGTATTTTG
1 GTAATTTTACAAGTCGA-GGGTATTTCA
* * **
21604549 GTAATTTTACAA-ACCAGGGGTATTTTG
1 GTAATTTTACAAGTCGA-GGGTATTTCA
* * **
21604576 GTAATTTTACAA-ACTAAGGGTATTTTG
1 GTAATTTTACAAGTC-GAGGGTATTTCA
* * **
21604603 GTAATTTTACAA-ACCAGGGATATTTTG
1 GTAATTTTACAAGTCGAGGG-TATTTCA
* **
21604630 GTAATTTTTCTAA-TCGAGGGTATTTTG
1 GTAATTTTAC-AAGTCGAGGGTATTTCA
21604657 GTAATTT
1 GTAATTT
21604664 GGTAAACTAA
Statistics
Matches: 149, Mismatches: 15, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
26 6 0.04
27 135 0.91
28 8 0.05
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAGTCGAGGGTATTTCA
Found at i:21604554 original size:54 final size:54
Alignment explanation
Indices: 21604512--21604663 Score: 164
Period size: 54 Copynumber: 2.8 Consensus size: 54
21604502 TACAGGTCGA
* *
21604512 GGGTATTTCAGTAATTTCAC-AAGTCAGGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTCACAAACT-AAGGGTATTTTGGTAATTTTACAAACCAG
** *
21604566 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTCACAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
* ** ** * *
21604620 GGATATTTTGGTAATTTTTCTAA-TCGAGGGTATTTTGGTAATTT
1 GGGTATTTCAGTAATTTCACAAACT-AAGGGTATTTTGGTAATTT
21604664 GGTAAACTAA
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.01
54 83 0.95
55 3 0.03
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTCACAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
Found at i:21604581 original size:81 final size:81
Alignment explanation
Indices: 21604457--21604663 Score: 222
Period size: 81 Copynumber: 2.6 Consensus size: 81
21604447 TTGTAAATCG
* * ** ** *
21604457 GGGGTACTTTGGTAATTTTACAAGTCGAGGGT-TTTTCAATAATTTTAC-AGGTCGAGGGTATTT
1 GGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTT-GGTAATTTTACAAACT-AAGGGTATTT
**
21604520 CAGTAATTTCACAAGTCA
64 CAGTAATTTCACAAACCA
* *
21604538 GGGGTATTTTGGTAATTTTACAAA-CCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTT
1 GGGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTC
* *
21604602 GGTAATTTTACAAACCA
65 AGTAATTTCACAAACCA
* * *
21604619 GGGATATTTTGGTAATTTTTCTAATCGAGGGTATTTTGGTAATTT
1 GGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTT
21604664 GGTAAACTAA
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
80 2 0.02
81 95 0.90
82 8 0.08
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (81 bp):
GGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCA
GTAATTTCACAAACCA
Found at i:21606137 original size:44 final size:44
Alignment explanation
Indices: 21606068--21606159 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
21606058 CCGAATTAAC
*
21606068 AGTAACAGTACGACACACAAGGTGCCTCATCAACTTAAAGTCGA
1 AGTAACAGTACGACACACAAGGTGCCTCATCAACTCAAAGTCGA
** * *
21606112 AGTAACAGTACGACACTTATA-GTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACA-AGGTGCCTCATCAACTCAAAGTCGA
21606156 AGTA
1 AGTA
21606160 TCCCTGAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGACACACAAGGTGCCTCATCAACTCAAAGTCGA
Found at i:21606458 original size:24 final size:23
Alignment explanation
Indices: 21606406--21606460 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
21606396 CAATTTCCAT
*
21606406 ATCAATCAAATATATCCATATAA
1 ATCAATCAAATATATCCATACAA
*
21606429 ATTCAAT-AAATTTATCACATACCAA
1 A-TCAATCAAATATATC-CATA-CAA
21606454 ATCAATC
1 ATCAATC
21606461 TATTTCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 9 0.35
24 14 0.54
25 3 0.12
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (23 bp):
ATCAATCAAATATATCCATACAA
Found at i:21606849 original size:12 final size:11
Alignment explanation
Indices: 21606809--21606849 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
21606799 TTAATATTTA
21606809 AATTTCTTATTC
1 AATTTC-TATTC
21606821 AATTTCTATTC
1 AATTTCTATTC
*
21606832 AATTTCTACTTT
1 AATTTCTA-TTC
21606844 AATTTC
1 AATTTC
21606850 AATTTTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 13 0.48
12 14 0.52
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTCTATTC
Found at i:21607733 original size:5 final size:5
Alignment explanation
Indices: 21607723--21607776 Score: 65
Period size: 5 Copynumber: 10.6 Consensus size: 5
21607713 TTATTTCATA
* *
21607723 ATAAT ATAAT ATAAT ATAAC ATAAT ATAAT -TAAT ATAATTT AAAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA--T ATAAT ATAAT
21607774 ATA
1 ATA
21607777 GTTTAATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
4 4 0.10
5 34 0.81
7 4 0.10
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:21610184 original size:24 final size:24
Alignment explanation
Indices: 21610152--21610201 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
21610142 GATCCGGAAA
21610152 TTCACTATTCAATTTCAACCAAGG
1 TTCACTATTCAATTTCAACCAAGG
21610176 TTCACTATTCAATTTCAACCAAGG
1 TTCACTATTCAATTTCAACCAAGG
21610200 TT
1 TT
21610202 TACTCCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (24 bp):
TTCACTATTCAATTTCAACCAAGG
Found at i:21610476 original size:12 final size:11
Alignment explanation
Indices: 21610436--21610476 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
21610426 TTAATATTTA
21610436 AATTTCTTATTC
1 AATTTC-TATTC
21610448 AATTTCTATTC
1 AATTTCTATTC
*
21610459 AATTTCTACTTT
1 AATTTCTA-TTC
21610471 AATTTC
1 AATTTC
21610477 AATTTTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 13 0.48
12 14 0.52
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTCTATTC
Found at i:21610933 original size:29 final size:29
Alignment explanation
Indices: 21610877--21610952 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
21610867 CCTTTTCTTT
* *
21610877 CTTTTTTTTTCCTTTCTATCTTTCTCCCTT-
1 CTTTTTGTTT-CTTTCT-GCTTTCTCCCTTC
*
21610907 GTTTTTCGTTTCTATTCTGCTTT-TCCCTTC
1 CTTTTT-GTTTCT-TTCTGCTTTCTCCCTTC
21610937 CTTTTTGTTTCTTTCT
1 CTTTTTGTTTCTTTCT
21610953 TTTCTCTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
28 4 0.10
29 12 0.31
30 16 0.41
31 7 0.18
ACGTcount: A:0.03, C:0.26, G:0.05, T:0.66
Consensus pattern (29 bp):
CTTTTTGTTTCTTTCTGCTTTCTCCCTTC
Found at i:21612619 original size:79 final size:78
Alignment explanation
Indices: 21612532--21612702 Score: 179
Period size: 79 Copynumber: 2.2 Consensus size: 78
21612522 GGACTAAGAT
*
21612532 CCGAAGGCATTTGTGCGAG-A-TACAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATA-
1 CCGAAGGCATTTGTGCGAGCATTA-AA--TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATAC
*
21612594 T-AAATCCGGGTTAAGTC
62 TGAAA-CCGGGCTAAGTC
* * * * *
21612611 CCGAAGGCATTCGTGTGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTGA
1 CCGAAGGCATTTGTGCGAG-CATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTGA
*
21612676 AACCGGGCTATGTC
65 AACCGGGCTAAGTC
*
21612690 CCGAAGGTATTTG
1 CCGAAGGCATTTG
21612703 AACGAGGAGC
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
78 11 0.14
79 58 0.75
80 3 0.04
81 3 0.04
82 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGCATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTGAA
ACCGGGCTAAGTC
Found at i:21612682 original size:39 final size:38
Alignment explanation
Indices: 21612479--21612696 Score: 170
Period size: 40 Copynumber: 5.5 Consensus size: 38
21612469 TTGAATGCTG
* * * * *
21612479 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTG-TGAGT-TATAAA
** * * * *
21612519 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACAAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGTGAGTTATAA-A
* * * *
21612559 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATATAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTATAAA
*
21612598 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTA-TAAA
21612638 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTGAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTA-T-AAA
* *
21612678 -CCGGGCTATGTCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21612697 TATTTGAACG
Statistics
Matches: 146, Mismatches: 24, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
38 3 0.02
39 55 0.38
40 81 0.55
41 7 0.05
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (38 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTATAAA
Found at i:21617898 original size:13 final size:14
Alignment explanation
Indices: 21617882--21617910 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21617872 TTAATCTTGG
21617882 TTGTTT-TTTTTTT
1 TTGTTTGTTTTTTT
21617895 TTGTTTGTTTTTTT
1 TTGTTTGTTTTTTT
21617909 TT
1 TT
21617911 TGGGTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (14 bp):
TTGTTTGTTTTTTT
Found at i:21618041 original size:16 final size:16
Alignment explanation
Indices: 21618020--21618054 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
21618010 GTAGAGATCG
*
21618020 TTGTTTTTTTTTTTTT
1 TTGTTTCTTTTTTTTT
21618036 TTGTTTCTTTTTTTTT
1 TTGTTTCTTTTTTTTT
21618052 TTG
1 TTG
21618055 GGTCTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.89
Consensus pattern (16 bp):
TTGTTTCTTTTTTTTT
Found at i:21618062 original size:15 final size:16
Alignment explanation
Indices: 21618027--21618062 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21618017 TCGTTGTTTT
**
21618027 TTTTTTTTTTTGTTTC
1 TTTTTTTTTTTGGGTC
21618043 TTTTTTTTTTTGGGTC
1 TTTTTTTTTTTGGGTC
21618059 TTTT
1 TTTT
21618063 GTCGGCTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (16 bp):
TTTTTTTTTTTGGGTC
Found at i:21619143 original size:17 final size:18
Alignment explanation
Indices: 21619121--21619155 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21619111 GTTGTGGCCG
21619121 TTTGATT-TGTATTATTT
1 TTTGATTGTGTATTATTT
*
21619138 TTTGATTGTGTTTTATTT
1 TTTGATTGTGTATTATTT
21619156 GCGGCTTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (18 bp):
TTTGATTGTGTATTATTT
Found at i:21619637 original size:19 final size:19
Alignment explanation
Indices: 21619598--21619652 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
21619588 GGGTTCTTTT
* * *
21619598 TGGGGTTGTTTTTGGTAGG
1 TGGGGTTGTTGTGGGTGGG
*
21619617 TGTGGTTGTTGTGGGTGGG
1 TGGGGTTGTTGTGGGTGGG
*
21619636 TGGGGGTGTTGTGGGTG
1 TGGGGTTGTTGTGGGTG
21619653 TGGTTTTGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.02, C:0.00, G:0.56, T:0.42
Consensus pattern (19 bp):
TGGGGTTGTTGTGGGTGGG
Found at i:21619688 original size:8 final size:8
Alignment explanation
Indices: 21619664--21619702 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
21619654 GGTTTTGTGG
*
21619664 TGTTTGGT
1 TGTTTTGT
21619672 TGTTTTGT
1 TGTTTTGT
21619680 TGTTTTGTT
1 TGTTTTG-T
*
21619689 TGTTTTGG
1 TGTTTTGT
21619697 TGTTTT
1 TGTTTT
21619703 TCTGTTGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.00, C:0.00, G:0.28, T:0.72
Consensus pattern (8 bp):
TGTTTTGT
Found at i:21619691 original size:17 final size:17
Alignment explanation
Indices: 21619655--21619702 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
21619645 TGTGGGTGTG
*
21619655 GTTTTGTGGTGTTTGGTT
1 GTTTTGTTGT-TTTGGTT
*
21619673 GTTTTGTTGTTTTGTTT
1 GTTTTGTTGTTTTGGTT
*
21619690 GTTTTGGTGTTTT
1 GTTTTGTTGTTTT
21619703 TCTGTTGGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (17 bp):
GTTTTGTTGTTTTGGTT
Found at i:21627059 original size:39 final size:37
Alignment explanation
Indices: 21627016--21627182 Score: 144
Period size: 38 Copynumber: 4.4 Consensus size: 37
21627006 GGACTAAGAT
21627016 CCGAAGGCATTTGTGCGAGATACAAGTTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATA-AA--TCCGGGTTAAGTC
*
21627055 CCGAA-GCCTTTGTGCGAGATATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAG--A-TAAATCCGGGTTAAGTC
* * **
21627094 CCGAAGGCATTCGTGAGTCATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGA-TAAATCCGGGTTAAGTC
* * *
21627132 CCGAAGGCA-TTGTGTGAGTTACTAAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAG--A-TAAATCCGGGTTAAGTC
21627170 CCGAAGGCATTTG
1 CCGAAGGCATTTG
21627183 AACGAGGAGC
Statistics
Matches: 107, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
37 5 0.05
38 70 0.65
39 19 0.18
40 11 0.10
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (37 bp):
CCGAAGGCATTTGTGCGAGATAAATCCGGGTTAAGTC
Found at i:21628601 original size:12 final size:13
Alignment explanation
Indices: 21628574--21628609 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
21628564 ATATTAGTTA
21628574 ATAATAATACATT
1 ATAATAATACATT
21628587 ATAATAATA-ATT
1 ATAATAATACATT
21628599 ATAATAA-ACAT
1 ATAATAATACAT
21628610 CTATTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.05
12 12 0.55
13 9 0.41
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAATAATACATT
Found at i:21628944 original size:5 final size:5
Alignment explanation
Indices: 21628934--21628987 Score: 65
Period size: 5 Copynumber: 10.6 Consensus size: 5
21628924 TTATTTCATA
* *
21628934 ATAAT ATAAT ATAAT ATAAC ATAAT ATAAT -TAAT ATAATT CAAAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA-T -ATAAT ATAAT
21628985 ATA
1 ATA
21628988 GTTTAATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
4 4 0.10
5 33 0.79
6 2 0.05
7 3 0.07
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (5 bp):
ATAAT
Done.