Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold123
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: 1422801
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 1358 characters in sequence are not A, C, G, or T
File 4 of 9
Found at i:567016 original size:28 final size:27
Alignment explanation
Indices: 566954--567029 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 27
566944 ATTTTAAGAT
* *
566954 ATTTTAAAATAATTTT--AATTTTTAT
1 ATTTTAATATAATTTTAAAATTTTTAA
566979 ATTTTCAATATAATTTTAAAATTTTTAA
1 ATTTT-AATATAATTTTAAAATTTTTAA
*
567007 ACTTTTAATATACTTTTTAAAAT
1 A-TTTTAATATA-ATTTTAAAAT
567030 ATCATAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
25 5 0.12
26 10 0.23
28 15 0.35
29 13 0.30
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTTTAATATAATTTTAAAATTTTTAA
Found at i:567064 original size:15 final size:14
Alignment explanation
Indices: 567034--567076 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
567024 TAAAATATCA
*
567034 TAATTTGAAAATTT
1 TAATTTTAAAATTT
567048 TAATTTTAAATATTT
1 TAATTTTAAA-ATTT
567063 TACATTTTTAAAAT
1 TA-A-TTTTAAAAT
567077 AAATTTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 9 0.36
15 6 0.24
16 3 0.12
17 7 0.28
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (14 bp):
TAATTTTAAAATTT
Found at i:571072 original size:20 final size:20
Alignment explanation
Indices: 571047--571120 Score: 114
Period size: 20 Copynumber: 3.7 Consensus size: 20
571037 GTTACAAGTA
* *
571047 ATGTATCGATATAAT-TCATC
1 ATGTATCGATACAATGT-ACC
571067 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
571087 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
571107 ATGTATCGATACAA
1 ATGTATCGATACAA
571121 ATAGTGGTAG
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
20 50 0.98
21 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:571188 original size:31 final size:33
Alignment explanation
Indices: 571150--571213 Score: 96
Period size: 31 Copynumber: 2.0 Consensus size: 33
571140 TGCCAGTTTC
*
571150 ATGTATCGATACAATGAAT-ATG-ATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
*
571181 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
571214 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 17 0.59
32 3 0.10
33 9 0.31
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:571812 original size:22 final size:22
Alignment explanation
Indices: 571787--571828 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
571777 ACATTAACAT
*
571787 ATTTCTCTCCCTTTATCAAAGC
1 ATTTCTCCCCCTTTATCAAAGC
*
571809 ATTTCTCCCCCTTTGTCAAA
1 ATTTCTCCCCCTTTATCAAA
571829 TATCAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.33, G:0.05, T:0.40
Consensus pattern (22 bp):
ATTTCTCCCCCTTTATCAAAGC
Found at i:573729 original size:13 final size:13
Alignment explanation
Indices: 573711--573750 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
573701 ATAGTAACCC
*
573711 ATGTATCCATACA
1 ATGTATCGATACA
573724 ATGTATCGATACA
1 ATGTATCGATACA
573737 ATGTATCGATACA
1 ATGTATCGATACA
573750 A
1 A
573751 GGAATGTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:576284 original size:13 final size:13
Alignment explanation
Indices: 576266--576291 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
576256 CAATTTTTTG
576266 TGTATCGATACAT
1 TGTATCGATACAT
576279 TGTATCGATACAT
1 TGTATCGATACAT
576292 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:576376 original size:20 final size:20
Alignment explanation
Indices: 576351--576423 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
576341 CAACTTTTTT
576351 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
576371 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
576392 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
576412 ATGTATCGATAC
1 ATGTATCGATAC
576424 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:576389 original size:41 final size:41
Alignment explanation
Indices: 576330--576423 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
576320 CTGCCAAGAA
*
576330 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
576371 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
576412 ATGTATCGATAC
1 ATGTATCGATAC
576424 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:576405 original size:21 final size:21
Alignment explanation
Indices: 576330--576405 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
576320 CTGCCAAGAA
* *
576330 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
576351 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
576371 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
576392 ATGTATCGATACAT
1 ATGTATCGATACAT
576406 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:577905 original size:20 final size:20
Alignment explanation
Indices: 577880--577936 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
577870 TTTTCACAAT
577880 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
577900 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
577920 TTGTATTGATACATTGT
1 TTGTATCGATACATTGT
577937 ATCGATACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:577988 original size:20 final size:19
Alignment explanation
Indices: 577963--578049 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 19
577953 TTCACCCAGA
577963 TGTATCGATACACTTTG-CAT
1 TGTATCGATACA--TTGCCAT
*
577983 TGTATCGCTACATTGCTCAT
1 TGTATCGATACATTGC-CAT
578003 TGTATCGAT--A----CAT
1 TGTATCGATACATTGCCAT
*
578016 TGTATCGACACATTGCTCAT
1 TGTATCGATACATTGC-CAT
578036 TGTATCGATACATT
1 TGTATCGATACATT
578050 TTACAATGTA
Statistics
Matches: 54, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
13 11 0.20
15 1 0.02
18 4 0.07
20 38 0.70
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATTGCCAT
Found at i:578022 original size:33 final size:33
Alignment explanation
Indices: 577980--578049 Score: 124
Period size: 33 Copynumber: 2.1 Consensus size: 33
577970 ATACACTTTG
577980 CATTGTATCG-CTACATTGCTCATTGTATCGATA
1 CATTGTATCGAC-ACATTGCTCATTGTATCGATA
578013 CATTGTATCGACACATTGCTCATTGTATCGATA
1 CATTGTATCGACACATTGCTCATTGTATCGATA
578046 CATT
1 CATT
578050 TTACAATGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 35 0.97
34 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (33 bp):
CATTGTATCGACACATTGCTCATTGTATCGATA
Found at i:578049 original size:13 final size:13
Alignment explanation
Indices: 578000--578030 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
577990 CTACATTGCT
*
578000 CATTGTATCGATA
1 CATTGTATCGACA
578013 CATTGTATCGACA
1 CATTGTATCGACA
578026 CATTG
1 CATTG
578031 CTCATTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (13 bp):
CATTGTATCGACA
Found at i:580565 original size:51 final size:51
Alignment explanation
Indices: 580507--580626 Score: 159
Period size: 51 Copynumber: 2.4 Consensus size: 51
580497 TTATTTCCGA
* * * * *
580507 GGGGATACTCTAACCCCGATTTTATTTCTAAAATACCATTTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
* * *
580558 GGGGATACTCCAACTCTGATTTTATTTCCAAAACACCAATTTCTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
*
580609 GGAGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
580627 TTATTTCATT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
Found at i:582881 original size:20 final size:21
Alignment explanation
Indices: 582849--582891 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
582839 GAATCATGCA
582849 AATTCTTATTTTTC-TTAGCT
1 AATTCTTATTTTTCATTAGCT
582869 AATTCATTA-TTTTCATTAGCT
1 AATTC-TTATTTTTCATTAGCT
582890 AA
1 AA
582892 CTTTTTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.28, C:0.14, G:0.05, T:0.53
Consensus pattern (21 bp):
AATTCTTATTTTTCATTAGCT
Found at i:585151 original size:33 final size:33
Alignment explanation
Indices: 585114--585182 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
585104 CCGTTACAAG
* *
585114 CAATGTATCGATACAGT-TCATCATGTATCGATA
1 CAATGTATCGATACAATGT-ACCATGTATCGATA
585147 CAATGTATCGATACAATGTACCATGTATCGATA
1 CAATGTATCGATACAATGTACCATGTATCGATA
585180 CAA
1 CAA
585183 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (33 bp):
CAATGTATCGATACAATGTACCATGTATCGATA
Found at i:585154 original size:13 final size:13
Alignment explanation
Indices: 585114--585166 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
585104 CCGTTACAAG
585114 CAATGTATCGATA
1 CAATGTATCGATA
585127 C-A-GT-TC-AT-
1 CAATGTATCGATA
585135 C-ATGTATCGATA
1 CAATGTATCGATA
585147 CAATGTATCGATA
1 CAATGTATCGATA
585160 CAATGTA
1 CAATGTA
585167 CCATGTATCG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 2 0.06
9 4 0.11
10 4 0.11
11 4 0.11
12 2 0.06
13 19 0.54
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:585256 original size:19 final size:20
Alignment explanation
Indices: 585232--585283 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
585222 GCAATTGTCC
*
585232 ATGTATCAATACAATGAAT-
1 ATGTATCAATACAAAGAATA
* *
585251 ATGTATCGATACAAAGCATA
1 ATGTATCAATACAAAGAATA
585271 ATGTATCAATACA
1 ATGTATCAATACA
585284 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (20 bp):
ATGTATCAATACAAAGAATA
Found at i:589704 original size:21 final size:22
Alignment explanation
Indices: 589680--589729 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
589670 ATCAAATCTT
* *
589680 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
589701 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
589723 --TCAAAAT
1 CTTCAAAAT
589730 CATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:591387 original size:18 final size:18
Alignment explanation
Indices: 591364--591403 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
591354 AAAGAGGAAG
591364 AAATATTGTTTTGAAAAT
1 AAATATTGTTTTGAAAAT
591382 AAATATTGTTTTGAAAAT
1 AAATATTGTTTTGAAAAT
591400 AAAT
1 AAAT
591404 TTTTATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (18 bp):
AAATATTGTTTTGAAAAT
Found at i:591476 original size:21 final size:23
Alignment explanation
Indices: 591437--591480 Score: 74
Period size: 21 Copynumber: 2.0 Consensus size: 23
591427 TTTTAACCGA
591437 TTATCAAAGGGGAGAAATTTTTT
1 TTATCAAAGGGGAGAAATTTTTT
591460 TTATCAAA-GGG-GAAATTTTTT
1 TTATCAAAGGGGAGAAATTTTTT
591481 AACGAGAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.48
22 3 0.14
23 8 0.38
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (23 bp):
TTATCAAAGGGGAGAAATTTTTT
Found at i:592072 original size:13 final size:13
Alignment explanation
Indices: 592054--592078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
592044 CATTATGCTT
592054 TGTATCGATACAA
1 TGTATCGATACAA
592067 TGTATCGATACA
1 TGTATCGATACA
592079 TGGACAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:592092 original size:20 final size:19
Alignment explanation
Indices: 592063--592100 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
592053 TTGTATCGAT
592063 ACAATGTATCGATACATGG
1 ACAATGTATCGATACATGG
592082 ACAATTGTATCGATACATG
1 ACAA-TGTATCGATACATG
592101 AAACGGGCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
ACAATGTATCGATACATGG
Found at i:592153 original size:43 final size:43
Alignment explanation
Indices: 592086--592186 Score: 175
Period size: 43 Copynumber: 2.3 Consensus size: 43
592076 ACATGGACAA
*
592086 TTGTATCGATACATGAAACGGGCAGTAGCTACCCTACCACTAT
1 TTGTATCGATACATGAAACAGGCAGTAGCTACCCTACCACTAT
* *
592129 TTGTATCGATACATGAAATAGGCAGTAGCTACCCTACCACTGT
1 TTGTATCGATACATGAAACAGGCAGTAGCTACCCTACCACTAT
592172 TTGTATCGATACATG
1 TTGTATCGATACATG
592187 GCACATTGTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (43 bp):
TTGTATCGATACATGAAACAGGCAGTAGCTACCCTACCACTAT
Found at i:592211 original size:13 final size:13
Alignment explanation
Indices: 592193--592217 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
592183 CATGGCACAT
592193 TGTATCGATACAA
1 TGTATCGATACAA
592206 TGTATCGATACA
1 TGTATCGATACA
592218 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:592215 original size:33 final size:32
Alignment explanation
Indices: 592173--592235 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
592163 TACCACTGTT
592173 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
592206 TGTATCGATACATGATGAATTGTATCGATA
1 TGTATCGATACATGA-GAATTGTATCGATA
592236 TATTGCTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:593427 original size:13 final size:13
Alignment explanation
Indices: 593409--593433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
593399 CAATTCTTCA
593409 TGTATCGATACAC
1 TGTATCGATACAC
593422 TGTATCGATACA
1 TGTATCGATACA
593434 ATATGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:594158 original size:15 final size:15
Alignment explanation
Indices: 594138--594184 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
594128 TAAAACTCTT
594138 TATAAAACAAATTTA
1 TATAAAACAAATTTA
**
594153 TATAAAACACCTCCTT-
1 TATAAAACAAAT--TTA
594169 TATAAAACAAATTTA
1 TATAAAACAAATTTA
594184 T
1 T
594185 TTCAAATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 10 0.40
17 2 0.08
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (15 bp):
TATAAAACAAATTTA
Found at i:596036 original size:17 final size:17
Alignment explanation
Indices: 596014--596063 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 17
596004 TAGTAACCCA
596014 TGTATCGATACATACAT
1 TGTATCGATACATACAT
*
596031 TGTATCGATACAAAGAACAT
1 TGTATCGATAC--A-TACAT
596051 TGTATCGATACAT
1 TGTATCGATACAT
596064 CTGGGTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 11 0.39
18 1 0.04
19 1 0.04
20 15 0.54
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (17 bp):
TGTATCGATACATACAT
Found at i:600556 original size:3 final size:3
Alignment explanation
Indices: 600542--600579 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
600532 CCGAGTCACC
* *
600542 TCA TCA TTA TCA TCA TCA TCA TCA TCA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
600580 TTTGACGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (3 bp):
TCA
Found at i:602269 original size:19 final size:20
Alignment explanation
Indices: 602224--602277 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
602214 CTGCCAGATT
* *
602224 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTAAA
*
602244 TATGTATCGATACAA-TAAA
1 CATGTATCGATACAATTAAA
602263 CATGTATCGATACAA
1 CATGTATCGATACAA
602278 AGCATAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTAAA
Found at i:610633 original size:20 final size:20
Alignment explanation
Indices: 610607--610661 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
610597 CTGCCAGTTT
*
610607 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAA
* *
610627 TATGTATCGATATAA-TGAA
1 CATGTATCGATACAATTGAA
*
610646 CATATATCGATACAAT
1 CATGTATCGATACAAT
610662 GTATCGATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:611331 original size:21 final size:20
Alignment explanation
Indices: 611300--611340 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
611290 TTCAATAAAA
611300 CTCCCCTTAATAAAATAATT
1 CTCCCCTTAATAAAATAATT
611320 CTCCCTCTTAATAAAATAATT
1 CTCCC-CTTAATAAAATAATT
611341 AAAGCTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
CTCCCCTTAATAAAATAATT
Found at i:611348 original size:21 final size:21
Alignment explanation
Indices: 611305--611349 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
611295 TAAAACTCCC
***
611305 CTTAATAAAATAATTCTCCCT
1 CTTAATAAAATAATTAAACCT
*
611326 CTTAATAAAATAATTAAAGCT
1 CTTAATAAAATAATTAAACCT
611347 CTT
1 CTT
611350 TTTTTATAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (21 bp):
CTTAATAAAATAATTAAACCT
Found at i:613762 original size:13 final size:13
Alignment explanation
Indices: 613744--613769 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
613734 CATTTTGGGA
613744 TGTATCGATACAT
1 TGTATCGATACAT
613757 TGTATCGATACAT
1 TGTATCGATACAT
613770 ATTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:613766 original size:33 final size:32
Alignment explanation
Indices: 613724--613787 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
613714 TACAAGCCAA
*
613724 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATATTGGG-TGTATCGATACAT
*
613757 TGTATCGATACATATTGTGTGTATCGATACA
1 TGTATCGATACATATTGGGTGTATCGATACA
613788 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATATTGGGTGTATCGATACAT
Found at i:614476 original size:22 final size:21
Alignment explanation
Indices: 614449--614538 Score: 81
Period size: 22 Copynumber: 3.9 Consensus size: 21
614439 TTTTCTTTTC
614449 TCTCCCCCTTAATCAAAAAATT
1 TCTCCCCCTTAAT-AAAAAATT
*
614471 TCTCCCCCTTAATAATCACATATTTCTT
1 TCTCCCCCTTAATAA--A-A-A---ATT
*
614499 TCTCCCCCTTAATCATAAAATT
1 TCTCCCCCTTAAT-AAAAAATT
614521 TCTCCCCCTTAATAAAAA
1 TCTCCCCCTTAATAAAAA
614539 TTTATTTACA
Statistics
Matches: 56, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
21 6 0.11
22 28 0.50
23 1 0.02
24 1 0.02
25 2 0.04
26 1 0.02
27 1 0.02
28 15 0.27
29 1 0.02
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (21 bp):
TCTCCCCCTTAATAAAAAATT
Found at i:615894 original size:21 final size:20
Alignment explanation
Indices: 615865--615907 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
615855 TGCTAGTGTA
*
615865 GGGGCTGCCCGGTTGCGACCT
1 GGGGCTG-CCGGTCGCGACCT
*
615886 GGGGGTGCCGGTCGCGACCT
1 GGGGCTGCCGGTCGCGACCT
615906 GG
1 GG
615908 TGAGTACTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.05, C:0.30, G:0.49, T:0.16
Consensus pattern (20 bp):
GGGGCTGCCGGTCGCGACCT
Found at i:616367 original size:13 final size:13
Alignment explanation
Indices: 616349--616386 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
616339 ATAAACCCTT
*
616349 TGTATCGATACAC
1 TGTATCGATACAA
616362 TGTATCGATACAA
1 TGTATCGATACAA
616375 TGTATCGATACA
1 TGTATCGATACA
616387 GAGAATGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:622676 original size:20 final size:21
Alignment explanation
Indices: 622629--622681 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
622619 GCCAATGACC
*
622629 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
622650 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
622670 TGTATCGATACA
1 TGTATCGATACA
622682 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:622687 original size:13 final size:13
Alignment explanation
Indices: 622669--622693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
622659 ACATTTGGTC
622669 ATGTATCGATACA
1 ATGTATCGATACA
622682 ATGTATCGATAC
1 ATGTATCGATAC
622694 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:623145 original size:21 final size:20
Alignment explanation
Indices: 623100--623147 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
623090 TTTAATGAAG
623100 ATTTTGATGAAAAATAGATA
1 ATTTTGATGAAAAATAGATA
* *
623120 GTTTTGATGTGAAAAT-GATGA
1 ATTTTGATG-AAAAATAGAT-A
623141 ATTTTGA
1 ATTTTGA
623148 AAATGATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.40
Consensus pattern (20 bp):
ATTTTGATGAAAAATAGATA
Found at i:626708 original size:28 final size:28
Alignment explanation
Indices: 626652--626719 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
626642 GGAATAAAGC
**
626652 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCTCGGAAATAA
626680 CGGGGTTGGAGTAT-CCCT-GATGAAATAA
1 CGGGGTTGGAGTATCCCCTCG--GAAATAA
*
626708 CGAGGTTGGAGT
1 CGGGGTTGGAGT
626720 GTCCTCGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.03
27 4 0.11
28 30 0.86
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCGGAAATAA
Found at i:626782 original size:53 final size:52
Alignment explanation
Indices: 626711--626886 Score: 212
Period size: 52 Copynumber: 3.4 Consensus size: 52
626701 GAAATAACGA
* * * * *
626711 GGTTGGAGTGTCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAATAGAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTAGTG-TTTTAGAAATAAAATCGG
* * * *
626764 AGCTGGAGTATCCCCGA-T-TAAAGGAAAATTAGTGTTTTAAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAA--AAAATTAGTGTTTTAGAAATAAAATCGG
* *
626816 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGAAATAAAATCGG
626868 GGTTGGAGTATCCCCGATT
1 GGTTGGAGTATCCCCGATT
626887 ATGAGAAATC
Statistics
Matches: 104, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
51 3 0.03
52 76 0.73
53 23 0.22
54 2 0.02
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGAAATAAAATCGG
Found at i:626926 original size:51 final size:52
Alignment explanation
Indices: 626767--626930 Score: 156
Period size: 52 Copynumber: 3.2 Consensus size: 52
626757 GAATCGGAGC
* * * * ** *
626767 TGGAGTATCCCCGATTAAAGG-AAAATTAGTGTTTTAAAAATAAAATCGGGGT
1 TGGAGTATCCCCGATT-ATGGAAAAATCAATATTTTAGCAATAAAAGCGGGGT
* * * * *
626819 TGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAATCGGGGT
1 TGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGCAATAAAAGCGGGGT
*
626871 TGGAGTATCCCCGATTAT-GAGAAATCAATATTTTAAG-AAT-AAAGCAGGGGT
1 TGGAGTATCCCCGATTATGGAAAAATCAATATTTT-AGCAATAAAAGC-GGGGT
626922 TGGAGTATC
1 TGGAGTATC
626931 TCCTCGGAAA
Statistics
Matches: 99, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
50 4 0.04
51 31 0.31
52 64 0.65
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (52 bp):
TGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGCAATAAAAGCGGGGT
Found at i:629392 original size:13 final size:13
Alignment explanation
Indices: 629374--629399 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
629364 ACAAAGATCC
629374 ATGTATCGATACA
1 ATGTATCGATACA
629387 ATGTATCGATACA
1 ATGTATCGATACA
629400 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:629395 original size:33 final size:33
Alignment explanation
Indices: 629353--629419 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
629343 AAAATTTCCA
***
629353 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
629386 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
629419 A
1 A
629420 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:629463 original size:19 final size:18
Alignment explanation
Indices: 629439--629506 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
629429 CAGTAGCTAA
629439 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
629458 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
629473 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
629490 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
629507 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:629479 original size:13 final size:13
Alignment explanation
Indices: 629461--629485 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
629451 ACAATACTTA
629461 TGTATCGATACAT
1 TGTATCGATACAT
629474 TGTATCGATACA
1 TGTATCGATACA
629486 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:629483 original size:32 final size:32
Alignment explanation
Indices: 629442--629504 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
629432 TAGCTAATTA
*
629442 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
629474 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
629505 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:629586 original size:21 final size:21
Alignment explanation
Indices: 629562--629619 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
629552 ACATTTGTAG
*
629562 AATGTATTGATACATTCCACA
1 AATGTATCGATACATTCCACA
629583 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
629604 AATGTATCGATACATT
1 AATGTATCGATACATT
629620 TGGATAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATTCCACA
Found at i:633762 original size:20 final size:20
Alignment explanation
Indices: 633737--633789 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
633727 GTTGGGCACA
** *
633737 ATGTATCGATACTTTTTACC
1 ATGTATCGATACAATGTACC
* *
633757 ATGTATTGATACAATGTCCC
1 ATGTATCGATACAATGTACC
633777 ATGTATCGATACA
1 ATGTATCGATACA
633790 TTTCACTTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:633864 original size:19 final size:19
Alignment explanation
Indices: 633818--633873 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
633808 CTACCAGTTT
*
633818 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAA
*
633838 TATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
633857 CGTGTATCGATACAATG
1 CATGTATCGATACAATG
633874 TCTCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:634491 original size:155 final size:155
Alignment explanation
Indices: 634201--635495 Score: 1187
Period size: 156 Copynumber: 8.3 Consensus size: 155
634191 GTTCATACGA
* * * * *
634201 GTATACCTTAGACGTAAAATTATCCCGACAACCTTAAAGGACTTAAAAAGACTCATAAAAAGGAT
1 GTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAAGACT-ATAAAAGGGAT
* * * *
634266 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACTCGGTGACAACCTAAGAGTT-AGTT
65 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGACAACCTAGGACTTGA-TT
*
634330 -TTAAAAATTACAAAAATGCCCTTACGG
129 CTAAAAAATTACAAAAATGCCCTTA-GG
* * *
634357 GTATACCTTCGATGTAAAAGTATCCTGGCAACCCTAAAAGACTTAAAAAGACTCATAAAAGGGAT
1 GTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAAGACT-ATAAAAGGGAT
* * ** * *
634422 GAACCTAT-CTAAATGCCCACCTTCGACATAAAAGC-AGACTCGGTGATGACCTAAGAGTTGATT
65 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGA-ACCCGGTGACAACCTAGGACTTGATT
** **
634485 CT-AAAAATTATGAAAATGCCCTTACAA
129 CTAAAAAATTACAAAAATGCCCTTA-GG
* * * * *
634512 GCATACCTTCGATGTAAAAATATCTCGGCAACCTTAAAGGACTTAAAAAGACTCAT-AAAGGGAA
1 GTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAAGACT-ATAAAAGGG-A
* * * *
634576 TGAAACTATCCTAAATGCCCACCTTCGGCTTAAAAGC-AGACCCGGTGACAACTTAGGACTCGAT
64 TGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGA-ACCCGGTGACAACCTAGGACTTGAT
** *
634640 TCTAAAAAATTACAAAAAT-ATCGTAGG
128 TCTAAAAAATTACAAAAATGCCCTTAGG
* * * * * *
634667 GGATACCTTCGACGTAGAAGTA-CCCGGCACCCCTAAA-GACTTAAAAAGGATTATAGAAGGGGT
1 GTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAA-GACTATAAAAGGGAT
* * * * *
634730 GAATCTATCGTAAATACCCACCTTCGGCATAAAAGC-AGACCCGGTGACAACTTAGGACTCGATT
65 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGA-ACCCGGTGACAACCTAGGACTTGATT
*
634794 CTAGAAAAATTACGAAAATGACCCTTAGG
129 CTA-AAAAATTACAAAAATG-CCCTTAGG
* * * * * * * * *
634823 G-ATGCCTTTGACGTGAAAGTATCCAGGTACCCCTAAAAGACTTAAAAAGGACTATAGACGGGAT
1 GTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAA-GACTATAAAAGGGAT
* * * * * *
634887 AAACCTATCCCAAATGCCCACCATCGGCATAAAAGTGAACCCGATGACAACCTAGGAC-TCAGTT
65 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGACAACCTAGGACTTGA-TT
*
634951 CTAGAAAATTACAAAAATGCCC-TATGG
129 CTAAAAAATTACAAAAATGCCCTTA-GG
* * * * * * * *
634978 GTATACCTTTGACATAAAAGTATCTCAGCGACCCTAAAGGACTTAAAAAGACTAGAGATGGGATG
1 GTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAAGACTATAAAAGGGATG
** * *
635043 AACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGTTCT
66 AACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGACAACCTAGGACTTGATTCT
* * *
635108 AAAAAGTTAAAAAAATGCCCCTTGGG
131 AAAAAATTACAAAAATG-CCCTTAGG
* * *** * * *
635134 GTATACCTTCGATGTAAAATTA-CCCAATACCCCTAAAGGACTTAAAAAAGACTATAAAAGAGTT
1 GTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGGACTT-AAAAAGACTATAAAAGGGAT
* * *
635198 GAACCTATCCTAAATGCCTACCTTCGGCATAAAAGCGAACCCGATGACAACCTAGGACTCGATAT
65 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGACAACCTAGGACTTGAT-T
** * *
635263 -TAAAAAATTATGAGAATGCCCCTAGG
129 CTAAAAAATTACAAAAATGCCCTTAGG
* * * * * * *
635289 GGATACCTTCGACATGAAAGTATCTCGGTATCCCTAAAAGACTTTAAAAAGACTATTAAAAGGG-
1 GTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGGAC-TTAAAAAGACTA-TAAAAGGGA
* * * * *
635353 TGAACCTATCAC-AAATACCCACCGTT-GGCATAAAAGCGAACTCGGTGATGAA-CTAAGACTAG
64 TGAACCTATC-CTAAATGCCCACC-TTCGGCATAAAAGCGAACCCGGTGA-CAACCTAGGACTTG
* ** * *
635415 GTTCTAAAAAATTATGAAAATACCCCTAAGG
126 ATTCTAAAAAATTACAAAAAT-GCCCTTAGG
*
635446 G-ATACCTTCG--GTATGAAAGTATCCCGGCAACCCTAAAGGGCTTAAAAAGA
1 GTATACCTTCGACGTA--AAAGTATCCCGGCAACCCTAAAGGACTTAAAAAGA
635496 TTAGAATGCT
Statistics
Matches: 945, Mismatches: 162, Indels: 65
0.81 0.14 0.06
Matches are distributed among these distances:
153 76 0.08
154 43 0.05
155 298 0.32
156 416 0.44
157 111 0.12
158 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (155 bp):
GTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAAGACTATAAAAGGGATG
AACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGACAACCTAGGACTTGATTCT
AAAAAATTACAAAAATGCCCTTAGG
Found at i:634804 original size:311 final size:308
Alignment explanation
Indices: 634203--635495 Score: 1224
Period size: 311 Copynumber: 4.2 Consensus size: 308
634193 TCATACGAGT
* * * * * *
634203 ATACCTTAGACGTAAAATTATCCCGACAACCTTAAAGGACTTAAAAAGACTCATAAAAAGGATGA
1 ATACCTTCGATGTAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAAGACT-AT-AAAGGGATGA
* * * * * * * *
634268 ACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACTCGGTGACAACCTAAGAGT-TAGTTTT
64 AACTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGATGACAACCTAGGACTCGAGTTTA
* * ** *
634332 AAAAATTACAAAAATGCCCTTACGGGTATACCTTCGATGTAAAAGTATCCTGGCAACCCTAAAAG
129 AAAAATTACAAAAATGCCCCTACGGGGATACCTTCGACATAAAAGTATCCCGGC-ACCCTAAAAG
* * *
634397 ACTTAAAAAGACTCATAAAAGGGATGAACCTATCTAAATGCCCACCTTCGACATAAAAGC-AGAC
193 ACTTAAAAAGACT-ATAGAAGGGATGAACCTATCTAAATACCCACCTTCGGCATAAAAGCGA-AC
* * * * *
634461 TCGGTGATGACCTAAGAGTTGATTCT-AAAAATTATGAAAATG-CCCTTACAAGC
256 CCGGTGATAACCTAAGACTTGATTCTAAAAAATTATGAAAATGACCCTT--AGGG
* * *
634514 ATACCTTCGATGTAAAAATATCTCGGCAACCTTAAAGGACTTAAAAAGACTCATAAAGGGAATGA
1 ATACCTTCGATGTAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAAGACT-ATAAAGGG-ATGA
* * *
634579 AACTATCCTAAATGCCCACCTTCGGCTTAAAAGC-AGACCCGGTGACAACTTAGGACTCGA-TTC
64 AACTATCCTAAATGCCCACCTTCGGCATAAAAGCGA-ACCCGATGACAACCTAGGACTCGAGTT-
** * * *
634642 TAAAAAATTACAAAAAT-ATCGTA-GGGGATACCTTCGACGTAGAAGTA-CCCGGCACCCCT-AA
127 TAAAAAATTACAAAAATGCCCCTACGGGGATACCTTCGACATAAAAGTATCCCGGCA-CCCTAAA
* * *
634703 AGACTTAAAAAGGATTATAGAAGGGGTGAATCTATCGTAAATACCCACCTTCGGCATAAAAGC-A
191 AGACTTAAAAA-GACTATAGAAGGGATGAACCTATC-TAAATACCCACCTTCGGCATAAAAGCGA
* * * * *
634767 GACCCGGTGACAACTTAGGACTCGATTCTAGAAAAATTACGAAAATGACCCTTAGGG
254 -ACCCGGTGATAACCTAAGACTTGATTCTA-AAAAATTATGAAAATGACCCTTAGGG
* * * * * * * * *
634824 ATGCCTTTGACGTGAAAGTATCCAGGTACCCCTAAAAGACTTAAAAAGGACTATAGACGGGAT-A
1 ATACCTTCGATGTAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAA-GACTATA-AAGGGATGA
* * *
634888 AACCTATCCCAAATGCCCACCATCGGCATAAAAGTGAACCCGATGACAACCTAGGACTC-AGTTC
64 AA-CTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGATGACAACCTAGGACTCGAGTT-
* * * * * *
634952 TAGAAAATTACAAAAATG-CCCTATGGGTATACCTTTGACATAAAAGTATCTCAGCGACCCTAAA
127 TAAAAAATTACAAAAATGCCCCTACGGGGATACCTTCGACATAAAAGTATCCCGGC-ACCCTAAA
* * * *
635016 GGACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAA
191 AGACTTAAAAAGACTATAGAAGGGATGAACCTAT-CTAAATACCCACCTTCGGCATAAAAGCGAA
* * * * * ** * *
635081 CCCGGTGATGACCTAGGAGTTGGTTCTAAAAAGTTAAAAAAATGCCCCTTGGGG
255 CCCGGTGATAACCTAAGACTTGATTCTAAAAAATTATGAAAATGACCCTTAGGG
* *** * * *
635135 TATACCTTCGATGTAAAATTA-CCCAATACCCCTAAAGGACTTAAAAAAGACTATAAAAGAGTTG
1 -ATACCTTCGATGTAAAAGTATCCCGGCAACCCTAAAGGACTT-AAAAAGACTAT-AAAGGGATG
* *
635199 AACCTATCCTAAATGCCTACCTTCGGCATAAAAGCGAACCCGATGACAACCTAGGACTCGA-TAT
63 AAACTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGATGACAACCTAGGACTCGAGT-T
** * * * *
635263 TAAAAAATTATGAGAATGCCCCTA-GGGGATACCTTCGACATGAAAGTATCTCGGTATCCCTAAA
127 TAAAAAATTACAAAAATGCCCCTACGGGGATACCTTCGACATAAAAGTATCCCGGCA-CCCTAAA
* *
635327 AGACTTTAAAAAGACTATTAAAAGGG-TGAACCTATCACAAATACCCACCGTT-GGCATAAAAGC
191 AGAC-TTAAAAAGACTA-TAGAAGGGATGAACCTATC-TAAATACCCACC-TTCGGCATAAAAGC
* * * *
635390 GAACTCGGTGATGAA-CTAAGACTAGGTTCTAAAAAATTATGAAAAT-ACCCCTAAGGG
252 GAACCCGGTGAT-AACCTAAGACTTGATTCTAAAAAATTATGAAAATGA-CCCTTAGGG
* * * *
635447 ATACCTTCGGTATGAAAGTATCCCGGCAACCCTAAAGGGCTTAAAAAGA
1 ATACCTTCGATGTAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAAGA
635496 TTAGAATGCT
Statistics
Matches: 810, Mismatches: 135, Indels: 74
0.79 0.13 0.07
Matches are distributed among these distances:
308 31 0.04
309 63 0.08
310 140 0.17
311 326 0.40
312 227 0.28
313 23 0.03
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (308 bp):
ATACCTTCGATGTAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAAGACTATAAAGGGATGAAA
CTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGATGACAACCTAGGACTCGAGTTTAAA
AAATTACAAAAATGCCCCTACGGGGATACCTTCGACATAAAAGTATCCCGGCACCCTAAAAGACT
TAAAAAGACTATAGAAGGGATGAACCTATCTAAATACCCACCTTCGGCATAAAAGCGAACCCGGT
GATAACCTAAGACTTGATTCTAAAAAATTATGAAAATGACCCTTAGGG
Found at i:636942 original size:20 final size:20
Alignment explanation
Indices: 636905--636942 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
636895 GTCCCAAAAA
* *
636905 TCTTTTCTTTTTTTTTCTTC
1 TCTTTTCTTTATTCTTCTTC
636925 TCTTTTCTTTATTCTTCT
1 TCTTTTCTTTATTCTTCT
636943 CATGAATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (20 bp):
TCTTTTCTTTATTCTTCTTC
Found at i:637061 original size:22 final size:22
Alignment explanation
Indices: 637035--637076 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
637025 TTGCTGATGG
* *
637035 TTGCTGTTTACGTTGTTTCCGA
1 TTGCTATTTACGTTGCTTCCGA
*
637057 TTGCTATTTGCGTTGCTTCC
1 TTGCTATTTACGTTGCTTCC
637077 TGCTGCTGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.07, C:0.21, G:0.21, T:0.50
Consensus pattern (22 bp):
TTGCTATTTACGTTGCTTCCGA
Found at i:637306 original size:21 final size:20
Alignment explanation
Indices: 637277--637330 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
637267 TCTTTCGGTG
637277 TTGTT-TCTTCTTTCCTCTTT
1 TTGTTCTCTTCTTTCC-CTTT
* *
637297 TTTTTCTCTTCTATTCCGTTT
1 TTGTTCTCTTCT-TTCCCTTT
637318 TTGTTCT-TTCTTT
1 TTGTTCTCTTCTTT
637331 AGCTGTTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 2 0.07
20 8 0.28
21 15 0.52
22 4 0.14
ACGTcount: A:0.02, C:0.22, G:0.06, T:0.70
Consensus pattern (20 bp):
TTGTTCTCTTCTTTCCCTTT
Found at i:638476 original size:14 final size:14
Alignment explanation
Indices: 638459--638489 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
638449 TTTTCTTTTC
638459 TTTCTTTGTTTTGT
1 TTTCTTTGTTTTGT
638473 TTTCTTTGTTTTGT
1 TTTCTTTGTTTTGT
638487 TTT
1 TTT
638490 TTTTCCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.06, G:0.13, T:0.81
Consensus pattern (14 bp):
TTTCTTTGTTTTGT
Found at i:638663 original size:14 final size:13
Alignment explanation
Indices: 638644--638679 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
638634 TAAAAAATAA
638644 AAAAATTAAATTGT
1 AAAAATTAAATT-T
*
638658 AAAAATAAAATTT
1 AAAAATTAAATTT
638671 AAAAATTAA
1 AAAAATTAA
638680 GATAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
AAAAATTAAATTT
Found at i:640476 original size:84 final size:83
Alignment explanation
Indices: 640379--640691 Score: 391
Period size: 84 Copynumber: 3.7 Consensus size: 83
640369 CTAAATTGAT
* * *
640379 AGGTCACCATAAGGGTAATGGGCTTACCGATGACTCAGCCGACAAGTAAACAATGGATGAAGGTT
1 AGGTCACCATAAGGGTAATGGGTTTACCGAGGACTAAGCCGACAAGTAAACAATGGATGAAGGTT
640444 GACCTAAGACTGAGCTGAC
66 GA-CTAAGACTGAGCTGAC
* *
640463 AGGTCACCATAAGGGTAATGGGTTTACCAAGGACTAAGCCGACAGGTAAACAATGGATGAAGGTT
1 AGGTCACCATAAGGGTAATGGGTTTACCGAGGACTAAGCCGACAAGTAAACAATGGATGAAGGTT
* * * *
640528 GACTGGAGACTAAGTTGAT
66 GACT-AAGACTGAGCTGAC
* * * *
640547 AGGTCACCATAAGGGTAATGGGTTTACCGGGGACTAAGCCAATAGGTAAACAATGGATGAAGGTT
1 AGGTCACCATAAGGGTAATGGGTTTACCGAGGACTAAGCCGACAAGTAAACAATGGATGAAGGTT
640612 GACTAGAGACTGAGCTGAC
66 GACTA-AGACTGAGCTGAC
* * *
640631 AAGCCA-C-TAAGGAG-AGATAGGGTTTACCGAGGACTAAG-CTAGCAAGTAAACAATGGATGAA
1 AGGTCACCATAAGG-GTA-AT-GGGTTTACCGAGGACTAAGCCGA-CAAGTAAACAATGGATGAA
640692 AGTTATTTCC
Statistics
Matches: 200, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
82 6 0.03
83 8 0.04
84 186 0.93
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.19
Consensus pattern (83 bp):
AGGTCACCATAAGGGTAATGGGTTTACCGAGGACTAAGCCGACAAGTAAACAATGGATGAAGGTT
GACTAAGACTGAGCTGAC
Found at i:640541 original size:41 final size:41
Alignment explanation
Indices: 640494--640631 Score: 107
Period size: 41 Copynumber: 3.3 Consensus size: 41
640484 GTTTACCAAG
640494 GACTAAGCCGACAGGTAAACAATGGATGAAGGTTGACTGGA
1 GACTAAGCCGACAGGTAAACAATGGATGAAGGTTGACTGGA
** * * * * * * * *
640535 GACTAAGTTGATAGGTCACCATAAGGGT-AATGGGTTTACCGGG
1 GACTAAGCCGACAGGTAAACA-ATGGATGAA--GGTTGACTGGA
* * *
640578 GACTAAGCCAATAGGTAAACAATGGATGAAGGTTGACTAGA
1 GACTAAGCCGACAGGTAAACAATGGATGAAGGTTGACTGGA
* *
640619 GACTGAGCTGACA
1 GACTAAGCCGACA
640632 AGCCACTAAG
Statistics
Matches: 68, Mismatches: 25, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
41 34 0.50
42 8 0.12
43 26 0.38
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.20
Consensus pattern (41 bp):
GACTAAGCCGACAGGTAAACAATGGATGAAGGTTGACTGGA
Found at i:640550 original size:168 final size:167
Alignment explanation
Indices: 640356--640691 Score: 457
Period size: 168 Copynumber: 2.0 Consensus size: 167
640346 TGAAGGATAC
* * *
640356 AGGTTGATCGAGACTAAATTGATAGGTCACCATAAGGGTAATGGGCTTACCGATGACTCAGCCGA
1 AGGTTGATCGAGACTAAATTGATAGGTCACCATAAGGGTAATGGGCTTACCGAGGACTAAGCCAA
* *
640421 CAAGTAAACAATGGATGAAGGTTGACCTA-AGACTGAGCTGACAGGTCACCATAAGG-GTA-AT-
66 CAAGTAAACAATGGATGAAGGTTGA-CTAGAGACTGAGCTGACAAGCCA-C-TAAGGAG-AGATA
*
640482 GGGTTTACCAAGGACTAAGCCGA-CAGGTAAACAATGGATGA
127 GGGTTTACCAAGGACTAAG-CGAGCAAGTAAACAATGGATGA
* * * *
640523 AGGTTGACTGGAGACTAAGTTGATAGGTCACCATAAGGGTAATGGGTTTACCGGGGACTAAGCCA
1 AGGTTGA-TCGAGACTAAATTGATAGGTCACCATAAGGGTAATGGGCTTACCGAGGACTAAGCCA
* *
640588 ATAGGTAAACAATGGATGAAGGTTGACTAGAGACTGAGCTGACAAGCCACTAAGGAGAGATAGGG
65 ACAAGTAAACAATGGATGAAGGTTGACTAGAGACTGAGCTGACAAGCCACTAAGGAGAGATAGGG
* *
640653 TTTACCGAGGACTAAGCTAGCAAGTAAACAATGGATGA
130 TTTACCAAGGACTAAGCGAGCAAGTAAACAATGGATGA
640691 A
1 A
640692 AGTTATTTCC
Statistics
Matches: 149, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
166 6 0.04
167 16 0.11
168 127 0.85
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (167 bp):
AGGTTGATCGAGACTAAATTGATAGGTCACCATAAGGGTAATGGGCTTACCGAGGACTAAGCCAA
CAAGTAAACAATGGATGAAGGTTGACTAGAGACTGAGCTGACAAGCCACTAAGGAGAGATAGGGT
TTACCAAGGACTAAGCGAGCAAGTAAACAATGGATGA
Found at i:640958 original size:42 final size:42
Alignment explanation
Indices: 640814--642734 Score: 753
Period size: 43 Copynumber: 45.4 Consensus size: 42
640804 GTAGATGAAA
* * ** * *
640814 GATAAAGAAGTTTCCTGGGTCTAAGTTGACGGGCAGACGGTT
1 GATAAAGAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
* * * **
640856 GATAAAGGAAGTCTCCCA-AGACTCAA-CCGATGGGCAAACGAAA
1 GATAAA-GAAGTCT-CCAGGGTCT-AAGCCGATGGGCAGACGATT
* * * * * *
640899 AATGAAGAAGTCTTCCA-GGTTTAAGTCGATGGGTAGACGGTT
1 GATAAAGAAGTC-TCCAGGGTCTAAGCCGATGGGCAGACGATT
640941 GATAAAAGAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
1 GAT-AAAGAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
* * * * * *
640984 GATAAAGAAGTCTCCCA-AGTCAAAGTCGACGGGCAAACGAAT
1 GATAAAGAAGTCT-CCAGGGTCTAAGCCGATGGGCAGACGATT
* * * * *
641026 GATAATGGAGTCTCTCA-GGTCTGAGCCGAAGGGCAGATGATT
1 GATAAAGAAGTCTC-CAGGGTCTAAGCCGATGGGCAGACGATT
* * * * * * *
641068 GATGAAGGGAGTCTCCCGAGTCTTAGCCAATGGGCAGACGATG
1 GAT-AAAGAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
* * * * * * **
641111 GATGAAGAAGTCTCCCA-GGTCAAAGTCGACGGGCAAATGAAA
1 GATAAAGAAGTCT-CCAGGGTCTAAGCCGATGGGCAGACGATT
* * **
641153 GATGAAGGAAGTCTCTC-GGGTCTAAGTCGATGGGCAGACGAAA
1 GAT-AAAGAAGTCTC-CAGGGTCTAAGCCGATGGGCAGACGATT
* * ** *
641196 GATGAAGGAAGTCTCTC-GGGTCTAAGTCGATAAGCAGACGAAT
1 GAT-AAAGAAGTCTC-CAGGGTCTAAGCCGATGGGCAGACGATT
* * * * * * * **
641239 GATAAAGGAGTCTCCCA-AGTCTGAGTCGACGGGCGGACAAAA
1 GATAAAGAAGTCT-CCAGGGTCTAAGCCGATGGGCAGACGATT
* * * *
641281 GATGGAA-AAGTCTTCCA-GGTC----CCGAT-GGTAGATGAAT
1 GAT-AAAGAAGTC-TCCAGGGTCTAAGCCGATGGGCAGACGATT
* * * *
641318 GATGAAAGAAGTCTCCCA-GGTCTAAGTCGACGGGCAGATGAAT
1 GAT-AAAGAAGTCT-CCAGGGTCTAAGCCGATGGGCAGACGATT
** * * * *
641361 GATGAAA-AAGTCTCTC-GAATATAAGCCAACGGGCAGATGATT
1 GAT-AAAGAAGTCTC-CAGGGTCTAAGCCGATGGGCAGACGATT
* * * * *
641403 GACAAAGGAAGTCTCCCA-AGTCTAAGTCGACGGGCAGATGATT
1 GATAAA-GAAGTCT-CCAGGGTCTAAGCCGATGGGCAGACGATT
* * * **
641446 GACAAAGGAAGTCTCCTA-GGTTTAAGTCGACAGGCAGACGATT
1 GATAAA-GAAGTCTCC-AGGGTCTAAGCCGATGGGCAGACGATT
* * * * * * *
641489 GACAAAGGAAGGCTCCTA-AGTCCAAGCCAACGGGTAGACGATT
1 GATAAA-GAAGTCTCC-AGGGTCTAAGCCGATGGGCAGACGATT
* * * * **
641532 GACAAAGGAAGTCTCCCGGGTCTAAGCTGATGGGCAGACAAAA
1 GATAAA-GAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
* * * *
641575 GATGAAAGAAATCTCTC-GGGTCTAAGTCGATGGGTAGACGAAT
1 GAT-AAAGAAGTCTC-CAGGGTCTAAGCCGATGGGCAGACGATT
* * * *
641618 GATGAAA-AAGTCACTC-GAGTCTAAGTCGACGGGCAGACGATT
1 GAT-AAAGAAGTCTC-CAGGGTCTAAGCCGATGGGCAGACGATT
* * *
641660 GACAAAGGAAGTCTCCCA-GGTCTAAGTCGATAGGCAGACGATT
1 GATAAA-GAAGTCT-CCAGGGTCTAAGCCGATGGGCAGACGATT
* * * * *
641703 GACAAAGGAAGTCTCCCGAGTCTAAGTCGATGGGTAGACGATT
1 GATAAA-GAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
* * *
641746 AATGAAA-AAGTCTCCTGGGTCTGAA-CTGATGGGCAGACGATT
1 GAT-AAAGAAGTCTCCAGGGTCT-AAGCCGATGGGCAGACGATT
* * * * * **
641788 GATAAACGAAGTCTCTTA-GGTCTAAGTCAACGGGCAGACAAAA
1 GATAAA-GAAGTCTC-CAGGGTCTAAGCCGATGGGCAGACGATT
** * * *
641831 GATGAAAGAAGTCTCTTGAGTCTAAGCCGA-GAGGCAGCCGAAT
1 GAT-AAAGAAGTCTCCAGGGTCTAAGCCGATG-GGCAGACGATT
* ** * * *
641874 AATGAAA-AAGTCTCTTGGGTCTCATCTGATGGGCAGACGATT
1 GAT-AAAGAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
* * *** * * **
641916 GACAAAGGAAGTCTCCCGGGTCTAAATTGACGGG-AAAATAGTT
1 GATAAA-GAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGA-TT
* * * ** * * *
641959 GATAAAAGAAGTCTCCTGAGTCTAAGCTGAAAGGTAGATGATC
1 GAT-AAAGAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
* ** * *
642002 GACAAAGGAAGTCTCCTA-GGTCTAAGCCGACAGGCAGGCGAAT
1 GATAAA-GAAGTCTCC-AGGGTCTAAGCCGATGGGCAGACGATT
* * * * *
642045 GATGAAA-AAGTCTCCTGGGTTTAAGCTGATAGGCAGATGATT
1 GAT-AAAGAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
** * * * * **
642087 GATAAAGGAAGTCTCTTGGGTTTAAGCTGACGGACAGGTGATT
1 GATAAA-GAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
* * * *
642130 GATAAAGGAAGTCTCTC-GGGTTTAAGTCGACGGGCAAACGATT
1 GATAAA-GAAGTCTC-CAGGGTCTAAGCCGATGGGCAGACGATT
* * * * * * *
642173 AACAAAAGAAAGTCTCCCGGGTTTAAGCCAATGAGCAGACGGTT
1 GA-TAAAG-AAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
* *** ** *
642217 GATAAAAGAAGACTTTTGGGTCTAAGTTGATAGGCAGACGATT
1 GAT-AAAGAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
* * * * * *
642260 GACAAAAGAAGTCTTCC-GAGTCTAAGCCGACGGGTAAACGA-A
1 GA-TAAAGAAGTC-TCCAGGGTCTAAGCCGATGGGCAGACGATT
* *
642302 GATGAAAGAAGTCTCTC-GGGTCTAAGCCGACGGGCAGACGAAT
1 GAT-AAAGAAGTCTC-CAGGGTCTAAGCCGATGGGCAGACGATT
* *
642345 GATGAAA-AA-TCTCCA-GGTCTAAGTCGACGGGCAGACGATT
1 GAT-AAAGAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
* * * **
642385 GACAAAGGAAGTCTCCTGGGTTTAAGCCGGCGGGCAGACGATT
1 GATAAA-GAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
* * *
642428 GATGAAA-AAGTCTCCCGGGTCTGAGCCAATGGGCAGACGATT
1 GAT-AAAGAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
* * * * **
642470 GATAAAGAAAATCTCTC-GGGTCTAAGCCAACGGGCAGACAAAA
1 GATAAAG-AAGTCTC-CAGGGTCTAAGCCGATGGGCAGACGATT
* * * *
642513 GATGAAAGAAGTCTCCCGGGTCTAAGCTGATGGGCAGTCGAAT
1 GAT-AAAGAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
* * *
642556 GATAAA-AA------AGGCTTTAAGCCGATGAGCAGACGATT
1 GATAAAGAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
* * * *
642591 AACAAAGGAAGTCTCCTA-GGTCTAAGTCGATGGGCAAACGATT
1 GATAAA-GAAGTCTCC-AGGGTCTAAGCCGATGGGCAGACGATT
* * * * * *
642634 GAGAAATGAAGTCTCCCGAGTCTAAGCTGATGGGCAAATGATT
1 GATAAA-GAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
* * *
642677 AATAAAAAAGTCTTCC-GGGTCTAAGCTGATGGGC-GAGCGATT
1 GATAAAGAAGTC-TCCAGGGTCTAAGCCGATGGGCAGA-CGATT
*
642719 GAGAAAGGAAGTCTCC
1 GATAAA-GAAGTCTCC
642735 CGAGTGATTG
Statistics
Matches: 1449, Mismatches: 334, Indels: 192
0.73 0.17 0.10
Matches are distributed among these distances:
35 24 0.02
37 15 0.01
38 15 0.01
39 3 0.00
40 26 0.02
41 33 0.02
42 434 0.30
43 829 0.57
44 70 0.05
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (42 bp):
GATAAAGAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATT
Found at i:640992 original size:85 final size:84
Alignment explanation
Indices: 640814--642734 Score: 773
Period size: 85 Copynumber: 22.7 Consensus size: 84
640804 GTAGATGAAA
* * * * ** *
640814 GATAAAGAAGT-TTCCTGGGTCTAAGTTGACGGGCAGACGGTTGATAAAGGAAGTCTCCCAAGAC
1 GATAAAGAAGTCTTCC-AGGTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTCT-CCGGGTC
* **
640878 TCAA-CCGATGGGCAAACGAAA
64 T-AAGCCGATGGGCAGACGATT
* * * * * *
640899 AATGAAGAAGTCTTCCAGGTTTAAGTCGATGGGTAGACGGTTGATAAAAGAAGTCTCCAGGGTCT
1 GATAAAGAAGTCTTCCAGGTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTCTCC-GGGTCT
640964 AAGCCGATGGGCAGACGATT
65 AAGCCGATGGGCAGACGATT
* * * * * * * *
640984 GATAAAGAAGTCTCCCAAGTCAAAGTCGACGGGCAAACGAATGAT-AATGGAGTCTCTCAGGTCT
1 GATAAAGAAGTCTTCCAGGTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTCTC-CGGGTCT
* * *
641048 GAGCCGAAGGGCAGATGATT
65 AAGCCGATGGGCAGACGATT
* * * * * * * * * *
641068 GATGAAGGGAGTC-TCCCGAGTCTTAGCCAATGGGCAGACGATGGAT-GAAGAAGTCTCCCAGGT
1 GAT-AAAGAAGTCTTCCAG-GTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTCT-CCGGGT
* * * * * **
641131 CAAAGTCGACGGGCAAATGAAA
63 CTAAGCCGATGGGCAGACGATT
* * * ** * *
641153 GATGAAGGAAGTC-TCTCGGGTCTAAGTCGATGGGCAGACGAAAGATGAAGGAAGTCTCTCGGGT
1 GAT-AAAGAAGTCTTC-CAGGTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTCTC-CGGGT
* ** *
641217 CTAAGTCGATAAGCAGACGAAT
63 CTAAGCCGATGGGCAGACGATT
* * * * * * ** ** *
641239 GATAAAGGAGTCTCCCAAGTCTGAGTCGACGGGCGGACAAAAGATGGAA-AAGTCTTCCAGGTC-
1 GATAAAGAAGTCTTCCAGGTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTC-TCCGGGTCT
* * *
641302 ---CCGAT-GGTAGATGAAT
65 AAGCCGATGGGCAGACGATT
* * * * ** *
641318 GATGAAAGAAGTCTCCCAGGTCTAAGTCGACGGGCAGATGAATGATGAAA-AAGTCTCTCGAATA
1 GAT-AAAGAAGTCTTCCAGGTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTCTC-CGGGTC
* * *
641382 TAAGCCAACGGGCAGATGATT
64 TAAGCCGATGGGCAGACGATT
* * * * * * * *
641403 GACAAAGGAAGTCTCCCAAGTCTAAGTCGACGGGCAGATGATTGACAAAGGAAGTCTCCTAGGTT
1 GATAAA-GAAGTCTTCCAGGTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTCTCC-GGGTC
* **
641468 TAAGTCGACAGGCAGACGATT
64 TAAGCCGATGGGCAGACGATT
* * * * * * * * *
641489 GACAAAGGAAGGC-TCCTAAGTCCAAGCCAACGGGTAGACGATTGACAAAGGAAGTCTCCCGGGT
1 GATAAA-GAAGTCTTCC-AGGTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTCT-CCGGGT
* * **
641553 CTAAGCTGATGGGCAGACAAAA
63 CTAAGCCGATGGGCAGACGATT
* * * * * * * *
641575 GATGAAAGAAATC-TCTCGGGTCTAAGTCGATGGGTAGACGAATGATGAAA-AAGTCACTCGAGT
1 GAT-AAAGAAGTCTTC-CAGGTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTCTC-CGGGT
* *
641638 CTAAGTCGACGGGCAGACGATT
63 CTAAGCCGATGGGCAGACGATT
* * ** * * *
641660 GACAAAGGAAGTCTCCCAGGTCTAAGTCGATAGGCAGACGATTGACAAAGGAAGTCTCCCGAGTC
1 GATAAA-GAAGTCTTCCAGGTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTCT-CCGGGTC
* *
641725 TAAGTCGATGGGTAGACGATT
64 TAAGCCGATGGGCAGACGATT
* * * * * **
641746 AATGAAA-AAGTC-TCCTGGGTCTGAACT-GATGGGCAGACGATTGATAAACGAAGTCTCTTAGG
1 GAT-AAAGAAGTCTTCC-AGGTCT-AAGTCGACGGGCAGACGATTGATAAAAGAAGTCTC-CGGG
* * * * **
641808 TCTAAGTCAACGGGCAGACAAAA
62 TCTAAGCCGATGGGCAGACGATT
** * * * * * *
641831 GATGAAAGAAGTC-TCTTGAGTCTAAGCCGA-GAGGCAGCCGAATAATGAAA-AAGTCTCTTGGG
1 GAT-AAAGAAGTCTTCCAG-GTCTAAGTCGACG-GGCAGACGATTGATAAAAGAAGTCTC-CGGG
* * *
641893 TCTCATCTGATGGGCAGACGATT
62 TCTAAGCCGATGGGCAGACGATT
* * * * * * ** *
641916 GACAAAGGAAGTCTCCCGGGTCTAAATTGACGGG-AAAATAGTTGATAAAAGAAGTCTCCTGAGT
1 GATAAA-GAAGTCTTCCAGGTCTAAGTCGACGGGCAGACGA-TTGATAAAAGAAGTCTCC-GGGT
* ** * * *
641980 CTAAGCTGAAAGGTAGATGATC
63 CTAAGCCGATGGGCAGACGATT
* * * * * *
642002 GACAAAGGAAGTC-TCCTAGGTCTAAGCCGACAGGCAGGCGAATGATGAAA-AAGTCTCCTGGGT
1 GATAAA-GAAGTCTTCC-AGGTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTCTCC-GGGT
* * * *
642065 TTAAGCTGATAGGCAGATGATT
63 CTAAGCCGATGGGCAGACGATT
** * * ** *
642087 GATAAAGGAAGTC-TCTTGGGTTTAAG-CTGACGGACAGGTGATTGATAAAGGAAGTCTCTCGGG
1 GATAAA-GAAGTCTTC-CAGGTCTAAGTC-GACGGGCAGACGATTGATAAAAGAAGTCTC-CGGG
* * * *
642150 TTTAAGTCGACGGGCAAACGATT
62 TCTAAGCCGATGGGCAGACGATT
* * * * * * * * * * * **
642173 AACAAAAGAAAGTCTCCCGGGTTTAAGCCAATGAGCAGACGGTTGATAAAAGAAGACTTTTGGGT
1 GA-TAAAG-AAGTCTTCCAGGTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTC-TCCGGGT
** *
642238 CTAAGTTGATAGGCAGACGATT
63 CTAAGCCGATGGGCAGACGATT
* * * * * *
642260 GACAAAAGAAGTCTTCC-GAGTCTAAGCCGACGGGTAAACGA-AGATGAAAGAAGTCTCTCGGGT
1 GA-TAAAGAAGTCTTCCAG-GTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTCTC-CGGGT
* *
642323 CTAAGCCGACGGGCAGACGAAT
63 CTAAGCCGATGGGCAGACGATT
* * *
642345 GATGAAA-AA-TC-TCCAGGTCTAAGTCGACGGGCAGACGATTGACAAAGGAAGTCTCCTGGGTT
1 GAT-AAAGAAGTCTTCCAGGTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTCTCC-GGGTC
**
642407 TAAGCCGGCGGGCAGACGATT
64 TAAGCCGATGGGCAGACGATT
* * * * * * *
642428 GATGAAA-AAGTCTCCCGGGTCTGAGCCAATGGGCAGACGATTGAT-AAAGAAAATCTCTCGGGT
1 GAT-AAAGAAGTCTTCCAGGTCTAAGTCGACGGGCAGACGATTGATAAAAG-AAGTCTC-CGGGT
* * * **
642491 CTAAGCCAACGGGCAGACAAAA
63 CTAAGCCGATGGGCAGACGATT
* * * * * *
642513 GATGAAAGAAGTCTCCCGGGTCTAAG-CTGATGGGCAGTCGAATGATAAAA-AAGGCT-----T-
1 GAT-AAAGAAGTCTTCCAGGTCTAAGTC-GACGGGCAGACGATTGATAAAAGAAGTCTCCGGGTC
*
642570 TAAGCCGATGAGCAGACGATT
64 TAAGCCGATGGGCAGACGATT
* * * * * * *
642591 AACAAAGGAAGTC-TCCTAGGTCTAAGTCGATGGGCAAACGATTGAGAAATGAAGTCTCCCGAGT
1 GATAAA-GAAGTCTTCC-AGGTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTCT-CCGGGT
* * *
642655 CTAAGCTGATGGGCAAATGATT
63 CTAAGCCGATGGGCAGACGATT
* * * * * *
642677 AATAAAAAAGTCTTCCGGGTCTAAG-CTGATGGGC-GAGCGATTGAGAAAGGAAGTCTCC
1 GATAAAGAAGTCTTCCAGGTCTAAGTC-GACGGGCAGA-CGATTGATAAAAGAAGTCTCC
642735 CGAGTGATTG
Statistics
Matches: 1397, Mismatches: 356, Indels: 167
0.73 0.19 0.09
Matches are distributed among these distances:
77 5 0.00
78 47 0.03
79 20 0.01
80 49 0.04
82 23 0.02
83 47 0.03
84 81 0.06
85 653 0.47
86 389 0.28
87 80 0.06
88 3 0.00
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (84 bp):
GATAAAGAAGTCTTCCAGGTCTAAGTCGACGGGCAGACGATTGATAAAAGAAGTCTCCGGGTCTA
AGCCGATGGGCAGACGATT
Found at i:641236 original size:128 final size:127
Alignment explanation
Indices: 640817--642561 Score: 654
Period size: 128 Copynumber: 13.7 Consensus size: 127
640807 GATGAAAGAT
* * * * * * *
640817 AAAGAAGTTTCCTGGGTCTAAGTTGACGGGCAGACGGTTGATAAAGGAAGTCTCCCAAGACTC-A
1 AAAGAAGTCTCCCGGGTCTAAGTCGATGGGCAGAC-GATGATGAA-GAAGTCTCCC-AG-GTCAA
* * * ** * * * **
640881 A-CCGATGGGCAAACGAAAAATGAA-GAAGTCT-TCCAGGTTTAAGTCGATGGGTAGACGGTTGA
62 AGTCGACGGGCAGACGAATGATAAAGGAAGTCTCT-CAGGTCTAAGTCGATGGGCAGACGAATGA
*
640943 TA
126 TG
* * * *
640945 AAAGAAGTCTCCAGGGTCTAAGCCGATGGGCAGACGATTGATAAAGAAGTCTCCCAAGTCAAAGT
1 AAAGAAGTCTCCCGGGTCTAAGTCGATGGGCAGACGA-TGATGAAGAAGTCTCCCAGGTCAAAGT
* * * * * * *
641010 CGACGGGCAAACGAATGATAATGG-AGTCTCTCAGGTCTGAGCCGAAGGGCAGATGATTGATG
65 CGACGGGCAGACGAATGATAAAGGAAGTCTCTCAGGTCTAAGTCGATGGGCAGACGAATGATG
* * * * * *
641072 AAGGGAGTCTCCCGAGTCTTAGCCAATGGGCAGACGATGGATGAAGAAGTCTCCCAGGTCAAAGT
1 AAAGAAGTCTCCCGGGTCTAAGTCGATGGGCAGACGAT-GATGAAGAAGTCTCCCAGGTCAAAGT
* * * * * *
641137 CGACGGGCAAATGAAAGATGAAGGAAGTCTCTCGGGTCTAAGTCGATGGGCAGACGAAAGATG
65 CGACGGGCAGACGAATGATAAAGGAAGTCTCTCAGGTCTAAGTCGATGGGCAGACGAATGATG
* * ** * * * **
641200 AAGGAAGTCTCTCGGGTCTAAGTCGATAAGCAGACGAATGATAAAGGAGTCTCCCAAGTCTGAGT
1 AAAGAAGTCTCCCGGGTCTAAGTCGATGGGCAGACG-ATGATGAAGAAGTCTCCCAGGTCAAAGT
* * * * * * *
641265 CGACGGGCGGACAAAAGATGGAA--AAGTCT-TCCAGGTC----CCGAT-GGTAGATGAATGATG
65 CGACGGGCAGACGAATGAT-AAAGGAAGTCTCT-CAGGTCTAAGTCGATGGGCAGACGAATGATG
* * * * * *
641322 AAAGAAGTCTCCCAGGTCTAAGTCGACGGGCAGATGAATGATGAAAAAGTCTCTC-GAAT-ATAA
1 AAAGAAGTCTCCCGGGTCTAAGTCGATGGGCAGACG-ATGATGAAGAAGTCTCCCAG-GTCA-AA
* * * * * * * * * * *
641385 GCCAACGGGCAGATGATTGACAAAGGAAGTCTCCCAAGTCTAAGTCGACGGGCAGATGATTGA-C
63 GTCGACGGGCAGACGAATGATAAAGGAAGTCTCTCAGGTCTAAGTCGATGGGCAGACGAATGATG
** * ** ** * * * *
641449 AAAGGAAGTCTCCTAGGTTTAAGTCGACAGGCAGACGATTGACAAAGGAAGGCTCCTAAGTCCAA
1 AAA-GAAGTCTCCCGGGTCTAAGTCGATGGGCAGACGA-TGATGAA-GAAGTCTCCCAGGTCAAA
* * * * * * * * *
641514 GCCAACGGGTAGACGATTGACAAAGGAAGTCTCCCGGGTCTAAG-CTGATGGGCAGACAAAAGAT
63 GTCGACGGGCAGACGAATGATAAAGGAAGTCTCTCAGGTCTAAGTC-GATGGGCAGACGAATGAT
641578 G
127 G
* * * * * * *
641579 AAAGAAATCTCTCGGGTCTAAGTCGATGGGTAGACGAATGATGAAAAAGTCACTC-GAGTCTAAG
1 AAAGAAGTCTCCCGGGTCTAAGTCGATGGGCAGACG-ATGATGAAGAAGTCTCCCAG-GTCAAAG
* * * * * *
641643 TCGACGGGCAGACGATTGACAAAGGAAGTCTCCCAGGTCTAAGTCGATAGGCAGACGATTGA-C
64 TCGACGGGCAGACGAATGATAAAGGAAGTCTCTCAGGTCTAAGTCGATGGGCAGACGAATGATG
* * * * ** *
641706 AAAGGAAGTCTCCCGAGTCTAAGTCGATGGGTAGACGATTAATGAAAAAGTCTCCTGGGTCTGAA
1 AAA-GAAGTCTCCCGGGTCTAAGTCGATGGGCAGACGA-TGATGAAGAAGTCTCCCAGGTC-AAA
* * * * * * * * *
641771 CT-GATGGGCAGACGATTGATAAACGAAGTCTCTTAGGTCTAAGTCAACGGGCAGACAAAAGATG
63 GTCGACGGGCAGACGAATGATAAAGGAAGTCTCTCAGGTCTAAGTCGATGGGCAGACGAATGATG
** * * * * * *** **
641835 AAAGAAGTCTCTTGAGTCTAAGCCGA-GAGGCAGCCGAATAATGAAAAAGTCTCTTGGGTCTCA-
1 AAAGAAGTCTCCCGGGTCTAAGTCGATG-GGCAGACG-ATGATGAAGAAGTCTCCCAGGTCAAAG
* * * * * * * * * ** *
641898 TCTGATGGGCAGACGATTGACAAAGGAAGTCTCCCGGGTCTAAATTGACGGG-AAAATAGTTGAT
64 TC-GACGGGCAGACGAATGATAAAGGAAGTCTCTCAGGTCTAAGTCGATGGGCAGACGA-ATGAT
*
641962 A
127 G
* * ** * * ** * *
641963 AAAGAAGTCTCCTGAGTCTAAG-CTGAAAGGTAGATGATCGACAAAGGAAGTCTCCTAGGTCTAA
1 AAAGAAGTCTCCCGGGTCTAAGTC-GATGGGCAGACGAT-GATGAA-GAAGTCTCCCAGGTCAAA
* * * * * * * *
642027 GCCGACAGGCAGGCGAATGATGAAA--AAGTCTC-CTGGGTTTAAG-CTGATAGGCAGATGATTG
63 GTCGACGGGCAGACGAATGAT-AAAGGAAGTCTCTC-AGGTCTAAGTC-GATGGGCAGACGAATG
642088 AT-
125 ATG
** * * * ** * * * **
642090 AAAGGAAGTCTCTTGGGTTTAAG-CTGACGGACAGGTGATTGATAAAGGAAGTCTCTCGGGTTTA
1 AAA-GAAGTCTCCCGGGTCTAAGTC-GATGGGCAGACGA-TGATGAA-GAAGTCTCCCAGGTCAA
* * * * * * * * * * * **
642154 AGTCGACGGGCAAACGATTAACAAAAGAAAGTCTCCCGGGTTTAAGCCAATGAGCAGACGGTTGA
62 AGTCGACGGGCAGACGAATGA-TAAAGGAAGTCTCTCAGGTCTAAGTCGATGGGCAGACGAATGA
*
642219 TA
126 TG
* *** * * ** * *
642221 AAAGAAGACTTTTGGGTCTAAGTTGATAGGCAGACGATTGACAAAAGAAGTCTTCC-GAGTCTAA
1 AAAGAAGTCTCCCGGGTCTAAGTCGATGGGCAGACGA-TGA-TGAAGAAGTCTCCCAG-GTCAAA
* * * * * *
642285 GCCGACGGGTAAACGAA-GATGAAA-GAAGTCTCTCGGGTCTAAGCCGACGGGCAGACGAATGAT
63 GTCGACGGGCAGACGAATGAT-AAAGGAAGTCTCTCAGGTCTAAGTCGATGGGCAGACGAATGAT
642348 G
127 G
* * ** ** **
642349 AAA-AA-TCT-CCAGGTCTAAGTCGACGGGCAGACGATTGACAAAGGAAGTCTCCTGGGTTTAAG
1 AAAGAAGTCTCCCGGGTCTAAGTCGATGGGCAGACGA-TGATGAA-GAAGTCTCCCAGGTCAAAG
* * * * * * * * *
642411 CCGGCGGGCAGACGATTGATGAAA--AAGTCTCCCGGGTCTGAGCCAATGGGCAGACGATTGAT-
64 TCGACGGGCAGACGAATGAT-AAAGGAAGTCTCTCAGGTCTAAGTCGATGGGCAGACGAATGATG
* * * * * * * * *
642473 AAAGAAAATCTCTCGGGTCTAAGCCAACGGGCAGACAAAAGATGAAAGAAGTCTCCCGGGTCTAA
1 AAAG-AAGTCTCCCGGGTCTAAGTCGATGGGCAGAC-GATGATG-AAGAAGTCTCCCAGGTCAAA
* *
642538 G-CTGATGGGCAGTCGAATGATAAA
63 GTC-GACGGGCAGACGAATGATAAA
642562 AAAGGCTTTA
Statistics
Matches: 1248, Mismatches: 298, Indels: 143
0.74 0.18 0.08
Matches are distributed among these distances:
121 2 0.00
122 71 0.06
123 15 0.01
124 6 0.00
125 85 0.07
126 18 0.01
127 174 0.14
128 633 0.51
129 144 0.12
130 92 0.07
131 8 0.01
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (127 bp):
AAAGAAGTCTCCCGGGTCTAAGTCGATGGGCAGACGATGATGAAGAAGTCTCCCAGGTCAAAGTC
GACGGGCAGACGAATGATAAAGGAAGTCTCTCAGGTCTAAGTCGATGGGCAGACGAATGATG
Found at i:641813 original size:171 final size:171
Alignment explanation
Indices: 641391--642539 Score: 711
Period size: 171 Copynumber: 6.7 Consensus size: 171
641381 ATAAGCCAAC
* * *** * * *
641391 GGGCAGATGATTGA-CAAAGGAAGTCTCCCAAGTCTAAGTCGACGGGCAGATGATTGACAAAGGA
1 GGGCAGACGATTGATGAAA-GAAGTCTCCTGGGTCTAACT-GACGGGCAGACGATTGATAAA-GA
* * * * * * * * *
641455 AGTCTCCTAGGTTTAAGTCGACAGGCAGACGATTGACAAAGGAAGGCTCCTAAGTCCAAGCCAAC
63 AGTCTCTTGGGTCTAAGTCGACGGGCAGACGATTGACAAAGGAAGTCTCCCAGGTCTAAGCCGAC
* * *
641520 GGGTAGACGATTGACAAAGGAAGTCTCCCGGGTCTAAG-CTGAT
128 AGGCAGACGATTGACAAAGGAAGTCTCCTGGGTCTAAGTCTGAT
* ** * * * * *
641563 GGGCAGACAAAAGATGAAAGAAATCT-CTCGGGTCTAAGTCGATGGGTAGACGAATGATGAAA-A
1 GGGCAGACGATTGATGAAAGAAGTCTCCT-GGGTCTAACT-GACGGGCAGACGATTGAT-AAAGA
* * * * *
641626 AGTCACTCGAGTCTAAGTCGACGGGCAGACGATTGACAAAGGAAGTCTCCCAGGTCTAAGTCGAT
63 AGTCTCTTGGGTCTAAGTCGACGGGCAGACGATTGACAAAGGAAGTCTCCCAGGTCTAAGCCGAC
* *
641691 AGGCAGACGATTGACAAAGGAAGTCTCCCGAGTCTAAGTC-GAT
128 AGGCAGACGATTGACAAAGGAAGTCTCCTGGGTCTAAGTCTGAT
* * *
641734 GGGTAGACGATTAATGAAA-AAGTCTCCTGGGTCTGAACTGATGGGCAGACGATTGATAAACGAA
1 GGGCAGACGATTGATGAAAGAAGTCTCCTGGGTCT-AACTGACGGGCAGACGATTGATAAA-GAA
* * * ** * **
641798 GTCTCTTAGGTCTAAGTCAACGGGCAGACAAAAGATGAAA-GAAGTCT-CTTGAGTCTAAGCCGA
64 GTCTCTTGGGTCTAAGTCGACGGGCAGACGATTGA-CAAAGGAAGTCTCCCAG-GTCTAAGCCGA
* * * * * * *
641861 GAGGCAGCCGAATAATGAAA--AAGTCTCTTGGGTCTCA-TCTGAT
127 CAGGCAGACGATTGA-CAAAGGAAGTCTCCTGGGTCTAAGTCTGAT
* * * * **
641904 GGGCAGACGATTGA-CAAAGGAAGTCTCCCGGGTCTAAATTGACGGG-AAAATAGTTGATAAAAG
1 GGGCAGACGATTGATGAAA-GAAGTCTCCTGGGTCT-AACTGACGGGCAGACGA-TTGAT-AAAG
* * ** * * * *
641967 AAGTCTCCTGAGTCTAAG-CTGAAAGGTAGATGATCGACAAAGGAAGTCTCCTAGGTCTAAGCCG
62 AAGTCTCTTGGGTCTAAGTC-GACGGGCAGACGATTGACAAAGGAAGTCTCCCAGGTCTAAGCCG
* * * *
642031 ACAGGCAGGCGAATGATGAAA--AAGTCTCCTGGGTTTAAG-CTGAT
126 ACAGGCAGACGATTGA-CAAAGGAAGTCTCCTGGGTCTAAGTCTGAT
* * * * * **
642075 AGGCAGATGATTGAT-AAAGGAAGTCTCTTGGGTTTAAGCTGACGGACAGGTGATTGATAAAGGA
1 GGGCAGACGATTGATGAAA-GAAGTCTCCTGGGTCTAA-CTGACGGGCAGACGATTGATAAA-GA
* * * * * * *
642139 AGTCTCTCGGGTTTAAGTCGACGGGCAAACGATTAACAAAAGAAAGTCTCCCGGGTTTAAGCC-A
63 AGTCTCTTGGGTCTAAGTCGACGGGCAGACGATTGAC-AAAGGAAGTCTCCCAGGTCTAAGCCGA
* * * * **
642203 -ATGAGCAGACGGTTGATAAAAGAAGACTTTTGGGTCTAAGT-TGAT
127 CA-G-GCAGACGATTGACAAAGGAAGTCTCCTGGGTCTAAGTCTGAT
* ** * * * * *
642248 AGGCAGACGATTGACAAAAGAAGTCTTCC-GAGTCTAAGCCGACGGGTAAACGA-AGATGAAAGA
1 GGGCAGACGATTGATGAAAGAAGTC-TCCTGGGTCTAA-CTGACGGGCAGACGATTGAT-AAAGA
* * * * *
642311 AGTCTCTCGGGTCTAAGCCGACGGGCAGACGAATGATGAAA--AA-TCT-CCAGGTCTAAGTCGA
63 AGTCTCTTGGGTCTAAGTCGACGGGCAGACGATTGA-CAAAGGAAGTCTCCCAGGTCTAAGCCGA
* * * **
642372 CGGGCAGACGATTGACAAAGGAAGTCTCCTGGGTTTAAG-CCGGC
127 CAGGCAGACGATTGACAAAGGAAGTCTCCTGGGTCTAAGTCTGAT
* * ** *
642416 GGGCAGACGATTGATGAAA-AAGTCTCCCGGGTCTGAGCCAATGGGCAGACGATTGATAAAGAAA
1 GGGCAGACGATTGATGAAAGAAGTCTCCTGGGTCT-AACTGACGGGCAGACGATTGATAAAG-AA
* * * * * ** * *
642480 ATCTCTCGGGTCTAAGCCAACGGGCAGACAAAAGATGAAA-GAAGTCTCCCGGGTCTAAGC
64 GTCTCTTGGGTCTAAGTCGACGGGCAGACGATTGA-CAAAGGAAGTCTCCCAGGTCTAAGC
642540 TGATGGGCAG
Statistics
Matches: 760, Mismatches: 172, Indels: 91
0.74 0.17 0.09
Matches are distributed among these distances:
166 3 0.00
167 25 0.03
168 98 0.13
169 15 0.02
170 75 0.10
171 354 0.47
172 123 0.16
173 62 0.08
174 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (171 bp):
GGGCAGACGATTGATGAAAGAAGTCTCCTGGGTCTAACTGACGGGCAGACGATTGATAAAGAAGT
CTCTTGGGTCTAAGTCGACGGGCAGACGATTGACAAAGGAAGTCTCCCAGGTCTAAGCCGACAGG
CAGACGATTGACAAAGGAAGTCTCCTGGGTCTAAGTCTGAT
Found at i:642220 original size:130 final size:128
Alignment explanation
Indices: 641957--642733 Score: 373
Period size: 128 Copynumber: 6.1 Consensus size: 128
641947 GGGAAAATAG
* * * * * * *
641957 TTGATAAAAGAAGTCTC-CTGAGTCTAAGCTGAAAGGTAGATGATCGACAAAGGAAGTCTC-CTA
1 TTGATAAAGGAAGTCTCTC-GGGTCTAAGCTG-ACGGCAGACGATTGACAAAGGAAGTCTCTC-G
* * ** * * ** * * ** *
642020 GGTCTAAGCCGACAGGCAGGCGAATGATGAA-AAAGTCTCCTGGGTTTAAGCTGAT-AGGCAGAT
63 GGTTTAAGCCGACGGGCAAACGATTAAAAAAGAAAGTCTCCCGGGTCTAAGCCAATGA-GCAGAC
642083 GA
127 GA
* * ** *
642085 TTGATAAAGGAAGTCTCTTGGGTTTAAGCTGACGGACAGGTGATTGATAAAGGAAGTCTCTCGGG
1 TTGATAAAGGAAGTCTCTCGGGTCTAAGCTGACGG-CAGACGATTGACAAAGGAAGTCTCTCGGG
* * *
642150 TTTAAGTCGACGGGCAAACGATTAACAAAAGAAAGTCTCCCGGGTTTAAGCCAATGAGCAGACGG
65 TTTAAGCCGACGGGCAAACGATTAA-AAAAGAAAGTCTCCCGGGTCTAAGCCAATGAGCAGACGA
* * * * * * * *
642215 TTGATAAAAGAAGACTTTTGGGTCTAAGTTGATAGGCAGACGATTGACAAAAGAAGTCT-TCCGA
1 TTGATAAAGGAAGTCTCTCGGGTCTAAGCTGA-CGGCAGACGATTGACAAAGGAAGTCTCT-CGG
* * ** ** * * * *
642279 GTCTAAGCCGACGGGTAAACGAAGATGAAAG-AAGTCTCTCGGGTCTAAGCCGACGGGCAGACGA
64 GTTTAAGCCGACGGGCAAACGATTAAAAAAGAAAGTCTCCCGGGTCTAAGCCAATGAGCAGACGA
* *
642343 ATGATGAAA--AA-TCTC-CAGGTCTAAG-TCGACGGGCAGACGATTGACAAAGGAAGTCTC-CT
1 TTGAT-AAAGGAAGTCTCTCGGGTCTAAGCT-GAC-GGCAGACGATTGACAAAGGAAGTCTCTC-
* * * ** * *
642402 GGGTTTAAGCCGGCGGGCAGACGATTGATGAA-AAAGTCTCCCGGGTCTGAGCCAATGGGCAGAC
62 GGGTTTAAGCCGACGGGCAAACGATTAAAAAAGAAAGTCTCCCGGGTCTAAGCCAATGAGCAGAC
642466 GA
127 GA
* * ** * ** * *
642468 TTGATAAAGAAAATCTCTCGGGTCTAAGCCAACGGGCAGACAAAAGATGAAA-GAAGTCTCCCGG
1 TTGATAAAGGAAGTCTCTCGGGTCTAAGCTGAC-GGCAGACGATTGA-CAAAGGAAGTCTCTCGG
* * * ** * * * * *
642532 GTCTAAGCTGATGGGCAGTCGAATGATAAA-AAAGGCT------T-TAAGCCGATGAGCAGACGA
64 GTTTAAGCCGACGGGCAAACGATTAAAAAAGAAAGTCTCCCGGGTCTAAGCCAATGAGCAGACGA
* * * * * * * *
642589 TTAACAAAGGAAGTCTC-CTAGGTCTAAG-TCGATGGGCAAACGATTGAGAAATGAAGTCTCCCG
1 TTGATAAAGGAAGTCTCTC-GGGTCTAAGCT-GA-CGGCAGACGATTGACAAAGGAAGTCTCTCG
* * * * * * * ** *
642652 AGTCTAAGCTGATGGGCAAATGATTAATAAA-AAAGTCTTCCGGGTCTAAGCTGATGGGC-GAGC
63 GGTTTAAGCCGACGGGCAAACGATTAAAAAAGAAAGTCTCCCGGGTCTAAGCCAATGAGCAGA-C
642715 GA
127 GA
*
642717 TTGAGAAAGGAAGTCTC
1 TTGATAAAGGAAGTCTC
642734 CCGAGTGATT
Statistics
Matches: 504, Mismatches: 112, Indels: 66
0.74 0.16 0.10
Matches are distributed among these distances:
120 5 0.01
121 89 0.18
122 1 0.00
124 5 0.01
125 88 0.17
126 4 0.01
127 12 0.02
128 187 0.37
129 15 0.03
130 95 0.19
131 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.21
Consensus pattern (128 bp):
TTGATAAAGGAAGTCTCTCGGGTCTAAGCTGACGGCAGACGATTGACAAAGGAAGTCTCTCGGGT
TTAAGCCGACGGGCAAACGATTAAAAAAGAAAGTCTCCCGGGTCTAAGCCAATGAGCAGACGA
Found at i:642564 original size:128 final size:124
Alignment explanation
Indices: 642264--642565 Score: 309
Period size: 125 Copynumber: 2.4 Consensus size: 124
642254 ACGATTGACA
* * * * * *
642264 AAAGAAGTCTTCCGAGTCTAAGCCGACGGGTAAACGAA-GATGAAAGAAGTCTCTCGGGTCTAAG
1 AAAGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAATGAT-AAAAAAGTCTCCCGGGTCTAAG
* * * * * **
642328 CCGACGGGCAGACGAATGATGAAAAATCTCCAGGTCTAAGTCGACGGGCAGACGATTGAC
65 CCAACGGGCAGACGAATGATAAAAAATCTCCAGGTCTAAGCCAACGGGCAGACAAAAGAC
* * * * * *
642388 AAAGGAAGTCTCCTGGGTTTAAGCCGGCGGGCAGACGATTGATGAAAAAGTCTCCCGGGTCTGAG
1 AAA-GAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAATGATAAAAAAGTCTCCCGGGTCTAAG
* * * *
642453 CCAATGGGCAGACGATTGATAAAGAAAATCTCTCGGGTCTAAGCCAACGGGCAGACAAAAGATG
65 CCAACGGGCAGACGAATGAT-AA-AAAATCTC-CAGGTCTAAGCCAACGGGCAGACAAAAGA-C
* * *
642517 AAAGAAGTCTCCCGGGTCTAAGCTGATGGGCAGTCGAATGATAAAAAAG
1 AAAGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAATGATAAAAAAG
642566 GCTTTAAGCC
Statistics
Matches: 141, Mismatches: 31, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
124 3 0.02
125 62 0.44
126 4 0.03
127 8 0.06
128 61 0.43
129 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (124 bp):
AAAGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAATGATAAAAAAGTCTCCCGGGTCTAAGC
CAACGGGCAGACGAATGATAAAAAATCTCCAGGTCTAAGCCAACGGGCAGACAAAAGAC
Found at i:642744 original size:25 final size:24
Alignment explanation
Indices: 642710--642757 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
642700 AGCTGATGGG
642710 CGAGCGATTGA-GAAAGGAAGTCTCC
1 CGAGCGATTGATGAAA--AAGTCTCC
*
642735 CGAGTGATTGATGAAAAAGTCTC
1 CGAGCGATTGATGAAAAAGTCTC
642758 TCGGGTCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 10 0.48
26 4 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (24 bp):
CGAGCGATTGATGAAAAAGTCTCC
Found at i:642755 original size:67 final size:67
Alignment explanation
Indices: 642672--642800 Score: 172
Period size: 67 Copynumber: 1.9 Consensus size: 67
642662 GATGGGCAAA
* *
642672 TGATTAATAAAAAAGTCT-TCCGGGTCTAAGCTGATGGGC-GAGCGATTGAGAAAGGAAGTCTCC
1 TGATTAATAAAAAAGTCTCT-CGGGTCTAAGCTGACGGGCAGA-CAATTGAGAAAGGAAGTCTCC
642735 CGAG
64 CGAG
* * * *
642739 TGATTGATGAAAAAGTCTCTCGGGTCTGAGCTGACGGGCAGACAATTGATAAAGGAAGTCTC
1 TGATTAATAAAAAAGTCTCTCGGGTCTAAGCTGACGGGCAGACAATTGAGAAAGGAAGTCTC
642801 TCGGGTGTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
67 51 0.94
68 3 0.06
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.23
Consensus pattern (67 bp):
TGATTAATAAAAAAGTCTCTCGGGTCTAAGCTGACGGGCAGACAATTGAGAAAGGAAGTCTCCCG
AG
Found at i:642817 original size:43 final size:43
Alignment explanation
Indices: 642744--642854 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 43
642734 CCGAGTGATT
* * * **
642744 GATGAAA-AAGTCTCTCGGGTCTGAGCTGACGGGCAGACAATT
1 GATGAAAGAAGTCTCTCGGGTCTAAGCTGACGAGCAAACAAAA
* *
642786 GAT-AAAGGAAGTCTCTCGGGTGTAAGTTGACGAGCAAACAAAA
1 GATGAAA-GAAGTCTCTCGGGTCTAAGCTGACGAGCAAACAAAA
642829 GATGAAAGAAGTCTC-CTGGGTCTAAG
1 GATGAAAGAAGTCTCTC-GGGTCTAAG
642855 GCGAGGGGCA
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
41 3 0.05
42 4 0.07
43 47 0.82
44 3 0.05
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (43 bp):
GATGAAAGAAGTCTCTCGGGTCTAAGCTGACGAGCAAACAAAA
Found at i:643696 original size:89 final size:89
Alignment explanation
Indices: 643512--643712 Score: 285
Period size: 89 Copynumber: 2.2 Consensus size: 89
643502 TTTGGTAAGG
* * * *
643512 AAGGATATGATTAGGAATGTCTGGGCTGCACCTTGCCCCAAGGAAATTAGGCTTGGTGATGCACC
1 AAGGATATGATTAGGAATGTGTGGGCTACACCTTGCCCCAAGAAAATTAGGCTTGGTGAGGCACC
643577 AATACCATCTAGTGATTAGAGGAA
66 AATACCATCTAGTGATTAGAGGAA
* * *
643601 AAGGATATAACTAGGAATGTGTGGGCTACACCTTGCCCCAAGAAAATTAGGCTTGGTGAGGCATC
1 AAGGATATGATTAGGAATGTGTGGGCTACACCTTGCCCCAAGAAAATTAGGCTTGGTGAGGCACC
* * *
643666 AATACCATCTAGTGGTTGGATGAA
66 AATACCATCTAGTGATTAGAGGAA
**
643690 GGGGATATGATTAGGAAATGTGT
1 AAGGATATGATTAGG-AATGTGT
643713 CTTCGTTGAA
Statistics
Matches: 97, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
89 90 0.93
90 7 0.07
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (89 bp):
AAGGATATGATTAGGAATGTGTGGGCTACACCTTGCCCCAAGAAAATTAGGCTTGGTGAGGCACC
AATACCATCTAGTGATTAGAGGAA
Found at i:645504 original size:6 final size:6
Alignment explanation
Indices: 645495--645557 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
645485 TTTTTTGCAC
*
645495 TTTCTT TTTCATT TGATT-TT TTTCTT TTTCTT TTT-TT TTCTTTT TTTCTT
1 TTTCTT TTTC-TT T--TTCTT TTTCTT TTTCTT TTTCTT TT-TCTT TTTCTT
*
645545 TTTGTT TTT-TT TT
1 TTTCTT TTTCTT TT
645558 GGTTTGTTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
5 10 0.20
6 27 0.55
7 10 0.20
9 2 0.04
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:645532 original size:16 final size:16
Alignment explanation
Indices: 645511--645557 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 16
645501 TTTCATTTGA
645511 TTTTTTTCTTTTTCTT
1 TTTTTTTCTTTTTCTT
645527 TTTTTTTCTTTTTTTCTT
1 TTTTTTTC--TTTTTCTT
645545 TTTGTTTT-TTTTT
1 TTT-TTTTCTTTTT
645558 GGTTTGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 13 0.46
18 11 0.39
19 4 0.14
ACGTcount: A:0.00, C:0.09, G:0.02, T:0.89
Consensus pattern (16 bp):
TTTTTTTCTTTTTCTT
Found at i:645538 original size:24 final size:24
Alignment explanation
Indices: 645476--645557 Score: 92
Period size: 24 Copynumber: 3.3 Consensus size: 24
645466 TTTTCTTTCA
**
645476 TTTTTTTCTTTTTTTGCACTTTCTT
1 TTTTTTTCTTTTTTT-CTTTTTCTT
**
645501 TTTCATTTGATTTTTTTCTTTTTCTT
1 TTT--TTTTCTTTTTTTCTTTTTCTT
*
645527 TTTTTTTCTTTTTTTCTTTTTGTT
1 TTTTTTTCTTTTTTTCTTTTTCTT
645551 TTTTTTT
1 TTTTTTT
645558 GGTTTGTTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
24 25 0.52
25 3 0.06
26 10 0.21
27 10 0.21
ACGTcount: A:0.04, C:0.11, G:0.04, T:0.82
Consensus pattern (24 bp):
TTTTTTTCTTTTTTTCTTTTTCTT
Found at i:645553 original size:30 final size:30
Alignment explanation
Indices: 645463--645557 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
645453 TATTTCCTCA
* **
645463 TCTTTTTCTTTCATTTTTTTCTTTTTTTGC
1 TCTTTTTTTTTCATTTTTTTCTTTTTTTTT
* * * *
645493 ACTTTCTTTTTCATTTGATTT-TTTTCTTTT
1 TCTTTTTTTTTCATTT-TTTTCTTTTTTTTT
*
645523 TCTTTTTTTTTC-TTTTTTTCTTTTTGTTT
1 TCTTTTTTTTTCATTTTTTTCTTTTTTTTT
645552 T-TTTTT
1 TCTTTTT
645558 GGTTTGTTAT
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
28 8 0.16
29 11 0.22
30 29 0.57
31 3 0.06
ACGTcount: A:0.04, C:0.13, G:0.03, T:0.80
Consensus pattern (30 bp):
TCTTTTTTTTTCATTTTTTTCTTTTTTTTT
Found at i:645925 original size:21 final size:21
Alignment explanation
Indices: 645901--645957 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
645891 AATTTATCCA
645901 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
645922 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
645943 AATGTATCGATACAT
1 AATGTATCGATACAT
645958 CCTACAATTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:646037 original size:19 final size:19
Alignment explanation
Indices: 646013--646112 Score: 107
Period size: 19 Copynumber: 5.9 Consensus size: 19
646003 AATTCAACAA
646013 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
646032 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
646047 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
646064 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
646079 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
646096 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
646113 TTAGCTACTG
Statistics
Matches: 69, Mismatches: 0, Indels: 24
0.74 0.00 0.26
Matches are distributed among these distances:
13 22 0.32
15 4 0.06
17 4 0.06
19 39 0.57
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:646052 original size:13 final size:13
Alignment explanation
Indices: 646034--646090 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
646024 ACATAAGTTT
646034 TGTATCGATACAA
1 TGTATCGATACAA
646047 TGTATCGATACATAA
1 TGTATCGATAC--AA
646062 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
646079 TGTATCGATACA
1 TGTATCGATACA
646091 TAAGTATTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:646056 original size:32 final size:32
Alignment explanation
Indices: 646015--646109 Score: 181
Period size: 32 Copynumber: 3.0 Consensus size: 32
646005 TTCAACAATT
646015 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
646047 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
*
646079 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTTTTGTATCGATACA
646110 TAATTAGCTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:646170 original size:13 final size:13
Alignment explanation
Indices: 646152--646177 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
646142 CATTTTTCTG
646152 TGTATCGATACAT
1 TGTATCGATACAT
646165 TGTATCGATACAT
1 TGTATCGATACAT
646178 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:646175 original size:33 final size:33
Alignment explanation
Indices: 646133--646198 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
646123 CCAAGGAAAG
***
646133 GTATCGATACATTTTTCTGTGTATCGATACATT
1 GTATCGATACATGGATCTGTGTATCGATACATT
*
646166 GTATCGATACATGGATCTTTGTATCGATACATT
1 GTATCGATACATGGATCTGTGTATCGATACATT
646199 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (33 bp):
GTATCGATACATGGATCTGTGTATCGATACATT
Found at i:648662 original size:27 final size:28
Alignment explanation
Indices: 648632--648704 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
648622 CTTCACAATC
*
648632 GGGGATACTCCAACCCCGTTAATAAT-T
1 GGGGATACTCCAACCCCGTTAATAATGA
* * **
648659 GGGGATACTCCAACCCCATTATTTCTGA
1 GGGGATACTCCAACCCCGTTAATAATGA
648687 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
648705 GTTTTATTGC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTAATAATGA
Found at i:648736 original size:107 final size:104
Alignment explanation
Indices: 648580--648971 Score: 317
Period size: 107 Copynumber: 3.7 Consensus size: 104
648570 TCTATAATGA
* *
648580 GGGATACTCTAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCACAATCGGGGATACTCCAA
1 GGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTT-TTCACAATCGGGGATACTCCAA
648645 CCCCGTTAATAATTGGGGATACTCCAACCCCATTATTTCTGAG
65 CCCCGTT-ATAATTGGGGATACTCCAACCCCATTA-TTC-GAG
* * * *
648688 GGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCAA
1 GGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTT-CACAATCGGGGATACTCCAA
* * **** * * ** * *
648752 CCCTGGTT-TTATTTTCAAAACGCCAATTTTCCTTTAATC--G
65 CCC-CGTTATAATTGGGGATACTCCAA--CCCCATTATTCGAG
* * *
648792 GGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAAC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
* * * * *
648857 CTCGTTATTTCATCGGGGATACTTCAACCCCGTTACTTCCGAG
66 CCCGTTA--TAATTGGGGATACTCCAACCCCATTA-TT-CGAG
** * * *** * * *
648900 GGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
648964 CCCGTTAT
66 CCCGTTAT
648972 TCTCGAGGGG
Statistics
Matches: 220, Mismatches: 52, Indels: 27
0.74 0.17 0.09
Matches are distributed among these distances:
103 3 0.01
104 48 0.22
105 18 0.08
106 23 0.10
107 79 0.36
108 49 0.22
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (104 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATAATTGGGGATACTCCAACCCCATTATTCGAG
Found at i:648772 original size:52 final size:52
Alignment explanation
Indices: 648687--648857 Score: 188
Period size: 52 Copynumber: 3.3 Consensus size: 52
648677 TTATTTCTGA
* * *
648687 GGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAA-CCCGGTTTTATTTCCAAAAACACCAATTTTTCCACAATC
* * **
648739 GGGGATACTCCAACCCTGGTTTTATTTTC-AAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACCC-GGTTTTATTTCCAAAAACACCAATTTTTCC-ACAATC
* *
648791 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAAC-CCGGTTTTATTTCCAAAAACACCAATTTTTCCACAATC
*
648843 GAGGATACTCCAACC
1 GGGGATACTCCAACC
648858 TCGTTATTTC
Statistics
Matches: 101, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
51 10 0.10
52 73 0.72
53 14 0.14
54 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACCCGGTTTTATTTCCAAAAACACCAATTTTTCCACAATC
Found at i:648876 original size:28 final size:28
Alignment explanation
Indices: 648840--648916 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
648830 ATTTTTCACA
* * *
648840 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*
648868 ATCGGGGATACTTCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
648896 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
648917 GCTTTATTCC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:648903 original size:212 final size:210
Alignment explanation
Indices: 648516--648965 Score: 609
Period size: 212 Copynumber: 2.1 Consensus size: 210
648506 AGTTTCTCAA
* *
648516 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATGAG
1 TTCTCCACAATCGGGGATACTCCAAC-CCGATTTTATTTTCAAAACACCAATTTTCTATAATGAG
* *
648581 GGATACTCTAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
65 GGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * * *
648646 CCCGTTAATAATTGGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCGGTTTTA
130 CCCGTTAATAATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGGCTTTA
* *
648711 TTGCTAAAACACTAAT
195 TTCCCAAAACACTAAT
* * * *
648727 TTTTCCACAATCGGGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCG
1 TTCTCCACAATCGGGGATACTCCAACCC-GATTTTATTTTCAAAACACCAATTTT-CTATAAT-G
*
648792 -GGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTT-TTCACAATCGAGGATACTCCA
63 AGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCACAATCGAGGATACTCCA
* * * * *
648855 ACCTCGTTATTTCATCGGGGATACTTCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCT
128 ACCCCGTTA-ATAATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGGCT
* * *
648920 TTATTCCCAAAATATTGAT
192 TTATTCCCAAAACACTAAT
* *
648939 TTCT-CATAATTGGGGATACTCCAACCC
1 TTCTCCACAATCGGGGATACTCCAACCC
648966 CGTTATTCTC
Statistics
Matches: 209, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
210 2 0.01
211 96 0.46
212 110 0.53
213 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (210 bp):
TTCTCCACAATCGGGGATACTCCAACCCGATTTTATTTTCAAAACACCAATTTTCTATAATGAGG
GATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
CCGTTAATAATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGGCTTTAT
TCCCAAAACACTAAT
Found at i:649019 original size:79 final size:78
Alignment explanation
Indices: 648870--649051 Score: 204
Period size: 79 Copynumber: 2.3 Consensus size: 78
648860 GTTATTTCAT
* *
648870 CGGGGATACTTCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTA-TTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
648935 TGATTTCTCATAAT
65 CGATTTCTCACAAC
* * * * * ** *
648949 TGGGGATACTCCAACCCCGTTATTCTCGAGGGGATACTCCAATCCTGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTC-CGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
649013 TCGATTTCTCACAAC
64 TCGATTTCTCACAAC
*
649028 CGGGGATACTCCAGCCCCGTTATT
1 CGGGGATACTCCAACCCCGTTATT
649052 TTCAAGAGAA
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 6 0.07
79 80 0.93
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATC
GATTTCTCACAAC
Found at i:661411 original size:7 final size:7
Alignment explanation
Indices: 661395--661464 Score: 56
Period size: 8 Copynumber: 9.7 Consensus size: 7
661385 ACCTTCTCTT
661395 AAAAA-A
1 AAAAAGA
661401 AAAAAGCA
1 AAAAAG-A
661409 AAAAA-A
1 AAAAAGA
661415 AAAAAGGA
1 AAAAA-GA
661423 AAAAA-A
1 AAAAAGA
*
661429 AAAAACAA
1 AAAAA-GA
661437 AACAAAGA
1 AA-AAAGA
661445 AAAAGAGA
1 AAAA-AGA
*
661453 GAAAAGA
1 AAAAAGA
661460 AAAAA
1 AAAAA
661465 CCTACTTAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
6 17 0.32
7 9 0.17
8 24 0.45
9 3 0.06
ACGTcount: A:0.84, C:0.04, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:661413 original size:13 final size:13
Alignment explanation
Indices: 661395--661438 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
661385 ACCTTCTCTT
661395 AAAAAAAAAAAGC
1 AAAAAAAAAAAGC
*
661408 AAAAAAAAAAAAGG
1 -AAAAAAAAAAAGC
*
661422 AAAAAAAAAAAAC
1 AAAAAAAAAAAGC
661435 AAAA
1 AAAA
661439 CAAAGAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.89, C:0.05, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGC
Found at i:661415 original size:15 final size:14
Alignment explanation
Indices: 661395--661449 Score: 76
Period size: 14 Copynumber: 3.9 Consensus size: 14
661385 ACCTTCTCTT
661395 AAAAAAAAAAAGCA
1 AAAAAAAAAAAGCA
*
661409 AAAAAAAAAAAGGA
1 AAAAAAAAAAAGCA
661423 AAAAAAAAAAA-CA
1 AAAAAAAAAAAGCA
661436 AAACAAAGAAAAAG
1 AAA-AAA-AAAAAG
661450 AGAGAAAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
13 4 0.11
14 27 0.75
15 5 0.14
ACGTcount: A:0.85, C:0.05, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGCA
Found at i:662516 original size:55 final size:53
Alignment explanation
Indices: 662431--663179 Score: 924
Period size: 55 Copynumber: 13.5 Consensus size: 53
662421 TCCGCTTTTT
*
662431 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACTTT-C
662486 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
662541 AATCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACTTT-C
**
662596 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCTTTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACTTT-C
*
662651 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACTTT-C
* * *
662706 AGTCCTCAGAGAGCATGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACTTTC
* *
662760 AGTCCTCCAAGAGCAGGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACAC-----C-TTTAAAGCCCACACAAGTTGGTGGCACTTTC
* * *
662819 AGTCCTCAAAGAGCGGGATGC-CTTTTCTTTTAAAGCCAACATAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA--CAC----C-TTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
662879 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
662934 AGTCCCCAAAGAGCAGGACCCCTTTCAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
662988 AGTCCCCAAAGAGTAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGGTGGCACTTT-C
*
663043 AGTCCTTAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
663098 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCAC-TTTC
* * *
663153 ACTCCTCAATGAGCAGGATACACTTTA
1 AGTCCTCAAAGAGCAGGACAC-CTTTA
663180 TTTTCCTCTT
Statistics
Matches: 629, Mismatches: 42, Indels: 46
0.88 0.06 0.06
Matches are distributed among these distances:
54 82 0.13
55 430 0.68
56 14 0.02
58 1 0.00
59 78 0.12
60 23 0.04
61 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (53 bp):
AGTCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:662630 original size:110 final size:110
Alignment explanation
Indices: 662431--663170 Score: 1028
Period size: 110 Copynumber: 6.7 Consensus size: 110
662421 TCCGCTTTTT
*
662431 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
1 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
662496 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
66 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
662541 AATCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
1 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
**
662606 GAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGC-TTTTTCC
66 GAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
662651 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAGA
1 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
*
662716 GAGCATGACACCTCTTAAAGCCCACACAAGTTGGTGGCACC-TTC
66 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* **
662760 AGTCCTCC-AAGAGCAGGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTC
1 AGTCC-CCAAAGAGCAGGACAC-----CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
* ** * *
662823 CTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCAACATAAGTTGGTGGCACCTTTC
60 CTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
662879 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAA
1 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAA
* *
662943 AGAGCAGGACCCCT-TTCAAGCCCACACAAGTTGGTGGCACCTTTC
65 AGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
662988 AGTCCCCAAAGAGTAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTTAAA
1 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
663053 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
66 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * *
663098 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TACTCCTCAA
1 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAA
*
663162 TGAGCAGGA
65 AGAGCAGGA
663171 TACACTTTAT
Statistics
Matches: 561, Mismatches: 48, Indels: 42
0.86 0.07 0.06
Matches are distributed among these distances:
108 3 0.01
109 119 0.21
110 287 0.51
111 6 0.01
112 1 0.00
113 18 0.03
114 56 0.10
115 22 0.04
116 2 0.00
118 26 0.05
119 21 0.04
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (110 bp):
AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:668287 original size:156 final size:155
Alignment explanation
Indices: 667933--669194 Score: 953
Period size: 156 Copynumber: 8.1 Consensus size: 155
667923 TACTTGATAC
* ** * *
667933 CCCTAAAGGACTTAAAAAGATTCCAAATGGGATGAACCTATCTTAAATGCCCACCTTCGGCATAA
1 CCCTAAAGGACTTAAAAAGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAA
* * * * ** *
667998 AAGCGAACCCGGTGACAACCTAGGAGTTGGTTCTAAAAAAGTACGAAAATGTCCCTA-CGAGTAT
66 AAGCAAACCCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATAAAAATG-CCCTATAG-GTAT
* * * *
668062 ACTTTTGACATAAAAGTA-CCTCGACAA
129 ACCTTCGACGTAAAAGTATCC-CGGCAA
* ** *
668089 CCTTGAAA-GACTTAAAAAGACTCATAAAAACGATGAACCTATCCTAAATGCCCACCTTCAGCAT
1 CCCT-AAAGGACTTAAAAAGACT-ATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCAT
* ** * * * *
668153 AAAAGCAAACTCGGTGATGACCTAAGAGTTGGTTCT-AAAAATTATGAAAATGCCCCTATAGGTA
64 AAAAGCAAACCCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATAAAAATG-CCCTATAGGTA
*
668217 TACCTTCAACGTAAAAGTATCCCGGCAA
128 TACCTTCGACGTAAAAGTATCCCGGCAA
* * * *
668245 CCCTAAAGGGCTTAAAAAGACTCATAAAAGGGATGAAACTATCCTAAATACCCACCTTCAGCATA
1 CCCTAAAGGACTTAAAAAGACT-ATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATA
* * * ** * * * *
668310 AAAGTAGACCCGATGACAACCTAGGACTCAATTCTAAAAAATTACAAAAAT-ACCTTTAGGGGAT
65 AAAGCAAACCCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATAAAAATGCCCTATA-GGTAT
* *
668374 ACCTTTGACGTAGAAGTA-CCC-G-ATA
129 ACCTTCGACGTAAAAGTATCCCGGCA-A
* * * * * * * *
668399 CACCTAAATGACTTAAAAAGGATTATAGAAGGGGTGAATCTATCCTAAATACCCACATTTGGCAT
1 C-CCTAAAGGACTTAAAAA-GACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCAT
* * ** * * * * *
668464 AAAAGTAGACCTAGTGACAACCTAGGACTCGATTCTAAAAAAATTATGAAAGTGACCTCA-AAG-
64 AAAAGCAAACCCGGTGACAACCTAGGACTCGGTTCT-AAAAAATTATAAAAATGCCCT-ATAGGT
* * *
668527 ATACCTTCGACGTGAAAGTATCTC--AATA
127 ATACCTTCGACGTAAAAGTATCCCGGCA-A
* * * *
668555 CCTCTAAAGGACTTAAAAAGGACTATAGACGGGATGAACCTATCCTAAATGCTCACTTTCGGCAT
1 CC-CTAAAGGACTTAAAAA-GACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCAT
* * * * * *
668620 AAAAGCAAACCCGGTGACAATCTAAGACTCAGTTCTAGAAAATTATAAAAATGGCCCTGTGGGTA
64 AAAAGCAAACCCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATAAAAAT-GCCCTATAGGTA
* *
668685 TACCTTCGACATAAAAGTATCCCGGTAA
128 TACCTTCGACGTAAAAGTATCCCGGCAA
* * * *
668713 CCCTAAAGGACTTAAAAATACTAGAGATA-GGATGAACCGATCCTAAATGCCCACCTTCGGCATA
1 CCCTAAAGGACTTAAAAAGACTATA-AAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATA
** * ** ** * * ** **
668777 AAAGCGGACCCGATGATGACCTAATAGTTGGTTCTAAAAAATTACCAAAATGCCCTAGGGGTATA
65 AAAGCAAACCCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATAAAAATGCCCTATAGGTATA
* **** *
668842 CCTTCAACGTAAAAGTA-CCTAATAC
130 CCTTCGACGTAAAAGTATCCCGGCAA
* * * *
668867 CCCTAAAGGACTTAAAAAAGACTGTAAAAGGGGTGAACCT-TCCTAAATACCCACCTTCAGCATA
1 CCCTAAAGGACTT-AAAAAGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATA
** * *
668931 AAAGTGAACCCGGTGACAACCTAGGACTCGTTTCTAAAAAATTATAAAAATGCCCT-TAGGGGAT
65 AAAGCAAACCCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATAAAAATGCCCTATA-GGTAT
* * * * *
668995 ACCTTCAACGTGAAAGTAT-CTGAGTAC
129 ACCTTCGACGTAAAAGTATCCCG-GCAA
* * * * * * *
669022 CCCTAAATGATTTAAAAAAACTATTAAATGGG-TGAACCTATCCTAAATACCAACCATCGGCATA
1 CCCTAAAGGACTTAAAAAGACTA-TAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATA
* *** * * * * * *
669086 ATAGTGGACCTGGTGACGACCTAAGACTCGATTCTAAAAAATTACAAAAATACCCCTA-AGAG-A
65 AAAGCAAACCCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATAAAAAT-GCCCTATAG-GTA
* * * **
669149 TATCTTCGACATGAAAGTATCTTGGCAA
128 TACCTTCGACGTAAAAGTATCCCGGCAA
* *
669177 CCTTAAAGGGCTTAAAAA
1 CCCTAAAGGACTTAAAAA
669195 TATTAGAAAT
Statistics
Matches: 894, Mismatches: 179, Indels: 67
0.78 0.16 0.06
Matches are distributed among these distances:
153 1 0.00
154 126 0.14
155 289 0.32
156 348 0.39
157 126 0.14
158 3 0.00
159 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (155 bp):
CCCTAAAGGACTTAAAAAGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAA
AAGCAAACCCGGTGACAACCTAGGACTCGGTTCTAAAAAATTATAAAAATGCCCTATAGGTATAC
CTTCGACGTAAAAGTATCCCGGCAA
Found at i:685644 original size:18 final size:17
Alignment explanation
Indices: 685619--685675 Score: 66
Period size: 15 Copynumber: 3.5 Consensus size: 17
685609 CCTCCGCCAA
685619 AAAAAAAAAGAAGAAAG
1 AAAAAAAAAGAAGAAAG
* *
685636 AAGAAAAAAACAAG-CA-
1 AA-AAAAAAAGAAGAAAG
685652 AAAAAAAAAGAA-AAAG
1 AAAAAAAAAGAAGAAAG
685668 AAAAAAAA
1 AAAAAAAA
685676 GCAAAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
15 10 0.30
16 10 0.30
17 3 0.09
18 10 0.30
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAGAAAG
Found at i:685655 original size:30 final size:27
Alignment explanation
Indices: 685620--685685 Score: 96
Period size: 27 Copynumber: 2.3 Consensus size: 27
685610 CTCCGCCAAA
685620 AAAAAAAAGAAGAAAGAAGAAAAAAACAAGC
1 AAAAAAAA-AAGAAA-AAG-AAAAAA-AAGC
685651 AAAAAAAAAAGAAAAAGAAAAAAAAGC
1 AAAAAAAAAAGAAAAAGAAAAAAAAGC
685678 AAAAAAAA
1 AAAAAAAA
685686 CAATAAACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
27 12 0.34
28 6 0.17
29 3 0.09
30 6 0.17
31 8 0.23
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (27 bp):
AAAAAAAAAAGAAAAAGAAAAAAAAGC
Found at i:685656 original size:11 final size:10
Alignment explanation
Indices: 685620--685737 Score: 70
Period size: 10 Copynumber: 11.9 Consensus size: 10
685610 CTCCGCCAAA
685620 AAAAAAAAG-
1 AAAAAAAAGC
* *
685629 AAGAAAGAAGA
1 AA-AAAAAAGC
685640 AAAAAACAAGC
1 AAAAAA-AAGC
685651 AAAAAAAA--
1 AAAAAAAAGC
*
685659 AAGAAAAAG-
1 AAAAAAAAGC
685668 AAAAAAAAGC
1 AAAAAAAAGC
685678 AAAAAAAA-C
1 AAAAAAAAGC
*
685687 AATAAACAAAAC
1 AA-AAA-AAAGC
*
685699 AGAAAAAAAAAC
1 --AAAAAAAAGC
*
685711 AAAACAAAG-
1 AAAAAAAAGC
685720 AAAAAAAA-C
1 AAAAAAAAGC
*
685729 AACAAAAAG
1 AAAAAAAAG
685738 GGTTCAGATG
Statistics
Matches: 88, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
8 7 0.08
9 27 0.31
10 29 0.33
11 14 0.16
12 6 0.07
13 3 0.03
14 2 0.02
ACGTcount: A:0.81, C:0.08, G:0.09, T:0.01
Consensus pattern (10 bp):
AAAAAAAAGC
Found at i:685657 original size:15 final size:14
Alignment explanation
Indices: 685618--685685 Score: 59
Period size: 15 Copynumber: 4.6 Consensus size: 14
685608 TCCTCCGCCA
685618 AAAAAAAAAAGAAG-
1 AAAAAAAAAA-AAGC
685632 AAAGAAGAAAAAAA-C
1 AAA-AA-AAAAAAAGC
*
685647 AAGCAAAAAAAAAAGA
1 AA--AAAAAAAAAAGC
685663 AAAAGAAAAAAAAGC
1 AAAA-AAAAAAAAGC
685678 AAAAAAAA
1 AAAAAAAA
685686 CAATAAACAA
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
14 9 0.20
15 26 0.58
16 9 0.20
17 1 0.02
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAGC
Found at i:685660 original size:33 final size:30
Alignment explanation
Indices: 685618--685726 Score: 110
Period size: 33 Copynumber: 3.3 Consensus size: 30
685608 TCCTCCGCCA
685618 AAAAAAAAAAGAAGAAAGAAGAAAAAAACAAGC
1 AAAAAAAAAAGAA-AAAGAA-AAAAAAACAA-C
* *
685651 AAAAAAAAAAGAAAAAGAAAAAAAAGCAAA
1 AAAAAAAAAAGAAAAAGAAAAAAAAACAAC
*
685681 AAAAACAATAAACAAAACAGAAAAAAAAACAAAAC
1 AAAAA-AA-AAAGAAAA-AGAAAAAAAAAC--AAC
685716 AAAGAAAAAAA
1 AAA-AAAAAAA
685727 ACAACAAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
30 5 0.08
31 11 0.17
32 13 0.20
33 24 0.37
34 3 0.05
35 7 0.11
36 2 0.03
ACGTcount: A:0.83, C:0.07, G:0.09, T:0.01
Consensus pattern (30 bp):
AAAAAAAAAAGAAAAAGAAAAAAAAACAAC
Found at i:685667 original size:39 final size:37
Alignment explanation
Indices: 685617--685736 Score: 109
Period size: 38 Copynumber: 3.1 Consensus size: 37
685607 GTCCTCCGCC
*
685617 AAAAAA-AAAAAGAAGAAAGAAGAAAAAAACAAGCAA-AA
1 AAAAAAGAAAAAGAA-AAAAAAGAAAAAAA-AA-CAATAA
*
685655 AAAAAAGAAAAAGAAAAAAAAGCAAAAAAAACAATAA
1 AAAAAAGAAAAAGAAAAAAAAGAAAAAAAAACAATAA
* * *
685692 ACAAAACAGAAAAAAAAACAAAACAAAGAAAAAAAACAACAA
1 A-AAAA-AGAAAAAGAAA-AAAA-AGA-AAAAAAAACAATAA
685734 AAA
1 AAA
685737 GGGTTCAGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
36 3 0.04
37 5 0.07
38 22 0.32
39 18 0.26
40 4 0.06
41 3 0.04
42 14 0.20
ACGTcount: A:0.82, C:0.08, G:0.08, T:0.01
Consensus pattern (37 bp):
AAAAAAGAAAAAGAAAAAAAAGAAAAAAAAACAATAA
Found at i:685736 original size:1 final size:1
Alignment explanation
Indices: 685617--685727 Score: 51
Period size: 1 Copynumber: 111.0 Consensus size: 1
685607 GTCCTCCGCC
* * * * * ** * * **
685617 AAAAAAAAAAAGAAGAAAGAAGAAAAAAACAAGCAAAAAAAAAAGAAAAAGAAAAAAAAGCAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * *
685682 AAAACAATAAACAAAACAGAAAAAAAAACAAAACAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
685728 CAACAAAAAG
Statistics
Matches: 74, Mismatches: 36, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 74 1.00
ACGTcount: A:0.83, C:0.07, G:0.09, T:0.01
Consensus pattern (1 bp):
A
Found at i:687209 original size:29 final size:29
Alignment explanation
Indices: 687164--687247 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 29
687154 TCGCCCTTCA
* * *
687164 AAAGCCCCCAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGCCAGTGGCAACTTTTCC
* *
687193 AAAGCCCACAAGCCAGTGGCAAC-CTTCT
1 AAAGCCCACAAGCCAGTGGCAACTTTTCC
* *
687221 AAAGTCCACAA-CTCAGTGGCACCTTTT
1 AAAGCCCACAAGC-CAGTGGCAACTTTT
687248 TTTTCTTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 1 0.02
28 22 0.49
29 22 0.49
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (29 bp):
AAAGCCCACAAGCCAGTGGCAACTTTTCC
Found at i:687237 original size:28 final size:27
Alignment explanation
Indices: 687158--687245 Score: 79
Period size: 29 Copynumber: 3.1 Consensus size: 27
687148 CATTCCTCGC
* * *
687158 CCTTCAAAAGCCCCCAAGTCAGTGGCA
1 CCTTCTAAAGCCCACAAGCCAGTGGCA
* *
687185 TCTTTTCCAAAGCCCACAAGCCAGTGGCAA
1 -C-CTTCTAAAGCCCACAAGCCAGTGGC-A
*
687215 CCTTCTAAAGTCCACAA-CTCAGTGGCA
1 CCTTCTAAAGCCCACAAGC-CAGTGGCA
687242 CCTT
1 CCTT
687246 TTTTTTCTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
27 6 0.12
28 21 0.42
29 22 0.44
30 1 0.02
ACGTcount: A:0.28, C:0.35, G:0.16, T:0.20
Consensus pattern (27 bp):
CCTTCTAAAGCCCACAAGCCAGTGGCA
Found at i:687338 original size:34 final size:33
Alignment explanation
Indices: 687222--687386 Score: 145
Period size: 34 Copynumber: 4.8 Consensus size: 33
687212 CAACCTTCTA
* *
687222 AAGTCCACAACTCAGTGGCACCTTTTTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACC---TTTTTCCTTTT
* * *
687258 AAAGCCCACAACTCTATGGCA-CTCTTTTCCTTCT
1 -AAGTCCACAACTCTGTGGCACCT-TTTTCCTTTT
* *
687292 ATGTCCACAACTCTGTGGCACCTTTCTTCATTTT
1 AAGTCCACAACTCTGTGGCACCTTT-TTCCTTTT
* *
687326 AAG-CCTACAACTCCGTGGCATTCTTTTTCCTTTT
1 AAGTCC-ACAACTCTGTGGCA-CCTTTTTCCTTTT
* *
687360 AAGTCCACAACTCTGTGGTACCCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTT
687387 AAGCCCACAA
Statistics
Matches: 104, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
33 27 0.26
34 53 0.51
35 6 0.06
36 1 0.01
37 17 0.16
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.39
Consensus pattern (33 bp):
AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
Found at i:687370 original size:68 final size:69
Alignment explanation
Indices: 687215--687386 Score: 204
Period size: 68 Copynumber: 2.5 Consensus size: 69
687205 CCAGTGGCAA
* * * *
687215 CCTTCTAAAGTCCACAACTCAGTGGCACCTTTTTTTTCTTTTTAAAGCCCACAACTCTATGGCAC
1 CCTTCT-AAGTCCACAACTCTGTGGCACC-TTTTCTTCATTTTAAAGCCCACAACTCCATGGCAC
687280 TCTTTT
64 TCTTTT
* * * *
687286 CCTTCTATGTCCACAACTCTGTGGCACC-TTTCTTCATTTT-AAGCCTACAACTCCGTGGCATTC
1 CCTTCTAAGTCCACAACTCTGTGGCACCTTTTCTTCATTTTAAAGCCCACAACTCCATGGCACTC
687349 TTTTT
66 -TTTT
* *
687354 CCTTTTAAGTCCACAACTCTGTGGTACCCTTTT
1 CCTTCTAAGTCCACAACTCTGTGGCA-CCTTTT
687387 AAGCCCACAA
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
67 19 0.22
68 37 0.43
69 2 0.02
70 23 0.26
71 6 0.07
ACGTcount: A:0.20, C:0.30, G:0.11, T:0.39
Consensus pattern (69 bp):
CCTTCTAAGTCCACAACTCTGTGGCACCTTTTCTTCATTTTAAAGCCCACAACTCCATGGCACTC
TTTT
Found at i:687394 original size:27 final size:28
Alignment explanation
Indices: 687354--687425 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
687344 CATTCTTTTT
* *
687354 CCTTTTAAGTCCACAACTCT-GTGGTA-C
1 CCTTTTAAGCCCACAACT-TGGTGGCACC
*
687381 CCTTTTAAGCCCACAAGTTGGTGGCACC
1 CCTTTTAAGCCCACAACTTGGTGGCACC
687409 CCTTTTAAAGCCCACAA
1 CCTTTT-AAGCCCACAA
687426 GTTAGTGCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 21 0.54
28 7 0.18
29 10 0.26
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (28 bp):
CCTTTTAAGCCCACAACTTGGTGGCACC
Found at i:687424 original size:29 final size:28
Alignment explanation
Indices: 687374--687481 Score: 94
Period size: 28 Copynumber: 3.8 Consensus size: 28
687364 CCACAACTCT
* *
687374 GTGGTACCCTTT-TAAGCCCACAAGTTG
1 GTGGCACCCTTTAAAAGCCCACAAGTTG
* *
687401 GTGGCACCCCTTTTAAAGCCCACAAGTTA
1 GTGGCA-CCCTTTAAAAGCCCACAAGTTG
* * **
687430 GTGCCAACCTTTAAAAGCAAACAAGTTG
1 GTGGCACCCTTTAAAAGCCCACAAGTTG
*
687458 AT-GCAACCCTTTCAAAAGCCCACA
1 GTGGC-ACCCTTT-AAAAGCCCACA
687482 CAAGTTGATG
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
27 6 0.10
28 30 0.48
29 27 0.43
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (28 bp):
GTGGCACCCTTTAAAAGCCCACAAGTTG
Found at i:687440 original size:28 final size:26
Alignment explanation
Indices: 687387--687481 Score: 82
Period size: 29 Copynumber: 3.3 Consensus size: 26
687377 GTACCCTTTT
* *
687387 AAGCCCACAAGTTGGTGGCACCCCTTTTA
1 AAGCCCACAAGTT-GT-GCA-ACCTTTAA
687416 AAGCCCACAAGTTAGTGCCAACCTTTAA
1 AAGCCCACAAGTT-GTG-CAACCTTTAA
**
687444 AAGCAAACAAGTTGATGCAACCCTTTCAA
1 AAGCCCACAAGTTG-TGCAA-CCTTT-AA
687473 AAGCCCACA
1 AAGCCCACA
687482 CAAGTTGATG
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
27 4 0.07
28 25 0.45
29 26 0.47
ACGTcount: A:0.35, C:0.29, G:0.16, T:0.20
Consensus pattern (26 bp):
AAGCCCACAAGTTGTGCAACCTTTAA
Found at i:687713 original size:98 final size:100
Alignment explanation
Indices: 687590--687779 Score: 271
Period size: 98 Copynumber: 1.9 Consensus size: 100
687580 AACATATTGA
687590 CACCTTGAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTCAT-C-T-TTAAGTCC
1 CACCTTGAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTCATCCGTCTTAAGTCC
*
687652 AATGTAGCTGGCCTTGAATCAGCACATTGGCATCTT
65 AATATAGCTGGCCTTGAATCAGCACATTGGCATCTT
* * * ** *
687688 CACCTTTAAGTCCAATAG-CGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCGTCTTGAGTCC
1 CACCTTGAAGACCAAT-GTCGCTGGCCTTGAATCAGCACATTGGCACCTCATCCGTCTTAAGTCC
687752 AATATAGCTGGCCTTGAATCAGCACATT
65 AATATAGCTGGCCTTGAATCAGCACATT
687780 AGCACAAGTC
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
97 4 0.05
98 41 0.51
99 2 0.02
100 34 0.42
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (100 bp):
CACCTTGAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCATCCGTCTTAAGTCCA
ATATAGCTGGCCTTGAATCAGCACATTGGCATCTT
Found at i:687772 original size:51 final size:50
Alignment explanation
Indices: 687609--687784 Score: 223
Period size: 49 Copynumber: 3.5 Consensus size: 50
687599 GACCAATGTC
* *
687609 GCTGGCCTTGAATCAGCACATTGGCACC--CTCATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCTCCTC-TTAAGTCCAATATA
* * **
687658 GCTGGCCTTGAATCAGCACATTGGCATCTTCACCT-TTAAGTCCAATAGC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCTCCTCTTAAGTCCAATATA
* * *
687707 GCTGGCCTTGAATCAGCATATTGGCACCTTTTCCGTCTTGAGTCCAATATA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCTCC-TCTTAAGTCCAATATA
*
687758 GCTGGCCTTGAATCAGCACATTAGCAC
1 GCTGGCCTTGAATCAGCACATTGGCAC
687785 AAGTCTAATG
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
49 68 0.63
50 1 0.01
51 39 0.36
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (50 bp):
GCTGGCCTTGAATCAGCACATTGGCACCTTCTCCTCTTAAGTCCAATATA
Found at i:707231 original size:3 final size:3
Alignment explanation
Indices: 707223--707254 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
707213 GGATGATAAA
707223 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
707255 AGAAATGGCT
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:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:715813 original size:18 final size:19
Alignment explanation
Indices: 715773--715820 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
715763 CATCTTCTTT
715773 TCTCCTC-CTCTAGTCATC
1 TCTCCTCTCTCTAGTCATC
* *
715791 CCTCCTCTCTCTA-TTATC
1 TCTCCTCTCTCTAGTCATC
*
715809 TCTCCTATCTCT
1 TCTCCTCTCTCT
715821 CCTCCTTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.10, C:0.44, G:0.02, T:0.44
Consensus pattern (19 bp):
TCTCCTCTCTCTAGTCATC
Found at i:717742 original size:13 final size:13
Alignment explanation
Indices: 717724--717758 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
717714 GATCTTAGTT
*
717724 TCGATACATTGTA
1 TCGATACAATGTA
717737 TCGATACAATGTA
1 TCGATACAATGTA
717750 TCGATACAA
1 TCGATACAA
717759 GGGTTACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (13 bp):
TCGATACAATGTA
Found at i:719617 original size:33 final size:33
Alignment explanation
Indices: 719575--719639 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
719565 GATATCTTAT
*
719575 TAAGGGGGAGTTTTATATCTTGAAAATTTTACA
1 TAAGGGGGAGTTTTATATATTGAAAATTTTACA
719608 TAAGGGGGAGTTTTATATATTGAAAATTTTAC
1 TAAGGGGGAGTTTTATATATTGAAAATTTTAC
719640 CTCTTAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.40
Consensus pattern (33 bp):
TAAGGGGGAGTTTTATATATTGAAAATTTTACA
Found at i:720824 original size:23 final size:23
Alignment explanation
Indices: 720794--720837 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
720784 GCATTCAACC
720794 TTGGGTTACAATCTCTT-AAGAAT
1 TTGGGTTACAAT-TCTTGAAGAAT
*
720817 TTGGGTTATAATTCTTGAAGA
1 TTGGGTTACAATTCTTGAAGA
720838 GATTGAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (23 bp):
TTGGGTTACAATTCTTGAAGAAT
Found at i:722130 original size:24 final size:25
Alignment explanation
Indices: 722101--722158 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 25
722091 TCGGTTTATT
*
722101 TAATATAAAATAATTAAATA-A-AA
1 TAATATAAAATAATAAAATATATAA
722124 TATATATAAAATAATAAAATATATAA
1 TA-ATATAAAATAATAAAATATATAA
722150 TAATATAAA
1 TAATATAAA
722159 TAAACAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 2 0.06
24 17 0.55
25 8 0.26
26 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (25 bp):
TAATATAAAATAATAAAATATATAA
Found at i:722139 original size:19 final size:21
Alignment explanation
Indices: 722102--722162 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
722092 CGGTTTATTT
* *
722102 AATATAAAAT-AATTAAATAA
1 AATATATAATAAAATAAATAA
722122 AATATAT-ATAAAAT-AATAA
1 AATATATAATAAAATAAATAA
*
722141 AATATATAATAATATAAATAA
1 AATATATAATAAAATAAATAA
722162 A
1 A
722163 CAAATTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 14 0.40
20 15 0.43
21 6 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AATATATAATAAAATAAATAA
Found at i:722151 original size:15 final size:16
Alignment explanation
Indices: 722101--722160 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
722091 TCGGTTTATT
*
722101 TAATATAAAATAATTAAA
1 TAATAT-AAAT-ATAAAA
* *
722119 TAAAATATATATAAAA
1 TAATATAAATATAAAA
*
722135 TAATA-AAATATATAA
1 TAATATAAATATAAAA
722150 TAATATAAATA
1 TAATATAAATA
722161 AACAAATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
15 13 0.37
16 14 0.40
17 3 0.09
18 5 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATATAAATATAAAA
Done.