Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 118 of 230
Found at i:34327410 original size:59 final size:58
Alignment explanation
Indices: 34327223--34327410 Score: 140
Period size: 59 Copynumber: 3.2 Consensus size: 58
34327213 ATTTTATTAA
* *
34327223 ATCATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTTTA-AGT
* * * * *
34327282 ATCGTATATTATGATTTTAGTAAAT-TCATATAAGAA-TATTGATTATTAGAATTT-TA--TTAA
1 ATCATATATT-TTA-ATTA--AAATAT-ATTTAATAATTATT-ATT-TT--AATTTATATTTTAA
34327342 --
57 GT
*
34327342 ATTATATATTTTAATTAAAATATATTTAATAATTATTATTTTAATTTATATTTTACAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATTATTATTTTAATTTATATTTTA-AGT
34327401 ATCATATATT
1 ATCATATATT
34327411 ATGATTTGAG
Statistics
Matches: 97, Mismatches: 14, Indels: 36
0.66 0.10 0.24
Matches are distributed among these distances:
53 5 0.05
54 2 0.02
55 2 0.02
56 17 0.18
57 6 0.06
58 3 0.03
59 20 0.21
60 10 0.10
61 3 0.03
62 5 0.05
63 16 0.16
64 2 0.02
65 2 0.02
66 4 0.04
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (58 bp):
ATCATATATTTTAATTAAAATATATTTAATAATTATTATTTTAATTTATATTTTAAGT
Found at i:34327468 original size:59 final size:58
Alignment explanation
Indices: 34327286--34327468 Score: 146
Period size: 56 Copynumber: 3.1 Consensus size: 58
34327276 TATAGTATCG
*
34327286 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
* * * * * *
34327344 TATA-TAT--TTTAATTAAAATAT-ATTTAATAATTATTATT-TTAATTTATATTTTA-CAGTAT
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAA-TATTATTATTAA--GA-ATTTTATTA-AAT
*
34327403 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
34327464 TATAT
1 TATAT
34327469 ATTTTAATTA
Statistics
Matches: 94, Mismatches: 14, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
55 7 0.07
56 15 0.16
57 8 0.09
58 6 0.06
59 13 0.14
61 12 0.13
62 10 0.11
63 14 0.15
64 9 0.10
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (58 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAAT
Found at i:34327480 original size:18 final size:17
Alignment explanation
Indices: 34327452--34327486 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34327442 ATTATTAAGA
*
34327452 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34327469 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34327487 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34327594 original size:147 final size:149
Alignment explanation
Indices: 34327440--34327714 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
34327430 ATAAGAATAT
*
34327440 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
34327505 AAATATGAGTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
34327568 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
34327587 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
* *
34327652 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
34327715 CAATAATCAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 90 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:34327627 original size:18 final size:17
Alignment explanation
Indices: 34327599--34327633 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34327589 ATTATTAAGA
*
34327599 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34327616 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34327634 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34327844 original size:44 final size:45
Alignment explanation
Indices: 34327795--34327889 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
34327785 TTACACCTCT
* * *
34327795 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
34327839 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
34327884 ATTACA
1 ATTACA
34327890 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:34327889 original size:16 final size:16
Alignment explanation
Indices: 34327870--34327921 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
34327860 GATTTGCTAT
* * *
34327870 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
34327886 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34327902 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34327918 TACA
1 TACA
34327922 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:34336603 original size:16 final size:15
Alignment explanation
Indices: 34336579--34336609 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
34336569 TAATATGAAT
34336579 GATATGTGATATATG
1 GATATGTGATATATG
34336594 GATATGGTGATATATG
1 GATAT-GTGATATATG
34336610 CATACCTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (15 bp):
GATATGTGATATATG
Found at i:34339182 original size:46 final size:46
Alignment explanation
Indices: 34339069--34339193 Score: 171
Period size: 46 Copynumber: 2.7 Consensus size: 46
34339059 TCGGAGAGTG
* * *
34339069 CCATGGTGTCTTTCAACCATGGTCTTATTTA-TTCCCGTCTTGATG
1 CCATAGTGTCTTTCAACCATGGTCTTATTTATTTCCCGTCGTGATC
* ** *
34339114 CCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCGTCGTGTTC
1 CCATAGTGTCTTTCAACCATGGTCTTATTTATTTCCCGTCGTGATC
*
34339160 CCATAGTGTCTTTCAACTATGGTCTTATTTATTT
1 CCATAGTGTCTTTCAACCATGGTCTTATTTATTT
34339194 GATTTGTGAT
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
45 29 0.41
46 41 0.59
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (46 bp):
CCATAGTGTCTTTCAACCATGGTCTTATTTATTTCCCGTCGTGATC
Found at i:34340312 original size:49 final size:49
Alignment explanation
Indices: 34340259--34340357 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
34340249 AACTTATGCG
34340259 ACTTTTAAGATTTAGTCATTTTTCTTTAAGTAACTATCTAAACATTAAA
1 ACTTTTAAGATTTAGTCATTTTTCTTTAAGTAACTATCTAAACATTAAA
*
34340308 ACTTTTAAGATTTAGTCATTTTTCTTTAATTAACTATCTAAACATTAAA
1 ACTTTTAAGATTTAGTCATTTTTCTTTAAGTAACTATCTAAACATTAAA
34340357 A
1 A
34340358 TTTATTAACC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.45
Consensus pattern (49 bp):
ACTTTTAAGATTTAGTCATTTTTCTTTAAGTAACTATCTAAACATTAAA
Found at i:34343084 original size:37 final size:37
Alignment explanation
Indices: 34343023--34343101 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
34343013 TTATTACGAA
* * *
34343023 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
34343060 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
34343097 GTCTT
1 GTCTT
34343102 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:34343446 original size:51 final size:47
Alignment explanation
Indices: 34343220--34343609 Score: 582
Period size: 47 Copynumber: 8.1 Consensus size: 47
34343210 CCCTTCGGGA
* * * * * *
34343220 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34343267 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34343314 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34343361 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34343408 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34343459 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34343508 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34343559 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34343606 CTTA
1 CTTA
34343610 CTATCATTTC
Statistics
Matches: 320, Mismatches: 17, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
47 177 0.55
49 49 0.15
51 94 0.29
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34343503 original size:100 final size:98
Alignment explanation
Indices: 34343231--34343609 Score: 631
Period size: 100 Copynumber: 3.9 Consensus size: 98
34343221 TTATCACATT
* * * * * *
34343231 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCA
34343296 TCACATCGGCCATTAGGCCTTATCAC----ATA
66 TCACATCGGCCATTAGGCCTTATCACATATATA
*
34343325 TATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCA
34343390 TCACATCGGCCATTAGGCCTTATCACATATATA
66 TCACATCGGCCATTAGGCCTTATCACATATATA
*
34343423 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATACACTTTCACATT
34343488 CATCACATCGGCCATTAGGCCTTATCACATATATA
64 CATCACATCGGCCATTAGGCCTTATCACATATATA
*
34343523 TATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCA
34343588 TCACATCGGCCATTAGGCCTTA
66 TCACATCGGCCATTAGGCCTTA
34343610 CTATCATTTC
Statistics
Matches: 268, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
94 84 0.31
98 88 0.33
100 96 0.36
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (98 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:34346934 original size:40 final size:40
Alignment explanation
Indices: 34346879--34347149 Score: 189
Period size: 40 Copynumber: 6.8 Consensus size: 40
34346869 AATACACGTA
* * * * * *
34346879 ACCAGCATGATTGCTCTTCGGGACCTAGCCCAGATATAAC
1 ACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATC
* *
34346919 ACCAGCACGAATGCTCTTCGGAACTTAGCCCGGAAACATC
1 ACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATC
* * * * *
34346959 ACTAGCATGAATGCTCTTTGGGACTTAGCCCGGTTATATC
1 ACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATC
* * *
34346999 ACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATTTAGTA
1 ACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA-TC
* * *
34347040 ACTC-GCACCAATGC-CTTCGG-GCTTAGCCCGGA-ATTAGTA
1 AC-CAGCACGAATGCTCTTCGGAACTTAGCCCGGATA-TA-TC
* * * *
34347079 ACTC-GCACAAATGC-CTTCGGATCTTAGTCCGGATATGGTC
1 AC-CAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT-ATC
* * *
34347119 ACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCG
1 AC-CAGCACGAATGCTCTTCGGAACTTAGCCCG
34347150 AACATCATTC
Statistics
Matches: 189, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
39 35 0.19
40 137 0.72
41 17 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATC
Found at i:34347092 original size:80 final size:78
Alignment explanation
Indices: 34346894--34347149 Score: 250
Period size: 80 Copynumber: 3.2 Consensus size: 78
34346884 CATGATTGCT
* * * * * *
34346894 CTTCGGGACCTAGCCCAGATATAACACCAGCACGAATGCTCTTCGGAACTTAGCCCGGAAACA-T
1 CTTCGGGACTTAGCCCGGTTAT-ACACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAGT
*
34346958 CACTAGCATGAATGC
65 CACTAGCA-CAATGC
* *
34346973 TCTTTGGGACTTAGCCCGGTTATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATTTAG
1 -CTTCGGGACTTAGCCCGGTTATA-CACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAG
* *
34347038 TAACTCGCACCAATGC
64 TCACTAGCA-CAATGC
* * * * *
34347054 CTTCGGG-CTTAGCCCGGAATTAGTA-ACTCGCACAAATGC-CTTCGGATCTTAGTCCGGATATG
1 CTTCGGGACTTAGCCCGG--TTA-TACACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
*
34347116 GTCACTTAGCACAAAGC
63 GTCAC-TAGCACAATGC
34347133 CTTCGGGACTTAGCCCG
1 CTTCGGGACTTAGCCCG
34347150 AACATCATTC
Statistics
Matches: 147, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
79 46 0.31
80 84 0.57
81 15 0.10
82 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (78 bp):
CTTCGGGACTTAGCCCGGTTATACACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAGTC
ACTAGCACAATGC
Found at i:34347497 original size:29 final size:29
Alignment explanation
Indices: 34347463--34347534 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
34347453 ATCAACCACG
* *
34347463 CACACTTAGTGCCATGTACTTT-AAACTCA
1 CACACTTAGTGCCATGCA-TTTCAAACCCA
* *
34347492 CACACTTAGTGCCATGCATTTCAAGCCCG
1 CACACTTAGTGCCATGCATTTCAAACCCA
34347521 CACACTTAGTGCCA
1 CACACTTAGTGCCA
34347535 ATCTCACAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 3 0.08
29 35 0.92
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATGCATTTCAAACCCA
Found at i:34347577 original size:43 final size:43
Alignment explanation
Indices: 34347516--34347618 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
34347506 TGCATTTCAA
34347516 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
34347559 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
34347602 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
34347619 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:34349543 original size:37 final size:37
Alignment explanation
Indices: 34349485--34349557 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
34349475 TTACGAAGTC
* * *
34349485 TTACCCAGACATAATCTCCACACGAAGTTATCGGGTG
1 TTACCCAGACAAAATCCCCACACGAAGTCATCGGGTG
* *
34349522 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGT
1 TTACCCAGACAAAATCCCCACACGAAGTCATCGGGT
34349558 CTTTAGAGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (37 bp):
TTACCCAGACAAAATCCCCACACGAAGTCATCGGGTG
Found at i:34349948 original size:49 final size:49
Alignment explanation
Indices: 34349678--34350111 Score: 628
Period size: 47 Copynumber: 9.1 Consensus size: 49
34349668 CCCTTCGGGA
* * * * *
34349678 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
34349725 CCTGTCAC--ATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34349772 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34349819 CCTATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34349866 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34349917 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34349966 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34350015 C-TATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34350065 C-T-T-AC---TATATACACTTTCACAATCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34350108 CTTA
1 CTTA
34350112 CTATCATTTC
Statistics
Matches: 361, Mismatches: 16, Indels: 22
0.90 0.04 0.06
Matches are distributed among these distances:
43 38 0.11
44 1 0.00
46 1 0.00
47 132 0.37
48 8 0.02
49 92 0.25
50 43 0.12
51 46 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34350075 original size:43 final size:43
Alignment explanation
Indices: 34350027--34350115 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
34350017 ATCACATATA
*
34350027 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAC
1 TATATACACTTTCACAATCATCACATCGGCCATTAGGCCTTAC
34350070 TATATACACTTTCACAATCATCACATCGGCCATTAGGCCTTAC
1 TATATACACTTTCACAATCATCACATCGGCCATTAGGCCTTAC
34350113 TAT
1 TAT
34350116 CATTTCATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (43 bp):
TATATACACTTTCACAATCATCACATCGGCCATTAGGCCTTAC
Found at i:34361276 original size:27 final size:27
Alignment explanation
Indices: 34361246--34361453 Score: 160
Period size: 27 Copynumber: 7.7 Consensus size: 27
34361236 TTACCCTATG
*
34361246 GGGGTATTTCAATAATTTTACCCATTA
1 GGGGTATTTCGATAATTTTACCCATTA
* *
34361273 GGGGTATTT-TAGTAATTTTACAC-TTCA
1 GGGGTATTTCGA-TAATTTTACCCATT-A
* * * *
34361300 AGGGTATTTTGATAATTTTAGCCA-TC
1 GGGGTATTTCGATAATTTTACCCATTA
* *
34361326 GAGGGTATTTCGATAATTTTATCC-TTCG
1 G-GGGTATTTCGATAATTTTACCCATT-A
* *
34361354 GGGGAATTTCGATAATTTTACCCA-TC
1 GGGGTATTTCGATAATTTTACCCATTA
* *
34361380 GGAGGTATTTCGGTAATTTTACCCA-TC
1 GG-GGTATTTCGATAATTTTACCCATTA
*
34361407 GAGGGTATTTCGGTAATTTTACCC-TTCA
1 G-GGGTATTTCGATAATTTTACCCATT-A
* *
34361435 AGGGTATTTCAATAATTTT
1 GGGGTATTTCGATAATTTT
34361454 TACGACCTTT
Statistics
Matches: 149, Mismatches: 20, Indels: 24
0.77 0.10 0.12
Matches are distributed among these distances:
26 5 0.03
27 141 0.95
28 3 0.02
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGGTATTTCGATAATTTTACCCATTA
Found at i:34361317 original size:54 final size:52
Alignment explanation
Indices: 34361247--34361453 Score: 200
Period size: 54 Copynumber: 3.8 Consensus size: 52
34361237 TACCCTATGG
* * *
34361247 GGGTATTTCAATAATTTTACCCATTAGGGGTATTTTAGTAATTTTACACTTCAA
1 GGGTATTTCGATAATTTTACCCA-TAGGGGTATTTCAGTAATTTTAC-CTTCGA
* * * *
34361301 GGGTATTTTGATAATTTTAGCCATCGAGGGTATTTC-GATAATTTTATCCTTCGG
1 GGGTATTTCGATAATTTTACCCATAG-GGGTATTTCAG-TAATTTTA-CCTTCGA
* * * *
34361355 GGGAATTTCGATAATTTTACCCATCGGAGGTATTTCGGTAATTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATAGG-GGTATTTCAGTAATTTTA-CCTTCGA
* * * *
34361409 GGGTATTTCGGTAATTTTACCCTTCAAGGGTATTTCAATAATTTT
1 GGGTATTTCGATAATTTTACCCAT-AGGGGTATTTCAGTAATTTT
34361454 TACGACCTTT
Statistics
Matches: 127, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
53 4 0.03
54 120 0.94
55 3 0.02
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (52 bp):
GGGTATTTCGATAATTTTACCCATAGGGGTATTTCAGTAATTTTACCTTCGA
Found at i:34361387 original size:81 final size:81
Alignment explanation
Indices: 34361247--34361453 Score: 229
Period size: 81 Copynumber: 2.6 Consensus size: 81
34361237 TACCCTATGG
* * * * * * * * *
34361247 GGGTATTTCAATAATTTTACCCATT-AGGGGTATTTTAGTAATTTTACACTTC-AAGGGTATTTT
1 GGGTATTTCGATAATTTTACCC-TTCAAGGGAATTTCAATAATTTTACCCATCGGA-GGTATTTC
*
34361310 GATAATTTTAGCCATCGA
64 GATAATTTTACCCATCGA
* ** * *
34361328 GGGTATTTCGATAATTTTATCCTTCGGGGGAATTTCGATAATTTTACCCATCGGAGGTATTTCGG
1 GGGTATTTCGATAATTTTACCCTTCAAGGGAATTTCAATAATTTTACCCATCGGAGGTATTTCGA
34361393 TAATTTTACCCATCGA
66 TAATTTTACCCATCGA
* *
34361409 GGGTATTTCGGTAATTTTACCCTTCAAGGGTATTTCAATAATTTT
1 GGGTATTTCGATAATTTTACCCTTCAAGGGAATTTCAATAATTTT
34361454 TACGACCTTT
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 2 0.02
81 102 0.97
82 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (81 bp):
GGGTATTTCGATAATTTTACCCTTCAAGGGAATTTCAATAATTTTACCCATCGGAGGTATTTCGA
TAATTTTACCCATCGA
Found at i:34361682 original size:17 final size:18
Alignment explanation
Indices: 34361660--34361694 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
34361650 TATCTGTGTG
*
34361660 GGGCCCACGA-GCCCATT
1 GGGCCCACAAGGCCCATT
34361677 GGGCCCACAAGGCCCATT
1 GGGCCCACAAGGCCCATT
34361695 TCGGCCCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.20, C:0.40, G:0.29, T:0.11
Consensus pattern (18 bp):
GGGCCCACAAGGCCCATT
Found at i:34362890 original size:25 final size:25
Alignment explanation
Indices: 34362841--34362894 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
34362831 TGAACCTCTA
*
34362841 ACCTCCTTACCACACCTGTGACGCC
1 ACCTCCTTACCACACCTATGACGCC
* **
34362866 ACCTCCTTGCCACACCTATTTCGCC
1 ACCTCCTTACCACACCTATGACGCC
34362891 ACCT
1 ACCT
34362895 TGCCACTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.48, G:0.09, T:0.24
Consensus pattern (25 bp):
ACCTCCTTACCACACCTATGACGCC
Found at i:34384701 original size:39 final size:40
Alignment explanation
Indices: 34384587--34384712 Score: 155
Period size: 40 Copynumber: 3.2 Consensus size: 40
34384577 CAAAAGGTCG
* * * *
34384587 AGCATTAGTGGCACTTTTTGAAAAATGCCGCTATAGATCG
1 AGCATTAGTGGCGCGTTTTGAAAAACGCCGCTATAGATCA
* * *
34384627 AGCATTAGCGGTGCGTTTTGAAAAACGTCGCTATAGATCA
1 AGCATTAGTGGCGCGTTTTGAAAAACGCCGCTATAGATCA
* * *
34384667 AGCATTAGTGGCGC-TTTTCAAAAACACCGTTATAGATCA
1 AGCATTAGTGGCGCGTTTTGAAAAACGCCGCTATAGATCA
34384706 AGCATTA
1 AGCATTA
34384713 CCAGTGCTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 28 0.38
40 45 0.62
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (40 bp):
AGCATTAGTGGCGCGTTTTGAAAAACGCCGCTATAGATCA
Found at i:34384722 original size:39 final size:39
Alignment explanation
Indices: 34384614--34384736 Score: 138
Period size: 39 Copynumber: 3.1 Consensus size: 39
34384604 TTGAAAAATG
* * *
34384614 CCGCTATAGATCGAGCATTAGCGGTGCGTTTTGAAAAACG
1 CCGCTATAGATCAAGCATTAGCGGTGC-TTTTCAAAAACA
* * *
34384654 TCGCTATAGATCAAGCATTAGTGGCGCTTTTCAAAAACA
1 CCGCTATAGATCAAGCATTAGCGGTGCTTTTCAAAAACA
* * * *
34384693 CCGTTATAGATCAAGCATTACCAGTGCTTTTCGTAAAACA
1 CCGCTATAGATCAAGCATTAGCGGTGCTTTTC-AAAAACA
34384733 CCGC
1 CCGC
34384737 AAAAAAAGTT
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 36 0.53
40 32 0.47
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (39 bp):
CCGCTATAGATCAAGCATTAGCGGTGCTTTTCAAAAACA
Found at i:34384877 original size:155 final size:149
Alignment explanation
Indices: 34384642--34385234 Score: 487
Period size: 155 Copynumber: 3.9 Consensus size: 149
34384632 TAGCGGTGCG
* * * * * * * *
34384642 TTTTGAAAAACGTCGCTATAGATCAAGCATTAGTGGCGCTT-TTCAAAAACACCGTTATAGATCA
1 TTTTAAAAAACGCCGCAATAGATCAAGAATTAGTGGCGCTTGTTGAAAAACGCCGCTATAGATCG
* * * * *
34384706 AGCATTA-CCAGTGCTTTTCGTAAAACACCGCAAAAAAAGTTAAGCAAAACACGTCATTTGTTGT
66 AGCATTAGCTA-CGCTTTTTG-AAAACGCCGC-AAAAAAGTTGAGCAAAACACGTCATTTGTTGT
34384770 TGAGCTTTAGTGGCGTTAGTGGCGCT
128 TGAGCTTTAGTGGC--TAG-GGC-CT
* ** *
34384796 TTTTAAAAAACGCCGCAATAGATCAAGCATTAGTGATGCTAT-TTGAAAAACGCCTCTATAGATC
1 TTTTAAAAAACGCCGCAATAGATCAAGAATTAGTGGCGCT-TGTTGAAAAACGCCGCTATAGATC
* * * *
34384860 GAGCATTAGCTACGCTTTTTGGAAAATGCCGCAAAAAATTTGAGCAAAATAGCGTCGTTTGTTGT
65 GAGCATTAGCTACGCTTTTT-GAAAACGCCGCAAAAAAGTTGAGCAAAACA-CGTCATTTGTTGT
34384925 TGAGCTTTAGTGGC-A----C-
128 TGAGCTTTAGTGGCTAGGGCCT
* * *
34384941 TTTTAAAAAATGCCGCAATAGATCAAGAATTAGTGGCGCTTGTCGAAAAACGCCGATATAGATCG
1 TTTTAAAAAACGCCGCAATAGATCAAGAATTAGTGGCGCTTGTTGAAAAACGCCGCTATAGATCG
* * * *
34385006 AGCATTAGCGGTA--TTTTTTGGAAACGCC-CTAAAAAGTTGAGCAAAATGACGTCATTT-TT-T
66 AGCATTAGC--TACGCTTTTTGAAAACGCCGCAAAAAAGTTGAGCAAAA-CACGTCATTTGTTGT
*
34385066 TTAGCTTTAGTGGCATAAGCGGCACTT
128 TGAGCTTTAGTGGC-T-AG-GGC-C-T
* * * * * *
34385093 TTTTAAGAAATGCCGCAATAGATCGAGAATTAGTGGTGCTTGTTGAAAAATGTCGCTATAGATCG
1 TTTTAAAAAACGCCGCAATAGATCAAGAATTAGTGGCGCTTGTTGAAAAACGCCGCTATAGATCG
* ** * * * ** * **
34385158 AGCATTAGCGACGCTTTTAACAAAACTCCGTAAAAAGGTTGAG-AAATTGATGTTGTTTGTTGTT
66 AGCATTAGCTACGCTTTT-TGAAAACGCCGCAAAAAAGTTGAGCAAA-ACACGTCATTTGTTGTT
34385222 GAGCTTTAGTGGC
129 GAGCTTTAGTGGC
34385235 ATTTTCAAAA
Statistics
Matches: 358, Mismatches: 55, Indels: 51
0.77 0.12 0.11
Matches are distributed among these distances:
141 14 0.04
142 2 0.01
143 23 0.06
144 10 0.03
145 70 0.20
146 1 0.00
147 2 0.01
150 2 0.01
152 72 0.20
153 16 0.04
154 63 0.18
155 80 0.22
156 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (149 bp):
TTTTAAAAAACGCCGCAATAGATCAAGAATTAGTGGCGCTTGTTGAAAAACGCCGCTATAGATCG
AGCATTAGCTACGCTTTTTGAAAACGCCGCAAAAAAGTTGAGCAAAACACGTCATTTGTTGTTGA
GCTTTAGTGGCTAGGGCCT
Found at i:34385435 original size:21 final size:21
Alignment explanation
Indices: 34385411--34385450 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
34385401 TTAAAGTTTG
* *
34385411 TAGTTTGGGGTTTATTATTTA
1 TAGTTAGGGGTTTAGTATTTA
*
34385432 TAGTTAGGGTTTTAGTATT
1 TAGTTAGGGGTTTAGTATT
34385451 GTTCATGGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (21 bp):
TAGTTAGGGGTTTAGTATTTA
Found at i:34385657 original size:28 final size:28
Alignment explanation
Indices: 34385604--34385713 Score: 77
Period size: 28 Copynumber: 4.0 Consensus size: 28
34385594 TTAGGGTGTA
*
34385604 GGTTTATGATTTGGGGTTTAAGGTTTAG
1 GGTTTATGATTTAGGGTTTAAGGTTTAG
* *
34385632 GGTTTATGATTTAGTG-TTAAGAGTTTAA
1 GGTTTATGATTTAGGGTTTAAG-GTTTAG
* * * *
34385660 TGTTTA-CAGTTTAGGGTGT-AGGTTTATT
1 GGTTTATGA-TTTAGGGTTTAAGGTTTA-G
*
34385688 GG-TTAGTG-TTTAGGGTTTATGGTTTA
1 GGTTTA-TGATTTAGGGTTTAAGGTTTA
34385714 TGATTTAGGG
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
27 23 0.37
28 39 0.62
29 1 0.02
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (28 bp):
GGTTTATGATTTAGGGTTTAAGGTTTAG
Found at i:34385693 original size:20 final size:20
Alignment explanation
Indices: 34385670--34385711 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
34385660 TGTTTACAGT
34385670 TTAGGGTGTA-GGTTTATTGG
1 TTAGGGTGTAGGGTTTA-TGG
* *
34385690 TTAGTGTTTAGGGTTTATGG
1 TTAGGGTGTAGGGTTTATGG
34385710 TT
1 TT
34385712 TATGATTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (20 bp):
TTAGGGTGTAGGGTTTATGG
Found at i:34385712 original size:14 final size:14
Alignment explanation
Indices: 34385604--34385713 Score: 57
Period size: 14 Copynumber: 7.9 Consensus size: 14
34385594 TTAGGGTGTA
* *
34385604 GGTTTATGATTTGG
1 GGTTTATGGTTTAG
*
34385618 GGTTTAAGGTTTAG
1 GGTTTATGGTTTAG
*
34385632 GGTTTATGATTTAG
1 GGTTTATGGTTTAG
* * *
34385646 TG-TTAAGAGTTTAA
1 GGTTTATG-GTTTAG
* **
34385660 TGTTTACAGTTTAG
1 GGTTTATGGTTTAG
* *
34385674 GGTGTA-GGTTTATT
1 GGTTTATGGTTTA-G
34385688 GG-TTA-GTGTTTAG
1 GGTTTATG-GTTTAG
34385701 GGTTTATGGTTTA
1 GGTTTATGGTTTA
34385714 TGATTTAGGG
Statistics
Matches: 72, Mismatches: 18, Indels: 12
0.71 0.18 0.12
Matches are distributed among these distances:
13 14 0.19
14 54 0.75
15 4 0.06
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (14 bp):
GGTTTATGGTTTAG
Found at i:34386195 original size:18 final size:18
Alignment explanation
Indices: 34386172--34386227 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
34386162 TCCCAACCCA
34386172 TCTGTTGCATCGCCCTCC
1 TCTGTTGCATCGCCCTCC
*
34386190 TCTGTTGCATCGCCTTCC
1 TCTGTTGCATCGCCCTCC
* *
34386208 TCTGCTGCATCGCGCTCC
1 TCTGTTGCATCGCCCTCC
34386226 TC
1 TC
34386228 GACCCGACCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.05, C:0.43, G:0.18, T:0.34
Consensus pattern (18 bp):
TCTGTTGCATCGCCCTCC
Found at i:34387958 original size:9 final size:9
Alignment explanation
Indices: 34387946--34388186 Score: 127
Period size: 9 Copynumber: 26.1 Consensus size: 9
34387936 AAATATATAT
34387946 CATAACTTA
1 CATAACTTA
34387955 CATAACTTA
1 CATAACTTA
*
34387964 CATAATTTA
1 CATAACTTA
34387973 CATAACTTA
1 CATAACTTA
*
34387982 CATAAATATA
1 CATAACT-TA
*
34387992 TATAA--TA
1 CATAACTTA
*
34387999 GCAAAACTTA
1 -CATAACTTA
34388009 CATAACTTA
1 CATAACTTA
*
34388018 CATAATTTA
1 CATAACTTA
34388027 CATAACTTTA
1 CATAAC-TTA
* *
34388037 AAGAA-TTAA
1 CATAACTT-A
* *
34388046 AAAAATCTTTGGA
1 CATAA-C-TT--A
*
34388059 TCTTAACTTA
1 -CATAACTTA
34388069 -ATAACTTA
1 CATAACTTA
*
34388077 TAT-A--TA
1 CATAACTTA
* * *
34388083 TATATCATA
1 CATAACTTA
*
34388092 TCATAACTTC
1 -CATAACTTA
*
34388102 CATAACTCA
1 CATAACTTA
*
34388111 CAAAACTTA
1 CATAACTTA
*
34388120 CGTAACTTA
1 CATAACTTA
34388129 CATAACTTA
1 CATAACTTA
* *
34388138 TATATATCATA
1 CATA-A-CTTA
34388149 TCATAACTTA
1 -CATAACTTA
*
34388159 CATAACTCA
1 CATAACTTA
34388168 CATAACTTA
1 CATAACTTA
34388177 CATAACTTA
1 CATAACTTA
34388186 C
1 C
34388187 GTAAGTTAAT
Statistics
Matches: 178, Mismatches: 35, Indels: 38
0.71 0.14 0.15
Matches are distributed among these distances:
6 5 0.03
7 2 0.01
8 13 0.07
9 119 0.67
10 24 0.13
11 4 0.02
12 7 0.04
13 2 0.01
14 2 0.01
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:34388153 original size:57 final size:57
Alignment explanation
Indices: 34388079--34388186 Score: 189
Period size: 57 Copynumber: 1.9 Consensus size: 57
34388069 ATAACTTATA
* *
34388079 TATATATATCATATCATAACTTCCATAACTCACAAAACTTACGTAACTTACATAACT
1 TATATATATCATATCATAACTTACATAACTCACAAAACTTACATAACTTACATAACT
*
34388136 TATATATATCATATCATAACTTACATAACTCACATAACTTACATAACTTAC
1 TATATATATCATATCATAACTTACATAACTCACAAAACTTACATAACTTAC
34388187 GTAAGTTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.34
Consensus pattern (57 bp):
TATATATATCATATCATAACTTACATAACTCACAAAACTTACATAACTTACATAACT
Found at i:34393940 original size:43 final size:43
Alignment explanation
Indices: 34393892--34394024 Score: 123
Period size: 42 Copynumber: 3.1 Consensus size: 43
34393882 TAAACGCCAT
34393892 TAAAGAAT-AGTATTTTTAGCGGCGATTGTGATAAAAGAGCCGC
1 TAAAG-ATCAGTATTTTTAGCGGCGATTGTGATAAAAGAGCCGC
* * * * * *
34393935 TAAAGATCA-TGTTTTTAGCAGAGTTTGTGAAAAAAGTGCCGC
1 TAAAGATCAGTATTTTTAGCGGCGATTGTGATAAAAGAGCCGC
* *
34393977 TAAAGGTCATGCTA--TTTAGCGGC-ATTTGTGATAAAAGCGCCGC
1 TAAAGATCA-G-TATTTTTAGCGGCGA-TTGTGATAAAAGAGCCGC
34394020 TAAAG
1 TAAAG
34394025 GTCATGTTCT
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
42 37 0.51
43 34 0.47
45 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.29
Consensus pattern (43 bp):
TAAAGATCAGTATTTTTAGCGGCGATTGTGATAAAAGAGCCGC
Found at i:34394075 original size:43 final size:43
Alignment explanation
Indices: 34393917--34394077 Score: 191
Period size: 43 Copynumber: 3.8 Consensus size: 43
34393907 TTAGCGGCGA
* *
34393917 TTGTGATAAAAGAGCCGCTAAAGATCATGTT-TTTAGCAGA-GT
1 TTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAG-AGACGT
* * * * * * *
34393959 TTGTGAAAAAAGTGCCGCTAAAGGTCATGCTATTTAGCGGCAT
1 TTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGAGACGT
*
34394002 TTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGACGT
1 TTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGAGACGT
* *
34394045 TTGTGATAATAGCGCCACTAAAGGTCATGTTCT
1 TTGTGATAAAAGCGCCGCTAAAGGTCATGTTCT
34394078 ATAGCGGCGT
Statistics
Matches: 101, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
42 28 0.28
43 73 0.72
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
TTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGAGACGT
Found at i:34394084 original size:86 final size:85
Alignment explanation
Indices: 34393908--34394086 Score: 227
Period size: 86 Copynumber: 2.1 Consensus size: 85
34393898 ATAGTATTTT
*
34393908 TAGCGGCGATTGTGATAAAAGAGCCGCTAAAGATCATGTTTTTAGCAGAGTTTGTGAAAAAAGTG
1 TAGCGGCGATTGTGATAAAAGAGCCGCTAAAGATCATGTTTTTAGCAGAGTTTGTGAAAAAAGCG
* *
34393973 CCGCTAAAGGTCATGCTATT
66 CCACTAAAGGTCATGCTATA
* * * * *
34393993 TAGCGGC-ATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAG-TGACGTTTGTGATAATA
1 TAGCGGCGA-TTGTGATAAAAGAGCCGCTAAAGATCATGTT-TTTAGCAGA-GTTTGTGAAAAAA
* *
34394056 GCGCCACTAAAGGTCATGTTCTA
63 GCGCCACTAAAGGTCATGCTATA
34394079 TAGCGGCG
1 TAGCGGCG
34394087 TTATTTCACA
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
84 1 0.01
85 38 0.47
86 41 0.51
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (85 bp):
TAGCGGCGATTGTGATAAAAGAGCCGCTAAAGATCATGTTTTTAGCAGAGTTTGTGAAAAAAGCG
CCACTAAAGGTCATGCTATA
Found at i:34394138 original size:15 final size:15
Alignment explanation
Indices: 34394118--34394147 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
34394108 AAATTTAACA
34394118 GCGTTATCTATAGCG
1 GCGTTATCTATAGCG
34394133 GCGTTATCTATAGCG
1 GCGTTATCTATAGCG
34394148 TCGCTATAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (15 bp):
GCGTTATCTATAGCG
Found at i:34396900 original size:11 final size:11
Alignment explanation
Indices: 34396886--34396944 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
34396876 CACCACTTCT
34396886 CCACCATAACA
1 CCACCATAACA
* *
34396897 CCACTATACCA
1 CCACCATAACA
* **
34396908 CCACCCTAGTA
1 CCACCATAACA
*
34396919 CCACTATAACA
1 CCACCATAACA
*
34396930 CCACCATAGCA
1 CCACCATAACA
34396941 CCAC
1 CCAC
34396945 TATATCACTA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.37, C:0.46, G:0.03, T:0.14
Consensus pattern (11 bp):
CCACCATAACA
Found at i:34396911 original size:22 final size:22
Alignment explanation
Indices: 34396886--34396948 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
34396876 CACCACTTCT
* *
34396886 CCACCATAACACCACTATACCA
1 CCACCATAGCACCACTATAACA
* *
34396908 CCACCCTAGTACCACTATAACA
1 CCACCATAGCACCACTATAACA
34396930 CCACCATAGCACCACTATA
1 CCACCATAGCACCACTATA
34396949 TCACTACCCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.38, C:0.43, G:0.03, T:0.16
Consensus pattern (22 bp):
CCACCATAGCACCACTATAACA
Found at i:34403244 original size:18 final size:18
Alignment explanation
Indices: 34403221--34403256 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
34403211 AAGAAAGGAA
34403221 CTCAAACCTCTATAATAT
1 CTCAAACCTCTATAATAT
34403239 CTCAAACCTCTATAATAT
1 CTCAAACCTCTATAATAT
34403257 GCTTTCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.00, T:0.33
Consensus pattern (18 bp):
CTCAAACCTCTATAATAT
Found at i:34405474 original size:40 final size:40
Alignment explanation
Indices: 34405374--34405638 Score: 268
Period size: 40 Copynumber: 6.7 Consensus size: 40
34405364 GCTCCTCGTT
* * * *
34405374 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
34405414 C-AATGCCTTCGAGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
34405453 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
34405493 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
34405533 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * * *
34405573 CAAATGCCTTC-GGATCTTAGTCCAGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
34405614 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
34405639 CAGCATTCAA
Statistics
Matches: 193, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
39 38 0.20
40 140 0.73
41 15 0.08
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:34413472 original size:40 final size:40
Alignment explanation
Indices: 34413374--34413583 Score: 228
Period size: 40 Copynumber: 5.3 Consensus size: 40
34413364 TCCTCGTTCA
* * * * *
34413374 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCATAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
* *
34413413 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
*
34413453 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
* * * *
34413493 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
* * * * *
34413533 AAGGCCTTCGAGG-CTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCG-GGACTTAACCCGG-ATTTAATAACTCACACG
34413573 AATGCCTTCGG
1 AATGCCTTCGG
34413584 ATCTTAGTCC
Statistics
Matches: 155, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
39 35 0.23
40 114 0.74
41 6 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
Found at i:34413596 original size:120 final size:119
Alignment explanation
Indices: 34413374--34413636 Score: 273
Period size: 120 Copynumber: 2.2 Consensus size: 119
34413364 TCCTCGTTCA
* * * *
34413374 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCATACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
34413439 TAACAACTCACACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAACAACTCACACAAATGCCTTCGGGACTTAACCCGGATATAATAACATAGCAC
* * * *
34413492 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGAGG-CTTAACCCGG
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCG-GGACATAACCCGG
** * * ** * *
34413556 AATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACATAGCAC
63 -ATTTAACAACTCACACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACATAGCAC
*
34413613 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
34413637 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
119 36 0.31
120 71 0.60
121 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAACAACTCACACAAATGCCTTCGGGACTTAACCCGGATATAATAACATAGCAC
Found at i:34413620 original size:80 final size:81
Alignment explanation
Indices: 34413372--34413636 Score: 215
Period size: 80 Copynumber: 3.3 Consensus size: 81
34413362 GCTCCTCGTT
* * * * * ** *
34413372 CAAATGCCTTCGGGACATAGCCCGG-TTTTAGTAACTCATAC-AATGCCTTCGGGACATAACCCG
1 CAAAGGCCTTCGGGACTTAACCCGGAATTTAATAACTCGCACAAATGCCTTCGGGACTTAACCCG
* ** *
34413435 GATTTAACAACTCA-CA
66 GATATAGTATCT-AGCA
* * *
34413451 CGAATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCG
1 CAAAGGCCTTCGGGACTTAACCCGGAATTTAATAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
34413515 GATTTAGTATCTCGCA
66 GATATAGTATCTAGCA
* * **
34413531 CAAAGGCCTTCGAGG-CTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAAGGCCTTCG-GGACTTAACCCGGAATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACC
*
34413593 CGGATATATTCA-CATAGCA
64 CGGATATAGT-ATC-TAGCA
*
34413612 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGA
34413637 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
79 39 0.25
80 101 0.65
81 15 0.10
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (81 bp):
CAAAGGCCTTCGGGACTTAACCCGGAATTTAATAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATAGTATCTAGCA
Found at i:34413645 original size:41 final size:41
Alignment explanation
Indices: 34413568--34413645 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34413558 TTTGTATCTC
* * *
34413568 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACATA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACATA
34413609 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34413646 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACATA
Found at i:34416586 original size:28 final size:28
Alignment explanation
Indices: 34416551--34416604 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
34416541 CAGTAACAGT
*
34416551 ACAGTGTGGGCCTTAGCCCAATACAGAA
1 ACAGTGTGGGCCTAAGCCCAATACAGAA
*
34416579 ACAGTGTGGGCCTAAGCCCGATACAG
1 ACAGTGTGGGCCTAAGCCCAATACAG
34416605 TATCACTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.28, T:0.17
Consensus pattern (28 bp):
ACAGTGTGGGCCTAAGCCCAATACAGAA
Found at i:34416772 original size:26 final size:26
Alignment explanation
Indices: 34416722--34416772 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
34416712 CCAATATCGC
* *
34416722 AGCATAGCTGCCAGTAGTAATAATGT
1 AGCAGAGCTGCCAGTAGTAAGAATGT
*
34416748 AGCAGAGCTGCCAGTAGTCAGAATG
1 AGCAGAGCTGCCAGTAGTAAGAATG
34416773 GCTAAGAGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (26 bp):
AGCAGAGCTGCCAGTAGTAAGAATGT
Found at i:34416925 original size:32 final size:32
Alignment explanation
Indices: 34416852--34417024 Score: 125
Period size: 32 Copynumber: 5.4 Consensus size: 32
34416842 GGATTGGCAT
* * * * *
34416852 AAAGCCATCAGTAGCAGTGATATGACCGGCAC
1 AAAGCCATCAGTAACGGTAATATGATCGACAC
* * * *
34416884 ACAGTCATCAATAACGGTAACATGATCGACAC
1 AAAGCCATCAGTAACGGTAATATGATCGACAC
*** * *
34416916 AAAGCCATCAGTAGTAGTGATATGATCGGCAC
1 AAAGCCATCAGTAACGGTAATATGATCGACAC
* * * * *
34416948 ACAGCCATTAGTAAAAGGGAA-ATGATTGACAC
1 AAAGCCATCAGT-AACGGTAATATGATCGACAC
* *
34416980 ACAA-CCATCGGTAACGGTAATATGATCGGCAC
1 A-AAGCCATCAGTAACGGTAATATGATCGACAC
34417012 AAAGCCATCAGTA
1 AAAGCCATCAGTA
34417025 GCATCGCAGC
Statistics
Matches: 102, Mismatches: 35, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
31 8 0.08
32 90 0.88
33 4 0.04
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.18
Consensus pattern (32 bp):
AAAGCCATCAGTAACGGTAATATGATCGACAC
Found at i:34416973 original size:64 final size:65
Alignment explanation
Indices: 34416852--34417024 Score: 199
Period size: 64 Copynumber: 2.7 Consensus size: 65
34416842 GGATTGGCAT
* * * * *
34416852 AAAGCCATCAGTAGCAGTGATATGACCGGCACACAGTCATCAAT-AACGGTAACATGATCGACAC
1 AAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAAAAGGGAACATGATCGACAC
* * *
34416916 AAAGCCATCAGTAGTAGTGATATGATCGGCACACAGCCATTAGTAAAAGGGAA-ATGATTGACAC
1 AAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAAAAGGGAACATGATCGACAC
* * * * *
34416980 ACAA-CCATCGGTAACGGTAATATGATCGGCACAAAGCCATCAGTA
1 A-AAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTA
34417025 GCATCGCAGC
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
64 84 0.91
65 8 0.09
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.18
Consensus pattern (65 bp):
AAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAAAAGGGAACATGATCGACAC
Found at i:34417226 original size:24 final size:23
Alignment explanation
Indices: 34417195--34417268 Score: 85
Period size: 24 Copynumber: 3.1 Consensus size: 23
34417185 GCCATGCTCA
*
34417195 AAATCAGTCATTCAAATCATAGAC
1 AAATCAGTCATTCAAA-CACAGAC
*
34417219 AAATCAGTCATACCAAACACAGAC
1 AAATCAGTCAT-TCAAACACAGAC
* * *
34417243 AAATCAGTCATTTAACCCCAGAC
1 AAATCAGTCATTCAAACACAGAC
34417266 AAA
1 AAA
34417269 AAAATCGTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
23 11 0.26
24 28 0.65
25 4 0.09
ACGTcount: A:0.47, C:0.26, G:0.08, T:0.19
Consensus pattern (23 bp):
AAATCAGTCATTCAAACACAGAC
Found at i:34417665 original size:27 final size:27
Alignment explanation
Indices: 34417303--34417660 Score: 386
Period size: 27 Copynumber: 13.3 Consensus size: 27
34417293 AAAATAGCCA
* *
34417303 TTTACCC-ACCAGGGCATTACGGTCAT
1 TTTACCCTACAAGGGTATTACGGTCAT
*
34417329 TTTACCTTAC-AGAGGTATTACGGTCAT
1 TTTACCCTACAAG-GGTATTACGGTCAT
* * *
34417356 TTTACCTTACAGGGGTATTACGGTAAT
1 TTTACCCTACAAGGGTATTACGGTCAT
* *
34417383 TTTACCTTACAAGGGTATTACAGTCAT
1 TTTACCCTACAAGGGTATTACGGTCAT
* *
34417410 TTTACCCTAC-AGTGGCATTACAGTCAT
1 TTTACCCTACAAG-GGTATTACGGTCAT
* *
34417437 TTTACCCTA-TAGCGGTATTACAGTCAT
1 TTTACCCTACAAG-GGTATTACGGTCAT
* *
34417464 TTTACCCTA-TAGGGCATTACGGTCAT
1 TTTACCCTACAAGGGTATTACGGTCAT
34417490 TTTACCCTACAAGGGTATT-CTGGTCAT
1 TTTACCCTACAAGGGTATTAC-GGTCAT
* *
34417517 TTTACCCTACAAGGGTATTACGATTAT
1 TTTACCCTACAAGGGTATTACGGTCAT
* * *
34417544 TTTACCCTATAGGGGTATTACGATCAT
1 TTTACCCTACAAGGGTATTACGGTCAT
* *
34417571 TTTACCTTACGAGGGTATTACGGTCAT
1 TTTACCCTACAAGGGTATTACGGTCAT
* *
34417598 TTTATCCTACGAGGGTATTACGGTCAT
1 TTTACCCTACAAGGGTATTACGGTCAT
* ** * *
34417625 TTTACCTTACGGGGGTGTTTCGGTCAT
1 TTTACCCTACAAGGGTATTACGGTCAT
34417652 TTTACCCTA
1 TTTACCCTA
34417661 TGGGGCATTT
Statistics
Matches: 291, Mismatches: 33, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
26 32 0.11
27 257 0.88
28 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
TTTACCCTACAAGGGTATTACGGTCAT
Found at i:34417696 original size:188 final size:188
Alignment explanation
Indices: 34417323--34417684 Score: 494
Period size: 188 Copynumber: 1.9 Consensus size: 188
34417313 AGGGCATTAC
* * * *
34417323 GGTCATTTTACCTTACAGAGGTATTACGGTCATTTTACCTTACAGGGGTATTACGGTAATTTTAC
1 GGTCATTTTACCCTACAGAGGTATTACGATCATTTTACCCTACAGGGGTATTACGATAATTTTAC
*
34417388 CTTACAAGGGTATTACAGTCATTTTACCCTACAGTGGCATTACAGTCATTTTACCCTATAGCGGT
66 CTTACAAGGGTATTACAGTCATTTTACCCTACAGTGGCATTACAGTCATTTTACCCTACAGCGGT
*
34417453 ATTACAGTCATTTTACCCTATAGGGCATTACGGTCATTTTACCCTACAAGGGTATTCT
131 ATTACAGTCATTTTACCCTATAGGGCATTACAGTCATTTTACCCTACAAGGGTATTCT
* * *
34417511 GGTCATTTTACCCTACA-AGGGTATTACGATTATTTTACCCTATAGGGGTATTACGATCATTTTA
1 GGTCATTTTACCCTACAGA-GGTATTACGATCATTTTACCCTACAGGGGTATTACGATAATTTTA
* * * * * * * *
34417575 CCTTACGAGGGTATTACGGTCATTTTATCCTACGAG-GGTATTACGGTCATTTTACCTTACGGGG
65 CCTTACAAGGGTATTACAGTCATTTTACCCTAC-AGTGGCATTACAGTCATTTTACCCTACAGCG
* * * * *
34417639 GTGTTTCGGTCATTTTACCCTATGGGGCATTTCAGTCATTTTACCC
129 GTATTACAGTCATTTTACCCTATAGGGCATTACAGTCATTTTACCC
34417685 ATCGAGGGTA
Statistics
Matches: 150, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
187 1 0.01
188 147 0.98
189 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.37
Consensus pattern (188 bp):
GGTCATTTTACCCTACAGAGGTATTACGATCATTTTACCCTACAGGGGTATTACGATAATTTTAC
CTTACAAGGGTATTACAGTCATTTTACCCTACAGTGGCATTACAGTCATTTTACCCTACAGCGGT
ATTACAGTCATTTTACCCTATAGGGCATTACAGTCATTTTACCCTACAAGGGTATTCT
Found at i:34419078 original size:20 final size:21
Alignment explanation
Indices: 34419034--34419085 Score: 81
Period size: 20 Copynumber: 2.5 Consensus size: 21
34419024 AAAATCCCAC
34419034 AAGTATCGATACTTTTTAAAT
1 AAGTATCGATACTTTTTAAAT
34419055 AAGTATCGATA-TTTTTCAAA-
1 AAGTATCGATACTTTTT-AAAT
34419075 AAGTATCGATA
1 AAGTATCGATA
34419086 AAATAGTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (21 bp):
AAGTATCGATACTTTTTAAAT
Found at i:34431114 original size:39 final size:39
Alignment explanation
Indices: 34431008--34431115 Score: 110
Period size: 39 Copynumber: 2.7 Consensus size: 39
34430998 GTTTGGATAA
* * *
34431008 AAAACGCCGCTAAAAATCAAGCATTACCGGCGCTTTTAAG
1 AAAACG-CGCTAAAAATCGAGCATTAGCGGCACTTTTAAG
* * * * **
34431048 AAAACGCCCTAAAGATCGAGTACTAGCGGCACTTTTTGG
1 AAAACGCGCTAAAAATCGAGCATTAGCGGCACTTTTAAG
34431087 AAAACGCAGCTAAAAAT-GAGCATTAGCGG
1 AAAACGC-GCTAAAAATCGAGCATTAGCGG
34431116 TGTTTTCCAA
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
39 41 0.76
40 13 0.24
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19
Consensus pattern (39 bp):
AAAACGCGCTAAAAATCGAGCATTAGCGGCACTTTTAAG
Found at i:34431328 original size:41 final size:41
Alignment explanation
Indices: 34431167--34431353 Score: 191
Period size: 41 Copynumber: 4.5 Consensus size: 41
34431157 CGTTGAGTTT
* *
34431167 TCGGG-CTTTAGCGACGTTTTT-AAAGAAGTGCCGCTAATTC
1 TCGGGTCTTTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATTC
* * * *
34431207 TCGGGTC-TTAGCGGCATTTTTGAAGAGGCGCCGCTAATAC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATTC
* * * *
34431247 TCAGGTCTTTAGCGGCATTTTTTTTGAAGAAGCGCTGCTAATTC
1 TCGGGTCTTTAGCGGC---GTTTTTGAAAAAGCGCCGCTAATTC
*
34431291 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATTA
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATTC
* * *
34431332 TCAGGTCTTTAGCAGTGTTTTT
1 TCGGGTCTTTAGCGGCGTTTTT
34431354 TCAAAAAATA
Statistics
Matches: 122, Mismatches: 19, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
40 35 0.29
41 51 0.42
44 36 0.30
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATTC
Found at i:34431336 original size:85 final size:84
Alignment explanation
Indices: 34431183--34431344 Score: 245
Period size: 85 Copynumber: 1.9 Consensus size: 84
34431173 TTTAGCGACG
* * *
34431183 TTTTTAAAGAAGTGCCGCTAATTCTCGGGTCTTAGCGGCATTTTTGAAGAGGCGCCGCTAATACT
1 TTTTTAAAGAAGCGCCGCTAATTCTCGGGTCTTAGCGGCATTTTTGAAAAAGCGCCGCTAATACT
34431248 CAGGTCTTTAGCGGCATTT
66 CAGGTCTTTAGCGGCATTT
* * *
34431267 TTTTTGAAGAAGCGCTGCTAATTCTCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATTA
1 TTTTTAAAGAAGCGCCGCTAATTCTCGGGTC-TTAGCGGCATTTTTGAAAAAGCGCCGCTAA-TA
34431332 -TCAGGTCTTTAGC
64 CTCAGGTCTTTAGC
34431345 AGTGTTTTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
84 28 0.40
85 40 0.57
86 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.34
Consensus pattern (84 bp):
TTTTTAAAGAAGCGCCGCTAATTCTCGGGTCTTAGCGGCATTTTTGAAAAAGCGCCGCTAATACT
CAGGTCTTTAGCGGCATTT
Found at i:34432564 original size:9 final size:9
Alignment explanation
Indices: 34432550--34432627 Score: 104
Period size: 9 Copynumber: 8.7 Consensus size: 9
34432540 ATGTAGTGAT
*
34432550 TTAATTCGA
1 TTAATTCGG
34432559 TTAATTCGG
1 TTAATTCGG
34432568 TTAATTCGG
1 TTAATTCGG
*
34432577 GTAATTCAGG
1 TTAATTC-GG
34432587 -TAATTCGG
1 TTAATTCGG
34432595 TTAATTCGG
1 TTAATTCGG
**
34432604 GCAATTCGG
1 TTAATTCGG
34432613 TTAATTCGG
1 TTAATTCGG
34432622 TTAATT
1 TTAATT
34432628 TTTAACCAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
8 2 0.03
9 57 0.93
10 2 0.03
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.41
Consensus pattern (9 bp):
TTAATTCGG
Found at i:34434844 original size:20 final size:19
Alignment explanation
Indices: 34434812--34434858 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
34434802 CTTAATGCAG
34434812 AAAA-ATAACACAATA-ATA
1 AAAATATAACACAA-ACATA
*
34434830 ACAAATATAATACAAACATA
1 A-AAATATAACACAAACATA
34434850 AAAATATAA
1 AAAATATAA
34434859 AATAAACCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 12 0.48
20 12 0.48
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATATAACACAAACATA
Found at i:34434865 original size:19 final size:20
Alignment explanation
Indices: 34434827--34434865 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
34434817 TAACACAATA
*
34434827 ATAACAAATATAATACAAAC
1 ATAACAAATATAAAACAAAC
*
34434847 ATAA-AAATATAAAATAAAC
1 ATAACAAATATAAAACAAAC
34434866 CAAAACTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (20 bp):
ATAACAAATATAAAACAAAC
Found at i:34436670 original size:5 final size:5
Alignment explanation
Indices: 34436660--34436686 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
34436650 GATTCTTGTT
34436660 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
34436687 GGCAAGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:34437260 original size:43 final size:43
Alignment explanation
Indices: 34437200--34437290 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 43
34437190 CTTTGAGTTC
*
34437200 ATTA-CAAGATTTCCTTGATTAAGAAAATGT-ATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAAT-TCATTATATCTTTT
* *
34437242 ATTACCAAGATTTACTTGATTAAGAAAATTCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATTCATTATATCTTTT
34437285 ATTACC
1 ATTACC
34437291 TTGCAATGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 5 0.11
43 39 0.89
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATTCATTATATCTTTT
Found at i:34437716 original size:43 final size:43
Alignment explanation
Indices: 34437658--34437841 Score: 244
Period size: 43 Copynumber: 4.3 Consensus size: 43
34437648 TTTTTACGAG
* * * * *
34437658 AAGCACCGCTAAAGGT-TTGATCTATAGCGGCGTTTGTGACAAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGA-TAA
* * *
34437701 AAGTGCCGCTAAAGGTCATGTTTTTTAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
* *
34437744 AAGCGCCGCTAAAGGTCATGGTCTTTTGTGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
* *
34437787 AAGCACCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
34437830 AAGCGCCGCTAA
1 AAGCGCCGCTAA
34437842 TACTTTTAGT
Statistics
Matches: 123, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
43 104 0.85
44 19 0.15
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
Found at i:34437985 original size:16 final size:16
Alignment explanation
Indices: 34437964--34437997 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
34437954 ACAACTACTG
34437964 TTGTATTAACATTTAT
1 TTGTATTAACATTTAT
34437980 TTGTATTAACATTTAT
1 TTGTATTAACATTTAT
34437996 TT
1 TT
34437998 AGACACACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (16 bp):
TTGTATTAACATTTAT
Found at i:34438517 original size:43 final size:44
Alignment explanation
Indices: 34438456--34438554 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 44
34438446 TGTCCCAAAC
* ** *
34438456 ATGGTCTTACATGCAAATCTCGTATCGATGCCAATAGCGCAACT
1 ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAACT
*
34438500 ATGGTCTTATACG-AAATCTCAAATCGATGCCAATAGCCCAACT
1 ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAACT
34438543 ATGGTCTTACAC
1 ATGGTCTTACAC
34438555 AAACACTGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
43 38 0.78
44 11 0.22
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (44 bp):
ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAACT
Found at i:34444279 original size:43 final size:44
Alignment explanation
Indices: 34444218--34444316 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 44
34444208 TGTCTCAAAC
* **
34444218 ATGGTCTTACATGCAAATCTCGTATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAGCT
*
34444262 ATGGTCTTACACG-AAATCTCAAATCGATGCCAGTAGCCCAGCT
1 ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAGCT
*
34444305 ATGATCTTACAC
1 ATGGTCTTACAC
34444317 ATAAACACTA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 38 0.76
44 12 0.24
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (44 bp):
ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:34453147 original size:54 final size:55
Alignment explanation
Indices: 34453046--34453175 Score: 244
Period size: 54 Copynumber: 2.4 Consensus size: 55
34453036 GGCATAGTTG
*
34453046 GTTGCTATGGCATCACATGGGCCAAGCGAAGACCATATAGTGTAAGGTCTAGCCA
1 GTTGCTATGGCATCATATGGGCCAAGCGAAGACCATATAGTGTAAGGTCTAGCCA
34453101 GTTGCTATGGCATCATATGGG-CAAGCGAAGACCATATAGTGTAAGGTCTAGCCA
1 GTTGCTATGGCATCATATGGGCCAAGCGAAGACCATATAGTGTAAGGTCTAGCCA
34453155 GTTGCTATGGCATCATATGGG
1 GTTGCTATGGCATCATATGGG
34453176 GACAAGAAAA
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
54 54 0.73
55 20 0.27
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (55 bp):
GTTGCTATGGCATCATATGGGCCAAGCGAAGACCATATAGTGTAAGGTCTAGCCA
Found at i:34453194 original size:54 final size:53
Alignment explanation
Indices: 34453046--34453199 Score: 229
Period size: 54 Copynumber: 2.8 Consensus size: 53
34453036 GGCATAGTTG
*
34453046 GTTGCTATGGCATCACATGGGCCAAGCGAAGACCATATAGTGTAAGGTCTAGCCA
1 GTTGCTATGGCATCATATGGG-CAA-CGAAGACCATATAGTGTAAGGTCTAGCCA
34453101 GTTGCTATGGCATCATATGGGCAAGCGAAGACCATATAGTGTAAGGTCTAGCCA
1 GTTGCTATGGCATCATATGGGCAA-CGAAGACCATATAGTGTAAGGTCTAGCCA
* *
34453155 GTTGCTATGGCATCATATGGGGACAA-GAAAACCACATAGTGTAAG
1 GTTGCTATGGCATCATAT-GGG-CAACGAAGACCATATAGTGTAAG
34453200 ACCTAGTCTA
Statistics
Matches: 94, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
54 68 0.72
55 23 0.24
56 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (53 bp):
GTTGCTATGGCATCATATGGGCAACGAAGACCATATAGTGTAAGGTCTAGCCA
Found at i:34457744 original size:14 final size:15
Alignment explanation
Indices: 34457725--34457764 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
34457715 GGGAAGTTGG
34457725 GAAATTAGGGAA-AA
1 GAAATTAGGGAAGAA
34457739 GAAATTAGGGAAGAA
1 GAAATTAGGGAAGAA
* *
34457754 TAACTTAGGGA
1 GAAATTAGGGA
34457765 TTTCAGGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.50, C:0.03, G:0.30, T:0.17
Consensus pattern (15 bp):
GAAATTAGGGAAGAA
Found at i:34458029 original size:115 final size:116
Alignment explanation
Indices: 34457874--34458085 Score: 322
Period size: 115 Copynumber: 1.8 Consensus size: 116
34457864 AAAAACACCA
* * **
34457874 CTAATGTATAACCTTTTGTGGCGTTTTAGTCAAAATGCCACTAAAAACGTAGCTAAAAATAG-C-
1 CTAATGTATAACCTTTTGCGGCGTTTTAGACAAAATGCCACTAAAAACACAGCTAAAAA-AGACG
*
34457937 ATCGTTTTGTAAACTTTTAATACATATTCACGGCATTTTTGGTGAAAATGCTG
65 A-CGTTTTGCAAACTTTTAATACATATTCACGGCATTTTTGGTGAAAATGCTG
* *
34457990 CTAATGTATAACC-TTTGCGGCGTTTTAGACAAAATGCCACTAAAAATACAGCTAAAAACGACGA
1 CTAATGTATAACCTTTTGCGGCGTTTTAGACAAAATGCCACTAAAAACACAGCTAAAAAAGACGA
34458054 CGTTTTGCAAACTTTTAATACATATTCACGGC
66 CGTTTTGCAAACTTTTAATACATATTCACGGC
34458086 GTTTGGACCA
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
114 1 0.01
115 72 0.83
116 14 0.16
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (116 bp):
CTAATGTATAACCTTTTGCGGCGTTTTAGACAAAATGCCACTAAAAACACAGCTAAAAAAGACGA
CGTTTTGCAAACTTTTAATACATATTCACGGCATTTTTGGTGAAAATGCTG
Found at i:34465547 original size:119 final size:120
Alignment explanation
Indices: 34465365--34465587 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
34465355 TCCTCGTTCA
* *
34465365 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
* *
34465430 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
34465485 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATACCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* * *
34465547 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
34465588 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:34465587 original size:40 final size:40
Alignment explanation
Indices: 34465363--34465587 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
34465353 GCTCCTCGTT
* *
34465363 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
34465403 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
34465443 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
34465483 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
34465522 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
34465563 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34465588 CATCATTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 118 0.73
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:34482196 original size:40 final size:40
Alignment explanation
Indices: 34482113--34482295 Score: 131
Period size: 40 Copynumber: 4.6 Consensus size: 40
34482103 TTGAATGCTG
* * * * *
34482113 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* *
34482153 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
** * *
34482193 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** * * *
34482233 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* * * *
34482272 ACCGGGCTATGTCCCGAAGTCATT
1 TCCGGACTAAGTCCCGAAGGCATT
34482296 TGAACGAGGA
Statistics
Matches: 123, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
39 35 0.28
40 77 0.63
41 10 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:34482277 original size:39 final size:39
Alignment explanation
Indices: 34482166--34482295 Score: 170
Period size: 40 Copynumber: 3.3 Consensus size: 39
34482156 GGACTAAGAT
* * *
34482166 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
*
34482206 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
34482246 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
*
34482285 CCGAAGTCATT
1 CCGAAGGCATT
34482296 TGAACGAGGA
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.46
40 43 0.54
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:34499638 original size:51 final size:51
Alignment explanation
Indices: 34499583--34499693 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 51
34499573 TTATAAAACT
*
34499583 TATATATATATAAAATACA-TAATGCATTTATGAAAACAAAGAAA-ATATAAA
1 TATATATATATAAAATACATTAATGCATTTA-CAAAA-AAAGAAATATATAAA
* * * * *
34499634 TATATACATATAAAATATATTCATGCATTTACAAAAAATGAAATATATAAG
1 TATATATATATAAAATACATTAATGCATTTACAAAAAAAGAAATATATAAA
34499685 TATA-ATATA
1 TATATATATA
34499694 AAATGTGGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
50 10 0.20
51 31 0.61
52 10 0.20
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.32
Consensus pattern (51 bp):
TATATATATATAAAATACATTAATGCATTTACAAAAAAAGAAATATATAAA
Found at i:34499974 original size:15 final size:13
Alignment explanation
Indices: 34499954--34499991 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
34499944 TATATGTAGG
34499954 TATAATAATATATAA
1 TATAATAATA-A-AA
34499969 TATAATAATAAAA
1 TATAATAATAAAA
34499982 -ATAATAATAA
1 TATAATAATAA
34499992 CAAAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.43
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TATAATAATAAAA
Found at i:34499996 original size:15 final size:15
Alignment explanation
Indices: 34499970--34500003 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
34499960 AATATATAAT
*
34499970 ATAATAATAAAAATA
1 ATAATAACAAAAATA
*
34499985 ATAATAACAAAATTA
1 ATAATAACAAAAATA
34500000 ATAA
1 ATAA
34500004 AATAGACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAATAACAAAAATA
Found at i:34500250 original size:19 final size:21
Alignment explanation
Indices: 34500212--34500250 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
34500202 CCTTTTTTAA
*
34500212 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
34500233 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
34500251 AGAAAACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:34500468 original size:23 final size:22
Alignment explanation
Indices: 34500436--34500518 Score: 59
Period size: 21 Copynumber: 3.9 Consensus size: 22
34500426 AAATTAAATC
34500436 TCTAAGATTACAAAATCATATAT
1 TCTAAGATTAC-AAATCATATAT
* *
34500459 TCTAATATTACATATC--ATA-
1 TCTAAGATTACAAATCATATAT
* *
34500478 TCTAAGATTGCATAT-ATCATA-
1 TCTAAGATTACAAATCAT-ATAT
* *
34500499 TCTAAGATTGCACATCATAT
1 TCTAAGATTACAAATCATAT
34500519 CTAAGATTGC
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
19 13 0.25
20 3 0.06
21 19 0.37
22 6 0.12
23 10 0.20
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATAT
Found at i:34500478 original size:22 final size:23
Alignment explanation
Indices: 34500436--34500478 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
34500426 AAATTAAATC
34500436 TCTAAGATTACAAAATCATATAT
1 TCTAAGATTACAAAATCATATAT
* *
34500459 TCTAATATTAC-ATATCATAT
1 TCTAAGATTACAAAATCATAT
34500479 CTAAGATTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATAT
Found at i:34500491 original size:19 final size:19
Alignment explanation
Indices: 34500459--34500533 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
34500449 AATCATATAT
* *
34500459 TCTAATATTACATATCATA
1 TCTAAGATTGCATATCATA
34500478 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
34500499 TCTAAGATTGCACATCATA
1 TCTAAGATTGCATATCATA
34500518 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
34500534 CTCGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 31 0.62
21 19 0.38
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:34500496 original size:21 final size:21
Alignment explanation
Indices: 34500470--34500532 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
34500460 CTAATATTAC
34500470 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
34500491 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
*
34500510 ACATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
34500531 AT
1 AT
34500533 CCTCGAAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.47
21 20 0.53
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:34501834 original size:22 final size:22
Alignment explanation
Indices: 34501770--34501836 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
34501760 TGCACTAATG
* * *
34501770 AACAAAGAGCACTAAAGTGCCA
1 AACAAAGAGCACTGATGTGCTA
* * *
34501792 TACATAGAGCACAGATGTGCTA
1 AACAAAGAGCACTGATGTGCTA
*
34501814 AACAGAGAGCACTGATGTGCTA
1 AACAAAGAGCACTGATGTGCTA
34501836 A
1 A
34501837 CAATCAGAGA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.16
Consensus pattern (22 bp):
AACAAAGAGCACTGATGTGCTA
Found at i:34502152 original size:15 final size:16
Alignment explanation
Indices: 34502132--34502167 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
34502122 TTCATAGTTC
34502132 TATAAT-CTTTTATTT
1 TATAATGCTTTTATTT
34502147 TATAATGCTTTTATTT
1 TATAATGCTTTTATTT
34502163 TATAA
1 TATAA
34502168 ATTTATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (16 bp):
TATAATGCTTTTATTT
Found at i:34502970 original size:5 final size:5
Alignment explanation
Indices: 34502947--34502996 Score: 64
Period size: 5 Copynumber: 9.4 Consensus size: 5
34502937 TCTTTTGTTT
*
34502947 TATATA TATAA TAATAA TATAA TATTA TAATAA TATAA TATAA TATAA
1 TATA-A TATAA T-ATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
34502995 TA
1 TA
34502997 ACATACTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
5 27 0.68
6 13 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:34502970 original size:8 final size:8
Alignment explanation
Indices: 34502957--34502997 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
34502947 TATATATATA
34502957 ATAATAAT
1 ATAATAAT
*
34502965 ATAATATT
1 ATAATAAT
34502973 ATAATAAT
1 ATAATAAT
34502981 ATAATATAAT
1 AT-A-ATAAT
34502991 ATAATAA
1 ATAATAA
34502998 CATACTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 20 0.69
9 2 0.07
10 7 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATAATAAT
Found at i:34515058 original size:22 final size:21
Alignment explanation
Indices: 34515033--34515084 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
34515023 CAAATTCGTG
*
34515033 GAAATGTTGGAATGAAA-GTTTA
1 GAAATGTT-AAAT-AAATGTTTA
34515055 GAAATAGTTAAATAAATGTTTA
1 GAAAT-GTTAAATAAATGTTTA
*
34515077 GACATGTT
1 GAAATGTT
34515085 TTTAGACTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 6 0.23
22 17 0.65
23 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (21 bp):
GAAATGTTAAATAAATGTTTA
Found at i:34524772 original size:40 final size:40
Alignment explanation
Indices: 34524676--34524936 Score: 264
Period size: 40 Copynumber: 6.5 Consensus size: 40
34524666 CTCGTTCAAT
* * * * *
34524676 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AA
1 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
* ** * *
34524715 TGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
34524755 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
* *
34524795 GGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCACAAA
*
34524835 TGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCACAAA
** * * *
34524875 TGCCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCACAAA
1 TGCCTTCGGGA-CTTAACCCGGATTTAGT-ATC-TCGCACAAA
*
34524916 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
34524937 CAGCATTCAA
Statistics
Matches: 195, Mismatches: 20, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
39 37 0.19
40 142 0.73
41 16 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
Found at i:34524945 original size:41 final size:41
Alignment explanation
Indices: 34524868--34524945 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34524858 TTTGTATCTC
* * *
34524868 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34524909 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34524946 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34543465 original size:6 final size:6
Alignment explanation
Indices: 34543454--34543491 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
34543444 TAAAACTTTG
* *
34543454 ATTTTA ATTTTA ATTTTA ACTTTG ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA AT
34543492 ATTCATAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (6 bp):
ATTTTA
Found at i:34543609 original size:3 final size:3
Alignment explanation
Indices: 34543601--34543634 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
34543591 TTGGATTGAT
*
34543601 TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
34543635 GCAATTGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:34548720 original size:19 final size:19
Alignment explanation
Indices: 34548689--34548750 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
34548679 AATTTAAAAT
*
34548689 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
*
34548707 TTTTAAAAATTATTTTCAAA
1 TTTTAAAAATTATTTT-GAA
* * *
34548727 TTTTGAAATTTACTTTGATA
1 TTTTAAAAATTATTTTGA-A
34548747 TTTT
1 TTTT
34548751 TGCAATTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 20 0.57
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:34550647 original size:18 final size:18
Alignment explanation
Indices: 34550624--34550668 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
34550614 TAAAGTCCAT
34550624 AAAAGTTCAAAACATAAG
1 AAAAGTTCAAAACATAAG
34550642 AAAAGTTCAAAACATAAG
1 AAAAGTTCAAAACATAAG
*
34550660 AAAAATTCA
1 AAAAGTTCA
34550669 TAATCGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.62, C:0.11, G:0.09, T:0.18
Consensus pattern (18 bp):
AAAAGTTCAAAACATAAG
Found at i:34551134 original size:50 final size:50
Alignment explanation
Indices: 34551000--34551136 Score: 177
Period size: 50 Copynumber: 2.7 Consensus size: 50
34550990 CCATTTGTGC
* * *
34551000 ACAAGCCACCACTGATTTGCAGATAAACTGCCACTAATAACACTTTGAGG
1 ACAAGCCACCACTGATATGCAGATATACTGCCACTTATAACACTTTGAGG
* * *
34551050 ACAAGCCACCACTGATATGCAAATGTACTACCACTTATAACACTTTGTA-G
1 ACAAGCCACCACTGATATGCAGATATACTGCCACTTATAACACTTTG-AGG
* * *
34551100 ACTAGCCACCACTGATATGTAGATATATTGCCACTTA
1 ACAAGCCACCACTGATATGCAGATATACTGCCACTTA
34551137 CTTCGACCTT
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 73 0.99
51 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (50 bp):
ACAAGCCACCACTGATATGCAGATATACTGCCACTTATAACACTTTGAGG
Found at i:34555664 original size:50 final size:50
Alignment explanation
Indices: 34555609--34555895 Score: 282
Period size: 50 Copynumber: 5.8 Consensus size: 50
34555599 CGTGCAATGG
*
34555609 GAAGCT-TCGGAGAGCCATTTATCGGGAAGCTCATTAGAGCCAATTATCGA
1 GAAGCTCT-GGAGAGCCATTAATCGGGAAGCTCATTAGAGCCAATTATCGA
* * * * *
34555659 AAAGCTCTGGAGAGTCATTTATTGTGAAGCTCATTAGAGCCAATTATCGA
1 GAAGCTCTGGAGAGCCATTAATCGGGAAGCTCATTAGAGCCAATTATCGA
* * * * *
34555709 GAAGCTCTAGAGAGCCATTAATTGGGAAGCTC-TAGAGAGCC-ATTGATTGG
1 GAAGCTCTGGAGAGCCATTAATCGGGAAGCTCAT-TAGAGCCAATT-ATCGA
* * ** * ** *
34555759 GAAGCTCAT-AAGAGCTA-TAATTAGGAAGCTTATGGGAGCCAA-TATCGG
1 GAAGCTC-TGGAGAGCCATTAATCGGGAAGCTCATTAGAGCCAATTATCGA
* * *
34555807 GAAGCT-TCGGAGAGCCATTTATCAGGAAGCACATTAGAGCCAATTATCGA
1 GAAGCTCT-GGAGAGCCATTAATCGGGAAGCTCATTAGAGCCAATTATCGA
34555857 GAAGCTCTGGAGAGCCATTAATCGGGAAGCTCATTAGAG
1 GAAGCTCTGGAGAGCCATTAATCGGGAAGCTCATTAGAG
34555896 TTGTTGTAAC
Statistics
Matches: 196, Mismatches: 30, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
46 1 0.01
48 16 0.08
49 42 0.21
50 134 0.68
51 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (50 bp):
GAAGCTCTGGAGAGCCATTAATCGGGAAGCTCATTAGAGCCAATTATCGA
Found at i:34555713 original size:75 final size:74
Alignment explanation
Indices: 34555619--34555888 Score: 252
Period size: 75 Copynumber: 3.6 Consensus size: 74
34555609 GAAGCTTCGG
* * * ** *
34555619 AGAGCCATTTATCGGGAAGCTCATTAGAGCCAATTATCGAAAAGCTCTGGAGAGTCATTTATTGT
1 AGAGCCAATTATCGAGAAGCTCATGAGAGCCAATTATCGGGAAGCTCTGGAGAGCCATTTATTG-
34555684 GAAGCTCATT
65 GAAGCTCATT
* * *
34555694 AGAGCCAATTATCGAGAAGCTC-TAGAGAGCC-ATTAATTGGGAAGCTCTAGAGAGCCATTGATT
1 AGAGCCAATTATCGAGAAGCTCAT-GAGAGCCAATT-ATCGGGAAGCTCTGGAGAGCCATTTATT
*
34555757 GGGAAGCTCATA
64 -GGAAGCTCATT
* * *
34555769 AGAGCTATAATTA--G-GAAGCTTATGGGAGCCAA-TATCGGGAAGCT-TCGGAGAGCCATTTAT
1 AGAGC--CAATTATCGAGAAGCTCATGAGAGCCAATTATCGGGAAGCTCT-GGAGAGCCATTTAT
* *
34555829 CAGGAAGCACATT
63 -TGGAAGCTCATT
34555842 AGAGCCAATTATCGAGAAGCTC-TGGAGAGCC-ATTAATCGGGAAGCTC
1 AGAGCCAATTATCGAGAAGCTCAT-GAGAGCCAATT-ATCGGGAAGCTC
34555889 ATTAGAGTTG
Statistics
Matches: 157, Mismatches: 22, Indels: 31
0.75 0.10 0.15
Matches are distributed among these distances:
71 5 0.03
72 1 0.01
73 39 0.25
74 30 0.19
75 76 0.48
76 1 0.01
77 5 0.03
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (74 bp):
AGAGCCAATTATCGAGAAGCTCATGAGAGCCAATTATCGGGAAGCTCTGGAGAGCCATTTATTGG
AAGCTCATT
Found at i:34555895 original size:25 final size:24
Alignment explanation
Indices: 34555618--34555895 Score: 179
Period size: 25 Copynumber: 11.2 Consensus size: 24
34555608 GGAAGCTTCG
34555618 GAGAGCCATTTATCGGGAAGCTCAT
1 GAGAGCCA-TTATCGGGAAGCTCAT
* **
34555643 TAGAGCCAATTATCGAAAAGCTC-T
1 GAGAGCC-ATTATCGGGAAGCTCAT
* * *
34555667 GGAGAGTCATTTATTGTGAAGCTCAT
1 -GAGAGCCA-TTATCGGGAAGCTCAT
* *
34555693 TAGAGCCAATTATCGAGAAGCTC-T
1 GAGAGCC-ATTATCGGGAAGCTCAT
*
34555717 AGAGAGCCATTAATTGGGAAGCTC-T
1 -GAGAGCCATT-ATCGGGAAGCTCAT
*
34555742 AGAGAGCCATTGATTGGGAAGCTCAT
1 -GAGAGCCATT-ATCGGGAAGCTCAT
* * * ** *
34555768 AAGAGCTATAATTAGGAAGCTTAT
1 GAGAGCCATTATCGGGAAGCTCAT
* * *
34555792 GGGAGCCAATATCGGGAAGCTTC-G
1 GAGAGCCATTATCGGGAAGC-TCAT
* *
34555816 GAGAGCCATTTATCAGGAAGCACAT
1 GAGAGCCA-TTATCGGGAAGCTCAT
* *
34555841 TAGAGCCAATTATCGAGAAGCTC-T
1 GAGAGCC-ATTATCGGGAAGCTCAT
34555865 GGAGAGCCATTAATCGGGAAGCTCAT
1 -GAGAGCCATT-ATCGGGAAGCTCAT
*
34555891 TAGAG
1 GAGAG
34555896 TTGTTGTAAC
Statistics
Matches: 196, Mismatches: 42, Indels: 30
0.73 0.16 0.11
Matches are distributed among these distances:
24 43 0.22
25 147 0.75
26 6 0.03
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (24 bp):
GAGAGCCATTATCGGGAAGCTCAT
Found at i:34557451 original size:119 final size:120
Alignment explanation
Indices: 34557267--34557491 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
34557257 GCTCCTCGTT
* *
34557267 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
* *
34557332 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
34557387 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCACACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAACCC
* * *
34557449 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
34557492 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 4 0.04
119 65 0.71
120 22 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:34557491 original size:40 final size:40
Alignment explanation
Indices: 34557267--34557491 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
34557257 GCTCCTCGTT
* *
34557267 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
34557307 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
34557347 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
34557387 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
34557426 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
34557467 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34557492 CATCATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 120 0.73
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:34559781 original size:65 final size:65
Alignment explanation
Indices: 34559577--34559782 Score: 172
Period size: 65 Copynumber: 3.2 Consensus size: 65
34559567 AAAAATGAAA
*
34559577 TTCATACAATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTAT
1 TTCATAAAATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTAT
* ** * * * ** ** * ** *
34559642 TTCATAAAATTGAA-AATTTTTCTATGAATTTTCC-ATCTTTTCAATTTAGTCCCTA-AA--TCA
1 TTCATAAAATTTAATCCTTATTCCAAG-CCTAGCCGA--TTTTC-ATAT-GTCAATAGAAGCCCA
*
34559702 T-AAT
61 TGTAT
34559706 TTCATCAAAATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTA
1 TTCAT-AAAATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTA
34559771 T
65 T
34559772 TTCATAAAATT
1 TTCATAAAATT
34559783 GAAAATTTTT
Statistics
Matches: 98, Mismatches: 31, Indels: 24
0.64 0.20 0.16
Matches are distributed among these distances:
62 5 0.05
63 5 0.05
64 20 0.20
65 38 0.39
66 20 0.20
67 5 0.05
68 5 0.05
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (65 bp):
TTCATAAAATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTAT
Found at i:34559817 original size:130 final size:130
Alignment explanation
Indices: 34559584--34559847 Score: 519
Period size: 130 Copynumber: 2.0 Consensus size: 130
34559574 AAATTCATAC
34559584 AATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTATTTCATAA
1 AATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTATTTCATAA
34559649 AATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAATCATAATTTCATCAA
66 AATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAATCATAATTTCATCAA
34559714 AATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTATTTCATAA
1 AATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTATTTCATAA
*
34559779 AATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAGTCATAATTTCATCAA
66 AATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAATCATAATTTCATCAA
34559844 AATT
1 AATT
34559848 CTCTTTACAA
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 133 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (130 bp):
AATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTATTTCATAA
AATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAATCATAATTTCATCAA
Found at i:34559846 original size:65 final size:64
Alignment explanation
Indices: 34559640--34559847 Score: 165
Period size: 65 Copynumber: 3.2 Consensus size: 64
34559630 AAGCCCATGT
*
34559640 ATTTCATAAAATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAATCATA
1 ATTTCATAAAATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAGTCATA
* ** * * * ** ** * **
34559704 ATTTCATCAAAATTTAATCCTTATTCCAAG-CCTAGCCGA--TTTTC-ATAT-GTCAATAGAAGC
1 ATTTCAT-AAAATTGAA-AATTTTTCTATGAATTTTCC-ATCTTTTCAATTTAGTCCCT--AAG-
* *
34559764 CCATGT
60 TCAT-A
34559770 ATTTCATAAAATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAGTCATA
1 ATTTCATAAAATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAGTCATA
34559834 ATTTCATCAAAATT
1 ATTTCAT-AAAATT
34559848 CTCTTTACAA
Statistics
Matches: 100, Mismatches: 31, Indels: 25
0.64 0.20 0.16
Matches are distributed among these distances:
62 4 0.04
63 3 0.03
64 29 0.29
65 34 0.34
66 23 0.23
67 3 0.03
68 4 0.04
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.42
Consensus pattern (64 bp):
ATTTCATAAAATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAGTCATA
Found at i:34563749 original size:69 final size:70
Alignment explanation
Indices: 34563617--34563749 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
34563607 TAGTTTATTA
* * * * *
34563617 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
34563682 CTTAG
66 CTTAG
34563687 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
34563750 GTTATGTACT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:34565191 original size:47 final size:47
Alignment explanation
Indices: 34565137--34565494 Score: 572
Period size: 47 Copynumber: 7.6 Consensus size: 47
34565127 TATTTGAATA
*
34565137 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
34565184 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
34565231 AATGTGAAAGTGTATATATATGTGCTAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
34565280 AATGTGAAACTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34565327 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34565374 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
34565421 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
34565468 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
34565495 TCCCGAAGGG
Statistics
Matches: 288, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 246 0.85
49 42 0.15
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:34569121 original size:13 final size:13
Alignment explanation
Indices: 34569103--34569154 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 13
34569093 GGACACACGC
34569103 CCGTGTGTCCAGG
1 CCGTGTGTCCAGG
*
34569116 CCGTGTGTCTCACACGC
1 CCGTGTG--TC-CA-GG
34569133 CCGTGTGTCCAGG
1 CCGTGTGTCCAGG
34569146 CCGTGTGTC
1 CCGTGTGTC
34569155 TCACACGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 17 0.52
14 2 0.06
15 4 0.12
16 2 0.06
17 8 0.24
ACGTcount: A:0.08, C:0.35, G:0.33, T:0.25
Consensus pattern (13 bp):
CCGTGTGTCCAGG
Found at i:34569132 original size:30 final size:30
Alignment explanation
Indices: 34569096--34569161 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
34569086 GTGTAGGGGA
34569096 CACACGCCCGTGTGTCCAGGCCGTGTGTCT
1 CACACGCCCGTGTGTCCAGGCCGTGTGTCT
34569126 CACACGCCCGTGTGTCCAGGCCGTGTGTCT
1 CACACGCCCGTGTGTCCAGGCCGTGTGTCT
34569156 CACACG
1 CACACG
34569162 GTCAAGAGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.12, C:0.38, G:0.29, T:0.21
Consensus pattern (30 bp):
CACACGCCCGTGTGTCCAGGCCGTGTGTCT
Found at i:34570415 original size:25 final size:25
Alignment explanation
Indices: 34570387--34570502 Score: 96
Period size: 25 Copynumber: 4.6 Consensus size: 25
34570377 ATATAACGGA
34570387 AAGCTCTTGCA-AGCCAATTATCGAG
1 AAGCTCTTG-AGAGCCAATTATCGAG
* * * *
34570412 AAGCT-TCGAAGAGCCATTTCTCGGG
1 AAGCTCTTG-AGAGCCAATTATCGAG
34570437 AAGCTCATT-AGAGCCAATTATCGAG
1 AAGCTC-TTGAGAGCCAATTATCGAG
* *
34570462 AAGCTCTAGAGAGCC-ATTAATCGGG
1 AAGCTCTTGAGAGCCAATT-ATCGAG
* *
34570487 AAGCTCATAAGAGCCA
1 AAGCTCTTGAGAGCCA
34570503 TAATTAGGTA
Statistics
Matches: 71, Mismatches: 14, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
24 7 0.10
25 63 0.89
27 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (25 bp):
AAGCTCTTGAGAGCCAATTATCGAG
Found at i:34570441 original size:50 final size:50
Alignment explanation
Indices: 34570398--34570502 Score: 158
Period size: 50 Copynumber: 2.1 Consensus size: 50
34570388 AGCTCTTGCA
**
34570398 AGCCAATTATCGAGAAGCTTCGA-AGAGCCATTTCTCGGGAAGCTCATTAG
1 AGCCAATTATCGAGAAGC-TCGAGAGAGCCATTAATCGGGAAGCTCATTAG
* *
34570448 AGCCAATTATCGAGAAGCTCTAGAGAGCCATTAATCGGGAAGCTCATAAG
1 AGCCAATTATCGAGAAGCTCGAGAGAGCCATTAATCGGGAAGCTCATTAG
34570498 AGCCA
1 AGCCA
34570503 TAATTAGGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 3 0.06
50 47 0.94
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (50 bp):
AGCCAATTATCGAGAAGCTCGAGAGAGCCATTAATCGGGAAGCTCATTAG
Found at i:34570503 original size:25 final size:25
Alignment explanation
Indices: 34570420--34570617 Score: 104
Period size: 25 Copynumber: 8.0 Consensus size: 25
34570410 AGAAGCTTCG
**
34570420 AAGAGCCATTTCTCGGGAAGCTCAT
1 AAGAGCCATTAATCGGGAAGCTCAT
* *
34570445 TAGAGCCAATT-ATCGAGAAGCTC-T
1 AAGAGCC-ATTAATCGGGAAGCTCAT
34570469 AGAGAGCCATTAATCGGGAAGCTCAT
1 A-AGAGCCATTAATCGGGAAGCTCAT
** * *
34570495 AAGAGCCA-TAATTAGGTAGCTTAT
1 AAGAGCCATTAATCGGGAAGCTCAT
** * * * **
34570519 GTGAGCCA-AAATTGGTAAGCTCCGG
1 AAGAGCCATTAATCGGGAAGCT-CAT
* * *
34570544 AA-AGCCATTTATCAGGAAGGTCAT
1 AAGAGCCATTAATCGGGAAGCTCAT
* *
34570568 TAGAGCCAATT-ATCGGGAAGGTC-T
1 AAGAGCC-ATTAATCGGGAAGCTCAT
* *
34570592 AGAAAACCATTAATCGGGAAGCTCAT
1 A-AGAGCCATTAATCGGGAAGCTCAT
34570618 TAAAGCCGTG
Statistics
Matches: 128, Mismatches: 34, Indels: 21
0.70 0.19 0.11
Matches are distributed among these distances:
24 42 0.33
25 77 0.60
26 9 0.07
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (25 bp):
AAGAGCCATTAATCGGGAAGCTCAT
Found at i:34579642 original size:7 final size:7
Alignment explanation
Indices: 34579630--34579657 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
34579620 CTATGGCTAC
34579630 AAGGTAT
1 AAGGTAT
34579637 AAGGTAT
1 AAGGTAT
34579644 AAGGTAT
1 AAGGTAT
34579651 AAGGTAT
1 AAGGTAT
34579658 GCGGTGTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (7 bp):
AAGGTAT
Found at i:34579935 original size:33 final size:32
Alignment explanation
Indices: 34579854--34579939 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 32
34579844 AGTTTGTCAA
* *
34579854 GACAGTAAACAT-GAAATAGAGATAGTCCACCG
1 GACAATAAACATAG-AATAAAGATAGTCCACCG
* * *
34579886 G--AATAAACACAAAATAAAGATAGTCCAGCGG
1 GACAATAAACATAGAATAAAGATAGTCCA-CCG
34579917 GACAATAAACATAGAATAAAGAT
1 GACAATAAACATAGAATAAAGAT
34579940 GGCCCGTTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
30 21 0.49
31 3 0.07
32 1 0.02
33 18 0.42
ACGTcount: A:0.51, C:0.15, G:0.19, T:0.15
Consensus pattern (32 bp):
GACAATAAACATAGAATAAAGATAGTCCACCG
Found at i:34587387 original size:24 final size:24
Alignment explanation
Indices: 34587355--34587403 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
34587345 TTGAGGTAAG
34587355 TCAAATTCATGAAATACCCTGGTT
1 TCAAATTCATGAAATACCCTGGTT
*
34587379 TCAAATTCATGAAATACCTTGGTT
1 TCAAATTCATGAAATACCCTGGTT
34587403 T
1 T
34587404 GTTGATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (24 bp):
TCAAATTCATGAAATACCCTGGTT
Found at i:34588887 original size:14 final size:15
Alignment explanation
Indices: 34588858--34588891 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
34588848 TAGGTTTTAA
*
34588858 AATTTTTTTATGTTT
1 AATTTATTTATGTTT
34588873 AATTTATTT-TGTTT
1 AATTTATTTATGTTT
34588887 AATTT
1 AATTT
34588892 TAAATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (15 bp):
AATTTATTTATGTTT
Found at i:34591448 original size:9 final size:9
Alignment explanation
Indices: 34591433--34591474 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
34591423 TTTTCAATCA
34591433 TCTCTCATC
1 TCTCTCATC
*
34591442 CCTCTCATC
1 TCTCTCATC
34591451 TCTCATCATC
1 TCTC-TCATC
*
34591461 TCTCTCAAC
1 TCTCTCATC
34591470 TCTCT
1 TCTCT
34591475 TAGCTCTCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 20 0.69
10 9 0.31
ACGTcount: A:0.14, C:0.45, G:0.00, T:0.40
Consensus pattern (9 bp):
TCTCTCATC
Found at i:34591472 original size:19 final size:18
Alignment explanation
Indices: 34591433--34591474 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
34591423 TTTTCAATCA
*
34591433 TCTCTCATCCCTCTCATC
1 TCTCTCATCCCTCTCAAC
*
34591451 TCTCATCATCTCTCTCAAC
1 TCTC-TCATCCCTCTCAAC
34591470 TCTCT
1 TCTCT
34591475 TAGCTCTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.14, C:0.45, G:0.00, T:0.40
Consensus pattern (18 bp):
TCTCTCATCCCTCTCAAC
Found at i:34594989 original size:15 final size:15
Alignment explanation
Indices: 34594969--34594998 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34594959 TAGATATACC
34594969 ATTCATTCAACAATT
1 ATTCATTCAACAATT
*
34594984 ATTCATTTAACAATT
1 ATTCATTCAACAATT
34594999 CACATTCCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTCATTCAACAATT
Found at i:34595141 original size:13 final size:13
Alignment explanation
Indices: 34595101--34595133 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
34595091 ATATAATCGA
34595101 TTCATATAGCCAT
1 TTCATATAGCCAT
*
34595114 TTCATATAACCAT
1 TTCATATAGCCAT
34595127 TTCATAT
1 TTCATAT
34595134 GGTCATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.42
Consensus pattern (13 bp):
TTCATATAGCCAT
Found at i:34599317 original size:22 final size:22
Alignment explanation
Indices: 34599292--34599340 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
34599282 CGCCCGTGTC
34599292 TTAGGCCGTGTGGGTATTTGAA
1 TTAGGCCGTGTGGGTATTTGAA
34599314 TTAGGCCGTGTGGGTATTTGAA
1 TTAGGCCGTGTGGGTATTTGAA
*
34599336 ATAGG
1 TTAGG
34599341 GACACACGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.08, G:0.37, T:0.35
Consensus pattern (22 bp):
TTAGGCCGTGTGGGTATTTGAA
Found at i:34609850 original size:50 final size:50
Alignment explanation
Indices: 34609696--34609850 Score: 125
Period size: 50 Copynumber: 3.1 Consensus size: 50
34609686 TTGGGGAAAC
* * * * * *
34609696 AAGATTCACCGGTGTGGCTTTAATCTGTTCCACTGCACCTCCTGGGGAGT
1 AAGATTCACCGATGTGGCTTTAATCTATTCCACTGAATCGCTTGGGGAGT
** * * * * ** * *
34609746 AAGATTTGCTGTTATAGCTTTAATCTATTTAACTGCAAT-G-TCGGGGAAGC
1 AAGATTCACCGATGTGGCTTTAATCTATTCCACTG-AATCGCTTGGGG-AGT
*
34609796 AAGATTCACCGATGTGGCTTTAATCTATTCCACTGTATCGCTTGGGGAGT
1 AAGATTCACCGATGTGGCTTTAATCTATTCCACTGAATCGCTTGGGGAGT
34609846 AAGAT
1 AAGAT
34609851 CTGTAATTCT
Statistics
Matches: 75, Mismatches: 26, Indels: 8
0.69 0.24 0.07
Matches are distributed among these distances:
49 6 0.08
50 63 0.84
51 6 0.08
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (50 bp):
AAGATTCACCGATGTGGCTTTAATCTATTCCACTGAATCGCTTGGGGAGT
Done.