Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 104 of 141
Found at i:29539908 original size:176 final size:176
Alignment explanation
Indices: 29539614--29540159 Score: 1092
Period size: 176 Copynumber: 3.1 Consensus size: 176
29539604 AGTATAAAAA
29539614 ACAATACTGCAATATATTTGACTTTTTGATTTAAATTTATATGTATTATATATTTATTATATTAT
1 ACAATACTGCAATATATTTGACTTTTTGATTTAAATTTATATGTATTATATATTTATTATATTAT
29539679 AAATATATTTTTAAAAAATTACAAATAATATATATTAAAAGTCATTTAAGTTCATCAATTTGGTT
66 AAATATATTTTTAAAAAATTACAAATAATATATATTAAAAGTCATTTAAGTTCATCAATTTGGTT
29539744 ATGAAAATTTATATTTTGATAACTGACCAACTTAACTTTTTTTAAT
131 ATGAAAATTTATATTTTGATAACTGACCAACTTAACTTTTTTTAAT
29539790 ACAATACTGCAATATATTTGACTTTTTGATTTAAATTTATATGTATTATATATTTATTATATTAT
1 ACAATACTGCAATATATTTGACTTTTTGATTTAAATTTATATGTATTATATATTTATTATATTAT
29539855 AAATATATTTTTAAAAAATTACAAATAATATATATTAAAAGTCATTTAAGTTCATCAATTTGGTT
66 AAATATATTTTTAAAAAATTACAAATAATATATATTAAAAGTCATTTAAGTTCATCAATTTGGTT
29539920 ATGAAAATTTATATTTTGATAACTGACCAACTTAACTTTTTTTAAT
131 ATGAAAATTTATATTTTGATAACTGACCAACTTAACTTTTTTTAAT
29539966 ACAATACTGCAATATATTTGACTTTTTGATTTAAATTTATATGTATTATATATTTATTATATTAT
1 ACAATACTGCAATATATTTGACTTTTTGATTTAAATTTATATGTATTATATATTTATTATATTAT
29540031 AAATATATTTTTAAAAAATTACAAATAATATATATTAAAAGTCATTTAAGTTCATCAATTTGGTT
66 AAATATATTTTTAAAAAATTACAAATAATATATATTAAAAGTCATTTAAGTTCATCAATTTGGTT
29540096 ATGAAAATTTATATTTTGATAACTGACCAACTTAACTTTTTTTAAT
131 ATGAAAATTTATATTTTGATAACTGACCAACTTAACTTTTTTTAAT
29540142 ACAATACTGCAATATATT
1 ACAATACTGCAATATATT
29540160 AAAACCTTTC
Statistics
Matches: 370, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
176 370 1.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (176 bp):
ACAATACTGCAATATATTTGACTTTTTGATTTAAATTTATATGTATTATATATTTATTATATTAT
AAATATATTTTTAAAAAATTACAAATAATATATATTAAAAGTCATTTAAGTTCATCAATTTGGTT
ATGAAAATTTATATTTTGATAACTGACCAACTTAACTTTTTTTAAT
Found at i:29542335 original size:23 final size:23
Alignment explanation
Indices: 29542305--29542354 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
29542295 GCCAAATCAC
*
29542305 AATCGGAAGAGTTAAGCGGAGCT
1 AATCGGAAGAGTTAAGCGAAGCT
29542328 AATCGGAAGAGTTAAGCGAAGCT
1 AATCGGAAGAGTTAAGCGAAGCT
29542351 AATC
1 AATC
29542355 TGAACTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.14, G:0.30, T:0.18
Consensus pattern (23 bp):
AATCGGAAGAGTTAAGCGAAGCT
Found at i:29543382 original size:82 final size:82
Alignment explanation
Indices: 29543296--29543448 Score: 227
Period size: 82 Copynumber: 1.9 Consensus size: 82
29543286 TACAACACAT
* * *
29543296 CGGCACGAAACCTGCTAGACACAAAGCCTGATATAATACACCAG-CACGAAGCCTACTAGGCTCA
1 CGGCACGAAACCTGATAGACACAAAGCCTGATATAATACA-CAGACACGAAGCCTACTAAGCACA
29543360 AAGCCTATTACGGTACAC
65 AAGCCTATTACGGTACAC
** * *
29543378 CGGCACGAAGTCTGATAGGCACAAAGCCTGATATAATACACTGACACGAAGCCTACTAAGCACAA
1 CGGCACGAAACCTGATAGACACAAAGCCTGATATAATACACAGACACGAAGCCTACTAAGCACAA
29543443 AGCCTA
66 AGCCTA
29543449 ATAATATACA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
81 2 0.03
82 61 0.97
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.16
Consensus pattern (82 bp):
CGGCACGAAACCTGATAGACACAAAGCCTGATATAATACACAGACACGAAGCCTACTAAGCACAA
AGCCTATTACGGTACAC
Found at i:29543428 original size:41 final size:41
Alignment explanation
Indices: 29543240--29543472 Score: 142
Period size: 41 Copynumber: 5.7 Consensus size: 41
29543230 ATATAACTTA
* * * * * *
29543240 CCTGATACAATACACCGACACAAAGACTGCTAGGCTC-AAG
1 CCTGATATAATACACTGACACGAAGCCTGATAGGCACAAAG
* * * * * *
29543280 ACCTGATACAACACA-TCGGCACGAAACCTGCTAGACACAAAG
1 -CCTGATATAATACACT-GACACGAAGCCTGATAGGCACAAAG
* *
29543322 CCTGATATAATACAC-CAGCACGAAGCCT-ACTAGGCTCAAAG
1 CCTGATATAATACACTGA-CACGAAGCCTGA-TAGGCACAAAG
* * * *
29543363 CCT-AT-TACGGTACACCGGCACGAAGTCTGATAGGCACAAAG
1 CCTGATATA--ATACACTGACACGAAGCCTGATAGGCACAAAG
*
29543404 CCTGATATAATACACTGACACGAAGCCT-ACTAAGCACAAAG
1 CCTGATATAATACACTGACACGAAGCCTGA-TAGGCACAAAG
* *
29543445 CCTAATA-ATATACATTG-CACGAAGCCTG
1 CCTGATATA-ATACACTGACACGAAGCCTG
29543473 TTGGATTCAA
Statistics
Matches: 150, Mismatches: 28, Indels: 28
0.73 0.14 0.14
Matches are distributed among these distances:
39 2 0.01
40 14 0.09
41 126 0.84
42 6 0.04
43 2 0.01
ACGTcount: A:0.37, C:0.28, G:0.18, T:0.17
Consensus pattern (41 bp):
CCTGATATAATACACTGACACGAAGCCTGATAGGCACAAAG
Found at i:29548865 original size:29 final size:29
Alignment explanation
Indices: 29548778--29548866 Score: 72
Period size: 29 Copynumber: 3.0 Consensus size: 29
29548768 ATATTTAGAA
* *
29548778 TTTTTTATTTAAGT-TACTGAACTATTCGAAA
1 TTTTTTATTTAAGTCT-CTAAACTATT--AAT
* * *** *
29548809 GTTTTTATTTAAGTCTTTAGGTTGTTAAT
1 TTTTTTATTTAAGTCTCTAAACTATTAAT
29548838 TTTTTTATTTAAGTCTCTAAACTATTAAT
1 TTTTTTATTTAAGTCTCTAAACTATTAAT
29548867 AAGTTTGACT
Statistics
Matches: 43, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
29 25 0.58
31 17 0.40
32 1 0.02
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (29 bp):
TTTTTTATTTAAGTCTCTAAACTATTAAT
Found at i:29550710 original size:17 final size:17
Alignment explanation
Indices: 29550688--29550727 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
29550678 TATTTTTATT
29550688 TTTTATCTCCCCTTCTC
1 TTTTATCTCCCCTTCTC
*
29550705 TTTTATCTCCCCTTTTC
1 TTTTATCTCCCCTTCTC
29550722 TTTTAT
1 TTTTAT
29550728 TATTCTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTATCTCCCCTTCTC
Found at i:29559473 original size:21 final size:21
Alignment explanation
Indices: 29559443--29559490 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 21
29559433 AACCCAATAA
29559443 GCAAGAAAAATGAACATCAATG
1 GCAA-AAAAATGAACATCAATG
29559465 GCAAAAAAATGAACATCAATG
1 GCAAAAAAATGAACATCAATG
29559486 GCAAA
1 GCAAA
29559491 CACAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (21 bp):
GCAAAAAAATGAACATCAATG
Found at i:29560011 original size:22 final size:23
Alignment explanation
Indices: 29559985--29560029 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
29559975 CATGATAGTG
29559985 GTATCACGACACCCAT-ACAATA
1 GTATCACGACACCCATGACAATA
** *
29560007 GTATCGTGAGACCCATGACAATA
1 GTATCACGACACCCATGACAATA
29560030 TGGAATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.20
Consensus pattern (23 bp):
GTATCACGACACCCATGACAATA
Found at i:29567713 original size:15 final size:16
Alignment explanation
Indices: 29567683--29567715 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
29567673 GGGGTAACAT
29567683 ATAAATTCTATTTTAA
1 ATAAATTCTATTTTAA
*
29567699 ATAAATT-TGTTTTAA
1 ATAAATTCTATTTTAA
29567714 AT
1 AT
29567716 TTTAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (16 bp):
ATAAATTCTATTTTAA
Found at i:29600121 original size:47 final size:47
Alignment explanation
Indices: 29600069--29600425 Score: 534
Period size: 47 Copynumber: 7.6 Consensus size: 47
29600059 GATAATTGTG
* * *
29600069 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29600116 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
29600163 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29600210 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29600259 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29600306 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
29600353 ATGTGAAAATGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29600400 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
29600426 TCCCGAAGGG
Statistics
Matches: 281, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
47 237 0.84
49 44 0.16
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:29600223 original size:143 final size:142
Alignment explanation
Indices: 29600069--29600425 Score: 558
Period size: 143 Copynumber: 2.5 Consensus size: 142
29600059 GATAATTGTG
*
29600069 ATGTG-AATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATATA
1 ATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
29600133 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
66 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
29600198 CCAATGTGATGA
131 CCAATGTGATGA
*
29600210 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
29600275 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATG
65 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
*
29600340 GCCGATGTGATGA
130 GCCAATGTGATGA
* * * * * * * *
29600353 ATGTGAAAATG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAA
1 ATGTG-AAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
29600416 ATGTGATAAG
65 ATGTGATAAG
29600426 TCCCGAAGGG
Statistics
Matches: 199, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
141 58 0.29
142 2 0.01
143 136 0.68
144 3 0.02
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (142 bp):
ATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
CCAATGTGATGA
Found at i:29614342 original size:13 final size:14
Alignment explanation
Indices: 29614317--29614345 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
29614307 ATAATAAGAA
29614317 AATAAATAAACAAG
1 AATAAATAAACAAG
29614331 AATAAA-AAACAAG
1 AATAAATAAACAAG
29614344 AA
1 AA
29614346 ATCAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (14 bp):
AATAAATAAACAAG
Found at i:29615107 original size:59 final size:59
Alignment explanation
Indices: 29615010--29615252 Score: 468
Period size: 59 Copynumber: 4.1 Consensus size: 59
29615000 TGTCCATTTA
29615010 TGGACTTAGAATGGTCATTGACCTTAACCCTAGGTCAATTGACGTTCTCAAGCTTAAATT
1 TGGA-TTAGAATGGTCATTGACCTTAACCCTAGGTCAATTGACGTTCTCAAGCTTAAATT
29615070 TGGATTAGAATGGTCATTGACCTTAACCCTAGGTCAATTGACGTTCTCAAGCTTAAATT
1 TGGATTAGAATGGTCATTGACCTTAACCCTAGGTCAATTGACGTTCTCAAGCTTAAATT
29615129 TGGATTAGAATGGTCATTGACCTTAACCCTAGGTCAATTGACGTTCTCAAGCTTAAATT
1 TGGATTAGAATGGTCATTGACCTTAACCCTAGGTCAATTGACGTTCTCAAGCTTAAATT
*
29615188 TGGATTAGAATGGTCATTGACCTTAACCCTAGGTCAATTGACGTTCTCGAGCTTAAATT
1 TGGATTAGAATGGTCATTGACCTTAACCCTAGGTCAATTGACGTTCTCAAGCTTAAATT
29615247 TGGATT
1 TGGATT
29615253 GTGCAAACCA
Statistics
Matches: 182, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
59 178 0.98
60 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (59 bp):
TGGATTAGAATGGTCATTGACCTTAACCCTAGGTCAATTGACGTTCTCAAGCTTAAATT
Found at i:29618064 original size:20 final size:19
Alignment explanation
Indices: 29618000--29618096 Score: 59
Period size: 21 Copynumber: 4.8 Consensus size: 19
29617990 AGGGGTACCA
*
29618000 AAGTACAAATAGGGGCACAT
1 AAGTACAAATAGGGGCAC-G
* * * *
29618020 AAATGCAATTCAGGGGTACAG
1 AAGTACAAAT-AGGGGCAC-G
29618041 AAGTACAAATAGGGGCACG
1 AAGTACAAATAGGGGCACG
* * *
29618060 TAAGTGCAATTCAGGGGTACCG
1 -AAGTACAAAT-AGGGGCA-CG
*
29618082 AAGTACAAACAGGGG
1 AAGTACAAATAGGGG
29618097 ATAATTAACA
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
19 1 0.02
20 27 0.47
21 28 0.48
22 2 0.03
ACGTcount: A:0.39, C:0.15, G:0.30, T:0.15
Consensus pattern (19 bp):
AAGTACAAATAGGGGCACG
Found at i:29618096 original size:41 final size:41
Alignment explanation
Indices: 29617888--29618096 Score: 274
Period size: 41 Copynumber: 5.1 Consensus size: 41
29617878 AAGTGTAACC
*
29617888 GGGGCACGTAAGTGCAATTCAGGGGTACCGAAGTACAAATA
1 GGGGCACATAAGTGCAATTCAGGGGTACCGAAGTACAAATA
* ** * ** * **
29617929 AGGGCGTATAAGTGCAATTTAGCAGTACCAAAGTACAAGCA
1 GGGGCACATAAGTGCAATTCAGGGGTACCGAAGTACAAATA
* *
29617970 GGGACACATAAGTGCAATTCAGGGGTACCAAAGTACAAATA
1 GGGGCACATAAGTGCAATTCAGGGGTACCGAAGTACAAATA
* *
29618011 GGGGCACATAAATGCAATTCAGGGGTACAGAAGTACAAATA
1 GGGGCACATAAGTGCAATTCAGGGGTACCGAAGTACAAATA
* *
29618052 GGGGCACGTAAGTGCAATTCAGGGGTACCGAAGTACAAACA
1 GGGGCACATAAGTGCAATTCAGGGGTACCGAAGTACAAATA
29618093 GGGG
1 GGGG
29618097 ATAATTAACA
Statistics
Matches: 141, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 141 1.00
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (41 bp):
GGGGCACATAAGTGCAATTCAGGGGTACCGAAGTACAAATA
Found at i:29618301 original size:17 final size:17
Alignment explanation
Indices: 29618281--29618318 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
29618271 AATTAAATAT
29618281 TTCAA-TCAATCTCAAAA
1 TTCAATTCAATC-CAAAA
*
29618298 TTCAATTCAATCCATAA
1 TTCAATTCAATCCAAAA
29618315 TTCA
1 TTCA
29618319 CATTTATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (17 bp):
TTCAATTCAATCCAAAA
Found at i:29630670 original size:32 final size:32
Alignment explanation
Indices: 29630625--29630693 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
29630615 CGTCCCTGCT
*
29630625 TTGT-AAGGATGTTGAGTATTGGGGTTCATAC
1 TTGTCAAGGATGTTGAGAATTGGGGTTCATAC
*
29630656 TTGTCAAGGATGTTGAGAATTGGGGTTCATAT
1 TTGTCAAGGATGTTGAGAATTGGGGTTCATAC
29630688 TTGTCA
1 TTGTCA
29630694 CTCATTATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 4 0.11
32 31 0.89
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.39
Consensus pattern (32 bp):
TTGTCAAGGATGTTGAGAATTGGGGTTCATAC
Found at i:29639962 original size:138 final size:137
Alignment explanation
Indices: 29639690--29640041 Score: 571
Period size: 138 Copynumber: 2.6 Consensus size: 137
29639680 ACATGGATAA
29639690 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* *
29639755 -AAAAATTATATTAATTAATTTTGGTCAAAATATAAAAGACATAGAAATTAATATTATTTCGGAA
66 TAAAAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATAGAAATTAATATTATTTCGGAA
*
29639819 TGAATAT
131 AGAATAT
* * *
29639826 AATTAATATATGAATTTGATTCATACAAAATATTAGTTGTATATATTTTATCAAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* * **
29639891 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTTGA
66 TAAA-AGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATAGAAATTAATATTATTTCGGA
29639956 AAGAATAT
130 AAGAATAT
* *
29639964 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATGTTTTACCGAATTTGTTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
29640029 TAAATAGTTATAT
66 TAAA-AGTTATAT
29640042 CACTACACCA
Statistics
Matches: 198, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
136 62 0.31
137 3 0.02
138 133 0.67
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (137 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
TAAAAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATAGAAATTAATATTATTTCGGAA
AGAATAT
Found at i:29640179 original size:39 final size:39
Alignment explanation
Indices: 29640091--29640186 Score: 113
Period size: 39 Copynumber: 2.4 Consensus size: 39
29640081 CGTTTGGATA
* * * *
29640091 AAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTAAA-AATAAGCATTAGCGGCGCTTTTTC
*
29640131 GAAAACGCCGCTAAAAATAAGCATTAGCGGCG-TTTTTC
1 AAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTTC
*
29640169 AAAAAGCGCCGCAAAAAA
1 AAAAA-CGCCGCTAAAAA
29640187 CCTAAGCCCT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 9 0.19
39 25 0.52
40 14 0.29
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.21
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTTC
Found at i:29640290 original size:41 final size:41
Alignment explanation
Indices: 29640229--29640401 Score: 192
Period size: 41 Copynumber: 4.2 Consensus size: 41
29640219 AGGATTTTGT
*
29640229 GGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGGGTTTTAGC
1 GGCGTTTTTTTAAAAGCGCCGCTAATGCTCAGGGTTTTAGC
29640270 GGCGTTTTTTGTAAAA-CGCCGCTAATGCTCA-GGTATTTAGC
1 GGCGTTTTTT-TAAAAGCGCCGCTAATGCTCAGGGT-TTTAGC
* * *
29640311 GGCG-TTTTTTAAAATGCGCCACTAATGCTTAGGATTTTAGC
1 GGCGTTTTTTTAAAA-GCGCCGCTAATGCTCAGGGTTTTAGC
* * * **
29640352 GGCGTTTTTTAAAAAGTGCCACTAATAATCA-GGTCTTTAGC
1 GGCGTTTTTTTAAAAGCGCCGCTAATGCTCAGGGT-TTTAGC
*
29640393 GACGTTTTT
1 GGCGTTTTT
29640402 AAAGCGCCAT
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
39 5 0.04
40 10 0.09
41 84 0.74
42 15 0.13
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (41 bp):
GGCGTTTTTTTAAAAGCGCCGCTAATGCTCAGGGTTTTAGC
Found at i:29640377 original size:82 final size:82
Alignment explanation
Indices: 29640229--29640401 Score: 231
Period size: 82 Copynumber: 2.1 Consensus size: 82
29640219 AGGATTTTGT
* * * *
29640229 GGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTTTTGTAAAACGCCGCTA
1 GGCGTTTTTTAAAAAGCGCCACTAATGCTCAGGATTTTAGCGGCGTTTTTTGAAAAACGCCACTA
**
29640294 ATGCTCAGGTATTTAGC
66 ATAATCAGGTATTTAGC
* * *
29640311 GGCGTTTTTTAAAATGCGCCACTAATGCTTAGGATTTTAGCGGCGTTTTTT-AAAAAGTGCCACT
1 GGCGTTTTTTAAAAAGCGCCACTAATGCTCAGGATTTTAGCGGCGTTTTTTGAAAAA-CGCCACT
*
29640375 AATAATCAGGTCTTTAGC
65 AATAATCAGGTATTTAGC
*
29640393 GACGTTTTT
1 GGCGTTTTT
29640402 AAAGCGCCAT
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 4 0.05
82 75 0.95
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (82 bp):
GGCGTTTTTTAAAAAGCGCCACTAATGCTCAGGATTTTAGCGGCGTTTTTTGAAAAACGCCACTA
ATAATCAGGTATTTAGC
Found at i:29641257 original size:7 final size:8
Alignment explanation
Indices: 29641231--29641256 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
29641221 TTACTTGTCA
29641231 TTTCTGAT
1 TTTCTGAT
29641239 TTTCTGAT
1 TTTCTGAT
29641247 TTTCTGAT
1 TTTCTGAT
29641255 TT
1 TT
29641257 CAGTATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (8 bp):
TTTCTGAT
Found at i:29642543 original size:20 final size:21
Alignment explanation
Indices: 29642507--29642546 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29642497 ATATATCTCA
*
29642507 TTTTAACATATATAAAATAAT
1 TTTTAACAAATATAAAATAAT
29642528 TTTTAACAAATA-AAAATAA
1 TTTTAACAAATATAAAATAA
29642547 ATAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTTAACAAATATAAAATAAT
Found at i:29643551 original size:16 final size:16
Alignment explanation
Indices: 29643530--29643560 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
29643520 TGTAACTTAT
29643530 CTGATGTTTACAATAA
1 CTGATGTTTACAATAA
29643546 CTGATGTTTACAATA
1 CTGATGTTTACAATA
29643561 GCTTGGGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (16 bp):
CTGATGTTTACAATAA
Found at i:29644574 original size:17 final size:19
Alignment explanation
Indices: 29644536--29644573 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
29644526 AATAAAACAT
*
29644536 AATATAATATTTATATAAA
1 AATATAATATTTAAATAAA
29644555 AATA-AATATTTAAATAAA
1 AATATAATATTTAAATAAA
29644573 A
1 A
29644574 TTTTTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATATAATATTTAAATAAA
Found at i:29644766 original size:42 final size:43
Alignment explanation
Indices: 29644592--29644864 Score: 223
Period size: 43 Copynumber: 6.3 Consensus size: 43
29644582 ATGTTATGTT
* * * * * *
29644592 TTTAGCGGCGTTTTTGCGAGAAGCGACGCTAAAG-GCTTG-TT
1 TTTAGCGGCGTTTTTGCTAAAAGCGCCGCTAAAGATCGTGATC
* * * * * * *
29644633 TTATAGCGGCGTTTGTGGCAAAAAGTGTCACTAAAGATCATGACC
1 TT-TAGCGGCGTTT-TTGCTAAAAGCGCCGCTAAAGATCGTGATC
* * * * * *
29644678 TTTAGCGGCGTCTGTGATAAAAAGCACCGCTAAAGCTTGTGATC
1 TTTAGCGGCGTTTTTGCT-AAAAGCGCCGCTAAAGATCGTGATC
* *
29644722 TTTAGCGGCGTTTTTG-TAAAAGCGCCGCTAAAGGTCGTGTTC
1 TTTAGCGGCGTTTTTGCTAAAAGCGCCGCTAAAGATCGTGATC
* * * *
29644764 TTTAGCGGCGTTTTTTG-TAAAGGCGCTGCTAAAGTTCATGATC
1 TTTAGCGGCG-TTTTTGCTAAAAGCGCCGCTAAAGATCGTGATC
* *
29644807 TTTAGCGGCGTTTGTGGC-AAAAGCGCCGCTAAAGACCGTGATC
1 TTTAGCGGCGTTT-TTGCTAAAAGCGCCGCTAAAGATCGTGATC
29644850 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
29644865 TCACATAAAC
Statistics
Matches: 183, Mismatches: 41, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.01
42 46 0.25
43 89 0.49
44 44 0.24
45 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGCTAAAAGCGCCGCTAAAGATCGTGATC
Found at i:29644861 original size:86 final size:88
Alignment explanation
Indices: 29644636--29644865 Score: 263
Period size: 86 Copynumber: 2.6 Consensus size: 88
29644626 GCTTGTTTTA
* * * * * * *
29644636 TAGCGGCGTTTGTGGCAAAAAGTGTCACTAAAGATCATGACCTTTAGCGGCG-TCTGTGATAAAA
1 TAGCGGCGTTTGTGGC-AAAAGCGCCGCTAAAGATCGTGATCTTTAGCGGCGTTTTTTGATAAAA
*
29644700 AGCACCGCTAAAGCTTGTGATCTT
65 AGCACCGCTAAAGCTTATGATCTT
* * * * *
29644724 TAGCGGCGTTT-TTGTAAAAGCGCCGCTAAAGGTCGTGTTCTTTAGCGGCGTTTTTTG-T-AAAG
1 TAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGATCGTGATCTTTAGCGGCGTTTTTTGATAAAAA
* *
29644786 GCGCTGCTAAAG-TTCATGATCTT
66 GCACCGCTAAAGCTT-ATGATCTT
*
29644809 TAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGACCGTGATCTTTAGCGGCGTTTTTT
1 TAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGATCGTGATCTTTAGCGGCGTTTTTT
29644866 CACATAAACG
Statistics
Matches: 119, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
84 2 0.02
85 31 0.26
86 69 0.58
87 6 0.05
88 11 0.09
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (88 bp):
TAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGATCGTGATCTTTAGCGGCGTTTTTTGATAAAAA
GCACCGCTAAAGCTTATGATCTT
Found at i:29645289 original size:75 final size:75
Alignment explanation
Indices: 29645162--29645308 Score: 235
Period size: 75 Copynumber: 2.0 Consensus size: 75
29645152 ATGAAAATTA
*
29645162 ATATTCTTTTAGAAAGAATATAATTCATTTTTCTAACTTTCCTTTTGTCTTCTCTATTAAT-AAG
1 ATATTCTTTTAGAAAGAATATAATTCATTTTTCTAACTTTCCTTTTGCCTTCTCTATTAATAAAG
29645226 GAAATAATGCT
66 G-AATAATGCT
* *
29645237 ATATTCTTTTGGAAAGAATATAATTCCTTTTTCTAACTTTCCATTTT-CCTTCTCTATTAATAAA
1 ATATTCTTTTAGAAAGAATATAATTCATTTTTCTAACTTTCC-TTTTGCCTTCTCTATTAATAAA
29645301 GGAATAAT
65 GGAATAAT
29645309 CTTGGTTTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
75 59 0.88
76 8 0.12
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.46
Consensus pattern (75 bp):
ATATTCTTTTAGAAAGAATATAATTCATTTTTCTAACTTTCCTTTTGCCTTCTCTATTAATAAAG
GAATAATGCT
Found at i:29645881 original size:17 final size:17
Alignment explanation
Indices: 29645859--29645891 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
29645849 ATGAATGAAA
29645859 AAATGTTAG-GGCAATTG
1 AAATGTT-GTGGCAATTG
29645876 AAATGTTGTGGCAATT
1 AAATGTTGTGGCAATT
29645892 CTCAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (17 bp):
AAATGTTGTGGCAATTG
Found at i:29648927 original size:30 final size:30
Alignment explanation
Indices: 29648876--29648944 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
29648866 ATTGCATACA
* * * *
29648876 AAAACGGATGGCTTCGGCTATC-GATCTATC
1 AAAAGGGATAGCTTCGACTATCAAAT-TATC
*
29648906 AAAAGGGATAGCTTCGACTATCAAATTATG
1 AAAAGGGATAGCTTCGACTATCAAATTATC
29648936 AAAAGGGAT
1 AAAAGGGAT
29648945 GGCGACGACA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (30 bp):
AAAAGGGATAGCTTCGACTATCAAATTATC
Found at i:29649001 original size:30 final size:30
Alignment explanation
Indices: 29648906--29649004 Score: 101
Period size: 30 Copynumber: 3.3 Consensus size: 30
29648896 TCGATCTATC
* ** *
29648906 AAAAGGGATAGCTTCGACTATCAAATTATG
1 AAAAGGGATGGCAACGACCATCAAATTATG
* * *
29648936 AAAAGGGATGGCGACGA-CACTCGAATAATG
1 AAAAGGGATGGCAACGACCA-TCAAATTATG
* *
29648966 TAAAGGGATGGTAACGACCATCAAATTATG
1 AAAAGGGATGGCAACGACCATCAAATTATG
29648996 AAAAGGGAT
1 AAAAGGGAT
29649005 AACTTTGGTT
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
29 1 0.02
30 52 0.95
31 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.20
Consensus pattern (30 bp):
AAAAGGGATGGCAACGACCATCAAATTATG
Found at i:29663125 original size:50 final size:50
Alignment explanation
Indices: 29663050--29663192 Score: 214
Period size: 50 Copynumber: 2.8 Consensus size: 50
29663040 ATTTGGGTAA
*
29663050 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
29663100 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
29663150 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
29663193 TGTTATTATC
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 48 0.59
51 34 0.41
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:29671873 original size:46 final size:46
Alignment explanation
Indices: 29671822--29671915 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
29671812 ATAGTGTGGC
29671822 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
* * *
29671868 GTTCATCATATACCAAGGTTCTTATCATTCTTGATAGTGGGTTGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
29671914 GT
1 GT
29671916 ATTTTAAACC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.36
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:29690014 original size:24 final size:24
Alignment explanation
Indices: 29689985--29690030 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
29689975 TATGGAGAAA
*
29689985 GCTTGAAAAGAAAATGTTGTCAAT
1 GCTTGAAAAAAAAATGTTGTCAAT
29690009 GCTTGAAAAAAAAATGTTGTCA
1 GCTTGAAAAAAAAATGTTGTCA
29690031 CCAAAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (24 bp):
GCTTGAAAAAAAAATGTTGTCAAT
Found at i:29691758 original size:53 final size:53
Alignment explanation
Indices: 29691678--29691783 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
29691668 TATTGATTAA
29691678 AACACATGATTAATGTGGGACGATTGGTGGATGCGTTTTTCAAAATTTATATG
1 AACACATGATTAATGTGGGACGATTGGTGGATGCGTTTTTCAAAATTTATATG
*
29691731 AACACATGATTAATGTGGGTCGATTGGTGGATGCGTTTTTCAAAATTTATATG
1 AACACATGATTAATGTGGGACGATTGGTGGATGCGTTTTTCAAAATTTATATG
29691784 TTATTTTAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.37
Consensus pattern (53 bp):
AACACATGATTAATGTGGGACGATTGGTGGATGCGTTTTTCAAAATTTATATG
Found at i:29692880 original size:20 final size:20
Alignment explanation
Indices: 29692832--29692880 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
29692822 GTTTGTACGG
*
29692832 GTTTGCCCTTTGGTGCCTCT
1 GTTTGCACTTTGGTGCCTCT
* *
29692852 -TTTCACACTTTGGTGTCTCT
1 GTTT-GCACTTTGGTGCCTCT
29692872 GTTTGCACT
1 GTTTGCACT
29692881 CCAGTGCCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
19 3 0.13
20 17 0.74
21 3 0.13
ACGTcount: A:0.06, C:0.27, G:0.20, T:0.47
Consensus pattern (20 bp):
GTTTGCACTTTGGTGCCTCT
Found at i:29709254 original size:10 final size:10
Alignment explanation
Indices: 29709239--29709284 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
29709229 CTTTATATTT
29709239 TAAAAAATTA
1 TAAAAAATTA
29709249 TAAAAAA--A
1 TAAAAAATTA
*
29709257 TAAAAAATTC
1 TAAAAAATTA
*
29709267 TAAAGAATATA
1 TAAAAAAT-TA
29709278 TAAAAAA
1 TAAAAAA
29709285 AATTTATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
8 8 0.28
10 14 0.48
11 7 0.24
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:29709262 original size:18 final size:21
Alignment explanation
Indices: 29709239--29709284 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 21
29709229 CTTTATATTT
29709239 TAAAAAATTATAAA-AA-A-A
1 TAAAAAATTATAAAGAATATA
*
29709257 TAAAAAATTCTAAAGAATATA
1 TAAAAAATTATAAAGAATATA
29709278 TAAAAAA
1 TAAAAAA
29709285 AATTTATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 13 0.54
19 2 0.08
20 1 0.04
21 8 0.33
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAAAAATTATAAAGAATATA
Found at i:29710909 original size:43 final size:43
Alignment explanation
Indices: 29710791--29710920 Score: 194
Period size: 43 Copynumber: 3.1 Consensus size: 43
29710781 TTTTAAAAAT
* *
29710791 AAACGCCGCTAAAGAACAAGACCTTTAGCGACACTTCTACCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
*
29710834 AAACGCCGCTAAAG---AAGACCTTTAACGGCGCTTCTACCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
* *
29710874 AAACGCCGTTAAAGAACAAGACCTTTAGCGGCGCTTCTACAAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
29710917 AAAC
1 AAAC
29710921 ATCATTATAA
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
40 36 0.46
43 42 0.54
ACGTcount: A:0.36, C:0.31, G:0.16, T:0.17
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
Found at i:29717874 original size:45 final size:45
Alignment explanation
Indices: 29717825--29718147 Score: 592
Period size: 45 Copynumber: 7.2 Consensus size: 45
29717815 TCGGCCATGG
* * * * *
29717825 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
29717870 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
29717915 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
29717960 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
29718005 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
29718050 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
29718095 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
29718140 TGCTTCCT
1 TGCTTCCT
29718148 TAATTTCATG
Statistics
Matches: 271, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 271 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:29718519 original size:20 final size:20
Alignment explanation
Indices: 29718494--29718540 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
29718484 AATTAAGCTT
*
29718494 GAATGAGCTGACTTGAGCAC
1 GAATGAGCTAACTTGAGCAC
*
29718514 GAATGAGCTAACTTGAGCTC
1 GAATGAGCTAACTTGAGCAC
29718534 GAATGAG
1 GAATGAG
29718541 TTGAACCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (20 bp):
GAATGAGCTAACTTGAGCAC
Found at i:29721455 original size:20 final size:20
Alignment explanation
Indices: 29721430--29721484 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
29721420 ACGAGTTAAA
* *
29721430 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
29721450 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
29721470 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
29721485 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:29721737 original size:22 final size:21
Alignment explanation
Indices: 29721692--29721743 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
29721682 TAACTATTGA
*
29721692 AACCCTAAACCCCAAATCCCT
1 AACCCTTAACCCCAAATCCCT
*
29721713 AACCCTTAACCCTAAATCCCCT
1 AACCCTTAACCCCAAAT-CCCT
29721735 AACCCTTAA
1 AACCCTTAA
29721744 AGCATAGCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCTTAACCCCAAATCCCT
Found at i:29722226 original size:73 final size:74
Alignment explanation
Indices: 29722145--29722306 Score: 290
Period size: 73 Copynumber: 2.2 Consensus size: 74
29722135 GCGCTCTCTT
29722145 AAAAACGCCGCTAAATCCCCGAAAGTTCAGAAAACGGCGCCGTTGGGCTTAA-TTTTTTTTACGG
1 AAAAACGCCGCTAAATCCCCGAAAGTTCAGAAAACGGCGCCGTTGGGCTTAATTTTTTTTTACGG
29722209 CGATTTCCC
66 CGATTTCCC
*
29722218 AAAAACGCCGCTAAATCCCCGAAAGTTCAGAAAACGGCGCCGTTGGGCTTAATTTTTTTTTGCGG
1 AAAAACGCCGCTAAATCCCCGAAAGTTCAGAAAACGGCGCCGTTGGGCTTAATTTTTTTTTACGG
*
29722283 CGCTTTCCC
66 CGATTTCCC
*
29722292 AAAAACACCGCTAAA
1 AAAAACGCCGCTAAA
29722307 GCCTTGAGCA
Statistics
Matches: 85, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
73 52 0.61
74 33 0.39
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (74 bp):
AAAAACGCCGCTAAATCCCCGAAAGTTCAGAAAACGGCGCCGTTGGGCTTAATTTTTTTTTACGG
CGATTTCCC
Found at i:29722405 original size:187 final size:186
Alignment explanation
Indices: 29722020--29722419 Score: 631
Period size: 188 Copynumber: 2.1 Consensus size: 186
29722010 TGAGCATTAG
** * * *
29722020 CGGCGCTTTCTTACAAACGCCGATAAATCCCCGAAAGCTCAAAAAATGGCGCCGTTGGGCTTATT
1 CGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGCCGTTGGGCTTATT
*
29722085 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCAGTAGCGGCGCTCTCTTAAAAA
66 TTTTTTGCGGCGCTTTCCCAAAAACACCGCTAAAGCCCTGAGCAGTAGCGGCGCTCTCTTAAAAA
* *
29722150 CGCCGCTAAATCCCCGAAAGTTCAGAAAACGGCGCCGTTGGGCTTAATTTTTTTTA
131 CGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGCCGTTGGGCTTAATTTTTTTTA
* * *
29722206 CGGCGATTTCCCAAAAACGCCGCTAAATCCCCGAAAGTTCAGAAAACGGCGCCGTTGGGCTTAAT
1 CGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGCCGTTGGGCTT-A-
* * * *
29722271 TTTTTTTTGCGGCGCTTTCCCAAAAACACCGCTAAAGCCTTGAGCATTAGCGGTGCTTTCTTAAA
64 TTTTTTTTGCGGCGCTTTCCCAAAAACACCGCTAAAGCCCTGAGCAGTAGCGGCGCTCTCTTAAA
*
29722336 AGCGCCGCTAAATCCCC-AAAGCTCAGAAAACGACGCCGTTGGGCTTAATTTTTTTTA
129 AACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGCCGTTGGGCTTAATTTTTTTTA
29722393 CGGCGCTTTCCCAAAAACGCCGCTAAA
1 CGGCGCTTTCCCAAAAACGCCGCTAAA
29722420 GCCCTGAGCA
Statistics
Matches: 195, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
186 54 0.28
187 65 0.33
188 76 0.39
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (186 bp):
CGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGCCGTTGGGCTTATT
TTTTTTGCGGCGCTTTCCCAAAAACACCGCTAAAGCCCTGAGCAGTAGCGGCGCTCTCTTAAAAA
CGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGCCGTTGGGCTTAATTTTTTTTA
Found at i:29722428 original size:113 final size:113
Alignment explanation
Indices: 29722218--29722846 Score: 864
Period size: 113 Copynumber: 5.6 Consensus size: 113
29722208 GCGATTTCCC
* * *
29722218 AAAAACGCCGCTAAATCCC-CGAAAGTTCAGAAAACGGCGCCGTTGGGCTTAATTTTTTTTTGCG
1 AAAAACGCCGCTAAATCCCTC-AAAGCTCAGAAAACGGCACCGTTGGGCTT-A-GTTTTTTTGCG
* * *
29722282 GCGCTTTCCCAAAAACACCGCTAAAGCCTTGAGCATTAGCGGTGCTTTCTT
63 GCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
* * * * *
29722333 AAAAGCGCCGCTAAATCCC-CAAAGCTCAGAAAACGACGCCGTTGGGCTTAATTTTTTTTACGGC
1 AAAAACGCCGCTAAATCCCTCAAAGCTCAGAAAACGGCACCGTTGGGCTT-AGTTTTTTTGCGGC
29722397 GCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
65 GCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
* * * *
29722446 AAAAGCGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCACTGTTGGGCATAGTTTTTTTGCGGCG
1 AAAAACGCCGCTAAATCCCTCAAAGCTCAGAAAACGGCACCGTTGGGCTTAGTTTTTTTGCGGCG
*
29722511 CTTTGCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
66 CTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
* * * *
29722559 AAAAGCGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCACTGTTGGGCATAGTTTTTTTGCGGCG
1 AAAAACGCCGCTAAATCCCTCAAAGCTCAGAAAACGGCACCGTTGGGCTTAGTTTTTTTGCGGCG
* * * * *
29722624 CTTTTCCAAAAATGCCACTAAAGCCCTGGGCATTAGCAGCGCTTTCTT
66 CTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
* * *
29722672 AAAAACGCCGCTAAATCCCTGAAATCTTAGAAAAC-G----G-TGGGCTTAGTTTTTTTGCGGCG
1 AAAAACGCCGCTAAATCCCTCAAAGCTCAGAAAACGGCACCGTTGGGCTTAGTTTTTTTGCGGCG
29722731 CTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
66 CTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
* * *
29722779 AAAAACGCCACTAAATCCC-CGGAAGCTCAGAAAACGGCACCATTGGGCTTAG-TTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCTC-AAAGCTCAGAAAACGGCACCGTTGGGCTTAGTTTTTTTGCGGC
29722842 GCTTT
65 GCTTT
29722847 TTGGAAAACG
Statistics
Matches: 471, Mismatches: 35, Indels: 19
0.90 0.07 0.04
Matches are distributed among these distances:
107 93 0.20
108 2 0.00
112 17 0.04
113 286 0.61
114 54 0.11
115 19 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (113 bp):
AAAAACGCCGCTAAATCCCTCAAAGCTCAGAAAACGGCACCGTTGGGCTTAGTTTTTTTGCGGCG
CTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
Found at i:29724905 original size:31 final size:31
Alignment explanation
Indices: 29724862--29724930 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
29724852 CTTAACAGCC
29724862 TAGTAACTTAAATAAAAACTTTCGAATAATT
1 TAGTAACTTAAATAAAAACTTTCGAATAATT
* * * *
29724893 TAGTGACTTAAATGAACACTTTCGAATAGTT
1 TAGTAACTTAAATAAAAACTTTCGAATAATT
*
29724924 CAGTAAC
1 TAGTAAC
29724931 CAAATTGTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (31 bp):
TAGTAACTTAAATAAAAACTTTCGAATAATT
Found at i:29727614 original size:26 final size:25
Alignment explanation
Indices: 29727526--29727621 Score: 72
Period size: 26 Copynumber: 3.8 Consensus size: 25
29727516 AGCTTCGGAT
* *
29727526 AGCCATATATCGGGAAGTTCA-AGCA-
1 AGCCA-ATATCGGGAAGCTCACA-AAG
*
29727551 AGCC-ATATCGAGAAGCTCACAAAG
1 AGCCAATATCGGGAAGCTCACAAAG
* *
29727575 AGCCAATTAACGGGAAGCTCACGAAG
1 AGCCAA-TATCGGGAAGCTCACAAAG
* *
29727601 AGTCATATATCGGGATGCTCA
1 AGCCA-ATATCGGGAAGCTCA
29727622 TAAGATTTAA
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
23 14 0.25
24 5 0.09
25 5 0.09
26 32 0.56
27 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (25 bp):
AGCCAATATCGGGAAGCTCACAAAG
Found at i:29730379 original size:12 final size:12
Alignment explanation
Indices: 29730362--29730399 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
29730352 CCCTACATGC
29730362 CCGTGTGACAGG
1 CCGTGTGACAGG
29730374 CCGTGTGACAGG
1 CCGTGTGACAGG
*
29730386 CCGTGTGCCAGG
1 CCGTGTGACAGG
29730398 CC
1 CC
29730400 ATGTAACTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.13, C:0.32, G:0.39, T:0.16
Consensus pattern (12 bp):
CCGTGTGACAGG
Found at i:29736297 original size:13 final size:13
Alignment explanation
Indices: 29736279--29736303 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29736269 TTGAAACAAT
29736279 GTTTTACAAAATG
1 GTTTTACAAAATG
29736292 GTTTTACAAAAT
1 GTTTTACAAAAT
29736304 TACATGTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (13 bp):
GTTTTACAAAATG
Found at i:29753692 original size:13 final size:15
Alignment explanation
Indices: 29753659--29753698 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
29753649 TCTCACGTTT
29753659 ATTTTTTTCTTCTAC
1 ATTTTTTTCTTCTAC
*
29753674 A--ATTTTCTTCTA-
1 ATTTTTTTCTTCTAC
29753686 ATTTTTTTCTTCT
1 ATTTTTTTCTTCT
29753699 TTGATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
12 1 0.05
13 10 0.48
14 9 0.43
15 1 0.05
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTTCTTCTAC
Found at i:29754108 original size:155 final size:155
Alignment explanation
Indices: 29753826--29754138 Score: 617
Period size: 155 Copynumber: 2.0 Consensus size: 155
29753816 ATTATTTTAT
29753826 GGTCTACATTATGATAGAAATATCGTATAAAAATTTTGATAAGAATTTTTACCGATTACATGCCT
1 GGTCTACATTATGATAGAAATATCGTATAAAAATTTTGATAAGAATTTTTACCGATTACATGCCT
29753891 AATTTGATGTAAAGGACCAAATTGCATAAAGTGCAAAAGTTGAATTCTAGTAGCTAAAGATACCA
66 AATTTGATGTAAAGGACCAAATTGCATAAAGTGCAAAAGTTGAATTCTAGTAGCTAAAGATACCA
29753956 AGTAGATATGGAATTCAAAATTTGA
131 AGTAGATATGGAATTCAAAATTTGA
29753981 GGTCTACATTATGATAGAAATATCGTATAAAAATTTTGATAAGAATTTTTACCGATTACATGCCT
1 GGTCTACATTATGATAGAAATATCGTATAAAAATTTTGATAAGAATTTTTACCGATTACATGCCT
29754046 AATTTGATGTAAAGGACCAAATTGCATAAAGTGCAAAAGTTGAATTCTAGTAGCTAAAGATACCA
66 AATTTGATGTAAAGGACCAAATTGCATAAAGTGCAAAAGTTGAATTCTAGTAGCTAAAGATACCA
*
29754111 AGTAGCTATGGAATTCAAAATTTGA
131 AGTAGATATGGAATTCAAAATTTGA
29754136 GGT
1 GGT
29754139 TCTTATATGG
Statistics
Matches: 157, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
155 157 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (155 bp):
GGTCTACATTATGATAGAAATATCGTATAAAAATTTTGATAAGAATTTTTACCGATTACATGCCT
AATTTGATGTAAAGGACCAAATTGCATAAAGTGCAAAAGTTGAATTCTAGTAGCTAAAGATACCA
AGTAGATATGGAATTCAAAATTTGA
Found at i:29755182 original size:24 final size:24
Alignment explanation
Indices: 29755120--29755252 Score: 92
Period size: 24 Copynumber: 5.5 Consensus size: 24
29755110 TAACTCGCAA
* *
29755120 GAGCATCCTGTTATTAGCTCTCAT
1 GAGCATCCCGATATTAGCTCTCAT
*
29755144 AAGCATCCC-ATTATTAGCTCTCAT
1 GAGCATCCCGA-TATTAGCTCTCAT
** *
29755168 GAGCATCCCGATATTTTCTCTCTT
1 GAGCATCCCGATATTAGCTCTCAT
* * *
29755192 GAGC-TACTCGATATATGGCTCTCAC
1 GAGCAT-CCCGATAT-TAGCTCTCAT
* * **
29755217 GAGCTTCCC-ATTACTAGCTCGAAT
1 GAGCATCCCGA-TATTAGCTCTCAT
29755241 GAGCATCCCGAT
1 GAGCATCCCGAT
29755253 TTTGTTGTGA
Statistics
Matches: 83, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
23 1 0.01
24 65 0.78
25 16 0.19
26 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (24 bp):
GAGCATCCCGATATTAGCTCTCAT
Found at i:29755426 original size:32 final size:32
Alignment explanation
Indices: 29755385--29755450 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
29755375 CTTCCCGAAT
*
29755385 ATGGCTCTTATGAGCTTCTAGTTACATGGCTC
1 ATGGCTCTTATGAGCTTCCAGTTACATGGCTC
* *
29755417 ATGGCTCTTATTAGCTTCCCGTTACATGGCTC
1 ATGGCTCTTATGAGCTTCCAGTTACATGGCTC
29755449 AT
1 AT
29755451 ATGAGCTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (32 bp):
ATGGCTCTTATGAGCTTCCAGTTACATGGCTC
Found at i:29755457 original size:25 final size:25
Alignment explanation
Indices: 29755416--29755473 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
29755406 TTACATGGCT
* * *
29755416 CATGGCTCTTATTAGCTTCCCGTTA
1 CATGGCTCATATGAGCTTCCCATTA
*
29755441 CATGGCTCATATGAGCTTCTCATTA
1 CATGGCTCATATGAGCTTCCCATTA
*
29755466 TATGGCTC
1 CATGGCTC
29755474 GGAAGATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (25 bp):
CATGGCTCATATGAGCTTCCCATTA
Found at i:29762979 original size:24 final size:24
Alignment explanation
Indices: 29762942--29763030 Score: 74
Period size: 24 Copynumber: 3.7 Consensus size: 24
29762932 GGACACACCA
* *
29762942 TAGCTCCCAAGAGCATCCCGTTAT
1 TAGCTCTCATGAGCATCCCGTTAT
* * *
29762966 TAGCTCTCATGAGCAACTCGATAT
1 TAGCTCTCATGAGCATCCCGTTAT
* *
29762990 T-G-TCTCTATTGAGCTTCCCGTTAA
1 TAGCTCTC-A-TGAGCATCCCGTTAT
*
29763014 TAGCTCTTATGAGCATC
1 TAGCTCTCATGAGCATC
29763031 ACGATTTGGT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
22 4 0.08
23 2 0.04
24 38 0.78
25 2 0.04
26 3 0.06
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.33
Consensus pattern (24 bp):
TAGCTCTCATGAGCATCCCGTTAT
Found at i:29763102 original size:25 final size:25
Alignment explanation
Indices: 29763073--29763153 Score: 103
Period size: 25 Copynumber: 3.2 Consensus size: 25
29763063 ATACACCACA
29763073 GCTCTTTTGAG-TGTCCCGATAATTG
1 GCTCTTTTGAGCT-TCCCGATAATTG
* *
29763098 GCTCTCTGGAGCTTCCCGATAATTG
1 GCTCTTTTGAGCTTCCCGATAATTG
*
29763123 GCTCTTATGAGCTTCCCGATTAA-TG
1 GCTCTTTTGAGCTTCCCGA-TAATTG
29763148 GCTCTT
1 GCTCTT
29763154 GGAAGCTACT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
25 45 0.92
26 4 0.08
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (25 bp):
GCTCTTTTGAGCTTCCCGATAATTG
Found at i:29763223 original size:25 final size:25
Alignment explanation
Indices: 29763193--29763249 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
29763183 CTTATCGAAT
* * *
29763193 ATGGCTCTTATTAGCTTCCCGTTAC
1 ATGGCTCATATGAGCTTCCCATTAC
* *
29763218 ATGGCTCATATGAGCTTCTCATTAT
1 ATGGCTCATATGAGCTTCCCATTAC
29763243 ATGGCTC
1 ATGGCTC
29763250 GGAAGATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.39
Consensus pattern (25 bp):
ATGGCTCATATGAGCTTCCCATTAC
Found at i:29767073 original size:110 final size:113
Alignment explanation
Indices: 29766833--29767079 Score: 331
Period size: 110 Copynumber: 2.2 Consensus size: 113
29766823 GTAAAAAAGT
** *
29766833 CAAAATCAAACAAATAATAACAAACCCAAAACCCCAAACAAATAAATAATAATTATAAATAAAAA
1 CAAAATCAAACAAATAATAA-GTACCCAAAACCCCAAACAAATAAATAACAATTAT-AATAAAAA
*
29766898 AATTACCTTTAAAACAAAATTTGTTGTTGCCTCCTCTCCTTCCAAAATCA
64 AATTACCTTTAAAACAAAATTTATTGTTGCCTCCTCTCCTTCCAAAATCA
* * *
29766948 CAAAATTAAACAAATAATAAGTACCACAAAACCCTAAACAAATAAATAACAA-T-T-A-CAAAAA
1 CAAAATCAAACAAATAATAAGTACC-CAAAACCCCAAACAAATAAATAACAATTATAATAAAAAA
* * * *
29767009 ATTACCTTTAAAATAAAATTTATTGTTGCCTTCTCTCCTTCTAAAATCG
65 ATTACCTTTAAAACAAAATTTATTGTTGCCTCCTCTCCTTCCAAAATCA
*
29767058 CAAAATCAAATAAATAATAAGT
1 CAAAATCAAACAAATAATAAGT
29767080 GAACTGACTA
Statistics
Matches: 118, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
110 69 0.58
111 1 0.01
113 1 0.01
114 4 0.03
115 43 0.36
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.26
Consensus pattern (113 bp):
CAAAATCAAACAAATAATAAGTACCCAAAACCCCAAACAAATAAATAACAATTATAATAAAAAAA
TTACCTTTAAAACAAAATTTATTGTTGCCTCCTCTCCTTCCAAAATCA
Found at i:29767586 original size:41 final size:41
Alignment explanation
Indices: 29767531--29767612 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
29767521 TTAAATTAAG
*
29767531 GTTTTGTGGTTTTAA-ATAAATTAATTAAATTAGGGTTTAGT
1 GTTTAGTGGTTTTAAGA-AAATTAATTAAATTAGGGTTTAGT
*
29767572 GTTTAGTGTTTTTAAGAAAATTAATTAAATTAGGGTTTAGT
1 GTTTAGTGGTTTTAAGAAAATTAATTAAATTAGGGTTTAGT
29767613 TTTTTAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 37 0.97
42 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (41 bp):
GTTTAGTGGTTTTAAGAAAATTAATTAAATTAGGGTTTAGT
Found at i:29767611 original size:34 final size:33
Alignment explanation
Indices: 29767506--29767621 Score: 108
Period size: 41 Copynumber: 3.3 Consensus size: 33
29767496 TTTAGTGTTC
* * *
29767506 TTTTTTAAAAATTAATTAAATTAAGGTTTTGTG
1 TTTTTAAAAAATTAATTAAATTAGGGTTTAGTG
*
29767539 GTTTTAAATAAATTAATTAAATTAGGGTTTAGTGTTTAGTG
1 TTTTTAAA-AAATTAATTAAATTA--G----G-GTTTAGTG
29767580 TTTTTAAGAAAATTAATTAAATTAGGGTTTAGT-
1 TTTTTAA-AAAATTAATTAAATTAGGGTTTAGTG
29767613 TTTTTAAAA
1 TTTTTAAAA
29767622 TAATATTGTG
Statistics
Matches: 69, Mismatches: 5, Indels: 19
0.74 0.05 0.20
Matches are distributed among these distances:
32 2 0.03
33 13 0.19
34 22 0.32
35 1 0.01
39 1 0.01
40 1 0.01
41 28 0.41
42 1 0.01
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (33 bp):
TTTTTAAAAAATTAATTAAATTAGGGTTTAGTG
Found at i:29767907 original size:126 final size:126
Alignment explanation
Indices: 29767682--29768452 Score: 1134
Period size: 126 Copynumber: 6.1 Consensus size: 126
29767672 GATTTTGTTT
* *
29767682 TTTTTCTACAGTAATTCCTGAAAAAATAATTTTGAGAATACGATTCTGAACAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATATGATTCTGAACAAATAGTGTGAAAA
* *
29767747 ACGCTTCAACCAGGATGCACTGTCAGTAAAAATACTGAGAAAAGCTCCCACATGGACGCTC
66 ACGCTTCAACCAGGATGCACTGTCAGCAAAAATACTGAAAAAAGCTCCCACATGGACGCTC
*
29767808 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGATTCTGAACAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATATGATTCTGAACAAATAGTGTGAAAA
* *
29767873 ACGCTTCAACCAGGATGCACTGTCAGTAAAAATACTGAGAAAAGCTCCCACATGGACGCTC
66 ACGCTTCAACCAGGATGCACTGTCAGCAAAAATACTGAAAAAAGCTCCCACATGGACGCTC
29767934 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATATGATTCTGAACAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATATGATTCTGAACAAATAGTGTGAAAA
* *
29767999 ACGCTTCAACCAGGATGCACTGTCAGTAAAAATACTGAGAAAAGCTCCCACATGGACGCTC
66 ACGCTTCAACCAGGATGCACTGTCAGCAAAAATACTGAAAAAAGCTCCCACATGGACGCTC
29768060 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATATGATTCTGAACAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATATGATTCTGAACAAATAGTGTGAAAA
* * * * ** *
29768125 ACGCTTCAAGCAAGATGCACTGTCGGCAAAATTACTGAAAAAAGCTCCCACATAAATGCTC
66 ACGCTTCAACCAGGATGCACTGTCAGCAAAAATACTGAAAAAAGCTCCCACATGGACGCTC
* * * * * * *
29768186 TTTTTCTATAGTAGTTCTTGAAAAAATAA-TTTGAAAAGATGTTTCTGAGCAAATAGTGT-TAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATATGATTCTGAACAAATAGTGTGAAAA
* * * * * *
29768249 ACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAACTCCCACATGGATGTTC
66 ACGCTTCAACCAGGATGCACTGTCAGCAAAAATACTGAAAAAAGCTCCCACATGGACGCTC
* * * * * * *
29768310 TTTTTCTATAGTAGTTCCTAAAAAAATAAATTTGAGAAGATGTTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATATGATTCTGAACAAATAGTGTGAAAA
* * ** * *
29768375 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTGA-TGAAAAAAGCTCCCATGTCGACGCTA
66 ACGCTTCAACCAGGATGCACTGTCAGCAAAAAT-ACTGAAAAAAGCTCCCACATGGACGCTC
29768436 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
29768453 ATGTTTGGCC
Statistics
Matches: 602, Mismatches: 40, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
124 84 0.14
125 53 0.09
126 464 0.77
127 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATATGATTCTGAACAAATAGTGTGAAAA
ACGCTTCAACCAGGATGCACTGTCAGCAAAAATACTGAAAAAAGCTCCCACATGGACGCTC
Found at i:29773813 original size:14 final size:15
Alignment explanation
Indices: 29773785--29773814 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29773775 TACACACTTT
29773785 ATTATTTACATTTCA
1 ATTATTTACATTTCA
29773800 ATTATTTA-ATTTCA
1 ATTATTTACATTTCA
29773814 A
1 A
29773815 ACCATACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATTTACATTTCA
Found at i:29776522 original size:19 final size:21
Alignment explanation
Indices: 29776460--29776516 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
29776450 ATTTTCGAGG
29776460 ATATACAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
29776481 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
29776502 ATATACACTCTTAGA
1 ATATACAATCTTAGA
29776517 AGATATGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:29776739 original size:20 final size:22
Alignment explanation
Indices: 29776714--29776754 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
29776704 GGCTTACTGT
*
29776714 TTTTTTTTCTT-TTT-CGATTA
1 TTTTTTTACTTATTTACGATTA
29776734 TTTTTTTACTTATTTACGATT
1 TTTTTTTACTTATTTACGATT
29776755 TTAAAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.71
Consensus pattern (22 bp):
TTTTTTTACTTATTTACGATTA
Found at i:29777365 original size:51 final size:52
Alignment explanation
Indices: 29777255--29777366 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 52
29777245 TTCCACGTTT
**
29777255 TATAT-TATACTTATATATTTCATTTTTTTGTAAATGCATGAATATATTTTA
1 TATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATATTTTA
* * * * *
29777306 TATGTATATATTTATAT-TTTCCTTGTTTTCATAAATGCAT-TATGTATTTTA
1 TATATATATACTTATATATTTCATT-TTTTCATAAATGCATGAATATATTTTA
29777357 TATATATATA
1 TATATATATA
29777367 AGTTTTATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
51 28 0.55
52 23 0.45
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (52 bp):
TATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATATTTTA
Found at i:29782890 original size:36 final size:36
Alignment explanation
Indices: 29782838--29782906 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
29782828 TTTAGGAATT
* * *
29782838 TGAGAATACCTAATATCTTGTTTAGGAGCTTGGAAA
1 TGAGAAGACCTAATATCTTATTCAGGAGCTTGGAAA
*
29782874 TGAGAAGACCTGATATCTTATTCAGGAGCTTGG
1 TGAGAAGACCTAATATCTTATTCAGGAGCTTGG
29782907 GAAGATCAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (36 bp):
TGAGAAGACCTAATATCTTATTCAGGAGCTTGGAAA
Found at i:29783711 original size:20 final size:20
Alignment explanation
Indices: 29783686--29783725 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
29783676 ACATTGTTGG
29783686 GACAAATAGCATAGATACCT
1 GACAAATAGCATAGATACCT
29783706 GACAAATAGCATAGATACCT
1 GACAAATAGCATAGATACCT
29783726 TAGTTTCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (20 bp):
GACAAATAGCATAGATACCT
Found at i:29784081 original size:34 final size:33
Alignment explanation
Indices: 29784028--29784097 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 33
29784018 AACAATTGGT
* * *
29784028 CCTTCTCTCACTCTTGGCAAGACACTTATCAAC
1 CCTTCTCTCACTATCGGCAAGACACCTATCAAC
29784061 CCTNTCTCTCACTATCGGCAAGACACCTATCAAC
1 CCT-TCTCTCACTATCGGCAAGACACCTATCAAC
29784095 CCT
1 CCT
29784098 CTTATCAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 3 0.09
34 30 0.91
ACGTcount: A:0.24, C:0.39, G:0.09, T:0.27
Consensus pattern (33 bp):
CCTTCTCTCACTATCGGCAAGACACCTATCAAC
Found at i:29796729 original size:22 final size:23
Alignment explanation
Indices: 29796698--29796758 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 23
29796688 TTGTAAAATA
*
29796698 ATTTTTAAAATTCA-AAAATTTT
1 ATTTTAAAAATTCATAAAATTTT
*
29796720 ATTTTAAAAAGGT-ATAAAATTTT
1 ATTTTAAAAA-TTCATAAAATTTT
*
29796743 -TTTAAAAAATTC-TAAA
1 ATTTTAAAAATTCATAAA
29796759 GAATATATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
21 5 0.16
22 18 0.56
23 9 0.28
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (23 bp):
ATTTTAAAAATTCATAAAATTTT
Found at i:29796758 original size:21 final size:21
Alignment explanation
Indices: 29796683--29796758 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 21
29796673 CACTCTCAAC
* *
29796683 AAAAATTGTAAAATAATTTTT-
1 AAAAATTCTAAAAT-TTTTTTA
*
29796704 -AAAATTCAAAAATTTTATTTTA
1 AAAAATTCTAAAA-TTT-TTTTA
** *
29796726 AAAAGGTATAAAATTTTTTTA
1 AAAAATTCTAAAATTTTTTTA
29796747 AAAAATTCTAAA
1 AAAAATTCTAAA
29796759 GAATATATAA
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
20 11 0.27
21 19 0.46
22 3 0.07
23 8 0.20
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.41
Consensus pattern (21 bp):
AAAAATTCTAAAATTTTTTTA
Found at i:29796996 original size:22 final size:22
Alignment explanation
Indices: 29796954--29796998 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
29796944 TGTAACAAGA
**
29796954 TTTTAATTTAACATGTTTAATT
1 TTTTAATTTAACATGAATAATT
29796976 TTTTAATTTAAC-TCGAATAATT
1 TTTTAATTTAACAT-GAATAATT
29796998 T
1 T
29796999 CACTAGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTAATTTAACATGAATAATT
Found at i:29818426 original size:28 final size:28
Alignment explanation
Indices: 29818386--29818547 Score: 139
Period size: 28 Copynumber: 5.8 Consensus size: 28
29818376 TAACAGAATG
*
29818386 GGAAAGCCTTTTTGGTGAACCTCTAAAA
1 GGAAAGCCTTTTTGGCGAACCTCTAAAA
*
29818414 GGAAAGCCTTTTTGGCGAACCTCTAGAA
1 GGAAAGCCTTTTTGGCGAACCTCTAAAA
* * *
29818442 GGAAAGCCTTTGTGGCGAACTTCCAAAAA
1 GGAAAGCCTTTTTGGCGAACCT-CTAAAA
* ** * *
29818471 TGAAAG-CTTTTGTGATGAACCTTTGAAA
1 GGAAAGCCTTTT-TGGCGAACCTCTAAAA
* * * * *
29818499 GGAAAGCCCTTATGGCAAACTTCTGAAA
1 GGAAAGCCTTTTTGGCGAACCTCTAAAA
* *
29818527 GGAGAGCCTTTGTGGC-AACCT
1 GGAAAGCCTTTTTGGCGAACCT
29818548 TCGAAGATGA
Statistics
Matches: 105, Mismatches: 26, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
27 4 0.04
28 82 0.78
29 19 0.18
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (28 bp):
GGAAAGCCTTTTTGGCGAACCTCTAAAA
Found at i:29818500 original size:85 final size:85
Alignment explanation
Indices: 29818387--29818542 Score: 208
Period size: 85 Copynumber: 1.8 Consensus size: 85
29818377 AACAGAATGG
* * * *
29818387 GAAAGCCTTTTTGGTGAACCTCTAAAAGGAAAGCCTTTTTGGCGAACCTCT-AGAAGGAAAGCCT
1 GAAAGCCTTTTTGATGAACCTCTAAAAGGAAAGCCCTTATGGCAAACCTCTGA-AAGGAAAGCCT
29818451 TTGTGGCGAACTTCCAAAAAT
65 TTGTGGCGAACTTCCAAAAAT
* * * *
29818472 GAAAG-CTTTTGTGATGAACCTTTGAAAGGAAAGCCCTTATGGCAAACTTCTGAAAGGAGAGCCT
1 GAAAGCCTTTT-TGATGAACCTCTAAAAGGAAAGCCCTTATGGCAAACCTCTGAAAGGAAAGCCT
29818536 TTGTGGC
65 TTGTGGC
29818543 AACCTTCGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 5 0.08
85 55 0.90
86 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (85 bp):
GAAAGCCTTTTTGATGAACCTCTAAAAGGAAAGCCCTTATGGCAAACCTCTGAAAGGAAAGCCTT
TGTGGCGAACTTCCAAAAAT
Found at i:29818549 original size:28 final size:28
Alignment explanation
Indices: 29818386--29818570 Score: 128
Period size: 28 Copynumber: 6.6 Consensus size: 28
29818376 TAACAGAATG
* *
29818386 GGAAAGCCTTTTTGGTGAACC-TCTAAAA
1 GGAAAGCCTTTGTGG-CAACCTTCTAAAA
* *
29818414 GGAAAGCCTTTTTGGCGAACC-TCTAGAA
1 GGAAAGCCTTTGTGGC-AACCTTCTAAAA
*
29818442 GGAAAGCCTTTGTGGCGAA-CTTCCAAAAA
1 GGAAAGCCTTTGTGGC-AACCTT-CTAAAA
* * *
29818471 TGAAAGCTTTTGTGATG-AACCTT-TGAAA
1 GGAAAGCCTTTGTG--GCAACCTTCTAAAA
* * * *
29818499 GGAAAGCCCTTATGGCAAACTTCTGAAA
1 GGAAAGCCTTTGTGGCAACCTTCTAAAA
* * *
29818527 GGAGAGCCTTTGTGGCAACCTTCGAAGA
1 GGAAAGCCTTTGTGGCAACCTTCTAAAA
* *
29818555 TGAAAGTCTTTGTGGC
1 GGAAAGCCTTTGTGGC
29818571 GTATTAGGAA
Statistics
Matches: 125, Mismatches: 24, Indels: 16
0.76 0.15 0.10
Matches are distributed among these distances:
26 1 0.01
27 6 0.05
28 96 0.77
29 18 0.14
30 3 0.02
31 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (28 bp):
GGAAAGCCTTTGTGGCAACCTTCTAAAA
Found at i:29818621 original size:27 final size:26
Alignment explanation
Indices: 29818531--29818655 Score: 74
Period size: 27 Copynumber: 4.7 Consensus size: 26
29818521 CTGAAAGGAG
*
29818531 AGCCTTTGTGGCAACCTTCG-AAGATGAA
1 AGCCTTTGTGGCAATC-TCGTAA-A-GAA
* * * *
29818559 AGTCTTTGTGGCGTAT-TAGGAAAGAA
1 AGCCTTTGTGGC-AATCTCGTAAAGAA
** * **
29818585 AGCCCATGTGGCAATCTCTGTAATGGG
1 AGCCTTTGTGGCAATCTC-GTAAAGAA
* *
29818612 AGCCTTTGTGGCTAACCACGTAAAGAA
1 AGCCTTTGTGGC-AATCTCGTAAAGAA
29818639 AGCCTTTGTGGCAATCT
1 AGCCTTTGTGGCAATCT
29818656 AAATAAAGGA
Statistics
Matches: 70, Mismatches: 22, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
25 2 0.03
26 16 0.23
27 34 0.49
28 17 0.24
29 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (26 bp):
AGCCTTTGTGGCAATCTCGTAAAGAA
Found at i:29818706 original size:27 final size:26
Alignment explanation
Indices: 29818673--29818729 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
29818663 GGAAGCTTTA
29818673 TGGCGAAAGATGAAAGGAAT-GCCCTTG
1 TGGCGAAAGAT-AAAGG-ATGGCCCTTG
**
29818700 TGGCGAAATCTAAAGGATGGCCCTTG
1 TGGCGAAAGATAAAGGATGGCCCTTG
29818726 TGGC
1 TGGC
29818730 AACCATTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 16 0.59
27 9 0.33
ACGTcount: A:0.28, C:0.18, G:0.33, T:0.21
Consensus pattern (26 bp):
TGGCGAAAGATAAAGGATGGCCCTTG
Found at i:29824088 original size:11 final size:11
Alignment explanation
Indices: 29824057--29824091 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
29824047 TGTCGACAAA
29824057 TATAATATAAT
1 TATAATATAAT
*
29824068 TATAAAATAAT
1 TATAATATAAT
*
29824079 TATATTATAAT
1 TATAATATAAT
29824090 TA
1 TA
29824092 AATTATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TATAATATAAT
Found at i:29824797 original size:36 final size:36
Alignment explanation
Indices: 29824755--29824826 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
29824745 GTTTTTCCCT
29824755 TCTACTTTCCTTTGCCGATTTCCCTCTTGGGAAAGA
1 TCTACTTTCCTTTGCCGATTTCCCTCTTGGGAAAGA
*
29824791 TCTACTTTCCTTTGCCGATTTCCCTCTTGTGAAAGA
1 TCTACTTTCCTTTGCCGATTTCCCTCTTGGGAAAGA
29824827 GTCCTTCAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.17, C:0.28, G:0.15, T:0.40
Consensus pattern (36 bp):
TCTACTTTCCTTTGCCGATTTCCCTCTTGGGAAAGA
Found at i:29843448 original size:27 final size:26
Alignment explanation
Indices: 29843370--29843474 Score: 97
Period size: 26 Copynumber: 4.0 Consensus size: 26
29843360 CATAGAGGTT
* * *
29843370 TTTCTTTCATGCTT-CGCCATAAGGGTC
1 TTTCCTTCATG-TTACGCCACAAAGG-C
*
29843397 TTTCACTTCATGATACGCCAC-AAGGC
1 TTTC-CTTCATGTTACGCCACAAAGGC
*
29843423 TTTTCCTTCATGTTACGCTACAAAGGC
1 -TTTCCTTCATGTTACGCCACAAAGGC
* *
29843450 TTTCCTTCATATTATGCCACAAAGG
1 TTTCCTTCATGTTACGCCACAAAGG
29843475 TTGTCCATTC
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
26 37 0.57
27 17 0.26
28 11 0.17
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (26 bp):
TTTCCTTCATGTTACGCCACAAAGGC
Found at i:29843590 original size:54 final size:52
Alignment explanation
Indices: 29843460--29843591 Score: 151
Period size: 52 Copynumber: 2.5 Consensus size: 52
29843450 TTTCCTTCAT
* *
29843460 ATTATGCCACAAAGG-TTGTCCATTCAAGAATCACCACAGAAGTTTTTTTCCC
1 ATTATGCCACAAAGGCTT-TCCATTTAAGAACCACCACAGAAGTTTTTTTCCC
* * * *
29843512 ATTATGCCACAAAGTCATTT-CATTTAAGAACCACCATAGAGGCTTTTCTTTCTC
1 ATTATGCCACAAAGGC-TTTCCATTTAAGAACCACCACAGAAG-TTTT-TTTCCC
*
29843566 ATTATGCCATAAAGGCTTTCCATTTA
1 ATTATGCCACAAAGGCTTTCCATTTA
29843592 CTGGAGTGTT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
52 32 0.48
53 8 0.12
54 27 0.40
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (52 bp):
ATTATGCCACAAAGGCTTTCCATTTAAGAACCACCACAGAAGTTTTTTTCCC
Found at i:29851674 original size:37 final size:37
Alignment explanation
Indices: 29851633--29851761 Score: 168
Period size: 37 Copynumber: 3.5 Consensus size: 37
29851623 ACGCCAATCT
* * * *
29851633 CTCATAAGAGCTAATACAACCAATAACACTCTAGATG
1 CTCATAAGAGCTAATCCACCCAATAACACACCAGATG
*
29851670 CTCATAAGAGCTAATCCACCCAATAACACACCAAATG
1 CTCATAAGAGCTAATCCACCCAATAACACACCAGATG
* * *
29851707 CTCATAAGAGTTAATCCACCCGATAACACGCCAGATG
1 CTCATAAGAGCTAATCCACCCAATAACACACCAGATG
* *
29851744 CTCATAAAAGCTAGTCCA
1 CTCATAAGAGCTAATCCA
29851762 ACCGAAAACA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 80 1.00
ACGTcount: A:0.40, C:0.29, G:0.12, T:0.19
Consensus pattern (37 bp):
CTCATAAGAGCTAATCCACCCAATAACACACCAGATG
Found at i:29851778 original size:74 final size:75
Alignment explanation
Indices: 29851608--29851778 Score: 197
Period size: 74 Copynumber: 2.3 Consensus size: 75
29851598 AGTACATAGA
* * *
29851608 TAATCCAACCG-AAACACGCC-AATCTCTCATAAGAGCTAATACAACCAATAACACTCTAGATGC
1 TAATCCAACCGAAAACACGCCAAATCGCTCATAAGAGCTAATACAACCAATAACACGCCAGATGC
*
29851671 TCATAAGAGC
66 TCATAAAAGC
* * * * * *
29851681 TAATCC-ACCCAATAACACACCAAAT-GCTCATAAGAGTTAATCCACCCGATAACACGCCAGATG
1 TAATCCAACCGAA-AACACGCCAAATCGCTCATAAGAGCTAATACAACCAATAACACGCCAGATG
29851744 CTCATAAAAGC
65 CTCATAAAAGC
* *
29851755 TAGTCCAACCGAAAACATGCCAAA
1 TAATCCAACCGAAAACACGCCAAA
29851779 ATAGGGAGTT
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
72 3 0.04
73 7 0.09
74 62 0.77
75 8 0.10
ACGTcount: A:0.42, C:0.30, G:0.11, T:0.18
Consensus pattern (75 bp):
TAATCCAACCGAAAACACGCCAAATCGCTCATAAGAGCTAATACAACCAATAACACGCCAGATGC
TCATAAAAGC
Found at i:29853904 original size:22 final size:21
Alignment explanation
Indices: 29853869--29853912 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
29853859 GGTTTCCATT
*
29853869 AAAAAATAAAGAAAAAAAAGA
1 AAAAAAGAAAGAAAAAAAAGA
*
29853890 AAAAAAGAAAGGAAAAAAGAGA
1 AAAAAAGAAA-GAAAAAAAAGA
29853912 A
1 A
29853913 TAAATATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (21 bp):
AAAAAAGAAAGAAAAAAAAGA
Found at i:29860782 original size:21 final size:21
Alignment explanation
Indices: 29860757--29860856 Score: 69
Period size: 21 Copynumber: 4.8 Consensus size: 21
29860747 GTGCTAAACA
29860757 GAAACCCATAAGGGTTGAA-G
1 GAAACCCATAAGGGTTGAATG
* * * *
29860777 GAAAACTCGTAAGAGCTGAATG
1 G-AAACCCATAAGGGTTGAATG
*
29860799 GAAACCCATAAGGGTTAAACT-
1 GAAACCCATAAGGGTTGAA-TG
* * * * * *
29860820 GAAGCTCAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTGAATG
29860841 GAAACCCATAAGGGTT
1 GAAACCCATAAGGGTT
29860857 AAACTGAAAC
Statistics
Matches: 55, Mismatches: 21, Indels: 7
0.66 0.25 0.08
Matches are distributed among these distances:
20 1 0.02
21 51 0.93
22 3 0.05
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.16
Consensus pattern (21 bp):
GAAACCCATAAGGGTTGAATG
Found at i:29860833 original size:42 final size:42
Alignment explanation
Indices: 29860757--29860869 Score: 156
Period size: 42 Copynumber: 2.7 Consensus size: 42
29860747 GTGCTAAACA
* * ** *
29860757 GAAACCCATAAGGGTTGAA-GGAAAACTCGTAAGAGCTGAATG
1 GAAACCCATAAGGGTTAAACTG-AAACTCAAAAGAGCTGAACG
*
29860799 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACTGAAACTCAAAAGAGCTGAACG
29860841 GAAACCCATAAGGGTTAAACTGAAACTCA
1 GAAACCCATAAGGGTTAAACTGAAACTCA
29860870 TATGAGTTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
42 62 0.98
43 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACTGAAACTCAAAAGAGCTGAACG
Found at i:29860871 original size:21 final size:21
Alignment explanation
Indices: 29860799--29860871 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
29860789 GAGCTGAATG
29860799 GAAACCCATAAGGGTTAAACT
1 GAAACCCATAAGGGTTAAACT
* * * * * * *
29860820 GAAGCTCAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACT
29860841 GAAACCCATAAGGGTTAAACT
1 GAAACCCATAAGGGTTAAACT
*
29860862 GAAACTCATA
1 GAAACCCATA
29860872 TGAGTTAACA
Statistics
Matches: 37, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.16
Consensus pattern (21 bp):
GAAACCCATAAGGGTTAAACT
Found at i:29861112 original size:45 final size:45
Alignment explanation
Indices: 29861062--29861148 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
29861052 TTTTCAATTC
* * * *
29861062 ATAATTTAACAATATTTCATTTTTTAACAATATGCTAAATACATA
1 ATAATTTAACAACATTCCATTTTTCAACAATATACTAAATACATA
*
29861107 ATAATTTAACAACATTCCATTTTTCAACAATATATTAAATAC
1 ATAATTTAACAACATTCCATTTTTCAACAATATACTAAATAC
29861149 CTAACATCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (45 bp):
ATAATTTAACAACATTCCATTTTTCAACAATATACTAAATACATA
Found at i:29872157 original size:17 final size:17
Alignment explanation
Indices: 29872135--29872172 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
29872125 CTTATGTCTG
29872135 TATTATTAAAATATTCA
1 TATTATTAAAATATTCA
29872152 TATTATTAAAATATTCA
1 TATTATTAAAATATTCA
29872169 TATT
1 TATT
29872173 TTATTCTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTATTAAAATATTCA
Found at i:29872329 original size:28 final size:27
Alignment explanation
Indices: 29872279--29872344 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 27
29872269 AATATTTTTT
29872279 AAAAT-TTAAAATTATTATTAAAATAAAA
1 AAAATATTAAAA--ATTATTAAAATAAAA
*
29872307 AACAATATTAAAAATTATTAAAATAATA
1 AA-AATATTAAAAATTATTAAAATAAAA
29872335 AAAATATTAA
1 AAAATATTAA
29872345 TTATATTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
27 8 0.23
28 18 0.51
29 3 0.09
30 6 0.17
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (27 bp):
AAAATATTAAAAATTATTAAAATAAAA
Found at i:29872331 original size:18 final size:19
Alignment explanation
Indices: 29872310--29872405 Score: 65
Period size: 18 Copynumber: 5.1 Consensus size: 19
29872300 AATAAAAAAC
29872310 AATATTAAAAATTATTAA-
1 AATATTAAAAATTATTAAT
*
29872328 AATAATAAAAA-TATTAAT
1 AATATTAAAAATTATTAAT
* *
29872346 TATATTAATAATTTATTATAT
1 AATATTAA-AAATTATTA-AT
* * *
29872367 GATTAATATAAATGT-TTAAT
1 -AATATTAAAAAT-TATTAAT
*
29872387 AATATTGAAAATTA-TAAT
1 AATATTAAAAATTATTAAT
29872405 A
1 A
29872406 TTCGAGATTA
Statistics
Matches: 58, Mismatches: 13, Indels: 14
0.68 0.15 0.16
Matches are distributed among these distances:
17 6 0.10
18 22 0.38
19 10 0.17
20 7 0.12
21 8 0.14
22 5 0.09
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
AATATTAAAAATTATTAAT
Found at i:29875042 original size:20 final size:18
Alignment explanation
Indices: 29874988--29875031 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
29874978 TGAAAAGATA
*
29874988 ATTTTTAAAA-TAATAAAT
1 ATTTTTAAAATTAAT-TAT
29875006 ATTTTTAAAATTAATTAT
1 ATTTTTAAAATTAATTAT
29875024 ATTTTTAA
1 ATTTTTAA
29875032 TATTTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTTTAAAATTAATTAT
Found at i:29879979 original size:27 final size:27
Alignment explanation
Indices: 29879949--29880165 Score: 179
Period size: 27 Copynumber: 8.1 Consensus size: 27
29879939 TCTCTCAATT
* *
29879949 TTCGCCATACGTACTATTCTGTCAGTG
1 TTCGCCATATGTACTATTCTTTCAGTG
* * * *
29879976 TTCGCCAGATGTACCATTCTTTTAGTT
1 TTCGCCATATGTACTATTCTTTCAGTG
* * *
29880003 TTTG-CATACGTACTATTCTTTCAGAG
1 TTCGCCATATGTACTATTCTTTCAGTG
* * * *
29880029 TTCACTATATGTATTATTCCTTCAGTG
1 TTCGCCATATGTACTATTCTTTCAGTG
* *
29880056 TTCGCCACATGTACCATTCCTTT-AGTG
1 TTCGCCATATGTACTATT-CTTTCAGTG
* * *
29880083 TTTGCCATACGTACTATTCTTTCAGAG
1 TTCGCCATATGTACTATTCTTTCAGTG
* *
29880110 TTCACCATATGTACTATTCCTTT-AGTA
1 TTCGCCATATGTACTATT-CTTTCAGTG
*** *
29880137 TTTTTCATATGTACTATTCCTTCAGTG
1 TTCGCCATATGTACTATTCTTTCAGTG
29880164 TT
1 TT
29880166 TACCATACCA
Statistics
Matches: 144, Mismatches: 41, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
26 25 0.17
27 112 0.78
28 7 0.05
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (27 bp):
TTCGCCATATGTACTATTCTTTCAGTG
Found at i:29880128 original size:81 final size:81
Alignment explanation
Indices: 29879953--29880173 Score: 284
Period size: 81 Copynumber: 2.7 Consensus size: 81
29879943 TCAATTTTCG
* * * *
29879953 CCATACGTACTATT-CTGTCAGTGTTCGCCAGATGTACCATTCTTTTAGTTTTTG-CATACGTAC
1 CCATATGTACTATTCCT-TCAGTGTTCGCCACATGTACCATTCCTTTAGTGTTTGCCATACGTAC
29880016 TATTCTTTCAGAGTTCA
65 TATTCTTTCAGAGTTCA
* *
29880033 CTATATGTATTATTCCTTCAGTGTTCGCCACATGTACCATTCCTTTAGTGTTTGCCATACGTACT
1 CCATATGTACTATTCCTTCAGTGTTCGCCACATGTACCATTCCTTTAGTGTTTGCCATACGTACT
29880098 ATTCTTTCAGAGTTCA
66 ATTCTTTCAGAGTTCA
* * *** * * * *
29880114 CCATATGTACTATTCCTTTAGTATTTTTCATATGTACTATTCCTTCAGTGTTTACCATAC
1 CCATATGTACTATTCCTTCAGTGTTCGCCACATGTACCATTCCTTTAGTGTTTGCCATAC
29880174 CATCCAGTCC
Statistics
Matches: 122, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
80 45 0.37
81 77 0.63
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.43
Consensus pattern (81 bp):
CCATATGTACTATTCCTTCAGTGTTCGCCACATGTACCATTCCTTTAGTGTTTGCCATACGTACT
ATTCTTTCAGAGTTCA
Found at i:29880335 original size:54 final size:52
Alignment explanation
Indices: 29880277--29880512 Score: 169
Period size: 54 Copynumber: 4.4 Consensus size: 52
29880267 TCCTTTAGAT
* *
29880277 GATTGCCATAAGAGCCTTCC-TT-TAGACTACGCCACAAAGGCCTTCCTTTTCATA
1 GATTGCCACAA-AGCCTTCCATTATAGA-T-CGCCACAAAGG-CTTCCATTTCATA
* *
29880331 GATTGCCACAAAGGCTTCCATTTCATAGATTGCCACAAAGGCTTCCATTTCATA
1 GATTGCCACAAAGCCTTCCA-TT-ATAGATCGCCACAAAGGCTTCCATTTCATA
* * * * *
29880385 GATTGCCACAAAGGCTTCTATT-TCAGATACGTCAGAAAGGCTTCTATTTC--A
1 GATTGCCACAAAGCCTTCCATTAT-AGAT-CGCCACAAAGGCTTCCATTTCATA
* * * * *
29880436 GA-TACATCATAAAGACTTCCATTTCATAGATTGCCACAAAGGCTTCCATGTCATA
1 GATTGC--CACAAAGCCTTCCA-TT-ATAGATCGCCACAAAGGCTTCCATTTCATA
* * *
29880491 TATTGCCACAAAGGCTTTCATT
1 GATTGCCACAAAGCCTTCCATT
29880513 TCTCCGGTGT
Statistics
Matches: 145, Mismatches: 23, Indels: 29
0.74 0.12 0.15
Matches are distributed among these distances:
50 2 0.01
51 4 0.03
52 15 0.10
53 46 0.32
54 56 0.39
55 15 0.10
56 3 0.02
57 4 0.03
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (52 bp):
GATTGCCACAAAGCCTTCCATTATAGATCGCCACAAAGGCTTCCATTTCATA
Found at i:29880356 original size:27 final size:27
Alignment explanation
Indices: 29880307--29880514 Score: 237
Period size: 27 Copynumber: 7.7 Consensus size: 27
29880297 TTTAGACTAC
*
29880307 GCCACAAAGGCCTTCCTTTTCATAGATT
1 GCCACAAAGG-CTTCCATTTCATAGATT
29880335 GCCACAAAGGCTTCCATTTCATAGATT
1 GCCACAAAGGCTTCCATTTCATAGATT
29880362 GCCACAAAGGCTTCCATTTCATAGATT
1 GCCACAAAGGCTTCCATTTCATAGATT
* *
29880389 GCCACAAAGGCTTCTATTTC--AGATAC
1 GCCACAAAGGCTTCCATTTCATAGAT-T
* * *
29880415 GTCAGAAAGGCTTCTATTTC--AGA-T
1 GCCACAAAGGCTTCCATTTCATAGATT
* * *
29880439 ACATCATAAAGACTTCCATTTCATAGATT
1 GC--CACAAAGGCTTCCATTTCATAGATT
* *
29880468 GCCACAAAGGCTTCCATGTCATATATT
1 GCCACAAAGGCTTCCATTTCATAGATT
*
29880495 GCCACAAAGGCTTTCATTTC
1 GCCACAAAGGCTTCCATTTC
29880515 TCCGGTGTGT
Statistics
Matches: 156, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.03
26 36 0.23
27 101 0.65
28 13 0.08
29 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (27 bp):
GCCACAAAGGCTTCCATTTCATAGATT
Found at i:29880429 original size:26 final size:26
Alignment explanation
Indices: 29880394--29880461 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
29880384 AGATTGCCAC
*
29880394 AAAGGCTTCTATTTCAGATACGTCAG
1 AAAGGCTTCTATTTCAGATACATCAG
*
29880420 AAAGGCTTCTATTTCAGATACATCAT
1 AAAGGCTTCTATTTCAGATACATCAG
* *
29880446 AAAGACTTCCATTTCA
1 AAAGGCTTCTATTTCA
29880462 TAGATTGCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (26 bp):
AAAGGCTTCTATTTCAGATACATCAG
Found at i:29883610 original size:22 final size:23
Alignment explanation
Indices: 29883583--29883626 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
29883573 TTGAGATCTT
* *
29883583 AAGAAAATTTGAAAAGA-AAGAC
1 AAGAAAAATTAAAAAGAGAAGAC
29883605 AAGAAAAATTAAAAAGAGAAGA
1 AAGAAAAATTAAAAAGAGAAGA
29883627 ACCCATGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.68, C:0.02, G:0.18, T:0.11
Consensus pattern (23 bp):
AAGAAAAATTAAAAAGAGAAGAC
Found at i:29887094 original size:27 final size:27
Alignment explanation
Indices: 29886991--29887126 Score: 103
Period size: 27 Copynumber: 5.0 Consensus size: 27
29886981 ATAGAGTATT
* *
29886991 CCATGTTTAATGACCCATCGGACTATC
1 CCATGTTTAACGTCCCATCGGACTATC
* * * * ** *
29887018 TCGTGTTCACCGTCTTATCAGG-CTATA
1 CCATGTTTAACGTCCCATC-GGACTATC
**
29887045 CCATGTTTAACGTCCCGCCGGACTATC
1 CCATGTTTAACGTCCCATCGGACTATC
* *
29887072 CCATGTTTAATGTCCCATTGGACTATC
1 CCATGTTTAACGTCCCATCGGACTATC
* * * *
29887099 TCATGCTTAACATCCCATCGAACTATC
1 CCATGTTTAACGTCCCATCGGACTATC
29887126 C
1 C
29887127 AGTGTTTGAT
Statistics
Matches: 78, Mismatches: 29, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
26 2 0.03
27 74 0.95
28 2 0.03
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.32
Consensus pattern (27 bp):
CCATGTTTAACGTCCCATCGGACTATC
Found at i:29906103 original size:43 final size:42
Alignment explanation
Indices: 29906041--29906302 Score: 274
Period size: 43 Copynumber: 6.1 Consensus size: 42
29906031 TTAATACCGT
*
29906041 CGCTATAGAACAAGACCTTTAGCGGTGCTTTTCACACAAACGC
1 CGCTATAGAACAAGACCTTTAGCGGCGCTTTTC-CACAAACGC
* *
29906084 TGCTATAGAACAAGACCTTTAGCGGCGCTTTTCCAACAATCGC
1 CGCTATAGAACAAGACCTTTAGCGGCGCTTTTCC-ACAAACGC
* * * * *
29906127 CGCTAAATAACATGACTTTTAGCGGCACTTTTCCCACAAACGC
1 CGCTATAGAACAAGACCTTTAGCGGCGCTTTT-CCACAAACGC
** * * *
29906170 CGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAATGC
1 CGCTATAGAACAAGACCTTTAGCGGCGCTTTT-CCACAAACGC
* ** * *
29906213 CGCTATAGATCATCACTTTTAGCGACGCTTTTCCAACAAACGC
1 CGCTATAGAACAAGACCTTTAGCGGCGCTTTTCC-ACAAACGC
* * *
29906256 CACTATAGAA-TAGACCTTTAGCGACGCTTTTCACACAAACGC
1 CGCTATAGAACAAGACCTTTAGCGGCGCTTTTC-CACAAACGC
29906298 CGCTA
1 CGCTA
29906303 AAAACATATC
Statistics
Matches: 188, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
42 33 0.18
43 153 0.81
44 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (42 bp):
CGCTATAGAACAAGACCTTTAGCGGCGCTTTTCCACAAACGC
Found at i:29906636 original size:43 final size:43
Alignment explanation
Indices: 29906570--29906656 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
29906560 ACATACGCAA
* * * *
29906570 GGTAATAAAACATACAATGCATTTTCTTAATTAAGTAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
* *
29906613 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
29906656 G
1 G
29906657 TACATCATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.34
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:29910516 original size:14 final size:14
Alignment explanation
Indices: 29910497--29910558 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
29910487 AATTAATATA
29910497 AACCCTAAACCCCT
1 AACCCTAAACCCCT
* * *
29910511 AACCCTTATCCCTT
1 AACCCTAAACCCCT
*
29910525 ATCCCTTAAA-CCCT
1 AACCC-TAAACCCCT
* *
29910539 AATCATAAACCCCT
1 AACCCTAAACCCCT
29910553 AACCCT
1 AACCCT
29910559 TAAATACTAC
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
13 4 0.12
14 28 0.82
15 2 0.06
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCCTAAACCCCT
Found at i:29910573 original size:17 final size:17
Alignment explanation
Indices: 29910551--29910584 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29910541 TCATAAACCC
* *
29910551 CTAACCCTTAAATACTA
1 CTAACCCCTAAACACTA
29910568 CTAACCCCTAAACACTA
1 CTAACCCCTAAACACTA
29910585 ATCCTTAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (17 bp):
CTAACCCCTAAACACTA
Found at i:29911163 original size:41 final size:41
Alignment explanation
Indices: 29911059--29911221 Score: 191
Period size: 41 Copynumber: 3.9 Consensus size: 41
29911049 TTTTTGCGGA
* * *
29911059 GCTTTTTCAAAAATGCCGCTAAAGACCAGAGCATTAGCGGC
1 GCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTAGCGAC
*
29911100 GGCGCTTTCCAAAAACGCCGCTAAAGACCAGAGCATTAGCGAC
1 -GC-TTTTCCAAAAACGCCGCTAAAGACCAGAGCATTAGCGAC
* * *
29911143 GCTTTTCCAAAAACGTCGCTAAAGACCAAAGCATTAGCGAT
1 GCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTAGCGAC
** ** * *
29911184 GAATTTCCAAAAACATCGCTAAAGCCCCGAGCATTAGC
1 GCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTAGC
29911222 AGCGCTTCTT
Statistics
Matches: 106, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
41 67 0.63
42 4 0.04
43 35 0.33
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (41 bp):
GCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTAGCGAC
Found at i:29911247 original size:82 final size:84
Alignment explanation
Indices: 29911059--29911221 Score: 204
Period size: 84 Copynumber: 2.0 Consensus size: 84
29911049 TTTTTGCGGA
* * * * ** *
29911059 GCTTTTTCAAAAATGCCGCTAAAGACCAGAGCATTAGCGGCGGCGCTTTCCAAAAACGCCGCTAA
1 GCTTTTCCAAAAACGCCGCTAAAGACCAAAGCATTAGCGGAGGCAATTTCCAAAAACACCGCTAA
29911124 AGACCAGAGCATTAGCGAC
66 AGACCAGAGCATTAGCGAC
* * *
29911143 GCTTTTCCAAAAACGTCGCTAAAGACCAAAGCATTAGC-GATG-AATTTCCAAAAACATCGCTAA
1 GCTTTTCCAAAAACGCCGCTAAAGACCAAAGCATTAGCGGAGGCAATTTCCAAAAACACCGCTAA
* *
29911206 AGCCCCGAGCATTAGC
66 AGACCAGAGCATTAGC
29911222 AGCGCTTCTT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
82 31 0.46
83 2 0.03
84 34 0.51
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (84 bp):
GCTTTTCCAAAAACGCCGCTAAAGACCAAAGCATTAGCGGAGGCAATTTCCAAAAACACCGCTAA
AGACCAGAGCATTAGCGAC
Found at i:29911390 original size:41 final size:41
Alignment explanation
Indices: 29911343--29911422 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
29911333 GGCTTTTTCA
29911343 AAAAGCGCC-GCTAATACTTGATCTTTAGCGGCATTTTTTTT
1 AAAAGCGCCAG-TAATACTTGATCTTTAGCGGCATTTTTTTT
* * *
29911384 AAAAGCGCCAGTAATGCTTGATTTTTAGCGGCGTTTTTT
1 AAAAGCGCCAGTAATACTTGATCTTTAGCGGCATTTTTT
29911423 ATACAAACGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 34 0.97
42 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (41 bp):
AAAAGCGCCAGTAATACTTGATCTTTAGCGGCATTTTTTTT
Found at i:29911434 original size:41 final size:41
Alignment explanation
Indices: 29911327--29911434 Score: 116
Period size: 41 Copynumber: 2.7 Consensus size: 41
29911317 AATACTCATT
* *
29911327 TTTAGTGGC-TTTTTCA-AAAAGCGCC-GCTAATACTTGATC
1 TTTAGCGGCATTTTTTATAAAAGCGCCAG-TAATACTTGATC
* * *
29911366 TTTAGCGGCATTTTTTTTAAAAGCGCCAGTAATGCTTGATT
1 TTTAGCGGCATTTTTTATAAAAGCGCCAGTAATACTTGATC
*
29911407 TTTAGCGGCGTTTTTTATACAAA-CGCCA
1 TTTAGCGGCATTTTTTATA-AAAGCGCCA
29911435 CTAAAGACGT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 8 0.14
40 5 0.09
41 41 0.71
42 4 0.07
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (41 bp):
TTTAGCGGCATTTTTTATAAAAGCGCCAGTAATACTTGATC
Found at i:29912391 original size:16 final size:16
Alignment explanation
Indices: 29912370--29912401 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29912360 TGAATTATTT
29912370 CACTTCTAGTCAAAAC
1 CACTTCTAGTCAAAAC
*
29912386 CACTTCTAGTCCAAAC
1 CACTTCTAGTCAAAAC
29912402 TTTATAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.34, G:0.06, T:0.25
Consensus pattern (16 bp):
CACTTCTAGTCAAAAC
Found at i:29927111 original size:22 final size:23
Alignment explanation
Indices: 29927067--29927116 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
29927057 ATATTTACTC
* *
29927067 ACTAAGTCTATTAATTCATCTT-
1 ACTAAGACTATTAATCCATCTTA
29927089 ACTAAGACTATTTAATCCA-CTTA
1 ACTAAGACTA-TTAATCCATCTTA
29927112 ACTAA
1 ACTAA
29927117 TAGAACTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.38
Consensus pattern (23 bp):
ACTAAGACTATTAATCCATCTTA
Found at i:29929149 original size:40 final size:40
Alignment explanation
Indices: 29929005--29929149 Score: 138
Period size: 40 Copynumber: 3.6 Consensus size: 40
29928995 GCTCCTCGTT
* *
29929005 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
* *
29929045 CAAATGCCTTCGGGACTTAACCCGGATTTAG-A-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACT-TCGCA
* * * * *
29929084 CAAATGCCTTC-GGATCTTGGTCCGGATATGGTCACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
29929125 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29929150 CATCATTCAA
Statistics
Matches: 85, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
38 4 0.05
39 27 0.32
40 42 0.49
41 11 0.13
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:29929265 original size:108 final size:107
Alignment explanation
Indices: 29929059--29929274 Score: 405
Period size: 108 Copynumber: 2.0 Consensus size: 107
29929049 TGCCTTCGGG
*
29929059 ACTTAACCCGGATTTAGATCTCGCACAAATGCCTTCGGATCTTGGTCCGGATATGGTCACTTAGC
1 ACTTAACCCGGAATTAGATCTCGCACAAATGCCTTCGGATCTTGGTCCGGATATGGTCACTTAGC
29929124 CCAAAGCCTTCGGGACTTAGCCCGGACATCATTCAAATAACC
66 CCAAAGCCTTCGGGACTTAGCCCGGACATCATTCAAATAACC
*
29929166 ACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTGGTCCGGATATGGTCACTTAG
1 ACTTAACCCGGAATTAG-ATCTCGCACAAATGCCTTCGGATCTTGGTCCGGATATGGTCACTTAG
29929231 CCCAAAGCCTTCGGGACTTAGCCCGGACATCATTCAAATAACC
65 CCCAAAGCCTTCGGGACTTAGCCCGGACATCATTCAAATAACC
29929274 A
1 A
29929275 TGCACATTTA
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
107 15 0.14
108 91 0.86
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (107 bp):
ACTTAACCCGGAATTAGATCTCGCACAAATGCCTTCGGATCTTGGTCCGGATATGGTCACTTAGC
CCAAAGCCTTCGGGACTTAGCCCGGACATCATTCAAATAACC
Found at i:29944695 original size:54 final size:54
Alignment explanation
Indices: 29944637--29944785 Score: 172
Period size: 54 Copynumber: 2.8 Consensus size: 54
29944627 GTCTTAAATT
* * *
29944637 GTGTAACTCACTGACTTGGGTCACAGGGCCGTGTCTTAGGCCATGTGCTAGACC
1 GTGTAACTCACTGACTTGAGTCACACGGCCGTGTCATAGGCCATGTGCTAGACC
* * * * ** * * *
29944691 GTGTAGCTCTCTGACTTGTGTCACACGACCGTGTCGCAAGTCGTGTGCTAGACC
1 GTGTAACTCACTGACTTGAGTCACACGGCCGTGTCATAGGCCATGTGCTAGACC
* *
29944745 GTGTAACTCACTGACTTGATTCACACGGTCGTGTCATAGGC
1 GTGTAACTCACTGACTTGAGTCACACGGCCGTGTCATAGGC
29944786 TGTATGATAC
Statistics
Matches: 75, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (54 bp):
GTGTAACTCACTGACTTGAGTCACACGGCCGTGTCATAGGCCATGTGCTAGACC
Found at i:29947487 original size:23 final size:23
Alignment explanation
Indices: 29947461--29947536 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
29947451 ATAAGTGCCA
29947461 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
29947484 CACTGATATATAGCCGTAGCTAG
1 CACTGATATGTAGCCGAAGCTAC
* *
29947507 CACTGAAATGTAGCCGAATCTAC
1 CACTGATATGTAGCCGAAGCTAC
29947530 CACTGAT
1 CACTGAT
29947537 CAATAACACT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:29947788 original size:18 final size:17
Alignment explanation
Indices: 29947762--29947800 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
29947752 ATTTTCCTTC
29947762 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
29947779 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
29947797 CACA
1 CACA
29947801 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:29952236 original size:16 final size:16
Alignment explanation
Indices: 29952215--29952251 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
29952205 TTGGTTCGCT
29952215 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
29952231 GTAATGGAATATAGGC
1 GTAATGGAATAGAGGC
29952247 GTAAT
1 GTAAT
29952252 AGCAAATCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.32, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:29952690 original size:47 final size:46
Alignment explanation
Indices: 29952621--29952788 Score: 143
Period size: 47 Copynumber: 3.7 Consensus size: 46
29952611 TTAATTAAAA
*
29952621 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
29952668 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
29952713 TA-AT-AATAATATATAATTTCATAA-AATTCGTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
*
29952759 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
29952789 ATATTAAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
43 3 0.03
44 22 0.23
45 9 0.09
46 8 0.08
47 46 0.48
48 7 0.07
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:29952696 original size:101 final size:92
Alignment explanation
Indices: 29952636--29952812 Score: 254
Period size: 91 Copynumber: 1.9 Consensus size: 92
29952626 GATTTAATAA
* *
29952636 AATTT-AAAATAATT-ATAACTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTAT
1 AATTTCAAAA-AATTCATAA-TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAA
29952699 TATTAAATATAATTTAA-TAATAATATAT
64 TATTAAATATAATTTAATTAATAATATAT
* * * *
29952727 AATTTCATAAAATTCGTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTCATAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATA
29952792 TTAAATATAATTTAA-TAATAA
66 TTAAATATAATTTAATTAATAA
29952813 AATGTTCTTA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
91 73 0.94
92 5 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (92 bp):
AATTTCAAAAAATTCATAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATA
TTAAATATAATTTAATTAATAATATAT
Found at i:29952808 original size:17 final size:15
Alignment explanation
Indices: 29952777--29952815 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
29952767 TTTATACAAT
29952777 TTAAAATAATTAATA
1 TTAAAATAATTAATA
29952792 TTAAATATAATTTAATA
1 TTAAA-ATAA-TTAATA
*
29952809 ATAAAAT
1 TTAAAAT
29952816 GTTCTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATAATTAATA
Found at i:29969365 original size:20 final size:20
Alignment explanation
Indices: 29969337--29969375 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
29969327 CTTCAAAATC
*
29969337 AAGTTAAAATGATTTTAACA
1 AAGTAAAAATGATTTTAACA
*
29969357 AAGTAAAAATTATTTTAAC
1 AAGTAAAAATGATTTTAAC
29969376 TTGTCAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (20 bp):
AAGTAAAAATGATTTTAACA
Found at i:29972564 original size:15 final size:16
Alignment explanation
Indices: 29972540--29972572 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
29972530 CTTCCTCACG
29972540 TTTTAATTTCTTT-TT
1 TTTTAATTTCTTTCTT
*
29972555 TTTTATTTTCTTTCTT
1 TTTTAATTTCTTTCTT
29972571 TT
1 TT
29972573 CACACTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTAATTTCTTTCTT
Done.