Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 103 of 213
Found at i:29114243 original size:44 final size:44
Alignment explanation
Indices: 29114061--29114346 Score: 223
Period size: 44 Copynumber: 6.6 Consensus size: 44
29114051 ATTTTTAGAA
* * *
29114061 ACAAATGCCGCTAAAGAACA-AGACC-TTTAGCGACGCATTTCCC
1 ACAAACGCCGCTAAAGAACATA-ACCTTTTAGCGGCGCTTTTCCC
* *** * * **
29114104 ACAAACGCCGCAAAAG-GTTTAATC-TATAGCGGCG-TTTGTGAC
1 ACAAACGCCGCTAAAGAACATAACCTTTTAGCGGCGCTTT-TCCC
* * * *
29114146 AAAAAGCGCCGCTAAAGACCATGACC-TTTAGCGACGCTTTTCCC
1 ACAAA-CGCCGCTAAAGAACATAACCTTTTAGCGGCGCTTTTCCC
* *
29114190 ACAAACGCCGCTAAAGACCATAACCTTTTGGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGAACATAACCTTTTAGCGGCGCTTTTCCC
* **
29114234 ACAAACGCCGCTAAAGAACATGACC-TTTAGCGGCGCTTTTTGTC
1 ACAAACGCCGCTAAAGAACATAACCTTTTAGCGGCGC-TTTTCCC
* * ** * *
29114278 ACAAACACCGCTATAGATTA-AACCTTTT-GCGGCGCTTCTCGC
1 ACAAACGCCGCTAAAGAACATAACCTTTTAGCGGCGCTTTTCCC
*
29114320 AAAAACGCCGCTAAA-AACATAACCTTT
1 ACAAACGCCGCTAAAGAACATAACCTTT
29114347 AAAAAAAATT
Statistics
Matches: 190, Mismatches: 44, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
41 4 0.02
42 39 0.21
43 64 0.34
44 80 0.42
45 3 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (44 bp):
ACAAACGCCGCTAAAGAACATAACCTTTTAGCGGCGCTTTTCCC
Found at i:29115548 original size:5 final size:5
Alignment explanation
Indices: 29115538--29115564 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
29115528 CTTTCTTGCC
29115538 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
29115565 AACAAGAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:29116150 original size:14 final size:14
Alignment explanation
Indices: 29116131--29116157 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29116121 ATCAAGAAAA
29116131 AAATTATGTATAAT
1 AAATTATGTATAAT
29116145 AAATTATGTATAA
1 AAATTATGTATAA
29116158 GACTTACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
AAATTATGTATAAT
Found at i:29118744 original size:27 final size:27
Alignment explanation
Indices: 29118689--29118744 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
29118679 CTAGCTTTAC
***
29118689 AAACCTTAAACTCCATATATATTTTTT
1 AAACCTTAAACTCCATATATATGCATT
29118716 AAACCTTAAACTCCATAT-TAATGCATT
1 AAACCTTAAACTCCATATAT-ATGCATT
29118743 AA
1 AA
29118745 TTGATTGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.38
Consensus pattern (27 bp):
AAACCTTAAACTCCATATATATGCATT
Found at i:29119014 original size:7 final size:7
Alignment explanation
Indices: 29119004--29119038 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
29118994 ATAAAACCTA
29119004 AACCCCT
1 AACCCCT
29119011 AACCCCT
1 AACCCCT
*
29119018 AACCCTT
1 AACCCCT
*
29119025 AACTCCT
1 AACCCCT
29119032 AACCCCT
1 AACCCCT
29119039 CTTTTACAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.51, G:0.00, T:0.20
Consensus pattern (7 bp):
AACCCCT
Found at i:29119169 original size:14 final size:14
Alignment explanation
Indices: 29119152--29119189 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
29119142 CACTAACTCT
*
29119152 TAACCTCTAACCT-C
1 TAACCCCTAA-CTAC
29119166 TAACCCCTAACTAC
1 TAACCCCTAACTAC
29119180 TAACCCCTAA
1 TAACCCCTAA
29119190 ACTTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 2 0.09
14 20 0.91
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.24
Consensus pattern (14 bp):
TAACCCCTAACTAC
Found at i:29119284 original size:14 final size:14
Alignment explanation
Indices: 29119248--29119304 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
29119238 AAACCCTAAC
*
29119248 CTAACACTAAATCT
1 CTAACCCTAAATCT
*
29119262 ATAAACCCTAAATCT
1 CT-AACCCTAAATCT
*
29119277 CTAACCCTTAA-CT
1 CTAACCCTAAATCT
29119290 CCTAACCCCTAAATC
1 -CTAA-CCCTAAATC
29119305 ACAACCCTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 2 0.06
14 13 0.38
15 18 0.53
16 1 0.03
ACGTcount: A:0.39, C:0.35, G:0.00, T:0.26
Consensus pattern (14 bp):
CTAACCCTAAATCT
Found at i:29119340 original size:14 final size:15
Alignment explanation
Indices: 29119321--29119353 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
29119311 CTTAAACCAG
29119321 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
29119335 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
29119350 AATC
1 AATC
29119354 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:29120172 original size:16 final size:16
Alignment explanation
Indices: 29120147--29120178 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29120137 TCCAGTCCAA
29120147 AAAATCACATTTTTGC
1 AAAATCACATTTTTGC
*
29120163 AAAATTACATTTTTGC
1 AAAATCACATTTTTGC
29120179 CCCTAAAGTT
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:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (16 bp):
AAAATCACATTTTTGC
Found at i:29123044 original size:15 final size:15
Alignment explanation
Indices: 29123026--29123058 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
29123016 TGCTTCCATA
29123026 ATTGATTACATCATC
1 ATTGATTACATCATC
*
29123041 ATTGCTTACATCATC
1 ATTGATTACATCATC
29123056 ATT
1 ATT
29123059 AGTTTGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.42
Consensus pattern (15 bp):
ATTGATTACATCATC
Found at i:29125242 original size:17 final size:17
Alignment explanation
Indices: 29125210--29125241 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29125200 CAATTGGAGG
29125210 TTTTTGTTTCTCTTTTC
1 TTTTTGTTTCTCTTTTC
29125227 TTTTTGTTT-TCTTTT
1 TTTTTGTTTCTCTTTT
29125242 TGGGCCTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.81
Consensus pattern (17 bp):
TTTTTGTTTCTCTTTTC
Found at i:29125903 original size:148 final size:148
Alignment explanation
Indices: 29125528--29125974 Score: 658
Period size: 148 Copynumber: 3.1 Consensus size: 148
29125518 AGGAAAATTT
*
29125528 TGATTTTTTTTAAAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTT
1 TGATTTTTTTTAAAAAAAAGAGAGTTTAGATTTTTAAAAATAAAAATATG-TTTTTAGTCATTTT
* * * * *
29125593 AAAGGAAAATTTTAAAAATTTAAAGCAAAGTTTTGATCTTTTTGAACTATTTCGAAATAAAGGTT
65 AAAGGAAAATTTTAAAATTTTAAAACAAAATTTTGATCTTTTTCAACTATTTCGAAATAAAGCTT
29125658 TGATTTTTAAGAAAAATA-
130 TGATTTTTAAGAAAAATAG
* * * * *
29125676 -GA----TATTAAAAGAAA-AGAGTTCAGATTTTTTTAAAA-AAAAATATGTTTTTAGTCCTTTT
1 TGATTTTTTTTAAAAAAAAGAGAGTTTAGA-TTTTTAAAAATAAAAATATGTTTTTAGTCATTTT
*
29125734 AAAGGAAAATTTTAAAATTTTAAAACAAAATTTTGATCTTTTTCAACTATTTTGAAATAAAGCTT
65 AAAGGAAAATTTTAAAATTTTAAAACAAAATTTTGATCTTTTTCAACTATTTCGAAATAAAGCTT
29125799 TGATTTTTAAGAAAAATAG
130 TGATTTTTAAGAAAAATAG
29125818 TGATTTTTTTTAAAAAAAAGAGAGTTTAGATTTTTAAAAATAAAAATATGTTTTTAGTCATTTTA
1 TGATTTTTTTTAAAAAAAAGAGAGTTTAGATTTTTAAAAATAAAAATATGTTTTTAGTCATTTTA
* * *
29125883 AAGGAAAATTTTAAATTTTTAAAATAAAATTTTGATCTTTTTCAACTATTTCAAAATAAAGCTTT
66 AAGGAAAATTTTAAAATTTTAAAACAAAATTTTGATCTTTTTCAACTATTTCGAAATAAAGCTTT
* **
29125948 AATTTTTAAGAAATGTAG
131 GATTTTTAAGAAAAATAG
29125966 TGATTTTTT
1 TGATTTTTT
29125975 AAAGAAAATT
Statistics
Matches: 266, Mismatches: 24, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
141 90 0.34
142 17 0.06
143 21 0.08
147 21 0.08
148 117 0.44
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (148 bp):
TGATTTTTTTTAAAAAAAAGAGAGTTTAGATTTTTAAAAATAAAAATATGTTTTTAGTCATTTTA
AAGGAAAATTTTAAAATTTTAAAACAAAATTTTGATCTTTTTCAACTATTTCGAAATAAAGCTTT
GATTTTTAAGAAAAATAG
Found at i:29142062 original size:23 final size:23
Alignment explanation
Indices: 29142036--29142083 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
29142026 AGGACTTAAT
*
29142036 TGCATAAAATGAAATGGTTTTAC
1 TGCATAAAAGGAAATGGTTTTAC
29142059 TGCATAAAAGGAAATGGTTTTAC
1 TGCATAAAAGGAAATGGTTTTAC
29142082 TG
1 TG
29142084 TCTTAGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (23 bp):
TGCATAAAAGGAAATGGTTTTAC
Found at i:29143338 original size:20 final size:20
Alignment explanation
Indices: 29143290--29143341 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
29143280 AAGCTTATGC
*
29143290 TAAGTAAAAGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
*
29143310 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGGAATGGAAAG
29143330 TAAGTAAATGGA
1 TAAGTAAATGGA
29143342 GTGATTCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:29147547 original size:33 final size:33
Alignment explanation
Indices: 29147485--29147549 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
29147475 AAAAAATAAC
* * *
29147485 TTTCTTTTTCTCTTTTCTTCTTCTTCTTCTATA
1 TTTCTTTTTCCCTTTTCATCTTCTACTTCTATA
29147518 TTTCTTTTTCCCTTTTCAATC-TCTACTTCTAT
1 TTTCTTTTTCCCTTTTC-ATCTTCTACTTCTAT
29147550 TCCCTAGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.65
Consensus pattern (33 bp):
TTTCTTTTTCCCTTTTCATCTTCTACTTCTATA
Found at i:29148652 original size:20 final size:20
Alignment explanation
Indices: 29148629--29148689 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
29148619 CACATTGTTG
* *
29148629 GCAGCTTGTTTGCATTACTA
1 GCAGTTTGTCTGCATTACTA
*
29148649 GCAGTTTATCTGCAATT-CTA
1 GCAGTTTGTCTGC-ATTACTA
*
29148669 GCAGTTTGTCTGCACTACTA
1 GCAGTTTGTCTGCATTACTA
29148689 G
1 G
29148690 TGGCTTGTCC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.06
20 29 0.85
21 3 0.09
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (20 bp):
GCAGTTTGTCTGCATTACTA
Found at i:29160126 original size:43 final size:44
Alignment explanation
Indices: 29160077--29160167 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 44
29160067 AAAATCACCA
*
29160077 TAAATTGTGGAAATCGAATTAGAGGATG-AAAAAAATATGGAAT
1 TAAATTGTGGAAATCAAATTAGAGGATGAAAAAAAATATGGAAT
29160120 TAAATTGTGGAAATCAAATTAGAGGATGAAAAAAAATATGGAAT
1 TAAATTGTGGAAATCAAATTAGAGGATGAAAAAAAATATGGAAT
29160164 TAAA
1 TAAA
29160168 GCTTATTTAG
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 27 0.59
44 19 0.41
ACGTcount: A:0.52, C:0.02, G:0.21, T:0.25
Consensus pattern (44 bp):
TAAATTGTGGAAATCAAATTAGAGGATGAAAAAAAATATGGAAT
Found at i:29164091 original size:22 final size:22
Alignment explanation
Indices: 29164065--29164111 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
29164055 ACTCTCCCCC
29164065 TCTTCTCTATTTT-TTTCTCTTT
1 TCTTCTCTATTTTATTT-TCTTT
* *
29164087 TCTTCTTTCTTTTATTTTCTTT
1 TCTTCTCTATTTTATTTTCTTT
29164109 TCT
1 TCT
29164112 CCTTCTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.74
Consensus pattern (22 bp):
TCTTCTCTATTTTATTTTCTTT
Found at i:29168782 original size:26 final size:26
Alignment explanation
Indices: 29168660--29168807 Score: 127
Period size: 27 Copynumber: 5.6 Consensus size: 26
29168650 AGACCTCAAA
*
29168660 ATAGGGTAAAATGA-CGAAATACATCT
1 ATAGGGTAAAATGACCGAAATAC-CCT
* * * *
29168686 ATAAGGTAAAATGATCGATATACCCCC
1 ATAGGGTAAAATGACCGAAATA-CCCT
* *
29168713 ATAGGATAAATTGACCGAAATACCCT
1 ATAGGGTAAAATGACCGAAATACCCT
* * *
29168739 CATAAGGTAAAATAACCAAAATACCCT
1 -ATAGGGTAAAATGACCGAAATACCCT
* * *
29168766 ATAGGGTAAAATGACCAAAATATCTT
1 ATAGGGTAAAATGACCGAAATACCCT
*
29168792 CATGGGGTAAAATGAC
1 -ATAGGGTAAAATGAC
29168808 TATTATACCC
Statistics
Matches: 98, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
26 38 0.39
27 59 0.60
28 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.22
Consensus pattern (26 bp):
ATAGGGTAAAATGACCGAAATACCCT
Found at i:29173173 original size:50 final size:50
Alignment explanation
Indices: 29173057--29173246 Score: 172
Period size: 50 Copynumber: 3.8 Consensus size: 50
29173047 GATAATAACA
* * * * * *
29173057 TGCCAAAGCCATGTCCCAGACATGGTTTTACATGTGATGTTTTC-TGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT-CTCTCATAT-CGG
* * *
29173106 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAGT-TCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TCTCTCATATCGG
* * * * *
29173156 TGCCCATGCCATGTCCCAGGCATGGTCTTATAGGGGATCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATATCGG
* * *
29173206 TGCCAACGTCATGTCCCAGACATGATCTTACATGGGATCTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTC
29173247 ATTCTCTTAA
Statistics
Matches: 113, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
48 4 0.04
49 34 0.30
50 75 0.66
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATATCGG
Found at i:29180614 original size:27 final size:27
Alignment explanation
Indices: 29180579--29180863 Score: 297
Period size: 27 Copynumber: 10.6 Consensus size: 27
29180569 AATAAAATGA
*
29180579 CTTTGTGGCGAATCATGAAAGAAAAGC
1 CTTTATGGCGAATCATGAAAGAAAAGC
*
29180606 CTTTATGGCGAATCATGAAA-AAAATC
1 CTTTATGGCGAATCATGAAAGAAAAGC
* **
29180632 CTTTATGGCAAATCATGAAAGAAAAAT
1 CTTTATGGCGAATCATGAAAGAAAAGC
* * * *
29180659 ATTTCTGGAGAATCATGAAA-AAAAAC
1 CTTTATGGCGAATCATGAAAGAAAAGC
* * *
29180685 TTTTATGGTGAAT-TTGGAAAGAAAAGC
1 CTTTATGGCGAATCAT-GAAAGAAAAGC
* * *
29180712 CTTTGTGGCAAATCCTGAAAGAAAAGC
1 CTTTATGGCGAATCATGAAAGAAAAGC
* * * *
29180739 ATTTGTGGCAAATCATAAAAGAAAAGC
1 CTTTATGGCGAATCATGAAAGAAAAGC
* * *
29180766 CTTTGTGGCGAATCATGAAATAAAAGT
1 CTTTATGGCGAATCATGAAAGAAAAGC
*
29180793 CTTTATGGCGAATCATGAAAGATAAGC
1 CTTTATGGCGAATCATGAAAGAAAAGC
* * *
29180820 CTTTGTGGTGAATCATGAAAGAAAGGC
1 CTTTATGGCGAATCATGAAAGAAAAGC
*
29180847 CCTTATGGCGAATCATG
1 CTTTATGGCGAATCATG
29180864 GAGTAAGTTA
Statistics
Matches: 215, Mismatches: 39, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
25 1 0.00
26 43 0.20
27 170 0.79
28 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (27 bp):
CTTTATGGCGAATCATGAAAGAAAAGC
Found at i:29189163 original size:20 final size:19
Alignment explanation
Indices: 29189134--29189171 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
29189124 AAGTGGTGAT
29189134 AATTTATTTTCTAAGAATA
1 AATTTATTTTCTAAGAATA
*
29189153 AATTATATTTTCTAGGAAT
1 AATT-TATTTTCTAAGAAT
29189172 TACAATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:29203691 original size:23 final size:20
Alignment explanation
Indices: 29203641--29203694 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 20
29203631 CTCATCGGGA
29203641 AATTGAATA-AGTGTAATTG
1 AATTGAATATAGTGTAATTG
29203660 AATAATGAATATAGGTGTAGAATTG
1 AAT--TGAATATA-GTGT--AATTG
29203685 AATTGAATAT
1 AATTGAATAT
29203695 CGACTTAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.10
21 6 0.21
22 1 0.03
23 11 0.38
25 8 0.28
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.35
Consensus pattern (20 bp):
AATTGAATATAGTGTAATTG
Found at i:29215137 original size:46 final size:47
Alignment explanation
Indices: 29215084--29215640 Score: 607
Period size: 46 Copynumber: 12.6 Consensus size: 47
29215074 TAAAACCCAT
29215084 ATGTGAAAGT-TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
29215130 ATGTGAAAGTGTATATATTGTGATAAGGCCTAAT-GCCGATGTGATGA
1 ATGTGAAAGTGTATATA-TGTGATAAGGCCTAATGGCCGATGTGATGA
*
29215177 ATGTGAAAGTGTATATGTGTGATAAGG-CTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29215223 ATGTGAAAGTGTATATA--TGATAA-GCTTAATGGCCGAT-TGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29215266 ATG-GAAAGTG--TATATGTGATAA-GCTTAAT-GCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
29215308 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
29215355 ATGTGAAAGTGTAT-TATGTGATAAGG-CTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29215400 ATGTGAAAGTGTATAT-TGTGATAA-G-CT-AT-ACC-A---G-TG-
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29215436 AT-TG--AG-GTTTA-ATGCTGAT-AGG--TAATGGCCGATGTGATGGAA
1 ATGTGAAAGTGTATATATG-TGATAAGGCCTAATGGCCGATGTGAT-G-A
** *
29215478 ACTGTGAAAGTGGTATATGCGTGATAA-GCTTAATGG-CGATGTGATG-
1 A-TGTGAAAGT-GTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* ** *
29215524 ATGTGAAAGTGTCTA-GCGTGATAAGGCTTAATGG-CGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
29215569 ATGTGAAAG-GTATATATGTGACAGGGCCGAGTGGCCAATGTGATGT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
29215615 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
29215641 TCCCGAAGGG
Statistics
Matches: 445, Mismatches: 25, Indels: 81
0.81 0.05 0.15
Matches are distributed among these distances:
32 8 0.02
33 9 0.02
34 2 0.00
35 3 0.01
36 2 0.00
37 2 0.00
38 2 0.00
39 1 0.00
40 5 0.01
41 7 0.02
42 32 0.07
43 29 0.07
44 49 0.11
45 88 0.20
46 89 0.20
47 74 0.17
48 26 0.06
49 11 0.02
50 6 0.01
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:29215424 original size:178 final size:170
Alignment explanation
Indices: 29215096--29215589 Score: 607
Period size: 178 Copynumber: 2.9 Consensus size: 170
29215086 GTGAAAGTTA
29215096 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATTGTGATAAGGCCT
1 TATATGTGATAA-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-TGTGATAAGGCCT
*
29215161 AAT-GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCTAATGGCCGATGTGATGAAT
64 AATGGCCGATGTGATGAATGTGAAAGTGTAT-TATGTGATAAGGCTAATGGCCGATGTGATGAAT
* *
29215225 GTGAAAGTGTATA-TATGATAAGCTTAATGGCCGATTGATGAATGGAAAGTG
128 GTGAAAGTGTATATTGTGATAAGC-T-AT-ACC-A--G-TG-ATGG-AAGTG
*
29215276 TATATGTGATAAGCTTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
1 TATATGTGATAAGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
29215340 TGGCCGATGTGATGAATGTGAAAGTGTATTATGTGATAAGGCTAATGGCCGATGTGATGAATGTG
66 TGGCCGATGTGATGAATGTGAAAGTGTATTATGTGATAAGGCTAATGGCCGATGTGATGAATGTG
* * *
29215405 AAAGTGTATATTGTGATAAGCTATACCAGTGATTGAGGTT
131 AAAGTGTATATTGTGATAAGCTATACCAGTGATGGAAGTG
* **
29215445 TA-ATGCTGAT-AG-GTAATGGCCGATGTGATGGAAACTGTGAAAGTGGTATATGCGTGATAA-G
1 TATATG-TGATAAGCCTAATGGCCGATGTGAT-G-AA-TGTGAAAGT-GTATATATGTGATAAGG
* * *
29215506 CTTAATGG-CGATGTGATG-ATGTGAAAGTGT-CTAGCGTGATAAGGCTTAATGG-CGATGTGAT
61 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATTA-TGTGATAAGGC-TAATGGCCGATGTGAT
29215567 GAATGTGAAAG-GTATATATGTGA
124 GAATGTGAAAGTGTATAT-TGTGA
29215590 CAGGGCCGAG
Statistics
Matches: 290, Mismatches: 13, Indels: 33
0.86 0.04 0.10
Matches are distributed among these distances:
167 4 0.01
168 24 0.08
169 57 0.20
170 21 0.07
171 19 0.07
172 14 0.05
174 1 0.00
175 2 0.01
176 2 0.01
177 62 0.21
178 66 0.23
179 6 0.02
180 12 0.04
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (170 bp):
TATATGTGATAAGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
TGGCCGATGTGATGAATGTGAAAGTGTATTATGTGATAAGGCTAATGGCCGATGTGATGAATGTG
AAAGTGTATATTGTGATAAGCTATACCAGTGATGGAAGTG
Found at i:29215621 original size:215 final size:210
Alignment explanation
Indices: 29215249--29215640 Score: 542
Period size: 215 Copynumber: 1.8 Consensus size: 210
29215239 ATGATAAGCT
29215249 TAATGGCCGATTGATGAATGGAAAGTGTATATGTGATAAGCTTAATGCCGATGTGATGAATGTGA
1 TAATGGCCGATTGATGAATGGAAAGTGTATATGTGATAAGCTTAATGCCGATGTGATGAATGTGA
* *
29215314 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATTATGTGATAA
66 AAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATTATGTGACAA
* * * *
29215379 GGCTAATGGCCGATGTGATGAATGTGAAAGTGTAT-ATTGTGATAAGCTATACCAGTGATTGAGG
131 GGCGAATGGCCAATGTGATGAATGTGAAAGTGCATAAATGTGATAAGCTATACCAGTGATTGAGG
29215443 TTTAATGCTGATAGG
196 TTTAATGCTGATAGG
*
29215458 TAATGGCCGATGTGATGGAAACTGTGAAAGTGGTATATGCGTGATAAGCTTAATGGCGATGTGAT
1 TAATGGCCGAT-TGAT-G-AA-TG-GAAAGT-GTATAT--GTGATAAGCTTAATGCCGATGTGAT
* * *
29215523 G-ATGTGAAAGTGTCTA-GCGTGATAAGGCTTAATGG-CGATGTGATGAATGTGAAAG-GTATAT
58 GAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT-T
* * *
29215584 ATGTGACAGGGCCGAGTGGCCAATGTGATGTATGTGAAAGTGCATAAATGTGATAAG
122 ATGTGACAAGG-CGAATGGCCAATGTGATGAATGTGAAAGTGCATAAATGTGATAAG
29215641 TCCCGAAGGG
Statistics
Matches: 159, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
209 11 0.07
210 4 0.03
211 1 0.01
212 2 0.01
213 6 0.04
214 36 0.23
215 50 0.31
216 24 0.15
217 25 0.16
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (210 bp):
TAATGGCCGATTGATGAATGGAAAGTGTATATGTGATAAGCTTAATGCCGATGTGATGAATGTGA
AAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATTATGTGACAA
GGCGAATGGCCAATGTGATGAATGTGAAAGTGCATAAATGTGATAAGCTATACCAGTGATTGAGG
TTTAATGCTGATAGG
Found at i:29235054 original size:23 final size:22
Alignment explanation
Indices: 29235028--29235071 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
29235018 TTGGAATTAA
29235028 GTGT-AATTGAATAATGAATATAG
1 GTGTAAATTGAAT--TGAATATAG
29235051 GTGTAGAATTGAATTGAATAT
1 GTGTA-AATTGAATTGAATAT
29235072 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.23, T:0.36
Consensus pattern (22 bp):
GTGTAAATTGAATTGAATATAG
Found at i:29246552 original size:47 final size:47
Alignment explanation
Indices: 29246475--29247070 Score: 931
Period size: 47 Copynumber: 12.6 Consensus size: 47
29246465 TTAAACCCAT
29246475 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
29246524 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29246571 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29246618 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
29246667 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
29246714 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
29246761 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
29246808 ATGTGAAAGTGTATATTTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
29246855 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
29246904 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* ** *
29246951 ATGTGAAAGTGTCTATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
29246998 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
29247045 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
29247071 TCCCGAAGGG
Statistics
Matches: 513, Mismatches: 30, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
47 413 0.81
49 100 0.19
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:29246800 original size:190 final size:191
Alignment explanation
Indices: 29246475--29247070 Score: 954
Period size: 190 Copynumber: 3.1 Consensus size: 191
29246465 TTAAACCCAT
*
29246475 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG-ATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
29246540 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATG
65 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATG
*
29246605 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
130 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
**
29246667 ATGTGAAAGTG-TATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 ATGTGAAAGTGATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
29246731 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
*
29246796 CCGATGTGATGAATGTGAAAGTGTATAT-T-TGTGATAAGGCCTAATAGCCGATGTGATGA
131 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
29246855 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG-ATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
** * * * *
29246920 GCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTCTATGCGTGATAAGGCTTAATG
65 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATG
* * * * * *
29246985 GCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAATGTGATGT
130 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
29247045 ATGTGAAAGTGCATA-A-ATGTGATAAG
1 ATGTGAAAGTG-ATATATATGTGATAAG
29247071 TCCCGAAGGG
Statistics
Matches: 377, Mismatches: 23, Indels: 12
0.92 0.06 0.03
Matches are distributed among these distances:
188 52 0.14
189 3 0.01
190 311 0.82
192 11 0.03
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.30
Consensus pattern (191 bp):
ATGTGAAAGTGATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:29246892 original size:237 final size:237
Alignment explanation
Indices: 29246475--29247070 Score: 1039
Period size: 237 Copynumber: 2.5 Consensus size: 237
29246465 TTAAACCCAT
29246475 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
29246540 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATG
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
29246605 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATG
129 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATG
29246670 TGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
194 TGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
29246714 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
29246779 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATTTGTGATAAGGCCTAATAGC
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
29246844 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTG
131 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTG
29246909 AAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
196 AAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
* ** *
29246951 ATGTGAAAGTGTCTATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * * *
29247016 GTGACAGGGCCGAGTGGCCAATGTGATGTATGTGAAAGTGCATAAATGTGATAAG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29247071 TCCCGAAGGG
Statistics
Matches: 342, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
237 331 0.97
239 11 0.03
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.30
Consensus pattern (237 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTG
AAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
Found at i:29246901 original size:22 final size:22
Alignment explanation
Indices: 29246873--29246995 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
29246863 GTGTATATAT
29246873 ATGTGATAAGGCTTAATGGCCG
1 ATGTGATAAGGCTTAATGGCCG
* * * ***
29246895 ATGTGATGAATG-TGAAAGTGTAT
1 ATGTGAT-AAGGCTTAATG-GCCG
29246918 ATGCGTGATAAGGCTTAATGGCCG
1 AT--GTGATAAGGCTTAATGGCCG
* * * * *
29246942 ATGTGATGAATG-TGAAAGTGTCT
1 ATGTGAT-AAGGCTTAATG-GCCG
29246965 ATGCGTGATAAGGCTTAATGGCCG
1 AT--GTGATAAGGCTTAATGGCCG
29246989 ATGTGAT
1 ATGTGAT
29246996 GAATGTGAAA
Statistics
Matches: 69, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 25 0.36
23 13 0.19
24 13 0.19
25 18 0.26
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.30
Consensus pattern (22 bp):
ATGTGATAAGGCTTAATGGCCG
Found at i:29259366 original size:30 final size:30
Alignment explanation
Indices: 29259309--29259367 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
29259299 GTTTTTTAAA
* *
29259309 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
29259339 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
29259368 CAAAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:29265393 original size:23 final size:23
Alignment explanation
Indices: 29265367--29265442 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
29265357 ATAAGTGCCA
29265367 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
29265390 CACTGATATGTAGCTGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
29265413 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
29265436 CACTGAT
1 CACTGAT
29265443 CAATAACACT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:29265694 original size:18 final size:17
Alignment explanation
Indices: 29265668--29265706 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
29265658 ATTTTCCTTC
29265668 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
29265685 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
29265703 CACA
1 CACA
29265707 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:29271055 original size:50 final size:51
Alignment explanation
Indices: 29270928--29271119 Score: 208
Period size: 50 Copynumber: 3.7 Consensus size: 51
29270918 GGAATGAGAC
** *
29270928 CCCATGTAAGACCATGTTTGGGACATGGCATTGGCATTATTGAGGTTATGAAAGGT
1 CCCATGTAAGACCATGTTTGGGACATGGCATTGGC---ACCGAGG--ATGAGAGGT
*
29270984 CCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGA-GATGAGAGGT
1 CCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGGATGAGAGGT
* * * * **
29271034 CCCCTGTAAGACCATGTTTGGGACATGGAATGGGCACCGATG-TGAGAACT
1 CCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGGATGAGAGGT
* * *
29271084 CCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 CCCATGTAAGACCATGTTTGGGACATGGCATTGGCA
29271120 GTACAGGAAA
Statistics
Matches: 119, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
50 80 0.67
51 1 0.01
52 1 0.01
53 3 0.03
56 34 0.29
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (51 bp):
CCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGGATGAGAGGT
Found at i:29280746 original size:19 final size:19
Alignment explanation
Indices: 29280702--29280765 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
29280692 TTTTTATTTC
* *
29280702 TTTAATTTATATTATAATAA
1 TTTAATTTAT-TAATAATCA
*
29280722 TATAATTTATTAATAATCA
1 TTTAATTTATTAATAATCA
* * *
29280741 TTTAATTAATAAAT-ATCT
1 TTTAATTTATTAATAATCA
29280759 TTTAATT
1 TTTAATT
29280766 ATAACACAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
18 10 0.27
19 18 0.49
20 9 0.24
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAATTTATTAATAATCA
Found at i:29280881 original size:12 final size:13
Alignment explanation
Indices: 29280847--29280884 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
29280837 CTTATTTATT
29280847 TTATATTTAATAAA
1 TTATATTT-ATAAA
29280861 TTAATATTTATAAA
1 TT-ATATTTATAAA
29280875 -TATATTTATA
1 TTATATTTATA
29280885 CTTAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.39
13 1 0.04
14 7 0.30
15 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTATATTTATAAA
Found at i:29281028 original size:25 final size:23
Alignment explanation
Indices: 29280984--29281044 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
29280974 ATTTTGATTT
*
29280984 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
29281008 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
29281032 ATATAAATTATAT
1 AT-TTAATTATAT
29281045 TTAAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:29281047 original size:35 final size:35
Alignment explanation
Indices: 29280992--29281071 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
29280982 TTATTTAATA
* *
29280992 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
*
29281026 CATATAATATAAATTAT-ATTTAAATATCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
29281061 ATATAAT-TAAA
1 ATATAATATAAA
29281072 ACAAATAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 25 0.61
36 5 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:29281510 original size:16 final size:16
Alignment explanation
Indices: 29281489--29281519 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29281479 TAAGTAAGCA
29281489 AGTAAGTAAACAAGAG
1 AGTAAGTAAACAAGAG
*
29281505 AGTAAGTAAAGAAGA
1 AGTAAGTAAACAAGA
29281520 AACAAAGACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.26, T:0.13
Consensus pattern (16 bp):
AGTAAGTAAACAAGAG
Found at i:29284682 original size:14 final size:12
Alignment explanation
Indices: 29284653--29284679 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
29284643 TTGTACGAAG
29284653 ATAATGCAACAT
1 ATAATGCAACAT
29284665 ATAATGCAACAT
1 ATAATGCAACAT
29284677 ATA
1 ATA
29284680 TAACTCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (12 bp):
ATAATGCAACAT
Found at i:29299645 original size:12 final size:13
Alignment explanation
Indices: 29299621--29299650 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
29299611 GATGTTATTT
29299621 TGTTATATTTTTA
1 TGTTATATTTTTA
29299634 TGTTAT-TTTTTA
1 TGTTATATTTTTA
29299646 TGTTA
1 TGTTA
29299651 AATAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (13 bp):
TGTTATATTTTTA
Found at i:29303040 original size:45 final size:45
Alignment explanation
Indices: 29302989--29303294 Score: 228
Period size: 45 Copynumber: 6.8 Consensus size: 45
29302979 TTGGCTTGTA
*
29302989 AAATGAATAAGACCATAGTTGAAAGACAATATGGCACTATACCGG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGG
* * * *
29303034 AAATGAATAAGACAATATTTGAAAGACACTATGGCGCTATACCGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGG
*
29303079 AAATGAATAAGACCATAGTT-CAAGAACACTATGGCAAC-ATGA-CGG
1 AAATGAATAAGACCATAGTTGAAAG-ACACTATGGC-ACTAT-ACCGG
* * ** **
29303124 AAATGAATAAGACCACAATTGAAAGACACTATGGCA-TCATGTCAA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACT-ATACCGG
* * * * ** **
29303169 AAATAAAAAAGACCATAGTTAAAAGACACTATGCCA-TCATGTCAC
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACT-ATACCGG
** * * * ** **
29303214 AAAAAAATAAAACCATAGTTGAAGGACAATATGGCA-TCATGTCAC
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACT-ATACCGG
** *
29303259 AAAAAAATAAAACCATAGTTGAAAGACACTATGGCA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCA
29303295 TCATATCGAA
Statistics
Matches: 222, Mismatches: 32, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
44 4 0.02
45 213 0.96
46 5 0.02
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.20
Consensus pattern (45 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGG
Found at i:29303172 original size:90 final size:90
Alignment explanation
Indices: 29302988--29303294 Score: 309
Period size: 90 Copynumber: 3.4 Consensus size: 90
29302978 ATTGGCTTGT
* * *
29302988 AAAATGAATAAGACCATAGTTGAAAGACAATATGGC-ACTAT-ACCGGAAATGAATAAGACAATA
1 AAAATAAATAAGACCATAGTTGAAAGACACTATGGCAAC-ATGA-CGGAAATGAATAAGACCATA
* * ** *
29303051 TTTGAAAGACACTATGGC-GCTATACCG
64 ATTGAAAGACACTATGGCATC-ATGTCA
* * *
29303078 AAAATGAATAAGACCATAGTT-CAAGAACACTATGGCAACATGACGGAAATGAATAAGACCACAA
1 AAAATAAATAAGACCATAGTTGAAAG-ACACTATGGCAACATGACGGAAATGAATAAGACCATAA
29303142 TTGAAAGACACTATGGCATCATGTCA
65 TTGAAAGACACTATGGCATCATGTCA
* * * * * ** ** * *
29303168 AAAATAAAAAAGACCATAGTTAAAAGACACTATGCCATCATGTCACAAAAAAATAAAACCATAGT
1 AAAATAAATAAGACCATAGTTGAAAGACACTATGGCAACATGACGGAAATGAATAAGACCATAAT
* *
29303233 TGAAGGACAATATGGCATCATGTCA
66 TGAAAGACACTATGGCATCATGTCA
*
29303258 CAAAA-AAATAAAACCATAGTTGAAAGACACTATGGCA
1 -AAAATAAATAAGACCATAGTTGAAAGACACTATGGCA
29303295 TCATATCGAA
Statistics
Matches: 183, Mismatches: 28, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
89 3 0.02
90 169 0.92
91 11 0.06
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.20
Consensus pattern (90 bp):
AAAATAAATAAGACCATAGTTGAAAGACACTATGGCAACATGACGGAAATGAATAAGACCATAAT
TGAAAGACACTATGGCATCATGTCA
Found at i:29303295 original size:45 final size:45
Alignment explanation
Indices: 29303084--29303298 Score: 247
Period size: 45 Copynumber: 4.8 Consensus size: 45
29303074 ACCGAAAATG
* * * * ** **
29303084 AATAAGACCATAGTT-CAAGAACACTATGGCAACATGACGGAAATG
1 AATAAAACCATAGTTGAAAG-ACACTATGGCATCATGTCACAAAAA
* * *
29303129 AATAAGACCACAATTGAAAGACACTATGGCATCATGTCA-AAAATA
1 AATAAAACCATAGTTGAAAGACACTATGGCATCATGTCACAAAA-A
* *
29303174 AA-AAAGACCATAGTTAAAAGACACTATGCCATCATGTCACAAAAA
1 AATAAA-ACCATAGTTGAAAGACACTATGGCATCATGTCACAAAAA
* *
29303219 AATAAAACCATAGTTGAAGGACAATATGGCATCATGTCACAAAAA
1 AATAAAACCATAGTTGAAAGACACTATGGCATCATGTCACAAAAA
29303264 AATAAAACCATAGTTGAAAGACACTATGGCATCAT
1 AATAAAACCATAGTTGAAAGACACTATGGCATCAT
29303299 ATCGAAAGTG
Statistics
Matches: 146, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
44 5 0.03
45 131 0.90
46 10 0.07
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.20
Consensus pattern (45 bp):
AATAAAACCATAGTTGAAAGACACTATGGCATCATGTCACAAAAA
Found at i:29303770 original size:73 final size:74
Alignment explanation
Indices: 29303682--29303823 Score: 187
Period size: 73 Copynumber: 1.9 Consensus size: 74
29303672 GTGTTTATAC
* * * * * *
29303682 GAAATGTTTATATGAATAGTTATTGAATGAATGGTATATCTAATATGTTTACTTGCATATGTTTC
1 GAAATGTTTATATGAATAGATATTGAATAAAGGGAATATATAATATATTTACTTGCATATGTTTC
29303747 ATAACATGT
66 ATAACATGT
* * * *
29303756 GAAATG-TTATATGAATAGATGTTGAATAAAGGGAATATATAATGTATTTACTTGTATATGTTTT
1 GAAATGTTTATATGAATAGATATTGAATAAAGGGAATATATAATATATTTACTTGCATATGTTTC
29303820 ATAA
66 ATAA
29303824 TATGAAAAGG
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
73 52 0.90
74 6 0.10
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.42
Consensus pattern (74 bp):
GAAATGTTTATATGAATAGATATTGAATAAAGGGAATATATAATATATTTACTTGCATATGTTTC
ATAACATGT
Found at i:29305944 original size:59 final size:62
Alignment explanation
Indices: 29305867--29305982 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 62
29305857 ATTACTTTAA
* * *
29305867 TATTAAATTAATATAATATTTATC-A-A-GATAAATATTAGATTAAATTTAATATTAGATCT
1 TATTAAATTAATAGAATATTTATCTACATGATAAACATTAAATTAAATTTAATATTAGATCT
*
29305926 TATTGAATTAATAGAATATTTATCTACATGATAAACATTAAATTAAATTTAATATTA
1 TATTAAATTAATAGAATATTTATCTACATGATAAACATTAAATTAAATTTAATATTA
29305983 AATACAATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.44
60 1 0.02
61 1 0.02
62 26 0.52
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.43
Consensus pattern (62 bp):
TATTAAATTAATAGAATATTTATCTACATGATAAACATTAAATTAAATTTAATATTAGATCT
Found at i:29307640 original size:11 final size:11
Alignment explanation
Indices: 29307624--29307651 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
29307614 TTCATAACAA
29307624 TAGGTGAAGTC
1 TAGGTGAAGTC
29307635 TAGGTGAAGTC
1 TAGGTGAAGTC
29307646 TAGGTG
1 TAGGTG
29307652 GATTCTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.39, T:0.29
Consensus pattern (11 bp):
TAGGTGAAGTC
Found at i:29310372 original size:25 final size:25
Alignment explanation
Indices: 29310317--29310516 Score: 85
Period size: 25 Copynumber: 8.1 Consensus size: 25
29310307 AGCTCTTTCT
* *
29310317 AGCCATATAACGGGAAGCTCATAAT
1 AGCCATATAACGAGAAGCTCATAAG
*
29310342 AGCCATGTAACGAGAAGCTCATAAG
1 AGCCATATAACGAGAAGCTCATAAG
* * * *
29310367 ATCCATA-ATCGGGAAG-TCCA-AGCG
1 AGCCATATAACGAGAAGCT-CATA-AG
* **
29310391 AGCCA-ATATC-AGAAAGCTCCGAAG
1 AGCCATATAACGAG-AAGCTCATAAG
* *
29310415 AGCCAT-TAATCGGGAAGCTCATAAT
1 AGCCATATAA-CGAGAAGCTCATAAG
* **
29310440 AGCCATA-AGC-AGGAAGCTCGCAAG
1 AGCCATATAACGA-GAAGCTCATAAG
* * ***
29310464 AACCATATAACAAGAAGCTCCGGAG
1 AGCCATATAACGAGAAGCTCATAAG
* *
29310489 AGCCACATATCGA-AACGCTCATAAG
1 AGCCATATAACGAGAA-GCTCATAAG
29310514 AGC
1 AGC
29310517 TGTGGTGTGT
Statistics
Matches: 127, Mismatches: 34, Indels: 28
0.67 0.18 0.15
Matches are distributed among these distances:
23 4 0.03
24 47 0.37
25 74 0.58
26 2 0.02
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.15
Consensus pattern (25 bp):
AGCCATATAACGAGAAGCTCATAAG
Found at i:29322616 original size:5 final size:5
Alignment explanation
Indices: 29322606--29322668 Score: 58
Period size: 5 Copynumber: 12.4 Consensus size: 5
29322596 GAAAAAATAT
* * *
29322606 ATTCG ATTCG ATTCG ATTCA ATTCG ATTCG ATTTG AATTCC ATCTC- ACTT-G
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG -ATTCG AT-TCG A-TTCG
29322657 ATTCG ATTCG AT
1 ATTCG ATTCG AT
29322669 AAAACTCCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
4 2 0.04
5 40 0.83
6 6 0.12
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:29329802 original size:40 final size:40
Alignment explanation
Indices: 29329587--29329807 Score: 208
Period size: 40 Copynumber: 5.5 Consensus size: 40
29329577 TCTTTTCAAG
* * *
29329587 AGATTCAGTTGGTATGGCTTGAGAGCGCATACGTTTCAGT
1 AGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAGT
* * * *
29329627 AGATACAGTAGGTATGGCTTGAAAGTGCATATGTTTCAGT
1 AGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAGT
* * * * *
29329667 AGATTTAGTAGGTATGGCTTGGAAGTGCATACGTTTCAAT
1 AGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAGT
* *** * * *
29329707 AGATTCAATAGGTATCATTCGAAATCCCATACGTTTCTGT
1 AGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAGT
* * * *
29329747 AGATTGAATAGGTATTGCTCGAAAGCGCATACATTTCAGT
1 AGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAGT
* * *
29329787 AGATTTAGTAAGTATTGCTCG
1 AGATTCAGTAGGTATGGCTCG
29329808 TCTGAGCACC
Statistics
Matches: 148, Mismatches: 33, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 148 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (40 bp):
AGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAGT
Found at i:29332346 original size:19 final size:19
Alignment explanation
Indices: 29332301--29332347 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
29332291 TCTTAATTTT
*
29332301 TTAAATAATTTTTATAAGA
1 TTAAAAAATTTTTATAAGA
**
29332320 TTTTAAAATTTTTAATAAG-
1 TTAAAAAATTTTT-ATAAGA
29332339 TTAAAAAAT
1 TTAAAAAAT
29332348 AGTATTTAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
TTAAAAAATTTTTATAAGA
Found at i:29332483 original size:33 final size:33
Alignment explanation
Indices: 29332446--29332509 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
29332436 AGAATTGAAA
*
29332446 TTTTATTTCTCAAT-TTTTTAAATTTTTTAAATT
1 TTTTATTT-TCAATGTTTTTAAAATTTTTAAATT
**
29332479 TTTTATTTTTTATGTTTTTAAAATTTTTAAA
1 TTTTATTTTCAATGTTTTTAAAATTTTTAAA
29332510 AAGTATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 3 0.11
33 24 0.89
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (33 bp):
TTTTATTTTCAATGTTTTTAAAATTTTTAAATT
Found at i:29332496 original size:25 final size:25
Alignment explanation
Indices: 29332458--29332506 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
29332448 TTATTTCTCA
*
29332458 ATTTTTTAAATTTTTTAAATTTTTT
1 ATTTTTTAAATTTTTAAAATTTTTT
**
29332483 ATTTTTTATGTTTTTAAAATTTTT
1 ATTTTTTAAATTTTTAAAATTTTT
29332507 AAAAAGTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (25 bp):
ATTTTTTAAATTTTTAAAATTTTTT
Found at i:29332497 original size:16 final size:16
Alignment explanation
Indices: 29332457--29332490 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
29332447 TTTATTTCTC
29332457 AATTTTTTAAATTTTTTA
1 AATTTTTT--ATTTTTTA
29332475 AATTTTTTATTTTTTA
1 AATTTTTTATTTTTTA
29332491 TGTTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
AATTTTTTATTTTTTA
Found at i:29332510 original size:9 final size:9
Alignment explanation
Indices: 29332457--29332509 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
29332447 TTTATTTCTC
29332457 AATTTTTTA
1 AATTTTTTA
29332466 AATTTTTTA
1 AATTTTTTA
29332475 AATTTTTT-
1 AATTTTTTA
29332483 -ATTTTTT-
1 AATTTTTTA
29332490 -ATGTTTTTA
1 AAT-TTTTTA
*
29332499 AAATTTTTA
1 AATTTTTTA
29332508 AA
1 AA
29332510 AAGTATATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
7 9 0.22
8 5 0.12
9 25 0.62
10 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (9 bp):
AATTTTTTA
Found at i:29333862 original size:31 final size:31
Alignment explanation
Indices: 29333827--29333887 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
29333817 AACAATTTTT
*
29333827 TTAAAAAAAAACTTTCAAATAATTTAATGAC
1 TTAAAAAAAAACTTTCAAATAATTCAATGAC
* * *
29333858 TTAAATAGAAACTTTCAAATAGTTCAATGA
1 TTAAAAAAAAACTTTCAAATAATTCAATGA
29333888 TCATTTTGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (31 bp):
TTAAAAAAAAACTTTCAAATAATTCAATGAC
Found at i:29334256 original size:10 final size:10
Alignment explanation
Indices: 29334243--29334315 Score: 64
Period size: 9 Copynumber: 7.5 Consensus size: 10
29334233 TAAAAATGGT
*
29334243 TAAAAAATCA
1 TAAAAAATTA
29334253 T-AAAAATTAGA
1 TAAAAAATT--A
*
29334264 AAAAAAATTA
1 TAAAAAATTA
29334274 TAAAAAATTA
1 TAAAAAATTA
29334284 -AAAAAATTA
1 TAAAAAATTA
*
29334293 -AAACAATTA
1 TAAAAAATTA
*
29334302 T-AAATATTA
1 TAAAAAATTA
29334311 TAAAA
1 TAAAA
29334316 TTTAAAATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
9 30 0.58
10 14 0.27
11 1 0.02
12 7 0.13
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.26
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:29334266 original size:9 final size:9
Alignment explanation
Indices: 29334264--29334322 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
29334254 AAAAATTAGA
29334264 AAAAAAATT
1 AAAAAAATT
29334273 ATAAAAAATT
1 A-AAAAAATT
29334283 AAAAAAATT
1 AAAAAAATT
*
29334292 AAAACAATT
1 AAAAAAATT
* *
29334301 ATAAATATT
1 AAAAAAATT
* *
29334310 ATAAAATTT
1 AAAAAAATT
29334319 AAAA
1 AAAA
29334323 TATCTAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
9 33 0.79
10 9 0.21
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAAAATT
Found at i:29334268 original size:21 final size:21
Alignment explanation
Indices: 29334244--29334289 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
29334234 AAAAATGGTT
29334244 AAAAAATCAT-AAAAATTAGAA
1 AAAAAATCATAAAAAATTA-AA
*
29334265 AAAAAATTATAAAAAATTAAA
1 AAAAAATCATAAAAAATTAAA
29334286 AAAA
1 AAAA
29334290 TTAAAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAAATCATAAAAAATTAAA
Found at i:29334300 original size:28 final size:27
Alignment explanation
Indices: 29334264--29334322 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
29334254 AAAAATTAGA
29334264 AAAAAAATTATAAAAAATTAAAAAAATT
1 AAAAAAATTAT-AAAAATTAAAAAAATT
* * * *
29334292 AAAACAATTATAAATATTATAAAATTT
1 AAAAAAATTATAAAAATTAAAAAAATT
29334319 AAAA
1 AAAA
29334323 TATCTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (27 bp):
AAAAAAATTATAAAAATTAAAAAAATT
Found at i:29339169 original size:17 final size:17
Alignment explanation
Indices: 29339149--29339256 Score: 81
Period size: 17 Copynumber: 6.4 Consensus size: 17
29339139 AAATATCTTC
*
29339149 TCATATAAAATAACAGT
1 TCATACAAAATAACAGT
* * **
29339166 TCATACCAAATGACAAC
1 TCATACAAAATAACAGT
* *
29339183 TCATGCAAAATAATAGT
1 TCATACAAAATAACAGT
* *
29339200 TCATACGAAATATCAGT
1 TCATACAAAATAACAGT
** * *
29339217 TCATACCGAATAATAAT
1 TCATACAAAATAACAGT
* *
29339234 TCATGCAAAATAGCAGT
1 TCATACAAAATAACAGT
29339251 TCATAC
1 TCATAC
29339257 TTCATCATAA
Statistics
Matches: 64, Mismatches: 27, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
17 64 1.00
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.27
Consensus pattern (17 bp):
TCATACAAAATAACAGT
Found at i:29339176 original size:34 final size:34
Alignment explanation
Indices: 29339138--29339214 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 34
29339128 CAATTCGCAT
** *
29339138 CAAATATCTTCTCATATAAAATAACAGTTCATAC
1 CAAATATCAACTCATACAAAATAACAGTTCATAC
* *
29339172 CAAATGA-CAACTCATGCAAAATAATAGTTCATAC
1 CAAAT-ATCAACTCATACAAAATAACAGTTCATAC
*
29339206 GAAATATCA
1 CAAATATCA
29339215 GTTCATACCG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
33 1 0.03
34 33 0.94
35 1 0.03
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.27
Consensus pattern (34 bp):
CAAATATCAACTCATACAAAATAACAGTTCATAC
Found at i:29339204 original size:51 final size:51
Alignment explanation
Indices: 29339149--29339256 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 51
29339139 AAATATCTTC
* * *
29339149 TCATATAAAATAACAGTTCATACCAAATGACAACTCATGCAAAATAATAGT
1 TCATACAAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAACAGT
* * * * * *
29339200 TCATACGAAATATCAGTTCATACCGAATAATAATTCATGCAAAATAGCAGT
1 TCATACAAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAACAGT
29339251 TCATAC
1 TCATAC
29339257 TTCATCATAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.27
Consensus pattern (51 bp):
TCATACAAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAACAGT
Found at i:29339229 original size:34 final size:34
Alignment explanation
Indices: 29339191--29339256 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
29339181 ACTCATGCAA
* * *
29339191 AATAATAGTTCATACGAAATATCAGTTCATACCG
1 AATAATAATTCATACAAAATAGCAGTTCATACCG
*
29339225 AATAATAATTCATGCAAAATAGCAGTTCATAC
1 AATAATAATTCATACAAAATAGCAGTTCATAC
29339257 TTCATCATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.29
Consensus pattern (34 bp):
AATAATAATTCATACAAAATAGCAGTTCATACCG
Found at i:29340523 original size:36 final size:34
Alignment explanation
Indices: 29340448--29340536 Score: 100
Period size: 34 Copynumber: 2.8 Consensus size: 34
29340438 ACGCGTATAT
* *
29340448 ATATATTCTATATATATAACAAAACCATAAACGC
1 ATATATTCTATATATATAACAAAACCACAAACAC
*
29340482 ATATATTTTATATATATAACAAAATCCAC--ACAC
1 ATATATTCTATATATATAACAAAA-CCACAAACAC
29340515 --ATA--CTATATATATAACAAAACC
1 ATATATTCTATATATATAACAAAACC
29340537 CACGCGTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
28 2 0.04
29 16 0.32
31 3 0.06
33 3 0.06
34 23 0.46
35 3 0.06
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.30
Consensus pattern (34 bp):
ATATATTCTATATATATAACAAAACCACAAACAC
Found at i:29349116 original size:3 final size:3
Alignment explanation
Indices: 29349108--29349151 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
29349098 ACCAGAACGA
29349108 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
29349152 CCAAAAGAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:29351111 original size:45 final size:45
Alignment explanation
Indices: 29351047--29351298 Score: 250
Period size: 45 Copynumber: 5.8 Consensus size: 45
29351037 ATAAGGTATT
* * *
29351047 TATAATAATTGTCGGTTTCACCAACTAGTGCTAGGCACACATATA
1 TATAATATTTGTCGGTTTCACCGACCAGTGCTAGGCACACATATA
** * * *
29351092 TATAATATTTGTCAATTTCATCGACCAGTGTTGGGCACACATATA
1 TATAATATTTGTCGGTTTCACCGACCAGTGCTAGGCACACATATA
* * * *
29351137 TATAATA----T---TTTCACCGACTAGTGTTAGACACAAATATA
1 TATAATATTTGTCGGTTTCACCGACCAGTGCTAGGCACACATATA
* **
29351175 -ATAATAATTGTCGGTTTCACCGACCAGTGCTAGATACACATATA
1 TATAATATTTGTCGGTTTCACCGACCAGTGCTAGGCACACATATA
* * * * *
29351219 TATAATATTTGTTGGTTTCACTGAGCAGTGCTGGGCACGCATATA
1 TATAATATTTGTCGGTTTCACCGACCAGTGCTAGGCACACATATA
* *
29351264 TATAATATTTTTCGGTTTCACCGACCAGTTCTAGG
1 TATAATATTTGTCGGTTTCACCGACCAGTGCTAGG
29351299 GCGTAAAACT
Statistics
Matches: 168, Mismatches: 31, Indels: 16
0.78 0.14 0.07
Matches are distributed among these distances:
37 6 0.04
38 25 0.15
41 2 0.01
44 26 0.15
45 109 0.65
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (45 bp):
TATAATATTTGTCGGTTTCACCGACCAGTGCTAGGCACACATATA
Found at i:29351149 original size:38 final size:37
Alignment explanation
Indices: 29351107--29351180 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 37
29351097 TATTTGTCAA
* * * *
29351107 TTTCATCGACCAGTGTTGGGCACACATATATATAATAT
1 TTTCACCGACCAGTGTTAGACACAAATATA-ATAATAT
*
29351145 TTTCACCGACTAGTGTTAGACACAAATATAATAATA
1 TTTCACCGACCAGTGTTAGACACAAATATAATAATA
29351181 ATTGTCGGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
37 6 0.19
38 25 0.81
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (37 bp):
TTTCACCGACCAGTGTTAGACACAAATATAATAATAT
Found at i:29351200 original size:82 final size:83
Alignment explanation
Indices: 29351062--29351228 Score: 219
Period size: 82 Copynumber: 2.0 Consensus size: 83
29351052 TAATTGTCGG
* * * * * * *
29351062 TTTCACCAACTAGTGCTAGGCACACATATATATAATATTTGTCAATTTCATCGACCAGTGTTGGG
1 TTTCACCAACTAGTGCTAGACACAAATATATATAATAATTGTCAATTTCACCGACCAGTGCTAGA
29351127 CACACATATATATAATAT
66 CACACATATATATAATAT
* * **
29351145 TTTCACCGACTAGTGTTAGACACAAATATA-ATAATAATTGTCGGTTTCACCGACCAGTGCTAGA
1 TTTCACCAACTAGTGCTAGACACAAATATATATAATAATTGTCAATTTCACCGACCAGTGCTAGA
*
29351209 TACACATATATATAATAT
66 CACACATATATATAATAT
29351227 TT
1 TT
29351229 GTTGGTTTCA
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
82 46 0.64
83 26 0.36
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.34
Consensus pattern (83 bp):
TTTCACCAACTAGTGCTAGACACAAATATATATAATAATTGTCAATTTCACCGACCAGTGCTAGA
CACACATATATATAATAT
Found at i:29359719 original size:19 final size:18
Alignment explanation
Indices: 29359671--29359719 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
29359661 ATTTTTACTA
* *
29359671 TTTTTTTCTCTCTTTTTC
1 TTTTTTTCACTCGTTTTC
* *
29359689 TTTTTGTGACTCGTTTTC
1 TTTTTTTCACTCGTTTTC
29359707 TTTTTTCTCACTC
1 TTTTTT-TCACTC
29359720 TTTCTTTCCT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.04, C:0.22, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTTTTTCACTCGTTTTC
Found at i:29359769 original size:18 final size:18
Alignment explanation
Indices: 29359748--29359784 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
29359738 TTCTGAACTC
*
29359748 TTTTT-TTTTCTTTTTCA
1 TTTTTCTTTTCTTGTTCA
29359765 TTTTTCTTTTCTTGTTCA
1 TTTTTCTTTTCTTGTTCA
29359783 TT
1 TT
29359785 CTCTTTCGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.05, C:0.14, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTTCTTGTTCA
Found at i:29363186 original size:51 final size:51
Alignment explanation
Indices: 29363102--29363206 Score: 140
Period size: 51 Copynumber: 2.1 Consensus size: 51
29363092 ATCTGACTTA
* * ** *
29363102 AAACTTGCATTGATGTTGTCTGAATTAAGACACACTTAATGAACATAAATC
1 AAACATGCATTGATGCTGTCCAAATTAAGACACACTTAATAAACATAAATC
*
29363153 AAACATGCATTGATGCTGTCCAAATT-AGAACACACTTAATAAACATGAATC
1 AAACATGCATTGATGCTGTCCAAATTAAG-ACACACTTAATAAACATAAATC
29363204 AAA
1 AAA
29363207 GTAAATACCA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 2 0.04
51 45 0.96
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (51 bp):
AAACATGCATTGATGCTGTCCAAATTAAGACACACTTAATAAACATAAATC
Found at i:29368254 original size:14 final size:14
Alignment explanation
Indices: 29368235--29368264 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
29368225 TGTTTGGTTG
29368235 AATTTTTAAAAAAT
1 AATTTTTAAAAAAT
*
29368249 AATTTTTGAAAAAT
1 AATTTTTAAAAAAT
29368263 AA
1 AA
29368265 AAATGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (14 bp):
AATTTTTAAAAAAT
Found at i:29368878 original size:21 final size:21
Alignment explanation
Indices: 29368854--29368916 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
29368844 TGTTTTTCAT
29368854 TTTTTTAAATGAAAATGAAAA
1 TTTTTTAAATGAAAATGAAAA
*
29368875 TTTTTAAAATGAAAATGAAAA
1 TTTTTTAAATGAAAATGAAAA
*
29368896 TTATTTT--TTGAAAATGAAAA
1 TT-TTTTAAATGAAAATGAAAA
29368916 T
1 T
29368917 GGAAAATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.34
21 22 0.58
22 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.40
Consensus pattern (21 bp):
TTTTTTAAATGAAAATGAAAA
Found at i:29368880 original size:20 final size:20
Alignment explanation
Indices: 29368855--29368916 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
29368845 GTTTTTCATT
29368855 TTTTTAAATGAAAATGAAAA
1 TTTTTAAATGAAAATGAAAA
29368875 TTTTTAAAATGAAAATGAAAA
1 TTTTT-AAATGAAAATGAAAA
**
29368896 TTATTT-TTTGAAAATGAAAA
1 TT-TTTAAATGAAAATGAAAA
29368916 T
1 T
29368917 GGAAAATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.47
21 17 0.45
22 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (20 bp):
TTTTTAAATGAAAATGAAAA
Found at i:29368890 original size:27 final size:26
Alignment explanation
Indices: 29368860--29368924 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 26
29368850 TCATTTTTTT
29368860 AAATGAAAATGAAAATTTTT-AAAATGA
1 AAATGAAAAT--AAATTTTTGAAAATGA
* *
29368887 AAATGAAAATTATTTTTTGAAAATGA
1 AAATGAAAATAAATTTTTGAAAATGA
29368913 AAATGGAAAATA
1 AAAT-GAAAATA
29368925 TTACTAGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 6 0.18
26 11 0.33
27 16 0.48
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATGAAAATAAATTTTTGAAAATGA
Found at i:29368936 original size:26 final size:26
Alignment explanation
Indices: 29368860--29368936 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 26
29368850 TCATTTTTTT
29368860 AAATGAAAATGAAAATT-TT--T--A
1 AAATGAAAATGAAAATTATTACTAGA
** *
29368881 AAATGAAAATGAAAATTATTTTTTGA
1 AAATGAAAATGAAAATTATTACTAGA
*
29368907 AAATGAAAATGGAAAA-TATTACTAGC
1 AAATGAAAAT-GAAAATTATTACTAGA
29368933 AAAT
1 AAAT
29368937 ATTTTATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
21 17 0.37
22 2 0.04
24 1 0.02
26 21 0.46
27 5 0.11
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATGAAAATGAAAATTATTACTAGA
Found at i:29369217 original size:14 final size:14
Alignment explanation
Indices: 29369180--29369237 Score: 66
Period size: 16 Copynumber: 4.1 Consensus size: 14
29369170 AAGCCTCATT
29369180 TATTTTTATATAA-A
1 TATTTTTATA-AATA
*
29369194 -ATTTTCATAAATA
1 TATTTTTATAAATA
29369207 TATTTTTATAAAAATA
1 TATTTTTAT--AAATA
29369223 TATTTTTATAAATA
1 TATTTTTATAAATA
29369237 T
1 T
29369238 TTGTACTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 2 0.05
13 9 0.24
14 13 0.34
16 14 0.37
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTTTTATAAATA
Found at i:29373102 original size:8 final size:8
Alignment explanation
Indices: 29373089--29373122 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
29373079 GGAATAATTG
29373089 AACAAATA
1 AACAAATA
*
29373097 AACAAACA
1 AACAAATA
29373105 AACAAATA
1 AACAAATA
29373113 AACAAATA
1 AACAAATA
29373121 AA
1 AA
29373123 TCGACCCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (8 bp):
AACAAATA
Found at i:29373123 original size:12 final size:12
Alignment explanation
Indices: 29373059--29373123 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
29373049 ACCACATTTT
29373059 AATAAACAAATA
1 AATAAACAAATA
**
29373071 AATGAAATGGAATA
1 AAT-AAA-CAAATA
* *
29373085 ATTGAACAAATA
1 AATAAACAAATA
* *
29373097 AACAAACAAACA
1 AATAAACAAATA
29373109 AATAAACAAATA
1 AATAAACAAATA
29373121 AAT
1 AAT
29373124 CGACCCCACC
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
12 28 0.72
13 5 0.13
14 6 0.15
ACGTcount: A:0.68, C:0.09, G:0.06, T:0.17
Consensus pattern (12 bp):
AATAAACAAATA
Found at i:29373332 original size:13 final size:13
Alignment explanation
Indices: 29373314--29373344 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
29373304 TAACATAGTT
*
29373314 TAAAATGAATAAA
1 TAAAATAAATAAA
29373327 TAAAATAAATAAA
1 TAAAATAAATAAA
29373340 TAAAA
1 TAAAA
29373345 AAACACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:29374581 original size:21 final size:19
Alignment explanation
Indices: 29374533--29374587 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
29374523 TACAAAAATC
* *
29374533 TTTTTTGTTCTCTTCTCTG
1 TTTTTTCTTCTGTTCTCTG
29374552 TTGTTTTCTTCTGTTCTCTTG
1 TT-TTTTCTTCTGTTCTC-TG
*
29374573 TCTTTTTCTTTTGTT
1 T-TTTTTCTTCTGTT
29374588 GTTTTCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 13 0.43
21 14 0.47
22 1 0.03
ACGTcount: A:0.00, C:0.18, G:0.11, T:0.71
Consensus pattern (19 bp):
TTTTTTCTTCTGTTCTCTG
Found at i:29375889 original size:11 final size:11
Alignment explanation
Indices: 29375875--29375904 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
29375865 TGACAACAAC
29375875 AAAATAGTAAA
1 AAAATAGTAAA
29375886 AAAATAGTAAA
1 AAAATAGTAAA
29375897 AAAATAGT
1 AAAATAGT
29375905 TTTTTTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (11 bp):
AAAATAGTAAA
Found at i:29387647 original size:27 final size:27
Alignment explanation
Indices: 29387608--29387677 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
29387598 GGATGTCATT
* * *
29387608 AAGGCTATACTTTCATAATTAGCCTCA
1 AAGGCTTTTCTTTCATAATTAGCCACA
* ** * *
29387635 AAGGTTTTTCTTTCATGTTTCGTCACA
1 AAGGCTTTTCTTTCATAATTAGCCACA
29387662 AAGGCTTTTCTTTCAT
1 AAGGCTTTTCTTTCAT
29387678 GGCGTGTTTA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (27 bp):
AAGGCTTTTCTTTCATAATTAGCCACA
Found at i:29399157 original size:17 final size:17
Alignment explanation
Indices: 29399137--29399191 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
29399127 ACACATGCCC
*
29399137 GTGTATGACACACGGGT
1 GTGTGTGACACACGGGT
* *
29399154 GTGTGTGACACATGGGC
1 GTGTGTGACACACGGGT
29399171 GTGTGTGACACACGGGT
1 GTGTGTGACACACGGGT
29399188 GTGT
1 GTGT
29399192 CCTAGGTTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.18, C:0.16, G:0.40, T:0.25
Consensus pattern (17 bp):
GTGTGTGACACACGGGT
Found at i:29399174 original size:34 final size:34
Alignment explanation
Indices: 29399127--29399191 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
29399117 AAGGATCATC
29399127 ACACATGCCCGTGTATGACACACGGGTGTGTGTG
1 ACACATGCCCGTGTATGACACACGGGTGTGTGTG
** *
29399161 ACACATGGGCGTGTGTGACACACGGGTGTGT
1 ACACATGCCCGTGTATGACACACGGGTGTGT
29399192 CCTAGGTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.20, C:0.22, G:0.35, T:0.23
Consensus pattern (34 bp):
ACACATGCCCGTGTATGACACACGGGTGTGTGTG
Found at i:29399932 original size:11 final size:11
Alignment explanation
Indices: 29399918--29399956 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
29399908 TCCTTTTTCC
29399918 TATTATTTTAT
1 TATTATTTTAT
29399929 TATTATTTTA-
1 TATTATTTTAT
29399939 TATTTATTTTAT
1 TA-TTATTTTAT
29399951 TATTAT
1 TATTAT
29399957 CTTGTTTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 2 0.08
11 22 0.85
12 2 0.08
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:29407303 original size:19 final size:18
Alignment explanation
Indices: 29407268--29407310 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
29407258 AATTTTTGTC
29407268 ATAAAATAATTAATTTTT
1 ATAAAATAATTAATTTTT
* *
29407286 ATAAAATAGTTAAATTTT
1 ATAAAATAATTAATTTTT
29407304 ATTAAAA
1 A-TAAAA
29407311 ATTTGAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
ATAAAATAATTAATTTTT
Found at i:29407368 original size:20 final size:21
Alignment explanation
Indices: 29407325--29407372 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
29407315 GAACATGTTA
29407325 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
*
29407347 ATTTTTAGTGAATTTT-AATT
1 ATTTTTAGTCAATTTTAAATT
29407367 ATTTTT
1 ATTTTT
29407373 GACAGATTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.40
22 15 0.60
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:29407955 original size:19 final size:18
Alignment explanation
Indices: 29407927--29407969 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
29407917 CTCATTCACA
*
29407927 TCTCTTCTCTCACAACTTT
1 TCTCTCCTCTCAC-ACTTT
*
29407946 TCTCTCCTCTCTCACTTT
1 TCTCTCCTCTCACACTTT
*
29407964 TTTCTC
1 TCTCTC
29407970 TCATTTTCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.09, C:0.40, G:0.00, T:0.51
Consensus pattern (18 bp):
TCTCTCCTCTCACACTTT
Found at i:29408230 original size:57 final size:58
Alignment explanation
Indices: 29408111--29408232 Score: 176
Period size: 57 Copynumber: 2.1 Consensus size: 58
29408101 GGTCATTTTG
*
29408111 ATTTTCATTTTCATTTTGGAGAAAAACCAAATTCATTTCCAAATGATTTCATTTCTCA
1 ATTTTCATTTTCATTTTGGAGAAAAACCAAAGTCATTTCCAAATGATTTCATTTCTCA
* * * *
29408169 ATTTTCATTTTTATTTTGGAG-AAGACCATAGTCATTTCCAAAT-ATTCTCATTTCTCC
1 ATTTTCATTTTCATTTTGGAGAAAAACCAAAGTCATTTCCAAATGATT-TCATTTCTCA
29408226 ATTTTCA
1 ATTTTCA
29408233 CCATTTCTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
56 3 0.05
57 35 0.60
58 20 0.34
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (58 bp):
ATTTTCATTTTCATTTTGGAGAAAAACCAAAGTCATTTCCAAATGATTTCATTTCTCA
Found at i:29412353 original size:15 final size:15
Alignment explanation
Indices: 29412320--29412357 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
29412310 ATCATAAATG
29412320 CAAAAACATATATATA
1 CAAAAA-ATATATATA
29412336 CAAAAAAT-TATATGA
1 CAAAAAATATATAT-A
29412351 CAAAAAA
1 CAAAAAA
29412358 ATTTGAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 10 0.48
16 6 0.29
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.21
Consensus pattern (15 bp):
CAAAAAATATATATA
Found at i:29413940 original size:29 final size:29
Alignment explanation
Indices: 29413907--29414120 Score: 177
Period size: 29 Copynumber: 7.4 Consensus size: 29
29413897 TCAGCGACCA
29413907 ATGAAAAGGGATAGCTTCGGCTATTGAAT
1 ATGAAAAGGGATAGCTTCGGCTATTGAAT
* * * *
29413936 ATGAAAAGGGATAGATTTGGCTATCGACT
1 ATGAAAAGGGATAGCTTCGGCTATTGAAT
* * *
29413965 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATTGAAT
* * * *
29413994 ATGAAAAGGGAT-GGTGACGACCATT-AACT
1 ATGAAAAGGGATAGCT-TCGGCTATTGAA-T
* * ** * *
29414023 ATGAAAAGGGAT-GGTGACAACCA-TCAGAT
1 ATGAAAAGGGATAGCT-TCGGCTATTGA-AT
* *
29414052 ATGAAAAGGGATAACTTTGGCTATTG-AT
1 ATGAAAAGGGATAGCTTCGGCTATTGAAT
*
29414080 ATGAAAAGGGATAGCTTCGGCTATTGATT
1 ATGAAAAGGGATAGCTTCGGCTATTGAAT
29414109 ATGAAAAGGGAT
1 ATGAAAAGGGAT
29414121 GGTGACGACC
Statistics
Matches: 153, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
28 30 0.20
29 120 0.78
30 3 0.02
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATTGAAT
Found at i:29413977 original size:58 final size:58
Alignment explanation
Indices: 29413907--29414120 Score: 204
Period size: 58 Copynumber: 3.7 Consensus size: 58
29413897 TCAGCGACCA
*
29413907 ATGAAAAGGGATAGCTTCGGCTATTGAATATGAAAAGGGATAGATTTGGCTATCGACT
1 ATGAAAAGGGATAGCTTCGGCTATTGAATATGAAAAGGGATAGATTTGGCTATTGACT
* * * * ** * * *
29413965 ATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGAT-GGTGACGACCATTAACT
1 ATGAAAAGGGATAGCTTCGGCTATTGAATATGAAAAGGGATAGAT-TTGGCTATTGACT
* * ** * *
29414023 ATGAAAAGGGAT-GGTGACAACCA-TCAGATATGAAAAGGGATA-ACTTTGGCTATTGA-T
1 ATGAAAAGGGATAGCT-TCGGCTATTGA-ATATGAAAAGGGATAGA-TTTGGCTATTGACT
*
29414080 ATGAAAAGGGATAGCTTCGGCTATTGATTATGAAAAGGGAT
1 ATGAAAAGGGATAGCTTCGGCTATTGAATATGAAAAGGGAT
29414121 GGTGACGACC
Statistics
Matches: 117, Mismatches: 32, Indels: 15
0.71 0.20 0.09
Matches are distributed among these distances:
57 34 0.29
58 82 0.70
59 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTCGGCTATTGAATATGAAAAGGGATAGATTTGGCTATTGACT
Found at i:29414055 original size:87 final size:85
Alignment explanation
Indices: 29413958--29414191 Score: 263
Period size: 87 Copynumber: 2.7 Consensus size: 85
29413948 AGATTTGGCT
*
29413958 ATCGACTATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGACGACCATTAACT
1 ATCGATTATGAAAAGGGATAGCTTTGGCTATCGA-TATGAAAAGGGATGGT-ACGACCATTAACT
29414023 ATGAAAAGGGATGGTGACAACC
64 ATGAAAAGGGATGGTGACAACC
* * * * * * * *
29414045 ATCAGA-TATGAAAAGGGATAACTTTGGCTATTGATATGAAAAGGGATAGCTTCGGCTATTGATT
1 ATC-GATTATGAAAAGGGATAGCTTTGGCTATCGATATGAAAAGGGAT-GGTACGACCATTAACT
*
29414109 ATGAAAAGGGATGGTGACGACC
64 ATGAAAAGGGATGGTGACAACC
* * * * *
29414131 ATCGATTAATGAAAAGGGATAGTTTTGACCATCGAATATGCAAATGGATGGTTACGACCAT
1 ATCGATT-ATGAAAAGGGATAGCTTTGGCTATCG-ATATGAAAAGGGATGG-TACGACCAT
29414192 CATTTAGAAC
Statistics
Matches: 121, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
85 2 0.02
86 46 0.38
87 53 0.44
88 20 0.17
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (85 bp):
ATCGATTATGAAAAGGGATAGCTTTGGCTATCGATATGAAAAGGGATGGTACGACCATTAACTAT
GAAAAGGGATGGTGACAACC
Found at i:29414089 original size:28 final size:28
Alignment explanation
Indices: 29414049--29414120 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 28
29414039 ACAACCATCA
*
29414049 GATATGAAAAGGGATAACTTTGGCTATT
1 GATATGAAAAGGGATAACTTCGGCTATT
*
29414077 GATATGAAAAGGGATAGCTTCGGCTATT
1 GATATGAAAAGGGATAACTTCGGCTATT
29414105 GATTATGAAAAGGGAT
1 GA-TATGAAAAGGGAT
29414121 GGTGACGACC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 28 0.68
29 13 0.32
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.29
Consensus pattern (28 bp):
GATATGAAAAGGGATAACTTCGGCTATT
Found at i:29414116 original size:115 final size:117
Alignment explanation
Indices: 29413934--29414150 Score: 350
Period size: 115 Copynumber: 1.9 Consensus size: 117
29413924 CGGCTATTGA
*
29413934 ATATGAAAAGGGATAGATTTGGCTATCGACTATGAAAAGGGATAGCTTTGGCTATCGATTATGAA
1 ATATGAAAAGGGATAGATTTGGCTATCGACTATGAAAAGGGATAGCTTCGGCTATCGATTATGAA
*
29413999 AAGGGATGGTGACGACCATTAACT-ATGAAAAGGGATGGTGACAACCATCAG
66 AAGGGATGGTGACGACCATCAACTAATGAAAAGGGATGGTGACAACCATCAG
* *
29414050 ATATGAAAAGGGATA-ACTTTGGCTATTGA-TATGAAAAGGGATAGCTTCGGCTATTGATTATGA
1 ATATGAAAAGGGATAGA-TTTGGCTATCGACTATGAAAAGGGATAGCTTCGGCTATCGATTATGA
* *
29414113 AAAGGGATGGTGACGACCATCGATTAATGAAAAGGGAT
65 AAAGGGATGGTGACGACCATCAACTAATGAAAAGGGAT
29414151 AGTTTTGACC
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
115 55 0.59
116 38 0.41
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (117 bp):
ATATGAAAAGGGATAGATTTGGCTATCGACTATGAAAAGGGATAGCTTCGGCTATCGATTATGAA
AAGGGATGGTGACGACCATCAACTAATGAAAAGGGATGGTGACAACCATCAG
Found at i:29414137 original size:29 final size:29
Alignment explanation
Indices: 29413987--29414192 Score: 132
Period size: 29 Copynumber: 7.1 Consensus size: 29
29413977 AGCTTTGGCT
29413987 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGACGACC
** * *
29414016 ATTAACTATGAAAAGGGATGGTGACAACC
1 ATCGATTATGAAAAGGGATGGTGACGACC
** ** * *
29414045 ATCAGA-TATGAAAAGGGATAACT-TTGGCT
1 ATC-GATTATGAAAAGGGAT-GGTGACGACC
* * * * *
29414074 ATTGA-TATGAAAAGGGATAGCT-TCGGCT
1 ATCGATTATGAAAAGGGAT-GGTGACGACC
*
29414102 ATTGATTATGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGACGACC
* ***
29414131 ATCGATTAATGAAAAGGGATAGTTTTGACC
1 ATCGATT-ATGAAAAGGGATGGTGACGACC
* * * *
29414161 ATCGAATATGCAAATGGATGGTTACGACC
1 ATCGATTATGAAAAGGGATGGTGACGACC
29414190 ATC
1 ATC
29414193 ATTTAGAACA
Statistics
Matches: 141, Mismatches: 31, Indels: 10
0.77 0.17 0.05
Matches are distributed among these distances:
28 30 0.21
29 85 0.60
30 26 0.18
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (29 bp):
ATCGATTATGAAAAGGGATGGTGACGACC
Found at i:29414180 original size:59 final size:59
Alignment explanation
Indices: 29413906--29414192 Score: 167
Period size: 58 Copynumber: 4.9 Consensus size: 59
29413896 ATCAGCGACC
* * * * ** * * *
29413906 AATGAAAAGGGATAGCTTCGGCTATTGAATATGAAAAGGGATAGAT-TTGGCTATCGACT
1 AATGAAAAGGGATAGCTTCGACCATCGAATATGAAAAGGGAT-GGTGACGACCATCGATT
* * * * ** *
29413965 -ATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGACGACCATTAACT
1 AATGAAAAGGGATAGCTTCGACCATCGAATATGAAAAGGGATGGTGACGACCATCGATT
* * * ** ** * * *
29414023 -ATGAAAAGGGAT-GGTGACAACCATC-AGATATGAAAAGGGATAACT-TTGGCTATTGA-T
1 AATGAAAAGGGATAGCT-TCGACCATCGA-ATATGAAAAGGGAT-GGTGACGACCATCGATT
* * * *
29414080 -ATGAAAAGGGATAGCTTCGGCTATTGATTATGAAAAGGGATGGTGACGACCATCGATT
1 AATGAAAAGGGATAGCTTCGACCATCGAATATGAAAAGGGATGGTGACGACCATCGATT
* * * * *
29414138 AATGAAAAGGGATAGTTTTGACCATCGAATATGCAAATGGATGGTTACGACCATC
1 AATGAAAAGGGATAGCTTCGACCATCGAATATGAAAAGGGATGGTGACGACCATC
29414193 ATTTAGAACA
Statistics
Matches: 172, Mismatches: 47, Indels: 18
0.73 0.20 0.08
Matches are distributed among these distances:
56 1 0.01
57 41 0.24
58 84 0.49
59 46 0.27
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.26
Consensus pattern (59 bp):
AATGAAAAGGGATAGCTTCGACCATCGAATATGAAAAGGGATGGTGACGACCATCGATT
Found at i:29415003 original size:29 final size:29
Alignment explanation
Indices: 29414961--29415204 Score: 181
Period size: 29 Copynumber: 8.4 Consensus size: 29
29414951 TCAACGACCA
*
29414961 ATGAAAAGGGATAGCTTTGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
29414990 ATGAAAAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
29415019 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * * *
29415048 ATGAAAAGAGAT-GGTGGCGACCATC-AATT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAA-T
* * * * *
29415077 ATGAAAAGGGAT-GGTGACGACCATCAAAT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAAT
* *
29415106 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * * *
29415135 ATGAAAAGGGAT-GGTGACGACCATCGATT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAAT
* * * *
29415164 AATGGAAAGGGATAGTTTCGACCATCGAAT
1 -ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
29415194 ATGCAAAGGGA
1 ATGAAAAGGGA
29415205 CGGTTATGAC
Statistics
Matches: 179, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
28 5 0.03
29 146 0.82
30 26 0.15
31 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:29415051 original size:58 final size:58
Alignment explanation
Indices: 29414983--29415204 Score: 223
Period size: 58 Copynumber: 3.8 Consensus size: 58
29414973 AGCTTTGGCT
* * * *
29414983 ATCGAATATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAGCT-TCGGCT
1 ATCGAATATGAAAAGGGATAGCTTCGACCATCGATTATGAAAAGGGAT-GCTGACGACC
* * * * * *
29415041 ATCGATTATGAAAAGAGAT-GGTGGCGACCATCAATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATAGCT-TCGACCATCGATTATGAAAAGGGATGCTGACGACC
* * * * *
29415099 ATCAAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATAGCTTCGACCATCGATTATGAAAAGGGATGCTGACGACC
* * * * *
29415157 ATCGATTAATGGAAAGGGATAGTTTCGACCATCGAATATGCAAAGGGA
1 ATCGAAT-ATGAAAAGGGATAGCTTCGACCATCGATTATGAAAAGGGA
29415205 CGGTTATGAC
Statistics
Matches: 132, Mismatches: 28, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
57 4 0.03
58 93 0.70
59 35 0.27
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.23
Consensus pattern (58 bp):
ATCGAATATGAAAAGGGATAGCTTCGACCATCGATTATGAAAAGGGATGCTGACGACC
Found at i:29415115 original size:87 final size:88
Alignment explanation
Indices: 29414990--29415204 Score: 281
Period size: 87 Copynumber: 2.5 Consensus size: 88
29414980 GCTATCGAAT
* * * *
29414990 ATGAAAAGGGATAGCT-TCGACTATCGATTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAA
1 ATGAAAAGGGATAG-TGACGACCATCAAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAA
*
29415054 AGAGATGGTGGCGACCATCAATT-
65 AGAGATGGTGACGACCATCAATTA
* *
29415077 ATGAAAAGGGATGGTGACGACCATCAAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAA
1 ATGAAAAGGGATAGTGACGACCATCAAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAA
* *
29415142 GGGATGGTGACGACCATCGATTA
66 GAGATGGTGACGACCATCAATTA
* ** * *
29415165 ATGGAAAGGGATAGTTTCGACCATCGAATATGCAAAGGGA
1 ATGAAAAGGGATAGTGACGACCATCAAATATGAAAAGGGA
29415205 CGGTTATGAC
Statistics
Matches: 111, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
86 1 0.01
87 76 0.68
88 34 0.31
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (88 bp):
ATGAAAAGGGATAGTGACGACCATCAAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAA
GAGATGGTGACGACCATCAATTA
Found at i:29418646 original size:51 final size:52
Alignment explanation
Indices: 29418477--29418667 Score: 178
Period size: 51 Copynumber: 3.8 Consensus size: 52
29418467 TGAAAGTGAA
** * *
29418477 AGTGAT-GGTCATGTGTGTATTACTATGTGCAGGCTACTACGCGTACCAGA-
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAT
* * * *
29418527 A-TGATAGGTCGCATGTGTAGTGCTATGTGTAGGCTACTATGCGTACCGGAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAT
* * * * * * *
29418578 AGCT--TCGATCACGTGTGTAGTACTTTGTGCAAGCTACTACGTGTATCGGAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAT
* *
29418629 AGTGAT-GGTCACATGTGTAGTACTATGTGTAGGGTACTA
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
29418668 TGTGAACCGG
Statistics
Matches: 110, Mismatches: 25, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
49 4 0.04
50 38 0.35
51 66 0.60
52 1 0.01
53 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (52 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAT
Found at i:29418677 original size:102 final size:101
Alignment explanation
Indices: 29418489--29418677 Score: 254
Period size: 102 Copynumber: 1.9 Consensus size: 101
29418479 TGATGGTCAT
* * * *
29418489 GTGTGTATTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGGTCGCATGTGTAGTGCTATG
1 GTGTGTAGTACTATGTGCAAGCTACTACGCGTACCAGAATGATAGGTCACATGTGTAGTACTATG
*
29418554 TGTAGGCTACTATGCGTACCGGATAGCTTCGATCAC
66 TGTAGGCTACTATGCGAACCGGATAGCTTCGATCAC
* * * *
29418590 GTGTGTAGTACTTTGTGCAAGCTACTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGTACTA
1 GTGTGTAGTACTATGTGCAAGCTACTACGCGTACCAGA-A-TGATAGGTCACATGTGTAGTACTA
* *
29418654 TGTGTAGGGTACTATGTGAACCGG
64 TGTGTAGGCTACTATGCGAACCGG
29418678 TATCATTAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
101 32 0.43
102 39 0.52
103 4 0.05
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (101 bp):
GTGTGTAGTACTATGTGCAAGCTACTACGCGTACCAGAATGATAGGTCACATGTGTAGTACTATG
TGTAGGCTACTATGCGAACCGGATAGCTTCGATCAC
Found at i:29418745 original size:46 final size:43
Alignment explanation
Indices: 29418673--29418771 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
29418663 TACTATGTGA
* *
29418673 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCTC
1 ACCGGTATCATTAATTAAAAGGTGGTTGATATGTGCTGAATC-C
* *
29418716 ACCGGATATCATTGATTACAAAGGGTGGTTGATGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGATATGTGCTGAATCC
29418762 ACCGTGTATC
1 ACCG-GTATC
29418772 TGTTATTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 2 0.04
46 25 0.53
47 4 0.09
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGATATGTGCTGAATCC
Found at i:29430645 original size:42 final size:43
Alignment explanation
Indices: 29430565--29430702 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 43
29430555 TCCTAGATGT
* * *
29430565 GGTCTTACATGTAATCAACTATCGATGCCACTGTCCCAGAGAA
1 GGTCTTACATGAAATCAACTATCGATGCCAATGTCCCAGACAA
*
29430608 GGTCTTACATGAAATC-A-TATACGATGCCAATGTCCCAGACAT
1 GGTCTTACATGAAATCAACTAT-CGATGCCAATGTCCCAGACAA
** * **
29430650 GGTCTTACCCGTAAATCTCAA--ATCGATGCCAACGTCCCAGACGT
1 GGTCTTACATG-AAA--TCAACTATCGATGCCAATGTCCCAGACAA
29430694 GGTCTTACA
1 GGTCTTACA
29430703 CAAAATCACA
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
41 3 0.04
42 28 0.35
43 18 0.22
44 27 0.33
45 4 0.05
46 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
GGTCTTACATGAAATCAACTATCGATGCCAATGTCCCAGACAA
Found at i:29436269 original size:124 final size:124
Alignment explanation
Indices: 29436049--29436384 Score: 541
Period size: 124 Copynumber: 2.7 Consensus size: 124
29436039 TGTTTCTGGT
*
29436049 CAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTATGAAATCGCGCCTTCG
1 CAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTATGAAATCGCGCCCTCG
* * * *
29436114 TGGATGCGATTTTGCTACAATAGGTCATGTAAGAAATAAATT-TTTTTGACATTTTTGAG
66 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAAT-AATTGTTTTTGACATTTCTAAG
29436173 CAAATAGTATAAAATCGCCTCTACCAGGAT-CATATTTGAGAAGAAATTATGAAATCGCGCCCTC
1 CAAATAGTATAAAATCGCCTCTACCAGGATGC-TATTTGAGAAGAAATTATGAAATCGCGCCCTC
* *
29436237 GTGGACGCGATTTTGCTACAGTATGTCATGTAAGAAATAATTGTTTTTGACGTTTCTAAG
65 GTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTGTTTTTGACATTTCTAAG
* * * *
29436297 CAAATAATATAAAATCGCCTCTACCAGGATGCTATTTGGGAAGAAATTGTGAAATTGCGCCCTCG
1 CAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTATGAAATCGCGCCCTCG
29436362 TGGACGCGATTTTGCTACAGTAG
66 TGGACGCGATTTTGCTACAGTAG
29436385 CAAGTTTGGG
Statistics
Matches: 197, Mismatches: 12, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
123 5 0.03
124 191 0.97
125 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (124 bp):
CAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTATGAAATCGCGCCCTCG
TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTGTTTTTGACATTTCTAAG
Found at i:29439494 original size:10 final size:10
Alignment explanation
Indices: 29439479--29439503 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
29439469 CAAATCTAAC
29439479 ATTATGTAAA
1 ATTATGTAAA
29439489 ATTATGTAAA
1 ATTATGTAAA
29439499 ATTAT
1 ATTAT
29439504 TAAGTCTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:29439557 original size:10 final size:10
Alignment explanation
Indices: 29439542--29439568 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
29439532 TAAAATTATC
29439542 AAATTATGTA
1 AAATTATGTA
29439552 AAATTATGTA
1 AAATTATGTA
29439562 AAATTAT
1 AAATTAT
29439569 TAAGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:29439613 original size:18 final size:18
Alignment explanation
Indices: 29439590--29439624 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29439580 AAATTTAATT
29439590 AAATTAGGTAAAATTATC
1 AAATTAGGTAAAATTATC
*
29439608 AAATTATGTAAAATTAT
1 AAATTAGGTAAAATTAT
29439625 TATGTCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:29439644 original size:121 final size:120
Alignment explanation
Indices: 29439487--29439800 Score: 524
Period size: 121 Copynumber: 2.6 Consensus size: 120
29439477 ACATTATGTA
*
29439487 AAATTATGTAAAATTATTAAGTCTC-AAAATTTTGTTAATGGTTAGTAAAATTATCAAATTATGT
1 AAATTATGTAAAATTATTAAGTC-CAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGT
*
29439551 AAAATTATGTAAAATTATTAAGCCAAAAAAAATTTAATTAAATTAGGTAAAATTATC
65 AAAATTATGTAAAATTATTAAGCCAAAAAAAA-TTAATAAAATTAGGTAAAATTATC
* **
29439608 AAATTATGTAAAATTATTATGTCCAAAAATTGTGTTAATGGTTAG-AATTTTTTATCAAATTATG
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAA--AATTATCAAATTATG
29439672 TAAAATTATGTAAAATTATTAAGCCAAAAAAAATTAATAAAATTAGGTAAAATTATC
64 TAAAATTATGTAAAATTATTAAGCCAAAAAAAATTAATAAAATTAGGTAAAATTATC
*
29439729 AAATTACGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
29439794 AAATTAT
66 AAATTAT
29439801 TAAGTCCAAG
Statistics
Matches: 180, Mismatches: 9, Indels: 9
0.91 0.05 0.05
Matches are distributed among these distances:
120 25 0.14
121 107 0.59
122 48 0.27
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (120 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
AAATTATGTAAAATTATTAAGCCAAAAAAAATTAATAAAATTAGGTAAAATTATC
Found at i:29439679 original size:10 final size:10
Alignment explanation
Indices: 29439664--29439690 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
29439654 ATTTTTTATC
29439664 AAATTATGTA
1 AAATTATGTA
29439674 AAATTATGTA
1 AAATTATGTA
29439684 AAATTAT
1 AAATTAT
29439691 TAAGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:29439734 original size:18 final size:18
Alignment explanation
Indices: 29439701--29439745 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
29439691 TAAGCCAAAA
*
29439701 AAAATTAATAAAATTAGGT
1 AAAATT-ATAAAATTACGT
*
29439720 AAAATTATCAAATTACGT
1 AAAATTATAAAATTACGT
29439738 AAAATTAT
1 AAAATTAT
29439746 TAAGTCCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (18 bp):
AAAATTATAAAATTACGT
Found at i:29439757 original size:55 final size:55
Alignment explanation
Indices: 29439674--29439854 Score: 251
Period size: 55 Copynumber: 3.3 Consensus size: 55
29439664 AAATTATGTA
*** *
29439674 AAATTATGTAAAATTATTAAG-CCAAAAA--AAATTAATAAAATTAGGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAAT--GATTA-GTAAAATTATC
* *
29439729 AAATTACGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGATTAGTAAAATTATC
*
29439784 AAATTATGTAAAATTATTAAGTCCAAGAATTGTGTTAATGATTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGATTAGTAAAATTATC
29439839 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
29439855 GGTTAGGGTT
Statistics
Matches: 114, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
55 99 0.87
56 10 0.09
58 5 0.04
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGATTAGTAAAATTATC
Found at i:29439905 original size:17 final size:18
Alignment explanation
Indices: 29439862--29439903 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
29439852 TTAGGTTAGG
29439862 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
29439880 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
29439898 GTTAGG
1 GTTAGG
29439904 TTAGGGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:29439912 original size:29 final size:29
Alignment explanation
Indices: 29439880--29440009 Score: 181
Period size: 29 Copynumber: 4.3 Consensus size: 29
29439870 TTTTAATTAA
29439880 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGG
1 GTTAGGGTTTTTAATTAA---A--TTA-GGTTAGG
29439915 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
*
29439944 GTTAGGG-TTTTAATTAAGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
*
29439972 GTTAGGATTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
29440001 GTTAGGGTT
1 GTTAGGGTT
29440010 AGGTTTTTTA
Statistics
Matches: 90, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
28 26 0.29
29 42 0.47
30 3 0.03
32 1 0.01
35 18 0.20
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGG
Found at i:29439985 original size:57 final size:60
Alignment explanation
Indices: 29439880--29440009 Score: 203
Period size: 57 Copynumber: 2.1 Consensus size: 60
29439870 TTTTAATTAA
29439880 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGG-TTTTAATTAAGTTAGGTTAGGGTTAGGG-TA--GTTTTTAATTAAATTAGGTTAGG
29439944 GTTAGGGTTTTAATTAAGTTAGGTTAGGGTTA-GG-A-TTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTAATTAAGTTAGGTTAGGGTTAGGGTAGTTTTTAATTAAATTAGGTTAGG
29440001 GTTAGGGTT
1 GTTAGGGTT
29440010 AGGTTTTTTA
Statistics
Matches: 66, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
57 31 0.47
60 1 0.02
62 2 0.03
63 25 0.38
64 7 0.11
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (60 bp):
GTTAGGGTTTTAATTAAGTTAGGTTAGGGTTAGGGTAGTTTTTAATTAAATTAGGTTAGG
Found at i:29440092 original size:18 final size:18
Alignment explanation
Indices: 29440069--29440103 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
29440059 AAATTTAATT
29440069 AAATTAGGTAAAATTATC
1 AAATTAGGTAAAATTATC
29440087 AAATTAGGTAAAATTAT
1 AAATTAGGTAAAATTAT
29440104 TAAGTCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.34
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:29440098 original size:55 final size:54
Alignment explanation
Indices: 29440032--29440212 Score: 206
Period size: 55 Copynumber: 3.3 Consensus size: 54
29440022 AAATTATGTA
29440032 AAATTAAGTAAAATTATTAAG-CCAAAAAAATT-TAATTAA-ATTAGGTAAAATTATC
1 AAATTAAGTAAAATTATTAAGTCC--AAAAATTGT-ATTAAGATTA-GTAAAATTATC
* * *
29440087 AAATTAGGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTAAGTAAAATTATTAAGTCCAAAAATTGTATTAA-GATTAGTAAAATTATC
* * * * *
29440142 AAATTATGTAAAATTATTAAGTCCGAGAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTAAGTAAAATTATTAAGTCCAAAAATTGTATTAA-GATTAGTAAAATTATC
*
29440197 AAATTATGTAAAATTA
1 AAATTAAGTAAAATTA
29440213 GGTTAGGGTT
Statistics
Matches: 116, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
54 11 0.09
55 100 0.86
56 5 0.04
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (54 bp):
AAATTAAGTAAAATTATTAAGTCCAAAAATTGTATTAAGATTAGTAAAATTATC
Done.