Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 180 of 292
Found at i:53673969 original size:91 final size:91
Alignment explanation
Indices: 53673807--53674021 Score: 267
Period size: 91 Copynumber: 2.4 Consensus size: 91
53673797 TACTGGCAGT
* * *
53673807 TTAACTA-CAAACACTAGTGGCTTATCCACACACTTACTGACAAATTTTATCTACAAACCCATTA
1 TTAACTAGCAAACACTGGTGGTTTATCCACAAACTTACTGACAAATTTTATCTACAAACCCATTA
*
53673871 TGCATTCACAACCTACTGGCAGCGTA
66 TGCATTCACAACCTACTGGCAACGTA
* ** * * *
53673897 TTAACCT-GCAAACACTGGTGGTTTATCCATAAACTTACTAGA-AGCTTTTATTTGCAAACCCGT
1 TTAA-CTAGCAAACACTGGTGGTTTATCCACAAACTTACT-GACAAATTTTATCTACAAACCCAT
* *
53673960 TGTGCATTCACAACCTAGTGGCAACGTA
64 TATGCATTCACAACCTACTGGCAACGTA
*
53673988 TTAACTAGC-AACACTGGTGGTTCATCCACAAACT
1 TTAACTAGCAAACACTGGTGGTTTATCCACAAACT
53674022 GGAGTGTCCG
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
90 29 0.27
91 76 0.71
92 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (91 bp):
TTAACTAGCAAACACTGGTGGTTTATCCACAAACTTACTGACAAATTTTATCTACAAACCCATTA
TGCATTCACAACCTACTGGCAACGTA
Found at i:53677052 original size:27 final size:26
Alignment explanation
Indices: 53677009--53677142 Score: 126
Period size: 27 Copynumber: 5.0 Consensus size: 26
53676999 CATGTTGGAC
** *
53677009 CGAAATACCCCCATAGGGTAAAATGA
1 CGAAATACCCCTGTAAGGTAAAATGA
*
53677035 TCGAAATACCCCTGTAGGGTAAAATGA
1 -CGAAATACCCCTGTAAGGTAAAATGA
* *
53677062 CCAAAATA-CCCTGATAAGGTCAAATGA
1 -CGAAATACCCCTG-TAAGGTAAAATGA
* *
53677089 CTATAATACCCCTATAAGGTAAAATGA
1 CGA-AATACCCCTGTAAGGTAAAATGA
* *
53677116 CTATAATACCCCTGTAAGATAAAATGA
1 CGA-AATACCCCTGTAAGGTAAAATGA
53677143 TTGATTTGTC
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
26 7 0.08
27 82 0.88
28 4 0.04
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.22
Consensus pattern (26 bp):
CGAAATACCCCTGTAAGGTAAAATGA
Found at i:53677331 original size:36 final size:36
Alignment explanation
Indices: 53677291--53677359 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
53677281 ACTGATATGG
53677291 TTGCACGGGTCACCCAAGACGACTGTGGACCTAAGA
1 TTGCACGGGTCACCCAAGACGACTGTGGACCTAAGA
53677327 TTGCACGGGTCACCCAAGACGACTGTGGACCTA
1 TTGCACGGGTCACCCAAGACGACTGTGGACCTA
53677360 CGGATGGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.17
Consensus pattern (36 bp):
TTGCACGGGTCACCCAAGACGACTGTGGACCTAAGA
Found at i:53684904 original size:15 final size:16
Alignment explanation
Indices: 53684884--53684917 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
53684874 AAAATTAAAT
53684884 AAACTAA-CTAAATGC
1 AAACTAACCTAAATGC
*
53684899 AAACTAACCTAAATTC
1 AAACTAACCTAAATGC
53684915 AAA
1 AAA
53684918 TGAGATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.21
Consensus pattern (16 bp):
AAACTAACCTAAATGC
Found at i:53687595 original size:26 final size:26
Alignment explanation
Indices: 53687566--53687699 Score: 216
Period size: 26 Copynumber: 5.2 Consensus size: 26
53687556 TGGTACAAAT
*
53687566 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
53687592 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
53687618 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
53687644 TGATAATAGG-TTAGGTAAATGTTCCA
1 TGATAAT-GGATTAGGTAAATGTTCCA
*
53687670 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
53687696 TGAT
1 TGAT
53687700 GGGCATTTCA
Statistics
Matches: 103, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
25 2 0.02
26 99 0.96
27 2 0.02
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:53694338 original size:26 final size:26
Alignment explanation
Indices: 53694309--53694411 Score: 144
Period size: 26 Copynumber: 4.2 Consensus size: 26
53694299 TGGTACAAAT
53694309 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
53694335 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53694361 TGATAAT--G---GGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
53694382 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53694408 TGAT
1 TGAT
53694412 GGGCATTTCA
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
21 19 0.28
26 48 0.72
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:53694373 original size:47 final size:47
Alignment explanation
Indices: 53694322--53694411 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
53694312 TAATGGGTTA
53694322 GGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGATAATG
1 GGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGATAATG
* *
53694369 GGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCATGAT
1 GGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
53694412 GGGCATTTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (47 bp):
GGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGATAATG
Found at i:53694374 original size:21 final size:21
Alignment explanation
Indices: 53694348--53694390 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
53694338 TAATGGATTA
53694348 GGTAAATATTCCATGATAATG
1 GGTAAATATTCCATGATAATG
*
53694369 GGTAAATGTTCCATGATAATG
1 GGTAAATATTCCATGATAATG
53694390 G
1 G
53694391 TTTAGGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (21 bp):
GGTAAATATTCCATGATAATG
Found at i:53695943 original size:25 final size:25
Alignment explanation
Indices: 53695895--53695943 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
53695885 ACAGTTTTAC
53695895 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
53695920 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
53695944 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:53702953 original size:3 final size:3
Alignment explanation
Indices: 53702945--53702976 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
53702935 CCATAAGATG
53702945 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
53702977 TATTATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:53702994 original size:25 final size:26
Alignment explanation
Indices: 53702961--53703009 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
53702951 ATAATAATAA
* *
53702961 TAATAATAATAATAATTAT-TATTAT
1 TAATAATAACAATAAATATCTATTAT
*
53702986 TAATTATAACAATAAATATCTATT
1 TAATAATAACAATAAATATCTATT
53703010 TAATAACAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (26 bp):
TAATAATAACAATAAATATCTATTAT
Found at i:53705030 original size:46 final size:46
Alignment explanation
Indices: 53704960--53705088 Score: 170
Period size: 46 Copynumber: 2.8 Consensus size: 46
53704950 TGTAACCCGC
* * * * * *
53704960 CCATAAGCGAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTTGGACTTAACTCAACGAGTTCGGACATTCGCAT
* *
53705006 CCATAAGTGAACTCGGACTTAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTTGGACTTAACTCAACGAGTTCGGACATTCGCAT
53705052 CCATAAGTGAACTTGGA-TTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTTGGACTT-AACTCAACGAGTTCGGA
53705089 TGCCCAAATA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 2 0.03
46 70 0.97
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTTGGACTTAACTCAACGAGTTCGGACATTCGCAT
Found at i:53713824 original size:26 final size:26
Alignment explanation
Indices: 53713795--53713904 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
53713785 TGATACAAAT
53713795 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
53713821 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
53713847 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
53713873 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
53713899 TGATAA
1 TGATAA
53713905 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:53718301 original size:22 final size:22
Alignment explanation
Indices: 53718243--53718298 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
53718233 ACTAGATTGG
53718243 TATGCAATCTT---AGATATGA
1 TATGCAATCTTAGAAGATATGA
53718262 TATGCAATCTTAGAAGATATGA
1 TATGCAATCTTAGAAGATATGA
* *
53718284 TTTTGTAATCTTAGA
1 -TATGCAATCTTAGA
53718299 GATTTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 11 0.35
22 8 0.26
23 12 0.39
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
TATGCAATCTTAGAAGATATGA
Found at i:53719709 original size:12 final size:12
Alignment explanation
Indices: 53719694--53719719 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
53719684 CAAAACTCGA
53719694 TTTAAAAATGGT
1 TTTAAAAATGGT
53719706 TTTAAAAATGGT
1 TTTAAAAATGGT
53719718 TT
1 TT
53719720 CGACAGCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTAAAAATGGT
Found at i:53723963 original size:20 final size:21
Alignment explanation
Indices: 53723932--53723977 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
53723922 CTATTTCAAA
*
53723932 AAAAAGAGGAAAAAAGAAAAG
1 AAAAAGAGGAAAAAAAAAAAG
53723953 AAAAAGA-GAAAAAAAAAAAG
1 AAAAAGAGGAAAAAAAAAAAG
53723973 AAAAA
1 AAAAA
53723978 ATAGAGAGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAAAGAGGAAAAAAAAAAAG
Found at i:53724982 original size:43 final size:43
Alignment explanation
Indices: 53724927--53725158 Score: 177
Period size: 43 Copynumber: 5.5 Consensus size: 43
53724917 AAATTCAGCG
53724927 TCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
1 TCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
* * *
53724970 TCTT-ATCTCCCTAAGCAGTAGTGG-AGA-AGATCGAAGA-CT-C-G-
1 TCTTAATC-CCCTAAGCAGTAG-GGTA-ACAGGT-TAA-ATTTGCAGA
* *
53725011 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGTAGA
1 TCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
* * * *
53725054 TCTT-ATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGA-CT-C-G-
1 TCTTAATC-CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGA
* *
53725095 CCTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGA
1 TCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
53725138 TCTT-ATCTCCCTAAGCAGTAG
1 TCTTAATC-CCCTAAGCAGTAG
53725159 TGGAGTAGAT
Statistics
Matches: 144, Mismatches: 22, Indels: 46
0.68 0.10 0.22
Matches are distributed among these distances:
39 2 0.01
40 11 0.08
41 41 0.28
42 19 0.13
43 58 0.40
44 11 0.08
45 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (43 bp):
TCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
Found at i:53725031 original size:41 final size:41
Alignment explanation
Indices: 53724978--53725281 Score: 150
Period size: 41 Copynumber: 7.3 Consensus size: 41
53724968 GATCTTATCT
53724978 CCCTAAGCAGTAGTGGAGAAGATCGAAGACTCGCCTTAATC
1 CCCTAAGCAGTAGTGGAGAAGATCGAAGACTCGCCTTAATC
* ** *** * *
53725019 CCCTAAGCAGTAG-GGTA-ACAGGTTAAATTTGTAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGA-AGATCGAA-GACTCG-CCTTAATC
*
53725061 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGAAGATCGAAGACTCGCCTTAATC
* * * * *
53725103 CCCTAAGCGGTAG-GGTA-ACAGGT-TAA-ATTTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGA-AGATCGAAGA-CT-C-G-CCTTAATC
*
53725145 TCCCTAAGCAGTAGTGGAGTAGATCGAAGACTCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGAAGATCGAAGACTCGCCTTAATC
* * * *
53725187 CCCTAAGCAGTAGAGTA-ACAGGTTCGCAGA-T---CTT-ATC
1 CCCTAAGCAGTAGTGGAGA-A-GATCGAAGACTCGCCTTAATC
** *
53725224 TCCCTAAGCAGTAGCAGAGCAGATCGACGACGACTCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGAAGATCGA--A-GACTCGCCTTAATC
53725269 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
53725282 GGTAACAGGT
Statistics
Matches: 191, Mismatches: 40, Indels: 61
0.65 0.14 0.21
Matches are distributed among these distances:
37 7 0.04
38 18 0.09
39 2 0.01
40 10 0.05
41 60 0.31
42 25 0.13
43 42 0.22
44 23 0.12
45 4 0.02
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (41 bp):
CCCTAAGCAGTAGTGGAGAAGATCGAAGACTCGCCTTAATC
Found at i:53725069 original size:84 final size:84
Alignment explanation
Indices: 53724928--53725453 Score: 778
Period size: 84 Copynumber: 6.3 Consensus size: 84
53724918 AATTCAGCGT
53724928 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
1 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
*
53724993 GAGAAGATCGAAGACTCGC
66 GAGCAGATCGAAGACTCGC
*
53725012 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTTATCTCCCTAAGCAGTAGTG
1 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
53725077 GAGCAGATCGAAGACTCGC
66 GAGCAGATCGAAGACTCGC
*
53725096 CTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
1 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
*
53725161 GAGTAGATCGAAGACTCGC
66 GAGCAGATCGAAGACTCGC
* * **
53725180 CTTAATCCCCTAAGCAGTAGAGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTAGCA
1 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
53725240 GAGCAGATCGACGACGACTCGC
66 GAGCAGATCGA--A-GACTCGC
53725262 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
1 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
** *
53725327 GAATAGATCGAAGACCCGC
66 GAGCAGATCGAAGACTCGC
* * * * **
53725346 CTTAATCCCCTAAGTAATAGGGTAACAGGTTAAATTTACAGATCTTA--TCCTTAAGCAGTAGCA
1 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
*
53725409 GAGCAGATCGAAGACGATGCAC
66 GAGCAGATCGAAGAC--T-CGC
*
53725431 CTTAACCCCCTAAGCAGTAGGGT
1 CTTAATCCCCTAAGCAGTAGGGT
53725454 CCAAGATGAT
Statistics
Matches: 400, Mismatches: 31, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
79 38 0.09
81 1 0.00
82 61 0.15
84 240 0.60
85 23 0.06
87 37 0.09
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (84 bp):
CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGAAGACTCGC
Found at i:53725371 original size:250 final size:248
Alignment explanation
Indices: 53724928--53725450 Score: 764
Period size: 250 Copynumber: 2.1 Consensus size: 248
53724918 AATTCAGCGT
* * **
53724928 CTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTG
1 CTTAATCCCCTAAGCAGTAGAGTAACAGG----ATTCGCAGATCTTATCTCCCTAAGCAGTAGCA
*
53724993 GAGAAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTT
62 GAGAAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTT
* * **
53725058 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCGGTAGGGTAACA
127 ATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACCCGCCTTAATCCCCTAAGCAATAGGGTAACA
* ** * *
53725123 GGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC-T-CGC
192 GGTTAAATTTACAGATCTTA--TCCCTAAGCAGTAGCAGAGCAGATCGAAGACATGCAC
*
53725180 CTTAATCCCCTAAGCAGTAGAGTAACAGG-TTCGCAGATCTTATCTCCCTAAGCAGTAGCAGAGC
1 CTTAATCCCCTAAGCAGTAGAGTAACAGGATTCGCAGATCTTATCTCCCTAAGCAGTAGCAGAGA
53725244 AGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTA
66 AGATCGA--A-GACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTA
* *
53725309 TCTCCCTAAGCAGTAGTGGAATAGATCGAAGACCCGCCTTAATCCCCTAAGTAATAGGGTAACAG
128 TCTCCCTAAGCAGTAGTGGAACAGATCGAAGACCCGCCTTAATCCCCTAAGCAATAGGGTAACAG
*
53725374 GTTAAATTTACAGATCTTATCCTTAAGCAGTAGCAGAGCAGATCGAAGACGATGCAC
193 GTTAAATTTACAGATCTTATCCCTAAGCAGTAGCAGAGCAGATCGAAGAC-ATGCAC
*
53725431 CTTAACCCCCTAAGCAGTAG
1 CTTAATCCCCTAAGCAGTAG
53725451 GGTCCAAGAT
Statistics
Matches: 246, Mismatches: 19, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
247 38 0.15
248 27 0.11
249 1 0.00
250 131 0.53
251 21 0.09
252 28 0.11
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (248 bp):
CTTAATCCCCTAAGCAGTAGAGTAACAGGATTCGCAGATCTTATCTCCCTAAGCAGTAGCAGAGA
AGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
CCCTAAGCAGTAGTGGAACAGATCGAAGACCCGCCTTAATCCCCTAAGCAATAGGGTAACAGGTT
AAATTTACAGATCTTATCCCTAAGCAGTAGCAGAGCAGATCGAAGACATGCAC
Found at i:53725734 original size:134 final size:133
Alignment explanation
Indices: 53725595--53725916 Score: 439
Period size: 134 Copynumber: 2.4 Consensus size: 133
53725585 GATCCAAAAT
* * *
53725595 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGGCATAGCAGATCTAATATTCTTGTGCT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTAACATTCCTGTGCT
* * * *
53725660 TACAGCGAAGCAGATCAAAGATTTTAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAACGAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAATCGAAGA-
*
53725725 AGCA
130 AACA
* *
53725729 GATTTGGCATCCTTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTAACATTCCTGTGCT
* *
53725794 TACAACGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAATCGAAGAA
66 TACAACGAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAATCGAAGAA
*
53725859 ATA
131 ACA
* ** ** *
53725862 GATTTGGCATCTCCATAT-TCGACAAAGAGCAGATCGAAGACATAGCAGATCTAAC
1 GATTTGGCATC-CC-TGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTAAC
53725917 CTTCGGATGT
Statistics
Matches: 165, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
133 13 0.08
134 150 0.91
135 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (133 bp):
GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTAACATTCCTGTGCT
TACAACGAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAATCGAAGAA
ACA
Found at i:53725739 original size:44 final size:44
Alignment explanation
Indices: 53725595--53725872 Score: 188
Period size: 44 Copynumber: 6.2 Consensus size: 44
53725585 GATCCAAAAT
53725595 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGGCATAGCA
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAA-G-ATAGCA
* *** * * * * * ***
53725641 GATCTAATATTCTTGTGCTTACAGCGAAGCAGATCAAAGATTTTA
1 GATTTGGCATCCCTGTGTTTACAGGGAA-CAGATCGAAGATAGCA
** * *
53725686 -ACATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCA
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGA-TCGAAGATAGCA
*
53725729 GATTTGGCATCCTTGTGTTTACAGGGAACAGATCGAAGACATAGCA
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAG--ATAGCA
* * * * ** **
53725775 GATCTGACATTCCTGTGCTTACAACGAAGCAGATCGAAGATTTCA
1 GATTTGGCATCCCTGTGTTTACAGGGAA-CAGATCGAAGATAGCA
* * **
53725820 GCA--TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGA-AATA
1 G-ATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGATAGCA
53725862 GATTTGGCATC
1 GATTTGGCATC
53725873 TCCATATTCG
Statistics
Matches: 171, Mismatches: 51, Indels: 23
0.70 0.21 0.09
Matches are distributed among these distances:
41 1 0.01
42 3 0.02
43 26 0.15
44 65 0.38
45 9 0.05
46 49 0.29
47 18 0.11
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGATAGCA
Found at i:53725960 original size:223 final size:219
Alignment explanation
Indices: 53725729--53726140 Score: 497
Period size: 220 Copynumber: 1.9 Consensus size: 219
53725719 GAAGATAGCA
** * * *
53725729 GATTTGGCATCCTTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCT-GTGC
1 GATTTGGCATCCTTGCATTGACAAGGAACAGATCAAAGACATAGCAGAT-TGACATT-CTAGTGC
* * * *
53725793 TTACAAC-GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGT-GTTTATAGGGAACAAATCGAA
64 TTAC-ACTGAAGCAGATCGAAGA--TCA-CATGGCATCCCTGTACTGT-CAGAGAACAAATCGAA
* *
53725856 GAAATAGATTTGGCATCTCCATATTCGACAAAGAGCAGATCGAAGACATAGCAGATCTAACCTTC
124 GAAACAGATTTGGCATCTCCATATTCAACAAAGAGCAGATCGAAGACATAGCAGATCTAACCTTC
53725921 GGATGTTTTCACATCGAAGTAGATCCAAGAT
189 GGATGTTTTCACATCGAAGTAGATCCAAGAT
* * * * *
53725952 GATTTGGCATCCTTGCATTGACAAGGAGCAGATCAAAGACATAGCAGATTTACCTTTTACGTGTT
1 GATTTGGCATCCTTGCATTGACAAGGAACAGATCAAAGACATAGCAGATTGACATTCTA-GTGCT
* * * ** *
53726017 TACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACA
65 TACACTGAAGCAGATCGAAGATCACATGGCATCCCTGTACTGTCAGAGAACAAATCGAAGAAACA
* * * *
53726082 GATTTGGCATCTCCATATTCAACAGAGAGTAGATCGAAGACATAGTAGATCTGACCTTC
130 GATTTGGCATCTCCATATTCAACAAAGAGCAGATCGAAGACATAGCAGATCTAACCTTC
53726141 ATTGAAGCAG
Statistics
Matches: 159, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
220 84 0.53
221 5 0.03
222 6 0.04
223 64 0.40
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (219 bp):
GATTTGGCATCCTTGCATTGACAAGGAACAGATCAAAGACATAGCAGATTGACATTCTAGTGCTT
ACACTGAAGCAGATCGAAGATCACATGGCATCCCTGTACTGTCAGAGAACAAATCGAAGAAACAG
ATTTGGCATCTCCATATTCAACAAAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTT
TTCACATCGAAGTAGATCCAAGAT
Found at i:53726017 original size:89 final size:87
Alignment explanation
Indices: 53725882--53726049 Score: 207
Period size: 89 Copynumber: 1.9 Consensus size: 87
53725872 CTCCATATTC
* * *
53725882 GACAAAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCC
1 GACAAAGAGCAGATCAAAGACATAGCAGATCTAACCTTCGGATGTTTACAC-T-GAAGCAGATCC
53725947 AAGATGATTTGGCATCCTTGCATT
64 AAGATGATTTGGCATCCTTGCATT
* * *
53725971 GACAAGGAGCAGATCAAAGACATAGCAGAT-TTACCTTTTAC-G-TGTTTACGCTGAAGCAGATC
1 GACAAAGAGCAGATCAAAGACATAGCAGATCTAACC--TT-CGGATGTTTACACTGAAGCAGATC
*
53726033 TAAGATGATTTGGCATC
63 CAAGATGATTTGGCATC
53726050 TCTGTACTGT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
87 25 0.36
88 5 0.07
89 35 0.51
90 3 0.04
91 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (87 bp):
GACAAAGAGCAGATCAAAGACATAGCAGATCTAACCTTCGGATGTTTACACTGAAGCAGATCCAA
GATGATTTGGCATCCTTGCATT
Found at i:53726211 original size:78 final size:78
Alignment explanation
Indices: 53726082--53726507 Score: 610
Period size: 78 Copynumber: 5.5 Consensus size: 78
53726072 CGAAGAAACA
** *
53726082 GATTTGGCATCTCCATATTCA-AC-AGAGAGTAGATCGAAGACATAGTAGATCTGACCTTCATTG
1 GATTTGGCATCTCTGTATT-AGACGAG-GAGCAGATCGAAGACATAGTAGATCTGACCTTCATTG
53726145 AAGCAGATCCAAGAT
64 AAGCAGATCCAAGAT
*
53726160 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACACAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAGTAGATCTGACCTTCATTGAA
*
53726225 GCAGATCAAAGAT
66 GCAGATCCAAGAT
* *
53726238 GATTTGGCATCTCTGTATTAGACG-GAGAGTAGATCGAAGACATAATAGAT-TGGACCTTCATTG
1 GATTTGGCATCTCTGTATTAGACGAG-GAGCAGATCGAAGACATAGTAGATCT-GACCTTCATTG
53726301 AAGCAGATCCAAGAT
64 AAGCAGATCCAAGAT
* * * * *
53726316 GATTTGGCATCTCTGTATTATATGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAGTAGATCTGACCTTCATTGAA
53726381 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * **
53726394 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAGTAGATCT-GACCTTCATTGA
*
53726458 AGCAAATCCAAGAT
65 AGCAGATCCAAGAT
*
53726472 GATTTGGCATCTCTGTATTAGACGAGGAGCAAATCG
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCG
53726508 GAGATAACAG
Statistics
Matches: 317, Mismatches: 24, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
77 4 0.01
78 309 0.97
79 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAGTAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:53726366 original size:156 final size:156
Alignment explanation
Indices: 53726082--53726507 Score: 694
Period size: 156 Copynumber: 2.7 Consensus size: 156
53726072 CGAAGAAACA
* * *
53726082 GATTTGGCATCTCCATATTCA-ACAGAGAGTAGATCGAAGACATAGTAGATCT-GACCTTCATTG
1 GATTTGGCATCTCTATATT-AGACGGAGAGTAGATCGAAGACATAATAGAT-TGGACCTTCATTG
*
53726145 AAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACACAGTAGAT
64 AAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACACAGCAGAT
53726210 CTGACCTTCATTGAAGCAGATCAAAGAT
129 CTGACCTTCATTGAAGCAGATCAAAGAT
*
53726238 GATTTGGCATCTCTGTATTAGACGGAGAGTAGATCGAAGACATAATAGATTGGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGAGAGTAGATCGAAGACATAATAGATTGGACCTTCATTGAA
* * *
53726303 GCAGATCCAAGATGATTTGGCATCTCTGTATTATATGGGGAGCAGATCGAAGACACAGCAGATCT
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACACAGCAGATCT
*
53726368 GACCTTCATTGAAGCAGATCCAAGAT
131 GACCTTCATTGAAGCAGATCAAAGAT
* * *
53726394 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGAGAGTAGATCGAAGACATAATAGATTGGACCTTCATTGAA
* *
53726459 GCAAATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAAATCG
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCG
53726508 GAGATAACAG
Statistics
Matches: 250, Mismatches: 18, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
155 2 0.01
156 248 0.99
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (156 bp):
GATTTGGCATCTCTATATTAGACGGAGAGTAGATCGAAGACATAATAGATTGGACCTTCATTGAA
GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACACAGCAGATCT
GACCTTCATTGAAGCAGATCAAAGAT
Found at i:53726623 original size:89 final size:89
Alignment explanation
Indices: 53726472--53726639 Score: 273
Period size: 89 Copynumber: 1.9 Consensus size: 89
53726462 AATCCAAGAT
* *
53726472 GATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTA
1 GATTTCGCATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTA
*
53726537 GACGGGGAGCAGATTGAAGAAGTA
66 GACGAGGAGCAGATTGAAGAAGTA
* * * *
53726561 GATTTCGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTA
1 GATTTCGCATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTA
53726626 GACGAGGAGCAGAT
66 GACGAGGAGCAGAT
53726640 CAAATATAGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (89 bp):
GATTTCGCATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTA
GACGAGGAGCAGATTGAAGAAGTA
Found at i:53726653 original size:45 final size:45
Alignment explanation
Indices: 53726472--53726640 Score: 241
Period size: 45 Copynumber: 3.8 Consensus size: 45
53726462 AATCCAAGAT
* *
53726472 GATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGATAACA
* * **
53726517 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGTA
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGATAACA
* * *
53726561 GATTTCGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGATAACA
*
53726606 GATTTGGCGTCTCTGTATTAGACGAGGAGCAGATC
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATC
53726641 AAATATAGCA
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
44 39 0.35
45 71 0.65
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGATAACA
Found at i:53727028 original size:19 final size:19
Alignment explanation
Indices: 53727000--53727091 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
53726990 ATAATCTTCA
*
53727000 ATGATATGCAACCTTAGAT
1 ATGATATGCAATCTTAGAT
*
53727019 ATGTTATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
53727038 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
53727057 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
53727074 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
53727092 AGATATGATT
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
17 17 0.25
19 51 0.75
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:53727032 original size:36 final size:36
Alignment explanation
Indices: 53727000--53727091 Score: 148
Period size: 36 Copynumber: 2.5 Consensus size: 36
53726990 ATAATCTTCA
* *
53727000 ATGATATGCAACCTTAGATATGTTATGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATG--ATACAATCTTAGAT
53727038 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
53727074 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
53727092 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
36 31 0.60
38 21 0.40
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (36 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAGAT
Found at i:53727040 original size:14 final size:15
Alignment explanation
Indices: 53727040--53727077 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
53727030 TCTTAGATAT
53727040 GATATG-CAATCTTA
1 GATATGACAATCTTA
53727054 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
53727071 GATATGA
1 GATATGA
53727078 TATGCAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:53728951 original size:5 final size:5
Alignment explanation
Indices: 53728941--53728977 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
53728931 TTAGATAAAC
53728941 ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA AT
1 ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA AT
53728978 GATTGTAGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (5 bp):
ATCTA
Found at i:53731761 original size:32 final size:32
Alignment explanation
Indices: 53731720--53731783 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
53731710 TATAACTATA
53731720 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
53731752 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
53731784 ATTTTTTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.47
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:53734704 original size:37 final size:36
Alignment explanation
Indices: 53734654--53734740 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
53734644 TACGAAGTCT
53734654 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
53734690 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
53734727 TCACCCGGAACATA
1 T-ACCCGG-ACATA
53734741 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:53734878 original size:49 final size:49
Alignment explanation
Indices: 53734809--53735445 Score: 380
Period size: 49 Copynumber: 12.4 Consensus size: 49
53734799 TTTACCACAT
*
53734809 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
53734858 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * *
53734907 ATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
53734956 ATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * ** *
53735005 ATATACATATACTTTCGCATTCACCACATCGGCCTAATTA-TACTT-TCGC
1 ATATACATACACTTTCACATTCATCACATCGGCC--ATTAGGCCTTATCAC
* * * * *** * * *
53735054 AT-TCACCACATCGGCCATT-AGGCCTT-ATCACAT-ATACATATACTTTCGCATTCACCAC
1 ATAT-A-CATA-C--ACTTTCA--CATTCATCACATCGGCCAT-TA----GGCCTT-ATCAC
*** * *
53735112 ATCGGCCATTAGGC-CTTATCACATATACAT-ACATTTTC-GCATTCATCGCATCGGCCATTAGG
1 AT-ATACA-TA--CACTT-TCACAT-T-CATCACA---TCGGC---CAT----TAGGCC-TTA-T
53735174 C-C
47 CAC
* *
53735176 -TCATCACATATA-TATACATTTTCGCATTCATCACATCGGCCATTAGGCCTTATCAC
1 AT-AT-ACATACACT-TTCA------CATTCATCACATCGGCCATTAGGCCTTATCAC
* * * * *
53735232 ATATACATACATTTTCGCATTCATCGCATCGACCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
53735281 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
53735330 ATATACATACATTTTCACATTCATCACATCGACCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
53735379 ATATACATACATTTTCACATTCATCACATCGACCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
53735428 ATATATATACATTTTCAC
1 ATATACATACACTTTCAC
53735446 GAATCTTGAT
Statistics
Matches: 478, Mismatches: 58, Indels: 104
0.75 0.09 0.16
Matches are distributed among these distances:
48 1 0.00
49 366 0.77
50 8 0.02
51 6 0.01
52 1 0.00
53 9 0.02
54 3 0.01
55 9 0.02
56 9 0.02
57 10 0.02
58 8 0.02
59 5 0.01
60 3 0.01
61 6 0.01
62 2 0.00
63 6 0.01
64 8 0.02
65 9 0.02
66 4 0.01
67 3 0.01
68 2 0.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:53734955 original size:98 final size:98
Alignment explanation
Indices: 53734789--53735432 Score: 556
Period size: 98 Copynumber: 6.2 Consensus size: 98
53734779 ATTCACATTA
* * * * * *
53734789 GCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 GCCATTAGGCCTTATCACATATACATAT--ACTTTCGCATTCATCACATCGGCCATTAGGCCTCA
53734854 TCACATATACATACACTTTCACATTCACCACATCG
64 TCACATATACATACACTTTCACATTCACCACATCG
* *
53734889 GCCATTAGGCCTCATCACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
53734954 ACATATACATATACTTTCGCATTCACCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* **
53734987 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTAATTATACTTTC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCC--ATTAGGC---C
* * * *
53735052 GCATTCACCACATCGGCCATTAGGC-CTTATCACATATACATATACTTTCGCATTC-
61 TCA-TCA-CATAT---ACA-TA--CACTT-TCACAT-T-C----AC---CACA-TCG
* * * * * *
53735107 ACCACATCGGCCATTAGGC-CTTATCACATATACATACATTTTCGCATTCATCGCATCGGCCATT
1 GCCA-TTAGGCC-TTA-TCACATAT-AC--AT--ATAC--TTTCGCATTCATCACATCGGCCATT
* * * *
53735171 AGGCCTCATCACATATATATACATTTTCGCATTCATCACATCG
56 AGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* * * *
53735214 GCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGACCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* * *
53735279 ACATATATATACATTTTCACATTCATCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* * * * *
53735312 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCGACCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
53735377 ACATATACATACATTTTCACATTCATCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* *
53735410 ACCATTAGGCCTCATCACATATA
1 GCCATTAGGCCTTATCACATATA
53735433 TATACATTTT
Statistics
Matches: 456, Mismatches: 51, Indels: 76
0.78 0.09 0.13
Matches are distributed among these distances:
98 297 0.65
100 30 0.07
102 2 0.00
103 3 0.01
104 6 0.01
105 11 0.02
106 7 0.02
107 6 0.01
108 2 0.00
109 2 0.00
110 4 0.01
111 5 0.01
112 1 0.00
113 1 0.00
114 1 0.00
115 1 0.00
116 6 0.01
117 4 0.01
118 2 0.00
119 1 0.00
120 6 0.01
121 7 0.02
122 11 0.02
123 6 0.01
124 3 0.01
125 2 0.00
127 9 0.02
129 20 0.04
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (98 bp):
GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
ACATATACATACACTTTCACATTCACCACATCG
Found at i:53735073 original size:129 final size:129
Alignment explanation
Indices: 53734914--53735167 Score: 463
Period size: 129 Copynumber: 2.0 Consensus size: 129
53734904 CACATATACA
53734914 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
*
53734979 CCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTAAT
66 CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCCTAAT
*
53735043 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
* * *
53735108 CCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGGCC
66 CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCC
53735168 ATTAGGCCTC
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 120 1.00
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (129 bp):
TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCCTAAT
Found at i:53735096 original size:80 final size:80
Alignment explanation
Indices: 53734963--53735118 Score: 312
Period size: 80 Copynumber: 1.9 Consensus size: 80
53734953 CACATATACA
53734963 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
53735028 CCACATCGGCCTAAT
66 CCACATCGGCCTAAT
53735043 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
53735108 CCACATCGGCC
66 CCACATCGGCC
53735119 ATTAGGCCTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (80 bp):
TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
CCACATCGGCCTAAT
Found at i:53735315 original size:147 final size:147
Alignment explanation
Indices: 53735048--53735445 Score: 661
Period size: 147 Copynumber: 2.7 Consensus size: 147
53735038 CTAATTATAC
* * * *
53735048 TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACA
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCACA
* * * * *
53735113 TCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTC
66 TCGACCATTAGGCCTCATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTC
*
53735178 ATCACATATATATACAT
131 ATCACATATACATACAT
*
53735195 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCA
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCACA
*
53735260 TCGACCATTAGGCCTCATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTT
66 TCGACCATTAGGCCTCATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTC
53735325 ATCACATATACATACAT
131 ATCACATATACATACAT
* * *
53735342 TTTCACATTCATCACATCGACCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACA
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCACA
53735407 TCGACCATTAGGCCTCATCACATATATATACATTTTCAC
66 TCGACCATTAGGCCTCATCACATATATATACATTTTCAC
53735446 GAATCTTGAT
Statistics
Matches: 235, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
147 235 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (147 bp):
TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCACA
TCGACCATTAGGCCTCATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTC
ATCACATATACATACAT
Found at i:53735355 original size:27 final size:27
Alignment explanation
Indices: 53735325--53735407 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
53735315 ATTAGGCCTT
53735325 ATCACATATACATACATTTTCACATTC
1 ATCACATATACATACATTTTCACATTC
** **
53735352 ATCACATCGAC---CATTAGGC-C-TT-
1 ATCACATATACATACATT-TTCACATTC
53735374 ATCACATATACATACATTTTCACATTC
1 ATCACATATACATACATTTTCACATTC
53735401 ATCACAT
1 ATCACAT
53735408 CGACCATTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 14
0.65 0.13 0.22
Matches are distributed among these distances:
22 9 0.22
23 2 0.05
24 6 0.15
25 6 0.15
26 2 0.05
27 16 0.39
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.34
Consensus pattern (27 bp):
ATCACATATACATACATTTTCACATTC
Found at i:53735445 original size:98 final size:98
Alignment explanation
Indices: 53735048--53735443 Score: 630
Period size: 98 Copynumber: 4.0 Consensus size: 98
53735038 CTAATTATAC
* * * * * * *
53735048 TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACA
1 TTTCGCATTCATCACATCGACCATTAGGCCTCATCACATATACATACATTTTCACATTCATCACA
53735113 TCGGCCATTAGGCCTTATCACATATACATACAT
66 TCGGCCATTAGGCCTTATCACATATACATACAT
* * * *
53735146 TTTCGCATTCATCGCATCGGCCATTAGGCCTCATCACATATATATACATTTTCGCATTCATCACA
1 TTTCGCATTCATCACATCGACCATTAGGCCTCATCACATATACATACATTTTCACATTCATCACA
53735211 TCGGCCATTAGGCCTTATCACATATACATACAT
66 TCGGCCATTAGGCCTTATCACATATACATACAT
* *
53735244 TTTCGCATTCATCGCATCGACCATTAGGCCTCATCACATATATATACATTTTCACATTCATCACA
1 TTTCGCATTCATCACATCGACCATTAGGCCTCATCACATATACATACATTTTCACATTCATCACA
53735309 TCGGCCATTAGGCCTTATCACATATACATACAT
66 TCGGCCATTAGGCCTTATCACATATACATACAT
* *
53735342 TTTCACATTCATCACATCGACCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACA
1 TTTCGCATTCATCACATCGACCATTAGGCCTCATCACATATACATACATTTTCACATTCATCACA
* * *
53735407 TCGACCATTAGGCCTCATCACATATATATACAT
66 TCGGCCATTAGGCCTTATCACATATACATACAT
53735440 TTTC
1 TTTC
53735444 ACGAATCTTG
Statistics
Matches: 282, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 282 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (98 bp):
TTTCGCATTCATCACATCGACCATTAGGCCTCATCACATATACATACATTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATACATACAT
Found at i:53739424 original size:79 final size:79
Alignment explanation
Indices: 53739287--53739469 Score: 296
Period size: 79 Copynumber: 2.3 Consensus size: 79
53739277 CCAGCATGAT
* * *
53739287 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
53739352 CATCACTAGCACGAA
65 CATCACTAGCACGAA
*
53739367 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCA-GAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
*
53739431 CATCACTAGCACGGA
65 CATCACTAGCACGAA
53739446 TGCTCTTCGGAACTTAGCCGGATA
1 TGCTCTTCGGAACTTAGCCGGATA
53739470 AAACCACAAG
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
78 7 0.07
79 58 0.60
80 31 0.32
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
TGCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATAC
ATCACTAGCACGAA
Found at i:53739493 original size:79 final size:79
Alignment explanation
Indices: 53739319--53739494 Score: 257
Period size: 79 Copynumber: 2.2 Consensus size: 79
53739309 ATGCATCACT
53739319 AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAG
1 AGCAC-AATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAG
* * *
53739384 TCCGGATACATCACT
65 TCCGGATAAACCACA
* * *
53739399 AGCAGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGATGCTCTTCGGAACTTAG-
1 AGCACAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAGT
53739463 CCGGATAAAACCACA
66 CCGGAT-AAACCACA
53739478 AGCACAATTGC-CTTCGG
1 AGCACAA-TGCTCTTCGG
53739495 GTCTTAACCC
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
78 6 0.07
79 74 0.85
80 7 0.08
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (79 bp):
AGCACAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAGT
CCGGATAAACCACA
Found at i:53739494 original size:39 final size:40
Alignment explanation
Indices: 53739287--53739469 Score: 298
Period size: 40 Copynumber: 4.6 Consensus size: 40
53739277 CCAGCATGAT
* * * *
53739287 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
53739327 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
53739367 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCA-GAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
53739406 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
53739446 TGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
53739470 AAACCACAAG
Statistics
Matches: 135, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 45 0.33
40 90 0.67
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:53739532 original size:40 final size:40
Alignment explanation
Indices: 53739478--53739590 Score: 122
Period size: 40 Copynumber: 2.8 Consensus size: 40
53739468 TAAAACCACA
* * *
53739478 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATA-ACAACT
1 AGCACAAATACCTTCGGGTCTTAGCCCGGGTATATAC-ACT
* *
53739518 CA-CACAAATACCTTCGGGTCTTAGCCCGGATATATTCACT
1 -AGCACAAATACCTTCGGGTCTTAGCCCGGGTATATACACT
* * *
53739558 AGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 AGCACAAATACCTTCGGGTCTTAGCCCGGGTAT
53739591 CATTCAAATG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.02
40 58 0.95
41 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
AGCACAAATACCTTCGGGTCTTAGCCCGGGTATATACACT
Found at i:53739533 original size:119 final size:118
Alignment explanation
Indices: 53739289--53739583 Score: 289
Period size: 119 Copynumber: 2.5 Consensus size: 118
53739279 AGCATGATTG
* * *
53739289 CTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATAAA
* * ** *
53739354 TCACTAGCACGAATGCTCCTCGGAACTTAGTCCGGATACATCACTAGCAGAATG
65 CCACAAGCACGAATGCTCCTCGGAACTTAACCCGGATACATCACTAGCAGAATA
* * *
53739408 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGATGCTCTTCGGAACTTAGCCGGATAAAA
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGAT-AAA
* **
53739473 CCACAAGCAC-AATTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCAC-A-CA-AATA
65 CCACAAGCACGAA-TGCTCCTCGGAACTTAACCC-GG-AT-AC-A-TCACTAGCAGAATA
* * ** *
53739528 C-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAATGC-CTTCGGGACTTAGCC
1 CTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGAACTTAGCC
53739584 CGGGTATCAT
Statistics
Matches: 146, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
118 19 0.13
119 98 0.67
120 19 0.13
121 4 0.03
122 2 0.01
123 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (118 bp):
CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAAAC
CACAAGCACGAATGCTCCTCGGAACTTAACCCGGATACATCACTAGCAGAATA
Found at i:53741498 original size:37 final size:36
Alignment explanation
Indices: 53741448--53741534 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
53741438 TACGAAGTCT
53741448 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
53741484 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
53741521 TCACCCGGAACATA
1 T-ACCCGG-ACATA
53741535 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:53741672 original size:49 final size:49
Alignment explanation
Indices: 53741603--53742237 Score: 371
Period size: 49 Copynumber: 12.4 Consensus size: 49
53741593 TTTACCACAT
*
53741603 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
53741652 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * *
53741701 ATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
53741750 ATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * ** *
53741799 ATATACATATACTTTCGCATTCACCACATCGGCCTAATTA-TACTT-TCGC
1 ATATACATACACTTTCACATTCATCACATCGGCC--ATTAGGCCTTATCAC
* * * * *** * * *
53741848 AT-TCACCACATCGGCCATT-AGGCCTT-ATCACAT-ATACATATACTTTCGCATTCACCAC
1 ATAT-A-CATA-C--ACTTTCA--CATTCATCACATCGGCCAT-TA----GGCCTT-ATCAC
*** * *
53741906 ATCGGCCATTAGGC-CTTATCACATATACAT-ACATTTTC-GCATTCATCGCATCGGCCATTAGG
1 AT-ATACA-TA--CACTT-TCACAT-T-CATCACA---TCGGC---CAT----TAGGCC-TTA-T
53741968 C-C
47 CAC
* *
53741970 -TCATCACATATA-TATACATTTTCGCATTCATCACATCGGCCATTAGGCCTTATCAC
1 AT-AT-ACATACACT-TTCA------CATTCATCACATCGGCCATTAGGCCTTATCAC
* * * * *
53742026 ATATACATACATTTTCGCATTCATCGCATCGACCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
53742075 ATAT--ATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
53742122 ATATACATACATTTTCACATTCATCACATCGACCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
53742171 ATATACATACATTTTCACATTCATCACATCGACCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
53742220 ATATATATACATTTTCAC
1 ATATACATACACTTTCAC
53742238 GAATCTTGAT
Statistics
Matches: 476, Mismatches: 56, Indels: 108
0.74 0.09 0.17
Matches are distributed among these distances:
47 43 0.09
48 1 0.00
49 321 0.67
50 8 0.02
51 6 0.01
52 1 0.00
53 9 0.02
54 3 0.01
55 9 0.02
56 9 0.02
57 10 0.02
58 8 0.02
59 5 0.01
60 3 0.01
61 6 0.01
62 2 0.00
63 6 0.01
64 8 0.02
65 9 0.02
66 4 0.01
67 3 0.01
68 2 0.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:53741749 original size:98 final size:98
Alignment explanation
Indices: 53741583--53742224 Score: 547
Period size: 98 Copynumber: 6.2 Consensus size: 98
53741573 ATTCACATTA
* * * * * *
53741583 GCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 GCCATTAGGCCTTATCACATATACATAT--ACTTTCGCATTCATCACATCGGCCATTAGGCCTCA
53741648 TCACATATACATACACTTTCACATTCACCACATCG
64 TCACATATACATACACTTTCACATTCACCACATCG
* *
53741683 GCCATTAGGCCTCATCACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
53741748 ACATATACATATACTTTCGCATTCACCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* **
53741781 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTAATTATACTTTC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCC--ATTAGGC---C
* * * *
53741846 GCATTCACCACATCGGCCATTAGGC-CTTATCACATATACATATACTTTCGCATTC-
61 TCA-TCA-CATAT---ACA-TA--CACTT-TCACAT-T-C----AC---CACA-TCG
* * * * * *
53741901 ACCACATCGGCCATTAGGC-CTTATCACATATACATACATTTTCGCATTCATCGCATCGGCCATT
1 GCCA-TTAGGCC-TTA-TCACATAT-AC--AT--ATAC--TTTCGCATTCATCACATCGGCCATT
* * * *
53741965 AGGCCTCATCACATATATATACATTTTCGCATTCATCACATCG
56 AGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* * * *
53742008 GCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGACCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
53742073 ACATAT--ATACATTTTCACATTCATCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* * * * *
53742104 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCGACCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
53742169 ACATATACATACATTTTCACATTCATCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* *
53742202 ACCATTAGGCCTCATCACATATA
1 GCCATTAGGCCTTATCACATATA
53742225 TATACATTTT
Statistics
Matches: 453, Mismatches: 50, Indels: 80
0.78 0.09 0.14
Matches are distributed among these distances:
96 92 0.20
98 202 0.45
100 30 0.07
102 2 0.00
103 3 0.01
104 6 0.01
105 11 0.02
106 7 0.02
107 6 0.01
108 2 0.00
109 2 0.00
110 4 0.01
111 5 0.01
112 1 0.00
113 1 0.00
114 1 0.00
115 1 0.00
116 6 0.01
117 4 0.01
118 2 0.00
119 1 0.00
120 6 0.01
121 7 0.02
122 11 0.02
123 6 0.01
124 3 0.01
125 2 0.00
127 9 0.02
129 20 0.04
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (98 bp):
GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
ACATATACATACACTTTCACATTCACCACATCG
Found at i:53741867 original size:129 final size:129
Alignment explanation
Indices: 53741708--53741961 Score: 463
Period size: 129 Copynumber: 2.0 Consensus size: 129
53741698 CACATATACA
53741708 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
*
53741773 CCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTAAT
66 CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCCTAAT
*
53741837 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
* * *
53741902 CCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGGCC
66 CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCC
53741962 ATTAGGCCTC
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 120 1.00
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (129 bp):
TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCCTAAT
Found at i:53741890 original size:80 final size:80
Alignment explanation
Indices: 53741757--53741912 Score: 312
Period size: 80 Copynumber: 1.9 Consensus size: 80
53741747 CACATATACA
53741757 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
53741822 CCACATCGGCCTAAT
66 CCACATCGGCCTAAT
53741837 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
53741902 CCACATCGGCC
66 CCACATCGGCC
53741913 ATTAGGCCTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (80 bp):
TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
CCACATCGGCCTAAT
Found at i:53741968 original size:178 final size:183
Alignment explanation
Indices: 53741648--53742201 Score: 708
Period size: 178 Copynumber: 3.0 Consensus size: 183
53741638 TTAGGCCTTA
*
53741648 TCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATATAC
1 TCACATATA-AT--ACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATAC
* * * *
53741713 TTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCACCACA
63 TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCACA
* *
53741778 TCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCC-
128 TCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCACCACATCGGCCT
*
53741833 T-A-AT-T-ATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTT
1 TCACATATAATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTT
*
53741894 CGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCG
66 CGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCACATCG
* * *
53741959 GCCATTAGGCCTCATCACATATATATACATTTTCGCATTCATCACATCGGCCATTAGGCCTT
131 GCCATTAGGCCTTATCACATATACATACATTTTCGCATTCA-C-CA-----CA-TCGGCC-T
* * * *
53742021 ATCACATATACATACATTTTCGCATTCATCGCATCGACCATTAGGCCTCATCACATAT--ATACA
1 -TCACATATA-ATAC--TTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATA
* * * *
53742084 TTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCAC
62 CTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCAC
* * *
53742149 ATCGACCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCG
127 ATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCACCACATCG
53742202 ACCATTAGGC
Statistics
Matches: 323, Mismatches: 28, Indels: 35
0.84 0.07 0.09
Matches are distributed among these distances:
178 149 0.46
179 1 0.00
180 4 0.01
182 1 0.00
183 2 0.01
184 1 0.00
185 3 0.01
186 7 0.02
187 2 0.01
189 1 0.00
190 1 0.00
191 2 0.01
192 3 0.01
194 109 0.34
196 37 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (183 bp):
TCACATATAATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTT
CGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCACATCG
GCCATTAGGCCTTATCACATATACATACATTTTCGCATTCACCACATCGGCCT
Found at i:53742022 original size:227 final size:238
Alignment explanation
Indices: 53741607--53742235 Score: 938
Period size: 227 Copynumber: 2.7 Consensus size: 238
53741597 CCACATATAT
*
53741607 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACAT
1 ATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACAT
* * * *
53741672 TCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCACCACATCGGCCAT
66 TCACCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCACATCGGCCAT
* * *
53741737 TAGGCCTCATCACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATA
131 TAGGCCTCATCACATATATATACATTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATA
* *
53741802 TACATATACTTTCGCATTCA-C-C-A-CA-TCGG-C-C-T-A-
196 TACATACACTTTCGCATTCACCACGACCATTAGGCCTCATCAC
* * * *
53741835 AT-TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCAT
1 ATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACAT
*
53741899 TCACCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGGCCAT
66 TCACCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCACATCGGCCAT
*
53741964 TAGGCCTCATCACATATATATACATTTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATA
131 TAGGCCTCATCACATATATATACATTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATA
*
53742029 TACATACATTTTCGCATTCATCGCATCGACCATTAGGCCTCATCAC
196 TACATACACTTTCGCATTCA-C-CA-CGACCATTAGGCCTCATCAC
*
53742075 ATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCAC
1 ATATATAC--TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
* * * *
53742140 ATTCATCACATCGACCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCGACC
64 ATTCACCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCACATCGGCC
53742205 ATTAGGCCTCATCACATATATATACATTTTC
129 ATTAGGCCTCATCACATATATATACATTTTC
53742236 ACGAATCTTG
Statistics
Matches: 358, Mismatches: 27, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
227 196 0.55
228 2 0.01
230 1 0.00
232 1 0.00
233 1 0.00
234 2 0.01
235 3 0.01
236 1 0.00
237 1 0.00
238 1 0.00
239 1 0.00
240 2 0.01
241 5 0.01
243 141 0.39
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (238 bp):
ATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACAT
TCACCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCACATCGGCCAT
TAGGCCTCATCACATATATATACATTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATA
TACATACACTTTCGCATTCACCACGACCATTAGGCCTCATCAC
Found at i:53742147 original size:27 final size:27
Alignment explanation
Indices: 53742117--53742199 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
53742107 ATTAGGCCTT
53742117 ATCACATATACATACATTTTCACATTC
1 ATCACATATACATACATTTTCACATTC
** **
53742144 ATCACATCGAC---CATTAGGC-C-TT-
1 ATCACATATACATACATT-TTCACATTC
53742166 ATCACATATACATACATTTTCACATTC
1 ATCACATATACATACATTTTCACATTC
53742193 ATCACAT
1 ATCACAT
53742200 CGACCATTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 14
0.65 0.13 0.22
Matches are distributed among these distances:
22 9 0.22
23 2 0.05
24 6 0.15
25 6 0.15
26 2 0.05
27 16 0.39
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.34
Consensus pattern (27 bp):
ATCACATATACATACATTTTCACATTC
Found at i:53742158 original size:145 final size:145
Alignment explanation
Indices: 53741842--53742237 Score: 630
Period size: 145 Copynumber: 2.7 Consensus size: 145
53741832 CTAATTATAC
* * * *
53741842 TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACA
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCACA
* * * *
53741907 TCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTC
66 TCGACCATTAGGCCTCATCACATAT--ATACATTTTCACATTCATCACATCGGCCATTAGGCCTC
*
53741972 ATCACATATATATACAT
129 ATCACATATACATACAT
*
53741989 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCA
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCACA
*
53742054 TCGACCATTAGGCCTCATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTAT
66 TCGACCATTAGGCCTCATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCAT
53742119 CACATATACATACAT
131 CACATATACATACAT
* * *
53742134 TTTCACATTCATCACATCGACCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACA
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCACA
53742199 TCGACCATTAGGCCTCATCACATATATATACATTTTCAC
66 TCGACCATTAGGCCTCATCAC--ATATATACATTTTCAC
53742238 GAATCTTGAT
Statistics
Matches: 232, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
145 133 0.57
147 99 0.43
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (145 bp):
TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCACA
TCGACCATTAGGCCTCATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCAT
CACATATACATACAT
Found at i:53742237 original size:98 final size:98
Alignment explanation
Indices: 53741842--53742235 Score: 621
Period size: 98 Copynumber: 4.0 Consensus size: 98
53741832 CTAATTATAC
* * * * * * *
53741842 TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACA
1 TTTCGCATTCATCACATCGACCATTAGGCCTCATCACATATACATACATTTTCACATTCATCACA
53741907 TCGGCCATTAGGCCTTATCACATATACATACAT
66 TCGGCCATTAGGCCTTATCACATATACATACAT
* * * *
53741940 TTTCGCATTCATCGCATCGGCCATTAGGCCTCATCACATATATATACATTTTCGCATTCATCACA
1 TTTCGCATTCATCACATCGACCATTAGGCCTCATCACATATACATACATTTTCACATTCATCACA
53742005 TCGGCCATTAGGCCTTATCACATATACATACAT
66 TCGGCCATTAGGCCTTATCACATATACATACAT
*
53742038 TTTCGCATTCATCGCATCGACCATTAGGCCTCATCACATAT--ATACATTTTCACATTCATCACA
1 TTTCGCATTCATCACATCGACCATTAGGCCTCATCACATATACATACATTTTCACATTCATCACA
53742101 TCGGCCATTAGGCCTTATCACATATACATACAT
66 TCGGCCATTAGGCCTTATCACATATACATACAT
* *
53742134 TTTCACATTCATCACATCGACCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACA
1 TTTCGCATTCATCACATCGACCATTAGGCCTCATCACATATACATACATTTTCACATTCATCACA
* * *
53742199 TCGACCATTAGGCCTCATCACATATATATACAT
66 TCGGCCATTAGGCCTTATCACATATACATACAT
53742232 TTTC
1 TTTC
53742236 ACGAATCTTG
Statistics
Matches: 279, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
96 92 0.33
98 187 0.67
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (98 bp):
TTTCGCATTCATCACATCGACCATTAGGCCTCATCACATATACATACATTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATACATACAT
Found at i:53745190 original size:21 final size:21
Alignment explanation
Indices: 53745166--53745215 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
53745156 CATTGTTTCT
*
53745166 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
53745187 AATCTCACCGCTATAGTAACT
1 AATCTCACCGCTACAGTAACC
53745208 AATCTCAC
1 AATCTCAC
53745216 AGCCACCGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.34, G:0.08, T:0.26
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:53746914 original size:21 final size:22
Alignment explanation
Indices: 53746855--53746918 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
53746845 CATAAGCAGT
* * *
53746855 ATACGACACATAAAATGTCTGA
1 ATACGACACATATAGTGCCTGA
** *
53746877 A-ACGACACACGTGGTGCCT-A
1 ATACGACACATATAGTGCCTGA
53746897 ATACGACACATATAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
53746919 TGACAAAGCT
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTGA
Found at i:53747423 original size:17 final size:18
Alignment explanation
Indices: 53747401--53747435 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
53747391 TAATCCTAAT
*
53747401 TAACTC-ATTTACTTTTC
1 TAACTCAATTCACTTTTC
53747418 TAACTCAATTCACTTTTC
1 TAACTCAATTCACTTTTC
53747436 ATTTCTACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (18 bp):
TAACTCAATTCACTTTTC
Found at i:53748175 original size:3 final size:3
Alignment explanation
Indices: 53748155--53748257 Score: 120
Period size: 3 Copynumber: 34.3 Consensus size: 3
53748145 AATTTATTCC
* * * *
53748155 ATA AT- ATA ATA ATT ATA ATA ATT ATA ATA ATT ATA ATA ATT ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
53748202 ATA ATA ATA ATA ATA ATA ATA AT- ATAA ACA ATA ATA ATTA ATA ATT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA A-TA ATA ATA
53748248 ATA ATA ATA A
1 ATA ATA ATA A
53748258 ATATCTATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
2 4 0.05
3 76 0.90
4 4 0.05
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:53748182 original size:18 final size:18
Alignment explanation
Indices: 53748155--53748257 Score: 133
Period size: 18 Copynumber: 5.9 Consensus size: 18
53748145 AATTTATTCC
*
53748155 ATAA-TATAATAATTATA
1 ATAATTATAATAATAATA
*
53748172 ATAATTATAATAATTATA
1 ATAATTATAATAATAATA
53748190 ATAATTATAATAATAATA
1 ATAATTATAATAATAATA
*
53748208 ATAATAATAATAATAAT-
1 ATAATTATAATAATAATA
*
53748225 ATAA--ACAATAATAATTA
1 ATAATTATAATAATAA-TA
53748242 ATAATTATAATAATAA
1 ATAATTATAATAATAA
53748258 ATATCTATTT
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.12
16 1 0.01
17 12 0.16
18 46 0.60
19 9 0.12
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATTATAATAATAATA
Found at i:53754163 original size:26 final size:26
Alignment explanation
Indices: 53754134--53754241 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
53754124 TGGTACAAAT
53754134 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
53754160 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53754186 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
53754212 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53754238 TGAT
1 TGAT
53754242 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:53761907 original size:29 final size:29
Alignment explanation
Indices: 53761873--53761977 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
53761863 TACTCGATTT
* * *
53761873 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
53761902 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
53761931 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
53761960 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
53761978 TATTTCCAGC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:53761978 original size:29 final size:29
Alignment explanation
Indices: 53761932--53762002 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
53761922 CTTCGAGCTC
53761932 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
53761961 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
53761990 GCACACTTAGTGC
1 GCACACTTAGTGC
53762003 TAATCTCGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:53769675 original size:29 final size:29
Alignment explanation
Indices: 53769641--53769745 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
53769631 TACTCGATTT
* * *
53769641 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
53769670 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
53769699 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
53769728 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
53769746 TATTTCCAGC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:53769746 original size:29 final size:29
Alignment explanation
Indices: 53769700--53769770 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
53769690 CTTCGAGCTC
53769700 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
53769729 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
53769758 GCACACTTAGTGC
1 GCACACTTAGTGC
53769771 TAATCTCGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:53772454 original size:26 final size:26
Alignment explanation
Indices: 53772414--53772521 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
53772404 TGGTACAAAT
*
53772414 TGATAATGGGTTAGGTGAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
53772440 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53772466 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
53772492 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53772518 TGAT
1 TGAT
53772522 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:53774552 original size:137 final size:137
Alignment explanation
Indices: 53774306--53774592 Score: 540
Period size: 137 Copynumber: 2.1 Consensus size: 137
53774296 GAGTAGTCTC
53774306 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
53774371 TGTTATCTGAATAAGGGGCTAAGGCCCGATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCGATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
53774436 ACTGTTA
131 ACTGTTA
53774443 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
53774508 TGTTATCTGAATAAGGGGCTAAGGCCC-AGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTAC
66 TGTTATCTGAATAAGGGGCTAAGGCCCGA-TTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTAC
53774572 CACTGTTA
130 CACTGTTA
**
53774580 CCTGAATGGGCTT
1 CCCAAATGGGCTT
53774593 AGGCCCAATA
Statistics
Matches: 147, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
136 1 0.01
137 146 0.99
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCGATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:53776012 original size:22 final size:22
Alignment explanation
Indices: 53775987--53776033 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
53775977 CTAAGACTGA
* *
53775987 TCGTGTTGGCTTCCTCCCATTC
1 TCGTGGTGGCTTCCTCCAATTC
53776009 TCGTGGTGGCTTCCTCCAATTC
1 TCGTGGTGGCTTCCTCCAATTC
53776031 TCG
1 TCG
53776034 CGATTGCTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.06, C:0.34, G:0.21, T:0.38
Consensus pattern (22 bp):
TCGTGGTGGCTTCCTCCAATTC
Found at i:53777950 original size:13 final size:13
Alignment explanation
Indices: 53777934--53777959 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53777924 ACTTTAAGCA
53777934 AACAAATGGTTTT
1 AACAAATGGTTTT
53777947 AACAAATGGTTTT
1 AACAAATGGTTTT
53777960 TGGAAACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:53784429 original size:27 final size:27
Alignment explanation
Indices: 53784346--53784449 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 27
53784336 AAGTCTGTTA
* * *
53784346 AGACAATAAACACGGGGTAGTCCA-CT
1 AGACAGTAAACACGAGGTAGTCCATCG
* *
53784372 AGGACAGTAAACATGAGGTAGTCCATTG
1 A-GACAGTAAACACGAGGTAGTCCATCG
* *
53784400 AGATAGCT-AACACGAGGTAGTCTATCG
1 AGACAG-TAAACACGAGGTAGTCCATCG
*
53784427 AGACAGTAAACACGGGGTAGTCC
1 AGACAGTAAACACGAGGTAGTCC
53784450 GCCAAGACAG
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
26 2 0.03
27 58 0.94
28 2 0.03
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (27 bp):
AGACAGTAAACACGAGGTAGTCCATCG
Found at i:53784457 original size:27 final size:27
Alignment explanation
Indices: 53784345--53784482 Score: 89
Period size: 27 Copynumber: 5.1 Consensus size: 27
53784335 AAAGTCTGTT
* * *
53784345 AAGACAATAAACACGGGGTAGTCCACT
1 AAGACAGTAAACACGAGGTAGTCCACC
* * **
53784372 AGGACAGTAAACATGAGGTAGTCCATT
1 AAGACAGTAAACACGAGGTAGTCCACC
* * * *
53784399 GAGATAGCT-AACACGAGGTAGTCTATC
1 AAGACAG-TAAACACGAGGTAGTCCACC
* * *
53784426 GAGACAGTAAACACGGGGTAGTCCGCC
1 AAGACAGTAAACACGAGGTAGTCCACC
* * * **
53784453 AAGACAGAAAACTCAAGAAAGTCCACC
1 AAGACAGTAAACACGAGGTAGTCCACC
53784480 AAG
1 AAG
53784483 GTGTAAAACA
Statistics
Matches: 85, Mismatches: 24, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
26 1 0.01
27 83 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.15
Consensus pattern (27 bp):
AAGACAGTAAACACGAGGTAGTCCACC
Found at i:53788460 original size:30 final size:30
Alignment explanation
Indices: 53788402--53788461 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
53788392 TTCCCGAGCC
* *
53788402 TAGGGGCAAAAGTGTAATTATGTAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* * *
53788432 TAGGGGTAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
53788462 CATATTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:53795997 original size:30 final size:30
Alignment explanation
Indices: 53795942--53795998 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
53795932 CTGAGCCTAA
* *
53795942 GGGCAAAAGTGTAATTATGTAAAAGTTTAG
1 GGGCAAAAATGTAATTATGCAAAAGTTTAG
* *
53795972 GGGCAAAAATGTAATTTTGCCAAAGTT
1 GGGCAAAAATGTAATTATGCAAAAGTT
53795999 CATATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
GGGCAAAAATGTAATTATGCAAAAGTTTAG
Found at i:53803165 original size:43 final size:43
Alignment explanation
Indices: 53803116--53803202 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
53803106 CCTAATCATT
* * *
53803116 ACAATTAGGGACTCAAATCTAATCTGGGCCCAACCTTTTGTGA
1 ACAATTACGGACTCAAATCTAACCCGGGCCCAACCTTTTGTGA
*
53803159 ACAATTACGGACTCGAATCTAACCCGGGCCCAACCTTTTGTGA
1 ACAATTACGGACTCAAATCTAACCCGGGCCCAACCTTTTGTGA
53803202 A
1 A
53803203 GAATATGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ACAATTACGGACTCAAATCTAACCCGGGCCCAACCTTTTGTGA
Found at i:53805384 original size:39 final size:39
Alignment explanation
Indices: 53805336--53805415 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
53805326 GTTTTCATTA
53805336 TGAACGTTGCATGCATCTACCAGTGGATTGTTTGTTTTC
1 TGAACGTTGCATGCATCTACCAGTGGATTGTTTGTTTTC
*
53805375 TGAACGTTGCATGCATCTACCAGTTGATTGTTTGTTTTC
1 TGAACGTTGCATGCATCTACCAGTGGATTGTTTGTTTTC
53805414 TG
1 TG
53805416 TCTTTCTTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.42
Consensus pattern (39 bp):
TGAACGTTGCATGCATCTACCAGTGGATTGTTTGTTTTC
Found at i:53815594 original size:15 final size:16
Alignment explanation
Indices: 53815566--53815596 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
53815556 TAACATGTAT
53815566 TATATTTCTAAAAATA
1 TATATTTCTAAAAATA
53815582 TATATTT-TAAAAATA
1 TATATTTCTAAAAATA
53815597 AAATACTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TATATTTCTAAAAATA
Found at i:53817062 original size:21 final size:24
Alignment explanation
Indices: 53817015--53817062 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
53817005 CATTCAAGAT
* *
53817015 AAAATAATATTATAAAACTCTTTA
1 AAAATAATATTATAAAACTATTCA
53817039 AAAATAATA-TAT-AAAC-ATTCA
1 AAAATAATATTATAAAACTATTCA
53817060 AAA
1 AAA
53817063 TATATAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 6 0.27
22 4 0.18
23 3 0.14
24 9 0.41
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAATAATATTATAAAACTATTCA
Found at i:53817312 original size:23 final size:23
Alignment explanation
Indices: 53817246--53817312 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 23
53817236 TATAAGAAAA
*
53817246 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
*
53817266 AGTATATAAACAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
53817289 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
53817312 A
1 A
53817313 GTAGAAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
20 1 0.03
21 14 0.38
22 6 0.16
23 9 0.24
24 6 0.16
25 1 0.03
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.28
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:53817319 original size:17 final size:15
Alignment explanation
Indices: 53817279--53817324 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
53817269 ATATAAACAG
*
53817279 AAATAAAAATATAAT
1 AAATAGAAATATAAT
53817294 AAATAGAAATATAAT
1 AAATAGAAATATAAT
53817309 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
53817325 ATGGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:53820303 original size:19 final size:20
Alignment explanation
Indices: 53820275--53820313 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
53820265 GTTTATTTTC
53820275 TTTAAATTAA-GAATTATTT
1 TTTAAATTAATGAATTATTT
* *
53820294 TTTAATTTAATGTATTATTT
1 TTTAAATTAATGAATTATTT
53820314 ATTTGTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTAAATTAATGAATTATTT
Found at i:53822553 original size:26 final size:26
Alignment explanation
Indices: 53822524--53822631 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
53822514 TGGTACAAAT
*
53822524 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
53822550 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53822576 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
53822602 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53822628 TGAT
1 TGAT
53822632 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:53823750 original size:36 final size:36
Alignment explanation
Indices: 53823710--53823782 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
53823700 GATTAACGTG
53823710 TTAGTAATTCAATTGTAGGCGGTTCATGTGTGGATC
1 TTAGTAATTCAATTGTAGGCGGTTCATGTGTGGATC
53823746 TTAGTAATTCAATTGTAGGCGGTTCATGTGTGGATC
1 TTAGTAATTCAATTGTAGGCGGTTCATGTGTGGATC
53823782 T
1 T
53823783 CTTTAGCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.40
Consensus pattern (36 bp):
TTAGTAATTCAATTGTAGGCGGTTCATGTGTGGATC
Found at i:53830762 original size:81 final size:81
Alignment explanation
Indices: 53830661--53830814 Score: 256
Period size: 81 Copynumber: 1.9 Consensus size: 81
53830651 ACTTGCAGCA
* *
53830661 TCAACCTCACCATCTTTACTGCCATCAACATCAACACCCTCCCTATTTAAACCTTCAACACCCTC
1 TCAACCTCACCATCTTTACTGCCAACAACATCAACACCCTCCCCATTTAAACCTTCAACACCCTC
53830726 ACCACCTTCATCAATT
66 ACCACCTTCATCAATT
* *
53830742 TCAACCTCACCA-CTTTTACTGCCAACAACCTCAACACCCTCCCCATTTAAACCTTCACCACCCT
1 TCAACCTCACCATC-TTTACTGCCAACAACATCAACACCCTCCCCATTTAAACCTTCAACACCCT
53830806 CACCACCTT
65 CACCACCTT
53830815 GATTACCATC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
80 1 0.01
81 67 0.99
ACGTcount: A:0.29, C:0.45, G:0.01, T:0.25
Consensus pattern (81 bp):
TCAACCTCACCATCTTTACTGCCAACAACATCAACACCCTCCCCATTTAAACCTTCAACACCCTC
ACCACCTTCATCAATT
Found at i:53834758 original size:19 final size:19
Alignment explanation
Indices: 53834734--53834771 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
53834724 CAAAAAGTAT
53834734 AATGAAACATGTAGATTTG
1 AATGAAACATGTAGATTTG
53834753 AATGAAACATGTAGATTTG
1 AATGAAACATGTAGATTTG
53834772 TCAAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (19 bp):
AATGAAACATGTAGATTTG
Found at i:53835773 original size:21 final size:22
Alignment explanation
Indices: 53835740--53835783 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
53835730 AATTAAAATG
*
53835740 CATTATTTTATATAA-TTCATA
1 CATTATTTCATATAATTTCATA
*
53835761 CATTGTTTCATATAATTTCATA
1 CATTATTTCATATAATTTCATA
53835783 C
1 C
53835784 TATTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.34, C:0.14, G:0.02, T:0.50
Consensus pattern (22 bp):
CATTATTTCATATAATTTCATA
Found at i:53837983 original size:17 final size:17
Alignment explanation
Indices: 53837961--53837993 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53837951 ATATACAATA
53837961 TATTCACAATTTACTTG
1 TATTCACAATTTACTTG
*
53837978 TATTCACACTTTACTT
1 TATTCACAATTTACTT
53837994 CTTAACAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.21, G:0.03, T:0.48
Consensus pattern (17 bp):
TATTCACAATTTACTTG
Found at i:53838109 original size:13 final size:14
Alignment explanation
Indices: 53838093--53838128 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
53838083 CAATCTCATA
53838093 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
53838106 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
53838119 TCTC-ATTTCA
1 TCTCAATTTCA
53838129 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:53838118 original size:18 final size:19
Alignment explanation
Indices: 53838080--53838120 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
53838070 TGGTTCATGT
53838080 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
53838099 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
53838117 TTTC
1 TTTC
53838121 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:53838342 original size:23 final size:23
Alignment explanation
Indices: 53838282--53838346 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
53838272 CTGATCAGAG
53838282 TACGACACATAAAGTGCCT-AAA
1 TACGACACATAAAGTGCCTGAAA
** *
53838304 -ACGACACACGAGGTGCCTGAAA
1 TACGACACATAAAGTGCCTGAAA
53838326 TACGACACATAAAGTGCCTGA
1 TACGACACATAAAGTGCCTGA
53838347 TCGATAAAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
21 15 0.43
22 3 0.09
23 17 0.49
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (23 bp):
TACGACACATAAAGTGCCTGAAA
Found at i:53838748 original size:15 final size:15
Alignment explanation
Indices: 53838724--53838761 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
53838714 ATATATATAT
*
53838724 TATAATTTCAATCAA
1 TATAAATTCAATCAA
53838739 TATAAATTCAATCAA
1 TATAAATTCAATCAA
53838754 TATAAATT
1 TATAAATT
53838762 TGATAAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:53839529 original size:15 final size:15
Alignment explanation
Indices: 53839509--53839537 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
53839499 TTCGTTTCCA
53839509 CATTCTGTTTCTTTT
1 CATTCTGTTTCTTTT
53839524 CATTCTGTTTCTTT
1 CATTCTGTTTCTTT
53839538 CCTTTATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.07, T:0.66
Consensus pattern (15 bp):
CATTCTGTTTCTTTT
Found at i:53842491 original size:55 final size:54
Alignment explanation
Indices: 53842430--53842546 Score: 148
Period size: 55 Copynumber: 2.1 Consensus size: 54
53842420 GTGGCTTGGG
*
53842430 ACACGCC-TATGCCCTTAGC-CTGTGTGCAACACTAACTTTAAAACACGGCCATGAC
1 ACACGCCGTATGCCC-T-GCTC-GTGTACAACACTAACTTTAAAACACGGCCATGAC
* * *
53842485 ACACGCCCGTGTGGCCTGCTCGTGTACAACACTGACTTTAAAACACGGCCATGAC
1 ACACG-CCGTATGCCCTGCTCGTGTACAACACTAACTTTAAAACACGGCCATGAC
53842540 ACACGCC
1 ACACGCC
53842547 CGTGTGGCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 2 0.04
55 44 0.80
56 4 0.07
57 5 0.09
ACGTcount: A:0.27, C:0.34, G:0.19, T:0.20
Consensus pattern (54 bp):
ACACGCCGTATGCCCTGCTCGTGTACAACACTAACTTTAAAACACGGCCATGAC
Found at i:53842547 original size:55 final size:55
Alignment explanation
Indices: 53842451--53842582 Score: 196
Period size: 55 Copynumber: 2.4 Consensus size: 55
53842441 CCCTTAGCCT
* * * *
53842451 GTGTGCAACACTAACTTTAAAACACGGCCATGACACACGCCCGTGTGGCCTGCTC
1 GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGGCCTACCC
53842506 GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGGCCTACCC
1 GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGGCCTACCC
*
53842561 GTGTACTAA-ATTGAC-TTAAAAC
1 GTGTAC-AACACTGACTTTAAAAC
53842583 TTTAAGTGCA
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
54 7 0.10
55 62 0.87
56 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGGCCTACCC
Found at i:53843220 original size:29 final size:29
Alignment explanation
Indices: 53843178--53843233 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
53843168 AAATTCACAT
* *
53843178 CTTTGGTAAATGACCATGTTGCCCCTAGA
1 CTTTGGCAAATGACCATGTTACCCCTAGA
*
53843207 CTTTGGCAAATGACCATTTTACCCCTA
1 CTTTGGCAAATGACCATGTTACCCCTA
53843234 TGCTCAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (29 bp):
CTTTGGCAAATGACCATGTTACCCCTAGA
Found at i:53844298 original size:31 final size:29
Alignment explanation
Indices: 53844263--53844324 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 29
53844253 TGTGAAGTGT
*
53844263 AAGACCATAGC-AGAGTTATGGCATAGTGTGA
1 AAGACCATAACTAG-GTTATGGCAT--TGTGA
53844294 AAGACCATAACTAGGTTATGGCATTGTGA
1 AAGACCATAACTAGGTTATGGCATTGTGA
53844323 AA
1 AA
53844325 TTGAACGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 7 0.24
31 20 0.69
32 2 0.07
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (29 bp):
AAGACCATAACTAGGTTATGGCATTGTGA
Found at i:53849370 original size:27 final size:25
Alignment explanation
Indices: 53849291--53849388 Score: 133
Period size: 25 Copynumber: 3.8 Consensus size: 25
53849281 CCTCTTTAAT
* **
53849291 AACTGGGGCAAAGCTCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATA
53849316 AACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCAATA
*
53849341 AACTGGGGCAAAAGCCCTTTTTTAATA
1 AACTGGGGC-AAAGCCC-TTTTCAATA
53849368 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
53849389 GTACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
25 31 0.47
26 12 0.18
27 23 0.35
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCAATA
Found at i:53849850 original size:21 final size:20
Alignment explanation
Indices: 53849816--53849855 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
53849806 TGGGCCCGAA
53849816 AGCCCATTGGGCCCAACTTC
1 AGCCCATTGGGCCCAACTTC
*
53849836 AGCCCCTTGAGGCCCAACTT
1 AGCCCATTG-GGCCCAACTT
53849856 GCCGTAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (20 bp):
AGCCCATTGGGCCCAACTTC
Found at i:53853502 original size:59 final size:58
Alignment explanation
Indices: 53853324--53853515 Score: 231
Period size: 58 Copynumber: 3.3 Consensus size: 58
53853314 TAAACTTGCA
* ** **
53853324 AAAATTTTGAAAGATAATCTGTTAGGGATGTGAACCTGCGGGCTATTTTATACTTACG
1 AAAATTTTGAAAGATAATCAGTTAGGGATGTGAATTTGCAAGCTATTTTATACTTACG
* * * * *
53853382 AAAATCTTGAAAGATAATCAGCTAGGGATGTGAATTCGCAAGCTATTTCATACTTAAG
1 AAAATTTTGAAAGATAATCAGTTAGGGATGTGAATTTGCAAGCTATTTTATACTTACG
* * * * * *
53853440 AAAATTTTGAAAGGTAATACAGTTGGGGATGTTAATTTGTAAGCTATTTTAGACTTGCG
1 AAAATTTTGAAAGATAAT-CAGTTAGGGATGTGAATTTGCAAGCTATTTTATACTTACG
53853499 AAAATTTTGAAAGATAA
1 AAAATTTTGAAAGATAA
53853516 ACAGGTGAGA
Statistics
Matches: 111, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
58 64 0.58
59 47 0.42
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (58 bp):
AAAATTTTGAAAGATAATCAGTTAGGGATGTGAATTTGCAAGCTATTTTATACTTACG
Found at i:53853758 original size:69 final size:68
Alignment explanation
Indices: 53853534--53853773 Score: 209
Period size: 69 Copynumber: 3.5 Consensus size: 68
53853524 GAGTTTTCAA
* * * * * *
53853534 CTCTCACTAACTATGTTGGAAGCTGCAGCTC-TCAGTTGGTAAGCTTTAGTATGATAGTTAGGAG
1 CTCTCACTAACTGTGTTGGAAGCTGCAGCTCTTCA-TTGGCAAGCCTTAGTATGAAACTGA-GAG
*
53853598 CTTTA
64 CTTTG
* * * * * * * *
53853603 CTCTTATTAACTGTGTTGGATGCTG-AGGCTCTTTGC-CT-ACAAGCCTTAATATAAAACTGGGA
1 CTCTCACTAACTGTGTTGGAAGCTGCA-GCTC-TT-CATTGGCAAGCCTTAGTATGAAACTGAGA
53853665 GCTTTG
63 GCTTTG
** * *
53853671 CTCTTGCTAATTGTGTTGGAAGCTGCGGCTCTTCATTGGCAAGCCTTAGTATGACAACTGAGAGC
1 CTCTCACTAACTGTGTTGGAAGCTGCAGCTCTTCATTGGCAAGCCTTAGTATGA-AACTGAGAGC
53853736 TTTG
65 TTTG
* *
53853740 CTCTCACTAACTGTGTTGGAGGCTGTAGCTCTTC
1 CTCTCACTAACTGTGTTGGAAGCTGCAGCTCTTC
53853774 GCCTGTAAAC
Statistics
Matches: 132, Mismatches: 31, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
66 1 0.01
67 3 0.02
68 46 0.35
69 79 0.60
70 1 0.01
71 1 0.01
72 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (68 bp):
CTCTCACTAACTGTGTTGGAAGCTGCAGCTCTTCATTGGCAAGCCTTAGTATGAAACTGAGAGCT
TTG
Found at i:53853787 original size:69 final size:69
Alignment explanation
Indices: 53853595--53854392 Score: 415
Period size: 69 Copynumber: 11.7 Consensus size: 69
53853585 TGATAGTTAG
* * * * * * *
53853595 GAGCTTTACTCTTATTAACTGTGTTGGATGCTG-AGGCTCTTTGCCTACAAGCCTTAATAT-AAA
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCA-GCTCTTCGCCTGCAAGCCTTAATATGACA
*
53853658 ACTGG
65 ACTGA
** * * * ** *
53853663 GAGCTTTGCTCTTGCTAATTGTGTTGGAAGCTGCGGCTCTTC-ATTGGCAAGCCTTAGTATGACA
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCAGCTCTTCGCCT-GCAAGCCTTAATATGACA
53853727 ACTGA
65 ACTGA
* * * *
53853732 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGTAGCTCTTCGCCTGTAAACCTTAATATGACAG
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCAGCTCTTCGCCTGCAAGCCTTAATATGACAA
* *
53853797 TTTA
66 CTGA
** * * * ** * *
53853801 GAGCTTTAATCTCGCTAATTGTGTTGGAGGTTGCAGCTCTTTACCTACAAGCCTTAATATGAAAA
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCAGCTCTTCGCCTGCAAGCCTTAATATGACAA
53853866 CT-A
66 CTGA
* * * *** ** * * ** * *
53853869 GAAG-TCTTACTCTTACTAACTATGTTGGAAATTGTGGCTCTTCACCGGTGAGCATTAGTATGAC
1 G-AGCT-TTGCTCTCACTAACTGTGTTGGAGGCTGCAGCTCTTCGCCTGCAAGCCTTAATATGAC
** *
53853933 AGTTGG
64 AACTGA
* * * * * * * *
53853939 GAGATTTG------CTAACTGTGTTGGATGCTGC-GACTTTTCGCGTACAAGCATTAATTTAACA
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCAG-CTCTTCGCCTGCAAGCCTTAATATGACA
*
53853997 GCT-A
65 ACTGA
** ** * *
53854001 GGATTTTTTG-TCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTACAAGCCTTAATATGAT
1 -GA-GCTTTGCTCTCACTAACTGTGTTGGAGGCTGCAGCTCTTCGCCTGCAAGCCTTAATATGAC
*
53854065 AGCTGA
64 AACTGA
* * * * * * * * *** * *
53854071 AAGCTTTGGTTTCATTAATTGTGTTGGAGGATACAACTCTTCGCCTTTGAGCCTTATTATAACAA
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCAGCTCTTCGCCTGCAAGCCTTAATATGACAA
*
53854136 TTTGA
66 -CTGA
* ** * * * *
53854141 -AGCTTTTCTCTCGGTAACTGTGTTGGAGGTTGCGGCCCTTCACCTGCAAGCCTTAATATGACAA
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCAGCTCTTCGCCTGCAAGCCTTAATATGACAA
53854205 CTGA
66 CTGA
* * * * * * *
53854209 AAGCTTTACTCTCACTGACTGTGTTGGAGGTTGCAAC-CTTCACCTGCAAGCCTTAATAAGACAA
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCAGCTCTTCGCCTGCAAGCCTTAATATGACAA
*
53854273 CTGG
66 CTGA
* * * * * * **
53854277 GAACTTTGCTCTCGCTAACTATGTTGGAGGATG-TGACTCTTCGCTTGTGAGCCTTAATATGACA
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCAG-CTCTTCGCCTGCAAGCCTTAATATGACA
* *
53854341 GCTAA
65 ACTGA
* * * * * *
53854346 GAGCTTTGCTTTCGCCAGCTATGTTGGAGGCTGCAGCTCTTTGCCTG
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCAGCTCTTCGCCTG
53854393 AAAATCTTAA
Statistics
Matches: 547, Mismatches: 159, Indels: 47
0.73 0.21 0.06
Matches are distributed among these distances:
62 1 0.00
63 37 0.07
64 4 0.01
67 1 0.00
68 112 0.20
69 383 0.70
70 9 0.02
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (69 bp):
GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCAGCTCTTCGCCTGCAAGCCTTAATATGACAA
CTGA
Found at i:53853862 original size:138 final size:138
Alignment explanation
Indices: 53853595--53854352 Score: 464
Period size: 138 Copynumber: 5.6 Consensus size: 138
53853585 TGATAGTTAG
* * * * * * ** * *
53853595 GAGCTTTACTCTTATTAACTGTGTTGGATGCTGAGGCTCTTTGCCTACAAGCCTTAATAT-AAAA
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTGTAAGCCTTAATATGACAG
* ** ** * * * ** * * *
53853659 CTGGGAGCTTTGCTCTTGCTAATTGTGTTGGAAGCTGCGGCTCTTCA-TTGGCAAGCCTTAGTAT
66 CTGAGAGCTTTAATCTCACTAACTGTGTTGGAGGTTGCAACTCTTCACCT-ACAAGCCTTAATAT
53853723 GACAACTGA
130 GACAACTGA
* *
53853732 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGTAGCTCTTCGCCTGTAAACCTTAATATGACAG
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTGTAAGCCTTAATATGACAG
* * * * * *
53853797 TTTAGAGCTTTAATCTCGCTAATTGTGTTGGAGGTTGCAGCTCTTTACCTACAAGCCTTAATATG
66 CTGAGAGCTTTAATCTCACTAACTGTGTTGGAGGTTGCAACTCTTCACCTACAAGCCTTAATATG
*
53853862 AAAACT-A
131 ACAACTGA
* * * *** * * * * *
53853869 GAAG-TCTTACTCTTACTAACTATGTTGGAAATTGTGGCTCTTCACCGGTGAGCATTAGTATGAC
1 G-AGCT-TTGCTCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTGTAAGCCTTAATATGAC
* * ** * * * * * * * *
53853933 AGTTGGGAG-----AT-TTGCTAACTGTGTTGGATGCTGCGACTTTTCGCGTACAAGCATTAATT
64 AGCTGAGAGCTTTAATCTCACTAACTGTGTTGGAGGTTGCAACTCTTCACCTACAAGCCTTAATA
* *
53853992 TAACAGCT-A
129 TGACAACTGA
** ** *
53854001 GGATTTTTTG-TCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTACAAGCCTTAATATGAT
1 -GA-GCTTTGCTCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTGTAAGCCTTAATATGAC
* ** * * * * * * *** *
53854065 AGCTGAAAGCTTTGGTTTCATTAATTGTGTTGGAGGATACAACTCTTCGCCTTTGAGCCTTATTA
64 AGCTGAGAGCTTTAATCTCACTAACTGTGTTGGAGGTTGCAACTCTTCACCTACAAGCCTTAATA
* *
53854130 TAACAATTTGA
129 TGACAA-CTGA
* ** * * * * * *
53854141 -AGCTTTTCTCTCGGTAACTGTGTTGGAGGTTGCGGCCCTTCACCTGCAAGCCTTAATATGACAA
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTGTAAGCCTTAATATGACAG
* * * * *
53854205 CTGAAAGCTTTACTCTCACTGACTGTGTTGGAGGTTGCAAC-CTTCACCTGCAAGCCTTAATAAG
66 CTGAGAGCTTTAATCTCACTAACTGTGTTGGAGGTTGCAACTCTTCACCTACAAGCCTTAATATG
*
53854269 ACAACTGG
131 ACAACTGA
* * * * * * *
53854277 GAACTTTGCTCTCGCTAACTATGTTGGAGGATGTGACTCTTCGCTTGTGAGCCTTAATATGACAG
1 GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTGTAAGCCTTAATATGACAG
*
53854342 CTAAGAGCTTT
66 CTGAGAGCTTT
53854353 GCTTTCGCCA
Statistics
Matches: 467, Mismatches: 137, Indels: 34
0.73 0.21 0.05
Matches are distributed among these distances:
132 90 0.19
133 5 0.01
134 1 0.00
136 2 0.00
137 137 0.29
138 229 0.49
139 2 0.00
140 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (138 bp):
GAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGTGGCTCTTCGCCTGTAAGCCTTAATATGACAG
CTGAGAGCTTTAATCTCACTAACTGTGTTGGAGGTTGCAACTCTTCACCTACAAGCCTTAATATG
ACAACTGA
Found at i:53854274 original size:68 final size:69
Alignment explanation
Indices: 53854155--53854306 Score: 209
Period size: 68 Copynumber: 2.2 Consensus size: 69
53854145 TTTCTCTCGG
** *
53854155 TAACTGTGTTGGAGGTTGCGGCCCTTCACCTGCAAGCCTTAATATGACAACT-GAAAGCTTTACT
1 TAACTGTGTTGGAGGTTGCGAACCTTCACCTGCAAGCCTTAATAAGACAACTGGAAA-CTTTACT
53854219 CTCAC
65 CTCAC
* * *
53854224 TGACTGTGTTGGAGGTTGC-AACCTTCACCTGCAAGCCTTAATAAGACAACTGGGAACTTTGCTC
1 TAACTGTGTTGGAGGTTGCGAACCTTCACCTGCAAGCCTTAATAAGACAACTGGAAACTTTACTC
*
53854288 TCGC
66 TCAC
*
53854292 TAACTATGTTGGAGG
1 TAACTGTGTTGGAGG
53854307 ATGTGACTCT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
68 52 0.71
69 21 0.29
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (69 bp):
TAACTGTGTTGGAGGTTGCGAACCTTCACCTGCAAGCCTTAATAAGACAACTGGAAACTTTACTC
TCAC
Found at i:53858623 original size:66 final size:68
Alignment explanation
Indices: 53858547--53858733 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
53858537 TAGTACCACT
*
53858547 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
53858609 CACG
65 CACG
53858613 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
53858678 ATCACG
63 ATCACG
53858684 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
53858734 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:53858658 original size:71 final size:71
Alignment explanation
Indices: 53858570--53858733 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
53858560 CGATTTGTCT
53858570 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
53858635 CTTTCA
66 CTTTCA
53858641 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
53858706 CTTTCA
66 CTTTCA
53858712 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
53858734 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:53858771 original size:71 final size:70
Alignment explanation
Indices: 53858570--53858767 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
53858560 CGATTTGTCT
* * *
53858570 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
53858635 CTTTCA
65 CTTTCA
* * *
53858641 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
53858706 CTTTCA
65 CTTTCA
* *
53858712 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
53858768 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:53862231 original size:48 final size:49
Alignment explanation
Indices: 53862160--53862273 Score: 117
Period size: 48 Copynumber: 2.4 Consensus size: 49
53862150 CATATCCCAG
** * **
53862160 ATATGGTCTTACA-TGAAATCACATACCGATGCTGATGCCATAT-CATAA
1 ATATGGTCTTACACTGGCATCACATACCAACACTGATGCCATATACA-AA
* * *
53862208 ATATGGTCTTACACTGGCA-CACATATCAACACTGATGCCATGTACAAG
1 ATATGGTCTTACACTGGCATCACATACCAACACTGATGCCATATACAAA
*
53862256 ACATGGTCTTACACTGGC
1 ATATGGTCTTACACTGGC
53862274 TCTCATCTCA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
48 50 0.91
49 5 0.09
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (49 bp):
ATATGGTCTTACACTGGCATCACATACCAACACTGATGCCATATACAAA
Found at i:53869978 original size:21 final size:21
Alignment explanation
Indices: 53869954--53869995 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
53869944 AATCTTCGGT
*
53869954 TCAGATACTTTAGTATCCAAC
1 TCAGATACTTTAGCATCCAAC
53869975 TCAGATACTTTAGCATCCAAC
1 TCAGATACTTTAGCATCCAAC
53869996 ACATATGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (21 bp):
TCAGATACTTTAGCATCCAAC
Found at i:53870374 original size:2 final size:2
Alignment explanation
Indices: 53870352--53870388 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
53870342 TTTTAATTAT
53870352 TA TA T- TA TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
53870389 AACTAAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.09
2 29 0.91
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:53871221 original size:36 final size:38
Alignment explanation
Indices: 53871153--53871244 Score: 111
Period size: 37 Copynumber: 2.5 Consensus size: 38
53871143 GTATGTGTGG
53871153 AATTGAATTGAATAT-TGACTTGAAAATGG-AAAAGTGA
1 AATTGAATTGAAT-TGTGACTTGAAAATGGAAAAAGTGA
* *
53871190 ATTTTGAATTGAATTGTGA-TTGAAAGT-GAAAAAGTGA
1 A-ATTGAATTGAATTGTGACTTGAAAATGGAAAAAGTGA
*
53871227 AATTGAATTGAAATGTGA
1 AATTGAATTGAATTGTGA
53871245 ATTTGAGGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
36 16 0.33
37 18 0.38
38 14 0.29
ACGTcount: A:0.43, C:0.01, G:0.23, T:0.33
Consensus pattern (38 bp):
AATTGAATTGAATTGTGACTTGAAAATGGAAAAAGTGA
Found at i:53873597 original size:40 final size:40
Alignment explanation
Indices: 53873525--53873600 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
53873515 CGGTACCTTG
*
53873525 TGGTGTGTAAGGTTAGATGGGTTGATTATATCCCCATGCT
1 TGGTGTGTAAGGTTAGATGGGTCGATTATATCCCCATGCT
* * * * *
53873565 TGGTGTGTAGGGTTGGGTGTGTCGATTCTATCCCCA
1 TGGTGTGTAAGGTTAGATGGGTCGATTATATCCCCA
53873601 CATGTTGTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.16, C:0.14, G:0.33, T:0.37
Consensus pattern (40 bp):
TGGTGTGTAAGGTTAGATGGGTCGATTATATCCCCATGCT
Found at i:53884326 original size:19 final size:19
Alignment explanation
Indices: 53884302--53884340 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
53884292 TAAAATTTTA
*
53884302 ATATTTTATTT-TATAGAAT
1 ATATTTT-TTTATATAAAAT
53884321 ATATTTTTTTATATAAAAT
1 ATATTTTTTTATATAAAAT
53884340 A
1 A
53884341 AAGTTCCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
ATATTTTTTTATATAAAAT
Found at i:53884330 original size:17 final size:17
Alignment explanation
Indices: 53884301--53884333 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
53884291 CTAAAATTTT
53884301 AATATTTTATTTTATAG
1 AATATTTTATTTTATAG
53884318 AATATATTT-TTTTATA
1 AATAT-TTTATTTTATA
53884334 TAAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AATATTTTATTTTATAG
Found at i:53895096 original size:32 final size:30
Alignment explanation
Indices: 53895041--53895099 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
53895031 AATTTTTTAA
*
53895041 ATAATATATTTTAATTTCAATAATTAACGT
1 ATAATATATTTTAATTTAAATAATTAACGT
*
53895071 ATAATGATATTTATTATTTAAATAATTAA
1 ATAAT-ATATTT-TAATTTAAATAATTAA
53895100 ATATAATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 5 0.20
31 6 0.24
32 14 0.56
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (30 bp):
ATAATATATTTTAATTTAAATAATTAACGT
Found at i:53895105 original size:31 final size:30
Alignment explanation
Indices: 53895041--53895106 Score: 80
Period size: 32 Copynumber: 2.2 Consensus size: 30
53895031 AATTTTTTAA
* *
53895041 ATAATATATTTTAATTTCAATAATTAACGT
1 ATAATATATTTTAATTTAAATAATTAACAT
*
53895071 ATAATGATATTTATTATTTAAATAATTAA-AT
1 ATAAT-ATATTT-TAATTTAAATAATTAACAT
53895102 ATAAT
1 ATAAT
53895107 TCAAATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 5 0.16
31 12 0.39
32 14 0.45
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (30 bp):
ATAATATATTTTAATTTAAATAATTAACAT
Found at i:53895129 original size:22 final size:22
Alignment explanation
Indices: 53895079--53895136 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
53895069 GTATAATGAT
*
53895079 ATTTATT-ATTTAAATA-ATTA
1 ATTTATTAATTCAAATATATTA
*
53895099 A-ATA-TAATTCAAATATATTA
1 ATTTATTAATTCAAATATATTA
53895119 ATTTATTAATTCAAATAT
1 ATTTATTAATTCAAATAT
53895137 TATAATAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 1 0.03
19 10 0.32
20 6 0.19
21 2 0.06
22 12 0.39
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATTAATTCAAATATATTA
Found at i:53896006 original size:14 final size:16
Alignment explanation
Indices: 53895974--53896004 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
53895964 CAAATCGTAT
53895974 TTGTTTGAAAAATATA
1 TTGTTTGAAAAATATA
53895990 TTGTTTGAAAAATAT
1 TTGTTTGAAAAATAT
53896005 TGACTAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (16 bp):
TTGTTTGAAAAATATA
Found at i:53896094 original size:2 final size:2
Alignment explanation
Indices: 53896087--53896123 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
53896077 AAAAATTCAA
53896087 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53896124 GAAAGTTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:53902967 original size:16 final size:16
Alignment explanation
Indices: 53902945--53902984 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
53902935 TTAAAAAAAA
53902945 TATAATTTTAT-TATT
1 TATAATTTTATATATT
53902960 TAATAA-TTTATATATT
1 T-ATAATTTTATATATT
53902976 TATAATTTT
1 TATAATTTT
53902985 TAAAGGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTTATATATT
Found at i:53903277 original size:18 final size:19
Alignment explanation
Indices: 53903246--53903286 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
53903236 AAGTTCTAAT
* *
53903246 AAATAATATTAATTTTTAA
1 AAATAATATAAATTTATAA
53903265 AAAT-ATATAAATTTATAA
1 AAATAATATAAATTTATAA
53903283 AAAT
1 AAAT
53903287 TATCTTACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATAATATAAATTTATAA
Done.