Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 194 of 328
Found at i:57813928 original size:26 final size:26
Alignment explanation
Indices: 57813896--57813948 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
57813886 CGTGCGTTTC
*
57813896 TTTCTCTTTTCTCCCTTTCTTTTCTT
1 TTTCTCTTTTCTCCATTTCTTTTCTT
57813922 TTTCTCTTTTCTCCATTTCTTTTCTT
1 TTTCTCTTTTCTCCATTTCTTTTCTT
57813948 T
1 T
57813949 CTCAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTCTCTTTTCTCCATTTCTTTTCTT
Found at i:57815654 original size:42 final size:41
Alignment explanation
Indices: 57815568--57815715 Score: 156
Period size: 43 Copynumber: 3.5 Consensus size: 41
57815558 GCCAACGTTT
* * * *
57815568 CAGACATGGTTTTACATGTAATCAAATATCGATGCCACTATCC
1 CAGACGTGGTCTTACACGAAATCAAATA-CGATGCCAC-ATCC
*
57815611 CAGATAG-GGTCTTACACGAAATCAAATACGATGCCAACATCC
1 CAGA-CGTGGTCTTACACGAAATCAAATACGATGCC-ACATCC
57815653 CAGACGTGGTCTTACACGTAAATCATAAGT-CGATGCCCACATCC
1 CAGACGTGGTCTTACACG-AAATCA-AA-TACGATG-CCACATCC
*
57815697 TAGACGTGGTCTTACACGA
1 CAGACGTGGTCTTACACGA
57815716 TAACACATAT
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 31 0.34
44 30 0.33
45 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (41 bp):
CAGACGTGGTCTTACACGAAATCAAATACGATGCCACATCC
Found at i:57815702 original size:44 final size:42
Alignment explanation
Indices: 57815568--57815715 Score: 158
Period size: 44 Copynumber: 3.5 Consensus size: 42
57815558 GCCAACGTTT
* * * *
57815568 CAGACATGGTTTTACATGTAATCAAATATCGATGCC-ACTATCC
1 CAGACGTGGTCTTACACGAAATCAAATA-CGATGCCAAC-ATCC
*
57815611 CAGATAG-GGTCTTACACGAAATCAAATACGATGCCAACATCC
1 CAGA-CGTGGTCTTACACGAAATCAAATACGATGCCAACATCC
*
57815653 CAGACGTGGTCTTACACGTAAATCATAAGT-CGATGCCCACATCC
1 CAGACGTGGTCTTACACG-AAATCA-AA-TACGATGCCAACATCC
*
57815697 TAGACGTGGTCTTACACGA
1 CAGACGTGGTCTTACACGA
57815716 TAACACATAT
Statistics
Matches: 91, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 31 0.34
44 32 0.35
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
CAGACGTGGTCTTACACGAAATCAAATACGATGCCAACATCC
Found at i:57826566 original size:27 final size:27
Alignment explanation
Indices: 57826535--57826590 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
57826525 GAAAAACTAA
* *
57826535 TGGAACTTTTAGGCTTACCAGATTTAG
1 TGGAACTTTTAGGCTTAACAAATTTAG
57826562 TGGAACTTTTAGGCTTAACAAATTTAG
1 TGGAACTTTTAGGCTTAACAAATTTAG
57826589 TG
1 TG
57826591 AGAAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (27 bp):
TGGAACTTTTAGGCTTAACAAATTTAG
Found at i:57834515 original size:23 final size:23
Alignment explanation
Indices: 57834469--57834533 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
57834459 TATATATTTT
* *
57834469 AATT-TTTTTATATTTTTCAT-A
1 AATTATTTTTAAATTTTTAATAA
57834490 AA-T-TTTTTAAATGATTTTAATAA
1 AATTATTTTTAAAT--TTTTAATAA
57834513 AATTATTTTTAAATTTTTAAT
1 AATTATTTTTAAATTTTTAAT
57834534 GAGTTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 9 0.24
21 2 0.05
22 6 0.16
23 10 0.27
24 1 0.03
25 9 0.24
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
AATTATTTTTAAATTTTTAATAA
Found at i:57835649 original size:2 final size:2
Alignment explanation
Indices: 57835642--57835672 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
57835632 GTTTTCAGAT
57835642 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
57835673 TGTTCTGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57840040 original size:53 final size:54
Alignment explanation
Indices: 57839972--57840178 Score: 220
Period size: 55 Copynumber: 3.8 Consensus size: 54
57839962 TTCCTTTTTA
* * * * **
57839972 AACTTACCATTGCCATTTCTTTACATGGTCTTATGTGGTATCCTTGCCTTAT-G
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
57840025 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG
* * * *
57840079 TAACTCATCAATTCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAG
1 -AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
57840134 AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
57840179 ATTTTACCAA
Statistics
Matches: 129, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
52 2 0.02
53 40 0.31
54 41 0.32
55 44 0.34
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (54 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:57840167 original size:54 final size:54
Alignment explanation
Indices: 57839995--57840178 Score: 237
Period size: 55 Copynumber: 3.4 Consensus size: 54
57839985 CATTTCTTTA
** * *
57839995 CATGGTCTTATGTGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGG
** * * *
57840048 CATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAATTCCATGTCTTGA
1 CATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGG
* *
57840103 CATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGG
57840157 CATGGTCTTACATGATATCCTT
1 CATGGTCTTACATGATATCCTT
57840179 ATTTTACCAA
Statistics
Matches: 112, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 23 0.21
54 41 0.37
55 44 0.39
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
CATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGG
Found at i:57840212 original size:47 final size:47
Alignment explanation
Indices: 57840157--57840278 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
57840147 CATGCCTTGG
*
57840157 CATGGTCTTACATGATATCCTTATTTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
57840204 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* * *
57840251 CATGGTCTTACATGGTATTCTTGTCTTA
1 CATGGTCTTACATGATATCCTTATCTTA
57840279 GTGCCAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:57840467 original size:44 final size:44
Alignment explanation
Indices: 57840418--57840501 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
57840408 TCCTTAATCG
* * *
57840418 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCATCCTTAAATGCCATGGTA-CAACCATGGACTTTTCCA
*
57840462 TCAATTCATCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCATCCTTAAATGCCATGGTACAACCATGGACTTT
57840502 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (44 bp):
TCAATTCATCCTTAAATGCCATGGTACAACCATGGACTTTTCCA
Found at i:57844363 original size:30 final size:30
Alignment explanation
Indices: 57844327--57844387 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
57844317 AAGACTTTGC
*
57844327 TGGCTTCTGGGCTACAACACAACTCATGAA
1 TGGCTTCCGGGCTACAACACAACTCATGAA
*
57844357 TGGCTTCCGGGCTGCAACACAACTCATGAA
1 TGGCTTCCGGGCTACAACACAACTCATGAA
57844387 T
1 T
57844388 AAGTTACGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (30 bp):
TGGCTTCCGGGCTACAACACAACTCATGAA
Found at i:57845049 original size:288 final size:288
Alignment explanation
Indices: 57844533--57845108 Score: 1125
Period size: 288 Copynumber: 2.0 Consensus size: 288
57844523 CCATAAGTGG
57844533 AAAGGAAGAGAGCTAGAAAGCCTAAAGACTTATCTAAGTCTAAATGTCTCTTTTGCAGTAAGAAA
1 AAAGGAAGAGAGCTAGAAAGCCTAAAGACTTATCTAAGTCTAAATGTCTCTTTTGCAGTAAGAAA
*
57844598 GGGCATTTCAAGGCAAACAGTAAAGAATGGAAAGAATACTTGACCACCAAAGGCAGATATATGAA
66 GGGCATTTCAAGGCAAACAGTAAAGAATAGAAAGAATACTTGACCACCAAAGGCAGATATATGAA
57844663 ACTTTTAATGATAGAAGCTTGTTTAGTGAAGGATTCAATAGACCATTAGGCCATTGATTCGGGAG
131 ACTTTTAATGATAGAAGCTTGTTTAGTGAAGGATTCAATAGACCATTAGGCCATTGATTCGGGAG
*
57844728 CCACTAATTATGTATGTGTTTCTCTATAGGGGTTCGATGAGATGAAAGATTTTAAAGATAAGAGT
196 CCACTAATTATGTATGTGTTTCTCTATAGGGGTTCGATGAGATAAAAGATTTTAAAGATAAGAGT
57844793 CTATCGTTGCGGACTGGAAATGGGACAA
261 CTATCGTTGCGGACTGGAAATGGGACAA
57844821 AAAGGAAGAGAGCTAGAAAGCCTAAAGACTTATCTAAGTCTAAATGTCTCTTTTGCAGTAAGAAA
1 AAAGGAAGAGAGCTAGAAAGCCTAAAGACTTATCTAAGTCTAAATGTCTCTTTTGCAGTAAGAAA
57844886 GGGCATTTCAAGGCAAACAGTAAAGAATAGAAAGAATACTTGACCACCAAAGGCAGATATATGAA
66 GGGCATTTCAAGGCAAACAGTAAAGAATAGAAAGAATACTTGACCACCAAAGGCAGATATATGAA
57844951 ACTTTTAATGATAGAAGCTTGTTTAGTGAAGGATTCAATAGACCATTAGGCCATTGATTCGGGAG
131 ACTTTTAATGATAGAAGCTTGTTTAGTGAAGGATTCAATAGACCATTAGGCCATTGATTCGGGAG
57845016 CCACTAATTATGTATGTGTTTCTCTATAGGGGTTCGATGAGATAAAAGATTTTAAAGATAAGAGT
196 CCACTAATTATGTATGTGTTTCTCTATAGGGGTTCGATGAGATAAAAGATTTTAAAGATAAGAGT
*
57845081 CTATTGTTGCGGACTGGAAATGGGACAA
261 CTATCGTTGCGGACTGGAAATGGGACAA
57845109 CTGTGGTAGA
Statistics
Matches: 285, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
288 285 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (288 bp):
AAAGGAAGAGAGCTAGAAAGCCTAAAGACTTATCTAAGTCTAAATGTCTCTTTTGCAGTAAGAAA
GGGCATTTCAAGGCAAACAGTAAAGAATAGAAAGAATACTTGACCACCAAAGGCAGATATATGAA
ACTTTTAATGATAGAAGCTTGTTTAGTGAAGGATTCAATAGACCATTAGGCCATTGATTCGGGAG
CCACTAATTATGTATGTGTTTCTCTATAGGGGTTCGATGAGATAAAAGATTTTAAAGATAAGAGT
CTATCGTTGCGGACTGGAAATGGGACAA
Found at i:57847078 original size:49 final size:50
Alignment explanation
Indices: 57847014--57847112 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
57847004 TACAGAGAAA
* * *
57847014 GTATCTAGCAGTATATATGCAGTT-TTTGGTGGCTTGACCACAATATTCT
1 GTATATAGCAGTATATATGCAATTATCTGGTGGCTTGACCACAATATTCT
* *
57847063 GTATATAGTAGTATATTTGCAATTATCTGGTGGCTTGACCACAATATTCT
1 GTATATAGCAGTATATATGCAATTATCTGGTGGCTTGACCACAATATTCT
57847113 ATTTCTGGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 20 0.45
50 24 0.55
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.39
Consensus pattern (50 bp):
GTATATAGCAGTATATATGCAATTATCTGGTGGCTTGACCACAATATTCT
Found at i:57848206 original size:27 final size:26
Alignment explanation
Indices: 57848171--57848254 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 26
57848161 TTAGCGAGTT
57848171 GGTTCGCCAGTGTGTTTGGCGAGCTGA
1 GGTTCGCCAGT-TGTTTGGCGAGCTGA
** *
57848198 GGTTCGCCAGTTTGTTTAACGAGTTGA
1 GGTTCGCCAG-TTGTTTGGCGAGCTGA
* *
57848225 GGTTCACCAGTTGTTTGGGCGAGCTAA
1 GGTTCGCCAGTTGTTT-GGCGAGCTGA
57848252 GGT
1 GGT
57848255 GTAACACTCT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
26 6 0.13
27 40 0.85
28 1 0.02
ACGTcount: A:0.15, C:0.17, G:0.36, T:0.32
Consensus pattern (26 bp):
GGTTCGCCAGTTGTTTGGCGAGCTGA
Found at i:57848222 original size:52 final size:53
Alignment explanation
Indices: 57848154--57848254 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 53
57848144 TGGGTTTGAT
* * *
57848154 AGTTGGTTTAGCGAGTT-GGTTCGCCAGTGTGTTT-GGCGAGCTGAGGTTCGCC
1 AGTTGGTTTAACGAGTTAGGTTCACCAGT-TGTTTGGGCGAGCTAAGGTTCGCC
*
57848206 AGTTTGTTTAACGAGTTGAGGTTCACCAGTTGTTTGGGCGAGCTAAGGT
1 AGTTGGTTTAACGAGTT-AGGTTCACCAGTTGTTTGGGCGAGCTAAGGT
57848255 GTAACACTCT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
52 15 0.36
53 5 0.12
54 22 0.52
ACGTcount: A:0.16, C:0.15, G:0.36, T:0.34
Consensus pattern (53 bp):
AGTTGGTTTAACGAGTTAGGTTCACCAGTTGTTTGGGCGAGCTAAGGTTCGCC
Found at i:57857354 original size:40 final size:40
Alignment explanation
Indices: 57857250--57857377 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 40
57857240 CGAAATATAA
*** *
57857250 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
* * * *
57857290 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
*** * *
57857330 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGG-TCTTAGC
57857370 CCGGATAT
1 CCGGATAT
57857378 CATTCAATTT
Statistics
Matches: 71, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 70 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:57867080 original size:2 final size:2
Alignment explanation
Indices: 57867073--57867105 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
57867063 GAAGAGAAAG
57867073 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
57867106 GAACACTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57875083 original size:40 final size:40
Alignment explanation
Indices: 57874999--57875148 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
57874989 AATTGAATTA
* * * **
57874999 TATCCGGGCTAA-ACCCGAAGACAATTATGCTG-GAAATTT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACATAC
* * *
57875038 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
57875079 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
57875118 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
57875149 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
38 3 0.03
39 16 0.18
40 67 0.74
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:57875132 original size:80 final size:79
Alignment explanation
Indices: 57875000--57875148 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
57874990 ATTGAATTAT
* *
57875000 ATCCGGGCTAAACCCGAAGACAATTATGCTGGAAATTTTATCCGGGTTAAGACCCGAAGGCAATT
1 ATCCGGGCTAAACCCGAAGACAATTATGCTGGAAATTCTATCCGGGCTAAGACCCGAAGGCAATT
57875065 GTGCTAGTGGCTAC
66 GTGCTAGTGGCTAC
* * *
57875079 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAA-ACCCGAAGACAATT-ATGCTG-GAAATTCTATCCGGGCTAAGACCCGAAGGCA
*
57875142 TTTGTGC
63 ATTGTGC
57875149 ACATGGTTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (79 bp):
ATCCGGGCTAAACCCGAAGACAATTATGCTGGAAATTCTATCCGGGCTAAGACCCGAAGGCAATT
GTGCTAGTGGCTAC
Found at i:57875162 original size:40 final size:40
Alignment explanation
Indices: 57874996--57875164 Score: 136
Period size: 40 Copynumber: 4.2 Consensus size: 40
57874986 GGAAATTGAA
*
57874996 TTATATCCGGGCTAA-ACCCGAAGACAATTATGCTG-GAAAT--
1 TTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCG-AATGG
* * * *
57875036 TT-TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
57875075 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
57875115 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
57875155 TTATATCCGG
1 TTATATCCGG
57875165 TTATGTTCCG
Statistics
Matches: 100, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 16 0.16
40 78 0.78
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:57875163 original size:80 final size:79
Alignment explanation
Indices: 57874996--57875164 Score: 200
Period size: 80 Copynumber: 2.1 Consensus size: 79
57874986 GGAAATTGAA
* *
57874996 TTATATCCGGGCTAAACCCGAAGACAATTATGCTGGAAATTTTATCCGGGTTAAGACCCGAAGGC
1 TTATATCCGGGCTAAACCCGAAGACAATTATGCTGGAAATTCTATCCGGGCTAAGACCCGAAGGC
*
57875061 AATTGTGCTAGTGG
66 AATTGTGCTAATGG
* * * * *
57875075 CTACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAA
1 TTATATCCGGGCTAA-ACCCGAAGACAATT-ATGCTG-GAAATTCTATCCGGGCTAAGACCCGAA
*
57875138 GGCATTTGTGC-ACATGG
63 GGCAATTGTGCTA-ATGG
57875155 TTATATCCGG
1 TTATATCCGG
57875165 TTATGTTCCG
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
79 18 0.24
80 57 0.76
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (79 bp):
TTATATCCGGGCTAAACCCGAAGACAATTATGCTGGAAATTCTATCCGGGCTAAGACCCGAAGGC
AATTGTGCTAATGG
Found at i:57877788 original size:27 final size:27
Alignment explanation
Indices: 57877750--57877972 Score: 252
Period size: 27 Copynumber: 8.3 Consensus size: 27
57877740 GTGGCAAAAT
* *
57877750 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
57877777 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
57877804 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57877831 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
57877858 GATATTTCTACCCAACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
57877885 GGTAACTCTACCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
* * *
57877912 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* ** *
57877939 GGTAATTTTA-CAAACCAAGGGTATTTT
1 GGTAATTCTACCCTA-CAAGGGTATTTC
57877966 GGTAATT
1 GGTAATT
57877973 TTGTAAACCA
Statistics
Matches: 165, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.02
27 160 0.97
28 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:57877840 original size:54 final size:54
Alignment explanation
Indices: 57877754--57877945 Score: 278
Period size: 54 Copynumber: 3.6 Consensus size: 54
57877744 CAAAATGGTA
*
57877754 ATTT-TACCCTACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* *
57877807 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * * * *
57877861 ATTTCTACCCAACAAGGGTATTTTGGTAACTCTACCCTACAGAGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * *
57877915 AATTCTACCCTACAGGGGTATTTTGGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATT
57877946 TTACAAACCA
Statistics
Matches: 124, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 4 0.03
54 120 0.97
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
Found at i:57877895 original size:81 final size:81
Alignment explanation
Indices: 57877751--57877970 Score: 284
Period size: 81 Copynumber: 2.7 Consensus size: 81
57877741 TGGCAAAATG
* * * * * * * **
57877751 GTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCAACAAGGGTATTTTGGTAACTCTACC
57877816 CTACA-AGGGTATTTCA
66 CTACAGA-GGTATTTCA
*
57877832 GTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCAACAAGGGTATTTTGGTAACTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCAACAAGGGTATTTTGGTAACTCTACC
57877897 CTACAGAGGTATTTCA
66 CTACAGAGGTATTTCA
* *
57877913 GTAATTCTACCCTACAGGGGTATTTTGGTAATTT-TA-CAAACCAAGGGTATTTTGGTAA
1 GTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTACCCAA-CAAGGGTATTTTGGTAA
57877971 TTTTGTAAAC
Statistics
Matches: 123, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
80 3 0.02
81 115 0.93
82 5 0.04
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCAACAAGGGTATTTTGGTAACTCTACC
CTACAGAGGTATTTCA
Found at i:57877962 original size:54 final size:54
Alignment explanation
Indices: 57877751--57878072 Score: 180
Period size: 54 Copynumber: 6.0 Consensus size: 54
57877741 TGGCAAAATG
* * * ** * *
57877751 GTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCCTA-CAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTTGGTAATTCTA-CAAACCAAGGGTATTTCA
* ** ** *
57877805 GTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTA-CAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTTGGTAATTCTA-CAAACCAAGGGTATTTCA
* * *
57877858 GATATTTCTACCCAACAAGGGTATTTTGGTAACTCTAC---CCTACAGAGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTTGGTAATTCTACAAACC-A-AG-GGTATTTCA
* * **
57877913 GTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACAAACCAAGGGTATTTCA
* ** * * *
57877967 GTAATTTTGTAAAC--CAAGGGTATTTTGGTAATTTTACAAGTCGAA-GGTATTTCA
1 GTAA--TTCTACCCTACAAGGGTATTTTGGTAATTCTACAA-ACCAAGGGTATTTCA
** * * **
57878021 GTAATT-T-CACAAATCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT
1 GTAATTCTAC-CCTA-CAAGGGTATTTTGGTAATTCTACAAACCAAGGGTATTT
57878073 TGATAATTTT
Statistics
Matches: 219, Mismatches: 32, Indels: 34
0.77 0.11 0.12
Matches are distributed among these distances:
51 2 0.01
52 3 0.01
53 6 0.03
54 194 0.89
55 6 0.03
56 6 0.03
57 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACAAACCAAGGGTATTTCA
Found at i:57877973 original size:27 final size:27
Alignment explanation
Indices: 57877930--57878217 Score: 303
Period size: 27 Copynumber: 10.7 Consensus size: 27
57877920 TACCCTACAG
57877930 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
**
57877957 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
57877984 GGGTATTTTGGTAATTTTACAAGTCGAA
1 GGGTATTTTGGTAATTTTACAA-ACCAA
** * * *
57878012 -GGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
**
57878038 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* ** *
57878065 GGGTATTTTGATAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
** * **
57878092 GGGTATTTCAGTAATTTCACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
57878119 GGGTATTTTGGTAATTTCACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
*
57878146 GGGTATTTTGGTAATTTTATAAACC-A
1 GGGTATTTTGGTAATTTTACAAACCAA
*
57878172 GAGCTATTTTGGTAATTTTACAAACC-A
1 G-GGTATTTTGGTAATTTTACAAACCAA
57878199 GGAGTATTTTGGTAATTTT
1 GG-GTATTTTGGTAATTTT
57878218 GCTAATCGAG
Statistics
Matches: 213, Mismatches: 44, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
26 3 0.01
27 207 0.97
28 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:57877989 original size:81 final size:81
Alignment explanation
Indices: 57877819--57878218 Score: 284
Period size: 81 Copynumber: 4.9 Consensus size: 81
57877809 TTCTACCCTA
* * * *
57877819 CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGAT-ATTTCTACCCAA-CAAGGGTAT
1 CAAGGGTATTTCAGTAATTTTACACTACAGGGGTATTTCGGTAATTT-TA-CAAACCAAGGGTAT
* * *
57877882 TTTGGTAA--CTCT-ACC
64 TTTGGTAATTTTGTAAAC
* * *
57877897 CTACAGAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTA
1 C-A-AG-GGTATTTCAGTAATTTTACACTACAGGGGTATTTCGGTAATTTTACAAACCAAGGGTA
57877962 TTTTGGTAATTTTGTAAAC
63 TTTTGGTAATTTTGTAAAC
** * * * * * *
57877981 CAAGGGTATTTTGGTAATTTTACAAGT-C-GAAGGTATTTCAGTAATTTCACAAATCAGGGGTAT
1 CAAGGGTATTTCAGTAATTTTAC-ACTACAG-GGGTATTTCGGTAATTTTACAAACCAAGGGTAT
57878044 TTTGGTAATTTTGTAAAC
64 TTTGGTAATTTTGTAAAC
* * * * **
57878062 CAAGGGTATTT-TGATAATTTTACAAGT-C-GAGGGTATTTCAGTAATTTCACAAATTAAGGGTA
1 CAAGGGTATTTCAG-TAATTTTAC-ACTACAG-GGGTATTTCGGTAATTTTACAAACCAAGGGTA
***
57878124 TTTTGGTAATTTCACAAAC
63 TTTTGGTAATTTTGTAAAC
* * ** * * * * *
57878143 TAGGGGTATTTTGGTAATTTTATA-AACCAGAGCTATTTTGGTAATTTTACAAACC-AGGAGTAT
1 CAAGGGTATTTCAGTAATTTTACACTA-CAGGGGTATTTCGGTAATTTTACAAACCAAGG-GTAT
57878206 TTTGGTAATTTTG
64 TTTGGTAATTTTG
57878219 CTAATCGAGG
Statistics
Matches: 268, Mismatches: 38, Indels: 29
0.80 0.11 0.09
Matches are distributed among these distances:
78 1 0.00
79 1 0.00
80 11 0.04
81 240 0.90
82 9 0.03
83 3 0.01
84 3 0.01
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.38
Consensus pattern (81 bp):
CAAGGGTATTTCAGTAATTTTACACTACAGGGGTATTTCGGTAATTTTACAAACCAAGGGTATTT
TGGTAATTTTGTAAAC
Found at i:57878231 original size:81 final size:79
Alignment explanation
Indices: 57877931--57878218 Score: 342
Period size: 81 Copynumber: 3.6 Consensus size: 79
57877921 ACCCTACAGG
** *
57877931 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGT
1 GGTATTTCAGTAATTTCACAAACC-AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGT
57877996 AATTTTACAAGTCGAA
65 AATTTTACAAGTCG-A
* *
57878012 GGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGAT
1 GGTATTTCAGTAATTTCACAAACCA-GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGT
57878077 AATTTTACAAGTCGA
65 AATTTTACAAGTCGA
** *** * *
57878092 GGGTATTTCAGTAATTTCACAAATTAAGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGG
1 -GGTATTTCAGTAATTTCACAAA-CCAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
* **
57878157 TAATTTTATAAACCAGA
64 TAATTTTACAAGTC-GA
* ** *
57878174 GCTATTTTGGTAATTTTACAAACCAGGAGTATTTTGGTAATTTTG
1 GGTATTTCAGTAATTTCACAAACCAGG-GTATTTTGGTAATTTTG
57878219 CTAATCGAGG
Statistics
Matches: 179, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
80 5 0.03
81 170 0.95
82 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (79 bp):
GGTATTTCAGTAATTTCACAAACCAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTA
ATTTTACAAGTCGA
Found at i:57882005 original size:47 final size:48
Alignment explanation
Indices: 57881932--57882203 Score: 233
Period size: 47 Copynumber: 5.8 Consensus size: 48
57881922 AGGGTAAGGT
* *
57881932 GCCGATGCCATGTCCTAGACACGGTCTTACACTGGCTCAT-ATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
** * *
57881979 GTTGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AA
* * * *
57882027 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CGTCTTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATC-TCAA
* * *
57882073 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGC-CCTCATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
* * * * ***
57882118 TGCCAATGCCATGTCCTAGACATGGTCTTACACTAGCTC-TCATAATGTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCAA
* *
57882167 GCCGATG-CATGTCCCAGACAT-GTTTTACACTAGCTCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
57882204 CACAAGAATG
Statistics
Matches: 184, Mismatches: 30, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
45 2 0.01
46 72 0.39
47 79 0.43
48 29 0.16
49 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
Found at i:57882187 original size:94 final size:91
Alignment explanation
Indices: 57881931--57882200 Score: 264
Period size: 94 Copynumber: 2.9 Consensus size: 91
57881921 TAGGGTAAGG
* * * * *
57881931 TGCCGATGCCATGTCCTAGACACGGTCTTACACTG-GCTCATATCTCAAGTTGATGCCATGTCCC
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGCTCTCATATGT--GGCTGATG-CATGTCCC
* *
57881995 AGACATGGTCTTACACT-GACTATCATCTCG
63 AGACAT-GTCTTACACTAG-CCATCATCTCA
* *
57882025 TAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTC-T-TGAGGCTGATGCATGTC
1 T-GCCGATGCCATGTCCTAGACATGGTCTTACACT-GC-T-C-TCATATGTGGCTGATGCATGTC
*
57882086 CCAGACATGTCTTACACTAGCCCTCATCTCAA
61 CCAGACATGTCTTACACTAGCCATCATCTC-A
* *
57882118 TGCCAATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCATGTCCCA
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACT-GCTCTCAT-ATGTGGCTGATGCATGTCCCA
*
57882183 GACATGTTTTACACTAGC
64 GACATGTCTTACACTAGC
57882201 TCACACAAGA
Statistics
Matches: 147, Mismatches: 16, Indels: 26
0.78 0.08 0.14
Matches are distributed among these distances:
91 2 0.01
92 26 0.18
93 40 0.27
94 67 0.46
95 7 0.05
96 1 0.01
97 2 0.01
98 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (91 bp):
TGCCGATGCCATGTCCTAGACATGGTCTTACACTGCTCTCATATGTGGCTGATGCATGTCCCAGA
CATGTCTTACACTAGCCATCATCTCA
Found at i:57888655 original size:71 final size:71
Alignment explanation
Indices: 57888569--57888732 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
57888559 CGATTTGTCT
57888569 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57888634 CTTTCA
66 CTTTCA
57888640 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57888705 CTTTCA
66 CTTTCA
*
57888711 CGTAGCTCTCTTGCCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
57888733 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:57888770 original size:71 final size:70
Alignment explanation
Indices: 57888569--57888766 Score: 240
Period size: 71 Copynumber: 2.8 Consensus size: 70
57888559 CGATTTGTCT
* * * * *
57888569 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGCCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
57888634 CTTTCA
65 CTTTCA
* * * * *
57888640 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGCCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
57888705 CTTTCA
65 CTTTCA
* *
57888711 CGTAGCTCTCTTGCCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGCCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
57888767 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 95 0.80
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGCCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:57890272 original size:40 final size:40
Alignment explanation
Indices: 57890164--57890373 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
57890154 CGGGATTTAA
* * * * *
57890164 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
57890204 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57890244 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57890284 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57890324 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57890364 CCGGATATAT
1 CCGGATATAT
57890374 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:57904024 original size:38 final size:39
Alignment explanation
Indices: 57903944--57904080 Score: 154
Period size: 40 Copynumber: 3.5 Consensus size: 39
57903934 GGACTAGGAT
* *
57903944 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
*
57903983 CCGAAGGCATT-GTGCAAGTTACTAAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTC
** *
57904021 CCGAAGGCATTCGTGCGAGTCGCTATAACCGGGCTT-CGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCGGG-TTAAGTC
* *
57904061 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
57904081 CGTTATATCC
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
37 9 0.11
38 25 0.29
39 21 0.25
40 28 0.33
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:57904055 original size:77 final size:79
Alignment explanation
Indices: 57903894--57904041 Score: 194
Period size: 77 Copynumber: 1.9 Consensus size: 79
57903884 CGAATGATGT
* * * *
57903894 CGGGCTAAGTCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTCGTG
1 CGGGCTAAGCCCGAAGGCATTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTCGTG
*
57903959 CGAGTTAATAAATC
66 CGAGTCAATAAATC
* **
57903973 CGGGCTAAGCCCGAAGGCATTGTGC-AAGTTACTA-AACCGGGTTAAG-TCCCGAAGGCATTCGT
1 CGGGCTAAGCCCGAAGGCATTGTGCTAAGTGACTATAACCGGACTAAGAT-CCGAAGGCATTCGT
57904035 GCGAGTC
65 GCGAGTC
57904042 GCTATAACCG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
76 1 0.02
77 28 0.47
78 8 0.13
79 23 0.38
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (79 bp):
CGGGCTAAGCCCGAAGGCATTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTCGTG
CGAGTCAATAAATC
Found at i:57905693 original size:39 final size:39
Alignment explanation
Indices: 57905562--57905752 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
57905552 GGATATAACG
* ** **
57905562 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
57905602 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
57905642 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
57905680 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
57905720 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
57905753 CATCATTCGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:57905697 original size:78 final size:80
Alignment explanation
Indices: 57905602--57905752 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
57905592 GGTTATAGCG
* * * *
57905602 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
57905664 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
57905680 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
57905745 AGCCCGGA
66 AGCCCGGA
57905753 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:57913732 original size:39 final size:39
Alignment explanation
Indices: 57913601--57913791 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
57913591 GGATATAACG
* ** **
57913601 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
57913641 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
57913681 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
57913719 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
57913759 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
57913792 CATCATTCGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:57913736 original size:78 final size:80
Alignment explanation
Indices: 57913641--57913791 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
57913631 GGTTATAGCG
* * * *
57913641 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
57913703 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
57913719 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
57913784 AGCCCGGA
66 AGCCCGGA
57913792 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:57917701 original size:28 final size:28
Alignment explanation
Indices: 57917665--57917766 Score: 141
Period size: 28 Copynumber: 3.6 Consensus size: 28
57917655 CAAATATGGT
57917665 ACTTAGTGTACGAAATATTGAGAATGAC
1 ACTTAGTGTACGAAATATTGAGAATGAC
**
57917693 ACTTAGTGTACGAAATATTGAGAATGGT
1 ACTTAGTGTACGAAATATTGAGAATGAC
** *
57917721 ACTTAGTGTGTGAGATATTGAGAATGAC
1 ACTTAGTGTACGAAATATTGAGAATGAC
* *
57917749 ACTTAGTGTGCAAAATAT
1 ACTTAGTGTACGAAATAT
57917767 CGAATGATTC
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (28 bp):
ACTTAGTGTACGAAATATTGAGAATGAC
Found at i:57917725 original size:56 final size:56
Alignment explanation
Indices: 57917660--57917766 Score: 169
Period size: 56 Copynumber: 1.9 Consensus size: 56
57917650 GCAATCAAAT
*
57917660 ATGGTACTTAGTGTACGAAATATTGAGAATGACACTTAGTGTACGAAATATTGAGA
1 ATGGTACTTAGTGTACGAAATATTGAGAATGACACTTAGTGTACAAAATATTGAGA
** * *
57917716 ATGGTACTTAGTGTGTGAGATATTGAGAATGACACTTAGTGTGCAAAATAT
1 ATGGTACTTAGTGTACGAAATATTGAGAATGACACTTAGTGTACAAAATAT
57917767 CGAATGATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (56 bp):
ATGGTACTTAGTGTACGAAATATTGAGAATGACACTTAGTGTACAAAATATTGAGA
Found at i:57922148 original size:14 final size:14
Alignment explanation
Indices: 57922131--57922184 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
57922121 TACTTCCTAT
57922131 TTTATTTAT-TTTAA
1 TTTATTTATGTTT-A
57922145 TTTATTTATGTTTA
1 TTTATTTATGTTTA
* * *
57922159 TCTATATAT-TTTT
1 TTTATTTATGTTTA
57922172 TTTATTTATGTTT
1 TTTATTTATGTTT
57922185 GAATTTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
13 10 0.30
14 20 0.61
15 3 0.09
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (14 bp):
TTTATTTATGTTTA
Found at i:57930708 original size:49 final size:49
Alignment explanation
Indices: 57930561--57930916 Score: 193
Period size: 49 Copynumber: 7.5 Consensus size: 49
57930551 AAATGCTGAC
* * ** * *
57930561 GCCATGTCCTAGACATGGTCTTACACTGGCTAGC--ACATCAAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTTTCATACATCGAGGTCGAT
57930609 GCCATGTCCCAGACAGGT-TTGACACTGACTTTCATACATCGAGG-CTGAT
1 GCCATGTCCCAGACAGGTCTT-ACACTGACTTTCATACATCGAGGTC-GAT
* *
57930658 GCCGTGTCCCAGACAGGTCTTACACTGGCTCTT-AT-CTATCG-GTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACT-TTCATAC-ATCGAG-GTCGAT
* ** *
57930707 GCCATGTCCCAGACAGGTCTTACACTTACACTCA-ACA---AGCT-GAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATACATCGAGGTCGAT
*
57930751 GCCATGTCCCAGACAAGTCTTACACT-AGCTTGT-ATATC-TCGAGG-CTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATA-CATCGAGGTC-GAT
* * * * * * * *
57930800 G-CATGCCCCAGACATGTCTTACA-TTAGCTCTCGT-C-TCAATGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATACATCGAGGTCGAT
* * * * * *
57930846 G-CATGTCCCAGACATGTCTTAAACTGGCTCTCATA-AT-GTGTTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATACATCGAGGTCGAT
*
57930892 G-CATGTCCCAGACATGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
57930917 AGCATACATA
Statistics
Matches: 246, Mismatches: 35, Indels: 56
0.73 0.10 0.17
Matches are distributed among these distances:
43 1 0.00
44 30 0.12
45 3 0.01
46 67 0.27
47 17 0.07
48 46 0.19
49 77 0.31
50 5 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTTTCATACATCGAGGTCGAT
Found at i:57930723 original size:98 final size:93
Alignment explanation
Indices: 57930603--57930916 Score: 245
Period size: 92 Copynumber: 3.3 Consensus size: 93
57930593 GCACATCAAA
** *
57930603 GTCGATGCCATGTCCCAGACAGGT-TTGACACTGACTTTCATACATCGAGGCTGATGCCGTGTCC
1 GTCGATGCCATGTCCCAGACAGGTCTT-ACACTGACACTCA-ACA---A-GCTGATGCCATGTCC
*
57930667 CAGACAGGTCTTACACTGGCTCTTATCTATCGGT
60 CAGACAAGTCTTACACTGGCTCTTATCTATCGGT
*
57930701 GTCGATGCCATGTCCCAGACAGGTCTTACACTTACACTCAACAAGCTGATGCCATGTCCCAGACA
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACACTCAACAAGCTGATGCCATGTCCCAGACA
* * *
57930766 AGTCTTACACTAGCT-TGTATATCTCGAG-
66 AGTCTTACACTGGCTCT-TATCTATCG-GT
* * * * ** *
57930794 G-CTGATG-CATGCCCCAGACATGTCTTACA-TTAGCTCTCGTCTCAATGCCGATG-CATGTCCC
1 GTC-GATGCCATGTCCCAGACAGGTCTTACACTGA-CACTC--AACAA-GCTGATGCCATGTCCC
* * * *
57930855 AGACATGTCTTAAACTGGCTCTCAT-AAT--GT
61 AGACAAGTCTTACACTGGCTCTTATCTATCGGT
*
57930885 GTTCGATG-CATGTCCCAGACATGTCTTACACT
1 G-TCGATGCCATGTCCCAGACAGGTCTTACACT
57930917 AGCATACATA
Statistics
Matches: 182, Mismatches: 21, Indels: 31
0.78 0.09 0.13
Matches are distributed among these distances:
90 1 0.01
91 4 0.02
92 51 0.28
93 48 0.26
94 32 0.18
95 7 0.04
97 3 0.02
98 34 0.19
99 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (93 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGACACTCAACAAGCTGATGCCATGTCCCAGACA
AGTCTTACACTGGCTCTTATCTATCGGT
Found at i:57930861 original size:46 final size:45
Alignment explanation
Indices: 57930797--57930919 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 45
57930787 TCTCGAGGCT
* * *
57930797 GATGCATGCCCCAGACATGTCTTACATTAGCTCTCGTCTCAA-TG-CC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AAGTGTCC
* * *
57930843 GATGCATGTCCCAGACATGTCTTAAACTGGCTCTCATAATGTGTTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAA-GTGTCC
57930889 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
57930920 ATACATATAA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.03
44 1 0.02
45 2 0.03
46 61 0.92
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGTCC
Found at i:57933754 original size:38 final size:38
Alignment explanation
Indices: 57933703--57933776 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
57933693 CCTGAAGTAA
57933703 CATAACTTATTGAGATTTATTTGTTATCACCATTTTTT
1 CATAACTTATTGAGATTTATTTGTTATCACCATTTTTT
*
57933741 CATAACTTATTGAGATTTCTTTGTTATCACCATTTT
1 CATAACTTATTGAGATTTATTTGTTATCACCATTTT
57933777 CAAGTACTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (38 bp):
CATAACTTATTGAGATTTATTTGTTATCACCATTTTTT
Found at i:57935557 original size:29 final size:29
Alignment explanation
Indices: 57935523--57935654 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
57935513 TACTCGATTT
** * *
57935523 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
57935552 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
57935581 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
57935610 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
57935639 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
57935655 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:57939294 original size:16 final size:16
Alignment explanation
Indices: 57939273--57939311 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
57939263 GTAGATCGGT
*
57939273 AAAAGCCGAAATGTTG
1 AAAAGCCGAAATGTCG
57939289 AAAAGCCGAAATGTCG
1 AAAAGCCGAAATGTCG
57939305 AAAAGCC
1 AAAAGCC
57939312 AAAAGTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (16 bp):
AAAAGCCGAAATGTCG
Found at i:57939614 original size:29 final size:28
Alignment explanation
Indices: 57939527--57939614 Score: 140
Period size: 29 Copynumber: 3.1 Consensus size: 28
57939517 GTAAGCATGA
57939527 ATATAATGTGATTTGGGCCTAATGGGCC
1 ATATAATGTGATTTGGGCCTAATGGGCC
* *
57939555 ACATAAATGTGATTTGGGCCTAAAGGGCC
1 ATAT-AATGTGATTTGGGCCTAATGGGCC
57939584 ATATAATTGTGATTTGGGCCTAATGGGCC
1 ATATAA-TGTGATTTGGGCCTAATGGGCC
57939613 AT
1 AT
57939615 GTGAATATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
28 5 0.09
29 49 0.91
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (28 bp):
ATATAATGTGATTTGGGCCTAATGGGCC
Found at i:57943629 original size:19 final size:20
Alignment explanation
Indices: 57943605--57943643 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
57943595 AACTAATTTA
*
57943605 TAGTTG-TTTATAGCCATTG
1 TAGTTGATTTAAAGCCATTG
57943624 TAGTTGATTTAAAGCCATTG
1 TAGTTGATTTAAAGCCATTG
57943644 GGAAACATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.44
Consensus pattern (20 bp):
TAGTTGATTTAAAGCCATTG
Found at i:57945656 original size:71 final size:71
Alignment explanation
Indices: 57945570--57945733 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
57945560 CGATTTGTCT
57945570 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57945635 CTTTCA
66 CTTTCA
57945641 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57945706 CTTTCA
66 CTTTCA
57945712 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
57945734 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:57945771 original size:71 final size:70
Alignment explanation
Indices: 57945570--57945767 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
57945560 CGATTTGTCT
* * * *
57945570 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
57945635 CTTTCA
65 CTTTCA
* * * *
57945641 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
57945706 CTTTCA
65 CTTTCA
* *
57945712 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
57945768 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:57953229 original size:71 final size:71
Alignment explanation
Indices: 57953143--57953306 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
57953133 CGATTTGTCT
57953143 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57953208 CTTTCA
66 CTTTCA
57953214 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57953279 CTTTCA
66 CTTTCA
57953285 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
57953307 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:57953344 original size:71 final size:70
Alignment explanation
Indices: 57953143--57953340 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
57953133 CGATTTGTCT
* * * *
57953143 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
57953208 CTTTCA
65 CTTTCA
* * * *
57953214 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
57953279 CTTTCA
65 CTTTCA
* *
57953285 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
57953341 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:57958856 original size:39 final size:39
Alignment explanation
Indices: 57958807--57958917 Score: 168
Period size: 39 Copynumber: 2.8 Consensus size: 39
57958797 TATTCACTTG
* * *
57958807 TAAGCATATATCACATTACACATATAATCACATAATATT
1 TAAGCATATATCACAATACTCATATAATCACATAACATT
* *
57958846 TAAGCTTATATCACAATACTCATATTATCACATAACATT
1 TAAGCATATATCACAATACTCATATAATCACATAACATT
57958885 TAAGCATATATCACAATACTCATATATATCACA
1 TAAGCATATATCACAATACTCATATA-ATCACA
57958918 ACAGTCAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 58 0.91
40 6 0.09
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.33
Consensus pattern (39 bp):
TAAGCATATATCACAATACTCATATAATCACATAACATT
Found at i:57959067 original size:47 final size:47
Alignment explanation
Indices: 57958998--57959102 Score: 210
Period size: 47 Copynumber: 2.2 Consensus size: 47
57958988 ACCACATAGA
57958998 CTCATTATTCCAAAGATTTCCCAAAAGTGAAGCATAAAGCTATCACT
1 CTCATTATTCCAAAGATTTCCCAAAAGTGAAGCATAAAGCTATCACT
57959045 CTCATTATTCCAAAGATTTCCCAAAAGTGAAGCATAAAGCTATCACT
1 CTCATTATTCCAAAGATTTCCCAAAAGTGAAGCATAAAGCTATCACT
57959092 CTCATTATTCC
1 CTCATTATTCC
57959103 CTTCACGTGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.30
Consensus pattern (47 bp):
CTCATTATTCCAAAGATTTCCCAAAAGTGAAGCATAAAGCTATCACT
Found at i:57965152 original size:9 final size:9
Alignment explanation
Indices: 57965135--57965174 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
57965125 ATGAATTGAG
*
57965135 TATGGTTAT
1 TATGTTTAT
57965144 TATGTTTAT
1 TATGTTTAT
57965153 TATGTTTAT
1 TATGTTTAT
57965162 TATGTTTACT
1 TATGTTTA-T
57965172 TAT
1 TAT
57965175 ATACATGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 25 0.86
10 4 0.14
ACGTcount: A:0.23, C:0.03, G:0.12, T:0.62
Consensus pattern (9 bp):
TATGTTTAT
Found at i:57966695 original size:46 final size:45
Alignment explanation
Indices: 57966642--57966906 Score: 183
Period size: 46 Copynumber: 5.7 Consensus size: 45
57966632 TATTGTGAGC
57966642 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGAGT
1 TAGTGTAAGACCATGTCTGGGACATGGCATC-GCCACA-TA-GAGAGT
*
57966688 TAGTGTAAGACCATGTCTAGGACATGGCATCG--ACATTGAGATGAGT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGCCACA-T-AGA-GAGT
* *
57966734 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTC-GAGACGTAAGT
1 --TAGTGTAAGACCATGTCTGGGACATGGCATC-GCCACATAGA-G--AGT
* * * * *
57966782 CAGTGTAAGA-CATGTTTGGGACAT-GCATCTGCTAC-GAGATGTGT
1 TAGTGTAAGACCATGTCTGGGACATGGCATC-GCCACATAGA-GAGT
* *
57966826 TAGTGTAAGACCATGTCTGGGACATGGCATCGACACAGATATGCTAGAACT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCG-C-CACATA-G--AG-AGT
57966877 T-GTGTAAGACCATGTCTGGGACATGGCATC
1 TAGTGTAAGACCATGTCTGGGACATGGCATC
57966907 AGTACCCGAC
Statistics
Matches: 180, Mismatches: 19, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
44 11 0.06
45 21 0.12
46 65 0.36
47 29 0.16
48 19 0.11
49 2 0.01
50 30 0.17
51 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (45 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGCCACATAGAGAGT
Found at i:57973719 original size:48 final size:48
Alignment explanation
Indices: 57973660--57973945 Score: 229
Period size: 48 Copynumber: 6.0 Consensus size: 48
57973650 GGGTGAGTTA
* * * * * **
57973660 CCGATGTCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGG
* * * *
57973708 CCGATGCCATGTCCCAGACATGGTCTTACACTAGATCTCATCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGG
* * * *
57973756 CCTATGCCATATCCCAGACTTGGTCTTACACTAG-TGCACATATCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATATCAAGG
* * *
57973804 CCGATGCCATGTCCTAGACATTGTCTTACACTGGCTCTCACAATATC---G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCAC-ATATCAAGG
* * * * * * **
57973852 CCAATGCCATGTTCCAAACATGGTCTTACATTAGCCCTCATATCGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGG
* * * * *
57973900 CTGATGCCATGTCCCAGACGTGGTCTTGCACTGGCACACATATCAA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
57973946 CCAAATGTCA
Statistics
Matches: 188, Mismatches: 42, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
45 5 0.03
46 3 0.02
47 1 0.01
48 170 0.90
50 3 0.02
51 6 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGG
Found at i:57973859 original size:96 final size:96
Alignment explanation
Indices: 57973673--57973934 Score: 262
Period size: 96 Copynumber: 2.7 Consensus size: 96
57973663 ATGTCATGTT
* * * *
57973673 CCAAACATGGTCTTACACTGGCTCACATGTTGA-GGCCGATGCCATGTCCCAGACATGGTCTTAC
1 CCAAACATGGTCTTACACTAGCCCACAT-ATCATGGCCGATGCCATGTCCCAGACATGGTCTTAC
* * * *
57973737 ACTAGATCTCATCTCAATGCCTATGCCATATC
65 ACTGGCTCTCATCTAAATGCCAATGCCATATC
* * ** * *
57973769 CCAGACTTGGTCTTACACTAGTGCACATATCAAT-GCCGATGCCATGTCCTAGACATTGTCTTAC
1 CCAAACATGGTCTTACACTAGCCCACATATC-ATGGCCGATGCCATGTCCCAGACATGGTCTTAC
* *
57973833 ACTGGCTCTCA-C-AATATCGCCAATGCCATGTT
65 ACTGGCTCTCATCTAA-AT-GCCAATGCCATATC
* * * * * *
57973865 CCAAACATGGTCTTACATTAGCCCTCATATCGTGGCTGATGCCATGTCCCAGACGTGGTCTTGCA
1 CCAAACATGGTCTTACACTAGCCCACATATCATGGCCGATGCCATGTCCCAGACATGGTCTTACA
57973930 CTGGC
66 CTGGC
57973935 ACACATATCA
Statistics
Matches: 134, Mismatches: 27, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
94 1 0.01
95 5 0.04
96 128 0.96
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (96 bp):
CCAAACATGGTCTTACACTAGCCCACATATCATGGCCGATGCCATGTCCCAGACATGGTCTTACA
CTGGCTCTCATCTAAATGCCAATGCCATATC
Found at i:57975900 original size:28 final size:28
Alignment explanation
Indices: 57975860--57975913 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
57975850 TGTTTGGCCG
*
57975860 AATACAAGATAGCAAGTGCCGAACTCCA
1 AATACAAGATAGCAAGTGCCAAACTCCA
57975888 AATACAAGATAGCAAGTGCCAAACTC
1 AATACAAGATAGCAAGTGCCAAACTC
57975914 TCTTTTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.44, C:0.24, G:0.17, T:0.15
Consensus pattern (28 bp):
AATACAAGATAGCAAGTGCCAAACTCCA
Found at i:57977588 original size:33 final size:33
Alignment explanation
Indices: 57977525--57977589 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
57977515 TTAGGCCTAC
* * *
57977525 ACTGTTTCTGTATAGGGCTAAGGCCTAGACTGA
1 ACTGTTACTGAATAGGGCTAAGGCCCAGACTGA
**
57977558 ACTGTTACTGAATAGGGCTTTGGCCCAGACTG
1 ACTGTTACTGAATAGGGCTAAGGCCCAGACTG
57977590 TTACTGCATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (33 bp):
ACTGTTACTGAATAGGGCTAAGGCCCAGACTGA
Found at i:57992113 original size:38 final size:39
Alignment explanation
Indices: 57992045--57992156 Score: 172
Period size: 38 Copynumber: 2.9 Consensus size: 39
57992035 GTGCGAATTG
57992045 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
57992084 TGATATCCGGGCTAAG-CCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
57992122 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
57992157 GGTTACCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
38 35 0.52
39 16 0.24
40 16 0.24
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:57992172 original size:40 final size:39
Alignment explanation
Indices: 57992034--57992186 Score: 182
Period size: 40 Copynumber: 3.9 Consensus size: 39
57992024 TGTGAATGAA
* *
57992034 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
57992073 TGTGCGAGCTATGATATCCGGGCTAAG-CCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
57992111 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
57992151 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
57992187 TGTTTGAACG
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
38 35 0.36
39 24 0.24
40 39 0.40
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:57997678 original size:40 final size:39
Alignment explanation
Indices: 57997513--57997696 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
57997503 AAATTGAATG
* * *
57997513 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
57997553 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
57997593 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
57997633 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
57997672 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
57997697 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:57997721 original size:80 final size:81
Alignment explanation
Indices: 57997553--57997741 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
57997543 GCTGGAAATT
* * * *
57997553 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
57997618 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
57997634 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
57997697 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
57997713 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
57997742 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:58003337 original size:40 final size:39
Alignment explanation
Indices: 58003198--58003351 Score: 191
Period size: 39 Copynumber: 3.9 Consensus size: 39
58003188 TGTTAATGAA
* *
58003198 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
58003237 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
58003276 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
58003316 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
58003352 TGTTTGAACG
Statistics
Matches: 100, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 60 0.60
40 40 0.40
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:58003337 original size:79 final size:79
Alignment explanation
Indices: 58003198--58003351 Score: 211
Period size: 79 Copynumber: 1.9 Consensus size: 79
58003188 TGTTAATGAA
** *
58003198 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAA
58003263 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * * *
58003276 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTA
*
58003341 TGTCCCGAAGG
65 AGTCCCGAAGG
58003352 TGTTTGAACG
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
78 25 0.38
79 32 0.49
80 8 0.12
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:58005311 original size:16 final size:17
Alignment explanation
Indices: 58005292--58005332 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
58005282 ACTAAAAGGT
58005292 TAAACATG-TAAAATAA
1 TAAACATGTTAAAATAA
*
58005308 TAAACATGTTAATATAA
1 TAAACATGTTAAAATAA
58005325 TGAAACAT
1 T-AAACAT
58005333 ATAATAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 8 0.36
18 6 0.27
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.29
Consensus pattern (17 bp):
TAAACATGTTAAAATAA
Found at i:58007691 original size:13 final size:13
Alignment explanation
Indices: 58007673--58007697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58007663 GAATGACCAA
58007673 ATGTTTGGCTATG
1 ATGTTTGGCTATG
58007686 ATGTTTGGCTAT
1 ATGTTTGGCTAT
58007698 CTATGTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.28, T:0.48
Consensus pattern (13 bp):
ATGTTTGGCTATG
Found at i:58015219 original size:25 final size:25
Alignment explanation
Indices: 58015180--58015228 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
58015170 TACAATCTAA
*
58015180 CTATAGTAGTCTCAACATATACTAC
1 CTATAGCAGTCTCAACATATACTAC
* *
58015205 CTATAGCAGTTTCAAGATATACTA
1 CTATAGCAGTCTCAACATATACTA
58015229 TCAAAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (25 bp):
CTATAGCAGTCTCAACATATACTAC
Found at i:58017687 original size:49 final size:49
Alignment explanation
Indices: 58017627--58017832 Score: 313
Period size: 49 Copynumber: 4.4 Consensus size: 49
58017617 TACATATGTG
* * * *
58017627 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
58017676 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
58017719 --TG-TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
58017765 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
58017814 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
58017833 TAATGTAAAA
Statistics
Matches: 144, Mismatches: 4, Indels: 18
0.87 0.02 0.11
Matches are distributed among these distances:
40 33 0.23
41 2 0.01
42 1 0.01
43 2 0.01
44 2 0.01
45 2 0.01
46 2 0.01
47 1 0.01
48 2 0.01
49 97 0.67
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:58017725 original size:40 final size:40
Alignment explanation
Indices: 58017681--58017811 Score: 181
Period size: 40 Copynumber: 3.0 Consensus size: 40
58017671 GTATATGTGA
58017681 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
58017721 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA--TG
58017769 ATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 -TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
58017810 TA
1 TA
58017812 TATGTGATAA
Statistics
Matches: 82, Mismatches: 0, Indels: 18
0.82 0.00 0.18
Matches are distributed among these distances:
40 35 0.43
41 2 0.02
42 1 0.01
43 2 0.02
44 2 0.02
45 2 0.02
46 2 0.02
47 1 0.01
48 2 0.02
49 33 0.40
ACGTcount: A:0.28, C:0.09, G:0.34, T:0.29
Consensus pattern (40 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
Found at i:58017747 original size:89 final size:89
Alignment explanation
Indices: 58017632--58017811 Score: 324
Period size: 89 Copynumber: 2.0 Consensus size: 89
58017622 ATGTGTGTGA
58017632 TAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
58017697 ATGTGGTGAATGTGAAAGTGTATG
66 ATGTGGTGAATGTGAAAGTGTATG
* * * *
58017721 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
58017786 ATGTGGTGAATGTGAAAGTGTATG
66 ATGTGGTGAATGTGAAAGTGTATG
58017810 TA
1 TA
58017812 TATGTGATAA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.28
Consensus pattern (89 bp):
TAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
ATGTGGTGAATGTGAAAGTGTATG
Found at i:58017984 original size:37 final size:37
Alignment explanation
Indices: 58017934--58018018 Score: 134
Period size: 37 Copynumber: 2.3 Consensus size: 37
58017924 GGAATATGTT
* *
58017934 CCGGGTGAGACCCGATGACTACGTGTGGAGATTACGA
1 CCGGGTAAGACCCGATGACTACGTGTAGAGATTACGA
* *
58017971 CCGGGTAAGACCCGATGACTACGTGTAGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTAGAGATTACGA
58018008 CCGGGTAAGAC
1 CCGGGTAAGAC
58018019 TTCTTTTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.26, C:0.21, G:0.33, T:0.20
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTAGAGATTACGA
Found at i:58029708 original size:53 final size:54
Alignment explanation
Indices: 58029623--58030050 Score: 501
Period size: 53 Copynumber: 7.9 Consensus size: 54
58029613 ACCTTTTCTT
* * * *
58029623 TTAT-GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCC
1 TTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCC
* *
58029676 TTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCC
1 TTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC
* * * *
58029729 TTATAGTAACTCATCAATGCCATGTCTTCACATGGTCTTACATGGTATCCTTGCT
1 TTATAG-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCC
* *
58029784 TTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCC
1 TTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC
* * *
58029837 TTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTC
1 TTATAG-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCC
* * *
58029892 TTAT-GGACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCC
1 TTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC
* * * * *
58029945 TTATAGTAACTCATCAATGCCATGTCTTCACATGGTCTTACATGATTTCCTTGCC
1 TTATAG-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCC
* * * **
58030000 TTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATAATATCCTT
1 TTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
58030051 ATCTTACCAA
Statistics
Matches: 320, Mismatches: 43, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
52 6 0.02
53 134 0.42
54 44 0.14
55 130 0.41
56 6 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
TTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCC
Found at i:58029763 original size:55 final size:53
Alignment explanation
Indices: 58029638--58030041 Score: 490
Period size: 55 Copynumber: 7.5 Consensus size: 53
58029628 AACTTACCAT
* * *
58029638 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
58029691 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
58029746 TGCCATGTCTTCACATGGTCTTACATGGTATCCTTGCTTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
58029799 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
58029854 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCTTAT-GGACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
58029907 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * * *
58029962 TGCCATGTCTTCACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
58030016 TGCCATGCCTTGGCATGGTCTTACAT
1 TGCCATGCCTTGACATGGTCTTACAT
58030042 AATATCCTTA
Statistics
Matches: 300, Mismatches: 39, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
52 6 0.02
53 121 0.40
54 37 0.12
55 130 0.43
56 6 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:58029827 original size:108 final size:108
Alignment explanation
Indices: 58029638--58030041 Score: 709
Period size: 108 Copynumber: 3.7 Consensus size: 108
58029628 AACTTACCAT
* *
58029638 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
1 TGCCATGTCTTCACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
58029703 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
*
58029746 TGCCATGTCTTCACATGGTCTTACATGGTATCCTTGCTTTATGAACTCACCAATGCCATGCCTTG
1 TGCCATGTCTTCACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
58029811 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
* * *
58029854 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCTTATGGACTCACCAATGCCATGCCTTG
1 TGCCATGTCTTCACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
58029919 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
* * * *
58029962 TGCCATGTCTTCACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
1 TGCCATGTCTTCACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTT
58030027 GGCATGGTCTTACAT
65 GGCATGGTCTTACAT
58030042 AATATCCTTA
Statistics
Matches: 281, Mismatches: 14, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
108 247 0.88
109 34 0.12
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (108 bp):
TGCCATGTCTTCACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
Found at i:58033665 original size:90 final size:90
Alignment explanation
Indices: 58033512--58033690 Score: 331
Period size: 90 Copynumber: 2.0 Consensus size: 90
58033502 AAGTAAGCTT
*
58033512 TAAGCCATATACAAATAAAGTCATCACATGAACATTTACATATCAATCCAAGTATGCTTAACAAT
1 TAAGCCATATACAAATAAAGTCATCACATGAACATTTACATATCAATCCAAGTATGCTTAACAAG
*
58033577 GTTAATCTCATTCAAATTCACAAAG
66 GCTAATCTCATTCAAATTCACAAAG
*
58033602 TAAGCCATATACAAATAAAGTCATCACATGAACATTTACATATCATTCCAAGTATGCTTAACAAG
1 TAAGCCATATACAAATAAAGTCATCACATGAACATTTACATATCAATCCAAGTATGCTTAACAAG
58033667 GCTAATCTCATTCAAATTCACAAA
66 GCTAATCTCATTCAAATTCACAAA
58033691 TCTTTCTCAT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 86 1.00
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (90 bp):
TAAGCCATATACAAATAAAGTCATCACATGAACATTTACATATCAATCCAAGTATGCTTAACAAG
GCTAATCTCATTCAAATTCACAAAG
Found at i:58033988 original size:43 final size:43
Alignment explanation
Indices: 58033932--58034042 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 43
58033922 ATGCCACTAT
* * * *
58033932 CCCAAACAGGGTCTTACATGAAATC-GATTAACAATGCCAATGC
1 CCCAGACATGGTCTTACATGAAATCTCAAT-ACAATGCCAATGC
** *
58033975 CCCAGACATGGTCTTACACAAAATCTCAATACAATGCCAATGT
1 CCCAGACATGGTCTTACATGAAATCTCAATACAATGCCAATGC
* * *
58034018 CCCAGGCATGGTATTACATGTAATC
1 CCCAGACATGGTCTTACATGAAATC
58034043 ACATCTCGAT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 53 0.96
44 2 0.04
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.23
Consensus pattern (43 bp):
CCCAGACATGGTCTTACATGAAATCTCAATACAATGCCAATGC
Found at i:58034468 original size:43 final size:43
Alignment explanation
Indices: 58034388--58034491 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
58034378 ATGCTACTAT
* * * * *
58034388 CCCAAACATGGTCTTACACTAAATCGATTAACGATGCCAATGC
1 CCCAGACATGGTCTTACACAAAATCCAATAACAATGCCAATGC
*
58034431 CCCAGACATGGTCTTACACAAAATCTCAAT-ACAATGCCAATGT
1 CCCAGACATGGTCTTACACAAAATC-CAATAACAATGCCAATGC
* *
58034474 CCCAGGCATGGTATTACA
1 CCCAGACATGGTCTTACA
58034492 TGTAATCACA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 50 0.96
44 2 0.04
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (43 bp):
CCCAGACATGGTCTTACACAAAATCCAATAACAATGCCAATGC
Found at i:58034560 original size:456 final size:456
Alignment explanation
Indices: 58033707--58034616 Score: 1669
Period size: 456 Copynumber: 2.0 Consensus size: 456
58033697 TCATTGAACA
*
58033707 TATATTCAATGTCTTAATCAATTTCATCAAATATTTTCCCTTTTCAATACTCGAATAAATCTTGT
1 TATATTCAATGTCTTAATCAAGTTCATCAAATATTTTCCCTTTTCAATACTCGAATAAATCTTGT
*
58033772 ACGTACCTAAGTCACTTAGTTCATTCACATATTCTTTCTCAACTTAACATTTCTCGTTGAACCGT
66 ACGTACCTAAGTCACTTAGTTCATTCACATATTCTTTCTCAACTTAACATTTCCCGTTGAACCGT
* * * *
58033837 TCGGAATCATTAAGGATACTCGAAAATCACATAAGCTCGTACAATGACATATCCTAGATATGGTC
131 TCGGAATCATTAAGGATACTCAAAAATCACATAAGCTCATACAATGACATATCCCAAATATGGTC
58033902 TTACATGTTATCACATATCGATGCCACTATCCCAAACAGGGTCTTACATGAAATCGATTAACAAT
196 TTACATGTTATCACATATCGATGCCACTATCCCAAACAGGGTCTTACATGAAATCGATTAACAAT
58033967 GCCAATGCCCCAGACATGGTCTTACACAAAATCTCAATACAATGCCAATGTCCCAGGCATGGTAT
261 GCCAATGCCCCAGACATGGTCTTACACAAAATCTCAATACAATGCCAATGTCCCAGGCATGGTAT
58034032 TACATGTAATCACATCTCGATAACCTAATGTCATGACATTCATATCCTATACTATTCCTATGGTT
326 TACATGTAATCACATCTCGATAACCTAATGTCATGACATTCATATCCTATACTATTCCTATGGTT
58034097 CGTACAGGGACTTTCAGATGTTGTAGATTCGTCGATTCATACTCATAATTGCTCGTTCGACATTC
391 CGTACAGGGACTTTCAGATGTTGTAGATTCGTCGATTCATACTCATAATTGCTCGTTCGACATTC
58034162 G
456 G
58034163 TATATTCAATGTCTTAATCAAGTTCATCAAATATTTTCCCTTTTCAATACTCGAATAAATCTTGT
1 TATATTCAATGTCTTAATCAAGTTCATCAAATATTTTCCCTTTTCAATACTCGAATAAATCTTGT
* *
58034228 ACGTACCTAAGTCACTTAGTTCATTCACATATTCTTTCTCGACTTAACATTTCCCGTTGAATCGT
66 ACGTACCTAAGTCACTTAGTTCATTCACATATTCTTTCTCAACTTAACATTTCCCGTTGAACCGT
*
58034293 TCGGAATCATTAAGGATACTCAAAAATCACATAAGCTCATACAATGCCATATCCCAAATATGGTC
131 TCGGAATCATTAAGGATACTCAAAAATCACATAAGCTCATACAATGACATATCCCAAATATGGTC
* * *
58034358 TTACATGTTATCACATATCGATGCTACTATCCCAAACATGGTCTTACACT-AAATCGATTAACGA
196 TTACATGTTATCACATATCGATGCCACTATCCCAAACAGGGTCTTACA-TGAAATCGATTAACAA
58034422 TGCCAATGCCCCAGACATGGTCTTACACAAAATCTCAATACAATGCCAATGTCCCAGGCATGGTA
260 TGCCAATGCCCCAGACATGGTCTTACACAAAATCTCAATACAATGCCAATGTCCCAGGCATGGTA
*
58034487 TTACATGTAATCACATCTCGATAACCTAATGTCATGACATTCGTATCCTATACTATTCCTATGGT
325 TTACATGTAATCACATCTCGATAACCTAATGTCATGACATTCATATCCTATACTATTCCTATGGT
* *
58034552 TCGTACAGGGACTTTCGGATGTTGTAGCTTCGTCGATTCATACTCATAATTGCTCGTTCGACATT
390 TCGTACAGGGACTTTCAGATGTTGTAGATTCGTCGATTCATACTCATAATTGCTCGTTCGACATT
58034617 TTTAGAAATT
Statistics
Matches: 438, Mismatches: 15, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
456 437 1.00
457 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (456 bp):
TATATTCAATGTCTTAATCAAGTTCATCAAATATTTTCCCTTTTCAATACTCGAATAAATCTTGT
ACGTACCTAAGTCACTTAGTTCATTCACATATTCTTTCTCAACTTAACATTTCCCGTTGAACCGT
TCGGAATCATTAAGGATACTCAAAAATCACATAAGCTCATACAATGACATATCCCAAATATGGTC
TTACATGTTATCACATATCGATGCCACTATCCCAAACAGGGTCTTACATGAAATCGATTAACAAT
GCCAATGCCCCAGACATGGTCTTACACAAAATCTCAATACAATGCCAATGTCCCAGGCATGGTAT
TACATGTAATCACATCTCGATAACCTAATGTCATGACATTCATATCCTATACTATTCCTATGGTT
CGTACAGGGACTTTCAGATGTTGTAGATTCGTCGATTCATACTCATAATTGCTCGTTCGACATTC
G
Found at i:58047777 original size:34 final size:34
Alignment explanation
Indices: 58047701--58047777 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 34
58047691 AGTGACAATC
*
58047701 CAGTATCAGTGTGAGCCTTAGCCCATTACAATAC
1 CAGTATCAGTGTGAGCCTTAGCCCATTACAATAA
* * *
58047735 CAGCATCAGTGTGGGCCTTAGCCCATTACAGTAA
1 CAGTATCAGTGTGAGCCTTAGCCCATTACAATAA
58047769 CAGTATCAG
1 CAGTATCAG
58047778 AAATGCATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (34 bp):
CAGTATCAGTGTGAGCCTTAGCCCATTACAATAA
Found at i:58050535 original size:22 final size:22
Alignment explanation
Indices: 58050499--58050555 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
58050489 TGCAGGCCTC
*
58050499 ACACGTCCGTGTGGTCCAAGAG
1 ACACGCCCGTGTGGTCCAAGAG
* * *
58050521 ACATGCCGGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGTCCAAGAG
58050543 ACACGCCCGTGTG
1 ACACGCCCGTGTG
58050556 ACCCTGGGAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.28, G:0.35, T:0.18
Consensus pattern (22 bp):
ACACGCCCGTGTGGTCCAAGAG
Found at i:58053186 original size:44 final size:44
Alignment explanation
Indices: 58053132--58053215 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
58053122 TTAATTATGG
*
58053132 GCACTTAGTGTGCGAAACCAAGATAGCTTCGGATATATATATTT
1 GCACTAAGTGTGCGAAACCAAGATAGCTTCGGATATATATATTT
* * * * *
58053176 GCACTAAGTGTGCGAGATCGAGATAGCTTTGGCTATATAT
1 GCACTAAGTGTGCGAAACCAAGATAGCTTCGGATATATAT
58053216 TTATATGCTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (44 bp):
GCACTAAGTGTGCGAAACCAAGATAGCTTCGGATATATATATTT
Found at i:58054843 original size:25 final size:25
Alignment explanation
Indices: 58054784--58054847 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
58054774 AACACAAGAT
58054784 TCTCTGGAAAGCCTTTGTGGCAATC
1 TCTCTGGAAAGCCTTTGTGGCAATC
* * *
58054809 TATCTTGAAAGCCTTTGTGGAGAATC
1 TCTCTGGAAAGCCTTTGTGG-CAATC
58054835 -CTCTGGAAAGCCT
1 TCTCTGGAAAGCCT
58054848 ATATGGCTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 29 0.88
26 4 0.12
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (25 bp):
TCTCTGGAAAGCCTTTGTGGCAATC
Found at i:58057936 original size:163 final size:164
Alignment explanation
Indices: 58057743--58058069 Score: 518
Period size: 163 Copynumber: 2.0 Consensus size: 164
58057733 TTTTTGAATA
*
58057743 TTTTCCCCTATTTACTTTCCGCTCAAAATTTTATTCCCCCAACCCTCAAAACTTTTTATTTCCCC
1 TTTTCCCCTATTTACTTTCCGCTCAAAATTTTATTCCCCCAACCCTCAAAACTTATTATTTCCCC
58057808 CCTAAACTTTTACTTTTCACCCTTTACCCCAAATAAAAAATCATCCAAAAAAATCCCTAAACATA
66 CCTAAACTTTTACTTTTCACCCTTTACCCCAAATAAAAAATCATCCAAAAAAATCCCTAAACATA
*
58057873 AACT-GTAATAAATTTATTTATATCTACTATTTAT
131 AA-TAGTAATAAATTTATTTAGATCTACTATTTAT
* * *
58057907 TTTTCCCC-ATTTACTTTCTC-C-CAAAAATTTTATTCTCCCAACCTTCAAAACTTATTATTTTC
1 TTTTCCCCTATTTACTTTC-CGCTC-AAAATTTTATTCCCCCAACCCTCAAAACTTATTATTTCC
* * *
58057969 CCCCTAAACTTTTACTTTTCACCCTTTACCCCAAATAAAAAGTCATCTAAAAAAATCCCTAAATA
64 CCCCTAAACTTTTACTTTTCACCCTTTACCCCAAATAAAAAATCATCCAAAAAAATCCCTAAACA
*
58058034 TAAATAGTAATAATTTTATTTAGATCTACTATTTAT
129 TAAATAGTAATAAATTTATTTAGATCTACTATTTAT
58058070 ATTATTAAAT
Statistics
Matches: 151, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
162 2 0.01
163 140 0.93
164 9 0.06
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.39
Consensus pattern (164 bp):
TTTTCCCCTATTTACTTTCCGCTCAAAATTTTATTCCCCCAACCCTCAAAACTTATTATTTCCCC
CCTAAACTTTTACTTTTCACCCTTTACCCCAAATAAAAAATCATCCAAAAAAATCCCTAAACATA
AATAGTAATAAATTTATTTAGATCTACTATTTAT
Found at i:58057979 original size:20 final size:20
Alignment explanation
Indices: 58057954--58057993 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
58057944 CCAACCTTCA
*
58057954 AAACTTATTA-TTTTCCCCCT
1 AAACTT-TTACTTTTCACCCT
58057974 AAACTTTTACTTTTCACCCT
1 AAACTTTTACTTTTCACCCT
58057994 TTACCCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (20 bp):
AAACTTTTACTTTTCACCCT
Found at i:58058422 original size:19 final size:19
Alignment explanation
Indices: 58058398--58058435 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
58058388 AAGTTAATAA
*
58058398 CAAATTTGATTACGGTGGG
1 CAAATTTAATTACGGTGGG
58058417 CAAATTTAATTACGGTGGG
1 CAAATTTAATTACGGTGGG
58058436 TGACATTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.32
Consensus pattern (19 bp):
CAAATTTAATTACGGTGGG
Found at i:58063759 original size:21 final size:20
Alignment explanation
Indices: 58063730--58063775 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
58063720 CGAAATGCAA
58063730 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
58063751 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
58063771 T-AACC
1 TCAACC
58063776 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:58066571 original size:34 final size:34
Alignment explanation
Indices: 58066505--58066571 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
58066495 TGTTACCGCC
* * *
58066505 ACTGAAATGGGCTAAGGCCCACATTGATACTGAT
1 ACTGAAATGGGCTAAGGCCCACACTAAAACTGAT
*
58066539 ACTGTAATGGGCTAAGGCCCTA-ACTAAAACTGA
1 ACTGAAATGGGCTAAGGCCC-ACACTAAAACTGA
58066572 ATCGTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (34 bp):
ACTGAAATGGGCTAAGGCCCACACTAAAACTGAT
Found at i:58067951 original size:39 final size:39
Alignment explanation
Indices: 58067907--58067987 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
58067897 AGTTTAACTT
58067907 ATGCCTTCATATGTTGCACGCAACAATCTCTCTCCACTA
1 ATGCCTTCATATGTTGCACGCAACAATCTCTCTCCACTA
58067946 ATGCCTTCATATGTTGCACGCAACAATCTCTCTCCACTA
1 ATGCCTTCATATGTTGCACGCAACAATCTCTCTCCACTA
58067985 ATG
1 ATG
58067988 TAGGTAGCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.31
Consensus pattern (39 bp):
ATGCCTTCATATGTTGCACGCAACAATCTCTCTCCACTA
Found at i:58071328 original size:29 final size:30
Alignment explanation
Indices: 58071269--58071329 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
58071259 GCCTTTTGAA
* * * *
58071269 AATATTTACAAAAATAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACAACAAAATTTT
58071299 AATATTTACAAAAAGAG-CAACAAAATTTT
1 AATATTTACAAAAAGAGACAACAAAATTTT
58071328 AA
1 AA
58071330 AAATAGTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACAAAATTTT
Found at i:58079236 original size:40 final size:40
Alignment explanation
Indices: 58079181--58079390 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
58079171 AACATTGGAA
58079181 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
58079221 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
58079261 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
58079301 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
58079340 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
58079381 CTATATCCGG
1 ATATATCCGG
58079391 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:58095038 original size:46 final size:46
Alignment explanation
Indices: 58094980--58095069 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
58094970 TACTCTGTAA
* * ** *
58094980 ATAATCTGTAACTAGGATCTGATACCCACTTCTTTCAGAGTATTAG
1 ATAATCTATAACTAGGACCCAATACCCACTTCTTACAGAGTATTAG
58095026 ATAATCTATAACTAGGACCCAATACCCACTTCTTACAGAGTATT
1 ATAATCTATAACTAGGACCCAATACCCACTTCTTACAGAGTATT
58095070 CCGCAGAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.32
Consensus pattern (46 bp):
ATAATCTATAACTAGGACCCAATACCCACTTCTTACAGAGTATTAG
Found at i:58098686 original size:13 final size:14
Alignment explanation
Indices: 58098665--58098697 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
58098655 TACAGATATC
58098665 AGAATCAGATAAAT
1 AGAATCAGATAAAT
*
58098679 AGAA-CAGATATAT
1 AGAATCAGATAAAT
58098692 AGAATC
1 AGAATC
58098698 CTACCCCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.55, C:0.09, G:0.15, T:0.21
Consensus pattern (14 bp):
AGAATCAGATAAAT
Found at i:58100748 original size:45 final size:45
Alignment explanation
Indices: 58100682--58100771 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
58100672 ATTTAATACA
58100682 TACATTCATCAAAACAACATTTAATACGAACTTTGGCAAAATTAC
1 TACATTCATCAAAACAACATTTAATACGAACTTTGGCAAAATTAC
*
58100727 TACATTCATCAAAACAGCATTTAATACGAACTTTGGCAAAATTAC
1 TACATTCATCAAAACAACATTTAATACGAACTTTGGCAAAATTAC
58100772 ATTTTTGCCC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (45 bp):
TACATTCATCAAAACAACATTTAATACGAACTTTGGCAAAATTAC
Found at i:58100800 original size:30 final size:30
Alignment explanation
Indices: 58100755--58100814 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
58100745 ATTTAATACG
*
58100755 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
58100785 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
58100815 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:58111815 original size:39 final size:39
Alignment explanation
Indices: 58111727--58111845 Score: 186
Period size: 39 Copynumber: 3.1 Consensus size: 39
58111717 TGTAAATATA
*
58111727 TATATTCGAGAATTATATCCGGACTTCAGGTCCG-AGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
58111765 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* * *
58111804 TATATGCGAGAATAATATCCGGACTTTAGGTCTGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
58111843 TAT
1 TAT
58111846 GTGCTGGACA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
38 32 0.43
39 42 0.57
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:58121090 original size:40 final size:40
Alignment explanation
Indices: 58121046--58121186 Score: 221
Period size: 40 Copynumber: 3.5 Consensus size: 40
58121036 TTTGCACAAT
58121046 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
58121086 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
* * **
58121126 TGCCTTCGGGTCTTAGCCCGGATATAATC-ATTAGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACGAA
*
58121166 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
58121187 GTATCATTCA
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 94 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
Found at i:58123189 original size:39 final size:39
Alignment explanation
Indices: 58123135--58123254 Score: 188
Period size: 39 Copynumber: 3.1 Consensus size: 39
58123125 TGTAAATATA
58123135 TATATGCGAGAATTATATCCGGATTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGATTTCAGGTCCGCAGGC
* * *
58123174 TATATGCGAGAATTATATCCAGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGATTTCAGGTCCGCAGGC
*
58123213 TATATGCGAGAATAATATCCGGACTTT-AGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGA-TTTCAGGTCCGCAGGC
58123252 TAT
1 TAT
58123255 GTGCTGGACA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 71 0.97
40 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGATTTCAGGTCCGCAGGC
Found at i:58126616 original size:26 final size:26
Alignment explanation
Indices: 58126547--58126754 Score: 213
Period size: 26 Copynumber: 7.9 Consensus size: 26
58126537 AACCCCAAAA
* * *
58126547 TAGGTAAAATGACTGTAATGCTCTTG
1 TAGGTAAAATGACCGTAATGCCCCTG
58126573 TAGGGTAAAATGACCGTAATGCCCCTG
1 TA-GGTAAAATGACCGTAATGCCCCTG
*
58126600 TAGGTAAAATGATCGTAATGCCCCTG
1 TAGGTAAAATGACCGTAATGCCCCTG
* *
58126626 TAGTTAAAATGATCGTAATG-CCCTG
1 TAGGTAAAATGACCGTAATGCCCCTG
* *
58126651 TAGGGT-AAATGACCGTAATGCCCTTA
1 TA-GGTAAAATGACCGTAATGCCCCTG
** *
58126677 TAGGTAAAATGTTCGTAATGCCCCTA
1 TAGGTAAAATGACCGTAATGCCCCTG
* * *
58126703 TAGGGTATAATGACCATAATGCCCCTA
1 TA-GGTAAAATGACCGTAATGCCCCTG
** *
58126730 TAAGGCGAAATGACCGTTATGCCCC
1 T-AGGTAAAATGACCGTAATGCCCC
58126755 AAAGGGCAAA
Statistics
Matches: 155, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
25 23 0.15
26 70 0.45
27 61 0.39
28 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (26 bp):
TAGGTAAAATGACCGTAATGCCCCTG
Found at i:58126671 original size:51 final size:52
Alignment explanation
Indices: 58126553--58126728 Score: 212
Period size: 51 Copynumber: 3.4 Consensus size: 52
58126543 AAAATAGGTA
* * * *
58126553 AAATGACTGTAATGCTCTTGTAGGGTAAAATGACCGTAATGCCCCTGTA-GGT
1 AAATGACCGTAATGCCCCTGTA-GGTAAAATGATCGTAATGCCCCTGTAGGGT
* *
58126605 AAAATGATCGTAATGCCCCTGTAGTTAAAATGATCGTAATG-CCCTGTAGGGT
1 -AAATGACCGTAATGCCCCTGTAGGTAAAATGATCGTAATGCCCCTGTAGGGT
* * * *
58126657 AAATGACCGTAATGCCCTTATAGGTAAAATGTTCGTAATGCCCCTATAGGGT
1 AAATGACCGTAATGCCCCTGTAGGTAAAATGATCGTAATGCCCCTGTAGGGT
*
58126709 ATAATGACCATAATGCCCCT
1 A-AATGACCGTAATGCCCCT
58126729 ATAAGGCGAA
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
51 42 0.40
52 30 0.28
53 34 0.32
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (52 bp):
AAATGACCGTAATGCCCCTGTAGGTAAAATGATCGTAATGCCCCTGTAGGGT
Found at i:58126681 original size:77 final size:79
Alignment explanation
Indices: 58126551--58126701 Score: 236
Period size: 77 Copynumber: 1.9 Consensus size: 79
58126541 CCAAAATAGG
* *
58126551 TAAAATGACTGTAATGCTCTTGTAGGGTAAAATGACCGTAATGCCCCTGTAGGTAAAATGATCGT
1 TAAAATGACTGTAATGCTCCTGTAGGGTAAAATGACCGTAATGCCCCTATAGGTAAAATGATCGT
58126616 AATGCCCCTGTAGT
66 AATGCCCCTGTAGT
* *
58126630 TAAAATGA-TCGTAATGC-CCTGTAGGGT-AAATGACCGTAATGCCCTTATAGGTAAAATGTTCG
1 TAAAATGACT-GTAATGCTCCTGTAGGGTAAAATGACCGTAATGCCCCTATAGGTAAAATGATCG
58126692 TAATGCCCCT
65 TAATGCCCCT
58126702 ATAGGGTATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
77 42 0.63
78 10 0.15
79 15 0.22
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (79 bp):
TAAAATGACTGTAATGCTCCTGTAGGGTAAAATGACCGTAATGCCCCTATAGGTAAAATGATCGT
AATGCCCCTGTAGT
Found at i:58126768 original size:53 final size:53
Alignment explanation
Indices: 58126579--58126769 Score: 147
Period size: 51 Copynumber: 3.7 Consensus size: 53
58126569 CTTGTAGGGT
** * * * * **
58126579 AAAATGACCGTAATGCCCCTGTA-GGTAAAATGATCGTAATGCCCCTGTAGTT
1 AAAATGACCGTAATGCCCCTAAAGGGCAAAATGACCATAATGCCCCTATAGGC
* ** * * * *
58126631 AAAATGATCGTAATG-CCCTGTAGGG-TAAATGACCGTAATGCCCTTATAGGT
1 AAAATGACCGTAATGCCCCTAAAGGGCAAAATGACCATAATGCCCCTATAGGC
** * * *
58126682 AAAATGTTCGTAATGCCCCTATAGGGTATAATGACCATAATGCCCCTATAAGGC
1 AAAATGACCGTAATGCCCCTAAAGGGCAAAATGACCATAATGCCCCTAT-AGGC
* *
58126736 GAAATGACCGTTATGCCCC-AAAGGGCAAAATGAC
1 AAAATGACCGTAATGCCCCTAAAGGGCAAAATGAC
58126770 TAAAATGTCC
Statistics
Matches: 115, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
51 42 0.37
52 25 0.22
53 30 0.26
54 18 0.16
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (53 bp):
AAAATGACCGTAATGCCCCTAAAGGGCAAAATGACCATAATGCCCCTATAGGC
Found at i:58129090 original size:46 final size:45
Alignment explanation
Indices: 58129040--58129215 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
58129030 TATTTGGGCA
58129040 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAGTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAG-G
* * * * *
58129086 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGAGATGTA-ACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGAGG
* * *
58129131 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACG-AGG
* *
58129179 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58129216 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
45 2 0.02
46 72 0.66
47 32 0.29
48 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAGG
Found at i:58129195 original size:93 final size:93
Alignment explanation
Indices: 58129036--58129207 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
58129026 GGGATATTTG
** *
58129036 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAGTGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
*
58129101 TTGAGTTCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
58129129 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
58129194 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
58129208 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:58131356 original size:29 final size:29
Alignment explanation
Indices: 58131323--58131454 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
58131313 GTGACGAGAT
*
58131323 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
58131352 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
58131381 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
58131410 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
58131439 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58131455 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:58139237 original size:29 final size:29
Alignment explanation
Indices: 58139204--58139277 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
58139194 GTGACGAGAT
58139204 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
58139233 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
58139262 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58139278 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:58139293 original size:29 final size:29
Alignment explanation
Indices: 58139261--58139336 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
58139251 CTGGAAATAT
* *
58139261 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
58139290 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
58139319 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
58139337 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:58139304 original size:58 final size:58
Alignment explanation
Indices: 58139204--58139336 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
58139194 GTGACGAGAT
* * * * * *
58139204 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
58139262 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
58139320 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
58139337 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:58143302 original size:40 final size:39
Alignment explanation
Indices: 58143257--58143464 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
58143247 CGGAATACAA
*
58143257 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
58143297 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
58143337 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
58143377 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
58143417 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
58143457 CCGGATAT
1 CCGGATAT
58143465 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:58143397 original size:80 final size:80
Alignment explanation
Indices: 58143257--58143463 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
58143247 CGGAATACAA
* * *
58143257 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
58143321 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
58143337 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
58143401 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
58143417 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
58143464 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:58151332 original size:40 final size:39
Alignment explanation
Indices: 58151287--58151494 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
58151277 CGGAATACAA
*
58151287 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
58151327 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
58151367 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
58151407 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
58151447 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
58151487 CCGGATAT
1 CCGGATAT
58151495 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:58151427 original size:80 final size:80
Alignment explanation
Indices: 58151287--58151493 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
58151277 CGGAATACAA
* * *
58151287 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
58151351 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
58151367 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
58151431 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
58151447 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
58151494 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:58154418 original size:15 final size:15
Alignment explanation
Indices: 58154379--58154451 Score: 85
Period size: 15 Copynumber: 4.9 Consensus size: 15
58154369 GTATCTTGGG
*
58154379 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
58154394 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
58154409 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
58154424 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
58154439 TTTCTTTATTCTG
1 TTTCTTTATTCTG
58154452 TTTTCTTGTT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
14 2 0.04
15 43 0.91
16 2 0.04
ACGTcount: A:0.11, C:0.19, G:0.14, T:0.56
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:58154448 original size:30 final size:31
Alignment explanation
Indices: 58154370--58154449 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
58154360 CATAGTATCG
* *
58154370 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCCTGGATCTCTC
* *
58154400 TAT-TCTGGATTTCTTTATTCC-GGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCTGGATCTCTC
58154430 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
58154450 TGTTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.02
30 38 0.88
31 4 0.09
ACGTcount: A:0.11, C:0.19, G:0.15, T:0.55
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCTGGATCTCTC
Found at i:58156896 original size:46 final size:46
Alignment explanation
Indices: 58156843--58157015 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
58156833 TATTTGGGCA
58156843 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
58156889 TCCGAACTCGTTGAGTTGAGTCC-AGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * *
58156935 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGAT--GAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
58156979 CCCGAGCTCGTTGAGTTGAGTCCGAGTCCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58157016 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 4 0.04
44 36 0.35
45 8 0.08
46 46 0.44
47 5 0.05
48 2 0.02
50 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:58161896 original size:40 final size:40
Alignment explanation
Indices: 58161851--58162018 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
58161841 CGGAATACAA
58161851 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
58161891 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
58161931 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
58161971 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
58162011 CCGGATAT
1 CCGGATAT
58162019 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:58163848 original size:10 final size:10
Alignment explanation
Indices: 58163833--58163869 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
58163823 ACTACCATTA
58163833 AACCACTATC
1 AACCACTATC
*
58163843 AACCACCATC
1 AACCACTATC
58163853 AAACCACTATC
1 -AACCACTATC
58163864 AACCAC
1 AACCAC
58163870 CATCGACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (10 bp):
AACCACTATC
Done.